##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 1991551934 NA19043_chrY 59217886 + 5144 22382616 HG002_chrY 62432599 + 2 22461715 1
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5	0	4
2391	1	0
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6623	1	0
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1872	8	0
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1596	128	0
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107	0	2
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8	4	0
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18	4	0
669	0	1
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852	40	12
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866	3	15
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17	0	27
7	40	0
1792	1	0
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1480	1	0
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631	2	0
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879	10	0
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59	0	5
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1447	20	0
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4029	903	23336
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1651	0	5
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818	15111	22120
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341	173639	98287
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119	190	0
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571	57770	16577
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382	30078	3448
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6577	35	0
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139	8	0
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25	8	0
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304	0	4
36	4	0
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2121	32302	32299
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17594	8	0
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4505	1	0
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439	0	7
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183	0	1
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159	1	0
801	0	1
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438	0	1
658	5	0
262	1	0
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67	1	0
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142	565	0
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114	0	1
310	0	1
153	0	1
52	2	0
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178	0	437
11	0	2244
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176	0	1
442	12	0
65	0	1
105	0	3
687	1	0
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268	0	1
54	0	10
71	1	0
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154	1	0
637	1	0
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169	0	1
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367	0	1
201	0	3
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573	0	2
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299	0	1
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575	0	1
182	0	4
123	8	0
22	0	1
162

chain 64794614 NA19043_chrY 59217886 + 58446051 59210603 HG002_chrY 62432599 + 61656421 62432577 2
1593	5	0
22	0	10
15712	1	0
929	2	0
312	5	0
489	0	2
165	1	0
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158	7	0
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3371	0	7
134	0	2
677	14466	0
5488	0	10
6465	15	0
4816	0	10603
961	1	0
17672	1	0
1660	30	0
4679	897	4432
3367	1	0
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2243	0	1
3534	1	0
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175	0	5
940	0	10
88	0	15
409	5	0
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122	20	0
591	5	0
144	0	14139
6	0	1
436	15	0
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408	10	0
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122	20	0
96	0	1
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2235	0	1
13773	1	0
5204	0	25
4371	185	3705
12990	15	0
150	25	0
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44	40	0
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14	3494	14054
2912	0	1
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20	86	2481
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475	0	1
3574	6	0
42	6	0
125	38	0
1489	1251	0
1129	0	3
4424	0	6
120	1	0
466	0	3
159	47	0
31	45	0
27	0	58
657	38	2
66	0	7
9	0	17
36	0	34
2	0	8
30	7	0
14	8	0
27	24	0
1	0	1
30	0	7
12	0	9
33	1	0
22	2	0
5	0	1
10	0	8
15	0	3
28	0	1
10	0	1
6	0	1
8	2	0
3	0	1
10	4	0
5	0	19
10	0	24
15	1	0
20	0	5
13	0	5
6	0	1
5	0	1
13	65	50
24	56	4
14	106	19
26	18	0
16	0	1
18	1	0
2	5	0
16	1	0
2	10	0
15	14	4
9	1	0
1	5	0
91	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 24826342 NA19043_chrY 59217886 + 22702849 22965666 HG002_chrY 62432599 - 38939685 39202547 3
442	0	4
61	0	1
1222	0	4
1333	0	3
6086	0	2
12603	0	1
2741	0	12
464	10	0
3	0	7
3585	0	1
23	0	8
8069	0	3
105	3	0
625	1	0
6789	0	2
1105	1	0
7445	0	1
3082	0	1
2755	3	0
9435	1	0
999	0	2
2530	0	1
630	2	0
462	0	2
4471	0	4
859	1	0
8271	0	1
11314	0	6
9145	0	2
4739	0	1
9788	0	2
1594	8	0
25365	0	3
23127	1	0
5079	0	2
6735	0	2
11694	13	0
847	0	1
141	1	0
4057	1	0
542	2	0
6724	0	4
106	0	2
12457	4	0
5454	0	2
6615	0	2
29431	1	0
10	0	1
70	0	2
238	0	1
352	1	0
80	1	0
30	0	1
238	0	1
54	0	1
5	0	1
7	0	1
22	0	1
56	0	1
244	0	1
6	1	0
200

chain 23659544 NA19043_chrY_random0000144 250925 + 0 250925 HG002_chrY 62432599 + 22999789 23250692 4
12279	0	4
16842	0	4
30195	0	2
18945	5	0
64	0	1
13264	0	1
15925	2	0
9351	4	0
278	0	2
23	0	2
11217	0	4
13117	19	0
5366	4	0
62	4	0
1293	0	17
7	0	5
30	0	2
6679	24	0
20553	24	0
258	0	28
434	2	0
16	22	0
10	2	0
38	0	28
13	13	0
14	2	0
26	0	15
181	2	0
12	0	2
28	0	2
22353	18	0
9500	0	2
14632	0	2
26701	0	1
890	0	1
182

chain 16026429 NA19043_chrY 59217886 + 22510221 22679860 HG002_chrY 62432599 - 39888197 40057642 5
2280	0	5
2	0	8
25	0	12
47	0	11
2	0	2
8	0	5
1	0	4
33	2	0
11	11	0
1	1	0
22	14	7
10	77	1
11	2	0
5	10	0
7034	0	1
709	1	0
23331	0	2
15589	111	0
12790	2	0
11684	0	3
2546	2	0
11886	1	0
2601	1	0
21070	8	0
13431	0	1
11207	2	0
12321	0	1
11185	12	0
9540

chain 4355191 NA19043_chrY 59217886 + 17097116 17143340 HG002_chrY 62432599 - 45214480 45260689 6
7914	6	0
5354	0	3
16198	0	2
9	0	2
5309	16	0
11418

chain 3057280 NA19043_chrY 59217886 + 21839692 21871993 HG002_chrY 62432599 - 40507615 40539913 7
6287	0	1
4953	2	0
552	4	0
810	0	1
450	0	1
19243

chain 322386 NA19043_chrY 59217886 + 14847407 14850815 HG002_chrY 62432599 - 47507067 47510475 8
3408