##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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209	45	0
22	45	0
297	45	0
18	45	0
27	90	0
332	31	0
1193	8	0
351	4	0
377	0	4
358	4	0
1015	7	0
343	0	3
26	0	4
66	0	4
277	28	0
18	13	3
425	0	4
14	0	4
70	4	0
62	24	0
45	0	4
84	8	0
194	0	4
187	0	4
18	0	8
29	4	0
11	4	0
100	20	0
14	4	0
7	20	0
54	0	4
8	0	19
90	4	0
16	12	0
28	3	14
16	0	1
2614	0	4
844	0	2
1400	0	1
1719	54	0
234	8	10
27	0	2
27	0	2
27	33	0
1	6	0
149	0	27
1	0	2
10	29	0
8	0	2
121	27	0
226	0	1
1431	0	3
3380	0	2
1939	0	3
1	0	55
4856	0	4
696	20	0
5261	4	0
174	4	0
10357	0	2
36	0	309
1505	0	1
709	0	76
111	28	0
512	1	0
141	0	1
2464	2	0
143	0	1
480	1	0
29	0	4
1643	7	0
876	4	0
1094	0	192
31	0	96
108	1	0
18	0	48
48	0	49
218	0	48
899	68	0
158	204	0
891	0	2
184	0	1
166	1	0
1782	6	0
181	0	1
1333	0	830
4	1	0
12	0	55
350	0	2
2345	3	0
219	0	52
91	104	0
73	52	0
9163	191	0
28	76	0
81	26	0
93	0	8
820	0	6
1202	0	4
61	4	0
110	1	0
113	1	0
2038	0	5
302	1	0
7	4	0
269	0	12
493	4	0
77	4	0
3	20	0
103	0	4
32	8	0
14	4	0
27	8	0
463	0	4
73	4	0
172	0	4
2584	2	0
667	0	3
34	0	3
3662	0	1
170	4	0
11	1	0
12	2	0
353	0	4
131	3	0
740	0	2
401	0	4
26	0	2
882	0	3
13	0	9
893	0	2
2595	21	0
1003	0	1
181	0	1
531	0	4
286	0	1
29	1	0
31	1	0
7	124	0
93	0	1
328	1	0
246	4	0
703	1	0
827	0	2
314	1	0
1646	0	2
1187	1	0
5	0	4
1572	1	0
2893	0	1
41	2	0
1035	4	0
2859	1	0
1459	4	0
6159	269	0
530	2	0
168	0	2
712	2	0
334	0	1
1359	1	0
74	0	1
815	0	2
3741	4	0
12	4	0
43	0	8
4	4	0
29	4	0
112	4	0
71	4	0
302	4	0
14	4	0
68	0	4
44	0	4
32	0	4
19	0	4
37	0	4
524	0	5
621	29	0
191	2	0
243	0	1
2890	0	4
29	0	4
62	4	0
24	12	0
638	6	0
147	0	1
653	12	0
65	26	0
13	2	0
54	8	4
25	16	0
690	5786	0
18	797	8
717	0	1
515	2	0
387	0	3
960	0	270
3060	0	1
487	0	1
5161	1	0
1263	0	2
4173	0	1
1082	0	259
2738	4	0
245	0	4
61	1	0
30	6	16
9	0	2
7549	0	4
41	0	6
484	0	1
1234	0	2
1381	135	0
205	5	0
2006	0	1
184	0	536
4	0	1
1200	148	0
557	0	885
86	0	590
276	0	295
2088	0	1
208	0	313
112	0	1
2950	4	0
168	0	4
366	2	0
600	2	0
133	0	2
45	135	0
2745	1	0
2433	2	0
268	0	1
7972	0	55
3758	0	8
34	0	12
98	0	14
5	0	5
712	2	0
1475	0	2
299	0	3
166	1	0
11963	106	0
4589	72	0
10284	318	0
3674	0	1
46	0	2
335	2	0
688	4	0
20	377	7
157	0	2
4571	1	0
6	1	0
16	37	0
1504	1	0
107	8	0
23	4	0
363	0	3
4	0	33
315	1	0
61	0	4
72	4	0
417	2	0
47	0	1
3	1	0
169	0	26
89	0	2
897	4	0
871	6	0
971	0	180
64	0	3
5	23	0
20	10	0
50	0	5
368	1	0
119	0	10
81	20	0
39	1	0
1	4	0
1612	1	0
138	2	0
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15	0	15
1445	4	0
326	0	4
468	6	0
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27	2	0
24	0	4
653	4	0
95	0	6
885	0	1
328	0	4
29	5	0
234	2275	2338
43	0	1
59	0	4
13	4	0
40	4	0
186	4	0
2219	0	1
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51	4	0
42	4	0
328	0	4
830	0	2
58	0	47
37	0	54
3	1	0
5	0	1
3	3	0
31	3	0
12	0	8
8	148	10
13	54	0
14	1	3
24	30	22
16	7	0
31	159	0
42	64	0
11	20	0
19	0	2
3	0	1
6	7	0
10	15	0
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2	0	1
12	0	1
6	0	2
5	2	0
4	26	0
15	20	0
6	2	0
4	4	0
15	35	0
9	282	11
40	0	1
25	13	0
7	13	0
37	131	0
14	1	0
6	2	0
7	1	0
6	9	0
9	25	6
11	26	0
10	5	0
8	139	40
10	16	0
31	44	5
18	83	7
19	10	0
7	3	0
9	57	5
35	19	0
25	13	0
43	8	0
2	2	0
14	93	75
26	13	6
31	11	0
11	1	0
7	1	0
15	241	19
11	30	7
41	0	1
42	4	0
1	9	0
79	0	2
1	0	1
41	0	1
77	0	23
9	0	2
1	0	1
9	0	1
3	353	0
145	197	32
76	0	4
16	62	0
12	0	24
9	0	1
9	1	0
7	25	17
13	3	0
3	0	8
5	6	0
5	0	4
6	0	6
17	4	0
12	0	1
6	0	7
9	0	1
13	556	75
438	1	0
28	0	1
244	6	0
2341	1	0
1691	0	208
1029	0	1
253	0	3
25	3	0
2	33	0
26	20	33
5	0	3
211	0	62
8	19	0
33	0	19
9	24	0
11	0	5
3	4	0
37	45	21
16	18	0
8	3	0
3	51	0
8	2	21
8	27	0
1775	29	0
28	1	0
63	34	0
94	0	1
36	1	0
16	39	2
830	2	0
2	83	0
169	1	0
604	1	0
2114	15	0
47	0	1
13	0	10
33	0	10
577	0	3
80	0	9
5873	0	2
3548	12	0
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542	1	0
12	0	2
439	0	1
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1687	4	0
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4	0	3
4	0	4
96	0	2
43	0	2
37	0	2
220	2	0
72	0	1
27	0	2
147	0	2
69	14	0
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98	2	0
454	0	10
55	0	4
127	4	0
39	0	2
162	0	4
146	4	0
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549	1	0
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1052	0	4
216	0	12
92	0	140
4	0	76
6	0	8
124	0	44
522	0	2
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534	13	10
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3438	1	0
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88	8	0
16	0	4
28	4	0
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86	4	0
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178	4	0
62	0	4
308	0	1
370	4	0
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1345	4	0
4667	8	0
97	0	8
643	0	8
360	0	8
30	0	4
1434	1	0
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952	0	1
2736	1	0
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196	0	2
1477	11	0
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27	0	3
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129	0	103
49	1	0
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38	99	0
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19	0	50
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8	0	49
16	148	0
51	128	0
84	1	0
103	1	0
11	71	0
77	0	1
1	0	1
460	10	0
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1044	0	4
274	0	3
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319	0	38
3337	0	5
962	0	2
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6	0	3
1403	0	8
516	4	0
63	4	0
311	0	84
344	0	8
2	0	4
6451	2	0
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5551	0	1
105	0	5
2146	2	0
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608	4	0
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173	0	8
738	1	0
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665	0	3
18	3	0
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581	15	0
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2220	1	0
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193	0	24
16	0	5
102	5	0
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690	0	57
1482	11	0
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87	513	0
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145	1161	285
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169	11	0
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926	1	0
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240	0	1
18	0	2
316	0	3
2240	843	0
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514	1	0
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65	0	205
6287	38	0
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167	76	0
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1365	5	0
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1345	1	0
13	0	3
373	0	4
893	4	0
325	1	0
561	5108	2265
40	7	0
324	2	0
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817	1	0
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3757	1	0
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2793	1	0
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1530	0	18
5316	260	0
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15	91	1
48	89	41
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46	0	2
63	70	0
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86	0	4
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48	8	0
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91	4	0
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28	0	4
16	4	0
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227	1	0
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1755	0	4
1	1	0
70	24	0
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1324	0	12
16	0	189
2018	0	1
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691	1	0
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984	0	88
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62	0	4
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146	3	2
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21	72	7
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8	35	0
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63	8	3
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1047	0	1
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14	12	0
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85	0	4
7815	12	0
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286	2	0
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3379	4	0
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1179	1	0
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817	0	1
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114	2	0
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3763	8	0
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569	2	0
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7	310	340
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118	12	0
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294	0	7
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72	2	0
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1065	1	0
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2039	1	0
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810	0	4
459	0	1
540	4	0
198	98	0
2116	5	0
347	0	1
11	0	2
730	1	0
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216	0	2
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1079	0	133
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81	0	3
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11	3	0
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31	12	121
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629	1	0
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9875	1	0
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838	1	0
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106	0	8
4030	0	20277
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1926	1	0
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830	1	0
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356	1	0
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1693	4	0
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45	0	40601
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22	4	0
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4209	1	0
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37	0	121774
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73	0	10
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35125	10004	0
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70	0	12
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21	0	5
82	5	0
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147	0	29
3020	31	0
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72	0	2
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26	8	6
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8	7359	0
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2842	212519	185079
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59	4	0
16161	14	0
50599	8	0
330	15	0
10077	0	1
5714	1	0
27000	4	0
684	0	14
26	0	2
18590	1	0
325	0	1
2253	0	12
9565	1	0
24119	0	1
5322	1	0
64546	0	2
16399	4	0
79	4	0
5979	0	4
2054	0	2
4148	4	0
11585	1	0
22801	29	0
11152	0	5
5	0	20
5502	0	2
351	2	0
910	1	0
2433	1	0
325	1	0
297	0	5
12961	3411	3411
12970	0	7
287	1	0
321	1	0
2439	1	0
910	2	0
355	0	2
5550	0	10
1258	1	0
8346	4	0
561	0	1
59971	0	4
14492	1	0
251	4	0
48127	4	0
1746	12	0
1482	5	0
4460	4	0
2500	1	0
4916	0	1
3327	1	0
12534	2	0
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37	14	0
7652	3	0
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5196	10	0
31182	0	1
15958	0	2
63	2	0
23	0	2
19905	4	0
1891	0	1
4787	1	0
5742	4	0
6537	42	0
80	0	46
165	2	0
21	2	0
2	21	0
21	23	0
23	19	0
1424	1	0
37883	0	2
26052	0	1
2646	0	10
45022	0	2
18788	0	2
640	1	0
13502	1	0
12530	0	13
645	0	1
18001	0	4
18385	3	0
15	1	0
40427	0	1
15128	0	2
24365	0	4
381	0	8
3607	2	0
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15775	22	0
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7962	4	0
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14590	0	1
161	1	0
66	0	2
3712	0	2
6100	43	0
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7477	2	0
5579	1	0
7963	1	0
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938	1	0
15731	1	0
873	0	2
426	1	0
12972	0	1
11135	0	6
2062	3	0
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10079	0	2
43	2	0
1722	0	4
3616	0	2
8303	0	1
8914	7	0
5257	4	0
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1871	0	1
49752	4	0
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9102	8	0
82	12	0
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6238	0	1
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2518	0	2
788	4	0
3663	0	12
9819	0	1
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238	4	0
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287	8	0
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2190	4	0
56	0	4
2164	4	0
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4875	1	0
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7211	1	0
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6923	3	0
564	1	0
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614	4	0
4980	0	1
16557	2	0
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1323	0	2
84	4	0
34548	1	0
7235	1	0
6259	0	4
5446	0	1
24006	0	1
12032	0	3
7834	1	0
8887	1	0
157	1	0
3792	2	0
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1086	2	0
6580	0	14
8921	1	0
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12	0	2
4121	0	1
23642	7	0
2536	4	0
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8702	0	4
17425	15	0
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328	12	0
64	12	0
7	0	4
21798	2	0
11	0	4
1274	4	0
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15208	6	0
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5646	1	0
3880	0	12
2788	0	1
50	4	0
5816	0	1
9698	0	1
4816	0	1
2976	0	1
11072	1	0
30090	2	0
16	0	1
14	0	1
18	0	3
3736	0	1
18	1	0
5383	1	0
6458	0	3
1974	1	0
3730	2	0
42	4	0
16279	5	0
6929	1	0
3692	0	2
10717	4	0
67	4	0
7	2	0
2287	0	1
2757	1	0
5219	2	0
2	24	0
30404	0	1
10856	2	0
13464	0	4
10709	8	0
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18	0	8
7481	4	0
5818	1	0
9996	1	0
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1327	0	1
13780	0	2
21763	1	0
14267	4	0
9590	0	1
15124	0	1
4014	0	3
22472	0	2
377	1	0
8010	0	1
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8435	2	0
6385	0	1
2341	0	4
530	2	0
7748	0	4
17	0	4
48	0	4
58	0	8
11196	0	2
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8518	8	0
243	4	0
2478	8	0
17	0	2
2440	6	0
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5303	2	0
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8115	0	1
2205	0	2
2485	0	4
596	6	0
4119	1	0
7111	4	0
74	4	0
4	0	1
60	4	0
1098	2	0
9433	1	0
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1246	0	2
44118	0	2
25405	4	0
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19860	0	1
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21001	21	0
6088	1	0
6347	0	2
19892	0	23
5695	0	2
5355	0	4
27912	0	4
19911	2	0
25	0	2
4727	8	0
3415	1	0
13256	14	0
44229	4	0
12531	4	0
1364	1	0
7243	1	0
7123	0	1
13256	1	0
18940	0	1
2393	0	1
4817	0	4
79	8	0
20052	0	5
1913	1	0
1479	0	1
18462	2	0
10451	0	4
3956	0	1
9101	10	0
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7933	4	0
4339	1	0
12228	0	2
2399	0	1
22673	0	4
29079	4	0
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25498	2	0
73	19	0
1631	1	0
21188	0	2
5935	0	1
4710	0	1
17517	1	0
773	0	1
750	0	2
8418	3	0
3493	2	0
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20634	1	0
3565	2	0
14	0	1
52	3	0
1981	1	0
13493	0	1
3819	0	24
21	0	2
173	2	0
24366	1	0
7737	0	4
11612	0	2
17528	1	0
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30917	0	2
32	0	2
8720	0	1
13901	5	0
1144	0	1
6732	1	0
6464	4	0
12430	0	4
13431	0	8
5159	12	0
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961	2	0
17853	4	0
88	8	0
616	0	4
10335	0	3
13711	0	8
58	0	4
3	0	1
28	0	2
1683	0	2
4	0	1
42	0	19
5	0	1
41184	4	0
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8299	0	12
9461	0	1
65830	0	6
21315	0	13
6696	0	3
907	1	0
127	0	1
17172	8	0
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7801	0	5
26159	0	4
3011	0	1
1402	1	0
6698	2	0
11910	0	3
5649	1	0
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9919	2	0
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2676	1	0
2767	2	0
13245	0	1
75237	0	1
1176	1	0
1336	1	0
9544	4	0
56	0	8
1952	4	0
2252	1	0
11391	4	0
2785	0	3
70	0	3
4081	3372	3372
8426	1	0
5129	1	0
7514	3	0
28755	0	8
1468	0	4
44	0	1
2519	0	2
7050	25	0
6	4	0
10120	14	0
59	3	0
47	4	0
1	2	0
39181	14	0
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6	25	0
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5064	2	0
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13	0	1
1	0	1
46	0	1
2998	1	0
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1495	1	0
2153	0	6
2904	1	0
6640	0	3
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33	0	2
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592	1	0
1435	4	0
48	8	0
4	8	0
9505	0	1
1330	1	0
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5	1	0
3	6	0
6718	0	1
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6103	1	0
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38393	1	0
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6711	0	1
4399	0	12
6601	1	0
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49	0	5
6394	0	2
21	0	2
30158	1	0
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643	0	1
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6093	1	0
840	1	0
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14738	4	0
8037	0	28
3317	2	0
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4450	1	0
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8099	2	0
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107	2	0
26	0	2
3742	1	0
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1399	1	0
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6906	1	0
27	22	0
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650	0	1
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39	0	8
726	1	0
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4032	6	0
2	2	0
5630	4	0
2927	4	0
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141	0	4
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18	5	13
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23	0	2
1800	0	1
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7981	0	3
2119	1	0
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990	0	2
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13	1	0
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1856	4	0
576	0	12
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42	6	0
564	0	12
4947	0	1
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4380	4	0
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35	0	4
20	4	0
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9549	0	1
2914	5	0
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32	2	0
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3346	1	0
2599	1	0
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7227	14	0
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7517	4	0
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482	0	1
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31924	1	0
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2441	1	0
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560	0	2
54654	5	0
16551	1	0
825	0	2
1339	0	1
1420	3	0
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874	0	1
6580	0	1
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176	10	0
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5795	0	1129
3436	0	125
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424	0	249
59	3	128
105	4	0
99	1	0
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473	0	1
14	0	1
51	0	1
127	0	1
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39	0	4
293	0	1
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764	0	1
25	0	128
10	0	375
39	0	1
118	0	1
209	0	373
37	0	1
503	0	16
5	0	110
283	0	2
162	46160	202
1197	0	498
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4057	0	250
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176	0	1
192	0	39
5	0	85
239	0	1
324	34492	29505
43	0	125
63	0	1
98	1	0
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130	0	1
164	0	2
83	4	0
3	0	3
158	2	0
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105	0	2
80	10	9
283	2	0
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603	0	123
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2	5	0
16	3	1001
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225	1496	0
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269	0	1
27	0	249
137	0	7
6	7	0
15	0	1
286	0	2
82	1	0
518	1	0
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3418	749	0
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4515	2624	0
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37	250	0
16324	1000	0
71	25771	14896
41	125	0
1044	1	0
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411	0	1
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560	0	1
332	0	7
3	7	0
240	124	0
1232	0	375
1193	0	1
13297	125	0
790	3642	392
54874	4	0
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33407	4	0
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3639	1	0
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21299	1	0
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62455	0	1
304	0	4
36	4	0
4645	0	10
2121	32294	32299
2096	2	0
4640	8	0
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32	2	0
5932	0	16
1877	0	1
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5565	4	0
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32152	70945	326
9540	10	0
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349	1	0
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708	1	0
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11	77	0
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11662	1	0
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622	0	1
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53	2	0
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386	42095	2085
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42	336	0
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8	1	0
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295	0	4
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577	0	2
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240	1	0
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148	0	2
211	1	0
25	3	0
116	2	0
76	0	1
104	11	0
116	0	4
3	3	0
139	0	1
109	0	1
116	0	1
188	0	5
213	1	0
192	0	1
37	0	1
10	0	1
37	0	1
50	1	0
5	0	2
178	0	3
120	2	0
98	0	1
251	2	0
28	0	1
57	1	0
23	466	6295
120	0	1
262	0	1
214	0	4
221	0	1
130	4	0
213	4	0
43	1	0
105	0	1
2	2	0
29	0	1
15	0	2
96	1	0
127	1056	0
244	0	1
60	0	7
439	0	1
41	1	0
235	11	0
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690	0	1
254	0	1
16	36	0
97	1	0
234	0	2
27	0	1
33	4	0
1	0	5
121	2	0
25	1	0
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	75531	109875
386	0	3
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53	32	0
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67	0	1
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72	0	2
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63	5351185	5058765
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505	0	14
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8449	3505	5330
3	0	1710
379	15	0
457	0	15
219	15	0
494	14	0
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13	10	0
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10	0	10581
1129	15	0
23732	42203	5937
6973	0	1
334	60287	19199
7912	9163	3533
5	0	2096
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954	15	0
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445	0	5
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3898	7108	0
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2143	10	0
1361	20	0
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813	5	0
370	1	0
44	10	0
810	23618228	32067514
823	0	5
119	15	0
833	5	0
3	25	0
326	15	0
6037	25	0
13729	10173	2913
5552	4825	7243
5780	2	0
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1111	0	2
174	0	4835
10750	2	0
994	0	2
1	2	0
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600	1	0
690	2419	0
3861	4836	4836
4277	28826	42950
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
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1340	53050	172223
5845	1	0
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2952	0	26846
5481	0	31794
1092	0	15
8574	898	4432
3367	1	0
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2243	0	1
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2092	25	0
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566	5	0
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101	15	0
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381	0	10
168	45	0
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3520	0	15
174	0	25
4078	0	7080
21651	1	0
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74	0	25
14	5079	1599
1328	1	0
494	0	20
66	0	40
6429	0	1
494	20	0
66	40	0
13419	0	1
513	20	0
61	40	0
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14	0	5
387	1	0
334	0	15
134	5	0
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24	15	0
777	1	0
334	0	15
134	5	0
3513	0	3498
552	30	0
2419	1	0
341	0	15
129	5	0
8828	21497	10994
3805	5	0
7804	15	0
24905	5	0
37648	0	2
32577	12	0
3486	0	1
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26	1	0
5880	0	6
2761	0	3
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4264	0	1
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6743	0	4
2550	2	0
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11835	0	7
37	19	0
1776	0	3
1309	1	0
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3697	16	0
866	1	0
4492	1	0
164	0	1
1587	0	1
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10395	4	0
7219	1	0
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915	0	2
6706	1	0
5995	16	0
772	2	0
25107	0	1
110057	2	0
5226	1	0
5724

chain 11116850 200080_chrY 54195246 + 24087248 24226397 HG002_chrY 62432599 - 38399346 38539790 2
17699	0	1
23	0	10850
4459	1	0
2454	1	0
4938	0	1
13	0	1
6999	1	0
715	0	4757
650	20341	6035
7	1	0
2251	0	1
3446	1	0
864	1	0
1457	0	11
1558	1	0
3724	1	0
3316	5	0
3200	1	0
1163	0	2
860	0	1
9915	1	0
195	0	8
4130	12	0
740	0	1
912	2	0
2516	0	1
1668	1	0
2015	0	1
3438	12	0
754	0	1
32368	0	7
223	1	0
95

chain 3058316 200080_chrY 54195246 + 21869670 21901963 HG002_chrY 62432599 - 40507615 40539913 3
6287	0	1
5505	0	4
20501

chain 427764 200080_chrY 54195246 + 23202825 23207336 HG002_chrY 62432599 - 39338719 39343231 4
2490	0	1
2021

chain 322611 200080_chrY 54195246 + 14759857 14763265 HG002_chrY 62432599 - 47507067 47510475 5
3408

chain 6804 200080_chrY 54195246 + 24234536 24234696 HG002_chrY 62432599 - 38539790 38542814 6
2	0	2864
158

chain 2683 200080_chrY 54195246 + 12373535 12373563 HG002_chrY 62432599 + 12511308 12511336 7
28

chain 1127 200080_chrY 54195246 + 29642917 29642933 HG002_chrY 62432599 + 29226428 29226444 8
16