#lnc	lncGeneSymbol	ortholog	orthologGeneSymbol	alignScore	exonID	locusID	indelRate(exon)	indelRate(intron)	lncExonsAligned	orthExonsAligned	spliceConserved	spliceTotal	category(mm9)	category(hg19)
TCONS_00188800	AK043851	uc003vqr.1	AK054623	147557	0.10	0.32	0.056	0.080	1,	1,	0.5	2	divergent	intergenic
TCONS_00182075	Unannotated	uc003vla.3	AL110181	305490	0.28	0.28	0.058	NA	1,	1,	0.0	0	divergent	divergent
TCONS_00192186	Unannotated	uc021ppj.1	LINC00840	42849	0.01	0.25	0.057	0.081	2,	4,	0.0	1	intergenic	intergenic
TCONS_00186355	Unannotated	uc002zno.1	FLJ41941	97857	0.03	0.16	0.076	0.080	3,	2,	0.0	1	intergenic	intergenic
TCONS_00192193	Unannotated	uc021ppj.1	LINC00840	42849	0.02	0.25	0.057	0.081	2,	4,	0.0	2	intergenic	intergenic
TCONS_00192190	Unannotated	uc021ppj.1	LINC00840	42849	0.02	0.25	0.057	0.080	2,	4,	0.0	3	intergenic	intergenic
TCONS_00192191	Unannotated	uc021ppj.1	LINC00840	42849	0.01	0.25	0.057	0.080	2,	4,	0.0	2	intergenic	intergenic
TCONS_00186351	Unannotated	uc002zno.1	FLJ41941	97857	0.06	0.23	0.082	0.080	3,	2,	0.0	1	intergenic	intergenic
TCONS_00186353	Unannotated	uc002zno.1	FLJ41941	97857	0.05	0.23	0.076	0.080	3,	2,	0.0	1	intergenic	intergenic
TCONS_00192195	Unannotated	uc021ppj.1	LINC00840	42849	0.01	0.25	0.057	0.081	2,	4,	0.0	2	intergenic	intergenic
TCONS_00192843	Unannotated	uc001qsp.3	C1RL-AS1	20758	0.23	0.58	0.081	0.078	2,	3,4,	0.0	1	intergenic	intergenic
TCONS_00183790	Unannotated	uc003hrz.1	FAM13A-AS1	148406	0.12	0.12	0.087	NA	1,	1,	0.0	0	intergenic	intergenic
TCONS_00188697	Unannotated	uc011kpb.1	MIR182	485785	0.89	0.91	0.000	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00187668	Unannotated	uc001rfu.1	AK094733	142765	0.00	0.59	NA	1.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00187669	Unannotated	uc001rfu.1	AK094733	214896	0.00	0.59	NA	0.065	NA	NA	0.0	2	intergenic	intergenic
TCONS_00187666	Unannotated	uc001rfu.1	AK094733	80386	0.00	0.60	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00187667	Unannotated	uc001rfu.1	AK094733	76012	0.00	0.68	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00188698	Unannotated	uc003vpc.3	MIR96	423524	0.70	0.71	0.000	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00188699	Unannotated	uc003vpd.2	MIR183	424424	0.99	1.00	0.000	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00185249	Unannotated	uc003dnc.3	AL832184	34545	0.34	0.46	0.079	NA	1,	1,	0.0	0	divergent	mir_host_intron
TCONS_00192161	Unannotated	uc001jbk.1	TMEM72-AS1	8141	0.00	0.00	NA	NA	NA	NA	0.0	2	intergenic	intergenic
TCONS_00191241	Unannotated	uc031ryp.1	FGD5-AS1	97222	0.56	0.56	0.090	NA	1,	2,	0.0	0	intergenic	divergent
TCONS_00186978	Gm10069	uc002ldr.2	SNORD58C	13420	0.00	0.00	NA	0.000	NA	NA	0.0	0	intergenic	sno_host
TCONS_00184163	Unannotated	uc021vkb.1	U1	55247	0.01	0.01	0.074	NA	1,	1,	0.0	0	intergenic	intergenic
TCONS_00192183	Unannotated	uc021ppj.1	LINC00840	42849	0.02	0.38	0.057	0.078	2,	4,	0.0	3	intergenic	intergenic
TCONS_00192182	Unannotated	uc021ppj.1	LINC00840	42849	0.01	0.38	0.057	0.078	2,	4,	0.0	2	intergenic	intergenic
TCONS_00192185	Unannotated	uc021ppj.1	LINC00840	42849	0.01	0.38	0.057	0.079	2,	4,	0.0	1	intergenic	intergenic
TCONS_00192184	Unannotated	uc021ppj.1	LINC00840	42849	0.02	0.38	0.057	0.079	2,	4,	0.0	2	intergenic	intergenic
TCONS_00192187	Unannotated	uc021ppj.1	LINC00840	42849	0.01	0.25	0.057	0.080	2,	4,	0.0	2	intergenic	intergenic
TCONS_00189832	9130019P16Rik	uc003tab.3	BC038570	47829	0.04	0.05	0.087	0.080	5,6,	3,	0.0	2	intergenic	intergenic
TCONS_00192189	Unannotated	uc021ppj.1	LINC00840	42849	0.02	0.25	0.057	0.080	2,	4,	0.0	3	intergenic	intergenic
TCONS_00192188	Unannotated	uc021ppj.1	LINC00840	42849	0.02	0.25	0.057	0.080	2,	4,	0.0	3	intergenic	intergenic
TCONS_00192192	Unannotated	uc021ppj.1	LINC00840	42849	0.01	0.25	0.057	0.080	2,	4,	0.0	2	intergenic	intergenic
TCONS_00185210	Unannotated	uc021xab.1	MIR548A2	394765	0.00	0.57	NA	1.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00186354	Unannotated	uc002zno.1	FLJ41941	97857	0.06	0.23	0.076	0.080	3,	2,	0.0	1	intergenic	intergenic
TCONS_00187670	Unannotated	uc001rfu.1	AK094733	211196	0.00	0.65	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185259	Unannotated	uc003dnc.3	AL832184	94540	0.00	0.56	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00185258	Unannotated	uc003dnc.3	AL832184	96886	0.00	0.69	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00185253	Unannotated	uc003dnc.3	AL832184	47321	0.00	0.63	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00185252	Unannotated	uc003dnc.3	AL832184	71089	0.00	0.59	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00185255	Unannotated	uc003dnc.3	AL832184	67701	0.00	0.61	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00185254	Unannotated	uc003dnc.3	AL832184	67957	0.00	0.58	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00185257	Unannotated	uc003dnc.3	AL832184	135947	0.00	0.61	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00185256	Unannotated	uc003dnc.3	AL832184	132974	0.00	0.62	NA	1.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00192194	Unannotated	uc021ppj.1	LINC00840	42849	0.01	0.25	0.057	0.081	2,	4,	0.0	1	intergenic	intergenic
TCONS_00187941	Unannotated	uc031qgx.1	DENND5B-AS1	116098	0.00	0.55	NA	0.000	NA	NA	0.0	0	divergent	intergenic
TCONS_00186352	Unannotated	uc002zno.1	FLJ41941	97857	0.05	0.23	0.076	0.080	3,	2,	0.0	1	intergenic	intergenic
TCONS_00191863	Unannotated	uc001hnr.1	AK094916	12929	0.46	0.46	0.077	NA	1,	3,	0.0	0	intergenic	intergenic
TCONS_00190359	Unannotated	uc021vkb.1	U1	11938	0.00	0.00	NA	NA	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185216	Unannotated	uc021xab.1	MIR548A2	85142	0.00	0.57	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00182085	Unannotated	h1.oct4_gene.v2.1_3582.0_chr7	Unannotated	68809	0.00	0.60	NA	1.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00182086	Unannotated	h1.oct4_gene.v2.1_3582.0_chr7	Unannotated	54473	0.41	0.58	0.088	0.000	1,	2,	0.0	0	intergenic	intergenic
TCONS_00182083	AK165854	uc010lkx.2	BX648695	156490	0.27	0.53	0.082	0.079	9,	11,	0.0	8	intergenic	divergent
TCONS_00182082	Unannotated	uc010lkv.2	L13779	35675	0.00	0.81	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185019	Unannotated	uc003eit.1	BC033989	67615	0.15	0.27	0.082	NA	1,	1,2,3,	0.0	0	divergent	divergent
TCONS_00188788	Unannotated	uc003vqm.1	MIR29B1	31309	0.99	1.00	0.000	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00188789	Unannotated	uc003vqn.4	LOC646329	32376	0.08	0.30	0.082	NA	1,	3,4,	0.0	0	intergenic	intergenic
TCONS_00188786	Unannotated	uc003vqn.4	LOC646329	178062	0.07	0.48	0.083	0.069	3,	4,	0.0	2	mir_host_exon	intergenic
TCONS_00188787	Unannotated	uc011kpj.2	MIR29A	44655	0.70	0.72	0.000	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00189691	Unannotated	uc011jzf.2	MIR148A	375030	0.01	0.01	0.000	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00191898	Gt(ROSA)26Sor	h1.oct4_gene.v2.1_1789.0_chr3	Unannotated	91067	0.62	0.61	0.068	0.076	1,2,	1,2,	0.0	1	divergent	divergent
TCONS_00189692	Unannotated	uc011jzf.2	MIR148A	375030	0.67	0.68	0.000	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00191896	Gt(ROSA)26Sor	h1.oct4_gene.v2.1_1789.0_chr3	Unannotated	492833	0.25	0.57	0.060	0.061	1,2,	1,2,	0.5	1	intergenic	divergent
TCONS_00191897	Gt(ROSA)26Sor	h1.oct4_gene.v2.1_1789.0_chr3	Unannotated	91067	0.56	0.61	0.068	0.076	1,2,	1,2,	0.0	1	divergent	divergent
TCONS_00191895	Gt(ROSA)26Sor	h1.oct4_gene.v2.1_1789.0_chr3	Unannotated	492833	0.22	0.57	0.060	0.061	1,2,	1,2,	0.0	1	intergenic	divergent
TCONS_00185215	Unannotated	uc021xab.1	MIR548A2	82123	0.00	0.56	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185214	Unannotated	uc021xab.1	MIR548A2	82655	0.00	0.55	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185217	Unannotated	uc021xab.1	MIR548A2	82123	0.00	0.61	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00189784	Unannotated	uc022aas.1	MIR196B	1445384	0.98	0.99	0.000	0.000	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00185211	Unannotated	uc021xab.1	MIR548A2	357791	0.00	0.62	NA	1.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00192401	Unannotated	uc021qsv.1	LINC00942	225611	0.06	0.46	0.062	0.000	1,	1,	0.0	0	intergenic	intergenic
TCONS_00185213	Unannotated	uc003dml.3	ADAMTS9-AS2	83202	0.09	0.50	0.081	0.000	1,	4,	0.0	0	intergenic	intergenic
TCONS_00185212	Unannotated	uc003dml.3	ADAMTS9-AS2	74011	0.21	0.43	0.076	0.000	1,	4,	0.0	0	intergenic	intergenic
TCONS_00182123	Unannotated	uc011koi.2	MIR129-1	245297	0.94	0.96	0.014	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00185219	Unannotated	uc021xab.1	MIR548A2	77084	0.00	0.67	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185218	Unannotated	uc021xab.1	MIR548A2	82123	0.00	0.63	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00183521	AK033508	uc022aau.1	HOTTIP	1104152	0.51	0.60	0.049	0.045	1,2,	3,4,	0.5	1	intergenic	divergent
TCONS_00192880	Unannotated	uc001qsc.1	MIR200C	368122	0.96	0.96	0.015	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00192724	Unannotated	uc009zgg.2	RIMKLB	367665	0.66	0.55	0.055	0.083	1,2,	1,2,	1.0	1	intergenic	intergenic
TCONS_00194261	Unannotated	h1.naive_gene.v2.1_2344.0_chr3	Unannotated	40732	0.00	0.69	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00188796	BC145649	uc003vqq.3	FLJ43663	518146	0.21	0.25	0.033	0.068	1,	2,	0.5	2	intergenic	divergent
TCONS_00188795	BC145649	uc003vqq.3	FLJ43663	518146	0.20	0.25	0.033	0.068	1,	2,	0.5	3	intergenic	divergent
TCONS_00188794	BC145649	uc003vqq.3	FLJ43663	518146	0.53	0.10	0.033	0.068	1,	2,	0.5	3	intergenic	divergent
TCONS_00188793	BC145649	uc003vqq.3	FLJ43663	518146	0.04	0.09	0.020	0.068	1,	1,2,	0.5	4	intergenic	divergent
TCONS_00188792	BC145649	uc003vqq.3	FLJ43663	518146	0.19	0.11	0.020	0.067	1,2,	1,2,	1.5	5	intergenic	divergent
TCONS_00188791	BC145649	uc003vqq.3	FLJ43663	59581	0.02	0.19	0.066	0.079	3,	3,	0.5	5	intergenic	divergent
TCONS_00188790	Unannotated	uc022alt.1	LOC646329	174466	0.00	0.64	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00183520	AK033508	uc022aau.1	HOTTIP	1104152	0.56	0.60	0.044	0.045	1,2,	3,4,	1.0	1	intergenic	divergent
TCONS_00184187	Unannotated	uc021vka.1	LOC100630918	448608	0.27	0.27	0.044	NA	1,	1,	0.0	0	intergenic	divergent
TCONS_00183734	Unannotated	uc003hro.3	BC027846	67766	0.03	0.56	0.079	NA	1,	1,	0.0	0	divergent	divergent
TCONS_00188265	Unannotated	uc003vhr.4	AK097428	17901	0.44	0.22	0.087	0.081	2,	3,	0.0	1	intergenic	intergenic
TCONS_00191308	Unannotated	uc003dml.3	ADAMTS9-AS2	31146	0.00	0.47	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185220	Unannotated	uc021xab.1	MIR548A2	320920	0.00	0.61	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185221	Unannotated	uc021xab.1	MIR548A2	260064	0.00	0.66	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185222	Unannotated	uc021xab.1	MIR548A2	259586	0.00	0.64	NA	1.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185223	Unannotated	uc021xab.1	MIR548A2	295720	0.00	0.47	NA	0.068	NA	NA	0.0	2	intergenic	intergenic
TCONS_00185224	Unannotated	uc021xab.1	MIR548A2	194524	0.00	0.62	NA	1.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185225	Unannotated	uc021xab.1	MIR548A2	194684	0.00	0.60	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185226	Unannotated	uc021xab.1	MIR548A2	214360	0.00	0.24	NA	0.070	NA	NA	0.0	2	intergenic	intergenic
TCONS_00185227	Unannotated	uc003dml.3	ADAMTS9-AS2	190853	0.00	0.62	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00185228	Unannotated	uc003dml.3	ADAMTS9-AS2	273034	0.00	0.61	NA	0.049	NA	NA	0.0	2	intergenic	intergenic
TCONS_00185229	Unannotated	uc003dml.3	ADAMTS9-AS2	273034	0.00	0.61	NA	0.048	NA	NA	0.0	1	intergenic	intergenic
TCONS_00190360	Unannotated	uc021vkb.1	U1	11938	0.00	0.00	NA	NA	NA	NA	0.0	0	intergenic	intergenic
TCONS_00183510	Unannotated	uc022aap.1	HOTAIRM1	1403746	0.43	0.71	0.026	0.025	2,	2,	0.5	1	intergenic	divergent
TCONS_00183511	Unannotated	uc003syg.3	HOTAIRM1	1380749	0.38	0.88	0.024	0.000	1,	2,	0.0	0	intergenic	divergent
TCONS_00184861	Gm5577	h1.ips_gene.v2.1_1559.0_chr3	H1FX-AS1	138098	0.34	0.58	0.073	NA	1,2,	1,2,	0.0	1	divergent	divergent
TCONS_00182749	Unannotated	uc011kqy.2	LOC100134229	210356	0.57	0.57	0.070	NA	1,	1,	0.0	0	divergent	divergent
TCONS_00189002	Unannotated	uc011duv.2	DQ582057	67512	0.04	0.04	0.000	NA	1,	1,	0.0	0	divergent	divergent
TCONS_00183509	AK142386	uc022aap.1	HOTAIRM1	1403746	0.31	0.18	0.023	0.039	1,	1,	0.5	1	intergenic	divergent
TCONS_00183508	Unannotated	uc022aap.1	HOTAIRM1	1403746	0.54	0.67	0.024	0.039	1,2,	1,2,	1.0	1	intergenic	divergent
TCONS_00183502	Unannotated	uc003sxz.3	LOC441204	355576	0.00	0.60	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00183501	Unannotated	uc003sxz.3	LOC441204	355576	0.00	0.60	NA	0.053	NA	NA	0.0	1	intergenic	intergenic
TCONS_00185338	Unannotated	uc003dpd.2	LINC00870	82794	0.04	0.01	0.088	NA	1,	3,	0.0	2	intergenic	intergenic
TCONS_00188145	Dlx6os1	h1.ips_gene.v2.1_3259.0_chr7	DLX6-AS1	655526	0.56	0.18	0.051	0.063	2,	2,	0.5	1	intergenic	intergenic
TCONS_00192782	Unannotated	uc001qtw.1	BC039122	158245	0.61	0.61	0.070	NA	1,	1,	0.0	0	divergent	divergent
TCONS_00190089	AK087755	uc001dec.2	GNG12-AS1	65123	0.00	0.62	NA	0.000	NA	NA	0.0	0	intergenic	mir_host_intron
TCONS_00185020	Unannotated	uc003eit.1	BC033989	67615	0.10	0.27	0.085	0.072	1,2,	1,2,3,	0.0	1	divergent	divergent
TCONS_00185327	Unannotated	uc003dou.3	AK025793	19341	0.00	0.00	NA	NA	NA	NA	0.0	0	mir_host_exon	intergenic
TCONS_00185328	Unannotated	uc003dou.3	AK025793	19341	0.00	0.00	NA	NA	NA	NA	0.0	1	mir_host_exon	intergenic
TCONS_00191306	Unannotated	uc003dml.3	ADAMTS9-AS2	32561	0.00	0.61	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00190783	Unannotated	uc021vjb.1	Mir_548	113631	0.00	0.00	NA	0.250	NA	NA	0.0	0	intergenic	mir_host_exon
TCONS_00191305	Unannotated	uc003dml.3	ADAMTS9-AS2	33633	0.00	0.58	NA	0.143	NA	NA	0.0	0	intergenic	intergenic
TCONS_00186343	Unannotated	uc002zno.1	FLJ41941	97857	0.05	0.23	0.076	0.081	3,	2,	0.0	1	intergenic	intergenic
TCONS_00186341	Unannotated	uc002zno.1	FLJ41941	97857	0.10	0.20	0.076	0.080	3,	2,	0.0	1	intergenic	intergenic
TCONS_00188266	EG232599	uc003vhr.4	AK097428	17901	0.42	0.09	0.087	0.081	3,	3,	0.0	2	intergenic	intergenic
TCONS_00186050	Unannotated	uc001jbk.1	TMEM72-AS1	69621	0.00	0.66	NA	0.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00191309	Unannotated	uc003dml.3	ADAMTS9-AS2	30814	0.00	0.60	NA	1.000	NA	NA	0.0	0	intergenic	intergenic
TCONS_00187986	Unannotated	uc003hco.3	LOC255130	37737	0.00	0.58	NA	0.083	NA	NA	0.0	2	intergenic	intergenic
TCONS_00187985	Unannotated	uc003hco.3	LOC255130	37737	0.00	0.58	NA	0.083	NA	NA	0.0	1	intergenic	intergenic
TCONS_00192879	Unannotated	uc009zfm.2	MIR141	367835	0.90	0.92	0.000	NA	1,	1,	0.0	0	mir_host_exon	mir_host_exon
TCONS_00188570	Unannotated	uc031szb.1	MGC27345	249749	0.70	0.70	0.048	NA	1,	1,	0.0	0	intergenic	intergenic
TCONS_00190091	AK087755	uc001dec.2	GNG12-AS1	280552	0.00	0.66	NA	0.000	NA	NA	0.0	0	divergent	mir_host_intron
TCONS_00190090	AK087755	uc001dec.2	GNG12-AS1	65123	0.00	0.55	NA	0.075	NA	NA	0.0	1	divergent	mir_host_intron
TCONS_00183663	Unannotated	h1.oct4_gene.v2.1_1522.0_chr7	Unannotated	57846	0.04	0.37	0.096	0.082	2,3,	2,	0.0	1	intergenic	intergenic
TCONS_00185230	Unannotated	uc003dml.3	ADAMTS9-AS2	261195	0.00	0.69	NA	0.500	NA	NA	0.0	0	intergenic	intergenic