##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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31	0	1
658	0	1
354	0	3
336	1	0
1721	0	52
244	26	0
629	0	405
19	0	404
1981	42	0
25	0	8
25	0	1
4	0	1
10	2	0
1742	4	0
1385	0	4
738	72	0
14	4	0
2	2	0
39	8	0
13	1	0
3	9	0
1285	0	1
6203	45	0
22	180	0
39	225	0
45	0	45
483	270	0
45	45	0
18	45	0
27	90	0
45	90	0
45	135	0
1786	4	0
2927	4	0
283	8	0
7646	8	8
54	2	31
1979	0	2
23	1	0
638	0	11
1344	4	0
11	1	0
51	16	3
23	8	0
35	8	0
8	3	0
5	4	0
1229	0	2
1939	0	3
1	0	55
215	0	185
355	4	0
4097	0	8
696	20	0
518	0	4
86	0	4
4645	0	4
174	12	0
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711	0	2
36	0	309
898	0	1
1133	1	0
361	0	2
7	28	0
51	20	0
101	2	0
359	0	1
140	0	2
1369	0	1
184	2	0
910	2	0
143	0	1
480	1	0
29	0	4
2519	4	0
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60	0	96
1436	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
868	0	4
5653	0	4
14	0	5
2325	0	13
938	0	1
714	0	1
621	3	0
782	0	2
26	63	2
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299	0	4
322	0	2
52	0	4
133	0	2
1202	0	4
61	4	0
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21	4	0
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80	20	0
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27	8	0
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504	4	0
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3256	1	0
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11	1	0
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353	0	4
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740	0	2
401	0	4
26	0	2
882	0	3
13	0	9
893	0	2
2595	24	0
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1659	1	0
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484	22	0
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4	0	7
13	0	4
23	0	4
39	0	7
15	0	11
53	1	0
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60	3	0
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11	0	5
16	0	3
4	0	1
14	0	2
19	0	7
346	0	1
3334	0	1
1547	0	4
585	2	0
74	0	1
815	0	2
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2923	0	4
86	12	0
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653	4	0
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54	8	0
29	16	0
690	5786	0
18	797	8
477	0	1
239	0	1
153	2	0
362	2	0
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3628	0	4
316	0	1
896	0	6
3859	1	0
1263	0	2
871	0	1
7626	0	4
61	1	0
30	4	16
7	0	4
2166	0	3
80	35	0
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48	5	0
58	0	2
61	0	4
98	0	1
8	4	0
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8	0	1
44	0	12
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89	12	0
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2358	0	6
31	0	16
484	0	1
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2973	1	0
4780	1	0
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1624	1	0
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716	0	1
1591	1	0
823	0	200
393	0	520
3516	0	107
37	10	10
58	0	55
107	0	162
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271	0	3
309	0	4
2556	0	8
38	0	8
98	0	14
5	0	5
712	2	0
1778	0	1
6644	2	0
2	0	4
292	0	4
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538	0	1
2132	1	0
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46	4	0
355	0	4
1247	1	0
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635	4	0
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38	4	0
335	0	4
1560	0	4
96	12	0
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99	0	2
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101	1	0
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35	1	0
407	108	0
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24	36	0
9	327	2
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33	0	1
4	0	1
69	1	0
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824	2	0
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325	2	0
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110	7	0
856	0	2
2271	343	0
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2906	2	0
47	0	1
3	1	0
169	0	26
89	0	2
279	0	1
617	4	0
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126	6	46
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43	1	0
2	4	0
321	0	1
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22	1	0
29	16	65
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22	0	1
625	0	1
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742	1	0
1233	5	0
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502	8	0
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83	4	0
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681	4	0
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232	0	1
60	0	2
13	0	1
19	0	4
29	5	0
924	8	0
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110	20	5
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1095	0	58
6	0	1
14	0	4
80	0	10
57	0	1
59	0	4
13	4	0
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92	0	2
103	0	4
629	0	4
197	0	2
57	1	196
40	6	0
1	0	5
107	4	357
34	0	1
5	0	1
98	0	11
5	0	1
5	0	49
7	1	0
1	0	7
8	0	20
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29	1	0
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54	0	61
3	0	1
8	0	4
108	0	4
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45	0	1
70	0	4
3	0	22
13	0	1
9	4	182
209	3	0
99	1	0
52	45	0
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237	1	0
7	1	0
2341	1	0
1691	0	208
1029	0	1
253	0	3
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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
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63	34	0
94	0	1
36	1	0
16	39	2
830	2	0
2	83	0
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577	1	0
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301	0	2
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967	30	0
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51	0	11
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322	0	1
1708	0	1
9	2	0
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3	0	1
936	1	0
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1023	3	0
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439	0	1
905	0	3
1017	92	0
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54	0	4
1313	0	10
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330	0	4
146	4	0
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384	0	1
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61	0	1
1209	1	0
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38	99	0
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8	0	49
16	148	0
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460	10	0
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2639	0	12
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6764	0	2
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38	2	0
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508	0	2
1629	19	12
579	1	0
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883	1	0
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696	0	3
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1747	1	0
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372	501	0
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2240	429	87
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2779	0	1
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28	4	0
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79	1	0
1266	1	0
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373	0	4
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360	5108	2265
34	692	0
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553	0	1
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5316	118	0
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42	7	0
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541	1	0
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35	13	11
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6498	0	2
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2120	4	0
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2697	3	0
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57	0	2
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30	0	2
5	0	1
3	0	1
20	349	361
40	2	0
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329	0	2
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2645	1	0
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847	0	1
2430	8	5
11	0	7
854	6	0
2874	0	14
114	3	0
59	0	48
31	12	173
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74	0	1
6	16	13
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62	0	42
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1065	1	0
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550	0	6
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365	0	326
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43	0	12
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39	52	12
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4	0	20265
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106	0	8
4030	0	20277
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45	0	40601
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12293	416777	311619
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8	7359	0
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160	12	0
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6580	0	14
8921	1	0
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11	0	2
10602	0	1
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2280	8	0
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26131	20	0
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64	12	0
7	4	0
7909	1	0
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11	0	2
1276	8	0
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5646	1	0
3880	0	12
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4816	0	1
2976	0	1
930	4	0
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18	1	0
4	1	0
5379	1	0
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1974	1	0
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992	3	0
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67	2	0
7	2	0
2287	0	1
2757	1	0
5219	2	0
2	24	0
15189	0	4
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18	0	8
7481	4	0
5818	1	0
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21763	1	0
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377	1	0
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8435	2	0
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530	2	0
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18	0	4
39	0	4
62	0	4
11196	0	2
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17	0	2
2440	6	0
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596	6	0
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70	0	4
8	0	1
52	4	0
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9433	1	0
61	0	1
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379	0	2
866	0	2
44118	0	2
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6088	1	0
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5695	0	2
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27912	0	4
19911	2	0
25	0	2
4727	4	0
3415	1	0
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7211	0	4
79	8	0
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3956	0	1
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7933	4	0
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29079	4	0
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59	19	0
1631	1	0
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5935	0	1
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773	0	1
750	0	1
1235	2	0
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3493	2	0
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3565	2	0
14	0	1
52	3	0
1981	1	0
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22	0	2
173	2	0
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11612	0	2
17528	1	0
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32	0	2
10378	4	0
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6732	1	0
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5159	4	0
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1	7	0
704	0	4
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58	0	4
32	0	2
2	0	6
1742	12	0
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980	0	13
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907	1	0
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7801	0	5
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4414	1	0
6698	2	0
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5649	1	0
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2676	1	0
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1336	1	0
9544	8	0
60	0	4
1952	4	0
2252	1	0
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70	0	3
4081	3372	3372
8426	1	0
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1468	0	8
40	1	0
2520	0	2
7050	25	0
6	4	0
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1	2	0
39181	14	0
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6	25	0
9557	0	4
10	0	1
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1	0	1
1494	4	0
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592	1	0
1431	0	4
48	8	0
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2508	1	0
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5	1	0
3	6	0
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38393	1	0
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6711	0	1
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5480	0	2
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46	0	2
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53	0	2
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49	0	5
6396	2	0
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840	1	0
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1781	1	0
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104	2	0
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656	39677	39663
604	0	20
8083	2	0
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131	0	2
3742	1	0
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86	1	0
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27	21	0
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726	1	0
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5630	4	0
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18	4	11
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15409	1	0
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52	18	0
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42	6	0
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670	1	0
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43	0	1
81	0	4
43	0	1
164	0	2
24	0	1
185	48603	6037
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324	34492	29505
43	0	125
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98	1	0
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83	4	0
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158	2	0
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16	3	1001
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286	0	2
82	1	0
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2123	32296	32299
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386	42069	2085
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1525	2199	9301
4900	0	5
3313	22782	15767
10	15	0
69	1	0
1132	1	0
300	0	5
7	0	10
13	0	5
505	0	14
2753	15	0
3748	10	0
7024	0	5
9576	3505	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	63522	22445
9481	1	0
8430	9163	3533
5	0	2096
17456	0	10
37	0	10
954	15	0
798	15	0
1733	10	0
1804	5	0
1732	0	5
445	0	5
2324	0	5
452	15	0
5697	0	5
918	0	5
1237	10	0
1361	20	0
2211	15	0
2270	5	0
1183	1	0
44	10	0
810	22055663	32368135
5845	1	0
1041	10	0
2952	0	26846
6409	2	3521
154	0	15
1282	0	10603
18633	1	0
1284	0	15
2235	0	1
1128	5	0
2406	1	0
3534	0	1
167	3504	0
12	0	5
954	0	10
81	0	15
416	10	0
152	0	45
125	20	0
92	0	1
1459	1	0
656	0	1
6412	1	0
1254	25	0
4986	0	14139
2092	25	0
3557	15	0
2235	1	0
1194	0	1
5874	1	0
179	5	0
946	10	0
86	15	0
414	0	5
156	45	0
122	0	20
583	0	5
150	1	0
432	0	15
566	5	0
940	10	0
101	15	0
8	25	0
381	0	10
168	45	0
122	0	20
103	1	0
2723	25	0
3356	0	15
7086	0	15
3693	25	0
1881	1	0
1480	0	15
3520	0	15
174	0	25
4078	0	7080
21651	1	0
494	0	20
74	0	25
14	5079	1599
1328	1	0
494	0	20
66	0	40
6176	3495	0
253	0	1
494	20	0
66	40	0
13419	0	1
513	20	0
61	40	0
51377	0	5
14	0	5
387	1	0
334	0	15
134	5	0
2199	0	15
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	8	0
148	0	1
4	4	0
3333	0	1
5649	2	0
26	1	0
5880	0	2
2765	0	3
10989	0	6
16380	0	4
34968	0	5
9755	1	0
5999	2	17
21	0	36
1774	0	1
1087	2	0
2677	2	0
4328	12	0
928	1	0
62386	0	2
10395	2	0
18755	1	0
5995	0	16
756	2	0
25107	0	1
77660	1	0
14494	1	0
951	1	0
22178	1	0
14200	6	0
106	6	0
82	0	6
28	7	0
1	0	1
25	0	39
23	14	50
10	0	6
6	0	4
12	2	0
8	0	1
6	0	5
6	0	1
22	4	0
12	0	2
17	5	0
19	0	1
19	5	0
3	1	0
38	28	18
42	5	0
19	131	30
14	65	11
34	18	0
2	0	2
12	0	1
18	21	3
17	49	29
91	4	0
7	23	29
40	157	8
22	57	9
21	5	0
33	1	0
44	5	0
46	1	0
1	20	0
15	3	0
64	3	0
27	3	0
57	3	0
21	3	0
59	17	0
2	0	2
9	3	0
9	25	1
27	0	3
61	3	0
15	9	0
78	5	0
95	0	1
50	101	15
11	0	2
79	2	0
29	4	0
36	0	6
32	4	0
66	4	0
70	4	0
60	0	1
6	1655	1
56	0	5
53

chain 11117349 HG01943_chrY 52474664 + 24163778 24302925 HG002_chrY 62432599 - 38399346 38539790 2
17699	0	2
22	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	2
9914	1	0
195	0	4
4134	12	0
740	0	1
912	2	0
2516	0	1
1668	1	0
2015	0	1
3438	8	0
33123	0	8
222	1	0
95

chain 3741792 HG01943_chrY 52474664 + 19463408 19503078 HG002_chrY 62432599 - 42850342 42889998 3
15515	1	0
4450	4	0
5018	1	0
1508	6	0
10499	2	0
2666

chain 3057891 HG01943_chrY 52474664 + 21946181 21978476 HG002_chrY 62432599 - 40507615 40539913 4
6287	0	1
4953	2	0
552	0	4
20501

chain 427764 HG01943_chrY 52474664 + 23279319 23283830 HG002_chrY 62432599 - 39338719 39343231 5
2490	0	1
2021

chain 322611 HG01943_chrY 52474664 + 14842576 14845984 HG002_chrY 62432599 - 47507067 47510475 6
3408

chain 6804 HG01943_chrY 52474664 + 24311064 24311224 HG002_chrY 62432599 - 38539790 38542814 7
2	0	2864
158

chain 2683 HG01943_chrY 52474664 + 12456242 12456270 HG002_chrY 62432599 + 12511308 12511336 8
28