##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
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1192	0	4
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696	20	0
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5068	4	0
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1094	2	0
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480	1	0
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1643	7	0
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91	104	0
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10	0	9
719	0	1
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4667	1	0
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3	4	0
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1340	18	0
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22	4	0
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4	4	0
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48	4	0
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1269	1	0
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712	2	0
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4	0	7
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1	0	1
21	27	169
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8	0	1
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6	529	32
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211	0	62
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3	51	0
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78	60	0
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16	148	0
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6413	3	200
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176	1	0
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1272	1	0
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687	0	4
1019	13	0
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1673	2	0
2334	1	0
1398	6	0
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320	1	0
375	0	2
2711	0	20323
1592	9	0
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285	0	20
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29	4	0
19	0	8
10110	0	4
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39330	1	0
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2082	0	6
7179	0	4
30235	0	344
12293	370153	311619
28743	10	0
1696	0	10
297	5	0
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849	0	5
932	0	5
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191	15	0
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110	0	30
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630	0	5
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2222	15	0
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69	0	10
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3390	0	5
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777	10	0
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985	0	5
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879	0	10
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19016	1	0
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1111	898	23336
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635	0	5
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906	0	1378
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3	0	5
8	7359	0
121	24617	12166
995	0	5
1769	5	0
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293	14514	21444
5717	0	1
2545	79774	75731
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5	0	25
102	9616	0
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13732	10	0
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8906	26404	4456
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1373	5	0
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557	0	30
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33	5531	0
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44	27835	0
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35	0	5
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926	0	10
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202	0	25
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4	0	5
1912	0	40
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73	0	5
1593	10	0
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206	11120	0
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4	0	5
193	5	0
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735	8	9
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29	15274	0
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5564	5	0
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3934	34330	25802
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12961	3411	3411
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165	2	0
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15255	46226	46210
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1	7	0
88	8	0
616	0	4
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3143	14	0
8900	1	0
658	0	32
74	80	0
2998	0	33
16288	0	3
6451	0	1
343	0	2
4828	0	1
6	0	3
530	2	0
2613	1	0
1095	0	4
12695	0	1
6099	0	1
73	12	0
272	0	2
2724	2	0
4392	0	1
9625	1	0
7862	1	0
13514	4	0
253	1	0
73	0	1
13870	0	2
11269	1	0
168	0	1
782	1	0
16952	2	0
5226	1	0
13428	29	0
27	0	58
687	6	0
106	6	0
116	7	0
1	0	1
75	1	0
52	0	10
1	0	2
43	0	1
10	0	1
15	2	0
3	0	1
10	4	0
20	8	0
91	16	18
28	1	0
2	4	0
26	42	7
5	1	0
19	124	35
30	0	2
12	0	1
18	1	0
3	12	0
11	13	9
12	11	13
49	8	0
12	7	0
5	0	1
12	1	0
7	0	5
1	4	0
8	0	1
6	23	9
28	0	1
14	175	17
22	35	0
1	0	5
12	0	5
7	5	0
33	1	0
8	1	0
33	0	1
8	0	1
39	31	21
54	19	14
12	2	0
6	3	0
21	1	0
19	2	0
1	0	5
6	10	0
5	3	0
21	3	0
34	2	0
25	17	0
2	0	2
9	3	0
9	21	1
27	0	3
18	1	0
43	3	0
15	29	29
49	5	0
71	0	1
23	0	1
17	1	0
33	102	15
11	0	2
16	0	23
40	2	0
10	1	0
17	0	1
1	0	25
5	1	0
12	2	0
16	0	51
2	1	0
15	2	0
6	2	0
59	1	0
15	390	156
30

chain 12548525 NA20509_chrY 56239582 + 24160210 24307004 HG002_chrY 62432599 - 38401468 38539790 2
63	0	1
35	0	1
14862	0	1
614	0	1
31	10848	0
4886	0	6
1566	0	1
4005	0	3
352	0	1
4481	1	0
452	1	0
6954	0	1
6998	0	1
715	0	4757
506	0	1
5052	1	0
1126	2384	0
7	1	0
2251	0	1
3446	1	0
864	1	0
1457	0	11
1558	1	0
3724	1	0
3316	5	0
3200	1	0
1163	0	2
860	0	1
9915	1	0
195	0	6
4132	12	0
1653	4	0
2516	0	1
1668	1	0
2015	0	1
3438	12	0
33123	0	7
223	1	0
95

chain 4356193 NA20509_chrY 56239582 + 17122250 17168475 HG002_chrY 62432599 - 45214480 45260689 3
7914	2	0
21513	6	0
2459	8	0
14323

chain 427764 NA20509_chrY 56239582 + 23266741 23271252 HG002_chrY 62432599 - 39338719 39343231 4
2490	0	1
2021

chain 322611 NA20509_chrY 56239582 + 14872150 14875558 HG002_chrY 62432599 - 47507067 47510475 5
3408

chain 6804 NA20509_chrY 56239582 + 24315143 24315303 HG002_chrY 62432599 - 38539790 38542814 6
2	0	2864
158

chain 2683 NA20509_chrY 56239582 + 12485807 12485835 HG002_chrY 62432599 + 12511308 12511336 7
28