##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 2147269441 HG01167_chrY 61607448 + 84341 61605279 HG002_chrY 62432599 + 92256 62432577 1
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54	0	4
8	0	19
90	4	0
16	12	0
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16	0	1
2614	0	4
844	0	2
1399	0	2
1719	27	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
2078	4	0
1302	0	2
4623	38	0
2931	20	0
5435	4	0
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751	308	0
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624	1	0
29	0	4
1643	7	0
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60	0	96
1436	68	0
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184	0	1
166	1	0
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181	0	1
1333	0	830
4	1	0
12	0	55
350	0	2
2345	3	0
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91	104	0
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200	0	2
4991	4	0
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37	3	0
3833	4	0
23	3	0
1222	0	8
431	0	2
882	0	3
13	0	9
893	0	2
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13	0	4
23	0	4
39	0	7
15	0	11
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11	0	4
2156	0	1
507	777	0
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60	3	0
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16	0	3
4	0	1
14	0	2
19	0	7
346	0	1
3777	2	0
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119	2	0
1240	1	0
74	0	1
803	0	14
2486	0	2
1253	4	0
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43	0	8
4	4	0
29	4	0
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85	4	0
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58	4	0
186	0	4
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48	16	0
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1433	2	0
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26	0	4
4	0	8
41	0	8
581	14	0
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17	8	0
13	2	0
54	12	0
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23	14	0
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690	789	0
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316	0	1
896	0	6
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61	1	0
30	4	16
7	0	4
2166	0	3
538	0	4
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2033	3	0
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37	0	10
484	0	1
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1200	148	0
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2950	4	0
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366	2	0
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45	135	0
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2433	2	0
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7904	680	641
13	22	0
31	0	3
20	0	1
8	1	0
26	11	0
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1792	1	0
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26	0	20
37	5	0
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30	0	10
9	5	29
707	2	0
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6644	2	0
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292	0	17
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177	0	1
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63	1	0
14	5	0
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449	0	1
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1519	1	0
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46	4	0
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3719	72	0
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2240	318	0
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323	0	2
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966	0	1
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458	392	0
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386	0	3
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301	0	4
10	1	0
61	0	4
72	0	8
423	0	6
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114	6	46
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1	5	0
20	5	0
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62	0	1
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14	0	1
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63	1	0
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3	0	3
3	80	0
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578	0	4
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41	1	0
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1214	0	4
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234	749	759
104	0	1
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264	4	0
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14	21	0
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8	1	0
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3	3	0
31	3	0
12	0	8
8	100	40
12	4	0
6	0	2
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1	4	0
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16	0	6
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9	0	1
3	0	8
1	0	4
8	3	0
33	25	0
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9	3	0
53	0	6
13	7	0
37	39	0
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21	35	0
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49	19	0
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1	1	0
35	0	2
5	0	2
7	3	0
101	1	0
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6	125	18
164	13	0
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9	0	2
1	0	1
9	174	16
8	0	1
60	0	1
92	1	0
3	180	0
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22	3	0
151	30	22
421	2	0
28	0	1
244	7	0
2341	1	0
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96	29	16
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5	26	6
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8	19	0
33	27	47
58	45	0
16	18	0
8	322	29
11	27	0
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830	2	0
2	83	0
773	1	0
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1336	10	0
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557	1	0
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34	2	0
17	0	11
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322	0	1
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3524	1	0
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4	28	0
42	88	0
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28	60	0
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339	0	2
1165	0	9
4	0	3
4	0	4
141	0	2
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6	0	8
14	0	4
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92	149	320
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9	0	1
223	0	1
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1779	5121	2265
40	7	0
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4752	1	0
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1633	0	12
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139	0	1
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114	2	0
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28	254	0
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3	2	0
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10	2	0
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166	0	2
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17	0	2
1233	2	0
6817	0	4
7931	0	1
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183	6	0
3	37	0
637	0	1
1222	0	4
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3374	4	0
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2059	0	1
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1374	0	8
614	6	0
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889	18	0
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322	0	1
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105	3	0
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20	1	0
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932	0	1
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35	2	0
3	8	0
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17	0	4
153	0	1
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38	4	0
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1093	1	0
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281	0	4
623	0	1
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97	41	0
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57	0	41
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1875	1	0
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24	4	0
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8	0	3
1014	1	0
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47	1	0
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11	0	5
11	1	0
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39	52	12
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15	1	0
7	33	0
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36	21	34
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2	0	6
76	0	5
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63	14	0
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568	1	0
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12	16	0
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37	2	0
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34	4	0
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7	23	0
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9	0	1
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1067	16	14
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4030	0	20277
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1984	2	0
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39	0	40601
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7668	2668	104118
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7053	0	1
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7238	2	0
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8237	0	5
1658	2	0
10423	0	2
13797	1	0
43	0	4
17847	2	0
17001	0	6
720	2	0
8800	0	1
17192	1	0
56928	0	4
4210	0	1
547	1	0
11256	6	0
2190	8	0
2022	0	2
5117	1	0
30359	2	0
17786	1	0
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29074	1	0
4889	0	2
5178	4	0
11	20	0
82	8	0
20588	0	29
3383	31	0
43656	1	0
8313	0	4
171	0	2
1143	1	0
1272	1	0
13762	1	0
5223	5	0
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5001	0	5
5104	0	4
72838	1	0
5676	0	8
1381	1	0
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46411	0	1
39712	2	0
11358	1	0
35298	0	2
52143	984064	311619
30439	0	10
870	5	0
884	0	5
1671	0	10
844	0	5
932	0	5
1028	0	10
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1841	0	5
110	0	15
1239	5	0
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630	10	0
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2232	20	0
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69	0	5
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90	5	0
182	0	5
138	10	0
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757	1876	0
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298	5	0
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871	15	0
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43	0	5
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193	5	0
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155	5	0
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692	0	5
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30	10	0
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138	0	5
380	5	0
3189	15	0
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2404	5	0
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8109	1	0
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5938	1	0
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7138	0	1
17186	1	0
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7175	0	5
1049	5	0
392	5	0
44	0	5
297	0	5
1898	0	10
966	0	5
141	0	5
164	0	10
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373	15	0
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649	0	5
492	5	0
540	5	0
513	0	5
182	0	15
176	5	0
722	5	0
263	5	0
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13	5	0
33193	1	0
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30	0	2
17	0	1
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1630	15	0
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5617	0	5
5589	0	5
572	5	0
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4304	898	23336
1017	5612	0
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613	5	0
978	0	5
4532	15	0
7616	5	0
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25	10	0
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572	0	5575
30	20	0
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2112	5	0
135	0	5500
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630	0	10
6173	5	0
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15796	10	0
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81	15	0
2736	0	1373
30	0	5
6126	28309	6169
995	0	5
1769	5	0
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224	1	0
92	1	0
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802	0	10
606	20	0
35	1	0
1826	0	5
86	0	5
280	116003	120209
6711	0	1373
5866	3633	0
1	0	887
13732	5	0
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1333	5	0
40	0	5
448	43664	40779
470	1378	0
506	0	5
1376	4119	0
2	10	0
382	15	0
11950	0	5
1373	5	0
253	0	1
1119	5	0
373	19287	16546
4584	0	5
3638	5	0
7419	0	5
9144	0	5
1441	1	0
3853	0	5
264	5	0
1985	34875	0
3642	0	5
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244	10	0
2647	10	0
692	1	0
1994	0	5
202	5	0
12738	0	5
5541	0	10
3407	25530	8892
2004	0	5
1250	0	3
523	0	5
581	20	0
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4984	0	5
576	5	0
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148	5	0
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10546	3	0
7711	5553	0
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1290	7653	0
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6741	0	5
7539	0	5
807	0	5
1232	10	0
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2754	0	5
246	0	10
5774	0	5
1812	0	1
1415	0	30
720	22213	0
1141	0	5
790	0	10
1612	0	369
8	3830	3245
339	0	20
29	15225	0
397	0	15
680	0	20
445	0	15
234	0	15
69	0	15
3071	0	10
3811	15	0
2010	0	5
3758	5	0
371	0	3826
1437	5	0
1993	0	20
51	0	3816
1783	0	5
2023	10	0
4	0	5
1766	0	5
2016	0	5
16	0	5
1751	0	5
670	0	15
3131	5	0
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1998	5	0
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793	5	0
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2448	15	0
1803	20	0
2013	5	0
39	0	10
1749	5	0
760	5	0
1268	0	5
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688	0	15
93	0	5
8	0	10
1218	5	0
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775	5	0
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813	0	10
1244	5	0
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3950	5	0
491	0	5
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1724	0	5
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183	5	0
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334	5	0
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71	10	0
760	5	0
218	0	5
225	20	0
25	65	0
1519	5	0
4713	0	10
1741	5	0
3507	5	0
2003	5	0
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195	10	0
2017	0	5
423	0	10
737	0	5
9427	1	0
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14230	1	0
32	2	0
8573	0	4
4062	8	0
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696	4	0
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382	0	1
2848	10	0
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422	4	0
949	0	4
2952	0	4
763	1	0
1031	0	8
24764	17	0
5542	1	0
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4433	4	0
3918	8	0
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926	8	0
2776	4	0
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18222	1	0
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16318	4	0
8079	0	66
4742	0	8
122	8	0
28623	10	0
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9027	0	4
31753	1	0
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6588	0	1
6366	0	87
75620	1	0
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989	0	2
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2548	0	4
112	4	0
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2	0	2
11971	0	8
755	4	0
5539	1	0
2954	5	0
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9554	1	0
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6539	1	0
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15671	2	0
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161	1	0
2334	8	0
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109	1	0
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684	0	2
468	1	0
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230	1	0
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47	1	0
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151	1	0
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5	1	0
118	0	1
50	0	3
253	2	0
342	0	1
161	1542	0
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7714	0	5
18531	1	0
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32202	1	0
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26	0	2
6034	0	1
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48	0	1
10188	1	0
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8178	1	0
90	0	4
1301	20	0
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1528	3	0
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2131	6	0
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59	0	8
11775	0	2
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33398	0	4
37	0	1
18590	1	0
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27172	1	0
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6	12	0
5979	0	4
2054	0	1
38535	29	0
1534	0	2
8339	1	0
1292	0	15
5502	0	2
351	2	0
3965	0	2
1434	3	0
11530	3411	3411
11529	0	1
40	12	0
12	4	0
1392	0	3
2195	1	0
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355	0	2
6818	1	0
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1746	0	1
1481	5	0
3293	1	0
3667	0	1
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560	0	3
6135	1	0
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1032	4	0
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6025	2	0
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3930	2	0
12028	0	2
63	4	0
23	0	4
19903	4	0
19270	2	0
2	19	0
21	23	0
153	0	69
1225	0	1
29299	0	4
8579	0	2
2171	0	1
18843	2	0
7647	6	0
37	0	12
45020	4	0
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640	33	0
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12666	0	4
5715	3	0
15	1	0
39432	0	1
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288	4	0
93	0	4
4706	4	5
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8105	0	4
898	1	0
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6867	0	1
3941	0	2
10222	1	0
18835	26	0
46018	0	1
6627	1	0
850	1	0
5572	0	1
6	1	0
16139	0	4
936	1	0
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2068	6	0
17711	0	1
6621	2	0
22	2	0
5320	0	4
8301	0	1
8914	7	0
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13839	1	0
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114	8	0
82	24	0
1690	2	0
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10102	0	12
2514	0	4
786	16	0
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9823	0	1
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238	0	8
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4409	0	2
2190	0	20
10	0	4
2190	4	0
1137	0	12
4867	1	0
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24362	0	1
21996	4	0
12023	1	0
6569	10	0
15764	4	0
4980	0	1
12156	1	0
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1409	2	0
1524	1	0
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5444	0	1
24006	0	1
19869	1	0
8887	1	0
3949	2	0
3773	5	3
4069	4	0
16683	8	0
64	4	0
862	1	0
6580	2	0
8935	1	0
39803	2	0
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14173	1	0
10181	0	1
26131	5	0
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328	12	0
71	4	0
21813	2	0
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5816	0	1
1798	1	0
6588	4	0
1312	0	1
4816	0	2
3904	2	18
40216	2	0
32	2	0
1437	1	0
2320	0	2
15	0	2
4	2	0
1289	2	0
4090	1	0
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2319	0	1
1410	2	0
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993	6	0
333	1	0
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67	4	0
7	2	0
2287	0	1
2757	1	0
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3444	0	1
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10709	4	0
2431	1	0
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18	0	8
15876	3	0
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752	0	1
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857	2	0
379	2	0
23570	1	0
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3069	0	1
270	0	1
8164	2	0
6457	1	0
2264	4	0
6	4	0
534	2	0
7748	0	4
21	3	0
1	0	8
39	0	4
66	8	0
7094	0	1
4101	0	2
3092	2	0
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2741	4	0
176	0	8
2740	4	0
5446	1	0
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9462	0	1
5294	1	0
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5292	2	0
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39	0	1
75	0	2
1038	2	0
6613	4	0
533	12	0
2348	1	0
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3266	2	0
972	0	5
13	0	5
14788	1	0
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378	2	0
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8911	0	1
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2486	4	0
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4370	0	2
4180	1	0
6548	2	0
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13891	1	0
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8529	4	0
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126	4	0
83	8	0
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1740	0	5
3392	0	1
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631	0	4
13058	5	0
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7933	0	4
203	0	4
6160	0	4
5610	0	3
4579	2	0
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5480	0	1
8197	0	1
3967	1	0
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1631	1	0
3667	0	1
2287	3	0
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1194	1	0
17	0	3
22	2	0
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1932	1	0
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31249	0	3
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14	0	1
2033	1	0
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42	0	2
8270	1	0
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21469	1	0
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1657	2	0
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8791	0	4
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5163	8	0
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961	4	0
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42	8	0
616	0	4
22682	1	0
1367	0	20
46	0	4
26	0	20
2	0	1
1616	5	0
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89	0	8
6	0	1
15	0	1
13	0	1
9	0	2
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4123	1	0
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3191	0	4
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25436	0	1
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3	0	1
8	0	4
11940	1	0
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2512	1	0
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48	0	16
1952	4	0
2252	1	0
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32	2	0
2858	0	6
4078	3372	3373
2124	6	0
9919	1	0
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10	0	3
46	1	0
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54	0	1
4	3	0
43	0	4
1	2	0
39122	4	0
59	13	0
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6	25	0
9557	0	4
10	3	9
40	0	1
11	1	0
1438	4	0
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2904	1	0
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2859	0	2
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592	1	0
1411	0	28
44	8	0
4	4	0
9504	0	2
2508	1	0
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2294	1	0
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21786	5	0
5	1	0
3	6	0
31449	0	1
7311	1	0
3280	1	0
3838	1	0
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2766	0	1
17415	0	4
9919	0	1
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1644	3	0
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6601	1	0
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52	0	1
7755	4	0
203	1	0
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5329	1	0
902	3	0
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55	2	0
3985	16	0
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49	0	5
5639	0	1
756	4	0
23	4	0
4368	4	0
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643	0	1
2532	1	0
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133	2	0
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77	4	0
8037	0	24
648	39661	39663
604	0	16
8087	2	0
83	2	0
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3742	1	0
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6718	1	0
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538	164	0
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3631	0	1
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730	1	0
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1856	4	0
320	1	0
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614	0	4
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880	1	0
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21943	0	2
21335	0	3
13744	0	1
22886	0	1
7227	17	0
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6470	0	3
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17376	0	1
2761	0	1
10522	1	0
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2739	2	0
555	0	1
19627	1	0
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5795	0	1129
44155	4	0
4	3507	0
269	0	499
606	0	4
378	4	0
43	0	1
360	0	5899
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3745	1	0
2289	35859	29501
498	0	2
78	0	1
130	0	1
133	0	1
115	4	0
3	0	3
11257	2	0
6467	0	1124
8199	1	1
3001	125	0
1659	0	250
1121	0	625
47	0	999
16	0	125
123	0	125
78	0	125
145	875	0
26	1124	0
15161	2624	0
52	3749	0
37	250	0
7421	0	375
562	125	0
937	0	1
23	0	125
979	0	1
290	0	250
255	250	0
137	0	125
694	0	1
1360	8361	2859
59	624	0
42	1000	0
2819	0	625
6006	3376	0
3220	1	2125
41	125	0
1044	1	0
62	125	0
411	0	1
254	0	125
560	0	1
218	0	625
790	0	125
124	1	0
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554	0	1
30209	1	0
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32422	0	6
11746	2	0
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51805	1	0
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65430	0	2
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21365	0	1
5936	0	1
49669	1	0
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4280	0	1
15157	2	0
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13926	0	3
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4989	0	3
22633	2	0
552	1	0
13338	1	0
4640	4	0
33983	0	1
10443	1	0
26522	0	6
28	0	2
17619	4	0
4813	16	0
1624	2	0
32978	1	0
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8962	1	0
1967	0	1
23839	0	1
1167	0	1
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1509	0	1
64735	0	1
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4	4	2
2475	0	1
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9	0	1
10	0	2
15	1	0
10	15	0
52	0	2
9	0	1
12	0	12
65987	1	0
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2603	0	2
851	0	1
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4549	0	1
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545	0	1
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20	0	1
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69	5	0
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5	0	1
158	0	4
288	0	1
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9	1	0
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315	0	14
104	2	0
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28	0	1
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72	0	2
25	7	0
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53	28	0
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53	2	0
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386	42032	2085
307	0	3
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73	1	0
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26	15	0
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17	31	0
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14	0	12
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9	4	0
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124	2	0
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23	0	1
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475	0	2
24	1	0
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217	0	1
111	0	3
22	2	0
17	0	4
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42	10	0
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74	3	0
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5	0	2
7	3	0
267	0	12
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63	6	0
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206	2	0
14	1	0
188	0	1
40	0	4
153	0	4
17	1	0
262	2	0
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6	2	0
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28	0	5
57	44	0
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22	20	0
170	1	0
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15	0	14
103	0	1
42	329	0
10	3	0
58	4	0
129	0	1502
76	1	0
88	0	17
140	0	1
83	0	1
209	5	0
88	17	0
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23	0	1
26	0	1
82	12	0
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27	3	0
31	0	2
32	3	0
59	0	13
118	0	3
55	4	0
161	1	0
38	10	0
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7	0	4
12	0	2
98	1	0
43	0	11
3	16	0
63	4	0
249	0	1
53	0	4
20	0	60
130	0	2
8	1	0
295	1	0
188	0	2
295	0	4
72	0	22
46	0	4
93	0	1
253	0	4
38	1	0
27	0	3
12	107	0
26	0	6
32	0	2
91	4	0
27	3	0
176	3	0
53	1	0
26	0	4
60	0	5
57	0	6
103	0	1
105	0	1
17	2	0
92	0	1
51	1	0
310	12	0
138	1	0
109	0	1
86	0	6
267	0	3
73	0	1
550	0	4
46	6	0
609	1	0
46	1	0
146	1	0
18	1	0
44	4	0
71	1	0
73	0	4
577	0	2
141	0	1
240	1	0
15	0	1
148	0	2
211	1	0
25	3	0
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76	0	1
104	11	0
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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
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439	0	1
41	1	0
235	11	0
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690	0	1
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16	36	0
97	1	0
234	0	2
27	0	1
33	4	0
1	0	5
121	2	0
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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
2	0	8
75	0	8
117	0	15
117	1	0
31	0	3
197	0	1
107	75522	109875
386	0	3
114	0	2
53	32	0
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67	0	1
218	0	7
25	2	0
72	0	2
50	0	3
53	1	0
28	9	0
20	5	0
3	7	0
69	1	0
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104	14	0
315	1	0
48	0	2
5	0	1
9	12	0
72	0	1
131	0	2
61	0	6
22	0	2
5	0	152
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288	4	0
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69	2	0
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94	0	2
113	0	8513
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9869	0	1
2643	16	0
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2755	0	1
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23	0	1
3226	1	0
359	0	7
3	10	0
464	0	12
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4655	2	0
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34	4	0
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3330	0	4
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13695	1	0
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195	1	0
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860	0	2
1162	0	1
3200	5	0
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1300	1	0
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1457	1	0
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2251	1	0
7	20341	6035
650	0	4757
715	1	0
6999	0	1
7406	1	0
4459	0	10850
8522	0	1
9200	18738667	26652388
6254	0	2
5493	0	1
10005	2	0
14901	2417	0
7310	1	0
1611	1	0
807	0	1
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2413	0	2413
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138	2	0
183	0	1
376	0	2
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363	0	2
167	2	0
4110	0	2
560	2	0
2420	2	0
12531	1	0
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4509	7	0
699	2	0
167	0	2
4110	2	0
560	0	2
1566	0	2
3272	2	0
19360	0	2
4840	0	2
10111	1	0
1287	4480	31079
20852	0	1
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323	0	1
2538	2413	0
257	0	2
167	2	0
263	1	0
1289	0	7
412	2	0
277	0	2
109	1	0
57	2	0
263	0	1
1368	9680	0
560	2	0
169	0	1
20	2	0
298	1	0
179	2416	0
16061	0	1
1140	10592	0
3302	0	295
2276	5	0
5	7157	0
3	0	20
1794	0	10
898	0	3539
839	0	15
1765	0	5
786	1	0
2528	3544	0
430	10722	0
3376	0	246
1543	0	5
7134	0	5
973	17433301	10727644
69	0	15
1499	0	10
19487	0	2
399	2	0
3252	18658	6604
7164	0	15
4628	2	3521
154	0	15
1282	0	10603
11972	0	17673
3126	1	0
7069	1	0
6240	0	14139
30294	0	25
3519	25	0
5416	1	0
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3709	0	25
3511	0	25
542	0	7080
2828	15	0
150	25	0
10436	15	0
164	25	0
1646	40	0
1670	0	15
1808	40	0
1686	0	15
1233	1	0
494	0	20
74	0	25
14	4064	28603
2343	0	1
494	20	0
66	40	0
3171	0	20
34007	0	1
5760	0	5
4530	0	15
24	15	0
371	5	0
4402	0	3498
552	30	0
2030	5	0
3498	10	0
389	1	0
1297	0	1
229	5	0
14	0	1
1576	0	14027
3469	5	0
32709	5	0
37648	0	2
32577	12	0
2356	0	2
10936	1	0
4515	0	5
10987	0	3
16383	8	0
37980	2	0
6752	1	0
3573	0	10
2454	0	36
1774	0	1
1087	2	0
2677	4	0
4328	16	0
928	1	0
62386	0	2
10395	2	0
18755	1	0
6767	2	0
25107	0	1
65990	1	0
14893	0	2
13391	1	0
15781	2	0
5226	1	0
1856	0	1
11571	29	0
27	0	58
687	6	0
99	7	7
116	7	0
1	0	1
75	1	0
52	0	10
1	0	2
43	0	1
10	0	1
15	2	0
14	4	0
20	8	0
30	0	1
4	0	1
1	2	0
10	0	1
8	0	5
41	0	1
5	0	1
13	5	0
15	1	0
14	5	0
13	233	61
27	6	0
7	18	0
2	0	2
12	0	1
38	74	728
9	3	0
15	9	0
22	70	443
35	4	0
70	4	0
60	0	1
4	0	1
58	0	5
53

chain 12549283 HG01167_chrY 61607448 + 24479628 24626406 HG002_chrY 62432599 - 38401468 38539790 2
63	0	1
35	0	1
15509	10850	0
4479	1	0
411	0	2
5572	0	3
352	0	1
4481	1	0
452	1	0
2002	1	0
4952	0	1
1195	3	0
5803	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
1300	1	0
2016	6	0
3200	1	0
1163	0	2
860	0	1
9915	1	0
195	0	8
4130	12	0
1653	2	0
6200	0	1
3426	0	12
753	0	2
32368	0	8
222	1	0
95

chain 3742594 HG01167_chrY 61607448 + 19952573 19992227 HG002_chrY 62432599 - 42850342 42889998 3
19965	4	0
6478	0	2
11426	0	4
1781

chain 428205 HG01167_chrY 61607448 + 23602868 23607380 HG002_chrY 62432599 - 39338719 39343231 4
4512

chain 322611 HG01167_chrY 61607448 + 15332003 15335411 HG002_chrY 62432599 - 47507067 47510475 5
3408

chain 6804 HG01167_chrY 61607448 + 24634545 24634705 HG002_chrY 62432599 - 38539790 38542814 6
2	0	2864
158