##matrix=axtChain 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91
##gapPenalties=axtChain O=400 E=30
chain 2298745261 HG00358_chrY 58911361 + 0 58908140 HG002_chrY 62432599 + 8 62432577 1
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29	1	0
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302	1	0
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493	4	0
80	20	0
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32	4	0
14	4	0
27	8	0
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105	0	4
395	4	0
172	0	4
2584	1	0
672	1	0
3807	0	4
57	4	0
23	3	0
488	3	0
738	0	4
2234	0	1
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1185	0	1
531	0	4
316	1	0
31	1	0
7	155	0
93	0	1
328	1	0
949	1	0
125	1	0
702	0	2
5788	0	1
632	0	105
5033	1	0
7618	538	0
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659	0	1
817	2	0
3741	4	0
12	4	0
43	0	8
4	4	0
29	4	0
112	4	0
71	4	0
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14	4	0
68	0	4
48	4	0
32	0	4
19	0	4
37	0	4
524	0	5
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1482	1	0
36	4	0
18	0	14
98	0	3
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13	12	0
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27	1	0
554	20	0
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653	4	0
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719	789	0
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515	2	0
387	0	3
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316	0	1
896	0	6
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445	268	0
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3048	1	0
42	8	4
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538	0	4
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776	0	18
2033	3	0
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39	0	8
484	0	1
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2973	1	0
3439	0	4
366	2	0
780	135	0
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1098	1	0
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716	0	1
1591	1	0
823	0	200
393	0	520
3516	47	154
58	0	55
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1036	0	4
2564	12	0
38	0	8
2612	0	1
166	1	0
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3392	108	0
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7776	1	0
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363	4	0
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59	8	0
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72	0	8
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46	355	167
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11	12	149
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43	1	0
1	4	0
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95	0	1
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20	0	1
38	0	1
1574	1	0
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1737	0	4
2594	3493	3471
633	54	0
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63	14	0
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6	1	0
92	4	0
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68	29	0
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23	0	1
19	241	89
62	52	0
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47	32	17
33	8	0
12	428	34
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14	6	15
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12	307	52
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6	14	0
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10	14	0
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10	24	0
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8	3	0
9	143	135
7	2	0
18	41	6
7	0	1
7	13	0
8	24	0
14	324	88
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42	2	0
3	0	2
13	0	3
14	0	1
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5	0	2
14	261	27
18	12	0
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34	0	1
118	1	0
3	175	0
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41	0	4
8	0	1
5	0	1
1	61	0
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9	1	0
7	25	17
13	642	181
55	1	0
379	0	1
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1691	0	208
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211	0	62
8	19	0
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9	24	0
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16	18	0
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8	27	0
1775	29	0
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63	34	0
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36	1	0
16	39	2
830	2	0
2	83	0
169	1	0
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3534	1	0
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32	60	0
32	120	0
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46	28	0
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72	32	0
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330	0	4
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7	12	0
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43	12	310
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24	1	0
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842	28	0
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48	2	0
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1398	3	0
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814	0	2021
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33	0	4
1023	0	1
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50	0	23
372	501	0
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49	0	4
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894	1	0
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3447	5709	0
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22	2	0
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136	4	0
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4	7	0
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4478	0	4
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3378	4	0
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39	348	383
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24	8	0
564	0	1
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459	0	3
2043	1	0
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772	12	23
18	67	58
546	1	0
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22	0	16
257	0	1
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7	1	0
127	1	0
641	0	1
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704	1	0
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94	0	1
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36	1	0
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47	1	0
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5	5	0
43	1	0
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11	16	0
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37	0	1
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4	2	17
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27	0	1
6	12	0
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1	153	0
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4	4	3
15	52	12
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15	1	0
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8	8	73
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31	1	36
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8	1	0
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6	1	0
16	0	1
1	0	7
20	0	62
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20	13	66
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20	0	23
31	16	121
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199	1	0
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63	14	0
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536	0	2
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33	0	1
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80	1	0
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72	8	0
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134	0	8
1677	1	0
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64	1	0
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5	0	2
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18	1	0
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3	1	0
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5	1	0
5	0	1
4	0	39
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163	1	0
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280	0	2
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30	6	0
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6435	1	161
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21	47	68
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1345	2	0
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78	0	4
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21	0	5
3357	31	0
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1316	1	0
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4319	9	0
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48964	2	0
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5556	0	5
46582	1087840	311619
1828	0	1
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580	5	0
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744	15	0
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1114	1	0
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36	0	5
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18	0	5
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129	9018	50484
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341	190826	83995
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57	0	5
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119	190	0
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9	9449	8046
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34	0	5
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699	0	1377
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2037	19002	4935
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1	0	5
9698	5	0
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4	0	5
1912	0	40
131	1	0
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1473	11036	0
693	36663	8892
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263	7535	0
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720	7516	0
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29	29935	3534
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16	22811	0
17	25	0
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32	0	4
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539	1	0
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1132	3400	3411
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287	1	0
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1468	0	1
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555	1	0
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6	14	0
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2	0	20
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2012	4	0
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2792	1	0
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59	16	0
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28	0	2
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4	4	0
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4072	3385	3385
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17806	3457	3457
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8	7	0
6718	0	1
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8	0	8
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644	39673	39663
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2804	0	5
3328	5	0
131	20	0
33	0	1
1985	0	15
20	10	0
146	2	0
532	30	0
2734	20	0
2003	0	5
16502	25	0
79	1	0
156	1	0
2179	15	0
355	0	20
5	0	5
47	0	1
156	0	1
783	5	0
435	0	5
965	0	15
306	10	0
26	10	0
61	1	0
1024	0	2764
1656	15	0
73	1	0
2681	5	0
1000	0	5
1758	0	10
3759	5	0
1745	0	5
85	0	1
2263	16938	16943
58	0	5
975	0	10
3159	0	10
1339	5	0
13	0	10
544	8271	4
2590	10	0
25177	7088	7088
13915	0	5
2529	1215018	1140961
40	3559	0
1932	0	1
105	0	5
18	0	5
1966	0	15
1512	0	5
8	6615	24397
10100	1	0
300	0	5
7	0	10
3290	15	0
10772	0	5
7084	5	0
1	10	0
2464	0	7070
379	15	0
691	5	0
1878	5	0
6468	3526	3536
2220	0	7053
3700	0	3554
8344	15613	5937
4977	2	0
273	0	2
1040	57316	52315
4233	0	15
490	0	1
429	0	7121
2624	0	5
918	0	5
1237	10	0
1361	15	0
2211	15	0
2270	5	0
1183	1	0
44	10	0
810	32270	25172
1146	0	5
6349	2411	2411
8561	10363	5513
1070	0	2
5148	0	2416
2574	4979	0
17962	0	1
9508	1	0
10190	19914	1008
4310	8616	8616
12057	3534	0
7335	0	5
2414	29833555	32245133
791	0	2414
392	1	0
1752	5	0
1166	1	0
1035	0	7
199	5	0
656	1	0
1382	0	2414
15	0	1317
1	0	3505
110	2	0
244	0	2
2167	0	2
2285	0	3
9543	1	42398
1075	0	15
2243	0	1
1660	10	0
9	30	0
1042	0	1
442	15	0
380	1	0
1276	0	15
2243	0	1
7068	0	1
2720	0	10604
9169	15	0
24645	0	25
3519	25	0
5416	1	0
1584	0	1
7722	0	7080
15224	40	0
1849	25	0
1644	40	0
1686	0	15
1233	1	0
494	0	20
120	3488	14047
6347	10	0
3555	0	1
513	20	0
61	40	0
21668	10	0
32802	0	15
24	15	0
371	5	0
3493	5	0
909	0	3498
552	30	0
5528	5	0
3475	5	0
32	0	14027
3469	5	0
32709	5	0
37648	0	2
32577	4	0
153	0	8
3325	0	1
11555	0	2
2765	0	6
314	0	1
10671	0	3
9579	1	0
6804	20	0
37980	2	0
22692	0	2
55925	0	1
7386	0	2
10395	2	0
24750	0	16
8485	0	3
17375	0	1
105955	0	2
4100	2	0
5226	1	0
1856	0	1
11598	0	58
687	6	0
106	6	0
3	0	6
107	7	0
1	0	1
75	1	0
183	0	24
9	0	1
5	1	0
49	0	1
5	0	1
13	5	0
15	1	0
14	5	0
13	217	61
10	0	5
12	7	0
7	18	0
2	0	2
12	0	1
18	8	2
12	45	150
19	6	0
11	0	3
22	95	0
3	0	2
6	1	0
16	41	0
1	0	5
17	5	84
19	0	5
22	1	0
1	20	0
15	3	0
59	14	5
27	3	0
57	3	0
21	3	0
59	17	0
2	0	2
9	3	0
8	1	510
24	0	1
1	0	37
35	4	0
70	4	0
31	1523	37
56	0	5
53

chain 3742372 HG00358_chrY 58911361 + 20044485 20084151 HG002_chrY 62432599 - 42850342 42889998 2
19965	4	0
6526	2	0
10499	4	0
2666

chain 427764 HG00358_chrY 58911361 + 23840013 23844524 HG002_chrY 62432599 - 39338719 39343231 3
2490	0	1
2021

chain 327277 HG00358_chrY 58911361 + 19355343 19358800 HG002_chrY 62432599 - 43575590 43579047 4
3457

chain 320742 HG00358_chrY 58911361 + 15423786 15427183 HG002_chrY 62432599 - 47507067 47510475 5
815	0	11
2582

chain 1346 HG00358_chrY 58911361 + 58909321 58909335 HG002_chrY 62432599 + 62432585 62432599 6
14

chain 1114 HG00358_chrY 58911361 + 58905456 58905470 HG002_chrY 62432599 + 62430941 62430955 7
14

chain 1083 HG00358_chrY 58911361 + 979350 979390 HG002_chrY 62432599 + 1024671 1024699 8
11	0	1
5	13	0
11

chain 1015 HG00358_chrY 58911361 + 979779 979797 HG002_chrY 62432599 + 1024836 1024854 9
18