##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 2126036066 NA19682_chrY 50640429 + 87 50639501 HG002_chrY 62432599 + 349 62432594 1
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6	1	0
92	4	0
42	4	0
50	0	2
68	29	0
58	0	1
1043	0	47
43	2	0
142	54	0
47	16	0
12	0	1
3	0	1
33	8	0
12	133	34
16	26	55
16	0	8
13	3	0
1	0	3
23	0	1
10	46	6
16	13	104
20	18	0
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7	4	4
14	3	8
10	0	5
10	14	0
14	31	0
5	1	0
4	0	4
24	24	0
13	35	0
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10	11	5
7	3	0
7	0	11
7	13	0
15	0	12
7	0	14
8	11	0
13	28	36
44	0	26
29	1	0
1	0	2
8	0	19
51	0	25
1	0	1
10	1	0
2	2	0
76	0	5
2	0	14
59	0	1
8	0	1
12	2	0
10	10	0
9	0	1
27	0	1
20	0	3
1	0	2
91	0	14
3	185	0
9	0	1
33	0	1
1	0	2
2	0	1
18	1	0
67	0	2
1	2	0
7	0	2
30	175	6
228	2	0
34	0	1
8	1	0
23	0	1
96	0	1
7	0	4
22	2	0
401	0	1
37	12	12
2536	1	0
1691	0	208
1029	0	1
253	0	3
25	3	0
2	33	0
26	20	33
5	0	3
211	0	62
8	19	0
33	0	19
9	24	0
11	0	5
3	4	0
37	45	21
16	18	0
11	27	0
8	2	21
8	27	0
1775	29	0
28	1	0
63	34	0
94	0	1
36	1	0
16	39	2
830	2	0
2	83	0
169	1	0
604	1	0
2114	0	5
24	0	15
3	0	1
13	0	10
13	0	5
15	0	10
577	3	0
1225	1	0
611	0	4
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539	3	0
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967	30	0
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38	0	2
51	0	9
51	6	0
8	2	0
322	0	1
1786	0	4
8	16	0
870	1	0
537	0	12
1023	2	0
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542	1	0
12	0	2
61	0	7
160	0	2
1116	0	2
190	1	0
827	28	0
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32	32	0
32	92	0
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32	4	0
46	28	0
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72	32	0
13	60	0
1470	0	2
54	0	4
1313	0	10
57	0	2
330	0	4
146	4	0
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1413	0	4
175	0	1
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15	0	1
57	0	1
169	0	6
13	5	0
320	0	7
5149	4	0
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30	8	0
6768	0	4
607	0	4
647	8	0
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372	40	0
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1166	7	0
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2422	0	5
566	0	4
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32	0	6
705	2	0
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9	0	5
146	5	0
784	1	0
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526	0	1
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63	4	0
73	4	0
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2	0	4
1445	63	0
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38	2	0
77	0	105
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508	0	2
1629	20	12
579	1	0
3330	1	0
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889	7	0
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1064	0	3
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722	1	0
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12	0	4
33	0	4
1249	1	0
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67	1	0
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3390	1	0
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2240	429	87
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2779	0	1
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58	114	0
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947	1	0
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1436	12	0
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894	1	0
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237	1	0
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1713	1	0
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73	2	0
207	0	1
3074	0	4
645	0	1
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1227	0	4
229	0	1
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742	0	1
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6	0	4
24	0	2
152	0	3
5007	0	1
1523	0	1
6	0	18
2478	0	1
2837	142	0
9	96	0
57	4	100
118	2	0
22	0	2
136	4	0
572	1	0
358	0	2
36	2	0
619	4	0
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9	1	0
615	0	12
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54	0	9
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30	0	9
42	7	0
9	1	1
3	2	0
182	0	9
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108	0	9
12	27	0
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67	0	18
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56	9	0
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66	0	207
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37	1	0
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11	0	232
60	0	232
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146	0	466
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44	2	0
767	1	0
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390	5	0
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541	1	0
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898	1	0
6630	1	0
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21	7	0
5	39	0
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84	18	0
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5868	0	4
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2625	4	0
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937	0	4
1644	0	210
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9	6	0
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17	0	4
1	0	4
35	13	11
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306	0	4
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24	0	4
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33	0	4
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586	20	0
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86	0	4
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1966	4	0
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4	0	4
4478	0	4
270	1	0
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11	35	16
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73	0	1
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99	0	19
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27	0	2
2120	3	0
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2519	1	0
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13	0	1
96	0	1
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214	1	0
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52	5	0
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323	1	0
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221	1	0
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74	8	26
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28	258	357
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2721	1	0
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4	0	37
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8	16	37
14	0	24
8	1	0
28	0	27
23	0	66
6	1	0
16	0	1
1	0	7
11	3	0
1	1	0
8	0	62
10	0	1
20	13	66
29	0	5
20	0	23
31	16	121
1733	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
1538	0	1
3506	30	0
485	0	6
385	2	0
1272	0	2
704	9	0
1001	2	0
767	0	7
181	2	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
1067	0	1
763	0	1
60	1	0
2532	16	2
4107	1	0
1351	0	40
299	0	80
461	40	0
9679	0	1
173	1	0
1175	16	0
168	0	1
11	0	1
56	2	0
17	1	0
2	0	1
15	0	1
2	1	0
50	0	2
30	1	0
96	0	2
52	0	87
17	1	0
19	0	2
90	1	0
55	0	2
15	0	1
164	2	0
104	1	0
23	0	90
50	0	178
106	1	0
17	1	0
7	0	4
517	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	3
556	0	3
80	0	1
228	10	0
348	0	3
868	2	0
3930	0	8
72	8	0
166	12	0
158	0	1
1	5	0
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	12
935	0	1
1024	0	1
325	0	1
1179	1	0
314	1	0
631	1	0
4	19	0
15	8	0
14	6	0
12	2	0
25	8	0
9	0	6
2	3	0
11	1	0
13	5	0
5	1	0
7	8	33
38	28	0
3	0	1
9	1	0
4	7	26
6	1	0
19	0	4
5	1	0
11	2	0
14	0	1
2	0	1
4	0	2
67	11	43
220	0	1
130	1	29
28	3	0
41	0	16
2	0	24
67	1	0
33	4	0
13	0	21
4	1	0
3	2	0
3	1	0
3	0	1
15	1	0
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2	2	0
13	1	0
17	0	17
6	1	0
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2	2	0
9	0	2
7	2	0
5	1	0
8	1	0
5	12	0
3	1	0
26	0	4
8	1	0
7	3	0
19	1	0
2	19	0
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23	8	20
4	1	0
5	0	1
4	0	39
69	3	0
909	7	0
750	0	1
2910	1	0
125	0	1
386	0	7
995	2	0
705	0	1
176	0	1
905	0	5
958	1	0
1269	0	8
1995	3	0
5	0	1
1	0	1
15	4	0
1331	0	6
2736	0	12
1011	0	1
1664	4	0
1154	1	0
3644	1	0
120	0	32
3100	18	0
769	1	0
599	0	2
398	5	0
6938	0	4
1922	16	0
541	1	0
394	0	3
1244	3	0
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705	1	0
51	1	0
1447	1	0
913	3	0
2238	1	0
151	29	7
16	2	0
2778	0	1
2233	2	0
296	0	1
2465	2	0
2143	1	0
4129	0	10
280	0	2
326	1	0
8384	1	0
579	1	0
175	1	0
2876	1	0
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172	2	0
630	0	1
1073	0	2
13	1	0
6980	0	2
6516	1	0
2949	3	0
86	0	4
1313	0	2
936	0	1
22	0	4
1085	0	1
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877	0	1
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1029	8	0
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1	0	1
345	0	1
272	0	1
995	1	0
394	3	0
1621	0	2
1798	0	1
902	50	0
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282	1	0
2440	0	6
547	0	1
1940	1	49
9	0	4
24	0	34
8137	0	1
4644	0	1
4601	1	0
790	21	0
31	0	20
12419	2	0
1157	1	0
181	4	0
882	3	0
964	0	15
27	18	0
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364	30	0
81	3	0
12	3	0
12	30	0
8	12	0
19	0	15
32	12	0
214	3	0
485	0	1
954	0	1
8609	3	0
6634	1	0
6414	1	0
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1776	2	0
1392	2	0
9898	1	0
3713	0	1
11111	5	3
606	4	0
4092	2	0
799	0	1
2974	8	0
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430	0	3
884	20	0
1324	0	2
4033	0	4
2356	12	0
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896	8	0
8	0	1
3087	0	3
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300	1	0
825	0	2
3670	1	0
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4938	3	0
272	0	57
41	1	0
5514	0	1
309	1	0
5239	0	3
9721	0	1
30	9	0
7551	3	200
5	0	5
9	0	22
15	0	12
14	33	16
51	0	24
2250	0	3
601	0	1
1327	0	2
322	0	1
878	28	0
63	0	2
16	0	2
1249	1	0
745	0	1
9	0	1
1345	2	0
2541	0	1
403	5	0
2485	0	26
69	2	0
133	0	3
1298	12	0
8310	1	0
891	3	0
3592	1	0
6	0	2
2043	6	0
755	5	0
11	5	0
3316	1	0
693	0	1
6374	0	3
2015	0	10
3723	5	0
2843	1	0
700	1	0
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552	0	4
336	0	2
1893	0	1
2138	0	2
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3490	0	2
57	0	3
437	0	2
90	0	4
3048	4	0
3723	1	0
177	0	3
1918	0	1
622	0	12
2329	1	0
456	2	0
3823	0	8
948	2	0
475	4	0
69	0	8
4715	1	0
2522	6	0
2601	1	0
5974	0	3
6932	64	0
36	32	0
129	80	0
16	32	0
2134	1	0
12	5	0
164	0	5
28557	1	0
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34105	0	1
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3101	1	0
4954	3	0
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7314	1	0
999	20	0
2933	0	6
2791	1	0
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26890	7	0
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9037	2	0
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353	0	10
15166	0	4
73925	1	0
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19	0	12
54836	1	0
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5636	0	6
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53	4	0
193	8	0
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50	0	4
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399	0	2
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498	0	5
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65708	1	0
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14	1	0
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38	0	2
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2755	1	0
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11	0	2
7835	0	1
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224	1	0
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7300	1	0
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5063	4	0
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27	0	8
1270	4	0
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23	14	0
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22	0	2
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43	2	0
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48	11	11
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86	16	0
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31743	2	0
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631	225	0
119	50	0
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53	0	3
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38965	11	8
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485	0	1
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310	0	1
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320	1	0
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2711	0	20323
1592	9	0
6424	1	0
285	0	20
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48964	2	0
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5546	0	15
46582	1087400	326879
1698	0	342
71	1	0
32	0	1
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70	0	5
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6727	5	0
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22	0	2
1181	1	0
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11	2	0
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1111	898	23336
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1140	24627	12166
995	0	5
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2470	16245	32831
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3	0	5
343	8987	24111
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8	0	1378
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269	10	0
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539	37938	7748
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229	1	0
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42	0	5
1389	10	0
101	0	190
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570	0	5
1373	0	5
448	69160	33128
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4506	23291	17815
9569	0	5
31740	25	0
33	5555	0
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311	0	5
1933	5561	0
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1912	0	25
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96	1	0
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1473	11060	0
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192	22084	5436
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73	0	5
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24	0	2423
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1742	0	10
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6	0	55
1434	10	0
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3934	34340	25802
484	0	25
20	0	30
2725	5	0
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287	1	0
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4972	1	0
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4075	3371	3372
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50	0	1
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1	0	1
44	0	1
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656	39667	39663
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31	50	120
13	3	0
52	0	1
8	0	2
9	3	0
8	1	510
16	0	51
2	1	0
29	4	0
70	4	0
4	0	6
32	1	7
11	0	1
4	0	1
116	1	0
2	4	0
15

chain 10913634 NA19682_chrY 50640429 + 24430542 24567534 HG002_chrY 62432599 - 38401468 38539790 2
63	0	1
35	0	1
15477	0	1
23	0	10850
4459	1	0
2454	1	0
4938	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
10110	0	4
4134	15	0
740	0	2
911	2	0
2516	0	1
1668	2	0
2015	0	1
4191	0	2
32368	0	29
201	1	0
95

chain 4354397 NA19682_chrY 50640429 + 17445059 17491292 HG002_chrY 62432599 - 45214480 45260689 3
13217	8	0
16210	2	0
2440	0	2
17	8	0
2478	0	4
239	12	0
11602

chain 3743593 NA19682_chrY 50640429 + 19815865 19855525 HG002_chrY 62432599 - 42850342 42889998 4
19965	4	0
19691

chain 427559 NA19682_chrY 50640429 + 23544029 23548540 HG002_chrY 62432599 - 39338719 39343231 5
2490	0	1
2021

chain 321761 NA19682_chrY 50640429 + 15195151 15198555 HG002_chrY 62432599 - 47507067 47510475 6
2663	0	4
741

chain 6804 NA19682_chrY 50640429 + 24575673 24575833 HG002_chrY 62432599 - 38539790 38542814 7
2	0	2864
158

chain 2683 NA19682_chrY 50640429 + 12808799 12808827 HG002_chrY 62432599 + 12511308 12511336 8
28

chain 1055 NA19682_chrY 50640429 + 50638727 50638738 HG002_chrY 62432599 + 62431236 62431247 9
11