##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
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17	0	27
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3385	0	2
1406	0	1
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1524	0	1
7833	1	0
1263	6	0
33	0	1
732	8	0
248	0	4
111	0	24
50	0	172
29	0	8
69	0	2
665	4	0
1722	0	1
1054	0	1
204	0	1
1725	0	1
849	168	0
281	84	0
291	252	0
465	3	0
882	0	4
1622	6	0
147	0	1
1077	1	0
264	2	0
342	1	0
7331	1	0
239	3	0
731	1	0
344	1	0
5469	1	0
1018	1	0
693	3	0
1294	2	0
229	0	4
183	0	6
71	3	0
276	2	0
132	4	0
219	1	0
3	2	0
19	2	0
296	0	4
1250	15	11
157	1	0
1184	4	0
2357	0	229
1322	0	3
519	0	2
192	12	0
16	3	0
827	0	4
344	0	773
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759	15	0
408	0	136
277	0	1
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171	0	1
319	1	0
581	1	0
645	1	0
907	3	0
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815	0	3
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823	0	1
1222	0	4
1477	0	1
5943	0	11
305	0	2
1755	0	1
1547	0	1
342	2	0
107	0	12
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17	0	5
5	0	2
76	0	1
82	4	0
24	15	0
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195	0	9
77	12	0
308	0	16
9	0	26
657	0	15
217	18	0
56	3	0
4495	0	3
11	0	1
723	0	4
1799	0	4
1688	0	2
267	25	0
501	0	3
70	2	0
20	16	0
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6619	0	1
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764	0	8
548	0	23
17	0	4
153	0	1
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38	4	0
45	0	2
2174	12	0
54	0	3
110	1	0
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59	5	0
15	0	4
136	0	4
36	0	4
33	0	4
212	0	4
1093	1	0
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305	0	4
518	0	3
163	12	4
82	4	0
281	0	4
623	0	1
51	0	121
97	41	0
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248	40	327
63	41	0
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168	1	0
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3459	0	4
165	0	4
1875	1	0
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24	4	0
696	4	0
3894	104	52
41	12	0
552	1	0
46	4	0
18	2	0
779	3	0
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8	0	3
1014	1	0
7	1	0
127	0	1
640	0	1
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19	6	0
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27	0	5
21	15	0
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47	1	0
1	3	0
28	11	0
7	0	689
17	32	3
20	1	0
12	0	11
63	1	0
11	1	0
4	1	0
42	5	3
11	0	1
15	1	0
15	0	1
31	0	1
39	52	12
13	0	6
15	1	0
7	33	0
3040	1	0
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710	4	0
330	0	4
1396	6	0
114	0	1
784	0	2
197	0	24
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50	7	0
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12	3	0
44	0	1
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18	0	4
8	0	4
1	0	20
24	0	11
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24	4	0
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24	0	4
16	1	0
11	0	13
36	0	1
28	0	1
8	1	0
32	0	4
39	0	3
1	6	0
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52	0	18
1	0	1
3	0	3
9	0	29
19	0	8
36	21	34
19	4	0
10	0	3
27	0	1
1	0	3
30	0	4
41	0	1
22	0	1
52	0	3
17	3	0
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28	0	3
2	0	6
76	0	5
20	1	0
2	0	13
21	1	0
42	0	8
12	4	0
1706	0	2
1477	3	0
28	0	3
336	3	0
15	0	3
63	14	0
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725	0	12
300	0	1
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1142	1	0
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657	1	0
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704	9	0
32	0	12
42	0	2
1680	0	1
187	5	0
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894	2	0
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699	1	0
443	250	0
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894	1	0
1831	0	1
2574	6	0
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12	16	0
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1351	0	40
299	0	40
501	40	0
1879	1	0
7800	6	0
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17	10	545
87	0	2
48	0	712
1	0	2
9508	0	1
6491	12	0
2	14	0
5395	0	4
123	8	0
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12	1	0
1629	0	2
538	0	1
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1199	39	1
81	1	41
42	0	20
30	0	101
12	24	137
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14	1	0
34	0	20
79	15	7
17	0	48
5826	1	0
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314	1	0
710	5	9
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16	0	4
3	12	0
5	0	1
7	0	7
2	0	4
6	0	1
25	34	45
25	0	4
30	0	1
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4	0	2
13	0	1
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5	0	3
7	0	2
2	0	1
5	0	12
38	0	1
94	0	3
81	0	1
5	0	1
215	3	0
71	0	12
87	0	2
18	0	1
5	0	7
12	2	0
41	22	0
15	0	2
7	0	1
9	0	1
23	0	1
5	114	115
17	0	29
2	1	0
5	0	1
4	0	5
52	0	1
50	3	0
14	14	0
4556	1	0
7542	0	1
1	0	1
702	0	2
642	0	3
2739	0	1
1022	0	1
9714	6	0
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8	5	0
6938	0	4
163	1	0
1759	12	0
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711	0	1
1026	3	0
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172	1	0
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393	0	2
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1857	2	0
5688	0	2
11731	1	0
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2653	1	0
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37	0	34
17384	1	0
790	21	0
31	0	20
666	0	1
2331	4	0
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85	0	1
553	8	0
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27	18	0
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12	3	0
47	0	3
36	12	0
214	3	0
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954	0	1
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4868	3	0
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314	0	1
5433	12	0
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22	0	9
79	0	11
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3485	3	0
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1403	9	0
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49	0	3
128	4	0
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5	0	5
9	0	22
15	0	12
14	33	16
51	0	24
721	1	0
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322	0	1
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8304	1	0
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6	0	2
2043	6	0
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90	0	4
3048	4	0
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3674	20	0
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1373	1	0
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57	0	5
6930	64	0
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19	0	12
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391	2	0
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2578	16	6
5071	0	1
12	2668	104118
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1691	0	4
32	3	1
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655	0	1
117	4	0
20	2	0
1694	1	0
664	3	0
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31	2	0
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22	22	0
14	22	0
42	6	0
532	0	1
81	1	0
722	0	1
327	0	1
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613	0	2
370	1	0
141	0	1
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44	0	1
337	1	0
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89	0	4
22	0	5
71	1	0
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17	0	491
598	0	1
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281	0	7
2	388	0
92	0	14
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51	0	30
78	1	0
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124	1	0
54	0	1
329	0	5
560	1	0
43	0	4
240	0	1
153	20	223258
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1753	0	9
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35125	10000	0
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74	0	8
12213	6	0
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114	2	0
27	3	0
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27	7	0
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21	0	5
82	5	0
23	0	5
147	0	29
3020	31	0
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1755	1	0
3315	0	28
72	0	2
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26	8	6
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2711	0	20323
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42872	514962	311619
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1136	125718	161980
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8	10	0
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1023	82317	75140
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96	1	0
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8	0	5
2406	15	0
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11530	3415	3411
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4075	3371	3372
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644	39680	39663
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8095	2	0
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10772	0	5
9576	3490	5330
3	0	1710
379	15	0
457	0	15
219	15	0
494	14	0
754	0	20
13	10	0
5	0	15
10	0	10581
1129	15	0
23732	49019	22444
8454	0	1
1027	1	0
8430	9163	3533
5	0	2096
17456	0	10
37	0	10
345	0	3514
3209	0	10
393	0	5
672	1	0
690	0	10
14	0	5
933	0	5
452	15	0
5697	0	5
918	0	5
1237	10	0
1361	15	0
2211	15	0
2270	5	0
1183	1	0
44	10	0
810	42832	25172
1146	0	5
6349	2411	2411
11662	9675	2412
6220	0	2416
2574	4979	0
17866	492	4030
15765	45817	24607
1384	3534	0
7335	0	5
2414	21445037	31858374
3148	3549	0
4648	0	1
10097	10	0
6215	5	0
6473	0	20
4260	0	20
3521	0	5
6961	1	0
6372	0	5
7557	5	0
637	0	3559
2921	5	0
3559	0	5
3574	5	0
1809	12349	1712
71	25	0
6363	25	0
13729	12588	2913
959	6425	11256
2987	0	1
3372	2	0
79	2	0
1111	0	2
174	0	4835
10750	2	0
994	0	2
1	2	0
5	0	2
600	1	0
690	2419	0
3861	4836	4836
5659	31008	41568
2711	5	0
229	0	15
111	1	0
156	0	15
499	5	0
333	10	0
87	1	0
706	15	0
1716	1	0
640	0	15
349	0	20
919	0	5
1340	48556	172223
6886	10	0
2952	0	26846
35158	0	5
20	2071	16205
3367	1	0
3534	0	1
3534	1	0
6240	0	14139
9022	5	0
14118	0	1
5252	0	40
1861	0	25
1634	0	40
3481	0	40
3503	0	40
197	1	0
671	0	7095
974	0	25
215	0	21200
8492	0	14039
29907	20	0
28076	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
8979	2	0
26	1	0
5880	2	0
1421	1	0
1346	1	0
10992	0	3
16383	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	5	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	13	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	2
11269	1	0
168	0	1
782	1	0
16952	2	0
5226	1	0
1856	0	1
11571	29	0
27	0	58
687	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
9	0	6
20	0	1
1	2	0
10	9	3
41	11	36
24	5	0
1	0	6
12	43	2
29	52	24
36	0	2
12	0	2
17	1	0
2	5	0
18	21	23
5	1	0
13	1	0
5	1	0
8	0	17
49	4	0
8	0	1
5	0	3
2	0	589
9	3	0
15	9	0
22	0	1
1	0	54
14	0	84
15	1	0
33	97	15
11	0	2
79	2	0
29	4	0
36	0	6
24	0	1
1	0	37
35	4	0
70	4	0
60	0	1
6	1668	1
56	0	5
53

chain 3742451 HG04228_chrY 50658216 + 19455246 19494919 HG002_chrY 62432599 - 42850342 42889998 2
15515	1	0
4450	4	0
6526	10	0
10499	2	0
2666

chain 427764 HG04228_chrY 50658216 + 23249899 23254410 HG002_chrY 62432599 - 39338719 39343231 3
2490	0	1
2021

chain 372336 HG04228_chrY 50658216 + 24840117 24844062 HG002_chrY 62432599 - 37698898 37702843 4
3945

chain 322143 HG04228_chrY 50658216 + 14834361 14837773 HG002_chrY 62432599 - 47507067 47510475 5
619	4	0
2789

chain 2683 HG04228_chrY 50658216 + 12447968 12447996 HG002_chrY 62432599 + 12511308 12511336 6
28