##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 2169349104 HG02071_chrY 52260275 + 208 52252010 HG002_chrY 62432599 + 155 62432577 1
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377	0	4
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22	0	8
66	0	4
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14	0	4
70	4	0
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84	8	0
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18	0	8
29	4	0
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2614	0	4
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1719	54	0
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27	0	2
27	33	0
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10	29	0
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121	27	0
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41	8	0
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1229	0	2
933	0	370
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755	4	0
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1643	7	0
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60	398	0
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680	3945	0
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44	0	12
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615	0	1
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167	29	0
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1658	1	0
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2513	1	0
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592	0	1
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8763	0	1
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3285	8	5
11	0	7
854	5	0
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138	0	8
1	0	1
17	0	15
58	31	82
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8	0	1
9	6	0
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12	0	1
12	0	1
3	0	5
4	0	1
35	0	1
158	26	0
57	0	2
110	0	16
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75	0	14
42	0	16
23	0	32
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6	0	6
2721	1	0
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1774	0	4
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72	28	0
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66	4	0
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581	0	1
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503	2	0
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1742	1	0
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732	8	0
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50	0	172
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69	0	2
665	4	0
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1	8	0
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852	23	5
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384	0	2
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2174	17	0
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55	1	0
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39	52	12
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15	1	0
7	33	0
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24	0	8
24	1	0
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99	0	12
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1534	10	545
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15	0	1
23	10	633
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225	31	3
347	0	2
5045	8	0
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2121	1	0
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46	0	32
16	0	12
8	16	117
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128	19	0
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6	0	3
8	118	82
38	33	7
14	0	1
14	12	23
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12	0	18
8	5	1
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1	2	0
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65	14	0
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319	3	0
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3	0	1
9	91	33
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9	0	1
5	30	5
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24	0	34
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1937	0	1
3402	1	0
470	11	0
1	2	0
356	1	0
2000	0	5
1693	2	0
103	0	6
7164	0	10
5071	1	0
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16195	1	0
2361	5	0
1301	0	1
497	0	4
43	0	40601
6982	1	0
121	0	2
22	4	0
2348	3	0
786	32	0
1937	1	0
3885	1	0
358	1	0
2001	0	5
1794	2	0
4211	1	0
375	0	18
2556	0	2
26	4	0
842	0	1
1505	3	0
783	32	0
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108	6	0
4570	18	0
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20	4	0
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1508	3	0
793	24	0
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6249	0	5
1699	4	0
26	0	1
73	0	10
11405	1	0
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5	0	12
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1931	0	1
3405	1	0
465	13	0
364	1	0
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97	0	2
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32	4	0
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5824	1	0
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78	0	4
4207	1	0
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35	4	0
830	0	1
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796	29	1
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816	1	0
3398	0	1
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356	0	1
2002	0	5
1691	0	6
101	2	0
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26	0	4
842	0	1
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31	2	0
5812	0	1
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595	0	2
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2816	1	0
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31	0	121774
1103	0	1
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24	24	0
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2303	12	0
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97	0	2
138	1	0
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14	0	4
6	0	2
18	0	6
846	1	0
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3100	0	3
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45	0	1
54	0	12
123	0	1
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1672	1	0
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78	0	4
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46582	515219	311619
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48	2	0
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46	86	61
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42	6	0
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1591	0	1
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874	0	1
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328	1	0
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6034	31141	29501
498	0	2
78	0	1
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11257	2	0
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145	875	0
26	1124	0
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3303	587	1212
52	3999	0
37	250	0
2505	0	999
10032	1918	2918
42	1000	0
2047	1	0
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3	7	0
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1	8	0
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162	210538	210250
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810	21988846	32358999
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835	185	3705
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66	4	0
70	4	0
60	0	1
6	1669	1
56	0	5
53

chain 10890502 HG02071_chrY 52260275 + 24227687 24378997 HG002_chrY 62432599 - 38401468 38539790 2
63	0	1
35	0	1
15477	0	1
23	0	10850
4459	1	0
2454	1	0
4952	0	1
6999	1	0
715	0	4757
650	34647	6035
7	1	0
2251	0	1
4310	1	0
1457	0	9
1560	1	0
3724	1	0
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3200	0	1
1162	2	0
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740	0	1
912	2	0
2516	0	1
1668	1	0
2015	0	1
3434	0	4
754	0	1
7535	2	0
24833	0	25
205	1	0
95

chain 327277 HG02071_chrY 52260275 + 18790984 18794441 HG002_chrY 62432599 - 43575590 43579047 3
3457

chain 6804 HG02071_chrY 52260275 + 24387136 24387296 HG002_chrY 62432599 - 38539790 38542814 4
2	0	2864
158

chain 1046 HG02071_chrY 52260275 + 122 133 HG002_chrY 62432599 + 140 151 5
11