##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 2158695245 NA20346_chrY 58028126 + 79420 25116625 HG002_chrY 62432599 + 60340 24162561 1
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33	0	2
933	0	370
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174	8	0
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1207	0	6
32	0	309
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1482	0	3
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24	7	0
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972	630	2
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84	1	0
144	26	73
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1018	0	34
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160	1	0
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2683	3	0
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7	155	0
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1572	1	0
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318	0	4
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206	15	0
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4562	234	234
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63	6	0
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41	25	0
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11	19	169
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16	39	2
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1336	20	0
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24	1	0
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4611	1	0
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132	0	1
269	2	0
825	0	6
175	0	5
23	0	180
1299	0	1
1569	0	756
2096	3	0
289	1	0
1345	0	1
6371	0	22
745	4	0
614	1	0
448	0	3
421	3	0
168	0	6
356	0	2
102	0	3
1636	0	2
1008	1	0
162	0	1
2859	0	4
383	0	2
1275	0	4
7993	0	1
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280	8	5
11	0	2
2162	4	0
425	0	2
1397	87	0
195	2	0
10	0	12
18	2	0
19	0	52
361	35	0
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6	0	6
1851	0	1
318	0	1
15363	0	1
3775	1	0
157	0	1
1124	2	0
277	0	6
1270	0	12
2272	20	0
4	10	0
8	1	0
476	0	4
837	0	90
118	0	30
150	0	30
7	0	30
2165	0	2
31	2	0
54	1	0
482	1	0
4877	0	1
416	58	1
15	1	0
2	2	0
4206	4	0
8	0	4
2302	5	0
2300	1	0
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496	7	0
3958	0	2
13	4	0
222	0	2
747	0	5
432	1	0
803	0	5
4	0	3810
119	14	0
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32	4	0
86	4	0
21	0	2
254	0	2
102	4	0
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1235	4	0
3915	0	3
1997	16	0
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654	135	0
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42	0	3
150	924	0
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16	0	45
287	0	3
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37	0	3
37	0	3
49	0	3
30	7	4
147	22	19
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37	6	0
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42	0	6
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39	0	3
42	0	3
84	0	3
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25	0	3
36	0	3
17	0	3
48	0	45
71	3	0
39	3	0
19	0	163
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376	0	348
4831	347	0
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1096	0	58
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169	0	2
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67	0	8
88	4	0
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733	1	0
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562	0	13
21	0	4
4736	3	0
1067	1	0
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691	0	1
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222	77	0
8	231	0
1798	0	10
102	0	3
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341	12	0
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1	11	0
3281	1	0
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823	0	1
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692	4	0
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280	0	1
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773	3	0
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1232	3	0
493	0	1
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129	252	0
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344	1	0
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409	3	0
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149	0	5
743	4	0
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61	33	0
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48	0	112
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519	0	1
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827	0	2
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397	0	136
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581	1	0
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637	0	1
2703	2	0
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46	0	2
2	0	3
154	4	0
662	27	27
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322	0	1
2828	174	0
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20	1	0
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14	16	0
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3464	3	0
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2174	4	0
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165	4	0
5	81	0
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6	0	4
279	0	4
119	0	1
973	1	0
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420	12	0
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1168	1	0
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232	0	41
2084	6	0
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91	0	4
53	4	0
7	24	0
313	0	2
2495	1	0
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11	0	2
24	28	0
564	0	1
7	0	1
123	0	2
2380	1	0
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772	12	23
18	43	58
1519	0	2
8	0	3
1014	1	0
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127	0	1
640	0	1
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143	0	4
5	12	0
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5	0	11
19	4	19
28	1	0
7	0	4
32	0	6
1	0	5
21	11	0
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10	18	337
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42	0	9
7	0	1
4	0	10
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1	4	0
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1	0	7
35	1	0
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59	1	0
4	14	0
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15	12	0
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9	1	0
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4	1	0
11	1	0
37	13	0
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7	3	0
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4	4	3
15	52	12
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15	1	0
7	33	0
2342	1	0
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562	0	3
318	0	1
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72	0	4
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4	2	0
48	0	4
13	0	20
9	0	3
7	0	16
12	0	1
6	0	8
23	16	204
13	0	3
3	0	16
29	12	74
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20	6309	510
39	18	135
12	0	4
1152	0	6
1920	3	0
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43	0	3
50	0	3
237	3	0
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6	3	0
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725	0	4
308	0	1
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514	0	1
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32	0	4
965	3	0
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536	0	1
325	0	8
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2289	0	1
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285	40	0
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48	2	0
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89	0	176
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15	0	1
57	2	0
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16	2	0
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86	249	0
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869	1	0
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72	8	0
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1	5	0
134	0	8
1677	1	0
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538	1	0
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42	0	20
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12	24	137
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34	0	20
79	15	7
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3718	0	2
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473	27	0
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87	19	0
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14	50	16
38	61	0
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26	1	0
37881	0	1
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39585	1	0
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19964	2	0
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29733	1	0
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13616	1	0
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7108	0	1
185	0	1
5817	10	0
39254	0	6
4971	0	1
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188	13	0
684	0	2
468	1	0
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47	1	0
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151	1	0
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5	1	0
118	0	1
50	0	3
253	2	0
342	0	1
161	1542	0
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3482	1	0
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2976	0	2
916	1	0
3626	1	0
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684	15	0
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688	1	0
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4647	1	0
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682	2	0
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154	4	0
2	2	0
10047	0	1
5559	2	0
4678	1	0
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9575	4	0
49	4	0
7444	1	0
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339	0	1
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19239	0	2
18	2	0
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623	0	8
34478	1	0
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3058	0	3
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55	4	0
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5933	0	1
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314	10	0
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25	2	0
7892	1	0
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486	20	0
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79	12	0
1587	4	0
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2054	0	2
15733	6	0
2785	1	0
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351	2	0
3965	0	4
1432	4	0
11530	3411	3411
1135	0	1
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1387	0	8
287	1	0
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1762	2	0
355	0	2
6790	1	0
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561	0	1
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1839	0	3
11569	1	0
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1475	5	0
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4313	3	0
677	15	0
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161	0	1
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289	0	1
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6828	2	0
21	2	0
2	19	0
21	23	0
153	0	69
39108	0	2
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5839	0	8
1189	0	2
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640	2	0
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647	1	0
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5882	3	0
15	1	0
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3473	0	1
5504	2	0
4897	0	1
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137	4	0
244	8	0
3615	2	0
5591	0	1
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23	0	4
7958	4	0
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7722	1	0
6868	0	1
161	2	0
66	2	0
3714	0	2
4972	0	1
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6627	1	0
850	1	0
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938	1	0
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19	0	2
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43	2	0
6	14	0
1716	0	4
3616	0	4
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2513	0	1
8914	7	0
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13839	1	0
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31932	1	0
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78	16	0
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843	1	0
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771	0	5
1734	0	4
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2970	1	0
693	0	4
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283	0	4
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3	4	0
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4879	1	0
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474	4	0
6923	0	3
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608	4	0
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1351	2	0
58	2	0
1699	1	0
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3	0	8
7905	1	0
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32	2	0
3757	0	1
18	1	0
587	12642	12645
586	6	0
3730	2	0
42	7	0
16	0	1
4634	0	2
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67	0	2
7	0	4
2281	0	1
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2	24	0
7077	4	0
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6440	35	0
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72	1	0
2264	4	0
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534	4	0
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73	0	8
4	0	16
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70	4	0
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13	8	0
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13	0	5
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5931	0	12
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32	0	4
24	0	2
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1742	4	0
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4075	3372	3372
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1	2	0
17806	3457	3457
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1	0	1
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44	8	0
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3	7	0
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3742	1	0
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3925	326	0
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133	42407	83458
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288	0	1
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200	152	0
5	2	0
22	12	0
61	2	0
131	1	0
72	0	12
9	1	0
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48	0	1
315	0	14
104	2	0
111	0	1
69	0	7
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20	0	9
82	3	0
50	2	0
72	0	2
25	7	0
232	1	0
53	28	0
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53	2	0
114	3	0
386	42004	2085
307	0	3
60	0	2
73	1	0
124	1	0
646	3	0
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416	4	0
77	0	1
61	2	0
192	1	0
30	1	0
144	0	2
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64	1	0
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90	1	0
184	0	1
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176	0	1
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216	1	0
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30	0	1
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36	0	1809
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52	1	0
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78	0	1
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98	1	0
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63	4	0
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46	0	4
93	0	1
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103	0	1
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92	0	1
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267	0	3
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23	466	6295
120	0	1
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105	0	1
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96	1	0
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690	0	1
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16	36	0
97	1	0
234	0	2
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33	4	0
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121	2	0
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73	0	1
50	4600	2764
121	12	0
77	12	0
117	4	0
176	0	1
95	8	0
91	0	3
210	6	0
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75	0	8
117	0	15
117	1	0
31	0	3
197	0	1
107	75532	109875
386	0	3
114	0	2
53	32	0
4	0	28
67	0	1
218	0	7
25	2	0
72	0	2
50	0	3
53	1	0
28	9	0
20	5	0
3	7	0
69	1	0
111	0	2
104	14	0
315	1	0
48	0	2
5	0	1
9	12	0
72	0	1
131	0	2
61	0	6
22	0	2
5	0	152
200	0	1
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288	4	0
158	1	0
5	3	0
69	0	1
79	0	5
69	2	0
120	0	3
15	1	0
147	0	3
211	0	14
2	0	4
4	1	0
20	2	0
94	0	2
113	0	8513
27908	2	0
21691	1	0
4459	1	0
4612	0	3
322	0	1
5120	0	10
9870	1	0
2575	0	4
11050	0	2
391	1	0
141	0	1
847	12	0
11694	0	2
9551	0	1
2264	1	0
10234	1	0
9835	1	0
909	10	19
1840	0	2
288	0	3
26959	0	1
54394	2	0
22658	0	2
4101	1	0
2688	1	0
625	3	0
105	0	1
11688	0	7
3	10	0
464	0	4
16541	1	0
6236	4	0
5305	0	1
19208	0	1
6813	1	0
4180	4	0
18592	0	2
1620	0	1
611	3	0
8611	0	4
15170	1	0
9632	0	1
5157	1	0
3833	0	1
463	0	6
1723	0	1
3988	0	16
4906	0	4
14367	2	0
30747	0	4
104609	0	8
30955	0	1
5	0	8
9979	1	0
5547	18	0
44109	0	3
7339	0	1
3267	0	2
10138	1	0
471	0	1
21456	1	0
2059	4	0
66	2	12
34	4	0
42	0	8
35	0	16
53	4	0
35	20	0
3330	0	4
3370	0	23
32368	0	1
754	16	0
3438	0	1
1925	0	6
84	13	0
1668	0	1
2516	4	0
913	1	0
740	15	0
4132	0	6
195	1	0
9914	0	2
5225	4	0
3316	1	0
3724	1	0
1559	0	10
1457	1	0
4310	0	1
1301	1	0
950	1	0
7	2384	0
6178	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	10848	0
31	0	1
614	0	1
32683	0	1
4483	1	0
2429	1	0
2383	15371	3437
5676	1	0
3093	0	1
4107	1	0
10071	0	1
4314	1	0
1466	0	11
1551	0	1
3722	1	0
83	8	0
1219	1	0
2013	4	0
3205	1	0
1161	0	2
860	0	1
840	0	3
9068	1	0
217	0	8
4842	0	1
3432	0	1
1663	1	0
2020	1	0
3422	0	24
753	0	1
7536	1	0
11155	0	1
13431

chain 66662565 NA20346_chrY 58028126 + 57282510 58027410 HG002_chrY 62432599 + 61656421 62432599 2
2304	15	0
204	10	0
880	0	10
12258	0	5
1676	1	0
7396	9009	6604
24808	0	1
7068	1	0
3534	0	1
3942	0	17673
3126	1	0
3534	0	1
1610	5	0
1924	1	0
1276	0	15
4949	0	14139
30294	0	25
7054	25	0
1881	1	0
1569	0	3535
3471	0	15
150	0	25
22	0	15
505	0	7080
6348	0	15
150	0	25
3370	15	0
150	25	0
8742	5	0
2851	1	0
494	0	20
74	0	25
14	5079	1599
1328	1	0
494	0	20
66	0	40
16914	0	1
513	20	0
61	40	0
8827	25	0
1310	0	30
225	0	15
64	40	0
61	0	1
323	0	1
739	0	15
784	0	20
300	10	0
156	0	45
122	20	0
103	0	1
38	0	1
598	0	1
186	40	0
247	15	0
525	0	5
348	0	15
577	0	10
517	10	0
156	0	45
122	20	0
103	0	1
263	1	0
373	0	1
120	0	20
353	15	0
406	5	0
119	0	5
940	0	10
88	0	15
384	10	0
186	0	45
122	18	0
581	10	0
13	20	0
117	0	1
107	15	0
165	1	0
144	15	0
179	1	0
264	10	0
122	0	5
320	0	15
13	15	0
15090	5	0
19	5	0
8	0	15
891	0	155
2613	5	0
858	25	0
26	0	3329
137	0	25
828	6988	0
11838	0	15
24	15	0
371	5	0
4402	0	3498
552	30	0
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3498	15	0
389	1	0
1297	0	1
229	5	0
14	0	1
1537	5	0
7	5	0
32	0	3508
3459	7012	0
2923	5	0
91	0	1
960	1	0
436	0	10
1065	1	0
1997	1	0
456	0	20
2570	5	0
24281	0	1
7931	0	5
491	5	0
68014	1	0
2213	8	0
191	0	4
3291	0	1
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1419	1	0
1346	0	9
1716	0	1
1445	1	0
7821	0	3
16383	10	0
37980	2	0
6752	0	1
6036	0	36
463	2	0
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3511	0	2
4158	0	4
2378	1	0
6108	1	0
660	0	1
11879	19	0
1776	0	3
1309	2	0
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3697	3	0
866	0	1
6133	0	1
3519	1	0
43	0	1
1026	2	0
1707	2	0
3695	1	0
2724	4	0
45	0	6
11	0	3
6920	1	0
402	0	1
8059	0	1
2336	2	0
7215	0	1
3912	0	4
915	1	0
3145	24	0
8900	1	0
658	0	16
3088	0	33
1749	1	0
2269	2	0
3235	0	1
3222	0	3
826	0	1
10627	0	1
808	0	1
8326	1	0
13794	0	1
2117	1	0
4056	1	0
8140	1	0
16738	0	1
1415	0	3
12348	1	0
10721	1	0
2876	2	0
347	0	1
257	2	0
11964	1	0
2333	1	0
2146	1	0
3356	3	0
17	2	0
2040	0	1
6977	0	4
68	0	4
6	2	0
37	0	4
134	4	0
716	3	0
4172	0	1
162	0	8
1373	4	0
475	0	2
3615	6	0
125	38	0
1489	1251	0
1129	0	3
4424	0	6
120	1	0
466	0	3
159	47	0
31	103	0
27	58	0
715	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
29	17	144
5	0	2
24	6	0
12	0	1
22	1	0
25	7	1
29	0	1
12	196	104
21	35	17
12	0	1
12	0	1
5	21	3
13	39	37
21	0	17
3	0	1
14	7	0
5	0	1
9	0	1
15	4	0
5	19	31
31	7	0
10	148	7
22	33	0
30	28	41
24	0	1
1	0	4
3	0	1
8	0	1
31	63	90
25	3	0
21	1	0
4	0	1
9	4	0
5	1	0
17	3	0
3	1	0
18	3	0
59	17	0
2	0	2
9	3	0
9	24	1
27	0	3
14	0	4
43	3	0
15	5	9
13	5	209
11	0	32
57	2	0
1	1	0
26	0	1
1	0	25
33	0	51
17	2	0
29	0	60
12	0	5
38	0	1
6	640	85
30	1	0
2	4	0
20

chain 1190969 NA20346_chrY 58028126 + 17693533 17706173 HG002_chrY 62432599 - 45634118 45646761 3
1386	0	6
6455	1	0
4090	2	0
706

chain 427764 NA20346_chrY 58028126 + 24088883 24093394 HG002_chrY 62432599 - 39338719 39343231 4
2490	0	1
2021

chain 327177 NA20346_chrY 58028126 + 19761431 19764887 HG002_chrY 62432599 - 43575591 43579047 5
3456

chain 322611 NA20346_chrY 58028126 + 15829677 15833085 HG002_chrY 62432599 - 47507067 47510475 6
3408