##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 1795370389 NA20809_chrY 46382798 + 30 46380948 HG002_chrY 62432599 + 79 62432599 1
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28	0	4
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4	4	0
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33	0	8
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712	2	0
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16	128	0
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6451	2	0
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19	2	0
12	0	4
166	0	2
112	0	4
1261	2	0
707	0	4
630	4	0
2144	150	0
61	33	0
152	33	0
48	0	28
1997	0	1
193	16	0
16	3	0
827	4	0
3540	0	1
2382	0	1
759	11	0
1081	0	1
1716	2	0
907	3	0
2607	0	3
1104	0	1
823	0	1
1222	0	4
1477	0	1
5943	0	14
2059	0	1
904	1	0
1374	0	8
614	6	0
17	0	10
889	18	0
56	3	0
322	0	1
2824	0	3
105	3	0
8	36	0
152	0	3
20	1	0
70	3	0
52	0	3
9198	0	1
9455	1	0
4466	0	1
1676	0	2
791	0	3
1065	0	1
257	1	0
211	8	0
878	4	0
23	0	14
16	0	14
7	0	76
17	4	0
25	25	0
164	2	0
198	2	0
74	0	4
25	0	29
12	0	2
6	0	2
25	2	0
17	0	2
6	2	0
10	25	0
32	27	0
4	0	4
17	75	0
20	2	0
100	0	10
19	0	6
384	0	2
1024	1	0
1202	2	0
503	5	0
1075	0	2
2903	1	0
764	0	8
548	0	23
17	0	4
153	0	1
1082	0	2
38	4	0
45	0	2
2174	4	0
54	0	3
110	1	0
1814	4	0
59	5	0
15	0	4
136	0	4
36	0	4
33	0	4
212	0	4
1093	1	0
1584	1	0
305	0	4
518	0	3
163	12	4
50	4	0
32	4	0
281	0	4
623	0	1
51	0	121
97	41	0
156	0	41
248	40	327
63	41	0
262	0	40
168	1	0
186	42	0
301	41	0
1870	2	0
967	0	1
3459	0	4
165	0	4
1875	0	3
1120	1	0
502	1	0
1594	0	2
625	0	1
239	4	0
1420	0	2
671	0	30
11	0	2
24	8	0
564	0	1
7	0	1
459	0	3
2043	1	0
737	0	3
772	12	23
18	59	58
546	2	0
68	0	16
257	0	1
631	0	1
352	1	0
615	1	0
59	1	0
7	1	0
127	1	0
641	0	1
869	0	2
379	0	12
38	0	8
704	1	0
904	2	0
15	4	0
6	6	0
65	0	64
26	12	0
8	0	22
65	32	0
29	0	1
35	11	0
21	15	0
2	1	0
13	1	0
10	28	0
5	5	0
15	1	0
47	1	0
1	3	0
11	0	1
16	11	0
38	1	70
11	16	0
4	1	0
15	1	0
15	1	0
36	1	0
10	1	0
5	20	0
6	8	0
52	1	0
5	0	3
1	0	6
15	16	0
33	17	27
5	0	5
22	0	5
42	0	1
1	0	4
22	20	5
31	20	2
15	0	7
3	0	2
4	0	3
23	1	0
33	4	0
45	1	0
15	0	1
4	7	5
38	14	0
1	1	0
17	28	0
30	0	1
15	125	21
6	0	12
8	0	1
13	1	0
13	1	0
4	0	2
1	0	17
6	0	1
4	0	2
12	9	26
38	13	0
3	0	1
13	0	3
7	0	1
4	7	14
16	4	34
7	22	0
2527	0	24
489	2	0
6703	0	1
644	0	2
64	4	0
201	0	2
1527	6	0
1098	0	103
6	0	93
4	2	0
48	0	4
8	8	73
6	0	8
31	1	36
29	0	53
7	0	1
2	0	68
27	0	7
30	0	3
4	0	26
4	0	37
12	0	24
20	11	262
11	3	0
9	1	51
21	0	1
20	0	4
5	1	0
4	0	6
8	0	39
29	0	5
20	0	36
4	0	3
11	9	33
7	0	36
14	0	25
2	0	4
34	1	0
1699	0	2
1373	3	0
28	0	3
199	1	0
137	3	0
15	0	3
63	14	0
301	6	0
725	0	12
300	0	1
2366	0	1
3012	1	0
657	1	0
881	0	1
3506	36	0
485	0	6
385	2	0
1272	0	2
704	9	0
32	0	12
957	2	0
767	0	7
181	3	0
17	0	6
26	0	6
536	0	2
966	0	2
2078	4	0
699	1	0
443	50	0
632	0	1
894	1	0
1831	0	1
60	1	0
2532	16	2
4107	1	0
1351	0	40
299	0	80
461	40	0
9679	0	3
1346	16	0
168	0	1
18	1	0
69	0	1
18	1	0
50	0	2
2	0	87
91	0	87
17	1	0
111	1	0
326	2	358
39	0	2
80	1	0
93	2	0
196	0	2
237	4	0
1113	36	0
394	0	2
48	4	0
45	0	1
2230	0	1
1434	1	0
3582	1	0
186	0	3
1360	1	0
803	0	2
604	0	2
581	1	0
177	0	1
1322	249	0
768	0	4
555	0	3
80	0	1
228	12	0
348	0	2
869	1	0
3930	0	8
72	8	0
166	12	0
127	0	4
21	0	8
134	0	8
1677	1	0
1744	1	0
2763	0	2
538	1	0
1939	0	1
1199	39	1
81	1	41
42	0	20
30	0	101
12	24	137
15	1	26
14	1	0
34	0	20
79	15	7
17	0	48
2771	0	11
936	0	1
158	1	0
1192	0	1
1193	2	0
300	1	0
631	1	0
4	19	0
15	8	0
14	6	0
12	2	0
25	9	18
10	1	0
13	5	0
5	1	0
7	8	33
38	28	0
3	0	1
9	1	0
7	35	35
13	0	4
5	1	0
25	0	1
2	0	1
4	0	2
67	10	27
14	1	0
2	3	0
220	0	1
130	1	29
28	3	0
41	0	16
2	0	24
113	0	21
4	1	0
3	2	0
3	1	0
19	1	0
2	0	1
2	2	0
13	1	2
24	14	24
6	0	2
7	2	0
5	1	0
8	1	0
5	12	0
3	1	0
8	1	0
18	0	4
8	1	0
7	3	0
19	1	0
2	19	0
18	0	1
1	13	0
23	8	20
4	1	0
5	0	1
4	0	39
978	8	0
750	0	1
2910	1	0
125	0	1
386	0	7
995	2	0
882	0	1
1868	1	0
1269	0	9
1994	4	0
5	0	1
1	0	1
15	2	0
1331	0	5
2737	0	12
1011	0	1
1664	4	0
1154	1	0
3644	1	0
120	0	32
3100	14	0
769	1	0
991	1	0
8	5	0
6938	0	4
163	1	0
1759	14	0
2182	3	0
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705	1	0
51	1	0
2360	3	0
262	0	3
1973	1	0
158	12	0
1040	0	4
1750	0	2
2232	1	0
296	1	0
2323	0	4
55	0	2
82	2	0
716	70	146
9	34	0
43	0	2
25	0	2
1200	1	0
1373	0	1
396	1	0
800	1	0
1104	0	1
744	0	2
326	1	0
1373	1	0
1596	0	1
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815	0	1
2737	1	0
3051	1	0
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172	1	0
1704	0	2
13	1	0
4116	0	2
1001	0	12
1204	0	2
33	2	0
606	0	6
351	0	1
8508	101	0
1197	0	4
807	0	4
7426	1	0
2930	0	4
8416	0	2
16	0	1
2910	0	1
32	3	0
9605	1	0
2530	0	1
33435	0	1
13	1	0
1157	0	1
180	4	0
1916	45	0
364	15	0
81	3	0
12	3	0
8	27	0
4	30	0
10338	1	0
1907	16	0
5563	0	14
2232	0	1014
43	0	4
101	0	6
1424	0	12
728	2	0
7524	1	0
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10	1	0
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1742	0	1
964	1	0
2545	1	0
6223	1	0
121	2	0
11	34	0
2041	5	0
609	4	0
4092	6	0
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1908	1	0
10732	1	0
6535	0	1
430	0	3
2854	0	1
314	0	1
6332	16	0
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22	0	4
582	10	0
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3670	2	0
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13	0	3
134	1	0
2820	0	3
1	4	0
1746	0	32
53	4	0
1031	0	2
570	0	1
30	6	0
1136	0	2
6435	1	161
22	0	5
9	0	22
15	0	12
14	0	10
21	47	68
713	1	0
1529	0	3
601	0	1
1327	0	2
322	0	1
878	32	0
81	0	2
1994	0	1
9	0	1
1345	2	0
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403	5	0
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69	2	0
133	0	3
1298	12	0
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2041	0	3
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406	4	0
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2452	2	0
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14	0	3
1961	0	2
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339	4	0
361	1	0
534	2	3
1719	0	4
265	0	4
1806	0	1
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1005	0	2
590	3	0
1458	0	1
1229	0	1
8207	11	0
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368	0	1
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751	0	1
1044	1	0
588	0	2
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3142	4	0
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2097	0	1
622	0	4
2337	1	0
456	0	26
3797	4	0
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9076	0	1
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36	32	0
48	48	0
49	112	0
32	80	0
16	32	0
15	48	0
586	6	0
1709	0	5
711	0	3
2479	0	2
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27	1	0
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21672	1	0
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589	0	4
57411	4	0
11765	0	4
40368	0	2
106631	1	0
14046	1	0
28816	0	28
26589	25	0
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1667	1	0
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49	0	6
1645	0	4
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5975	2	0
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16527	0	3
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362	0	8
114	5	0
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10161	1	0
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3702	0	20
9257	0	4
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21860	2	0
3394	0	1
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15922	2	0
27582	1	0
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8033	0	1
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15	0	2
19209	0	4
13152	1	0
6896	0	2
48456	1	0
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9825	1	0
4501	0	2
17	2	0
26176	0	1
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5582	2	0
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4748	0	1
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14695	4	0
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257	0	8
602	0	2
25	0	4
4545	2	0
6799	0	4
8559	0	22
14235	1	0
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1023	6	0
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8395	0	1
3149	1	0
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242	4	0
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1049	12	0
16	6	16
23448	0	1
1412	0	2
24481	1	0
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40160	5009412	5011552
30439	0	5
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82	0	5
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179	0	5
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110	5	0
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1116	0	5
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5439	0	5
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1226	0	5
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21694	898	23336
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224	1	0
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280	54728	60308
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568	6798	8171
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486	5	0
373	8247	1373
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33	5550	0
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8958	36657	8892
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3978	7511	0
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1612	0	369
8	3820	3245
339	0	20
29	19070	0
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3081	5	0
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3888	5	0
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2648	10	0
3059	10	0
813	0	10
6756	0	10
5221	0	5
10532	0	15
4763	20	0
4136	8588	0
278	5	0
1722	5	0
308	15	0
2129	20	0
1040	0	5
1434	0	5
7189	0	5
15348	5	0
2166	5	0
9593	0	10
20261	5	0
5830	0	10
2209	0	5
3531	0	5
195	5	0
3604	10	0
1760	5	0
1202	0	5
4963	0	5
3296	5	0
4589	5	0
6779	0	15
1830	0	5
76	5	0
978	0	5
225	0	15
4928	5	0
1314	0	5
8220	5	0
862	0	5
8594	0	5
1170	0	5
16700	1	0
12901	0	1
830	0	1
9718	0	1
14230	0	1
8604	0	2
4064	0	8
3940	4	0
696	4	0
3190	0	1
16921	0	1
2848	24	0
19709	4	0
8641	1	0
5872	1	0
7882	4	0
20023	20	0
949	0	4
3719	1	0
1031	0	4
24768	0	3
16713	0	1
1	0	8
2417	0	1
4434	0	20
1996	4	0
1902	4	0
17430	0	6
375	0	1
556	4	0
516	0	4
15441	1	0
66690	1	0
16318	4	0
12887	0	4
126	16	0
28623	0	5
1776	1	0
22121	2	0
20047	1	0
38193	0	5
5194	1	0
83468	1	0
4941	4	0
11259	0	4
57030	0	2
37984	8	0
46997	17	0
26336	3	0
21150	2	0
109816	0	1
10657	0	6
30881	0	4
11974	0	451
14718	2	0
28	0	2
37879	0	1
49880	0	1
43681	5	0
14287	0	1
4288	0	10
15666	2	0
31321	0	1
4370	1	0
22101	0	3
18185	1	0
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14024	1	0
74137	0	1
6003	2	0
98549	1	0
14042	0	5
27090	9	0
2979	0	2
11833	0	18
90648	1	0
80596	0	4
26	0	2
65181	2	0
1305	8	0
49	4	0
175334	2	0
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46467	0	8
9923	0	1
1914	0	2
4376	0	13
50186	1	0
400	0	17
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7612	1	0
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36	0	2
2267	1	0
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30499	8	0
79	12	0
5979	0	4
2054	0	1
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1524	0	12
9631	0	15
5502	0	2
351	2	0
3965	0	1
1386	8	0
49	4	0
8903	1	0
2627	3411	3411
11570	12	0
1406	0	1
286	0	1
1908	1	0
1762	2	0
355	0	2
5550	0	10
1257	0	1
8338	0	8
560	0	2
74718	4	0
7978	2	0
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1746	0	2
5940	4	0
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13293	3	0
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5702	0	2
2535	9	0
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70796	1	0
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63	4	0
23	0	4
12360	1	0
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6849	2	0
2	19	0
21	23	0
153	0	69
1225	0	1
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8579	0	2
21015	2	0
1970	1	0
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35	0	4
50354	2	0
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636	1	0
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18385	3	0
15	1	0
79923	4	0
292	4	0
93	0	4
9495	2	0
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22	0	4
7958	0	2
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3941	0	2
29057	26	0
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43	2	0
1722	12	0
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13841	1	0
11976	1	0
56155	16	0
82	12	0
1690	0	2
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25555	0	6
10108	0	8
826	5	0
1692	0	4
786	12	0
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3305	4	0
4767	0	4
238	4	0
2333	10	0
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45	1	0
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1873	2	0
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4980	0	1
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1409	2	0
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7770	4	0
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5446	0	1
11419	1	0
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7837	1	0
8989	1	0
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922	1	0
6580	0	20
8915	1	0
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26131	15	0
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64	12	0
3	0	8
21048	1	0
487	0	2
1550	8	0
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6725	5	0
2805	8	0
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5816	0	1
4527	1	0
5171	0	1
4816	0	1
3907	8	0
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3757	0	1
18	1	0
1293	2	0
4090	1	0
6458	0	3
5704	2	0
42	9	0
4	15	0
12	0	1
4634	6	0
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6929	1	0
3692	0	2
992	0	6
18	0	3
9696	0	2
67	6	0
3	2	0
4	2	0
2287	0	1
2757	1	0
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29683	1	0
1327	0	1
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21764	1	0
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23945	3	0
766	0	1
19803	1	0
6686	0	2
8387	0	1
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7465	10	0
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2341	0	4
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4	0	16
13	3	0
1	0	3
39	0	1
12	0	2
60	4	0
7094	0	1
7195	2	0
2216	2	0
10572	46206	46210
1540	0	1
897	1	0
8116	0	1
2205	0	4
7202	1	0
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62	4	0
48	0	4
1111	2	0
6613	2	0
2820	1	0
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54055	4	0
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2488	4	0
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5905	0	2
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2413	0	2
8552	16	0
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1157	8	0
15354	0	6
1311	4	0
27923	0	4
28833	4	0
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392	0	4
130	12	0
37	4	0
48	0	4
18306	0	4
1711	5	0
3422	0	1
28913	0	4
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1259	0	1
6673	4	0
207	4	0
16360	1	0
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1488	2	0
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73	19	0
1631	1	0
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19	0	2
34449	1	0
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14	0	1
19346	6	0
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7969	0	1
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8720	0	1
1657	0	2
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5198	10	0
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18813	1	0
1	7	0
103	0	3
598	0	4
24049	0	8
60	0	2
32	0	2
2	0	6
1724	0	19
4	0	2
48349	1	0
5426	1	0
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65830	0	8
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773	1	0
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36357	0	1
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13389	1	0
175	12	0
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16125	6	0
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1649	2	0
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6734	0	4
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5	1	0
7781	0	1
3260	1	0
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9596	0	12
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32	2	0
2858	0	12
68	0	3
4001	3371	3372
2125	6	0
3625	0	1
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4765	0	4
1460	0	1
10	0	3
46	2	0
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6	4	0
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20	0	1
38	3	0
47	4	0
1	2	0
17806	3457	3457
17809	0	4
105	15	0
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6	25	0
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10	3	7
42	0	1
11	1	0
1438	0	16
1533	0	1
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7788	1	0
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2904	1	0
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33	0	2
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9553	0	1
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39	1	0
6	0	1
6719	0	1
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20369	0	8
13934	1	0
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10053	6	0
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52	1	0
151	1	0
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5632	0	8
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2730	0	5
49	0	5
5639	0	1
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840	1	0
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652	39657	39663
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133	0	2
3742	1	0
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86	1	0
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840	1	0
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4429	0	6
726	1	0
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2	2	0
5630	2	0
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141	0	4
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24	0	1
15871	0	2
23	0	2
1800	1	0
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18989	0	1
68903	1	0
27	100036	437337
1371	0	1
30786	2	0
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695	0	1
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39956	1	0
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540	0	2
6470	9	0
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6580	0	1
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104	0	872
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3	0	1754
46	0	877
3410	376	0
63	127	0
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3139	0	125
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2823	0	500
13442	2	0
93	0	125
170	0	880
694	1112	196723
10106	1	0
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31761	1	0
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36507	1	0
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321	1	0
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6490	1	0
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1736	6	0
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8165	1	0
339	1	0
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21068	1	0
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349	1	0
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21	0	1
5482	1	0
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11	67	1
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28	1	0
11	0	1
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9	1	0
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14	0	2
2	0	12
22	0	58
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170	0	1
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6943	0	1
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2157	1	0
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27919	8509	0
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20	0	1
6	18	0
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69	5	0
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5	0	1
158	0	4
288	0	1
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5	2	0
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315	0	14
104	2	0
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69	0	7
3	0	5
20	0	9
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53	3	0
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25	7	0
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53	2	0
114	3	0
386	42065	2085
307	0	3
60	0	2
73	1	0
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416	4	0
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61	2	0
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69	0	1
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23	466	6295
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121	2	0
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50	4600	2764
121	12	0
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75	0	8
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107	75526	109875
386	0	3
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113	0	8513
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12513	8	0
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909	10	19
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16	27808	14586
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20

chain 348285011 NA20809_chrY 46382798 + 6227944 9935842 HG002_chrY 62432599 - 52562439 56521946 2
17919	0	4
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292

chain 23707329 NA20809_chrY_random0000511 251265 + 3 251260 HG002_chrY 62432599 + 20162707 20414042 3
1109	0	1
1909	0	1
20144	0	1
8712	0	1
10019	2	1
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12414	0	6
42	6	0
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23288	1	0
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5	20	0
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3346	0	2
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32822	0	7
12464	15	0
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59

chain 22851649 NA20809_chrY_random0000594 241482 + 7 241482 HG002_chrY 62432599 + 19938607 20180068 4
1506	1	0
25045	2	0
18518	0	4
63296	1	0
10456	0	4
11763	19	0
18193	4	0
14264	0	4
1239	1	0
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16015	0	4
7269	1	0
2260	1	0
550	0	1
13069	0	1
13441	0	1
899

chain 15339918 NA20809_chrY_random0000445 162971 + 310 162670 HG002_chrY 62432599 - 36906660 37069019 5
1278	0	1
24871	1	0
15177	1	0
20908	1	0
24411	0	1
25346	1	0
1854	0	2
17637	1	0
30873

chain 4357120 NA20809_chrY 46382798 + 17162599 17208804 HG002_chrY 62432599 - 45214480 45260689 6
23047	0	1
3373	1	0
5446	0	4
14338

chain 3741856 NA20809_chrY 46382798 + 19533332 19572982 HG002_chrY 62432599 - 42850342 42889998 7
26439	0	6
46	2	0
10499	0	2
2664

chain 428205 NA20809_chrY 46382798 + 22653385 22657897 HG002_chrY 62432599 - 39338719 39343231 8
4512

chain 327177 NA20809_chrY 46382798 + 18844271 18847727 HG002_chrY 62432599 - 43575591 43579047 9
3456

chain 322611 NA20809_chrY 46382798 + 14912600 14916008 HG002_chrY 62432599 - 47507067 47510475 10
3408