========================================================== Starting on : Mon Aug 26 07:41:19 EDT 2019 Running on node : scc-yp1 Current job ID : 8913367 Current job name : slncky_chrY Task index number : ========================================================== /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/slncky_19-8-19/annotations/annotations.config Loading annotations for mm9 Loading ortholog annotations for hg19 Starting with 231 transcripts STEP I. FILTER LNCS Checking overlap with coding annotations... min_overlap: 0.0% Removing... ... 195 transcripts that overlap coding or mapped coding transcript ... 0 transcripts that fall inside coding or mapped transcript (likely UTR or intronic fragments) Searching for gene duplications by aligning to commonly duplicated coding genes... learning null distribution of alignment scores self-aligning 1 / 36 genes self-aligning 2 / 36 genes self-aligning 3 / 36 genes self-aligning 4 / 36 genes self-aligning 5 / 36 genes self-aligning 6 / 36 genes self-aligning 7 / 36 genes self-aligning 8 / 36 genes self-aligning 9 / 36 genes self-aligning 10 / 36 genes self-aligning 11 / 36 genes self-aligning 12 / 36 genes self-aligning 13 / 36 genes self-aligning 14 / 36 genes self-aligning 15 / 36 genes self-aligning 16 / 36 genes self-aligning 17 / 36 genes self-aligning 18 / 36 genes self-aligning 19 / 36 genes self-aligning 20 / 36 genes self-aligning 21 / 36 genes self-aligning 22 / 36 genes self-aligning 23 / 36 genes self-aligning 24 / 36 genes self-aligning 25 / 36 genes self-aligning 26 / 36 genes self-aligning 27 / 36 genes self-aligning 28 / 36 genes self-aligning 29 / 36 genes self-aligning 30 / 36 genes self-aligning 31 / 36 genes self-aligning 32 / 36 genes self-aligning 33 / 36 genes self-aligning 34 / 36 genes self-aligning 35 / 36 genes self-aligning 36 / 36 genes aligning transcripts to annotated duplications... self-aligning 1 / 36 genes self-aligning 2 / 36 genes self-aligning 3 / 36 genes self-aligning 4 / 36 genes self-aligning 5 / 36 genes self-aligning 6 / 36 genes self-aligning 7 / 36 genes self-aligning 8 / 36 genes self-aligning 9 / 36 genes self-aligning 10 / 36 genes self-aligning 11 / 36 genes self-aligning 12 / 36 genes self-aligning 13 / 36 genes self-aligning 14 / 36 genes self-aligning 15 / 36 genes self-aligning 16 / 36 genes self-aligning 17 / 36 genes self-aligning 18 / 36 genes self-aligning 19 / 36 genes self-aligning 20 / 36 genes self-aligning 21 / 36 genes self-aligning 22 / 36 genes self-aligning 23 / 36 genes self-aligning 24 / 36 genes self-aligning 25 / 36 genes self-aligning 26 / 36 genes self-aligning 27 / 36 genes self-aligning 28 / 36 genes self-aligning 29 / 36 genes self-aligning 30 / 36 genes self-aligning 31 / 36 genes self-aligning 32 / 36 genes self-aligning 33 / 36 genes self-aligning 34 / 36 genes self-aligning 35 / 36 genes self-aligning 36 / 36 genes 0 lncs found that align to commonly duplicated coding gene! Searching for gene duplications by aligning lncs to each other... min_cluster: 2 WARNING: too few lncs to accurately find duplications. consider setting the --no_self flag to save time. reusing null distribution from previous step aligning transcripts to each other... self-aligning 1 / 36 genes self-aligning 2 / 36 genes self-aligning 3 / 36 genes self-aligning 4 / 36 genes self-aligning 5 / 36 genes self-aligning 6 / 36 genes self-aligning 7 / 36 genes self-aligning 8 / 36 genes self-aligning 9 / 36 genes self-aligning 10 / 36 genes self-aligning 11 / 36 genes self-aligning 12 / 36 genes self-aligning 13 / 36 genes self-aligning 14 / 36 genes self-aligning 15 / 36 genes self-aligning 16 / 36 genes self-aligning 17 / 36 genes self-aligning 18 / 36 genes self-aligning 19 / 36 genes self-aligning 20 / 36 genes self-aligning 21 / 36 genes self-aligning 22 / 36 genes self-aligning 23 / 36 genes self-aligning 24 / 36 genes self-aligning 25 / 36 genes self-aligning 26 / 36 genes self-aligning 27 / 36 genes self-aligning 28 / 36 genes self-aligning 29 / 36 genes self-aligning 30 / 36 genes self-aligning 31 / 36 genes self-aligning 32 / 36 genes self-aligning 33 / 36 genes self-aligning 34 / 36 genes self-aligning 35 / 36 genes self-aligning 36 / 36 genes Removing... ... 1 clusters of 4 trancsripts that share high sequence similarity Searching for coding orthologs... learning distribution of coding gene alignment scores WARNING: too few transcripts to accurately learn distribution. Consider setting --min_coding parameter. aligning 1 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 2 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 3 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 4 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 5 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 6 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 7 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 8 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 9 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 10 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 11 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 12 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 13 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 14 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 15 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 16 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 17 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 18 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 19 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 20 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 21 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 22 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 23 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 24 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 25 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 26 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 27 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 28 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 29 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 30 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 31 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 32 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 33 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 34 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 35 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 36 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 37 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 38 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 39 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 40 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 41 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 42 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 43 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 44 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 45 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 46 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 47 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 48 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 49 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 50 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 51 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 52 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 53 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 54 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 55 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 56 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 57 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 58 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 59 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 60 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 61 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 62 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 63 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 64 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 65 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 66 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 67 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 68 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 69 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 70 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 71 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 72 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 73 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 74 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 75 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 76 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 77 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 78 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 79 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 80 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 81 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 82 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 83 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 84 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 85 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 86 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 87 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 88 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 89 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 90 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 91 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 92 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 93 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 94 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 95 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 96 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 97 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 98 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 99 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 100 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 101 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 102 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 103 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 104 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 105 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 106 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 107 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 108 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 109 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 110 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 111 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 112 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 113 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 114 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 115 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 116 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 117 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 118 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 119 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 120 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 121 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 122 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 123 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 124 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 125 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 126 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 127 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 128 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 129 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 130 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 131 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 132 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 133 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 134 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 135 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 136 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 137 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 138 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 139 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 140 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 141 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 142 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 143 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 144 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 145 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 146 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 147 / 147 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 1 / 4 genes to ortholog in annotations/hg19.ucsc.pseudogene.bed aligning 2 / 4 genes to ortholog in annotations/hg19.ucsc.pseudogene.bed aligning 3 / 4 genes to ortholog in annotations/hg19.ucsc.pseudogene.bed aligning 4 / 4 genes to ortholog in annotations/hg19.ucsc.pseudogene.bed aligning 1 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 2 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 3 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 4 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 5 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 6 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 7 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 8 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 9 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 10 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 11 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 12 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 13 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 14 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 15 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 16 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 17 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 18 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 19 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 20 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 21 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 22 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 23 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 24 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 25 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 26 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 27 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 28 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 29 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 30 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 31 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 32 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 33 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 34 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 35 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 36 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 37 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 38 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 39 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 40 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 41 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 42 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 43 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 44 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 45 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 46 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 47 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 48 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 49 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 50 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 51 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 52 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 53 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 54 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 55 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 56 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 57 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 58 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 59 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 60 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 61 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 62 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 63 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 64 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 65 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 66 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 67 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 68 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 69 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 70 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 71 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 72 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 73 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 74 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 75 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 76 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 77 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 78 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 79 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 80 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 81 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 82 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 83 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 84 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 85 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 86 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 87 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 88 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 89 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 90 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 91 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 92 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 93 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 94 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 95 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 96 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 97 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 98 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 99 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 100 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 101 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 102 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 103 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 104 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 105 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 106 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 107 / 107 genes to ortholog in annotations/hg19.refseq.coding.bed setting cutoff for positive coding alignment at exonic id = 0.228 aligning 1 / 8 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 2 / 8 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 3 / 8 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 4 / 8 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 5 / 8 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 6 / 8 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 7 / 8 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 8 / 8 genes to ortholog in annotations/hg19.ucsc.coding.bed aligning 1 / 7 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 2 / 7 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 3 / 7 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 4 / 7 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 5 / 7 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 6 / 7 genes to ortholog in annotations/hg19.refseq.coding.bed aligning 7 / 7 genes to ortholog in annotations/hg19.refseq.coding.bed Removing... ... 1 transcripts that aligns >22.8% to ortholog coding transcript Writing final lncs file. STEP II. FIND LNC ORTHOLOGS Searching for orthologs... aligning 1 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 2 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 3 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 4 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 5 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 6 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 7 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 8 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 9 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 10 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 11 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 12 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 13 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 14 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 15 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 16 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 17 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 18 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 19 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 20 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 21 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 22 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 23 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 24 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 25 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 26 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 27 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 28 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 29 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 30 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 31 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 32 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 33 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 34 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 35 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 36 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 37 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 38 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 39 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 40 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 41 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 42 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 43 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 44 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 45 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 46 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 47 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 48 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 49 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 50 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 51 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 52 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 53 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 54 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 55 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 56 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 57 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 58 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 59 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 60 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 61 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 62 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 63 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 64 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 65 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 66 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 67 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 68 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 69 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 70 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 71 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 72 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 73 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 74 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 75 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 76 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 77 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 78 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 79 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 80 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 81 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 82 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 83 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 84 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 85 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 86 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 87 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 88 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 89 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 90 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 91 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 92 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 93 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 94 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 95 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 96 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 97 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 98 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 99 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 100 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 101 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 102 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 103 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 104 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 105 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 106 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 107 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 108 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 109 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 110 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 111 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 112 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 113 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 114 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 115 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 116 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 117 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 118 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 119 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 120 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 121 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 122 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 123 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 124 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 125 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 126 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 127 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 128 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 129 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 130 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 131 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 132 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 133 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 134 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 135 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 136 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 137 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 138 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 139 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 140 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 141 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 142 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 143 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 144 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 145 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 146 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 147 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 148 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 149 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 150 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 151 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 152 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 153 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 154 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 155 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 156 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 157 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 158 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 159 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 160 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 161 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 162 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 163 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 164 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 165 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 166 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 167 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 168 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 169 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 170 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 171 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 172 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 173 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 174 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 175 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 176 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 177 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 178 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 179 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 180 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 181 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 182 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 183 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 184 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 185 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 186 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 187 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 188 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 189 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 190 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 191 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 192 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 193 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 194 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 195 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 196 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 197 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 198 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 199 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 200 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 201 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 202 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 203 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 204 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 205 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 206 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 207 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 208 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 209 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 210 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 211 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 212 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 213 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 214 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 215 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 216 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 217 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 218 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 219 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 220 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 221 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 222 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 223 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 224 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 225 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 226 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 227 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 228 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 229 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 230 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 231 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 232 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 233 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 234 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 235 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 236 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 237 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 238 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 239 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 240 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 241 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 242 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 243 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 244 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 245 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 246 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 247 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 248 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 249 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 250 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 251 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 252 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 253 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 254 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 255 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 256 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 257 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 258 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 259 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 260 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 261 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 262 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 263 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 264 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 265 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 266 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 267 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 268 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 269 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 270 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 271 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 272 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 273 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 274 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 275 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 276 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 277 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 278 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 279 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 280 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 281 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 282 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 283 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 284 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 285 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 286 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 287 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 288 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 289 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 290 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 291 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 292 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 293 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 294 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 295 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 296 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 297 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 298 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 299 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 300 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 301 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 302 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 303 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 304 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 305 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 306 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 307 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 308 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 309 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 310 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 311 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 312 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 313 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 314 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 315 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 316 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 317 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 318 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 319 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 320 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 321 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 322 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 323 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 324 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 325 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 326 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 327 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 328 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 329 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 330 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 331 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 332 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 333 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 334 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 335 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 336 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 337 / 337 genes to ortholog in annotations/hg19.ucsc.noncoding.bed aligning 1 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 2 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 3 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 4 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 5 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 6 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 7 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 8 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 9 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 10 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 11 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 12 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 13 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 14 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 15 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 16 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 17 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 18 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed aligning 19 / 19 genes to ortholog in annotations/hg19.pluripotent.long_noncoding_RNAs.bed Found... ... 22 transcripts with noncoding ortholog! ... 0 conserved small ORF with kN/kS < 1! Finished .............. Mon Aug 26 07:49:26 EDT 2019