##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 2167707723 NA20850_chrY 53499199 + 0 53497251 HG002_chrY 62432599 + 4742 62432599 1
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305	1	0
2670	0	4
34	0	8
630	10	0
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17	8	0
13	2	0
54	8	0
4	8	0
23	14	0
2	16	0
690	789	0
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239	0	1
153	1	0
362	2	0
6463	0	8
1753	0	1
3368	0	2
871	0	1
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5850	4	16
48	0	2
2495	5	0
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37	0	10
484	0	1
2821	0	1
4575	0	590
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366	2	0
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446	1	0
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8	3	0
560	0	4
30	0	1
3	0	12
1	0	3
75	0	9
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722	2	0
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292	0	17
7	0	4
177	0	1
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63	1	0
14	5	0
9	0	3
449	0	1
612	0	1
1519	1	0
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46	4	0
355	0	4
1522	106	0
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32	2	0
110	0	10
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36	0	317
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325	2	0
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272	0	8
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6	0	1
849	0	2
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414	1	0
865	0	1
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796	0	1
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60	10	0
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9	3	0
372	19	0
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43	0	26
40	0	19
100	0	10
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3	0	22
23	0	1
3	185	0
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39	0	13
715	0	1
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4	6	0
68	3	0
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8	19	0
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9	24	0
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24	0	3
31	21	0
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8	27	0
1709	26	0
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84	1	0
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16	38	2
832	83	0
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1334	15	0
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967	30	0
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34	2	0
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322	0	1
641	0	1
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66	1	0
4	16	0
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848	3	0
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539	8	0
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439	0	1
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4	0	3
4	0	4
96	0	2
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72	0	1
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147	0	2
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983	0	3
7	2	0
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549	1	0
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216	0	12
92	0	140
4	0	76
6	0	8
124	0	44
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86	4	0
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1345	4	0
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483	0	1
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1541	109	30
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40	0	127
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1758	1	0
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14	65	0
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2	0	4
1445	63	0
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105	0	5
3105	1	0
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697	0	2
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45	0	45
30	30	0
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8	0	8
323	0	6
731	0	1
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30	463	0
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193	1	0
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3172	4	0
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1	9	0
50	0	23
372	501	0
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3	11	0
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359	71	71
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2640	1	0
181	0	1
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316	0	3
2240	429	87
391	0	2
2957	0	39
6269	0	1
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62	4	0
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947	2	0
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74	0	1
68	0	1
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64	1	0
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67	0	3
1668	1	0
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6	0	4
24	0	2
152	0	3
1715	1	0
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1552	102	0
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141	0	1
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46	2	0
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563	0	36
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43	1	0
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2147	0	1
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79	0	313
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62	0	2
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35	13	11
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2324	1	0
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4752	1	0
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72	21	38
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8	117	75
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146	3	2
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1561	1	0
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14	18	76
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28	256	357
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28	0	1
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704	1	0
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65	16	0
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36	1	0
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47	1	0
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4	7	2
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1	0	5
7	0	1
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4	0	9
55	21	0
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1	169	0
62	1	0
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4	4	3
15	52	12
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15	1	0
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289	0	4
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8	8	73
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31	1	36
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5	0	64
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20	1	51
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5	1	0
4	7	53
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14	0	36
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2	0	72
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1739	0	2
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6	2	0
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14	0	1
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89	0	7
103	1	0
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63	14	0
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261	6	0
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536	0	2
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2532	16	2
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5	3	269
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89	0	2
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48	2	358
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8	0	85
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868	1	0
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134	0	8
1677	1	0
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12	24	137
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9	1	0
7	26	23
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67	1	0
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4	0	39
69	3	0
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953	1	0
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9	0	22
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721	1	0
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1303	1	0
413	2	0
78	6	0
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526	0	18
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12	2668	104118
3566	0	5
1691	0	4
32	3	1
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655	0	1
117	4	0
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1694	1	0
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31	2	0
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22	22	0
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71	1	0
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17	0	491
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2	388	0
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560	1	0
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153	20	223258
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82	5	0
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42872	570752	326879
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213	10	0
13	20	0
225	35	0
165	1	0
323	1	0
739	15	0
784	20	0
300	0	10
156	45	0
122	0	20
103	1	0
38	1	0
447	0	10
12	0	20
109	1	0
114	0	15
159	0	1
188	0	15
134	0	1
390	5	0
939	10	0
63	3502	0
24710	0	15
1129	3484	0
129	5	0
2606	0	5
3088	0	15
24	15	0
371	5	0
3493	5	0
909	0	3498
552	30	0
5528	5	0
3475	5	0
32	0	3508
1878	0	1
12109	5	0
7804	15	0
18741	0	2395
3769	5	0
18950	2	0
16252	0	2
2444	0	2
8382	12705	0
24195	0	4
149	0	4
3329	0	1
5649	2	0
26	1	0
5880	0	2
2765	0	5
10987	0	3
16380	0	1
2	0	4
48301	0	10
2433	3	0
21	0	36
5539	0	2
4326	8	0
4255	1	0
3416	0	4
1517	4	0
861	1	0
18648	19	0
1776	0	3
1309	1	0
724	0	1
1972	4	0
1725	4	0
866	1	0
6335	1	0
9791	0	1
2723	1	0
45	0	6
1324	0	1
6011	0	1
8120	0	5
407	1	0
1864	10	0
7215	0	1
3912	0	4
915	0	2
3143	14	0
8900	1	0
658	32	0
3104	0	33
16288	0	3
6451	0	1
343	0	2
4828	0	1
6	0	3
530	2	0
2613	1	0
1095	0	4
12695	0	1
6099	0	1
73	12	0
272	0	2
2724	2	0
4392	0	1
9625	1	0
7862	1	0
13514	4	0
253	1	0
73	0	1
13870	0	3
11268	1	0
168	0	1
782	1	0
1171	0	1
15780	2	0
5226	1	0
1856	0	2
11597	29	0
745	6	0
106	6	0
116	7	0
1	0	1
75	1	0
52	0	10
1	0	2
43	0	1
10	0	1
15	2	0
3	0	1
10	4	0
20	8	0
91	0	5
6	0	1
5	0	1
28	1	0
2	4	0
25	77	13
19	146	35
21	6	0
9	0	2
2	0	6
4	0	1
18	1	0
2	5	0
18	10	0
15	30	14
91	4	0
7	0	2
6	23	9
52	146	8
22	34	0
1	0	5
24	17	35
6	1	0
6	0	23
4	0	1
40	22	11
13	3	0
59	14	5
27	3	0
21	1	0
14	4	0
5	1	0
17	4	170
8	1	0
16	3	0
15	20	229
21	0	2
7	0	1
71	2	0
28	0	27
10	0	6
16	0	51
2	1	0
27	0	1
67	390	156
32	3	0
20

chain 12753376 NA20850_chrY 53499199 + 24341821 24490757 HG002_chrY 62432599 - 38399346 38539790 2
17084	0	1
614	0	1
31	10848	0
4479	1	0
411	0	2
10409	1	0
452	1	0
2002	1	0
4952	0	1
6998	0	1
715	0	4757
506	0	1
5052	1	0
1126	2384	0
7	1	0
2251	0	1
4310	1	0
1457	0	11
1558	1	0
3724	1	0
967	1	0
2349	5	0
5225	0	1
9915	1	0
4333	15	0
1653	4	0
2516	0	1
1668	14	0
84	0	6
1925	0	1
3438	4	0
754	0	1
7534	0	1
24833	0	7
223	1	0
95

chain 3743032 NA20850_chrY 53499199 + 19616005 19655668 HG002_chrY 62432599 - 42850342 42889998 3
15515	1	0
4450	4	0
17025	2	0
2666

chain 427764 NA20850_chrY 53499199 + 23467205 23471716 HG002_chrY 62432599 - 39338719 39343231 4
2490	0	1
2021

chain 327046 NA20850_chrY 53499199 + 18926919 18930375 HG002_chrY 62432599 - 43575591 43579047 5
3456

chain 6804 NA20850_chrY 53499199 + 24498896 24499056 HG002_chrY 62432599 - 38539790 38542814 6
2	0	2864
158

chain 2683 NA20850_chrY 53499199 + 12608556 12608584 HG002_chrY 62432599 + 12511308 12511336 7
28