Commits

Kanwei Li  committed 606085e

sam2interval: Add read_name column

  • Participants
  • Parent commits d0c9c23

Comments (0)

Files changed (4)

File test-data/sam2interval_noprintAll.dat

-#chrom	start	end	strand
-ref	6	22	+
-ref	8	19	+
-ref	8	14	+
-ref	15	40	+
-ref	28	33	-
-ref	36	45	-
+#chrom	start	end	strand	read_name
+ref	6	22	+	r001
+ref	8	19	+	r002
+ref	8	14	+	r003
+ref	15	40	+	r004
+ref	28	33	-	r003
+ref	36	45	-	r001

File test-data/sam2interval_printAll.dat

-#chrom	start	end	strand
+#chrom	start	end	strand	read_name
 ref	6	22	+	r001	163	ref	7	30	8M2I4M1D3M	=	37	39	TTAGATAAAGGATACTA	*
 ref	8	19	+	r002	0	ref	9	30	3S6M1P1I4M	*	0	0	AAAAGATAAGGATA	*
 ref	8	14	+	r003	0	ref	9	30	5H6M	*	0	0	AGCTAA	*	NM:i:1

File test-data/sam2interval_with_unmapped_reads_noprintAll.dat

-#chrom	start	end	strand
-chrM	6565	6641	-
-chrM	4096	4172	-
-chrM	14759	14835	-
-chrM	1244	1320	-
-chrM	5317	5393	+
-chrM	10934	11010	-
-chr1	567534	567610	-
-chrM	16407	16483	-
-chrM	8684	8760	+
-chrM	4952	5028	-
-chr1	567927	568003	-
-chrM	6830	6906	-
-chrM	7432	7508	+
-chrM	5342	5418	-
-chrM	3199	3275	-
-chrM	1392	1468	+
-chrM	7909	7985	+
-chr2	49456941	49457017	-
-chrM	16239	16315	+
-chrM	11515	11591	-
-chrM	7343	7419	-
-chrM	5628	5704	+
-chrM	9238	9314	+
-chrM	202	278	-
-chrM	10065	10141	+
-chrM	9875	9951	+
-chrM	9031	9107	-
-chr1	564778	564854	-
-chrM	5333	5409	-
-chrM	435	511	+
-chrM	4066	4142	+
-chrM	6214	6290	+
-chrM	7217	7293	-
-chrM	11261	11337	-
-chrM	14521	14597	-
-chrM	3593	3669	-
-chr17	22023720	22023796	-
-chrM	12846	12922	-
-chrM	7047	7123	-
-chrM	2693	2769	+
-chrM	8062	8138	-
-chrM	6159	6235	+
-chr1	566417	566493	-
-chrM	3031	3107	-
-chrM	6276	6352	+
-chrM	14786	14862	-
-chrM	10589	10665	+
-chrM	16248	16324	-
-chrM	7319	7395	+
-chrM	3527	3603	+
-chrM	13998	14074	+
-chrM	13229	13305	+
-chrM	7456	7532	-
-chrM	5109	5185	-
-chrM	2909	2985	+
-chr13	110076579	110076655	+
-chr1	566432	566508	-
-chr1	565743	565819	-
-chrM	3155	3231	-
-chrM	4657	4733	+
-chrM	7368	7444	+
-chrM	5329	5405	-
-chrM	2171	2247	-
-chr1	568282	568358	+
-chrM	4376	4452	+
-chrM	14645	14721	-
-chrM	4694	4770	-
-chrM	2412	2488	+
-chrM	9057	9133	-
-chrM	10527	10603	+
-chr1	564493	564569	-
-chrM	7102	7178	+
-chrM	10896	10972	-
-chrM	13626	13702	+
-chrM	5609	5685	+
-chrM	7666	7742	-
-chrM	14730	14806	+
-chrM	10682	10758	+
-chrM	5069	5145	+
-chr1	566474	566550	-
-chrM	9140	9216	+
-chrM	16340	16416	-
-chr1	565718	565794	-
-chrM	6732	6808	+
-chrM	16239	16315	+
-chrM	3180	3256	-
-chrM	13789	13865	+
-chrM	10350	10426	+
-chrM	10519	10595	-
-chrM	5391	5467	+
-chrM	6420	6496	-
-chrM	745	821	-
-chrM	1023	1099	+
-chr1	569720	569796	+
-chr1	569272	569348	+
-chrM	10091	10167	+
-chrM	10937	11013	-
-chrM	6460	6536	-
-chrM	12342	12418	+
-chrM	8694	8770	-
-chrM	2104	2180	+
-chrM	16386	16462	-
-chrM	3224	3300	+
-chr1	564901	564977	-
-chr1	564729	564805	-
-chrM	6453	6529	-
-chrM	9602	9678	-
-chrM	5756	5832	+
-chrM	10562	10638	+
-chrM	2816	2892	+
-chrM	9681	9757	-
-chrM	11237	11313	-
-chrM	3920	3996	-
-chrM	8192	8268	+
-chrM	1720	1796	-
-chrM	14707	14783	-
-chrM	11125	11201	-
-chr1	569107	569183	+
-chrM	9111	9187	+
-chrM	3908	3984	+
-chrM	14018	14094	-
-chrM	11284	11360	-
-chrM	3592	3668	-
-chrM	14471	14547	+
-chrM	2865	2941	-
-chrM	9703	9779	+
-chrM	16034	16110	-
-chr5	134262582	134262658	-
-chrM	2197	2273	-
-chrM	15072	15148	-
-chrM	13030	13106	-
-chrM	12457	12533	-
-chrM	1868	1944	-
-chrM	10249	10325	+
-chrM	12210	12286	+
-chrM	4022	4098	-
-chrM	16199	16275	+
-chrM	13120	13196	-
-chrM	13023	13099	-
-chrM	8719	8795	-
-chrM	8674	8750	-
-chr1	569410	569486	-
-chrM	16066	16142	-
-chr11	10529687	10529763	-
-chrM	7208	7284	-
-chrM	10193	10269	+
-chrM	1280	1356	-
-chrM	14135	14211	-
-chrM	131	207	-
-chrM	847	923	-
-chrM	8651	8727	-
-chrM	14879	14955	+
-chrM	15558	15634	-
-chrM	2986	3062	-
-chrM	2502	2578	+
-chrM	9781	9857	-
-chrM	13380	13456	-
-chr3	96335987	96336063	-
-chrM	7094	7170	-
-chrM	15731	15807	-
-chrM	12004	12080	+
-chrM	12835	12911	+
-chrM	3314	3390	-
-chrM	4030	4106	+
-chr1	569884	569960	-
-chrM	6647	6723	+
-chr1	566600	566676	-
-chrM	2430	2506	+
-chrM	12833	12909	+
-chr1	568256	568332	+
-chrM	13222	13298	-
-chrM	10321	10397	-
-chrM	8614	8690	-
-chrM	6581	6657	+
-chrM	3526	3602	+
-chrM	11413	11489	+
-chrM	9826	9902	-
-chr5	134259175	134259251	-
-chrM	3314	3390	-
-chrM	11146	11222	-
-chrM	2735	2811	+
-chrM	1695	1771	+
-chrM	3333	3409	-
-chr1	567391	567467	-
-chrM	3110	3186	-
-chr1	567574	567650	-
-chrM	15552	15628	+
-chrX	125606487	125606563	-
-chrM	9205	9281	+
-chr5	134260176	134260252	-
-chrM	3023	3099	-
-chr1	566110	566186	+
-chr1	569285	569361	-
-chrM	12692	12768	+
-chrM	10442	10518	+
-chrM	8008	8084	+
-chr1	567269	567345	+
-chrM	10796	10872	+
-chrM	2903	2979	-
-chrM	10349	10425	+
-chr13	110076645	110076721	-
-chrM	9283	9359	-
-chrM	2816	2892	+
-chrM	2816	2892	+
-chrM	6529	6605	+
-chrM	16312	16388	-
-chrM	5295	5371	+
-chrM	4061	4137	-
-chrM	5949	6025	+
-chrM	2680	2756	-
-chrM	4032	4108	+
-chrM	13081	13157	+
-chrM	2979	3055	-
-chrM	2335	2411	+
-chr1	567560	567636	+
-chrM	14790	14866	+
-chrM	1316	1392	-
-chr1	568495	568571	-
-chrM	15907	15983	+
-chrM	3937	4013	+
-chrM	2357	2433	+
-chr1	567258	567334	+
-chrM	10600	10676	-
-chrM	8474	8550	-
-chrM	11515	11591	-
-chr1	567287	567363	+
-chrM	11167	11243	+
-chrM	15521	15597	-
-chrM	10943	11019	-
-chrM	6201	6277	+
-chrM	12696	12772	-
-chrM	10796	10872	+
-chrM	2960	3036	-
-chrM	14774	14850	+
-chrM	9545	9621	+
-chrM	1007	1083	-
-chrM	14806	14882	-
-chrM	14909	14985	-
-chrM	9123	9199	+
-chrM	7198	7274	-
-chr1	568855	568931	-
-chrM	11186	11262	-
-chrM	1094	1170	+
-chrM	1754	1830	+
-chrM	6393	6469	+
-chrM	8906	8982	-
-chrM	3919	3995	-
-chrM	10951	11027	+
-chrM	6624	6700	-
-chrM	7883	7959	+
-chr1	567275	567351	+
-chrM	6483	6559	+
-chrM	9937	10013	-
-chrM	6529	6605	-
-chrM	3650	3726	-
-chrM	10905	10981	-
-chrM	8023	8099	+
-chrM	10902	10978	+
-chrM	6461	6537	+
-chrM	13049	13125	-
-chrM	11515	11591	-
-chrM	5360	5436	-
-chrM	11605	11681	+
-chrM	2357	2433	-
-chrM	6309	6385	+
-chr1	567281	567357	+
-chr7	45291595	45291671	-
-chrM	14614	14690	-
-chrM	2978	3054	-
-chrM	7048	7124	-
-chrM	11084	11160	-
-chrM	2259	2335	-
-chrM	5416	5492	-
-chr5	134263614	134263690	-
-chrM	14179	14255	-
-chr1	566599	566675	+
-chrM	14895	14971	-
-chr13	110076472	110076548	+
-chrM	7849	7925	-
-chrM	14822	14898	+
-chr1	569878	569954	+
-chrM	3272	3348	-
-chrM	12276	12352	-
-chrM	5839	5915	+
-chrM	9009	9085	+
-chr1	569321	569397	-
-chrM	11416	11492	-
-chrM	3866	3942	-
-chrM	11415	11491	-
-chrM	9583	9659	-
-chrM	10422	10498	-
-chrM	9066	9142	+
-chrM	11515	11591	-
-chrM	15452	15528	+
-chrM	239	315	+
-chrM	16322	16398	+
-chrM	1012	1088	-
-chrM	6176	6252	-
-chrM	10809	10885	+
-chr1	568094	568170	-
-chrM	13321	13397	-
-chrM	5752	5828	-
-chrM	4132	4208	+
-chrM	16250	16326	-
-chrM	10796	10872	+
-chrM	11898	11974	-
-chr1	564877	564953	+
-chrM	8256	8332	+
-chrM	15488	15564	+
-chrM	2804	2880	+
-chrM	4878	4954	+
-chrM	11258	11334	-
-chrM	4153	4229	+
-chrM	11225	11301	-
-chrM	892	968	-
-chrM	4399	4475	-
-chr18	45379660	45379736	-
-chrM	9171	9247	-
-chrM	3176	3252	+
-chrM	1013	1089	-
-chrM	6704	6780	+
-chrM	8749	8825	-
-chrM	7066	7142	+
-chrM	11180	11256	+
-chrM	8322	8398	+
-chr1	567957	568033	+
-chrM	12819	12895	-
-chr5	134260214	134260290	+
-chrM	420	496	+
-chrM	3397	3473	-
-chrM	9718	9794	-
-chr5	134263411	134263487	-
-chrM	14912	14988	-
-chr1	568792	568868	-
-chrM	14376	14452	-
-chrM	15473	15549	-
-chrM	4212	4288	+
-chrM	235	311	+
-chrM	5094	5170	+
-chrM	4701	4777	-
-chr1	567602	567678	-
-chrM	10938	11014	+
-chrM	420	496	+
-chrM	5114	5190	+
-chrM	11791	11867	-
-chrM	11390	11466	+
-chrM	1225	1301	-
-chrM	3047	3123	-
-chrM	4385	4461	-
-chrM	11200	11276	-
-chrM	3851	3927	-
-chrM	4926	5002	+
-chrM	2816	2892	+
-chrM	7291	7367	+
-chrM	11092	11168	-
-chrM	26	102	+
-chrM	10355	10431	+
-chrM	1568	1644	+
-chrM	11392	11468	+
-chrM	5798	5874	-
-chrM	14694	14770	+
-chrM	13875	13951	-
-chr1	567902	567978	-
-chr1	568804	568880	-
-chrM	4812	4888	-
-chr1	568073	568149	+
-chrM	4558	4634	-
-chrM	6420	6496	+
-chrM	12281	12357	+
-chr1	567571	567647	-
-chrM	4033	4109	-
-chrM	15496	15572	+
-chrM	3602	3678	+
-chrM	9106	9182	-
-chr5	134263406	134263482	-
-chrM	16051	16127	-
-chrM	10840	10916	+
-chrM	6801	6877	+
-chrM	2799	2875	-
-chrM	12419	12495	+
-chrM	1101	1177	+
-chrM	10421	10497	+
-chrM	11275	11351	-
-chrM	11075	11151	+
-chrM	7886	7962	-
-chrM	16033	16109	+
-chrM	4255	4331	-
-chrM	13766	13842	-
-chrM	15943	16019	-
-chrM	6064	6140	-
-chr1	567894	567970	+
-chrM	10668	10744	-
-chrM	8496	8572	+
-chrM	16271	16347	-
-chr1	569382	569458	-
-chrM	7950	8026	-
-chrM	7717	7793	+
-chrM	9241	9317	-
-chrM	13783	13859	-
-chrM	4885	4961	-
-chrM	3929	4005	-
-chrM	3741	3817	+
-chr9	33658974	33659050	-
-chrM	11889	11965	+
-chrM	13119	13195	-
-chrM	3874	3950	+
-chrM	3422	3498	+
-chr5	134259813	134259889	-
-chrM	15043	15119	+
-chrM	6634	6710	-
-chrM	11221	11297	+
-chrM	13462	13538	+
-chrM	10796	10872	+
-chrM	5955	6031	+
-chr11	10529688	10529764	-
-chrM	2862	2938	-
-chrM	8157	8233	+
-chrM	6781	6857	+
-chr1	567555	567631	+
-chrM	2089	2165	-
-chrM	10663	10739	-
-chrM	13240	13316	-
-chrM	15437	15513	+
-chr1	566620	566696	+
-chrM	5680	5756	-
-chrM	77	153	-
-chrM	9139	9215	+
-chr1	564695	564771	+
-chrM	3155	3231	+
-chrM	2816	2892	+
-chrM	7477	7553	+
-chrM	8879	8955	+
-chrM	8860	8936	+
-chrM	4706	4782	+
-chrM	6466	6542	-
-chrM	13439	13515	+
-chrM	4166	4242	+
-chrM	9147	9223	-
-chr3	96336311	96336387	-
-chrM	9272	9348	-
-chrM	10928	11004	-
-chrM	5040	5116	+
-chrM	10030	10106	+
-chrM	14452	14528	-
-chrM	13808	13884	-
-chrM	310	386	-
-chrM	6445	6521	-
-chrM	9707	9783	-
-chrM	6447	6523	-
-chrM	7578	7654	+
-chrM	4896	4972	+
-chrM	11515	11591	-
-chrM	10946	11022	-
-chrM	6842	6918	+
-chrM	495	571	+
-chrM	5505	5581	-
-chrM	11721	11797	+
-chrM	15651	15727	-
-chrM	2110	2186	+
-chr1	568855	568931	-
-chrM	8051	8127	-
-chrM	14308	14384	-
-chr1	567878	567954	+
-chrM	6304	6380	-
-chrM	7969	8045	-
-chrM	6293	6369	-
-chrM	818	894	+
-chrM	14261	14337	-
-chrM	11374	11450	+
-chrM	8045	8121	-
-chrM	8681	8757	+
-chrM	3486	3562	-
-chr1	566494	566570	+
-chrM	9878	9954	-
-chr1	564505	564581	+
-chrM	11417	11493	+
-chrM	15652	15728	+
-chrM	5104	5180	+
-chrM	3164	3240	+
-chrM	11719	11795	-
-chrM	395	471	+
-chrM	3166	3242	+
-chrM	9042	9118	+
-chrM	10915	10991	+
-chrM	8037	8113	-
-chrM	10604	10680	-
-chrM	15976	16052	+
-chrM	7775	7851	-
-chrM	11581	11657	-
-chrM	773	849	-
-chrM	16288	16364	-
-chrM	1281	1357	+
-chrM	1657	1733	+
-chrM	10176	10252	-
-chrM	3185	3261	-
-chrM	6377	6453	-
-chrM	11399	11475	+
-chrM	10678	10754	-
-chrM	1452	1528	-
-chrM	11618	11694	-
-chrM	13579	13655	-
-chrM	15858	15934	+
-chrM	9293	9369	-
-chrM	1083	1159	+
-chrM	2816	2892	+
-chrM	2730	2806	+
-chrM	8902	8978	+
-chrM	4252	4328	+
-chrM	11609	11685	-
-chrM	10880	10956	+
-chrM	13288	13364	-
-chrM	676	752	+
-chrM	793	869	-
-chrM	8931	9007	+
-chrM	3544	3620	+
-chrM	3696	3772	+
-chrM	9368	9444	-
-chrM	2816	2892	+
-chrM	9102	9178	+
-chrM	2980	3056	-
-chr1	567271	567347	+
-chrM	9582	9658	-
-chrM	13325	13401	-
-chrM	7896	7972	+
-chrM	3345	3421	-
-chrM	16365	16441	+
-chrM	10811	10887	-
-chr1	569902	569978	-
-chrM	3314	3390	-
-chrM	15883	15959	-
-chr1	564724	564800	-
-chrM	4714	4790	-
-chrM	16468	16544	-
-chrM	6558	6634	-
-chrM	8279	8355	+
-chrM	1881	1957	+
-chrM	10313	10389	-
-chrM	12145	12221	+
-chrM	12198	12274	+
-chrM	13527	13603	-
-chrM	11054	11130	-
-chrM	2819	2895	+
-chrM	15764	15840	+
-chrM	13208	13284	+
-chrM	516	592	+
-chrM	14986	15062	+
-chrM	6236	6312	+
-chrM	9719	9795	+
-chrM	10293	10369	-
-chrM	11050	11126	+
-chrM	1352	1428	-
-chrM	843	919	+
-chr5	79947252	79947328	-
-chrM	4199	4275	-
-chrM	14674	14750	-
-chrM	15289	15365	-
-chrM	13553	13629	-
-chrM	2816	2892	+
-chrM	10274	10350	-
-chrM	691	767	-
-chrM	3523	3599	+
-chr1	567903	567979	+
-chrM	11291	11367	+
-chrM	9494	9570	-
-chrM	9917	9993	-
-chrM	2184	2260	+
-chrM	2202	2278	-
-chrM	14827	14903	+
-chrM	9116	9192	-
-chrM	12049	12125	-
-chr6	62284081	62284157	+
-chrM	8153	8229	+
-chrM	6592	6668	-
-chrM	7578	7654	+
-chrM	3314	3390	-
-chrM	12063	12139	-
-chrM	7082	7158	-
-chrM	13050	13126	-
-chrM	3747	3823	-
-chrM	10833	10909	-
-chrM	10742	10818	-
-chrM	11066	11142	-
-chrM	2816	2892	+
-chrM	3553	3629	-
-chr1	569068	569144	-
-chrM	9590	9666	+
-chrM	2048	2124	-
-chrM	9815	9891	+
-chrM	3314	3390	-
-chrM	13055	13131	+
-chrM	2760	2836	-
-chrM	3779	3855	-
-chrM	10951	11027	-
-chrM	1532	1608	-
-chrM	11772	11848	+
-chrM	1359	1435	+
-chrM	15988	16064	-
-chrM	4956	5032	+
-chrM	2963	3039	-
-chr1	567336	567412	-
-chrM	2110	2186	-
-chrM	3258	3334	+
-chr5	134263454	134263530	-
-chrM	8869	8945	+
-chrM	9229	9305	+
-chrM	6579	6655	-
-chrM	5779	5855	-
-chrM	12474	12550	+
-chrM	2034	2110	-
-chrM	3141	3217	-
-chrM	12218	12294	-
-chrM	9137	9213	+
-chrM	942	1018	-
-chrM	2929	3005	+
-chrM	1414	1490	-
-chrM	5327	5403	-
-chr17	22023721	22023797	-
-chrM	11067	11143	+
-chrM	12329	12405	+
-chrM	12612	12688	+
-chr1	567541	567617	+
-chrM	2818	2894	+
-chrM	12488	12564	-
-chrM	5293	5369	+
-chrM	8194	8270	+
-chrM	11313	11389	-
-chrM	15065	15141	-
-chrM	14965	15041	-
-chrM	10333	10409	-
-chrM	8351	8427	+
-chrM	3535	3611	-
-chrM	6366	6442	-
-chrM	2738	2814	-
-chr17	22023745	22023821	+
-chrM	16084	16160	-
-chr1	569903	569979	+
-chrM	832	908	-
-chrM	5348	5424	-
-chrM	15288	15364	-
-chrM	12508	12584	-
-chrM	5346	5422	+
-chrM	5850	5926	-
-chrM	7255	7331	-
-chrM	13798	13874	+
-chr1	564464	564540	-
-chrM	8421	8497	+
-chrM	6910	6986	-
-chrM	15124	15200	-
-chrM	7287	7363	+
-chrM	4946	5022	+
-chrM	14314	14390	+
-chrM	15363	15439	-
-chrM	2346	2422	+
-chrM	11124	11200	+
-chr1	567514	567590	+
-chrM	4665	4741	-
-chrM	3366	3442	-
-chr1	569857	569933	-
-chrM	4786	4862	-
-chrM	3536	3612	-
-chrM	8273	8349	-
-chrM	10604	10680	+
-chrM	8343	8419	+
-chrM	7121	7197	-
-chrM	2816	2892	+
-chrM	1589	1665	-
-chrM	5372	5448	-
-chr1	568483	568559	-
-chrM	15853	15929	-
-chrM	2861	2937	+
-chrM	7209	7285	+
-chrM	9836	9912	-
-chrM	12185	12261	-
-chrM	13832	13908	-
-chrM	7789	7865	+
-chrM	4318	4394	-
-chrM	9787	9863	+
-chrM	14017	14093	-
-chrM	13058	13134	-
-chrM	6046	6122	-
-chrM	2350	2426	+
-chrM	7201	7277	-
-chrM	11145	11221	+
-chrM	6757	6833	-
-chrM	9485	9561	+
-chrM	12688	12764	-
-chrM	5083	5159	+
-chrM	11354	11430	-
-chrM	16485	16561	-
-chrM	12347	12423	+
-chrM	7204	7280	+
-chrM	8040	8116	-
-chrM	3701	3777	-
-chrM	400	476	-
-chrM	10483	10559	+
-chr1	569286	569362	-
-chrM	7122	7198	-
-chrM	7081	7157	-
-chr5	134259841	134259917	-
-chrM	10965	11041	+
-chrM	708	784	+
-chrM	4655	4731	-
-chrM	1182	1258	-
-chrM	2748	2824	+
-chr1	565770	565846	+
-chrM	5147	5223	+
-chrM	5507	5583	+
-chrM	1750	1826	-
-chrM	11017	11093	-
-chrM	11224	11300	-
-chrM	3825	3901	-
-chrM	15613	15689	-
-chrM	7536	7612	-
-chrM	13045	13121	-
-chrM	14403	14479	-
-chrM	12541	12617	-
-chrM	13561	13637	-
-chrM	110	186	+
-chrM	7145	7221	-
-chr17	22023719	22023795	-
-chrM	3397	3473	-
-chrM	3390	3466	+
-chrM	2344	2420	-
-chrM	7891	7967	-
-chrM	10934	11010	-
-chrM	15433	15509	-
-chrM	3337	3413	+
-chrM	6474	6550	-
-chrM	11837	11913	+
-chrM	13862	13938	+
-chrM	5411	5487	-
-chrM	10514	10590	+
-chrM	8413	8489	+
-chrM	15375	15451	-
-chr1	569717	569793	+
-chrM	11380	11456	+
-chr1	566164	566240	-
-chr1	566667	566743	+
-chrM	3173	3249	+
-chrM	10233	10309	-
-chrM	3992	4068	-
-chrM	16338	16414	+
-chrM	9010	9086	-
-chrM	12729	12805	+
-chrM	6394	6470	-
-chrM	6142	6218	+
-chrM	4363	4439	-
-chrM	2944	3020	-
-chr5	134263378	134263454	-
-chrM	13831	13907	-
-chrM	13023	13099	-
-chrM	10640	10716	+
-chrM	2145	2221	-
-chrM	12006	12082	-
-chrM	5093	5169	-
-chrM	9773	9849	+
-chrM	1591	1667	+
-chrM	443	519	+
-chrM	10852	10928	-
-chrM	16255	16331	-
-chrM	15014	15090	+
-chrM	11515	11591	-
-chrM	2816	2892	+
-chrM	12031	12107	+
-chrM	3700	3776	+
-chrM	7218	7294	-
-chrM	3314	3390	-
-chrM	3935	4011	-
-chrM	9536	9612	-
-chrM	3994	4070	-
-chrM	9513	9589	+
-chrM	4616	4692	-
-chr11	10530763	10530839	+
-chrM	13156	13232	+
-chrM	12212	12288	+
-chrM	1964	2040	-
-chr1	567269	567345	-
-chrM	5448	5524	+
-chrM	978	1054	-
-chrM	4651	4727	-
-chr3	96336206	96336282	-
-chrM	10537	10613	+
-chrM	10640	10716	+
-chrM	12895	12971	-
-chr1	566580	566656	+
-chrM	2816	2892	+
-chrM	7637	7713	-
-chrM	3874	3950	+
-chr5	134263381	134263457	-
-chr5	79947212	79947288	-
-chrM	3041	3117	+
-chr1	564478	564554	-
-chrM	8018	8094	-
-chrM	11377	11453	+
-chrM	2600	2676	-
-chrM	6442	6518	+
-chrM	465	541	+
-chrM	10317	10393	-
-chrM	13465	13541	-
-chrM	2687	2763	-
-chrM	1579	1655	+
-chrM	5460	5536	+
-chrM	54	130	+
-chrM	8424	8500	-
-chrM	6234	6310	-
-chrM	11515	11591	-
-chrM	3784	3860	-
-chrM	2816	2892	+
-chrM	8859	8935	+
-chrM	5082	5158	+
-chrM	6666	6742	+
-chrM	14287	14363	+
-chrM	4369	4445	+
-chrM	12361	12437	+
-chrM	3314	3390	-
-chrM	2148	2224	+
-chr5	134259835	134259911	+
-chrM	12519	12595	-
-chrM	3582	3658	+
-chrM	11384	11460	+
-chrM	11431	11507	+
-chrM	11288	11364	-
-chrM	1805	1881	-
-chrM	10179	10255	+
-chrM	3314	3390	-
-chrM	8780	8856	-
-chrM	3734	3810	+
-chr11	10530095	10530171	+
-chrM	1385	1461	+
-chrM	9675	9751	+
-chrM	11084	11160	+
-chrM	8583	8659	+
-chrM	3305	3381	+
-chrM	8512	8588	-
-chrM	11287	11363	-
-chrM	4790	4866	+
-chrM	1435	1511	-
-chr1	567255	567331	-
-chrM	566	642	-
-chrM	13143	13219	-
-chrM	12171	12247	-
-chrM	11264	11340	+
-chrM	9209	9285	-
-chrM	10940	11016	-
-chrM	11515	11591	-
-chrM	6685	6761	-
-chrM	184	260	-
-chrM	31	107	+
-chrM	11170	11246	+
-chrM	15089	15165	-
-chrM	8123	8199	-
-chrM	12144	12220	-
-chrM	5813	5889	-
-chrM	15487	15563	+
-chrM	7975	8051	-
-chrM	14369	14445	+
-chrM	4772	4848	+
-chrM	16483	16559	-
-chrM	8096	8172	-
-chrM	34	110	-
-chrM	10347	10423	+
-chrM	14112	14188	+
-chrM	6575	6651	+
-chrM	696	772	+
-chrM	11790	11866	-
-chrM	16268	16344	-
-chr13	110076567	110076643	+
-chrM	1687	1763	+
-chrM	10936	11012	-
-chrM	3994	4070	+
-chr1	566609	566685	+
-chrM	3842	3918	+
-chrM	9306	9382	-
-chrM	16224	16300	-
-chrM	3903	3979	-
-chrM	2943	3019	-
-chrM	14533	14609	-
-chrM	11515	11591	-
-chrM	8482	8558	-
-chrM	11515	11591	-
-chr1	565758	565834	+
-chrM	8485	8561	-
-chrM	3314	3390	-
-chrM	11316	11392	-
-chrM	2370	2446	-
-chrM	14762	14838	+
-chr1	568483	568559	-
-chrM	3019	3095	+
-chr1	564926	565002	-
-chrM	12573	12649	-
-chrM	2816	2892	+
-chrM	14111	14187	-
-chrM	2462	2538	-
-chrM	8469	8545	+
-chrM	11092	11168	-
-chrM	6473	6549	+
-chrM	16220	16296	-
-chrM	4832	4908	+
-chr17	22023725	22023801	-
-chr1	567374	567450	-
-chrM	11821	11897	+
-chrM	8061	8137	-
-chr5	134260199	134260275	-
-chrM	9877	9953	-
-chrM	11833	11909	+
-chrM	3658	3734	-
-chrM	861	937	-
-chrM	5607	5683	+
-chrM	8622	8698	-
-chrM	9468	9544	+
-chrM	10362	10438	-
-chrM	3138	3214	+
-chrM	4320	4396	-
-chr1	567521	567597	-
-chrM	8468	8544	+
-chrM	3891	3967	-
-chrM	13657	13733	-
-chrM	9922	9998	-
-chrM	15865	15941	+
-chrM	5353	5429	-
-chrM	8744	8820	+
-chrM	5339	5415	+
-chrM	3734	3810	+
-chrM	4252	4328	+
-chrM	13502	13578	+
-chrM	16346	16422	+
+#chrom	start	end	strand	read_name
+chrM	6565	6641	-	GA5:3:1:24:1745#0/1
+chrM	4096	4172	-	GA5:3:1:23:263#0/1
+chrM	14759	14835	-	GA5:3:1:24:1658#0/1
+chrM	1244	1320	-	GA5:3:1:24:1108#0/1
+chrM	5317	5393	+	GA5:3:1:24:1272#0/1
+chrM	10934	11010	-	GA5:3:1:25:1989#0/1
+chr1	567534	567610	-	GA5:3:1:25:1877#0/1
+chrM	16407	16483	-	GA5:3:1:25:1203#0/1
+chrM	8684	8760	+	GA5:3:1:24:1720#0/1
+chrM	4952	5028	-	GA5:3:1:25:74#0/1
+chr1	567927	568003	-	GA5:3:1:26:129#0/1
+chrM	6830	6906	-	GA5:3:1:27:1860#0/1
+chrM	7432	7508	+	GA5:3:1:26:303#0/1
+chrM	5342	5418	-	GA5:3:1:27:509#0/1
+chrM	3199	3275	-	GA5:3:1:27:1876#0/1
+chrM	1392	1468	+	GA5:3:1:27:462#0/1
+chrM	7909	7985	+	GA5:3:1:27:1826#0/1
+chr2	49456941	49457017	-	GA5:3:1:28:1961#0/1
+chrM	16239	16315	+	GA5:3:1:25:1902#0/1
+chrM	11515	11591	-	GA5:3:1:28:704#0/1
+chrM	7343	7419	-	GA5:3:1:29:78#0/1
+chrM	5628	5704	+	GA5:3:1:29:65#0/1
+chrM	9238	9314	+	GA5:3:1:30:571#0/1
+chrM	202	278	-	GA5:3:1:30:1418#0/1
+chrM	10065	10141	+	GA5:3:1:31:1998#0/1
+chrM	9875	9951	+	GA5:3:1:32:1159#0/1
+chrM	9031	9107	-	GA5:3:1:32:1723#0/1
+chr1	564778	564854	-	GA5:3:1:32:1365#0/1
+chrM	5333	5409	-	GA5:3:1:33:300#0/1
+chrM	435	511	+	GA5:3:1:33:625#0/1
+chrM	4066	4142	+	GA5:3:1:33:1597#0/1
+chrM	6214	6290	+	GA5:3:1:32:1051#0/1
+chrM	7217	7293	-	GA5:3:1:33:1476#0/1
+chrM	11261	11337	-	GA5:3:1:34:1493#0/1
+chrM	14521	14597	-	GA5:3:1:35:718#0/1
+chrM	3593	3669	-	GA5:3:1:35:1074#0/1
+chr17	22023720	22023796	-	GA5:3:1:35:1946#0/1
+chrM	12846	12922	-	GA5:3:1:36:143#0/1
+chrM	7047	7123	-	GA5:3:1:38:1282#0/1
+chrM	2693	2769	+	GA5:3:1:36:258#0/1
+chrM	8062	8138	-	GA5:3:1:38:1622#0/1
+chrM	6159	6235	+	GA5:3:1:39:651#0/1
+chr1	566417	566493	-	GA5:3:1:40:1756#0/1
+chrM	3031	3107	-	GA5:3:1:41:277#0/1
+chrM	6276	6352	+	GA5:3:1:41:24#0/1
+chrM	14786	14862	-	GA5:3:1:42:1739#0/1
+chrM	10589	10665	+	GA5:3:1:44:1997#0/1
+chrM	16248	16324	-	GA5:3:1:42:449#0/1
+chrM	7319	7395	+	GA5:3:1:44:1202#0/1
+chrM	3527	3603	+	GA5:3:1:44:1689#0/1
+chrM	13998	14074	+	GA5:3:1:45:1004#0/1
+chrM	13229	13305	+	GA5:3:1:46:1996#0/1
+chrM	7456	7532	-	GA5:3:1:46:1624#0/1
+chrM	5109	5185	-	GA5:3:1:47:148#0/1
+chrM	2909	2985	+	GA5:3:1:46:1928#0/1
+chr13	110076579	110076655	+	GA5:3:1:48:345#0/1
+chr1	566432	566508	-	GA5:3:1:49:208#0/1
+chr1	565743	565819	-	GA5:3:1:48:1620#0/1
+chrM	3155	3231	-	GA5:3:1:48:1536#0/1
+chrM	4657	4733	+	GA5:3:1:49:1377#0/1
+chrM	7368	7444	+	GA5:3:1:51:1072#0/1
+chrM	5329	5405	-	GA5:3:1:51:78#0/1
+chrM	2171	2247	-	GA5:3:1:51:851#0/1
+chr1	568282	568358	+	GA5:3:1:52:518#0/1
+chrM	4376	4452	+	GA5:3:1:52:796#0/1
+chrM	14645	14721	-	GA5:3:1:52:192#0/1
+chrM	4694	4770	-	GA5:3:1:55:1412#0/1
+chrM	2412	2488	+	GA5:3:1:53:1458#0/1
+chrM	9057	9133	-	GA5:3:1:55:1305#0/1
+chrM	10527	10603	+	GA5:3:1:55:855#0/1
+chr1	564493	564569	-	GA5:3:1:55:451#0/1
+chrM	7102	7178	+	GA5:3:1:55:299#0/1
+chrM	10896	10972	-	GA5:3:1:55:1194#0/1
+chrM	13626	13702	+	GA5:3:1:56:1499#0/1
+chrM	5609	5685	+	GA5:3:1:57:959#0/1
+chrM	7666	7742	-	GA5:3:1:56:473#0/1
+chrM	14730	14806	+	GA5:3:1:56:636#0/1
+chrM	10682	10758	+	GA5:3:1:57:1408#0/1
+chrM	5069	5145	+	GA5:3:1:58:763#0/1
+chr1	566474	566550	-	GA5:3:1:59:688#0/1
+chrM	9140	9216	+	GA5:3:1:59:791#0/1
+chrM	16340	16416	-	GA5:3:1:59:503#0/1
+chr1	565718	565794	-	GA5:3:1:61:1190#0/1
+chrM	6732	6808	+	GA5:3:1:58:1920#0/1
+chrM	16239	16315	+	GA5:3:1:57:1111#0/1
+chrM	3180	3256	-	GA5:3:1:61:1838#0/1
+chrM	13789	13865	+	GA5:3:1:61:722#0/1
+chrM	10350	10426	+	GA5:3:1:62:1796#0/1
+chrM	10519	10595	-	GA5:3:1:62:1469#0/1
+chrM	5391	5467	+	GA5:3:1:63:1214#0/1
+chrM	6420	6496	-	GA5:3:1:61:594#0/1
+chrM	745	821	-	GA5:3:1:62:1922#0/1
+chrM	1023	1099	+	GA5:3:1:63:762#0/1
+chr1	569720	569796	+	GA5:3:1:61:900#0/1
+chr1	569272	569348	+	GA5:3:1:63:462#0/1
+chrM	10091	10167	+	GA5:3:1:63:709#0/1
+chrM	10937	11013	-	GA5:3:1:63:1686#0/1
+chrM	6460	6536	-	GA5:3:1:64:1185#0/1
+chrM	12342	12418	+	GA5:3:1:64:1804#0/1
+chrM	8694	8770	-	GA5:3:1:67:480#0/1
+chrM	2104	2180	+	GA5:3:1:65:500#0/1
+chrM	16386	16462	-	GA5:3:1:68:398#0/1
+chrM	3224	3300	+	GA5:3:1:67:298#0/1
+chr1	564901	564977	-	GA5:3:1:67:612#0/1
+chr1	564729	564805	-	GA5:3:1:68:336#0/1
+chrM	6453	6529	-	GA5:3:1:68:1266#0/1
+chrM	9602	9678	-	GA5:3:1:68:1282#0/1
+chrM	5756	5832	+	GA5:3:1:72:332#0/1
+chrM	10562	10638	+	GA5:3:1:72:1394#0/1
+chrM	2816	2892	+	GA5:3:1:69:117#0/1
+chrM	9681	9757	-	GA5:3:1:72:1576#0/1
+chrM	11237	11313	-	GA5:3:1:72:1817#0/1
+chrM	3920	3996	-	GA5:3:1:72:1884#0/1
+chrM	8192	8268	+	GA5:3:1:73:1128#0/1
+chrM	1720	1796	-	GA5:3:1:73:1334#0/1
+chrM	14707	14783	-	GA5:3:1:73:870#0/1
+chrM	11125	11201	-	GA5:3:1:73:743#0/1
+chr1	569107	569183	+	GA5:3:1:73:124#0/1
+chrM	9111	9187	+	GA5:3:1:73:1774#0/1
+chrM	3908	3984	+	GA5:3:1:74:276#0/1
+chrM	14018	14094	-	GA5:3:1:74:1707#0/1
+chrM	11284	11360	-	GA5:3:1:75:739#0/1
+chrM	3592	3668	-	GA5:3:1:75:1808#0/1
+chrM	14471	14547	+	GA5:3:1:75:1740#0/1
+chrM	2865	2941	-	GA5:3:1:76:1071#0/1
+chrM	9703	9779	+	GA5:3:1:78:1517#0/1
+chrM	16034	16110	-	GA5:3:1:77:509#0/1
+chr5	134262582	134262658	-	GA5:3:1:77:84#0/1
+chrM	2197	2273	-	GA5:3:1:77:137#0/1
+chrM	15072	15148	-	GA5:3:1:79:1703#0/1
+chrM	13030	13106	-	GA5:3:1:78:1438#0/1
+chrM	12457	12533	-	GA5:3:1:80:1988#0/1
+chrM	1868	1944	-	GA5:3:1:79:708#0/1
+chrM	10249	10325	+	GA5:3:1:81:1195#0/1
+chrM	12210	12286	+	GA5:3:1:82:274#0/1
+chrM	4022	4098	-	GA5:3:1:82:806#0/1
+chrM	16199	16275	+	GA5:3:1:83:1274#0/1
+chrM	13120	13196	-	GA5:3:1:83:13#0/1
+chrM	13023	13099	-	GA5:3:1:83:466#0/1
+chrM	8719	8795	-	GA5:3:1:82:161#0/1
+chrM	8674	8750	-	GA5:3:1:84:1918#0/1
+chr1	569410	569486	-	GA5:3:1:86:1188#0/1
+chrM	16066	16142	-	GA5:3:1:85:383#0/1
+chr11	10529687	10529763	-	GA5:3:1:85:419#0/1
+chrM	7208	7284	-	GA5:3:1:86:1840#0/1
+chrM	10193	10269	+	GA5:3:1:86:1396#0/1
+chrM	1280	1356	-	GA5:3:1:86:1670#0/1
+chrM	14135	14211	-	GA5:3:1:87:1553#0/1
+chrM	131	207	-	GA5:3:1:87:968#0/1
+chrM	847	923	-	GA5:3:1:88:944#0/1
+chrM	8651	8727	-	GA5:3:1:88:722#0/1
+chrM	14879	14955	+	GA5:3:1:88:1905#0/1
+chrM	15558	15634	-	GA5:3:1:90:183#0/1
+chrM	2986	3062	-	GA5:3:1:91:1288#0/1
+chrM	2502	2578	+	GA5:3:1:91:1865#0/1
+chrM	9781	9857	-	GA5:3:1:93:1339#0/1
+chrM	13380	13456	-	GA5:3:1:93:289#0/1
+chr3	96335987	96336063	-	GA5:3:1:91:1901#0/1
+chrM	7094	7170	-	GA5:3:1:93:31#0/1
+chrM	15731	15807	-	GA5:3:1:93:607#0/1
+chrM	12004	12080	+	GA5:3:1:90:1958#0/1
+chrM	12835	12911	+	GA5:3:1:93:1806#0/1
+chrM	3314	3390	-	GA5:3:1:94:1167#0/1
+chrM	4030	4106	+	GA5:3:1:94:636#0/1
+chr1	569884	569960	-	GA5:3:1:93:1176#0/1
+chrM	6647	6723	+	GA5:3:1:94:131#0/1
+chr1	566600	566676	-	GA5:3:1:95:952#0/1
+chrM	2430	2506	+	GA5:3:1:94:989#0/1
+chrM	12833	12909	+	GA5:3:1:94:703#0/1
+chr1	568256	568332	+	GA5:3:1:95:1072#0/1
+chrM	13222	13298	-	GA5:3:1:95:866#0/1
+chrM	10321	10397	-	GA5:3:1:96:1665#0/1
+chrM	8614	8690	-	GA5:3:1:96:1702#0/1
+chrM	6581	6657	+	GA5:3:1:97:734#0/1
+chrM	3526	3602	+	GA5:3:1:97:239#0/1
+chrM	11413	11489	+	GA5:3:1:98:1829#0/1
+chrM	9826	9902	-	GA5:3:1:98:1819#0/1
+chr5	134259175	134259251	-	GA5:3:1:98:222#0/1
+chrM	3314	3390	-	GA5:3:1:99:476#0/1
+chrM	11146	11222	-	GA5:3:1:98:271#0/1
+chrM	2735	2811	+	GA5:3:1:98:770#0/1
+chrM	1695	1771	+	GA5:3:1:100:1425#0/1
+chrM	3333	3409	-	GA5:3:1:99:1469#0/1
+chr1	567391	567467	-	GA5:3:1:100:1178#0/1
+chrM	3110	3186	-	GA5:3:1:101:849#0/1
+chr1	567574	567650	-	GA5:3:1:102:707#0/1
+chrM	15552	15628	+	GA5:3:1:103:1995#0/1
+chrX	125606487	125606563	-	GA5:3:1:99:740#0/1
+chrM	9205	9281	+	GA5:3:1:103:300#0/1
+chr5	134260176	134260252	-	GA5:3:1:103:505#0/1
+chrM	3023	3099	-	GA5:3:1:103:1266#0/1
+chr1	566110	566186	+	GA5:3:1:103:637#0/1
+chr1	569285	569361	-	GA5:3:1:104:856#0/1
+chrM	12692	12768	+	GA5:3:1:100:1609#0/1
+chrM	10442	10518	+	GA5:3:1:104:645#0/1
+chrM	8008	8084	+	GA5:3:1:104:948#0/1
+chr1	567269	567345	+	GA5:3:1:105:775#0/1
+chrM	10796	10872	+	GA5:3:1:104:1070#0/1
+chrM	2903	2979	-	GA5:3:1:104:1800#0/1
+chrM	10349	10425	+	GA5:3:1:106:1608#0/1
+chr13	110076645	110076721	-	GA5:3:1:108:1351#0/1
+chrM	9283	9359	-	GA5:3:1:107:1114#0/1
+chrM	2816	2892	+	GA5:3:1:108:1305#0/1
+chrM	2816	2892	+	GA5:3:1:108:615#0/1
+chrM	6529	6605	+	GA5:3:1:110:954#0/1
+chrM	16312	16388	-	GA5:3:1:111:941#0/1
+chrM	5295	5371	+	GA5:3:1:111:207#0/1
+chrM	4061	4137	-	GA5:3:1:112:1363#0/1
+chrM	5949	6025	+	GA5:3:1:112:974#0/1
+chrM	2680	2756	-	GA5:3:1:113:519#0/1
+chrM	4032	4108	+	GA5:3:1:112:1748#0/1
+chrM	13081	13157	+	GA5:3:1:113:728#0/1
+chrM	2979	3055	-	GA5:3:1:113:1888#0/1
+chrM	2335	2411	+	GA5:3:1:113:1937#0/1
+chr1	567560	567636	+	GA5:3:1:114:1152#0/1
+chrM	14790	14866	+	GA5:3:1:114:1895#0/1
+chrM	1316	1392	-	GA5:3:1:114:910#0/1
+chr1	568495	568571	-	GA5:3:1:114:1273#0/1
+chrM	15907	15983	+	GA5:3:1:115:1736#0/1
+chrM	3937	4013	+	GA5:3:1:116:1034#0/1
+chrM	2357	2433	+	GA5:3:1:116:1207#0/1
+chr1	567258	567334	+	GA5:3:1:115:454#0/1
+chrM	10600	10676	-	GA5:3:1:116:898#0/1
+chrM	8474	8550	-	GA5:3:1:116:1215#0/1
+chrM	11515	11591	-	GA5:3:1:117:1182#0/1
+chr1	567287	567363	+	GA5:3:1:117:422#0/1
+chrM	11167	11243	+	GA5:3:1:118:1611#0/1
+chrM	15521	15597	-	GA5:3:1:117:643#0/1
+chrM	10943	11019	-	GA5:3:1:118:598#0/1
+chrM	6201	6277	+	GA5:3:1:118:1255#0/1
+chrM	12696	12772	-	GA5:3:1:120:134#0/1
+chrM	10796	10872	+	GA5:3:1:119:783#0/1
+chrM	2960	3036	-	GA5:3:1:120:1597#0/1
+chrM	14774	14850	+	GA5:3:1:120:122#0/1
+chrM	9545	9621	+	GA5:3:1:121:1197#0/1
+chrM	1007	1083	-	GA5:3:1:121:1070#0/1
+chrM	14806	14882	-	GA5:3:1:121:277#0/1
+chrM	14909	14985	-	GA5:3:1:122:604#0/1
+chrM	9123	9199	+	GA5:3:1:123:334#0/1
+chrM	7198	7274	-	GA5:3:1:123:1597#0/1
+chr1	568855	568931	-	GA5:3:1:122:153#0/1
+chrM	11186	11262	-	GA5:3:1:123:1737#0/1
+chrM	1094	1170	+	GA5:3:1:125:126#0/1
+chrM	1754	1830	+	GA5:3:1:125:1359#0/1
+chrM	6393	6469	+	GA5:3:1:126:1749#0/1
+chrM	8906	8982	-	GA5:3:1:126:102#0/1
+chrM	3919	3995	-	GA5:3:1:127:288#0/1
+chrM	10951	11027	+	GA5:3:1:126:1454#0/1
+chrM	6624	6700	-	GA5:3:1:127:711#0/1
+chrM	7883	7959	+	GA5:3:1:130:1391#0/1
+chr1	567275	567351	+	GA5:3:1:129:1716#0/1
+chrM	6483	6559	+	GA5:3:1:131:1895#0/1
+chrM	9937	10013	-	GA5:3:1:132:1632#0/1
+chrM	6529	6605	-	GA5:3:1:132:1866#0/1
+chrM	3650	3726	-	GA5:3:1:131:1555#0/1
+chrM	10905	10981	-	GA5:3:1:133:152#0/1
+chrM	8023	8099	+	GA5:3:1:133:261#0/1
+chrM	10902	10978	+	GA5:3:1:133:884#0/1
+chrM	6461	6537	+	GA5:3:1:133:793#0/1
+chrM	13049	13125	-	GA5:3:1:134:409#0/1
+chrM	11515	11591	-	GA5:3:1:134:937#0/1
+chrM	5360	5436	-	GA5:3:1:135:4#0/1
+chrM	11605	11681	+	GA5:3:1:136:764#0/1
+chrM	2357	2433	-	GA5:3:1:136:1126#0/1
+chrM	6309	6385	+	GA5:3:1:137:774#0/1
+chr1	567281	567357	+	GA5:3:1:136:1459#0/1
+chr7	45291595	45291671	-	GA5:3:1:137:385#0/1
+chrM	14614	14690	-	GA5:3:1:138:1810#0/1
+chrM	2978	3054	-	GA5:3:1:138:422#0/1
+chrM	7048	7124	-	GA5:3:1:138:1360#0/1
+chrM	11084	11160	-	GA5:3:1:139:124#0/1
+chrM	2259	2335	-	GA5:3:1:139:1525#0/1
+chrM	5416	5492	-	GA5:3:1:140:1536#0/1
+chr5	134263614	134263690	-	GA5:3:1:140:1015#0/1
+chrM	14179	14255	-	GA5:3:1:140:1072#0/1
+chr1	566599	566675	+	GA5:3:1:141:9#0/1
+chrM	14895	14971	-	GA5:3:1:141:734#0/1
+chr13	110076472	110076548	+	GA5:3:1:141:473#0/1
+chrM	7849	7925	-	GA5:3:1:141:1890#0/1
+chrM	14822	14898	+	GA5:3:1:143:1226#0/1
+chr1	569878	569954	+	GA5:3:1:142:635#0/1
+chrM	3272	3348	-	GA5:3:1:141:548#0/1
+chrM	12276	12352	-	GA5:3:1:143:1775#0/1
+chrM	5839	5915	+	GA5:3:1:144:603#0/1
+chrM	9009	9085	+	GA5:3:1:143:1215#0/1
+chr1	569321	569397	-	GA5:3:1:145:350#0/1
+chrM	11416	11492	-	GA5:3:1:145:644#0/1
+chrM	3866	3942	-	GA5:3:1:146:75#0/1
+chrM	11415	11491	-	GA5:3:1:145:1743#0/1
+chrM	9583	9659	-	GA5:3:1:146:229#0/1
+chrM	10422	10498	-	GA5:3:1:146:1848#0/1
+chrM	9066	9142	+	GA5:3:1:147:11#0/1
+chrM	11515	11591	-	GA5:3:1:147:148#0/1
+chrM	15452	15528	+	GA5:3:1:148:1088#0/1
+chrM	239	315	+	GA5:3:1:147:1796#0/1
+chrM	16322	16398	+	GA5:3:1:148:200#0/1
+chrM	1012	1088	-	GA5:3:1:149:607#0/1
+chrM	6176	6252	-	GA5:3:1:150:1681#0/1
+chrM	10809	10885	+	GA5:3:1:145:528#0/1
+chr1	568094	568170	-	GA5:3:1:151:1905#0/1
+chrM	13321	13397	-	GA5:3:1:152:1759#0/1
+chrM	5752	5828	-	GA5:3:1:151:117#0/1
+chrM	4132	4208	+	GA5:3:1:152:348#0/1
+chrM	16250	16326	-	GA5:3:1:150:1406#0/1
+chrM	10796	10872	+	GA5:3:1:153:1969#0/1
+chrM	11898	11974	-	GA5:3:1:155:1916#0/1
+chr1	564877	564953	+	GA5:3:1:154:190#0/1
+chrM	8256	8332	+	GA5:3:1:155:1870#0/1
+chrM	15488	15564	+	GA5:3:1:156:1707#0/1
+chrM	2804	2880	+	GA5:3:1:157:280#0/1
+chrM	4878	4954	+	GA5:3:1:156:977#0/1
+chrM	11258	11334	-	GA5:3:1:157:1848#0/1
+chrM	4153	4229	+	GA5:3:1:158:172#0/1
+chrM	11225	11301	-	GA5:3:1:158:451#0/1
+chrM	892	968	-	GA5:3:1:159:1719#0/1
+chrM	4399	4475	-	GA5:3:1:158:1248#0/1
+chr18	45379660	45379736	-	GA5:3:1:158:147#0/1
+chrM	9171	9247	-	GA5:3:1:160:1547#0/1
+chrM	3176	3252	+	GA5:3:1:160:687#0/1
+chrM	1013	1089	-	GA5:3:1:161:170#0/1
+chrM	6704	6780	+	GA5:3:1:161:1744#0/1
+chrM	8749	8825	-	GA5:3:1:161:1370#0/1
+chrM	7066	7142	+	GA5:3:1:161:786#0/1
+chrM	11180	11256	+	GA5:3:1:163:213#0/1
+chrM	8322	8398	+	GA5:3:1:163:300#0/1
+chr1	567957	568033	+	GA5:3:1:163:493#0/1
+chrM	12819	12895	-	GA5:3:1:163:1069#0/1
+chr5	134260214	134260290	+	GA5:3:1:165:1929#0/1
+chrM	420	496	+	GA5:3:1:164:263#0/1
+chrM	3397	3473	-	GA5:3:1:164:1037#0/1
+chrM	9718	9794	-	GA5:3:1:166:14#0/1
+chr5	134263411	134263487	-	GA5:3:1:167:897#0/1
+chrM	14912	14988	-	GA5:3:1:166:1121#0/1
+chr1	568792	568868	-	GA5:3:1:168:466#0/1
+chrM	14376	14452	-	GA5:3:1:169:469#0/1
+chrM	15473	15549	-	GA5:3:1:170:1990#0/1
+chrM	4212	4288	+	GA5:3:1:168:531#0/1
+chrM	235	311	+	GA5:3:1:169:257#0/1
+chrM	5094	5170	+	GA5:3:1:170:206#0/1
+chrM	4701	4777	-	GA5:3:1:174:968#0/1
+chr1	567602	567678	-	GA5:3:1:174:359#0/1
+chrM	10938	11014	+	GA5:3:1:174:1235#0/1
+chrM	420	496	+	GA5:3:1:174:1870#0/1
+chrM	5114	5190	+	GA5:3:1:175:842#0/1
+chrM	11791	11867	-	GA5:3:1:176:1895#0/1
+chrM	11390	11466	+	GA5:3:1:179:872#0/1
+chrM	1225	1301	-	GA5:3:1:178:724#0/1
+chrM	3047	3123	-	GA5:3:1:180:469#0/1
+chrM	4385	4461	-	GA5:3:1:179:0#0/1
+chrM	11200	11276	-	GA5:3:1:183:1380#0/1
+chrM	3851	3927	-	GA5:3:1:181:113#0/1
+chrM	4926	5002	+	GA5:3:1:183:1147#0/1
+chrM	2816	2892	+	GA5:3:1:178:594#0/1
+chrM	7291	7367	+	GA5:3:1:184:1316#0/1
+chrM	11092	11168	-	GA5:3:1:184:595#0/1
+chrM	26	102	+	GA5:3:1:184:321#0/1
+chrM	10355	10431	+	GA5:3:1:185:1665#0/1
+chrM	1568	1644	+	GA5:3:1:185:1489#0/1
+chrM	11392	11468	+	GA5:3:1:186:48#0/1
+chrM	5798	5874	-	GA5:3:1:186:1149#0/1
+chrM	14694	14770	+	GA5:3:1:185:695#0/1
+chrM	13875	13951	-	GA5:3:1:186:79#0/1
+chr1	567902	567978	-	GA5:3:1:188:1579#0/1
+chr1	568804	568880	-	GA5:3:1:188:143#0/1
+chrM	4812	4888	-	GA5:3:1:189:54#0/1
+chr1	568073	568149	+	GA5:3:1:190:47#0/1
+chrM	4558	4634	-	GA5:3:1:190:942#0/1
+chrM	6420	6496	+	GA5:3:1:190:1501#0/1
+chrM	12281	12357	+	GA5:3:1:190:10#0/1
+chr1	567571	567647	-	GA5:3:1:190:115#0/1
+chrM	4033	4109	-	GA5:3:1:191:1028#0/1
+chrM	15496	15572	+	GA5:3:1:191:679#0/1
+chrM	3602	3678	+	GA5:3:1:191:1675#0/1
+chrM	9106	9182	-	GA5:3:1:191:1941#0/1
+chr5	134263406	134263482	-	GA5:3:1:192:946#0/1
+chrM	16051	16127	-	GA5:3:1:192:307#0/1
+chrM	10840	10916	+	GA5:3:1:192:907#0/1
+chrM	6801	6877	+	GA5:3:1:192:632#0/1
+chrM	2799	2875	-	GA5:3:1:193:1404#0/1
+chrM	12419	12495	+	GA5:3:1:193:1223#0/1
+chrM	1101	1177	+	GA5:3:1:194:286#0/1
+chrM	10421	10497	+	GA5:3:1:194:290#0/1
+chrM	11275	11351	-	GA5:3:1:194:1585#0/1
+chrM	11075	11151	+	GA5:3:1:195:193#0/1
+chrM	7886	7962	-	GA5:3:1:194:1786#0/1
+chrM	16033	16109	+	GA5:3:1:196:162#0/1
+chrM	4255	4331	-	GA5:3:1:195:1872#0/1
+chrM	13766	13842	-	GA5:3:1:196:137#0/1
+chrM	15943	16019	-	GA5:3:1:196:1042#0/1
+chrM	6064	6140	-	GA5:3:1:196:1036#0/1
+chr1	567894	567970	+	GA5:3:1:196:367#0/1
+chrM	10668	10744	-	GA5:3:1:197:1705#0/1
+chrM	8496	8572	+	GA5:3:1:198:1613#0/1
+chrM	16271	16347	-	GA5:3:1:196:1626#0/1
+chr1	569382	569458	-	GA5:3:1:199:1635#0/1
+chrM	7950	8026	-	GA5:3:1:200:1321#0/1
+chrM	7717	7793	+	GA5:3:1:201:872#0/1
+chrM	9241	9317	-	GA5:3:1:202:100#0/1
+chrM	13783	13859	-	GA5:3:1:202:706#0/1
+chrM	4885	4961	-	GA5:3:1:202:865#0/1
+chrM	3929	4005	-	GA5:3:1:203:1231#0/1
+chrM	3741	3817	+	GA5:3:1:204:528#0/1
+chr9	33658974	33659050	-	GA5:3:1:204:1789#0/1
+chrM	11889	11965	+	GA5:3:1:205:1026#0/1
+chrM	13119	13195	-	GA5:3:1:204:1298#0/1
+chrM	3874	3950	+	GA5:3:1:206:68#0/1
+chrM	3422	3498	+	GA5:3:1:201:1544#0/1
+chr5	134259813	134259889	-	GA5:3:1:206:918#0/1
+chrM	15043	15119	+	GA5:3:1:206:600#0/1
+chrM	6634	6710	-	GA5:3:1:206:155#0/1
+chrM	11221	11297	+	GA5:3:1:206:1358#0/1
+chrM	13462	13538	+	GA5:3:1:206:749#0/1
+chrM	10796	10872	+	GA5:3:1:207:1409#0/1
+chrM	5955	6031	+	GA5:3:1:208:683#0/1
+chr11	10529688	10529764	-	GA5:3:1:207:1021#0/1
+chrM	2862	2938	-	GA5:3:1:207:1762#0/1
+chrM	8157	8233	+	GA5:3:1:209:281#0/1
+chrM	6781	6857	+	GA5:3:1:208:655#0/1
+chr1	567555	567631	+	GA5:3:1:210:1081#0/1
+chrM	2089	2165	-	GA5:3:1:208:1256#0/1
+chrM	10663	10739	-	GA5:3:1:210:680#0/1
+chrM	13240	13316	-	GA5:3:1:211:142#0/1
+chrM	15437	15513	+	GA5:3:1:212:1819#0/1
+chr1	566620	566696	+	GA5:3:1:212:226#0/1
+chrM	5680	5756	-	GA5:3:1:212:276#0/1
+chrM	77	153	-	GA5:3:1:210:1710#0/1
+chrM	9139	9215	+	GA5:3:1:213:1377#0/1
+chr1	564695	564771	+	GA5:3:1:214:617#0/1
+chrM	3155	3231	+	GA5:3:1:214:175#0/1
+chrM	2816	2892	+	GA5:3:1:214:1567#0/1
+chrM	7477	7553	+	GA5:3:1:214:262#0/1
+chrM	8879	8955	+	GA5:3:1:214:933#0/1
+chrM	8860	8936	+	GA5:3:1:214:217#0/1
+chrM	4706	4782	+	GA5:3:1:216:1701#0/1
+chrM	6466	6542	-	GA5:3:1:217:891#0/1
+chrM	13439	13515	+	GA5:3:1:215:1144#0/1
+chrM	4166	4242	+	GA5:3:1:217:568#0/1
+chrM	9147	9223	-	GA5:3:1:217:1664#0/1
+chr3	96336311	96336387	-	GA5:3:1:217:1833#0/1
+chrM	9272	9348	-	GA5:3:1:218:216#0/1
+chrM	10928	11004	-	GA5:3:1:218:1358#0/1
+chrM	5040	5116	+	GA5:3:1:218:1630#0/1
+chrM	10030	10106	+	GA5:3:1:219:1693#0/1
+chrM	14452	14528	-	GA5:3:1:219:677#0/1
+chrM	13808	13884	-	GA5:3:1:219:1089#0/1
+chrM	310	386	-	GA5:3:1:220:1479#0/1
+chrM	6445	6521	-	GA5:3:1:220:184#0/1
+chrM	9707	9783	-	GA5:3:1:221:910#0/1
+chrM	6447	6523	-	GA5:3:1:221:216#0/1
+chrM	7578	7654	+	GA5:3:1:221:1614#0/1
+chrM	4896	4972	+	GA5:3:1:221:147#0/1
+chrM	11515	11591	-	GA5:3:1:223:1221#0/1
+chrM	10946	11022	-	GA5:3:1:222:1733#0/1
+chrM	6842	6918	+	GA5:3:1:225:1169#0/1
+chrM	495	571	+	GA5:3:1:220:485#0/1
+chrM	5505	5581	-	GA5:3:1:224:1266#0/1
+chrM	11721	11797	+	GA5:3:1:219:833#0/1
+chrM	15651	15727	-	GA5:3:1:225:1130#0/1
+chrM	2110	2186	+	GA5:3:1:226:398#0/1
+chr1	568855	568931	-	GA5:3:1:227:1794#0/1
+chrM	8051	8127	-	GA5:3:1:227:995#0/1
+chrM	14308	14384	-	GA5:3:1:225:1174#0/1
+chr1	567878	567954	+	GA5:3:1:227:1815#0/1
+chrM	6304	6380	-	GA5:3:1:229:1982#0/1
+chrM	7969	8045	-	GA5:3:1:228:1113#0/1
+chrM	6293	6369	-	GA5:3:1:230:1016#0/1
+chrM	818	894	+	GA5:3:1:231:1353#0/1
+chrM	14261	14337	-	GA5:3:1:232:1298#0/1
+chrM	11374	11450	+	GA5:3:1:232:514#0/1
+chrM	8045	8121	-	GA5:3:1:233:1217#0/1
+chrM	8681	8757	+	GA5:3:1:232:1971#0/1
+chrM	3486	3562	-	GA5:3:1:233:1277#0/1
+chr1	566494	566570	+	GA5:3:1:233:903#0/1
+chrM	9878	9954	-	GA5:3:1:233:970#0/1
+chr1	564505	564581	+	GA5:3:1:234:1415#0/1
+chrM	11417	11493	+	GA5:3:1:234:1143#0/1
+chrM	15652	15728	+	GA5:3:1:235:1863#0/1
+chrM	5104	5180	+	GA5:3:1:235:1036#0/1
+chrM	3164	3240	+	GA5:3:1:235:1129#0/1
+chrM	11719	11795	-	GA5:3:1:235:4#0/1
+chrM	395	471	+	GA5:3:1:235:1636#0/1
+chrM	3166	3242	+	GA5:3:1:236:962#0/1
+chrM	9042	9118	+	GA5:3:1:233:1838#0/1
+chrM	10915	10991	+	GA5:3:1:235:1166#0/1
+chrM	8037	8113	-	GA5:3:1:237:525#0/1
+chrM	10604	10680	-	GA5:3:1:237:37#0/1
+chrM	15976	16052	+	GA5:3:1:237:967#0/1
+chrM	7775	7851	-	GA5:3:1:237:1496#0/1
+chrM	11581	11657	-	GA5:3:1:237:1125#0/1
+chrM	773	849	-	GA5:3:1:239:1057#0/1
+chrM	16288	16364	-	GA5:3:1:238:1759#0/1
+chrM	1281	1357	+	GA5:3:1:239:855#0/1
+chrM	1657	1733	+	GA5:3:1:240:348#0/1
+chrM	10176	10252	-	GA5:3:1:240:94#0/1
+chrM	3185	3261	-	GA5:3:1:241:1734#0/1
+chrM	6377	6453	-	GA5:3:1:241:968#0/1
+chrM	11399	11475	+	GA5:3:1:244:198#0/1
+chrM	10678	10754	-	GA5:3:1:244:1599#0/1
+chrM	1452	1528	-	GA5:3:1:244:1912#0/1
+chrM	11618	11694	-	GA5:3:1:245:362#0/1
+chrM	13579	13655	-	GA5:3:1:244:1135#0/1
+chrM	15858	15934	+	GA5:3:1:244:1621#0/1
+chrM	9293	9369	-	GA5:3:1:245:1065#0/1
+chrM	1083	1159	+	GA5:3:1:246:764#0/1
+chrM	2816	2892	+	GA5:3:1:246:701#0/1
+chrM	2730	2806	+	GA5:3:1:247:437#0/1
+chrM	8902	8978	+	GA5:3:1:247:26#0/1
+chrM	4252	4328	+	GA5:3:1:247:820#0/1
+chrM	11609	11685	-	GA5:3:1:248:1725#0/1
+chrM	10880	10956	+	GA5:3:1:247:565#0/1
+chrM	13288	13364	-	GA5:3:1:250:163#0/1
+chrM	676	752	+	GA5:3:1:250:1216#0/1
+chrM	793	869	-	GA5:3:1:250:872#0/1
+chrM	8931	9007	+	GA5:3:1:252:1164#0/1
+chrM	3544	3620	+	GA5:3:1:251:243#0/1
+chrM	3696	3772	+	GA5:3:1:253:1759#0/1
+chrM	9368	9444	-	GA5:3:1:253:92#0/1
+chrM	2816	2892	+	GA5:3:1:255:789#0/1
+chrM	9102	9178	+	GA5:3:1:252:1110#0/1
+chrM	2980	3056	-	GA5:3:1:254:530#0/1
+chr1	567271	567347	+	GA5:3:1:256:840#0/1
+chrM	9582	9658	-	GA5:3:1:255:732#0/1
+chrM	13325	13401	-	GA5:3:1:256:794#0/1
+chrM	7896	7972	+	GA5:3:1:258:1864#0/1
+chrM	3345	3421	-	GA5:3:1:257:1754#0/1
+chrM	16365	16441	+	GA5:3:1:258:566#0/1
+chrM	10811	10887	-	GA5:3:1:257:1992#0/1
+chr1	569902	569978	-	GA5:3:1:259:193#0/1
+chrM	3314	3390	-	GA5:3:1:259:466#0/1
+chrM	15883	15959	-	GA5:3:1:259:841#0/1
+chr1	564724	564800	-	GA5:3:1:259:1579#0/1
+chrM	4714	4790	-	GA5:3:1:261:1344#0/1
+chrM	16468	16544	-	GA5:3:1:261:260#0/1
+chrM	6558	6634	-	GA5:3:1:262:807#0/1
+chrM	8279	8355	+	GA5:3:1:262:1989#0/1
+chrM	1881	1957	+	GA5:3:1:263:989#0/1
+chrM	10313	10389	-	GA5:3:1:263:1859#0/1
+chrM	12145	12221	+	GA5:3:1:265:357#0/1
+chrM	12198	12274	+	GA5:3:1:265:1168#0/1
+chrM	13527	13603	-	GA5:3:1:266:1591#0/1
+chrM	11054	11130	-	GA5:3:1:267:532#0/1
+chrM	2819	2895	+	GA5:3:1:267:178#0/1
+chrM	15764	15840	+	GA5:3:1:268:587#0/1
+chrM	13208	13284	+	GA5:3:1:261:133#0/1
+chrM	516	592	+	GA5:3:1:268:1979#0/1
+chrM	14986	15062	+	GA5:3:1:265:1679#0/1
+chrM	6236	6312	+	GA5:3:1:269:0#0/1
+chrM	9719	9795	+	GA5:3:1:271:508#0/1
+chrM	10293	10369	-	GA5:3:1:273:745#0/1
+chrM	11050	11126	+	GA5:3:1:273:1161#0/1
+chrM	1352	1428	-	GA5:3:1:273:1629#0/1
+chrM	843	919	+	GA5:3:1:273:1611#0/1
+chr5	79947252	79947328	-	GA5:3:1:273:1624#0/1
+chrM	4199	4275	-	GA5:3:1:273:1799#0/1
+chrM	14674	14750	-	GA5:3:1:274:687#0/1
+chrM	15289	15365	-	GA5:3:1:275:50#0/1
+chrM	13553	13629	-	GA5:3:1:275:1970#0/1
+chrM	2816	2892	+	GA5:3:1:277:718#0/1
+chrM	10274	10350	-	GA5:3:1:276:84#0/1
+chrM	691	767	-	GA5:3:1:276:1892#0/1
+chrM	3523	3599	+	GA5:3:1:277:1982#0/1
+chr1	567903	567979	+	GA5:3:1:276:1692#0/1
+chrM	11291	11367	+	GA5:3:1:277:1664#0/1
+chrM	9494	9570	-	GA5:3:1:277:675#0/1
+chrM	9917	9993	-	GA5:3:1:279:1440#0/1
+chrM	2184	2260	+	GA5:3:1:280:910#0/1
+chrM	2202	2278	-	GA5:3:1:281:1665#0/1
+chrM	14827	14903	+	GA5:3:1:281:1721#0/1
+chrM	9116	9192	-	GA5:3:1:281:1007#0/1
+chrM	12049	12125	-	GA5:3:1:281:410#0/1
+chr6	62284081	62284157	+	GA5:3:1:281:1663#0/1
+chrM	8153	8229	+	GA5:3:1:282:874#0/1
+chrM	6592	6668	-	GA5:3:1:281:517#0/1
+chrM	7578	7654	+	GA5:3:1:283:920#0/1
+chrM	3314	3390	-	GA5:3:1:284:512#0/1
+chrM	12063	12139	-	GA5:3:1:285:1895#0/1
+chrM	7082	7158	-	GA5:3:1:283:1465#0/1
+chrM	13050	13126	-	GA5:3:1:285:854#0/1
+chrM	3747	3823	-	GA5:3:1:285:1775#0/1
+chrM	10833	10909	-	GA5:3:1:286:905#0/1
+chrM	10742	10818	-	GA5:3:1:289:717#0/1
+chrM	11066	11142	-	GA5:3:1:290:290#0/1
+chrM	2816	2892	+	GA5:3:1:290:211#0/1
+chrM	3553	3629	-	GA5:3:1:291:533#0/1
+chr1	569068	569144	-	GA5:3:1:291:102#0/1
+chrM	9590	9666	+	GA5:3:1:292:1628#0/1
+chrM	2048	2124	-	GA5:3:1:291:832#0/1
+chrM	9815	9891	+	GA5:3:1:292:992#0/1
+chrM	3314	3390	-	GA5:3:1:292:1448#0/1
+chrM	13055	13131	+	GA5:3:1:293:912#0/1
+chrM	2760	2836	-	GA5:3:1:294:548#0/1
+chrM	3779	3855	-	GA5:3:1:294:1438#0/1
+chrM	10951	11027	-	GA5:3:1:294:431#0/1
+chrM	1532	1608	-	GA5:3:1:295:1615#0/1
+chrM	11772	11848	+	GA5:3:1:296:711#0/1
+chrM	1359	1435	+	GA5:3:1:295:1527#0/1
+chrM	15988	16064	-	GA5:3:1:298:1240#0/1
+chrM	4956	5032	+	GA5:3:1:299:1039#0/1
+chrM	2963	3039	-	GA5:3:1:297:1448#0/1
+chr1	567336	567412	-	GA5:3:1:300:1225#0/1
+chrM	2110	2186	-	GA5:3:1:301:1093#0/1
+chrM	3258	3334	+	GA5:3:1:301:1802#0/1
+chr5	134263454	134263530	-	GA5:3:1:301:1236#0/1
+chrM	8869	8945	+	GA5:3:1:301:363#0/1
+chrM	9229	9305	+	GA5:3:1:301:751#0/1
+chrM	6579	6655	-	GA5:3:1:302:403#0/1
+chrM	5779	5855	-	GA5:3:1:302:560#0/1
+chrM	12474	12550	+	GA5:3:1:302:1689#0/1
+chrM	2034	2110	-	GA5:3:1:302:958#0/1
+chrM	3141	3217	-	GA5:3:1:303:1216#0/1
+chrM	12218	12294	-	GA5:3:1:304:1597#0/1
+chrM	9137	9213	+	GA5:3:1:304:715#0/1
+chrM	942	1018	-	GA5:3:1:304:207#0/1
+chrM	2929	3005	+	GA5:3:1:306:340#0/1
+chrM	1414	1490	-	GA5:3:1:307:1969#0/1
+chrM	5327	5403	-	GA5:3:1:307:1941#0/1
+chr17	22023721	22023797	-	GA5:3:1:309:428#0/1
+chrM	11067	11143	+	GA5:3:1:310:278#0/1
+chrM	12329	12405	+	GA5:3:1:312:1973#0/1
+chrM	12612	12688	+	GA5:3:1:310:1459#0/1
+chr1	567541	567617	+	GA5:3:1:313:706#0/1
+chrM	2818	2894	+	GA5:3:1:314:1246#0/1
+chrM	12488	12564	-	GA5:3:1:313:1472#0/1
+chrM	5293	5369	+	GA5:3:1:315:338#0/1
+chrM	8194	8270	+	GA5:3:1:314:132#0/1
+chrM	11313	11389	-	GA5:3:1:316:472#0/1
+chrM	15065	15141	-	GA5:3:1:316:1193#0/1
+chrM	14965	15041	-	GA5:3:1:315:772#0/1
+chrM	10333	10409	-	GA5:3:1:314:418#0/1
+chrM	8351	8427	+	GA5:3:1:316:938#0/1
+chrM	3535	3611	-	GA5:3:1:316:1359#0/1
+chrM	6366	6442	-	GA5:3:1:317:1923#0/1
+chrM	2738	2814	-	GA5:3:1:317:60#0/1
+chr17	22023745	22023821	+	GA5:3:1:316:537#0/1
+chrM	16084	16160	-	GA5:3:1:317:897#0/1
+chr1	569903	569979	+	GA5:3:1:318:574#0/1
+chrM	832	908	-	GA5:3:1:318:1958#0/1
+chrM	5348	5424	-	GA5:3:1:318:305#0/1
+chrM	15288	15364	-	GA5:3:1:319:671#0/1
+chrM	12508	12584	-	GA5:3:1:319:15#0/1
+chrM	5346	5422	+	GA5:3:1:320:1170#0/1
+chrM	5850	5926	-	GA5:3:1:320:1921#0/1
+chrM	7255	7331	-	GA5:3:1:318:1966#0/1
+chrM	13798	13874	+	GA5:3:1:320:1346#0/1
+chr1	564464	564540	-	GA5:3:1:320:380#0/1
+chrM	8421	8497	+	GA5:3:1:322:241#0/1
+chrM	6910	6986	-	GA5:3:1:322:946#0/1
+chrM	15124	15200	-	GA5:3:1:322:1386#0/1
+chrM	7287	7363	+	GA5:3:1:323:711#0/1
+chrM	4946	5022	+	GA5:3:1:324:1685#0/1
+chrM	14314	14390	+	GA5:3:1:324:375#0/1
+chrM	15363	15439	-	GA5:3:1:324:1120#0/1
+chrM	2346	2422	+	GA5:3:1:319:1499#0/1
+chrM	11124	11200	+	GA5:3:1:324:466#0/1
+chr1	567514	567590	+	GA5:3:1:324:1231#0/1
+chrM	4665	4741	-	GA5:3:1:325:1750#0/1
+chrM	3366	3442	-	GA5:3:1:325:41#0/1
+chr1	569857	569933	-	GA5:3:1:325:13#0/1
+chrM	4786	4862	-	GA5:3:1:325:1334#0/1
+chrM	3536	3612	-	GA5:3:1:326:1009#0/1
+chrM	8273	8349	-	GA5:3:1:326:785#0/1
+chrM	10604	10680	+	GA5:3:1:326:827#0/1
+chrM	8343	8419	+	GA5:3:1:325:1773#0/1
+chrM	7121	7197	-	GA5:3:1:326:1761#0/1
+chrM	2816	2892	+	GA5:3:1:327:1725#0/1
+chrM	1589	1665	-	GA5:3:1:327:1413#0/1
+chrM	5372	5448	-	GA5:3:1:327:426#0/1
+chr1	568483	568559	-	GA5:3:1:329:486#0/1
+chrM	15853	15929	-	GA5:3:1:328:806#0/1
+chrM	2861	2937	+	GA5:3:1:329:1087#0/1
+chrM	7209	7285	+	GA5:3:1:329:842#0/1
+chrM	9836	9912	-	GA5:3:1:329:478#0/1
+chrM	12185	12261	-	GA5:3:1:330:1136#0/1
+chrM	13832	13908	-	GA5:3:1:330:166#0/1
+chrM	7789	7865	+	GA5:3:1:331:1027#0/1
+chrM	4318	4394	-	GA5:3:1:331:810#0/1
+chrM	9787	9863	+	GA5:3:1:331:278#0/1
+chrM	14017	14093	-	GA5:3:1:331:1947#0/1
+chrM	13058	13134	-	GA5:3:1:332:325#0/1
+chrM	6046	6122	-	GA5:3:1:333:155#0/1
+chrM	2350	2426	+	GA5:3:1:327:364#0/1
+chrM	7201	7277	-	GA5:3:1:333:1601#0/1
+chrM	11145	11221	+	GA5:3:1:334:1026#0/1
+chrM	6757	6833	-	GA5:3:1:333:1545#0/1
+chrM	9485	9561	+	GA5:3:1:335:1755#0/1
+chrM	12688	12764	-	GA5:3:1:335:1597#0/1
+chrM	5083	5159	+	GA5:3:1:335:941#0/1
+chrM	11354	11430	-	GA5:3:1:336:1945#0/1
+chrM	16485	16561	-	GA5:3:1:336:87#0/1
+chrM	12347	12423	+	GA5:3:1:336:221#0/1
+chrM	7204	7280	+	GA5:3:1:336:1091#0/1
+chrM	8040	8116	-	GA5:3:1:336:1916#0/1
+chrM	3701	3777	-	GA5:3:1:336:531#0/1
+chrM	400	476	-	GA5:3:1:337:420#0/1
+chrM	10483	10559	+	GA5:3:1:338:1754#0/1
+chr1	569286	569362	-	GA5:3:1:338:1991#0/1
+chrM	7122	7198	-	GA5:3:1:339:1836#0/1
+chrM	7081	7157	-	GA5:3:1:339:1286#0/1
+chr5	134259841	134259917	-	GA5:3:1:340:1081#0/1
+chrM	10965	11041	+	GA5:3:1:340:385#0/1
+chrM	708	784	+	GA5:3:1:341:78#0/1
+chrM	4655	4731	-	GA5:3:1:341:366#0/1
+chrM	1182	1258	-	GA5:3:1:342:1207#0/1
+chrM	2748	2824	+	GA5:3:1:342:1904#0/1
+chr1	565770	565846	+	GA5:3:1:342:1812#0/1
+chrM	5147	5223	+	GA5:3:1:344:169#0/1
+chrM	5507	5583	+	GA5:3:1:343:17#0/1
+chrM	1750	1826	-	GA5:3:1:343:800#0/1
+chrM	11017	11093	-	GA5:3:1:344:692#0/1
+chrM	11224	11300	-	GA5:3:1:345:1886#0/1
+chrM	3825	3901	-	GA5:3:1:346:432#0/1
+chrM	15613	15689	-	GA5:3:1:349:1448#0/1
+chrM	7536	7612	-	GA5:3:1:347:786#0/1
+chrM	13045	13121	-	GA5:3:1:349:804#0/1
+chrM	14403	14479	-	GA5:3:1:349:1239#0/1
+chrM	12541	12617	-	GA5:3:1:350:754#0/1
+chrM	13561	13637	-	GA5:3:1:350:38#0/1
+chrM	110	186	+	GA5:3:1:350:918#0/1
+chrM	7145	7221	-	GA5:3:1:351:999#0/1
+chr17	22023719	22023795	-	GA5:3:1:351:950#0/1
+chrM	3397	3473	-	GA5:3:1:352:1006#0/1
+chrM	3390	3466	+	GA5:3:1:351:312#0/1
+chrM	2344	2420	-	GA5:3:1:352:1832#0/1
+chrM	7891	7967	-	GA5:3:1:352:1360#0/1
+chrM	10934	11010	-	GA5:3:1:353:352#0/1
+chrM	15433	15509	-	GA5:3:1:352:63#0/1
+chrM	3337	3413	+	GA5:3:1:353:844#0/1
+chrM	6474	6550	-	GA5:3:1:354:1491#0/1
+chrM	11837	11913	+	GA5:3:1:353:1239#0/1
+chrM	13862	13938	+	GA5:3:1:354:768#0/1
+chrM	5411	5487	-	GA5:3:1:354:27#0/1
+chrM	10514	10590	+	GA5:3:1:354:1355#0/1
+chrM	8413	8489	+	GA5:3:1:356:1541#0/1
+chrM	15375	15451	-	GA5:3:1:356:1351#0/1
+chr1	569717	569793	+	GA5:3:1:356:611#0/1
+chrM	11380	11456	+	GA5:3:1:357:1820#0/1
+chr1	566164	566240	-	GA5:3:1:357:1690#0/1
+chr1	566667	566743	+	GA5:3:1:357:1552#0/1
+chrM	3173	3249	+	GA5:3:1:358:1526#0/1
+chrM	10233	10309	-	GA5:3:1:358:1454#0/1
+chrM	3992	4068	-	GA5:3:1:358:1695#0/1
+chrM	16338	16414	+	GA5:3:1:359:766#0/1
+chrM	9010	9086	-	GA5:3:1:358:230#0/1
+chrM	12729	12805	+	GA5:3:1:356:1079#0/1
+chrM	6394	6470	-	GA5:3:1:359:1358#0/1
+chrM	6142	6218	+	GA5:3:1:360:524#0/1
+chrM	4363	4439	-	GA5:3:1:361:850#0/1
+chrM	2944	3020	-	GA5:3:1:361:1260#0/1
+chr5	134263378	134263454	-	GA5:3:1:359:470#0/1
+chrM	13831	13907	-	GA5:3:1:362:271#0/1
+chrM	13023	13099	-	GA5:3:1:362:103#0/1
+chrM	10640	10716	+	GA5:3:1:362:514#0/1
+chrM	2145	2221	-	GA5:3:1:362:795#0/1
+chrM	12006	12082	-	GA5:3:1:362:1043#0/1
+chrM	5093	5169	-	GA5:3:1:363:1544#0/1
+chrM	9773	9849	+	GA5:3:1:363:1013#0/1
+chrM	1591	1667	+	GA5:3:1:363:1219#0/1
+chrM	443	519	+	GA5:3:1:363:1680#0/1
+chrM	10852	10928	-	GA5:3:1:362:1409#0/1
+chrM	16255	16331	-	GA5:3:1:363:1573#0/1
+chrM	15014	15090	+	GA5:3:1:363:392#0/1
+chrM	11515	11591	-	GA5:3:1:364:678#0/1
+chrM	2816	2892	+	GA5:3:1:364:591#0/1
+chrM	12031	12107	+	GA5:3:1:364:940#0/1
+chrM	3700	3776	+	GA5:3:1:364:738#0/1
+chrM	7218	7294	-	GA5:3:1:364:1037#0/1
+chrM	3314	3390	-	GA5:3:1:365:1803#0/1
+chrM	3935	4011	-	GA5:3:1:365:1779#0/1
+chrM	9536	9612	-	GA5:3:1:365:997#0/1
+chrM	3994	4070	-	GA5:3:1:365:284#0/1
+chrM	9513	9589	+	GA5:3:1:365:1695#0/1
+chrM	4616	4692	-	GA5:3:1:365:754#0/1
+chr11	10530763	10530839	+	GA5:3:1:367:1331#0/1
+chrM	13156	13232	+	GA5:3:1:367:431#0/1
+chrM	12212	12288	+	GA5:3:1:369:624#0/1
+chrM	1964	2040	-	GA5:3:1:369:1920#0/1
+chr1	567269	567345	-	GA5:3:1:369:424#0/1
+chrM	5448	5524	+	GA5:3:1:370:1782#0/1
+chrM	978	1054	-	GA5:3:1:370:600#0/1
+chrM	4651	4727	-	GA5:3:1:370:288#0/1
+chr3	96336206	96336282	-	GA5:3:1:370:1039#0/1
+chrM	10537	10613	+	GA5:3:1:370:1508#0/1
+chrM	10640	10716	+	GA5:3:1:370:534#0/1
+chrM	12895	12971	-	GA5:3:1:370:355#0/1
+chr1	566580	566656	+	GA5:3:1:371:462#0/1
+chrM	2816	2892	+	GA5:3:1:373:1838#0/1
+chrM	7637	7713	-	GA5:3:1:372:98#0/1
+chrM	3874	3950	+	GA5:3:1:374:721#0/1
+chr5	134263381	134263457	-	GA5:3:1:372:440#0/1
+chr5	79947212	79947288	-	GA5:3:1:374:1080#0/1
+chrM	3041	3117	+	GA5:3:1:375:1437#0/1
+chr1	564478	564554	-	GA5:3:1:375:612#0/1
+chrM	8018	8094	-	GA5:3:1:376:1174#0/1
+chrM	11377	11453	+	GA5:3:1:376:67#0/1
+chrM	2600	2676	-	GA5:3:1:376:558#0/1
+chrM	6442	6518	+	GA5:3:1:377:685#0/1
+chrM	465	541	+	GA5:3:1:376:1630#0/1
+chrM	10317	10393	-	GA5:3:1:377:444#0/1
+chrM	13465	13541	-	GA5:3:1:377:1241#0/1
+chrM	2687	2763	-	GA5:3:1:378:252#0/1
+chrM	1579	1655	+	GA5:3:1:379:967#0/1
+chrM	5460	5536	+	GA5:3:1:383:215#0/1
+chrM	54	130	+	GA5:3:1:381:1161#0/1
+chrM	8424	8500	-	GA5:3:1:383:837#0/1
+chrM	6234	6310	-	GA5:3:1:384:782#0/1
+chrM	11515	11591	-	GA5:3:1:384:317#0/1
+chrM	3784	3860	-	GA5:3:1:385:117#0/1
+chrM	2816	2892	+	GA5:3:1:385:153#0/1
+chrM	8859	8935	+	GA5:3:1:385:1135#0/1
+chrM	5082	5158	+	GA5:3:1:386:1152#0/1
+chrM	6666	6742	+	GA5:3:1:387:1466#0/1
+chrM	14287	14363	+	GA5:3:1:387:1263#0/1
+chrM	4369	4445	+	GA5:3:1:386:884#0/1
+chrM	12361	12437	+	GA5:3:1:389:597#0/1
+chrM	3314	3390	-	GA5:3:1:389:1104#0/1
+chrM	2148	2224	+	GA5:3:1:390:1824#0/1
+chr5	134259835	134259911	+	GA5:3:1:390:1946#0/1
+chrM	12519	12595	-	GA5:3:1:391:1187#0/1
+chrM	3582	3658	+	GA5:3:1:390:1884#0/1
+chrM	11384	11460	+	GA5:3:1:391:272#0/1
+chrM	11431	11507	+	GA5:3:1:392:1874#0/1
+chrM	11288	11364	-	GA5:3:1:393:162#0/1
+chrM	1805	1881	-	GA5:3:1:392:1394#0/1
+chrM	10179	10255	+	GA5:3:1:393:1056#0/1
+chrM	3314	3390	-	GA5:3:1:393:860#0/1
+chrM	8780	8856	-	GA5:3:1:394:1561#0/1
+chrM	3734	3810	+	GA5:3:1:395:207#0/1
+chr11	10530095	10530171	+	GA5:3:1:390:112#0/1
+chrM	1385	1461	+	GA5:3:1:397:1357#0/1
+chrM	9675	9751	+	GA5:3:1:398:1207#0/1
+chrM	11084	11160	+	GA5:3:1:398:12#0/1
+chrM	8583	8659	+	GA5:3:1:399:941#0/1
+chrM	3305	3381	+	GA5:3:1:399:1072#0/1
+chrM	8512	8588	-	GA5:3:1:399:1299#0/1
+chrM	11287	11363	-	GA5:3:1:400:488#0/1
+chrM	4790	4866	+	GA5:3:1:399:542#0/1
+chrM	1435	1511	-	GA5:3:1:400:748#0/1
+chr1	567255	567331	-	GA5:3:1:401:673#0/1
+chrM	566	642	-	GA5:3:1:402:1934#0/1
+chrM	13143	13219	-	GA5:3:1:402:1807#0/1
+chrM	12171	12247	-	GA5:3:1:402:283#0/1
+chrM	11264	11340	+	GA5:3:1:399:1484#0/1
+chrM	9209	9285	-	GA5:3:1:402:1896#0/1
+chrM	10940	11016	-	GA5:3:1:403:1595#0/1
+chrM	11515	11591	-	GA5:3:1:404:1551#0/1
+chrM	6685	6761	-	GA5:3:1:405:1600#0/1
+chrM	184	260	-	GA5:3:1:403:1870#0/1
+chrM	31	107	+	GA5:3:1:404:716#0/1
+chrM	11170	11246	+	GA5:3:1:405:1184#0/1
+chrM	15089	15165	-	GA5:3:1:406:336#0/1
+chrM	8123	8199	-	GA5:3:1:405:1223#0/1
+chrM	12144	12220	-	GA5:3:1:406:283#0/1
+chrM	5813	5889	-	GA5:3:1:406:97#0/1
+chrM	15487	15563	+	GA5:3:1:407:686#0/1
+chrM	7975	8051	-	GA5:3:1:406:381#0/1
+chrM	14369	14445	+	GA5:3:1:407:315#0/1
+chrM	4772	4848	+	GA5:3:1:407:846#0/1
+chrM	16483	16559	-	GA5:3:1:407:692#0/1
+chrM	8096	8172	-	GA5:3:1:408:761#0/1
+chrM	34	110	-	GA5:3:1:408:87#0/1
+chrM	10347	10423	+	GA5:3:1:408:1553#0/1
+chrM	14112	14188	+	GA5:3:1:409:1433#0/1
+chrM	6575	6651	+	GA5:3:1:409:571#0/1
+chrM	696	772	+	GA5:3:1:412:395#0/1
+chrM	11790	11866	-	GA5:3:1:410:1990#0/1
+chrM	16268	16344	-	GA5:3:1:411:1317#0/1
+chr13	110076567	110076643	+	GA5:3:1:412:346#0/1
+chrM	1687	1763	+	GA5:3:1:412:1157#0/1
+chrM	10936	11012	-	GA5:3:1:414:1810#0/1
+chrM	3994	4070	+	GA5:3:1:414:1062#0/1
+chr1	566609	566685	+	GA5:3:1:414:1864#0/1
+chrM	3842	3918	+	GA5:3:1:414:976#0/1
+chrM	9306	9382	-	GA5:3:1:413:1773#0/1
+chrM	16224	16300	-	GA5:3:1:415:897#0/1
+chrM	3903	3979	-	GA5:3:1:416:214#0/1
+chrM	2943	3019	-	GA5:3:1:415:549#0/1
+chrM	14533	14609	-	GA5:3:1:417:1892#0/1
+chrM	11515	11591	-	GA5:3:1:417:1023#0/1
+chrM	8482	8558	-	GA5:3:1:418:1783#0/1
+chrM	11515	11591	-	GA5:3:1:419:1023#0/1
+chr1	565758	565834	+	GA5:3:1:419:1785#0/1
+chrM	8485	8561	-	GA5:3:1:419:892#0/1
+chrM	3314	3390	-	GA5:3:1:420:168#0/1
+chrM	11316	11392	-	GA5:3:1:420:617#0/1
+chrM	2370	2446	-	GA5:3:1:421:271#0/1
+chrM	14762	14838	+	GA5:3:1:417:1426#0/1
+chr1	568483	568559	-	GA5:3:1:423:731#0/1
+chrM	3019	3095	+	GA5:3:1:424:54#0/1
+chr1	564926	565002	-	GA5:3:1:424:1669#0/1
+chrM	12573	12649	-	GA5:3:1:424:594#0/1
+chrM	2816	2892	+	GA5:3:1:425:382#0/1
+chrM	14111	14187	-	GA5:3:1:425:932#0/1
+chrM	2462	2538	-	GA5:3:1:425:1589#0/1
+chrM	8469	8545	+	GA5:3:1:421:1967#0/1
+chrM	11092	11168	-	GA5:3:1:425:162#0/1
+chrM	6473	6549	+	GA5:3:1:426:1489#0/1
+chrM	16220	16296	-	GA5:3:1:427:1426#0/1
+chrM	4832	4908	+	GA5:3:1:427:1780#0/1
+chr17	22023725	22023801	-	GA5:3:1:427:1140#0/1
+chr1	567374	567450	-	GA5:3:1:427:420#0/1
+chrM	11821	11897	+	GA5:3:1:429:1694#0/1
+chrM	8061	8137	-	GA5:3:1:430:378#0/1
+chr5	134260199	134260275	-	GA5:3:1:429:1507#0/1
+chrM	9877	9953	-	GA5:3:1:431:248#0/1
+chrM	11833	11909	+	GA5:3:1:428:1466#0/1
+chrM	3658	3734	-	GA5:3:1:432:1011#0/1
+chrM	861	937	-	GA5:3:1:432:381#0/1
+chrM	5607	5683	+	GA5:3:1:432:886#0/1
+chrM	8622	8698	-	GA5:3:1:433:1453#0/1
+chrM	9468	9544	+	GA5:3:1:433:1188#0/1
+chrM	10362	10438	-	GA5:3:1:434:1170#0/1
+chrM	3138	3214	+	GA5:3:1:436:428#0/1
+chrM	4320	4396	-	GA5:3:1:435:1711#0/1
+chr1	567521	567597	-	GA5:3:1:436:1244#0/1
+chrM	8468	8544	+	GA5:3:1:437:1704#0/1
+chrM	3891	3967	-	GA5:3:1:437:1581#0/1
+chrM	13657	13733	-	GA5:3:1:438:1005#0/1
+chrM	9922	9998	-	GA5:3:1:439:1607#0/1
+chrM	15865	15941	+	GA5:3:1:438:1116#0/1
+chrM	5353	5429	-	GA5:3:1:437:120#0/1
+chrM	8744	8820	+	GA5:3:1:440:1464#0/1
+chrM	5339	5415	+	GA5:3:1:440:140#0/1
+chrM	3734	3810	+	GA5:3:1:440:823#0/1
+chrM	4252	4328	+	GA5:3:1:441:633#0/1
+chrM	13502	13578	+	GA5:3:1:442:1663#0/1
+chrM	16346	16422	+	GA5:3:1:443:1999#0/1

File tools/samtools/sam2interval.py

 
     cigar = re.comp