diff test-data/gops_subtract_in2.bed @ 0:d4d33e26deef

Imported from capsule None

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/gops_subtract_in2.bed	Tue Apr 01 09:13:16 2014 -0400
@@ -0,0 +1,500 @@
+chr13	3633323	3651020	transcript	0	+
+chr13	3633323	3633421	exon	0	+
+chr13	3641310	3641498	exon	0	+
+chr13	3642720	3642871	exon	0	+
+chr13	3644161	3644296	exon	0	+
+chr13	3648564	3648756	exon	0	+
+chr13	3649425	3651020	exon	0	+
+chr13	3802138	3803564	transcript	0	-
+chr13	3802138	3803564	exon	0	-
+chr13	3881808	3892824	transcript	0	-
+chr13	3881808	3883719	exon	0	-
+chr13	3884048	3884235	exon	0	-
+chr13	3885293	3885464	exon	0	-
+chr13	3885783	3886041	exon	0	-
+chr13	3886616	3886693	exon	0	-
+chr13	3886816	3886913	exon	0	-
+chr13	3887223	3887286	exon	0	-
+chr13	3887600	3887768	exon	0	-
+chr13	3888116	3888224	exon	0	-
+chr13	3892538	3892824	exon	0	-
+chr13	4131872	4149877	transcript	0	-
+chr13	4131872	4132082	exon	0	-
+chr13	4134448	4134531	exon	0	-
+chr13	4135847	4136013	exon	0	-
+chr13	4136379	4136489	exon	0	-
+chr13	4141372	4141495	exon	0	-
+chr13	4142463	4142541	exon	0	-
+chr13	4143535	4143652	exon	0	-
+chr13	4144451	4144619	exon	0	-
+chr13	4149760	4149877	exon	0	-
+chr13	4232985	4247605	transcript	0	+
+chr13	4232985	4233100	exon	0	+
+chr13	4235334	4235502	exon	0	+
+chr13	4236281	4236398	exon	0	+
+chr13	4237639	4237717	exon	0	+
+chr13	4238213	4238336	exon	0	+
+chr13	4241797	4241907	exon	0	+
+chr13	4242172	4242338	exon	0	+
+chr13	4246048	4246131	exon	0	+
+chr13	4247323	4247605	exon	0	+
+chr13	4247980	4249023	transcript	0	+
+chr13	4247980	4249023	exon	0	+
+chr13	4591735	4608410	transcript	0	-
+chr13	4591735	4592544	exon	0	-
+chr13	4592807	4592890	exon	0	-
+chr13	4594316	4594400	exon	0	-
+chr13	4594905	4594978	exon	0	-
+chr13	4596730	4596828	exon	0	-
+chr13	4598015	4598138	exon	0	-
+chr13	4600463	4600541	exon	0	-
+chr13	4601926	4602043	exon	0	-
+chr13	4606636	4606804	exon	0	-
+chr13	4608330	4608410	exon	0	-
+chr13	5860734	5869639	transcript	0	+
+chr13	5860734	5861088	exon	0	+
+chr13	5864013	5864590	exon	0	+
+chr13	5865884	5866008	exon	0	+
+chr13	5866477	5869639	exon	0	+
+chr13	3537320	3565507	transcript	0	+
+chr13	3537320	3537589	exon	0	+
+chr13	3548108	3548216	exon	0	+
+chr13	3550234	3550334	exon	0	+
+chr13	3553657	3553792	exon	0	+
+chr13	3555559	3555758	exon	0	+
+chr13	3556171	3556303	exon	0	+
+chr13	3559237	3559337	exon	0	+
+chr13	3561111	3561283	exon	0	+
+chr13	3563785	3563930	exon	0	+
+chr13	3564104	3564159	exon	0	+
+chr13	3564241	3565507	exon	0	+
+chr13	3565280	3610354	transcript	0	-
+chr13	3565280	3565913	exon	0	-
+chr13	3566163	3566278	exon	0	-
+chr13	3566681	3566863	exon	0	-
+chr13	3567997	3568103	exon	0	-
+chr13	3568733	3568887	exon	0	-
+chr13	3569557	3569683	exon	0	-
+chr13	3572732	3576446	exon	0	-
+chr13	3580997	3581439	exon	0	-
+chr13	3583745	3584619	exon	0	-
+chr13	3587543	3587780	exon	0	-
+chr13	3589186	3589894	exon	0	-
+chr13	3593376	3593439	exon	0	-
+chr13	3593538	3593611	exon	0	-
+chr13	3594742	3594846	exon	0	-
+chr13	3596022	3596123	exon	0	-
+chr13	3598897	3598997	exon	0	-
+chr13	3599082	3599102	exon	0	-
+chr13	3599184	3599308	exon	0	-
+chr13	3599437	3599580	exon	0	-
+chr13	3610035	3610354	exon	0	-
+chr13	8202154	8759554	transcript	0	+
+chr13	8202154	8202566	exon	0	+
+chr13	8558349	8558436	exon	0	+
+chr13	8568912	8569820	exon	0	+
+chr13	8671650	8671765	exon	0	+
+chr13	8696865	8697034	exon	0	+
+chr13	8700825	8700977	exon	0	+
+chr13	8712845	8713014	exon	0	+
+chr13	8731035	8731217	exon	0	+
+chr13	8751818	8751997	exon	0	+
+chr13	8756471	8759554	exon	0	+
+chr13	8884851	8891641	transcript	0	+
+chr13	8884851	8885242	exon	0	+
+chr13	8885977	8886150	exon	0	+
+chr13	8886730	8886823	exon	0	+
+chr13	8887168	8887299	exon	0	+
+chr13	8889563	8891641	exon	0	+
+chr13	8802213	8870288	transcript	0	-
+chr13	8802213	8805192	exon	0	-
+chr13	8819108	8819223	exon	0	-
+chr13	8819656	8819791	exon	0	-
+chr13	8834542	8834684	exon	0	-
+chr13	8836028	8836269	exon	0	-
+chr13	8841975	8842052	exon	0	-
+chr13	8844032	8844077	exon	0	-
+chr13	8846860	8846932	exon	0	-
+chr13	8848779	8848915	exon	0	-
+chr13	8852915	8852980	exon	0	-
+chr13	8853245	8853341	exon	0	-
+chr13	8856077	8856174	exon	0	-
+chr13	8860333	8860511	exon	0	-
+chr13	8870115	8870288	exon	0	-
+chr13	8849724	8870288	transcript	0	-
+chr13	8849724	8852980	exon	0	-
+chr13	8853245	8853341	exon	0	-
+chr13	8856077	8856174	exon	0	-
+chr13	8860333	8860511	exon	0	-
+chr13	8870115	8870288	exon	0	-
+chr13	8971723	8995258	transcript	0	-
+chr13	8971723	8972520	exon	0	-
+chr13	8973409	8973553	exon	0	-
+chr13	8974190	8974256	exon	0	-
+chr13	8976481	8976679	exon	0	-
+chr13	8977773	8977874	exon	0	-
+chr13	8978674	8978726	exon	0	-
+chr13	8979147	8979225	exon	0	-
+chr13	8984454	8984565	exon	0	-
+chr13	8984883	8984973	exon	0	-
+chr13	8986494	8986560	exon	0	-
+chr13	8987001	8987193	exon	0	-
+chr13	8988298	8988391	exon	0	-
+chr13	8989943	8990044	exon	0	-
+chr13	8990960	8991097	exon	0	-
+chr13	8991177	8991281	exon	0	-
+chr13	8991890	8992061	exon	0	-
+chr13	8995194	8995258	exon	0	-
+chr13	6547402	6579395	transcript	0	+
+chr13	6547402	6547475	exon	0	+
+chr13	6548825	6548928	exon	0	+
+chr13	6551879	6551986	exon	0	+
+chr13	6552427	6552579	exon	0	+
+chr13	6554599	6554714	exon	0	+
+chr13	6554797	6554894	exon	0	+
+chr13	6555787	6555948	exon	0	+
+chr13	6557007	6557134	exon	0	+
+chr13	6557401	6557490	exon	0	+
+chr13	6558600	6558729	exon	0	+
+chr13	6559275	6559389	exon	0	+
+chr13	6559847	6559944	exon	0	+
+chr13	6561198	6561333	exon	0	+
+chr13	6562621	6562760	exon	0	+
+chr13	6564236	6564353	exon	0	+
+chr13	6566595	6566728	exon	0	+
+chr13	6567909	6568030	exon	0	+
+chr13	6568144	6568221	exon	0	+
+chr13	6568445	6568611	exon	0	+
+chr13	6569847	6569948	exon	0	+
+chr13	6572286	6572407	exon	0	+
+chr13	6573605	6573677	exon	0	+
+chr13	6574262	6574375	exon	0	+
+chr13	6576635	6576761	exon	0	+
+chr13	6577686	6577832	exon	0	+
+chr13	6578663	6578766	exon	0	+
+chr13	6578895	6579395	exon	0	+
+chr13	6579119	6647970	transcript	0	-
+chr13	6579119	6580838	exon	0	-
+chr13	6581648	6581751	exon	0	-
+chr13	6583846	6583946	exon	0	-
+chr13	6585725	6585837	exon	0	-
+chr13	6586297	6586359	exon	0	-
+chr13	6587734	6587899	exon	0	-
+chr13	6597104	6597257	exon	0	-
+chr13	6597984	6598072	exon	0	-
+chr13	6599841	6599912	exon	0	-
+chr13	6601958	6602105	exon	0	-
+chr13	6602324	6602394	exon	0	-
+chr13	6602644	6602709	exon	0	-
+chr13	6604201	6604327	exon	0	-
+chr13	6604881	6604974	exon	0	-
+chr13	6613949	6614045	exon	0	-
+chr13	6618420	6618529	exon	0	-
+chr13	6618765	6618810	exon	0	-
+chr13	6620131	6620297	exon	0	-
+chr13	6621152	6621342	exon	0	-
+chr13	6624381	6624459	exon	0	-
+chr13	6635170	6635244	exon	0	-
+chr13	6647816	6647970	exon	0	-
+chr13	9093150	9172336	transcript	0	+
+chr13	9093150	9093426	exon	0	+
+chr13	9121353	9121472	exon	0	+
+chr13	9123148	9123208	exon	0	+
+chr13	9136024	9136172	exon	0	+
+chr13	9136400	9136547	exon	0	+
+chr13	9142999	9143078	exon	0	+
+chr13	9144627	9144764	exon	0	+
+chr13	9146646	9146750	exon	0	+
+chr13	9149071	9149182	exon	0	+
+chr13	9150110	9150164	exon	0	+
+chr13	9150260	9150470	exon	0	+
+chr13	9157368	9157475	exon	0	+
+chr13	9157796	9158048	exon	0	+
+chr13	9163920	9163966	exon	0	+
+chr13	9165562	9165727	exon	0	+
+chr13	9167923	9168048	exon	0	+
+chr13	9168143	9168252	exon	0	+
+chr13	9169897	9172336	exon	0	+
+chr13	9275771	9668171	transcript	0	+
+chr13	9275771	9276312	exon	0	+
+chr13	9492350	9492422	exon	0	+
+chr13	9505824	9505935	exon	0	+
+chr13	9532497	9532623	exon	0	+
+chr13	9535901	9536111	exon	0	+
+chr13	9549429	9549564	exon	0	+
+chr13	9550991	9551111	exon	0	+
+chr13	9552519	9552717	exon	0	+
+chr13	9559916	9560008	exon	0	+
+chr13	9562359	9562470	exon	0	+
+chr13	9567076	9567200	exon	0	+
+chr13	9567546	9567656	exon	0	+
+chr13	9567836	9567939	exon	0	+
+chr13	9570295	9570360	exon	0	+
+chr13	9574379	9574473	exon	0	+
+chr13	9574607	9574727	exon	0	+
+chr13	9576049	9576164	exon	0	+
+chr13	9583250	9583267	exon	0	+
+chr13	9591989	9592004	exon	0	+
+chr13	9600631	9600742	exon	0	+
+chr13	9603734	9603871	exon	0	+
+chr13	9605568	9605777	exon	0	+
+chr13	9608189	9608304	exon	0	+
+chr13	9609942	9610144	exon	0	+
+chr13	9613592	9613702	exon	0	+
+chr13	9614990	9615071	exon	0	+
+chr13	9621124	9621248	exon	0	+
+chr13	9621827	9621949	exon	0	+
+chr13	9623002	9623114	exon	0	+
+chr13	9623203	9623313	exon	0	+
+chr13	9627218	9627349	exon	0	+
+chr13	9633967	9634136	exon	0	+
+chr13	9636340	9636511	exon	0	+
+chr13	9646224	9646286	exon	0	+
+chr13	9653848	9653906	exon	0	+
+chr13	9655882	9655957	exon	0	+
+chr13	9658490	9658665	exon	0	+
+chr13	9661382	9661506	exon	0	+
+chr13	9665023	9668171	exon	0	+
+chr13	9684081	9764454	transcript	0	-
+chr13	9684081	9686230	exon	0	-
+chr13	9688308	9688494	exon	0	-
+chr13	9688697	9688970	exon	0	-
+chr13	9689691	9689760	exon	0	-
+chr13	9690148	9690356	exon	0	-
+chr13	9692675	9692794	exon	0	-
+chr13	9693514	9693592	exon	0	-
+chr13	9694374	9694430	exon	0	-
+chr13	9694984	9695072	exon	0	-
+chr13	9696889	9696982	exon	0	-
+chr13	9697873	9697951	exon	0	-
+chr13	9720018	9720178	exon	0	-
+chr13	9734577	9734712	exon	0	-
+chr13	9764300	9764454	exon	0	-
+chr13	9875858	10360049	transcript	0	-
+chr13	9875858	9878263	exon	0	-
+chr13	10027698	10027745	exon	0	-
+chr13	10121472	10121535	exon	0	-
+chr13	10223890	10224003	exon	0	-
+chr13	10359509	10360049	exon	0	-
+chr13	11645369	12199212	transcript	0	-
+chr13	11645369	11646878	exon	0	-
+chr13	11647697	11647749	exon	0	-
+chr13	11648864	11648965	exon	0	-
+chr13	11650313	11650378	exon	0	-
+chr13	11652790	11652947	exon	0	-
+chr13	11659114	11659249	exon	0	-
+chr13	11660738	11660885	exon	0	-
+chr13	11664512	11664573	exon	0	-
+chr13	11670046	11670180	exon	0	-
+chr13	11676402	11676445	exon	0	-
+chr13	11677674	11677805	exon	0	-
+chr13	11679482	11679704	exon	0	-
+chr13	11680408	11680495	exon	0	-
+chr13	11683491	11683639	exon	0	-
+chr13	11685359	11685424	exon	0	-
+chr13	11686948	11688246	exon	0	-
+chr13	11689337	11689419	exon	0	-
+chr13	11690772	11690877	exon	0	-
+chr13	11694025	11694154	exon	0	-
+chr13	11695951	11696040	exon	0	-
+chr13	11697422	11697503	exon	0	-
+chr13	11710873	11710947	exon	0	-
+chr13	11711736	11711813	exon	0	-
+chr13	11713581	11713661	exon	0	-
+chr13	11715168	11715268	exon	0	-
+chr13	11727791	11727845	exon	0	-
+chr13	11730698	11730750	exon	0	-
+chr13	11732540	11732644	exon	0	-
+chr13	11736070	11736167	exon	0	-
+chr13	11738759	11738872	exon	0	-
+chr13	11739968	11740004	exon	0	-
+chr13	11741996	11742131	exon	0	-
+chr13	11746632	11746692	exon	0	-
+chr13	11747884	11748055	exon	0	-
+chr13	11749299	11749392	exon	0	-
+chr13	11751216	11751304	exon	0	-
+chr13	11752367	11752608	exon	0	-
+chr13	11754332	11754653	exon	0	-
+chr13	11758147	11758278	exon	0	-
+chr13	11759345	11759427	exon	0	-
+chr13	11761079	11761318	exon	0	-
+chr13	11762195	11762256	exon	0	-
+chr13	11768464	11768514	exon	0	-
+chr13	11773232	11773354	exon	0	-
+chr13	11776728	11776793	exon	0	-
+chr13	11779209	11779325	exon	0	-
+chr13	11780156	11780280	exon	0	-
+chr13	11782558	11782634	exon	0	-
+chr13	11784905	11784983	exon	0	-
+chr13	11792514	11792652	exon	0	-
+chr13	11793045	11793135	exon	0	-
+chr13	11795763	11795842	exon	0	-
+chr13	11797901	11798065	exon	0	-
+chr13	11798848	11798989	exon	0	-
+chr13	11800048	11800139	exon	0	-
+chr13	11800288	11800509	exon	0	-
+chr13	11802183	11802353	exon	0	-
+chr13	11804401	11804522	exon	0	-
+chr13	11806783	11806889	exon	0	-
+chr13	11809207	11809394	exon	0	-
+chr13	11810636	11810772	exon	0	-
+chr13	11814017	11814121	exon	0	-
+chr13	11814997	11815130	exon	0	-
+chr13	11816529	11816644	exon	0	-
+chr13	11819123	11819397	exon	0	-
+chr13	11822609	11822753	exon	0	-
+chr13	11823912	11824018	exon	0	-
+chr13	11827737	11827938	exon	0	-
+chr13	11829988	11830787	exon	0	-
+chr13	11834120	11834347	exon	0	-
+chr13	11837444	11837531	exon	0	-
+chr13	11837863	11838026	exon	0	-
+chr13	11839754	11839915	exon	0	-
+chr13	11841702	11841817	exon	0	-
+chr13	11842955	11843308	exon	0	-
+chr13	11844462	11844671	exon	0	-
+chr13	11851937	11852112	exon	0	-
+chr13	11853493	11853702	exon	0	-
+chr13	11862118	11862266	exon	0	-
+chr13	11864686	11864846	exon	0	-
+chr13	11871451	11871535	exon	0	-
+chr13	11877304	11877408	exon	0	-
+chr13	11882525	11882630	exon	0	-
+chr13	11884935	11885152	exon	0	-
+chr13	11886808	11887001	exon	0	-
+chr13	11891948	11892190	exon	0	-
+chr13	11893404	11893538	exon	0	-
+chr13	11894073	11894192	exon	0	-
+chr13	11903149	11903245	exon	0	-
+chr13	11916540	11916676	exon	0	-
+chr13	11919800	11919984	exon	0	-
+chr13	11921823	11921945	exon	0	-
+chr13	11926190	11926355	exon	0	-
+chr13	11943324	11943481	exon	0	-
+chr13	11945382	11945457	exon	0	-
+chr13	11960383	11960480	exon	0	-
+chr13	11961383	11961483	exon	0	-
+chr13	11971741	11971854	exon	0	-
+chr13	11975311	11975390	exon	0	-
+chr13	11977730	11977805	exon	0	-
+chr13	11983100	11983115	exon	0	-
+chr13	11995484	11995505	exon	0	-
+chr13	12010577	12010682	exon	0	-
+chr13	12038149	12038269	exon	0	-
+chr13	12198665	12199212	exon	0	-
+chr13	12279085	12350267	transcript	0	-
+chr13	12279085	12279358	exon	0	-
+chr13	12280307	12280420	exon	0	-
+chr13	12281613	12281806	exon	0	-
+chr13	12282470	12282671	exon	0	-
+chr13	12285880	12286077	exon	0	-
+chr13	12287504	12287660	exon	0	-
+chr13	12290179	12290255	exon	0	-
+chr13	12291312	12291411	exon	0	-
+chr13	12292463	12292545	exon	0	-
+chr13	12297009	12297130	exon	0	-
+chr13	12297556	12297624	exon	0	-
+chr13	12304654	12304755	exon	0	-
+chr13	12304937	12305045	exon	0	-
+chr13	12307679	12307832	exon	0	-
+chr13	12309076	12309166	exon	0	-
+chr13	12313688	12313829	exon	0	-
+chr13	12314421	12314538	exon	0	-
+chr13	12317728	12317908	exon	0	-
+chr13	12319950	12320136	exon	0	-
+chr13	12323211	12323352	exon	0	-
+chr13	12325168	12325281	exon	0	-
+chr13	12327723	12327803	exon	0	-
+chr13	12330247	12330315	exon	0	-
+chr13	12331915	12331977	exon	0	-
+chr13	12333831	12333932	exon	0	-
+chr13	12336201	12336296	exon	0	-
+chr13	12336821	12336884	exon	0	-
+chr13	12339585	12339692	exon	0	-
+chr13	12340159	12340252	exon	0	-
+chr13	12342111	12342181	exon	0	-
+chr13	12342868	12342958	exon	0	-
+chr13	12346030	12346245	exon	0	-
+chr13	12350128	12350267	exon	0	-
+chr13	12361693	12432999	transcript	0	-
+chr13	12361693	12361919	exon	0	-
+chr13	12363044	12363203	exon	0	-
+chr13	12364965	12365031	exon	0	-
+chr13	12367344	12367491	exon	0	-
+chr13	12368629	12368809	exon	0	-
+chr13	12369665	12369800	exon	0	-
+chr13	12371060	12371243	exon	0	-
+chr13	12372695	12372836	exon	0	-
+chr13	12374781	12374890	exon	0	-
+chr13	12380773	12380924	exon	0	-
+chr13	12382940	12383088	exon	0	-
+chr13	12383926	12384157	exon	0	-
+chr13	12386576	12386669	exon	0	-
+chr13	12388741	12388827	exon	0	-
+chr13	12393201	12393283	exon	0	-
+chr13	12396580	12396659	exon	0	-
+chr13	12398540	12398628	exon	0	-
+chr13	12401166	12401253	exon	0	-
+chr13	12401861	12401981	exon	0	-
+chr13	12403113	12403228	exon	0	-
+chr13	12432641	12432999	exon	0	-
+chr13	12487641	12531160	transcript	0	+
+chr13	12487641	12487737	exon	0	+
+chr13	12488006	12488180	exon	0	+
+chr13	12488688	12488905	exon	0	+
+chr13	12491169	12491311	exon	0	+
+chr13	12493316	12493418	exon	0	+
+chr13	12493716	12493857	exon	0	+
+chr13	12494980	12495192	exon	0	+
+chr13	12495411	12495545	exon	0	+
+chr13	12497154	12497257	exon	0	+
+chr13	12498289	12498400	exon	0	+
+chr13	12498791	12498909	exon	0	+
+chr13	12499783	12499891	exon	0	+
+chr13	12500920	12501016	exon	0	+
+chr13	12501475	12501564	exon	0	+
+chr13	12502662	12502874	exon	0	+
+chr13	12503486	12503608	exon	0	+
+chr13	12504311	12504503	exon	0	+
+chr13	12505491	12505675	exon	0	+
+chr13	12505778	12505915	exon	0	+
+chr13	12506639	12506832	exon	0	+
+chr13	12507683	12507853	exon	0	+
+chr13	12508217	12508376	exon	0	+
+chr13	12509726	12509969	exon	0	+
+chr13	12510364	12510496	exon	0	+
+chr13	12513308	12513412	exon	0	+
+chr13	12513544	12513688	exon	0	+
+chr13	12514307	12514426	exon	0	+
+chr13	12514507	12514629	exon	0	+
+chr13	12515900	12516029	exon	0	+
+chr13	12516886	12517117	exon	0	+
+chr13	12518420	12518547	exon	0	+
+chr13	12519028	12519189	exon	0	+
+chr13	12522033	12522080	exon	0	+
+chr13	12522407	12522531	exon	0	+
+chr13	12523177	12523318	exon	0	+
+chr13	12523946	12524239	exon	0	+
+chr13	12524895	12525046	exon	0	+
+chr13	12525878	12526037	exon	0	+
+chr13	12526183	12526318	exon	0	+
+chr13	12526453	12526558	exon	0	+
+chr13	12526640	12526809	exon	0	+
+chr13	12527313	12527468	exon	0	+
+chr13	12527936	12528095	exon	0	+
+chr13	12530100	12530209	exon	0	+
+chr13	12530855	12531160	exon	0	+
+chr13	12531685	12553757	transcript	0	-
+chr13	12531685	12533261	exon	0	-
+chr13	12539413	12539579	exon	0	-
+chr13	12540685	12540774	exon	0	-
+chr13	12543667	12543694	exon	0	-
+chr13	12544988	12545045	exon	0	-
+chr13	12545551	12545671	exon	0	-
+chr13	12547001	12547212	exon	0	-
+chr13	12548610	12548699	exon	0	-
+chr13	12551440	12551583	exon	0	-
+chr13	12553693	12553757	exon	0	-
+chr13	12569174	12612715	transcript	0	-
+chr13	12569174	12570841	exon	0	-
+chr13	12575866	12575912	exon	0	-