##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 1700723934 HG00140_chrY 66516581 + 31 26024127 HG002_chrY 62432599 + 69 29266601 1
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8	4	0
106	132	3
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669	0	1
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69	396	35
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183	17	0
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39	52	12
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211	275	1037
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309	448	1223
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846	645	317
11	911	1043
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105	25485	4659
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334	15496	10674
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326	4844	6134
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604	433	488
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29	997	960
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603	15	0
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1571	0	10
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103	288	288
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34	5	5
14	98	98
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37	899	913
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33	206	150
403

chain 340359286 HG00140_chrY 66516581 + 6271505 9898518 HG002_chrY 62432599 - 52562439 56521946 2
72	2	0
17847	0	4
43	1	0
13799	2	0
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746	300	0
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292

chain 63874421 HG00140_chrY 66516581 + 65823715 66509589 HG002_chrY 62432599 + 61656421 62432577 3
69	0	15
1499	0	10
16673	2	0
312	3	0
239	0	1
416	1	0
1382	0	2414
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1070	0	14139
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542	0	7080
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1059	1	0
494	0	20
120	0	14039
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502	20	0
66	40	0
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24	15	0
371	5	0
3493	5	0
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552	30	0
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20	58	4
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26	0	1
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12	0	1
18	8	2
18	76	33
71	0	1
15	4	0
7	0	2
6	23	9
52	156	8
22	57	9
21	5	0
33	1	0
8	6	0
36	5	0
46	1	0
1	20	0
15	3	0
64	3	0
27	3	0
57	3	0
21	3	0
59	17	0
2	0	2
9	3	0
9	25	1
27	0	3
61	3	0
15	9	0
78	5	0
95	0	1
50	101	15
11	0	2
79	2	0
29	4	0
36	0	6
32	4	0
66	4	0
70	4	0
60	0	1
6	1668	1
56	0	5
53

chain 57292426 HG00140_chrY_random0000086 610889 + 6 610889 HG002_chrY 62432599 - 43269005 43879798 4
2264	1	0
30262	1	0
6062	0	1
22410	0	1
9919	0	4
17415	0	1
1045	0	1
1720	0	1
9940	1	0
3280	1	0
17297	1	0
21465	0	1
6	1	0
39	4	0
21747	1	0
3241	1	0
7357	0	1
4088	1	0
2508	0	2
9504	4	0
4	8	0
48	4	0
2009	2	0
16510	0	6
11700	1	0
1495	1	0
17683	4	0
3717	0	1
22712	0	4
1490	3	9
11	0	3
2549	2	0
7008	25	0
6	4	0
10120	13	0
105	0	4
39072	2	0
1	0	4
42	0	1
59	14	0
10120	4	0
6	25	0
1955	0	1
5085	4	0
2531	1	0
46	0	2
1472	0	4
2445	4	0
23927	0	2
23455	3369	3369
4079	0	3
2858	4	0
5709	1	0
5682	1	0
2252	4	0
1952	0	8
56	8	0
9544	1	0
2512	0	1
5641	0	1
9056	0	1
7781	1	0
5	0	1
13996	0	4
4	0	5
3	1	0
6722	2	0
14737	1	0
30526	1	0
2767	1	0
5253	1	0
576	0	1
9740	0	1
1845	2	0
9919	1	0
51716	1	0
3378	1	0
83

chain 19446737 HG00140_chrY_random0000061 206383 + 0 206379 HG002_chrY 62432599 - 42961833 43168157 5
40	0	1
27	0	2
5	1	0
20	0	1
17	1	0
36	1	0
12	1	0
31	1	0
81	0	1
74	0	1
28	0	1
7	0	1
59	0	1
36	0	1
31	1	0
14	0	1
32	0	1
41	0	1
44	0	1
38	0	1
68	0	1
72	0	1
13	0	1
11	0	1
151	2	0
2	0	1
11	0	1
1928	23	0
556	0	1
2923	1	0
840	1	0
6093	30	0
4752	0	2
16128	1	0
2532	0	1
8416	1	0
15906	0	3
9881	4	0
4347	0	2
19	2	0
23	2	0
756	0	1
8428	0	2
4229	14	0
3985	2	0
5689	0	2
2931	4	0
25161	4	0
16042	2	0
5263	0	6
7588	1	0
5329	0	1
1075	0	1
10912	0	2
33546

chain 12545120 HG00140_chrY 66516581 + 23390982 23540156 HG002_chrY 62432599 - 38401468 38539790 6
63	0	1
35	0	1
15509	10848	0
4479	1	0
410	0	3
5572	0	3
352	0	1
4481	1	0
452	1	0
2002	1	0
4952	0	1
1195	3	0
5803	0	1
715	0	4757
506	0	1
5052	1	0
1126	4769	0
7	1	0
6562	1	0
1457	0	11
1558	1	0
3724	1	0
1300	1	0
2016	5	0
3200	1	0
1163	0	2
860	0	1
9915	1	0
195	0	6
4132	12	0
740	0	1
912	8	0
4185	1	0
2015	0	1
3430	0	8
754	0	1
32368	0	7
223	1	0
95

chain 5479497 HG00140_chrY_random0000060 72539 + 2 58101 HG002_chrY 62432599 - 42831899 42889998 7
113	0	1
195	1	0
170	1	0
648	1	0
239	1	0
256	0	1
36	0	1
37	0	1
481	1	0
737	1	0
1550	0	1
3568	0	1
1617	2	0
83	2	0
8095	0	8
20569	4	0
19691

chain 1362518 HG00140_chrY_random0000060 72539 + 58102 72539 HG002_chrY 62432599 + 19582257 19596706 8
604	0	16
8087	2	0
83	2	0
5659

chain 1160703 HG00140_chrY 66516581 + 18873693 18886032 HG002_chrY 62432599 - 42877661 42889998 9
827	1	0
3047	1	0
8463

chain 6804 HG00140_chrY 66516581 + 23548295 23548455 HG002_chrY 62432599 - 38539790 38542814 10
2	0	2864
158

chain 1930 HG00140_chrY 66516581 + 26025065 26025095 HG002_chrY 62432599 + 29267590 29267620 11
30

chain 1610 HG00140_chrY 66516581 + 26031842 26031877 HG002_chrY 62432599 + 29274351 29274396 12
10	0	10
25

chain 1163 HG00140_chrY 66516581 + 26027264 26027280 HG002_chrY 62432599 + 29269804 29269820 13
16

chain 1114 HG00140_chrY 66516581 + 26026819 26026887 HG002_chrY 62432599 + 29269359 29269417 14
13	38	28
17

chain 1072 HG00140_chrY 66516581 + 26027940 26028642 HG002_chrY 62432599 + 29270487 29271201 15
8	634	641
11	5	0
30	0	10
14

chain 1000 HG00140_chrY 66516581 + 26034001 26034016 HG002_chrY 62432599 + 29276529 29276544 16
15