##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 2159377082 HG03009_chrY 58667461 + 3429 25164112 HG002_chrY 62432599 + 2 24031131 1
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33	2	0
7	0	4
58	28	0
1241	1	0
291	0	2
6212	134	0
3373	1	0
171	308	0
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1635	0	4
3353	3	0
979	0	3
1048	1	0
2982	0	3
104	0	1
316	0	404
92	0	20
1943	2	0
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22	180	0
39	225	0
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12	90	0
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84	135	0
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18	45	0
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382	0	4
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318	2	0
1040	0	3
22	0	8
203	0	1
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517	4	0
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844	0	2
1400	0	1
1719	54	0
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8	0	2
27	0	2
27	27	0
1	6	0
197	0	2
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1431	0	3
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533	0	4
1302	0	2
933	0	370
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67	4	0
1750	0	1
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20	0	4
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19	0	4
54	0	16
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4	0	8
220	0	4
5	0	4
40	4	0
77	4	0
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104	0	4
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123	0	4
35	0	1
3	1	0
176	0	4
34	4	0
52	0	8
645	2	0
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528	0	142
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434	0	9
3	0	706
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36	0	309
2402	28	0
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2	0	2
24	7	0
876	4	0
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63	1	0
48	49	0
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1831	1	0
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91	104	0
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3745	0	4
10	0	9
719	0	1
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61	4	0
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2584	2	0
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531	0	4
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7	155	0
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874	1	0
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1309	2	0
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41	2	0
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2859	1	0
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1	0	1
33	0	1
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74	0	1
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4	4	0
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85	4	0
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58	4	0
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48	4	0
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1269	1	0
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66	4	0
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1	0	1
13	12	0
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27	1	0
552	0	2
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3859	1	0
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7	0	4
2169	1	0
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43	0	4
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2973	1	0
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1591	1	0
823	0	200
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34	0	12
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712	2	0
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292	0	4
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1247	1	0
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35	1	0
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24	36	0
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33	0	1
4	0	1
69	1	0
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323	0	2
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1	2	0
933	0	1
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445	2	0
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1	5	0
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1445	4	0
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4	0	2
279	0	10
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22	0	6
50	60	0
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593	0	8
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92	4	0
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46	0	1
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46	0	1
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629	0	1
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178	0	6
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8	0	7
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716	1	0
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8	17	9
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1334	0	5
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13	0	5
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14	0	2
830	1	0
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19	2	0
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65	0	51
55	7	0
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624	1	0
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313	2	0
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56	6	0
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16	10	0
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726	0	2
8	7	0
431	1	0
803	0	5
4	0	3810
119	14	0
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32	4	0
86	4	0
21	0	2
140	0	2
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1230	1	0
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3488	0	16
1235	4	0
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814	0	28
503	2	0
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1742	1	0
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7	2	0
4427	3	0
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738	1	4
539	0	296
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684	0	4
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341	0	4
14	20	1
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242	0	1
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1536	45	24
872	4	0
4230	1	0
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33	0	1
732	8	0
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5838	0	1
849	168	0
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2847	1	0
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4984	3	0
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1	8	0
229	0	4
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57	171	0
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296	0	4
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1231	15	11
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1447	0	3
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614	6	0
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1093	1	0
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24	4	0
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623	0	1
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459	0	3
2043	1	0
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772	12	23
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257	0	1
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1608	2	0
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19	4	19
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5	5	0
43	1	0
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7	0	1
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4	0	9
55	21	0
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62	1	0
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46	0	3
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4	4	3
15	52	12
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15	1	0
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489	2	0
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1527	6	0
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8	8	73
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31	1	36
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8	1	0
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6	1	0
16	0	1
1	0	7
11	3	0
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20	25	106
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31	12	121
1733	0	2
1373	3	0
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199	1	0
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63	14	0
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957	2	0
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536	0	2
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2532	16	2
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1677	1	0
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40	0	4
8	49	110
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8	0	12
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9	0	22
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21	185335	190674
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4069	3375	3376
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69	0	1
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23	466	6295
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107	75522	109875
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4887	10849	0
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63

chain 64278349 HG03009_chrY 58667461 + 57925348 58666489 HG002_chrY 62432599 + 61656421 62432599 2
12577	2413	0
8039	0	2414
158	7	0
700	0	2
843	0	2413
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88	15	0
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1233	1	0
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14	3495	14054
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271	2	0
590	5	0
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1980	20	3559
33	60	0
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3513	0	3498
552	30	0
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6204	32015	10994
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2724	3	0
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73	0	1
10647	1	0
1366	0	1
1509	2	0
347	0	2
256	2	0
11013	1	0
951	1	0
7835	0	1
16	2	0
9100	2	0
5226	1	0
1856	0	1
11571	29	0
27	0	58
687	6	0
42	6	0
64	6	0
82	0	6
29	0	1
6	1	0
8	40	157
12	0	1
10	0	8
22	8	24
5	0	6
13	0	54
9	0	5
6	0	1
5	0	1
17	2	32
12	0	2
12	0	683
11	3	0
52	0	1
8	0	2
9	3	0
8	1	510
24	0	1
1	0	37
35	4	0
66	326	72
51	0	10
53	1	0
2	4	0
20

chain 11116192 HG03009_chrY 58667461 + 25164112 25303236 HG002_chrY 62432599 - 38399346 38539790 3
17084	0	1
614	0	1
23	0	10850
4459	1	0
2454	1	0
4952	0	1
6999	1	0
715	0	4757
650	20340	6035
7	1	0
2251	0	1
4310	1	0
1457	0	12
1557	1	0
3724	1	0
3316	5	0
4363	0	2
860	0	1
9915	1	0
195	0	12
4126	12	0
1653	4	0
2516	0	1
1668	1	0
2015	0	1
3430	0	8
755	1	0
18673	0	1
13694	0	8
222	1	0
95

chain 427764 HG03009_chrY 58667461 + 24279714 24284225 HG002_chrY 62432599 - 39338719 39343231 4
2490	0	1
2021

chain 326927 HG03009_chrY 58667461 + 19973255 19976713 HG002_chrY 62432599 - 43575590 43579047 5
819	1	0
2638

chain 322611 HG03009_chrY 58667461 + 16041538 16044946 HG002_chrY 62432599 - 47507067 47510475 6
3408

chain 6804 HG03009_chrY 58667461 + 25311375 25311535 HG002_chrY 62432599 - 38539790 38542814 7
2	0	2864
158