STAR version= STAR_2.5.1b STAR compilation time,server,dir=Wed May 8 16:13:25 PDT 2019 :/mnt/home/jenkins/workspace/module-STAR-5dda596---latest/sake/modules/STAR/5dda596/source ##### DEFAULT parameters: versionSTAR 20201 versionGenome 20101 20200 parametersFiles - sysShell - runMode alignReads runThreadN 1 runDirPerm User_RWX runRNGseed 777 genomeDir ./GenomeDir/ genomeLoad NoSharedMemory genomeFastaFiles - genomeSAindexNbases 14 genomeChrBinNbits 18 genomeSAsparseD 1 genomeSuffixLengthMax 18446744073709551615 readFilesIn Read1 Read2 readFilesCommand - readMatesLengthsIn NotEqual readMapNumber 18446744073709551615 readNameSeparator / inputBAMfile - bamRemoveDuplicatesType - bamRemoveDuplicatesMate2basesN 0 limitGenomeGenerateRAM 31000000000 limitIObufferSize 150000000 limitOutSAMoneReadBytes 100000 limitOutSJcollapsed 1000000 limitOutSJoneRead 1000 limitBAMsortRAM 0 limitSjdbInsertNsj 1000000 outFileNamePrefix ./ outTmpDir - outStd Log outReadsUnmapped None outQSconversionAdd 0 outMultimapperOrder Old_2.4 outSAMtype SAM outSAMmode Full outSAMstrandField None outSAMattributes Standard outSAMunmapped None outSAMorder Paired outSAMprimaryFlag OneBestScore outSAMreadID Standard outSAMmapqUnique 255 outSAMflagOR 0 outSAMflagAND 65535 outSAMattrRGline - outSAMheaderHD - outSAMheaderPG - outSAMheaderCommentFile - outBAMcompression 1 outBAMsortingThreadN 0 outSAMfilter None outSAMmultNmax 18446744073709551615 outSAMattrIHstart 1 outSJfilterReads All outSJfilterCountUniqueMin 3 1 1 1 outSJfilterCountTotalMin 3 1 1 1 outSJfilterOverhangMin 30 12 12 12 outSJfilterDistToOtherSJmin 10 0 5 10 outSJfilterIntronMaxVsReadN 50000 100000 200000 outWigType None outWigStrand Stranded outWigReferencesPrefix - outWigNorm RPM outFilterType Normal outFilterMultimapNmax 10 outFilterMultimapScoreRange 1 outFilterScoreMin 0 outFilterScoreMinOverLread 0.66 outFilterMatchNmin 0 outFilterMatchNminOverLread 0.66 outFilterMismatchNmax 10 outFilterMismatchNoverLmax 0.3 outFilterMismatchNoverReadLmax 1 outFilterIntronMotifs None clip5pNbases 0 clip3pNbases 0 clip3pAfterAdapterNbases 0 clip3pAdapterSeq - clip3pAdapterMMp 0.1 winBinNbits 16 winAnchorDistNbins 9 winFlankNbins 4 winAnchorMultimapNmax 50 scoreGap 0 scoreGapNoncan -8 scoreGapGCAG -4 scoreGapATAC -8 scoreStitchSJshift 1 scoreGenomicLengthLog2scale -0.25 scoreDelBase -2 scoreDelOpen -2 scoreInsOpen -2 scoreInsBase -2 seedSearchLmax 0 seedSearchStartLmax 50 seedSearchStartLmaxOverLread 1 seedPerReadNmax 1000 seedPerWindowNmax 50 seedNoneLociPerWindow 10 seedMultimapNmax 10000 alignIntronMin 21 alignIntronMax 0 alignMatesGapMax 0 alignTranscriptsPerReadNmax 10000 alignSJoverhangMin 5 alignSJDBoverhangMin 3 alignSJstitchMismatchNmax 0 -1 0 0 alignSplicedMateMapLmin 0 alignSplicedMateMapLminOverLmate 0.66 alignWindowsPerReadNmax 10000 alignTranscriptsPerWindowNmax 100 alignEndsType Local alignSoftClipAtReferenceEnds Yes chimSegmentMin 0 chimScoreMin 0 chimScoreDropMax 20 chimScoreSeparation 10 chimScoreJunctionNonGTAG -1 chimJunctionOverhangMin 20 chimOutType SeparateSAMold chimFilter banGenomicN chimSegmentReadGapMax 0 sjdbFileChrStartEnd - sjdbGTFfile - sjdbGTFchrPrefix - sjdbGTFfeatureExon exon sjdbGTFtagExonParentTranscript transcript_id sjdbGTFtagExonParentGene gene_id sjdbOverhang 100 sjdbScore 2 sjdbInsertSave Basic quantMode - quantTranscriptomeBAMcompression 1 quantTranscriptomeBan IndelSoftclipSingleend twopass1readsN 18446744073709551615 twopassMode None ##### Command Line: STAR --runMode genomeGenerate --genomeDir /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star --runThreadN 1 --genomeFastaFiles /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa --sjdbGTFfile /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf --limitGenomeGenerateRAM 17179869184 --genomeSAsparseD 3 --genomeSAindexNbases 14 --genomeChrBinNbits 18 ##### Initial USER parameters from Command Line: ###### All USER parameters from Command Line: runMode genomeGenerate ~RE-DEFINED genomeDir /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star ~RE-DEFINED runThreadN 1 ~RE-DEFINED genomeFastaFiles /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa ~RE-DEFINED sjdbGTFfile /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf ~RE-DEFINED limitGenomeGenerateRAM 17179869184 ~RE-DEFINED genomeSAsparseD 3 ~RE-DEFINED genomeSAindexNbases 14 ~RE-DEFINED genomeChrBinNbits 18 ~RE-DEFINED ##### Finished reading parameters from all sources ##### Final user re-defined parameters-----------------: runMode genomeGenerate runThreadN 1 genomeDir /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star genomeFastaFiles /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa genomeSAindexNbases 14 genomeChrBinNbits 18 genomeSAsparseD 3 limitGenomeGenerateRAM 17179869184 sjdbGTFfile /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf ------------------------------- ##### Final effective command line: STAR --runMode genomeGenerate --runThreadN 1 --genomeDir /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star --genomeFastaFiles /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa --genomeSAindexNbases 14 --genomeChrBinNbits 18 --genomeSAsparseD 3 --limitGenomeGenerateRAM 17179869184 --sjdbGTFfile /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf ##### Final parameters after user input--------------------------------: versionSTAR 20201 versionGenome 20101 20200 parametersFiles - sysShell - runMode genomeGenerate runThreadN 1 runDirPerm User_RWX runRNGseed 777 genomeDir /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star genomeLoad NoSharedMemory genomeFastaFiles /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa genomeSAindexNbases 14 genomeChrBinNbits 18 genomeSAsparseD 3 genomeSuffixLengthMax 18446744073709551615 readFilesIn Read1 Read2 readFilesCommand - readMatesLengthsIn NotEqual readMapNumber 18446744073709551615 readNameSeparator / inputBAMfile - bamRemoveDuplicatesType - bamRemoveDuplicatesMate2basesN 0 limitGenomeGenerateRAM 17179869184 limitIObufferSize 150000000 limitOutSAMoneReadBytes 100000 limitOutSJcollapsed 1000000 limitOutSJoneRead 1000 limitBAMsortRAM 0 limitSjdbInsertNsj 1000000 outFileNamePrefix ./ outTmpDir - outStd Log outReadsUnmapped None outQSconversionAdd 0 outMultimapperOrder Old_2.4 outSAMtype SAM outSAMmode Full outSAMstrandField None outSAMattributes Standard outSAMunmapped None outSAMorder Paired outSAMprimaryFlag OneBestScore outSAMreadID Standard outSAMmapqUnique 255 outSAMflagOR 0 outSAMflagAND 65535 outSAMattrRGline - outSAMheaderHD - outSAMheaderPG - outSAMheaderCommentFile - outBAMcompression 1 outBAMsortingThreadN 0 outSAMfilter None outSAMmultNmax 18446744073709551615 outSAMattrIHstart 1 outSJfilterReads All outSJfilterCountUniqueMin 3 1 1 1 outSJfilterCountTotalMin 3 1 1 1 outSJfilterOverhangMin 30 12 12 12 outSJfilterDistToOtherSJmin 10 0 5 10 outSJfilterIntronMaxVsReadN 50000 100000 200000 outWigType None outWigStrand Stranded outWigReferencesPrefix - outWigNorm RPM outFilterType Normal outFilterMultimapNmax 10 outFilterMultimapScoreRange 1 outFilterScoreMin 0 outFilterScoreMinOverLread 0.66 outFilterMatchNmin 0 outFilterMatchNminOverLread 0.66 outFilterMismatchNmax 10 outFilterMismatchNoverLmax 0.3 outFilterMismatchNoverReadLmax 1 outFilterIntronMotifs None clip5pNbases 0 clip3pNbases 0 clip3pAfterAdapterNbases 0 clip3pAdapterSeq - clip3pAdapterMMp 0.1 winBinNbits 16 winAnchorDistNbins 9 winFlankNbins 4 winAnchorMultimapNmax 50 scoreGap 0 scoreGapNoncan -8 scoreGapGCAG -4 scoreGapATAC -8 scoreStitchSJshift 1 scoreGenomicLengthLog2scale -0.25 scoreDelBase -2 scoreDelOpen -2 scoreInsOpen -2 scoreInsBase -2 seedSearchLmax 0 seedSearchStartLmax 50 seedSearchStartLmaxOverLread 1 seedPerReadNmax 1000 seedPerWindowNmax 50 seedNoneLociPerWindow 10 seedMultimapNmax 10000 alignIntronMin 21 alignIntronMax 0 alignMatesGapMax 0 alignTranscriptsPerReadNmax 10000 alignSJoverhangMin 5 alignSJDBoverhangMin 3 alignSJstitchMismatchNmax 0 -1 0 0 alignSplicedMateMapLmin 0 alignSplicedMateMapLminOverLmate 0.66 alignWindowsPerReadNmax 10000 alignTranscriptsPerWindowNmax 100 alignEndsType Local alignSoftClipAtReferenceEnds Yes chimSegmentMin 0 chimScoreMin 0 chimScoreDropMax 20 chimScoreSeparation 10 chimScoreJunctionNonGTAG -1 chimJunctionOverhangMin 20 chimOutType SeparateSAMold chimFilter banGenomicN chimSegmentReadGapMax 0 sjdbFileChrStartEnd - sjdbGTFfile /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf sjdbGTFchrPrefix - sjdbGTFfeatureExon exon sjdbGTFtagExonParentTranscript transcript_id sjdbGTFtagExonParentGene gene_id sjdbOverhang 100 sjdbScore 2 sjdbInsertSave Basic quantMode - quantTranscriptomeBAMcompression 1 quantTranscriptomeBan IndelSoftclipSingleend twopass1readsN 18446744073709551615 twopassMode None ---------------------------------------- Finished loading and checking parameters Sep 06 15:10:09 ... Starting to generate Genome files /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 0 "chr10" chrStart: 0 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 1 "chr11" chrStart: 130023424 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 2 "chr12" chrStart: 251920384 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 3 "chr13" chrStart: 373293056 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 4 "chr14" chrStart: 493617152 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 5 "chr15" chrStart: 618921984 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 6 "chr16" chrStart: 722468864 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 7 "chr17" chrStart: 821035008 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 8 "chr18" chrStart: 916455424 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 9 "chr19" chrStart: 1007419392 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 10 "chr1" chrStart: 1069023232 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 11 "chr2" chrStart: 1266417664 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 12 "chr3" chrStart: 1448345600 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 13 "chr4" chrStart: 1607991296 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 14 "chr5" chrStart: 1763704832 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 15 "chr6" chrStart: 1916272640 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 16 "chr7" chrStart: 2065956864 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 17 "chr8" chrStart: 2218524672 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 18 "chr9" chrStart: 2350383104 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 19 "chrM" chrStart: 2474639360 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 20 "chrX" chrStart: 2474901504 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 21 "chrY" chrStart: 2641625088 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 22 "ERCC-00002" chrStart: 2657615872 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 23 "ERCC-00003" chrStart: 2657878016 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 24 "ERCC-00004" chrStart: 2658140160 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 25 "ERCC-00009" chrStart: 2658402304 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 26 "ERCC-00012" chrStart: 2658664448 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 27 "ERCC-00013" chrStart: 2658926592 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 28 "ERCC-00014" chrStart: 2659188736 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 29 "ERCC-00016" chrStart: 2659450880 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 30 "ERCC-00017" chrStart: 2659713024 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 31 "ERCC-00019" chrStart: 2659975168 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 32 "ERCC-00022" chrStart: 2660237312 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 33 "ERCC-00024" chrStart: 2660499456 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 34 "ERCC-00025" chrStart: 2660761600 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 35 "ERCC-00028" chrStart: 2661023744 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 36 "ERCC-00031" chrStart: 2661285888 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 37 "ERCC-00033" chrStart: 2661548032 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 38 "ERCC-00034" chrStart: 2661810176 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 39 "ERCC-00035" chrStart: 2662072320 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 40 "ERCC-00039" chrStart: 2662334464 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 41 "ERCC-00040" chrStart: 2662596608 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 42 "ERCC-00041" chrStart: 2662858752 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 43 "ERCC-00042" chrStart: 2663120896 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 44 "ERCC-00043" chrStart: 2663383040 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 45 "ERCC-00044" chrStart: 2663645184 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 46 "ERCC-00046" chrStart: 2663907328 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 47 "ERCC-00048" chrStart: 2664169472 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 48 "ERCC-00051" chrStart: 2664431616 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 49 "ERCC-00053" chrStart: 2664693760 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 50 "ERCC-00054" chrStart: 2664955904 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 51 "ERCC-00057" chrStart: 2665218048 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 52 "ERCC-00058" chrStart: 2665480192 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 53 "ERCC-00059" chrStart: 2665742336 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 54 "ERCC-00060" chrStart: 2666004480 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 55 "ERCC-00061" chrStart: 2666266624 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 56 "ERCC-00062" chrStart: 2666528768 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 57 "ERCC-00067" chrStart: 2666790912 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 58 "ERCC-00069" chrStart: 2667053056 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 59 "ERCC-00071" chrStart: 2667315200 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 60 "ERCC-00073" chrStart: 2667577344 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 61 "ERCC-00074" chrStart: 2667839488 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 62 "ERCC-00075" chrStart: 2668101632 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 63 "ERCC-00076" chrStart: 2668363776 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 64 "ERCC-00077" chrStart: 2668625920 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 65 "ERCC-00078" chrStart: 2668888064 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 66 "ERCC-00079" chrStart: 2669150208 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 67 "ERCC-00081" chrStart: 2669412352 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 68 "ERCC-00083" chrStart: 2669674496 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 69 "ERCC-00084" chrStart: 2669936640 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 70 "ERCC-00085" chrStart: 2670198784 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 71 "ERCC-00086" chrStart: 2670460928 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 72 "ERCC-00092" chrStart: 2670723072 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 73 "ERCC-00095" chrStart: 2670985216 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 74 "ERCC-00096" chrStart: 2671247360 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 75 "ERCC-00097" chrStart: 2671509504 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 76 "ERCC-00098" chrStart: 2671771648 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 77 "ERCC-00099" chrStart: 2672033792 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 78 "ERCC-00104" chrStart: 2672295936 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 79 "ERCC-00108" chrStart: 2672558080 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 80 "ERCC-00109" chrStart: 2672820224 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 81 "ERCC-00111" chrStart: 2673082368 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 82 "ERCC-00112" chrStart: 2673344512 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 83 "ERCC-00113" chrStart: 2673606656 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 84 "ERCC-00116" chrStart: 2673868800 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 85 "ERCC-00117" chrStart: 2674130944 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 86 "ERCC-00120" chrStart: 2674393088 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 87 "ERCC-00123" chrStart: 2674655232 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 88 "ERCC-00126" chrStart: 2674917376 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 89 "ERCC-00130" chrStart: 2675179520 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 90 "ERCC-00131" chrStart: 2675441664 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 91 "ERCC-00134" chrStart: 2675703808 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 92 "ERCC-00136" chrStart: 2675965952 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 93 "ERCC-00137" chrStart: 2676228096 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 94 "ERCC-00138" chrStart: 2676490240 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 95 "ERCC-00142" chrStart: 2676752384 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 96 "ERCC-00143" chrStart: 2677014528 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 97 "ERCC-00144" chrStart: 2677276672 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 98 "ERCC-00145" chrStart: 2677538816 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 99 "ERCC-00147" chrStart: 2677800960 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 100 "ERCC-00148" chrStart: 2678063104 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 101 "ERCC-00150" chrStart: 2678325248 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 102 "ERCC-00154" chrStart: 2678587392 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 103 "ERCC-00156" chrStart: 2678849536 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 104 "ERCC-00157" chrStart: 2679111680 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 105 "ERCC-00158" chrStart: 2679373824 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 106 "ERCC-00160" chrStart: 2679635968 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 107 "ERCC-00162" chrStart: 2679898112 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 108 "ERCC-00163" chrStart: 2680160256 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 109 "ERCC-00164" chrStart: 2680422400 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 110 "ERCC-00165" chrStart: 2680684544 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 111 "ERCC-00168" chrStart: 2680946688 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 112 "ERCC-00170" chrStart: 2681208832 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 113 "ERCC-00171" chrStart: 2681470976 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 114 "AAV8-mCherry" chrStart: 2681733120 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 115 "dSaCas9" chrStart: 2681995264 /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/fasta/genome.fa : chr # 116 "KRAB" chrStart: 2682257408 Number of SA indices: 1705741737 Sep 06 15:12:45 ... starting to sort Suffix Array. This may take a long time... Number of chunks: 2; chunks size limit: 7088886048 bytes Sep 06 15:13:02 ... sorting Suffix Array chunks and saving them to disk... Writing 7041521176 bytes into /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star/SA_0 ; empty space on disk = 25576981135360 bytes ... done Writing 6604412720 bytes into /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star/SA_1 ; empty space on disk = 25569699823616 bytes ... done Sep 06 16:19:52 ... loading chunks from disk, packing SA... Sep 06 16:20:44 ... Finished generating suffix array Sep 06 16:20:44 ... Generating Suffix Array index Sep 06 16:24:55 ... Completed Suffix Array index Sep 06 16:24:55 ..... Processing annotations GTF WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 31665 31967 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 31981 32008 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 31981 32008 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 32055 32282 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 32329 32638 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 32500 32638 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 32500 32638 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 32500 32638 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 32500 32638 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 33826 33927 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 33826 33927 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 33826 33927 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 33826 33927 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 33826 33927 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 39871 40015 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 39871 40015 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 39871 40015 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 39871 40015 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 39871 40015 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 46338 47020 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 46338 46695 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 46338 47020 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 46338 47020 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 46338 46695 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 46798 47020 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 46798 47020 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 53951 54081 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 53951 54081 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 53951 54081 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 53951 54081 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 53951 54081 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 55761 57601 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 55761 57601 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 55761 57601 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 55761 57601 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 55761 57601 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 66905 67092 0 + . gene_id "Nim1k"; transcript_id "NM_175538"; gene_name "Nim1k" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 94264 95207 0 + . gene_id "Nim1k"; transcript_id "NM_175538"; gene_name "Nim1k" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 108411 108679 0 + . gene_id "Nim1k"; transcript_id "NM_175538"; gene_name "Nim1k" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 109992 112693 0 + . gene_id "Nim1k"; transcript_id "NM_175538"; gene_name "Nim1k" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 114527 116398 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 114527 116398 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 117276 117439 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 117276 117439 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 117605 117730 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 117605 117730 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 118256 118362 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 118256 118362 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 119097 119267 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 119097 119267 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 120087 120252 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 120087 120252 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 121547 121711 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 121547 121711 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 122154 122279 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 122154 122279 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 122666 123123 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 122666 123123 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 127740 127798 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 132274 132436 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 132274 132436 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 141205 141469 0 - . gene_id "1700074H08Rik"; transcript_id "NR_045296"; gene_name "1700074H08Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 142028 142071 0 - . gene_id "1700074H08Rik"; transcript_id "NR_045296"; gene_name "1700074H08Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 142508 142745 0 - . gene_id "1700074H08Rik"; transcript_id "NR_045296"; gene_name "1700074H08Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 225537 225839 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 225853 225880 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 225853 225880 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 225927 226154 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 226201 226510 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 226372 226510 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 226372 226510 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 226372 226510 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 226372 226510 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 227698 227799 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 227698 227799 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 227698 227799 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 227698 227799 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 227698 227799 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 233743 233887 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 233743 233887 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 233743 233887 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 233743 233887 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 233743 233887 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 240210 240892 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 240210 240567 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 240210 240892 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 240210 240892 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 240210 240567 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 240670 240892 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 240670 240892 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 247824 247954 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 247824 247954 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 247824 247954 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 247824 247954 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 247824 247954 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 249634 251474 0 + . gene_id "Zfp131"; transcript_id "NM_001302547"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 249634 251474 0 + . gene_id "Zfp131"; transcript_id "NM_001302548"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 249634 251474 0 + . gene_id "Zfp131"; transcript_id "NM_001302549"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 249634 251474 0 + . gene_id "Zfp131"; transcript_id "NM_001302550"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 249634 251474 0 + . gene_id "Zfp131"; transcript_id "NM_028245"; gene_name "Zfp131" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 260754 260941 0 + . gene_id "Nim1k"; transcript_id "NM_175538"; gene_name "Nim1k" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 288098 289041 0 + . gene_id "Nim1k"; transcript_id "NM_175538"; gene_name "Nim1k" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 302321 302589 0 + . gene_id "Nim1k"; transcript_id "NM_175538"; gene_name "Nim1k" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 303902 306603 0 + . gene_id "Nim1k"; transcript_id "NM_175538"; gene_name "Nim1k" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 308437 310308 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 308437 310308 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 311186 311349 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 311186 311349 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 311515 311640 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 311515 311640 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 312166 312272 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 312166 312272 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 313007 313177 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 313007 313177 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 313997 314162 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 313997 314162 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 315457 315621 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 315457 315621 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 316064 316189 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 316064 316189 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 316576 317033 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 316576 317033 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 321650 321708 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 326184 326346 0 - . gene_id "Hmgcs1"; transcript_id "NM_001291439"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 326184 326346 0 - . gene_id "Hmgcs1"; transcript_id "NM_145942"; gene_name "Hmgcs1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 335115 335379 0 - . gene_id "1700074H08Rik"; transcript_id "NR_045296"; gene_name "1700074H08Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 335938 335981 0 - . gene_id "1700074H08Rik"; transcript_id "NR_045296"; gene_name "1700074H08Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 336418 336655 0 - . gene_id "1700074H08Rik"; transcript_id "NR_045296"; gene_name "1700074H08Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 362539 366032 0 - . gene_id "Ccl28"; transcript_id "NM_020279"; gene_name "Ccl28" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 371023 371149 0 - . gene_id "Ccl28"; transcript_id "NM_020279"; gene_name "Ccl28" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr13_random' not found in Genome fasta files for line: chr13_random mm9_refGene exon 393861 393978 0 - . gene_id "Ccl28"; transcript_id "NM_020279"; gene_name "Ccl28" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 48174 51780 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 48174 51780 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 48174 51780 0 - . gene_id "Disp1"; transcript_id "NM_001278220"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 48174 51780 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 58154 58251 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 58154 58251 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 58154 58251 0 - . gene_id "Disp1"; transcript_id "NM_001278220"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 58154 58251 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 60462 60559 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 60462 60559 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 60462 60559 0 - . gene_id "Disp1"; transcript_id "NM_001278220"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 60462 60559 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 60830 60957 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 60830 60957 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 60830 60957 0 - . gene_id "Disp1"; transcript_id "NM_001278220"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 60830 60957 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 61827 61950 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 61827 61950 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 61827 61950 0 - . gene_id "Disp1"; transcript_id "NM_001278220"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 61827 61950 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 69028 69057 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 69028 69057 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 69028 69057 0 - . gene_id "Disp1"; transcript_id "NM_001278220"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 69028 69057 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 97006 97527 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 97006 97527 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 97006 97527 0 - . gene_id "Disp1"; transcript_id "NM_001278220"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 97006 97527 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 109486 109663 0 - . gene_id "Disp1"; transcript_id "NM_001278220"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 137473 137600 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 137473 137600 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 165882 165969 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 165882 165969 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 185132 185338 0 - . gene_id "Disp1"; transcript_id "NM_001278218"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 185132 185338 0 - . gene_id "Disp1"; transcript_id "NM_001278219"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 185132 185338 0 - . gene_id "Disp1"; transcript_id "NM_026866"; gene_name "Disp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 249690 251786 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 252818 252977 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 254148 254298 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 254563 254644 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 255834 255919 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 257481 257570 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 258385 258490 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 259474 259546 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 261089 261184 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 265255 265351 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 265823 265929 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 267682 267798 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 268125 268212 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 270251 270356 0 - . gene_id "Brox"; transcript_id "NM_027861"; gene_name "Brox" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 270408 270976 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 278026 278095 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 279772 279825 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 280233 280287 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 287009 287072 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 287327 287430 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 289928 290050 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 292160 292282 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 295632 295749 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 295837 297849 0 + . gene_id "Aida"; transcript_id "NM_181732"; gene_name "Aida" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 299584 301001 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 301552 301693 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 303094 303167 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 303271 303339 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 304145 304282 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 304440 304540 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 304652 304719 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 304824 304859 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 304981 305041 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 306174 306275 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 307458 307596 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 307752 307842 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 307931 307988 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 308383 308506 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 309273 309377 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 309802 309873 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 311407 311517 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 311611 311688 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 311921 312009 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 312714 312735 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 317602 317733 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 324312 324454 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 327083 327390 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 329694 332363 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 335393 335479 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 338995 339128 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 342745 342913 0 - . gene_id "Mia3"; transcript_id "NM_177389"; gene_name "Mia3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 362233 362438 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 362233 362438 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 362333 362506 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 362333 362506 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 364269 364392 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 364269 364392 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 364269 364392 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 364269 364392 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 369258 369427 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 369258 369427 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 369258 369427 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 369258 369427 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 371128 371241 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 371128 371241 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 371128 371241 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 371128 371241 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 373930 374149 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 373951 374149 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 373951 374149 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 373951 374149 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 375968 376098 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 375968 376098 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 375968 376098 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 375968 376098 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 377675 377833 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 377675 377833 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 377675 377833 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 377675 377833 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 379244 379310 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 379244 379310 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 379244 379310 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 379244 379310 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 379892 379986 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 379892 379986 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 379892 379986 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 379892 379986 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 381956 382072 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 381956 382111 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 381956 382111 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 381956 382111 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 382583 383551 0 + . gene_id "Taf1a"; transcript_id "NM_001277957"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 382583 383551 0 + . gene_id "Taf1a"; transcript_id "NM_001277958"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 382583 383551 0 + . gene_id "Taf1a"; transcript_id "NM_001277959"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 382583 383551 0 + . gene_id "Taf1a"; transcript_id "NM_021466"; gene_name "Taf1a" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 391851 392177 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 396787 397439 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 398403 398546 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 399838 400169 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 401326 401452 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 401902 402044 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 406422 406503 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 408391 408473 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr1_random' not found in Genome fasta files for line: chr1_random mm9_refGene exon 409557 410401 0 + . gene_id "Hhipl2"; transcript_id "NM_030175"; gene_name "Hhipl2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr4_random' not found in Genome fasta files for line: chr4_random mm9_refGene exon 109802 110328 0 + . gene_id "Dhrsx"; transcript_id "NM_001033326"; gene_name "Dhrsx" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr4_random' not found in Genome fasta files for line: chr4_random mm9_refGene exon 124620 124727 0 + . gene_id "Dhrsx"; transcript_id "NM_001033326"; gene_name "Dhrsx" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr4_random' not found in Genome fasta files for line: chr4_random mm9_refGene exon 124980 125048 0 + . gene_id "Dhrsx"; transcript_id "NM_001033326"; gene_name "Dhrsx" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr4_random' not found in Genome fasta files for line: chr4_random mm9_refGene exon 125291 125392 0 + . gene_id "Dhrsx"; transcript_id "NM_001033326"; gene_name "Dhrsx" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr4_random' not found in Genome fasta files for line: chr4_random mm9_refGene exon 128059 128266 0 + . gene_id "Dhrsx"; transcript_id "NM_001033326"; gene_name "Dhrsx" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr4_random' not found in Genome fasta files for line: chr4_random mm9_refGene exon 128545 128752 0 + . gene_id "Dhrsx"; transcript_id "NM_001033326"; gene_name "Dhrsx" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr4_random' not found in Genome fasta files for line: chr4_random mm9_refGene exon 129154 130134 0 + . gene_id "Dhrsx"; transcript_id "NM_001033326"; gene_name "Dhrsx" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr8_random' not found in Genome fasta files for line: chr8_random mm9_refGene exon 111572 114076 0 - . gene_id "Csprs"; transcript_id "NM_033616"; gene_name "Csprs" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr8_random' not found in Genome fasta files for line: chr8_random mm9_refGene exon 162798 163011 0 - . gene_id "Csprs"; transcript_id "NM_033616"; gene_name "Csprs" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr8_random' not found in Genome fasta files for line: chr8_random mm9_refGene exon 311632 311848 0 - . gene_id "Defb33"; transcript_id "NM_001039119"; gene_name "Defb33" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr8_random' not found in Genome fasta files for line: chr8_random mm9_refGene exon 314172 314340 0 - . gene_id "Defb33"; transcript_id "NM_001039119"; gene_name "Defb33" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr8_random' not found in Genome fasta files for line: chr8_random mm9_refGene exon 316649 316688 0 - . gene_id "Defb33"; transcript_id "NM_001039119"; gene_name "Defb33" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr8_random' not found in Genome fasta files for line: chr8_random mm9_refGene exon 320242 320379 0 - . gene_id "Gm21944"; transcript_id "NR_002880"; gene_name "Gm21944" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr8_random' not found in Genome fasta files for line: chr8_random mm9_refGene exon 332803 332856 0 - . gene_id "Gm21944"; transcript_id "NR_002880"; gene_name "Gm21944" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 46929 49445 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 46929 49445 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 46929 49445 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 46929 49445 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 49864 49983 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 49864 49983 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 49864 49983 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 49864 49983 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 50204 50379 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 50204 50379 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 50204 50379 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 50235 50379 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 50754 50846 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 50754 50846 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 50754 50846 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 50754 50846 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 51778 51934 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 51778 51934 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 51778 51934 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 51778 51934 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 52371 52457 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 52371 52457 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 52371 52905 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 52371 52905 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 52831 52905 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 52831 52905 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 53155 53272 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 53162 53668 0 + . gene_id "4930526I15Rik"; transcript_id "NR_015516"; gene_name "4930526I15Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 53162 53668 0 + . gene_id "4930526I15Rik"; transcript_id "NR_102721"; gene_name "4930526I15Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 53578 53680 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 53578 53680 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 53578 53680 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 53578 53680 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 54060 54265 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 54060 54265 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 54060 54265 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 54060 54265 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 54671 55032 0 - . gene_id "Ppp2r3d"; transcript_id "NM_011154"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 54671 55032 0 - . gene_id "Ppp2r3d"; transcript_id "NR_028110"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 54671 55032 0 - . gene_id "Ppp2r3d"; transcript_id "NR_102716"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 54688 54832 0 + . gene_id "4930526I15Rik"; transcript_id "NR_027950"; gene_name "4930526I15Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 55229 56293 0 + . gene_id "4930526I15Rik"; transcript_id "NR_015516"; gene_name "4930526I15Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 55229 56293 0 + . gene_id "4930526I15Rik"; transcript_id "NR_027950"; gene_name "4930526I15Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 55229 55603 0 + . gene_id "4930526I15Rik"; transcript_id "NR_102721"; gene_name "4930526I15Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 55349 55944 0 - . gene_id "Ppp2r3d"; transcript_id "NM_001163415"; gene_name "Ppp2r3d" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 55723 56293 0 + . gene_id "4930526I15Rik"; transcript_id "NR_102721"; gene_name "4930526I15Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 113044 113091 0 + . gene_id "Nlrp4g"; transcript_id "NM_001004145"; gene_name "Nlrp4g" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 113283 113379 0 + . gene_id "Nlrp4g"; transcript_id "NM_001004145"; gene_name "Nlrp4g" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 122643 122947 0 + . gene_id "Nlrp4g"; transcript_id "NM_001004145"; gene_name "Nlrp4g" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 129055 130666 0 + . gene_id "Nlrp4g"; transcript_id "NM_001004145"; gene_name "Nlrp4g" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 133494 133652 0 + . gene_id "Nlrp4g"; transcript_id "NM_001004145"; gene_name "Nlrp4g" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 134083 134706 0 + . gene_id "Nlrp4g"; transcript_id "NM_001004145"; gene_name "Nlrp4g" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 202787 205084 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243117"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 202787 205084 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243118"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 202787 205084 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243119"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 206081 206141 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243117"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 206081 206141 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243118"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 206081 206141 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243119"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 206341 206467 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243117"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 206341 206467 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243118"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 206341 206467 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243119"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 215639 215701 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243118"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 222659 222733 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243117"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 223543 223677 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243117"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 223543 223677 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243118"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 223543 223677 0 - . gene_id "2010315B03Rik"; transcript_id "NM_001243119"; gene_name "2010315B03Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 367890 370841 0 - . gene_id "Jrkl"; transcript_id "NM_001033181"; gene_name "Jrkl" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 372079 372121 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 374359 374442 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 377171 377898 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 378326 378530 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 387836 387928 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 391444 391568 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 397431 397601 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 406495 406680 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chr9_random' not found in Genome fasta files for line: chr9_random mm9_refGene exon 414447 417453 0 + . gene_id "Ccdc82"; transcript_id "NM_025534"; gene_name "Ccdc82" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 3053 3775 0 - . gene_id "Tcstv3"; transcript_id "NM_153523"; gene_name "Tcstv3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4298 4452 0 - . gene_id "Tcstv3"; transcript_id "NM_153523"; gene_name "Tcstv3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 12475 13200 0 - . gene_id "BC147527"; transcript_id "NM_001037925"; gene_name "BC147527" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 13388 13549 0 - . gene_id "BC147527"; transcript_id "NM_001037925"; gene_name "BC147527" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 17355 17583 0 - . gene_id "BC147527"; transcript_id "NM_001037925"; gene_name "BC147527" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 20127 20438 0 - . gene_id "BC147527"; transcript_id "NM_001037925"; gene_name "BC147527" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 20779 21008 0 - . gene_id "BC147527"; transcript_id "NM_001037925"; gene_name "BC147527" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 37343 37593 0 - . gene_id "Tcstv1"; transcript_id "NM_018756"; gene_name "Tcstv1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 37603 38076 0 - . gene_id "Tcstv1"; transcript_id "NM_018756"; gene_name "Tcstv1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 38596 38736 0 - . gene_id "Tcstv1"; transcript_id "NM_018756"; gene_name "Tcstv1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 125698 125922 0 - . gene_id "AF067063"; transcript_id "NM_001001449"; gene_name "AF067063" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 125924 126080 0 - . gene_id "AF067063"; transcript_id "NM_001001449"; gene_name "AF067063" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 126082 126428 0 - . gene_id "AF067063"; transcript_id "NM_001001449"; gene_name "AF067063" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 127803 127960 0 - . gene_id "AF067063"; transcript_id "NM_001001449"; gene_name "AF067063" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2674945 2675143 0 - . gene_id "Spt1"; transcript_id "NM_009267"; gene_name "Spt1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2676418 2676687 0 - . gene_id "Spt1"; transcript_id "NM_009267"; gene_name "Spt1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2677503 2677541 0 - . gene_id "Spt1"; transcript_id "NM_009267"; gene_name "Spt1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2678279 2678407 0 - . gene_id "Spt1"; transcript_id "NM_009267"; gene_name "Spt1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2735805 2736035 0 + . gene_id "Vmn2r-ps159"; transcript_id "NR_038052"; gene_name "Vmn2r-ps159" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2735833 2736091 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2736055 2736093 0 + . gene_id "Vmn2r-ps159"; transcript_id "NR_038052"; gene_name "Vmn2r-ps159" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2738548 2738915 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2738548 2738915 0 + . gene_id "Vmn2r-ps159"; transcript_id "NR_038052"; gene_name "Vmn2r-ps159" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2738926 2739145 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2738926 2739220 0 + . gene_id "Vmn2r-ps159"; transcript_id "NR_038052"; gene_name "Vmn2r-ps159" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2739147 2739222 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2740048 2740270 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2741380 2741509 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2741380 2741509 0 + . gene_id "Vmn2r-ps159"; transcript_id "NR_038052"; gene_name "Vmn2r-ps159" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2742626 2743291 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2742626 2743961 0 + . gene_id "Vmn2r-ps159"; transcript_id "NR_038052"; gene_name "Vmn2r-ps159" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2743293 2743358 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2743360 2743962 0 + . gene_id "Vmn2r123"; transcript_id "NM_009485"; gene_name "Vmn2r123" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2889607 2890346 0 - . gene_id "B020031M17Rik"; transcript_id "NM_001033769"; gene_name "B020031M17Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 2890872 2891056 0 - . gene_id "B020031M17Rik"; transcript_id "NM_001033769"; gene_name "B020031M17Rik" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 3058603 3058859 0 + . gene_id "Ulbp1"; transcript_id "NM_029975"; gene_name "Ulbp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 3059198 3059473 0 + . gene_id "Ulbp1"; transcript_id "NM_029975"; gene_name "Ulbp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 3070054 3070157 0 + . gene_id "Ulbp1"; transcript_id "NM_029975"; gene_name "Ulbp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 3070986 3071120 0 + . gene_id "Ulbp1"; transcript_id "NM_029975"; gene_name "Ulbp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 3071842 3072666 0 + . gene_id "Ulbp1"; transcript_id "NM_029975"; gene_name "Ulbp1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4834600 4834716 0 + . gene_id "Mucl1"; transcript_id "NM_009268"; gene_name "Mucl1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4834600 4834716 0 + . gene_id "Mucl1"; transcript_id "NR_126081"; gene_name "Mucl1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4835435 4835474 0 + . gene_id "Mucl1"; transcript_id "NM_009268"; gene_name "Mucl1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4835436 4835474 0 + . gene_id "Mucl1"; transcript_id "NR_126081"; gene_name "Mucl1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4836296 4836724 0 + . gene_id "Mucl1"; transcript_id "NM_009268"; gene_name "Mucl1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4836296 4836729 0 + . gene_id "Mucl1"; transcript_id "NR_126081"; gene_name "Mucl1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4837982 4838176 0 + . gene_id "Mucl1"; transcript_id "NM_009268"; gene_name "Mucl1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrUn_random' not found in Genome fasta files for line: chrUn_random mm9_refGene exon 4837984 4838176 0 + . gene_id "Mucl1"; transcript_id "NR_126081"; gene_name "Mucl1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 10737 12544 0 - . gene_id "Vamp7"; transcript_id "NM_001302138"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 10737 12544 0 - . gene_id "Vamp7"; transcript_id "NM_011515"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 14075 14167 0 - . gene_id "Vamp7"; transcript_id "NM_001302138"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 14075 14167 0 - . gene_id "Vamp7"; transcript_id "NM_011515"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 21628 21695 0 - . gene_id "Vamp7"; transcript_id "NM_001302138"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 21628 21695 0 - . gene_id "Vamp7"; transcript_id "NM_011515"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 24872 24962 0 - . gene_id "Vamp7"; transcript_id "NM_001302138"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 24872 24962 0 - . gene_id "Vamp7"; transcript_id "NM_011515"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 28976 29113 0 - . gene_id "Vamp7"; transcript_id "NM_001302138"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 28976 29113 0 - . gene_id "Vamp7"; transcript_id "NM_011515"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 30588 30645 0 - . gene_id "Vamp7"; transcript_id "NM_001302138"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 30588 30645 0 - . gene_id "Vamp7"; transcript_id "NM_011515"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 32430 32584 0 - . gene_id "Vamp7"; transcript_id "NM_011515"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 32495 32584 0 - . gene_id "Vamp7"; transcript_id "NM_001302138"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 39025 39191 0 - . gene_id "Vamp7"; transcript_id "NM_001302138"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 39025 39191 0 - . gene_id "Vamp7"; transcript_id "NM_011515"; gene_name "Vamp7" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 101352 105572 0 - . gene_id "Spry3"; transcript_id "NM_001030293"; gene_name "Spry3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 106268 106392 0 - . gene_id "Spry3"; transcript_id "NM_001030293"; gene_name "Spry3" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 159647 159773 0 + . gene_id "Tmlhe"; transcript_id "NM_138758"; gene_name "Tmlhe" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 216736 216917 0 + . gene_id "Tmlhe"; transcript_id "NM_138758"; gene_name "Tmlhe" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 258247 258423 0 + . gene_id "Tmlhe"; transcript_id "NM_138758"; gene_name "Tmlhe" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 268799 270075 0 + . gene_id "Zf12"; transcript_id "NR_003547"; gene_name "Zf12" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 272714 272993 0 + . gene_id "Tmlhe"; transcript_id "NM_138758"; gene_name "Tmlhe" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 285396 285515 0 + . gene_id "Tmlhe"; transcript_id "NM_138758"; gene_name "Tmlhe" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 326114 326350 0 + . gene_id "Tmlhe"; transcript_id "NM_138758"; gene_name "Tmlhe" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 332450 332588 0 + . gene_id "Tmlhe"; transcript_id "NM_138758"; gene_name "Tmlhe" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrX_random' not found in Genome fasta files for line: chrX_random mm9_refGene exon 333195 334187 0 + . gene_id "Tmlhe"; transcript_id "NM_138758"; gene_name "Tmlhe" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1294312 1294355 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1295724 1295855 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1301213 1301279 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1301913 1301947 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1308972 1309038 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1309612 1309646 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1316798 1316915 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1317699 1317798 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1319832 1319930 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 1320290 1320509 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 2860159 2861252 0 - . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 2862372 2862495 0 - . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3373246 3373301 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3374661 3374795 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3380131 3380197 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3380831 3380865 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3395716 3395833 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3396584 3396683 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3398723 3398821 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3399181 3399402 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3559698 3559821 0 + . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3559698 3559821 0 + . gene_id "Gm20816"; transcript_id "NM_001160144"; gene_name "Gm20816" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3560933 3562027 0 + . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 3560933 3562029 0 + . gene_id "Gm20816"; transcript_id "NM_001160144"; gene_name "Gm20816" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 4246223 4247319 0 - . gene_id "Gm20747"; transcript_id "NM_001025241"; gene_name "Gm20747" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 4248546 4248568 0 - . gene_id "Gm20747"; transcript_id "NM_001025241"; gene_name "Gm20747" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 4951015 4952110 0 - . gene_id "Gm20816"; transcript_id "NM_001160144"; gene_name "Gm20816" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 4951017 4952110 0 - . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 4953222 4953345 0 - . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 4953222 4953345 0 - . gene_id "Gm20816"; transcript_id "NM_001160144"; gene_name "Gm20816" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 6428619 6429305 0 + . gene_id "Gm20822"; transcript_id "NM_001199331"; gene_name "Gm20822" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 7875235 7875921 0 - . gene_id "Gm20822"; transcript_id "NM_001199331"; gene_name "Gm20822" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 8474587 8476544 0 - . gene_id "Gm21379"; transcript_id "NM_001293057"; gene_name "Gm21379" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 8474587 8476544 0 - . gene_id "Rbm31y"; transcript_id "NM_028970"; gene_name "Rbm31y" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 8781435 8782526 0 - . gene_id "Gm20877"; transcript_id "NM_001199332"; gene_name "Gm20877" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 8783324 8783443 0 - . gene_id "Gm20877"; transcript_id "NM_001199332"; gene_name "Gm20877" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 9328877 9329834 0 - . gene_id "Ssty1"; transcript_id "NM_009220"; gene_name "Ssty1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 9330711 9330897 0 - . gene_id "Ssty1"; transcript_id "NM_009220"; gene_name "Ssty1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 9331122 9331261 0 - . gene_id "Ssty1"; transcript_id "NM_009220"; gene_name "Ssty1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 9452830 9453790 0 - . gene_id "Gm20831"; transcript_id "NM_001103152"; gene_name "Gm20831" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 9454667 9454853 0 - . gene_id "Gm20831"; transcript_id "NM_001103152"; gene_name "Gm20831" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 9455078 9455268 0 - . gene_id "Gm20831"; transcript_id "NM_001103152"; gene_name "Gm20831" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13735462 13736559 0 - . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13737673 13737796 0 - . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13907849 13907904 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13909271 13909405 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13914737 13914803 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13915477 13915511 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13930362 13930479 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13931252 13931351 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13933397 13933495 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 13933855 13934075 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 14172530 14173524 0 - . gene_id "Gm20809"; transcript_id "NM_001160137"; gene_name "Gm20809" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15824127 15824250 0 + . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15824136 15824250 0 + . gene_id "Gm20738"; transcript_id "NM_207162"; gene_name "Gm20738" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15825362 15826459 0 + . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15825362 15826455 0 + . gene_id "Gm20738"; transcript_id "NM_207162"; gene_name "Gm20738" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15940901 15941122 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15941482 15941580 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15943620 15943719 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15944487 15944604 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15959483 15959517 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15960173 15960239 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15965582 15965716 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 15967080 15967135 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 16925233 16925990 0 + . gene_id "Gm20826"; transcript_id "NM_001101623"; gene_name "Gm20826" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 17981234 17982328 0 - . gene_id "LOC100040786"; transcript_id "NM_001160129"; gene_name "LOC100040786" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 17983554 17983607 0 - . gene_id "LOC100040786"; transcript_id "NM_001160129"; gene_name "LOC100040786" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 18284671 18285775 0 - . gene_id "Ssty2"; transcript_id "NM_023546"; gene_name "Ssty2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 18286890 18287000 0 - . gene_id "Ssty2"; transcript_id "NM_023546"; gene_name "Ssty2" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 18519133 18520125 0 + . gene_id "Gm20854"; transcript_id "NM_001160131"; gene_name "Gm20854" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 19988053 19988910 0 - . gene_id "Gm20865"; transcript_id "NM_001160141"; gene_name "Gm20865" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 20391964 20392019 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 20393386 20393520 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 20398849 20398915 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 20399563 20399597 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 20414413 20414530 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 20415336 20415435 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 20417475 20417573 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 20417933 20418154 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 23673855 23673978 0 + . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 23675090 23676187 0 + . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25657923 25657967 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25956641 25956824 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25957184 25957280 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25959312 25959413 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25960171 25960285 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25975108 25975142 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25975742 25975808 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25981116 25981247 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 25982632 25982665 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 27290997 27291988 0 - . gene_id "Gm20809"; transcript_id "NM_001160137"; gene_name "Gm20809" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 27836149 27836250 0 + . gene_id "Gm21943"; transcript_id "NM_001017393"; gene_name "Gm21943" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 27837355 27838458 0 + . gene_id "Gm21943"; transcript_id "NM_001017393"; gene_name "Gm21943" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28156518 28156737 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28157097 28157195 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28159225 28159324 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28160086 28160203 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28167376 28167410 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28167987 28168053 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28175050 28175084 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28175732 28175798 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28181127 28181258 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28182626 28182669 0 - . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28642181 28642401 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28642761 28642859 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28644896 28644995 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28645760 28645877 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28660723 28660757 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28661381 28661447 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28666778 28666912 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28668275 28668330 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 28838096 28839087 0 + . gene_id "Gm20917"; transcript_id "NM_001160136"; gene_name "Gm20917" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29419583 29419666 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29419583 29419666 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29420027 29420125 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29420027 29420125 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29422170 29422269 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29422170 29422269 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29423044 29423161 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29423044 29423161 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29430307 29430341 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29430307 29430341 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29437982 29438016 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29437982 29438016 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29438636 29438702 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29438636 29438702 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29444032 29444166 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29444032 29444166 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29445529 29445584 0 - . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29445529 29445584 0 - . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29870816 29870939 0 + . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29870825 29870939 0 + . gene_id "Gm20738"; transcript_id "NM_207162"; gene_name "Gm20738" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29872050 29873147 0 + . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 29872050 29873143 0 + . gene_id "Gm20738"; transcript_id "NM_207162"; gene_name "Gm20738" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30931021 30931064 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30932431 30932562 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30937893 30937959 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30938615 30938649 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30945640 30945706 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30946283 30946317 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30953486 30953603 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30954363 30954462 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30956492 30956590 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 30956950 30957169 0 + . gene_id "sly"; transcript_id "NM_201530"; gene_name "sly" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 32818621 32819619 0 - . gene_id "Gm20806"; transcript_id "NM_001160135"; gene_name "Gm20806" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 36699244 36700235 0 - . gene_id "Gm20809"; transcript_id "NM_001160137"; gene_name "Gm20809" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37572380 37572601 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37572961 37573059 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37575099 37575198 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37575949 37576066 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37590917 37590951 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37591585 37591651 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37596987 37597121 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37598481 37598536 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37863738 37863793 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37863738 37863793 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37865156 37865290 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37865156 37865290 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37870618 37870684 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37870618 37870684 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37871304 37871338 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37871304 37871338 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37878978 37879012 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37878978 37879012 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37886161 37886278 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37886161 37886278 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37887083 37887182 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37887083 37887182 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37889228 37889325 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37889228 37889325 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37889686 37889770 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 37889686 37889770 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38065067 38065122 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38065067 38065122 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38066486 38066620 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38066486 38066620 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38071950 38072016 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38071950 38072016 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38072636 38072670 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38072636 38072670 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38080296 38080330 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38080296 38080330 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38087477 38087594 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38087477 38087594 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38088385 38088484 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38088385 38088484 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38090529 38090626 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38090529 38090626 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38090987 38091071 0 + . gene_id "Gm20857"; transcript_id "NR_038297"; gene_name "Gm20857" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 38090987 38091071 0 + . gene_id "Gm20858"; transcript_id "NR_038298"; gene_name "Gm20858" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 39019758 39019881 0 + . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 39019758 39019881 0 + . gene_id "Gm20816"; transcript_id "NM_001160144"; gene_name "Gm20816" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 39020990 39022083 0 + . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 39020990 39022085 0 + . gene_id "Gm20816"; transcript_id "NM_001160144"; gene_name "Gm20816" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 40360136 40360364 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 40360724 40360820 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 40362844 40362943 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 40363690 40363806 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 40378641 40378675 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 40379265 40379331 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 40384640 40384771 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 40386151 40386184 0 - . gene_id "Gm20871"; transcript_id "NR_038299"; gene_name "Gm20871" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 41874314 41875405 0 - . gene_id "Gm20877"; transcript_id "NM_001199332"; gene_name "Gm20877" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 41876203 41876322 0 - . gene_id "Gm20877"; transcript_id "NM_001199332"; gene_name "Gm20877" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 43342348 43343339 0 + . gene_id "Gm20809"; transcript_id "NM_001160137"; gene_name "Gm20809" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 44066623 44066746 0 + . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 44067856 44068949 0 + . gene_id "Gm20867"; transcript_id "NM_001160142"; gene_name "Gm20867" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 45614367 45615358 0 + . gene_id "Gm20809"; transcript_id "NM_001160137"; gene_name "Gm20809" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46075785 46076888 0 - . gene_id "Gm21943"; transcript_id "NM_001017393"; gene_name "Gm21943" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46077994 46078095 0 - . gene_id "Gm21943"; transcript_id "NM_001017393"; gene_name "Gm21943" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46209688 46209743 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46211102 46211236 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46216572 46216638 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46217294 46217328 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46232165 46232282 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46233049 46233148 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46235188 46235286 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 46235646 46235866 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 48242251 48243108 0 - . gene_id "Gm20865"; transcript_id "NM_001160141"; gene_name "Gm20865" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 48319178 48320274 0 - . gene_id "Gm20747"; transcript_id "NM_001025241"; gene_name "Gm20747" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 48321500 48321522 0 - . gene_id "Gm20747"; transcript_id "NM_001025241"; gene_name "Gm20747" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 48388361 48389318 0 - . gene_id "Ssty1"; transcript_id "NM_009220"; gene_name "Ssty1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 48390195 48390381 0 - . gene_id "Ssty1"; transcript_id "NM_009220"; gene_name "Ssty1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 48390606 48390745 0 - . gene_id "Ssty1"; transcript_id "NM_009220"; gene_name "Ssty1" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 50814754 50815850 0 - . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 50814758 50815850 0 - . gene_id "Gm20738"; transcript_id "NM_207162"; gene_name "Gm20738" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 50816964 50817087 0 - . gene_id "Gm20823"; transcript_id "NM_001160143"; gene_name "Gm20823" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 50816964 50817078 0 - . gene_id "Gm20738"; transcript_id "NM_207162"; gene_name "Gm20738" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 50987250 50987305 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 50988667 50988801 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 50994130 50994196 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 50994876 50994910 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 51009754 51009871 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 51010652 51010751 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 51012794 51012892 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 51013252 51013472 0 + . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52063165 52063385 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52063745 52063843 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52065873 52065972 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52066764 52066881 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52081728 52081762 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52082428 52082494 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52087825 52087959 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52089318 52089373 0 - . gene_id "Gm20736"; transcript_id "NM_001037748"; gene_name "Gm20736" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52515006 52515028 0 + . gene_id "Gm20747"; transcript_id "NM_001025241"; gene_name "Gm20747" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52516257 52517353 0 + . gene_id "Gm20747"; transcript_id "NM_001025241"; gene_name "Gm20747" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52590933 52591790 0 + . gene_id "Gm20865"; transcript_id "NM_001160141"; gene_name "Gm20865" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 52881632 52882623 0 + . gene_id "Gm20809"; transcript_id "NM_001160137"; gene_name "Gm20809" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 53819455 53820453 0 + . gene_id "Gm20806"; transcript_id "NM_001160135"; gene_name "Gm20806" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 54420149 54420272 0 + . gene_id "Gm20815"; transcript_id "NM_001017394"; gene_name "Gm20815" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 54421398 54423069 0 + . gene_id "Gm20815"; transcript_id "NM_001017394"; gene_name "Gm20815" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'chrY_random' not found in Genome fasta files for line: chrY_random mm9_refGene exon 58501955 58502946 0 + . gene_id "Gm20809"; transcript_id "NM_001160137"; gene_name "Gm20809" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: chromosome 'AAV8-mcherry' not found in Genome fasta files for line: AAV8-mcherry crispr exon 1 708 . + . gene_id "AAV8-mcherry"; transcript_id "AAV8-mcherry" WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr10 99813725 99814407 chr10 99814393 99814636 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr10 103615408 103616129 chr10 103616118 103616547 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82219584 82219774 chr15 82219584 82219774 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82219882 82220023 chr15 82219882 82220023 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82220427 82220614 chr15 82220427 82220614 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82220811 82220952 chr15 82220811 82220952 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82221323 82221499 chr15 82221323 82221499 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82222134 82222294 chr15 82222134 82222294 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82222385 82222537 chr15 82222385 82222537 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82222806 82222977 chr15 82222806 82222977 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82224189 82224452 chr15 82224189 82224452 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82233276 82233526 chr15 82233276 82233526 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82233627 82233768 chr15 82233627 82233768 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82234149 82234336 chr15 82234149 82234336 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82234533 82234674 chr15 82234533 82234674 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82234858 82235034 chr15 82234858 82235034 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82235665 82235825 chr15 82235665 82235825 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82235916 82236068 chr15 82235916 82236068 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82236337 82236508 chr15 82236337 82236508 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chr15 82237364 82237624 chr15 82237364 82237624 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chrX 80732015 80732732 chrX 80732015 80732732 WARNING: while processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: overlapping or touching exons: chrX 80732910 80733263 chrX 80732910 80733263 Processing sjdbGTFfile=/net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf, found: 49125 transcripts 335960 exons (non-collapsed) 197252 collapsed junctions Sep 06 16:25:04 ..... Finished GTF processing Sep 06 16:25:04 Loaded database junctions from the GTF file: /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/genes/genes.gtf: 197252 total junctions WARNING: long repeat for junction # 108410 : chr2 175017775 175147602; left shift = 80; right shift = 255 Sep 06 16:25:05 Finished preparing junctions Sep 06 16:25:05 ..... Inserting junctions into the genome indices Sep 06 16:35:04 Finished SA search: number of new junctions=197212, old junctions=0 Sep 06 16:35:56 Finished sorting SA indicesL nInd=78884724 Sep 06 16:36:39 Finished inserting junction indices Sep 06 16:37:15 Finished SAi Sep 06 16:37:15 ..... Finished inserting junctions into genome Sep 06 16:37:15 ... writing Genome to disk ... Writing 2722159164 bytes into /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star/Genome ; empty space on disk = 25576738914304 bytes ... done SA size in bytes: 7361584155 Sep 06 16:37:45 ... writing Suffix Array to disk ... Writing 7361584155 bytes into /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star/SA ; empty space on disk = 25572464918528 bytes ... done Sep 06 16:39:07 ... writing SAindex to disk Writing 8 bytes into /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star/SAindex ; empty space on disk = 25565496082432 bytes ... done Writing 120 bytes into /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star/SAindex ; empty space on disk = 25565496082432 bytes ... done Writing 1565873491 bytes into /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/G171/ref/mm9/mm9_usethis/star/SAindex ; empty space on disk = 25565496082432 bytes ... done Sep 06 16:39:28 ..... Finished successfully DONE: Genome generation, EXITING