##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 2150885268 HG01934_chrY 52031904 + 4949 52020765 HG002_chrY 62432599 + 25 62432577 1
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314	12	0
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8	0	2
1009	1	0
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4	1	0
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69	0	2
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15	1	0
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48	2	358
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8	0	85
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5	138	43
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32	2	0
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793	32	0
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207	3	0
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1298	0	1
390	4	0
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322	0	1
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587	0	2
98	8	0
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1607	1	0
5746	0	3
191	1	0
393	6	0
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4054	0	4
3082	2	0
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844	1	0
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19	1	0
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1505	3	0
658	1	0
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94	2	0
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1212	2	0
5932	2	0
30	0	4
838	1	0
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6126	1	0
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658	1	0
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4084	2	0
3399	0	2
747	0	20277
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6509	1	0
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358	1	0
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101	0	6
7023	1	0
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787	28	0
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356	1	0
1211	0	3
2482	2	0
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99	0	2
45	0	40601
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6	4	0
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4	0	20
866	1	0
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22	0	4
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43	0	4
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35125	10004	0
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27	7	0
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21	0	5
82	5	0
23	0	5
147	0	29
3020	31	0
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1755	1	0
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72	0	2
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3473	5	0
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12293	334940	311619
28743	5	0
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8	7359	0
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2842	124176	120200
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4875	1	0
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614	8	0
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84	4	0
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7835	1	0
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157	1	0
3792	4	0
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160	8	0
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8921	1	0
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12	0	2
27764	7	0
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64	12	0
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11	0	2
1276	8	0
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5635	1	0
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18	1	0
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2	24	0
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377	1	0
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110	0	4
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6516	4	0
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13	0	5
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79	12	0
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4149	3377	3377
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1	0	1
44	0	1
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53	0	4
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3742	1	0
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107	75523	109875
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10137	1	0
471	1	0
23504	0	12
78	2	0
34	4	0
42	0	8
39	0	8
57	4	0
35	4	0
3330	0	4
3393	6	0
32368	0	1
754	12	0
3438	0	1
1925	0	6
84	17	0
1668	0	1
2516	4	0
1653	12	0
4134	0	4
195	2	0
9915	0	1
860	0	2
1163	1	0
3200	5	0
2015	0	1
1300	1	0
3724	1	0
1558	0	11
1457	1	0
4310	0	1
2251	1	0
7	2384	0
1126	1	0
5052	0	1
506	0	4757
715	0	1
6998	0	1
4952	1	0
2002	1	0
452	1	0
4481	0	1
352	0	3
5572	0	4
4888	10850	0
31	0	1
614	0	1
14862	0	1
35	0	1
63	27075520	37324720
823	0	5
119	15	0
833	5	0
3	25	0
326	15	0
6037	25	0
13729	10173	2913
5552	4825	7243
4730	0	7251
10750	2	0
994	0	2
1	2	0
5	0	2
600	1	0
690	2419	0
3861	4836	4836
4277	28862	39451
502	15	0
5659	0	7072
339	56353	172016
5845	1	0
1041	10	0
2952	0	26846
6409	2	3521
154	0	15
1282	0	10603
15099	0	10603
7069	1	0
1276	0	15
2243	0	1
1120	5	0
2414	1	0
3534	0	1
175	0	5
940	0	10
88	0	15
409	5	0
161	0	45
122	20	0
591	5	0
150	0	1
432	15	0
390	1	0
175	0	5
948	0	10
89	0	15
391	10	0
178	0	45
122	20	0
96	0	1
2117	0	1
4139	25	0
7070	25	0
3557	15	0
2235	1	0
1194	0	1
5874	1	0
179	5	0
946	10	0
86	15	0
414	0	5
156	45	0
122	0	20
583	0	5
150	1	0
432	0	15
566	5	0
940	10	0
101	15	0
8	25	0
381	0	10
168	45	0
122	0	20
103	1	0
2723	25	0
3356	0	15
7086	0	15
3693	25	0
1881	1	0
1480	0	15
3520	0	15
174	0	25
4078	0	7080
21651	1	0
494	0	20
74	0	25
14	5079	1599
1328	1	0
494	0	20
66	0	40
6429	0	1
494	20	0
66	40	0
13419	0	1
513	20	0
61	40	0
51377	0	5
14	0	5
387	1	0
334	0	15
134	5	0
2199	0	15
24	15	0
777	1	0
334	0	15
134	5	0
6514	1	0
340	0	15
130	5	0
564	30	0
5528	5	0
6204	758	4270
39	0	5
389	0	1
1535	0	5
949	5	0
7606	5	0
7804	15	0
24905	5	0
37648	0	2
32577	8	0
153	0	4
3329	0	1
5649	2	0
26	1	0
5880	0	4
2763	0	2
10990	0	6
16380	0	4
34968	5	0
13333	0	10
2433	3	0
21	0	36
2862	4	0
7005	6	0
4255	1	0
3416	0	4
1517	4	0
861	1	0
18648	19	0
1776	0	3
1309	1	0
724	0	1
1972	4	0
1725	5	0
866	1	0
6335	1	0
9791	0	1
2723	1	0
45	0	6
1324	0	1
6011	0	1
8120	0	5
407	1	0
1864	10	0
7215	0	1
3912	0	4
915	0	2
3143	14	0
8900	1	0
658	32	0
3104	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
121	1	0
1260	1	0
475	0	1
12343	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
28	0	54
3	1	0
6	0	5
6	0	1
4	5	0
1	0	1
17	1	25
19	46	2
24	54	4
14	76	17
21	7	0
7	18	0
2	0	2
12	0	1
15	3	0
3	1	0
2	5	0
18	10	0
15	14	4
9	1	0
1	5	0
91	4	0
7	0	2
6	17	21
40	156	8
22	57	9
21	5	0
23	0	12
6	5	0
36	5	0
47	20	0
15	3	0
64	3	0
27	3	0
57	3	0
21	3	0
59	20	6
7	3	0
9	25	1
27	0	3
27	0	1
33	3	0
15	9	0
78	5	0
95	0	1
50	101	15
11	0	2
76	0	1
2	2	0
29	4	0
36	0	6
32	4	0
1	0	1
64	4	0
70	4	0
17	0	5
38	0	1
6	1668	1
56	0	5
53

chain 11270317 HG01934_chrY 52031904 + 24058160 24209244 HG002_chrY 62432599 - 38399346 38539790 2
17699	0	1
23	0	10850
4459	1	0
2454	1	0
4938	0	1
13	0	1
6999	1	0
105	0	1
53	0	4
552	0	2381
638	1	0
67	4	0
123	1	0
13	4	0
207	6	0
429	1	0
145	1	0
20	1	0
8	15	0
46	0	1
62	0	1
60	0	4
498	0	2
210	1	0
435	29933	6092
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	8
4130	12	0
1653	2	0
2516	0	1
1668	2	0
2014	0	2
3438	12	0
33123	0	7
223	1	0
95

chain 3058316 HG01934_chrY 52031904 + 21841192 21873485 HG002_chrY 62432599 - 40507615 40539913 3
6287	0	1
5505	0	4
20501

chain 427764 HG01934_chrY 52031904 + 23173752 23178263 HG002_chrY 62432599 - 39338719 39343231 4
2490	0	1
2021

chain 327277 HG01934_chrY 52031904 + 18656959 18660416 HG002_chrY 62432599 - 43575590 43579047 5
3457

chain 322611 HG01934_chrY 52031904 + 14725180 14728588 HG002_chrY 62432599 - 47507067 47510475 6
3408

chain 6804 HG01934_chrY 52031904 + 24217383 24217543 HG002_chrY 62432599 - 38539790 38542814 7
2	0	2864
158

chain 2683 HG01934_chrY 52031904 + 12338791 12338819 HG002_chrY 62432599 + 12511308 12511336 8
28