##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 1754555909 HG03017_chrY 57679920 + 101 57675548 HG002_chrY 62432599 + 349 62432577 1
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358	4	0
1015	7	0
343	0	3
22	0	8
66	0	4
277	28	0
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421	0	8
14	0	4
70	4	0
62	24	0
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84	8	0
194	0	4
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18	0	8
29	4	0
11	4	0
100	20	0
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7	20	0
54	0	4
8	0	19
90	4	0
16	12	0
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16	0	1
2614	0	4
844	0	2
1400	0	1
1719	54	0
234	102	96
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121	27	0
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1431	0	3
2078	4	0
1259	0	2
4	0	4
35	2	0
823	1	0
306	0	124
686	0	3
811	4	0
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696	20	0
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5242	8	0
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143	0	1
480	1	0
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1643	7	0
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612	4	0
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60	0	96
1436	68	0
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1333	0	830
4	1	0
12	0	55
350	0	2
868	0	4
1473	3	0
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91	104	0
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1323	0	4
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29	1	0
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41	8	0
540	4	0
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34	0	3
666	1	0
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907	6	0
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39	0	7
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11	0	4
2157	5	0
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13	12	0
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48	0	2
8046	1	0
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30	0	10
9	5	29
707	2	0
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6921	0	4
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99	0	2
284	1	0
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35	1	0
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69	396	35
717	0	72
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69	1	0
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2240	318	0
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17	5	0
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50	0	60
46	355	167
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119	0	149
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48	120	0
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8	2	0
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4	0	2
279	0	10
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50	60	0
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129	0	2
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1287	0	58
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6	1	0
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74	0	2
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22	0	2
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43	9	120
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8	0	168
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43	5	0
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45	171	181
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8	0	5
8	0	8
182	0	62
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58	45	0
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8	27	0
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213	41	0
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63	37	0
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52	38	2
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4	0	3
4	0	4
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1434	1	0
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6450	0	1
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1	10	0
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259	0	5
704	5	0
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720	0	5
365	5	0
263	5	0
529	0	5
246	5	0
76137	14	0
30	2	0
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1619	1	0
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14	0	1
1	0	2
12538	0	1
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3772	0	1
826	1	0
32529	0	5
13083	5	0
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1630	15	0
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5217	1	0
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572	5	0
3173	0	5
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1111	898	23336
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25	10	0
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8680	5591	0
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672	0	1
384	1378	0
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906	0	1378
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3	0	5
8	7359	0
121	24636	12166
995	0	5
1769	5	0
1335	10	0
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19	0	10
198	1	0
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593	20	0
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1823	0	5
21	32360	47635
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2749	5	0
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1373	0	5
48	0	1
1324	10	0
48	1	0
1324	0	10
615	57416	65749
8180	8516	5770
1740	0	1378
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40	0	15
8	10	0
1350	5	0
129	0	190
479	0	10
1023	0	16101
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17	0	5
1363	0	5
6569	28723	1275
357	1	0
34	0	5
8250	0	5
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1746	9620	0
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33	5550	0
1440	1	0
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264	0	10
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44	38885	0
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1453	0	15
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4	10	0
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11	5530	0
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3	5	0
213	0	10
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1	0	5
5515	25	0
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96	1	0
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1473	11060	0
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228	38710	5473
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570	0	5
3028	0	5
76	0	5
1304	0	3
289	10	0
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1285	7653	0
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489	1	0
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776	5	0
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499	0	5
5440	0	10
263	7531	0
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32	0	10
15	0	5
305	11487	10781
339	0	20
29	15254	0
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69	0	15
1288	0	5
3768	15	0
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4129	0	3826
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61	0	3816
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18	0	55
99	5	0
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40	20	0
66	5	0
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88	0	6
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73	5	0
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79	0	5
138	0	25
645	0	20
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1751	20	0
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2593	5	0
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372	0	5
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3945	5	0
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3331	4	0
3934	34320	25802
484	0	25
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2725	0	5
19	1	0
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459	5	0
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195	0	5
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28	5	0
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382	0	1
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968	0	3
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6588	0	2
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6799	0	4
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780	2	0
28	0	2
1063	0	4
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63	8	0
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11	0	2
13728	1	0
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118	0	1
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287	1	0
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8	0	3
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674	0	6
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32	0	4
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1090	2	0
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4727	8	0
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130	8	0
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14	5	0
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14	21	32
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14	18	120
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4078	3372	3372
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652	39664	39663
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4	4	0
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31	3	21
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3918	4	0
5	20	0
4	0	64
6894	1	0
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28	0	18
1	3	0
21	3	0
59	17	0
2	0	2
9	3	0
9	25	1
27	0	3
33	1	43
17	0	61
33	0	1
2	0	47
12	0	1
50	104	50
57	2	0
29	4	0
36	0	6
32	4	0
66	4	0
70	4	0
60	0	1
6	1633	1
56	0	5
53

chain 345253897 HG03017_chrY 57679920 + 6237773 9910617 HG002_chrY 62432599 - 52562439 56521946 2
17919	0	4
43	1	0
13799	2	0
10319	14	0
51	1	0
996	3	0
715	0	5
2023	1	0
355	1	0
486	1	0
3409	0	1
1937	0	28
786	0	3
2336	0	8
10	0	6
6	0	4
22	0	2
2	6	0
3074	0	4
555	3	0
3360	0	1
135	6	0
100	0	2
396	1	0
3303	1	0
356	1	0
1	11	0
470	1	0
3402	0	1
1928	2	34
794	0	3
212	2	0
1293	1	0
866	0	20
4	0	6
2556	18	0
4551	4	0
19	0	18
51	0	1
3744	0	1
356	0	13
471	0	1
4227	1	0
1113	0	16
786	0	3
2360	0	4
133	0	1
2439	18	0
4543	0	10
73	0	1
26	4	0
3723	0	1
356	0	13
471	0	1
4227	0	1
1103	0	121774
35	0	6
10304	0	6
81	2	0
3714	0	1
358	0	1
5812	2	16
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2894	0	121744
11227	0	1
356	0	2
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470	0	1
3402	1	0
1937	22	0
786	3	0
402	0	3
1100	0	1
842	4	0
22	0	2
2560	18	0
4543	0	4
110	0	4
4545	0	1
5337	22	0
793	3	0
1508	0	1
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2574	0	18
1644	1	0
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483	0	1
3302	1	0
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497	0	1
1301	5	0
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40	2	0
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96	2	0
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9	30	0
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112	6	0
422	0	1
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269	3	0
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100	4	0
1692	5	0
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98	2	0
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258	3	0
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124	1	0
658	3	0
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4543	1	0
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45	21	0
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65	6	0
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67	9	0
2635	1	0
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3763	24	0
25288	0	3
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1413	20	0
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39	0	52
117	26	0
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4059	0	4
5009	1	0
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21314	1	0
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11600	1	0
33913	0	12
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57825	1	0
3955	0	1
12745	4	0
18407	10	0
49	0	4
5519	1	0
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6184	22	0
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22420	0	1
7511	0	1
4949	0	1
9811	0	1
94394	0	1
57902	2	0
22	4	0
35746	12	0
95	0	8
101600	4	0
6526	0	1
119	5	0
4382	0	1
1702	16	0
106	4	0
1	1	0
2643	0	8
50562	12	0
20876	5	0
20	5	0
29682	0	2
26414	1	0
19917	1	0
16019	4	0
22494	34	0
23911	0	8
46921	0	50
746	300	0
177	0	75
36918	16	0
8186	0	4
23423	0	8
3845	0	4
4505	0	14
24058	5	9
18	2	0
21	0	2
23050	8	0
8670	0	17
16538	0	8
130	0	4
30383	1	0
5764	0	1
368	0	4
49042	0	2
14937	2	0
24915	0	1
54525	0	1
2752	4	0
21613	8	0
26	2	0
3008	0	1
928	0	4
21681	0	1
4759	0	1
1372	0	1
21873	0	4
21034	1	0
14282	1	0
9739	6	0
55098	2	0
25121	0	1
38219	1	0
22183	1	0
6414	4	0
2673	0	1
50462	1	0
23657	0	1
3605	0	1
43350	0	1
2839	0	1
40239	0	1
10233	0	2
53702	0	1
24999	2	0
32240	15775	0
33984	0	28
54557	1	0
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14517	0	4
11393	0	2
8083	4	0
12322	6	0
39543	1	0
11294	0	4
77	0	1
44	4	0
1597	2	0
112350	2	0
2479	0	4
1769	0	2
13444	8	0
4	4	0
59	4	0
66199	1603	0
13440	0	1
18930	1	0
1721	0	4
311	0	1
311	1	0
292

chain 12134706 HG03017_chrY 57679920 + 24164189 24325005 HG002_chrY 62432599 - 38399346 38539790 3
17084	0	1
614	0	1
31	10848	0
4887	0	5
5572	0	3
352	0	1
4481	1	0
452	1	0
6940	0	1
13	0	1
6999	1	0
715	0	4757
650	20341	6035
7	1	0
2251	0	1
4310	1	0
1457	0	11
1558	1	0
3724	1	0
3316	4	0
3200	0	1
1162	0	2
860	0	1
9915	1	0
195	0	2
4136	9	0
740	0	1
912	2	0
2250	0	1
265	0	1
1668	1	0
2015	0	1
3430	0	8
754	0	1
32368	0	6
224	1	0
95

chain 3741200 HG03017_chrY 57679920 + 19507174 19546831 HG002_chrY 62432599 - 42850342 42889998 4
15515	1	0
4450	4	0
6478	0	2
42	0	4
10499	2	0
2666

chain 3058738 HG03017_chrY 57679920 + 21991561 22023858 HG002_chrY 62432599 - 40507615 40539913 5
6287	0	1
26010

chain 428205 HG03017_chrY 57679920 + 23301458 23305970 HG002_chrY 62432599 - 39338719 39343231 6
4512

chain 321630 HG03017_chrY 57679920 + 14886822 14890226 HG002_chrY 62432599 - 47507067 47510475 7
2663	0	4
741

chain 6804 HG03017_chrY 57679920 + 24333144 24333304 HG002_chrY 62432599 - 38539790 38542814 8
2	0	2864
158

chain 2683 HG03017_chrY 57679920 + 12500471 12500499 HG002_chrY 62432599 + 12511308 12511336 9
28