Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 1 of 292
Found at i:2230 original size:8 final size:7
Alignment explanation
Indices: 4--2691 Score: 1567
Period size: 7 Copynumber: 386.0 Consensus size: 7
1 CCT
*
4 AAACCCT
1 AAACCCC
*
11 AAACCCT
1 AAACCCC
*
18 AAACCCT
1 AAACCCC
*
25 AAACCCT
1 AAACCCC
*
32 AAACCCT
1 AAACCCC
*
39 AAACCCT
1 AAACCCC
*
46 AAA-CCT
1 AAACCCC
*
52 AAA-ACC
1 AAACCCC
* *
58 TAACCCG
1 AAACCCC
65 AAA-CCC
1 AAACCCC
* *
71 TAACCCT
1 AAACCCC
*
78 AAACCCT
1 AAACCCC
*
85 AAACCCT
1 AAACCCC
*
92 AAACCCT
1 AAACCCC
*
99 AAACCCT
1 AAACCCC
*
106 AAACCCTA
1 AAACCC-C
*
114 AAACCCT
1 AAACCCC
*
121 AAACCCT
1 AAACCCC
*
128 AAA-CCT
1 AAACCCC
*
134 AAACCCT
1 AAACCCC
*
141 AAACCCT
1 AAACCCC
148 AAA-CCC
1 AAACCCC
* *
154 TAACCCT
1 AAACCCC
*
161 AAACCCT
1 AAACCCC
*
168 AAACCCT
1 AAACCCC
175 AAA-CCC
1 AAACCCC
181 AAACCCC
1 AAACCCC
188 TAAACCCC
1 -AAACCCC
*
196 TAAACCCT
1 -AAACCCC
*
204 AAACCCT
1 AAACCCC
*
211 AAACCCT
1 AAACCCC
*
218 AAAACCC
1 AAACCCC
*
225 TAA-CCC
1 AAACCCC
*
231 TAACCCC
1 AAACCCC
*
238 TAAACCCTA
1 -AAACCC-C
*
247 AAACCCT
1 AAACCCC
*
254 AAACCCT
1 AAACCCC
*
261 AAACCCT
1 AAACCCC
*
268 AAACCCT
1 AAACCCC
*
275 AAACCCT
1 AAACCCC
*
282 AAACCCT
1 AAACCCC
*
289 AAACCCT
1 AAACCCC
*
296 AAACCCT
1 AAACCCC
*
303 AAACCCT
1 AAACCCC
*
310 AAACCCT
1 AAACCCC
*
317 AAACCCT
1 AAACCCC
*
324 AAACCCT
1 AAACCCC
*
331 AAACCCT
1 AAACCCC
*
338 AAACCCT
1 AAACCCC
*
345 AAACCCTA
1 AAACCC-C
*
353 AAACCCT
1 AAACCCC
*
360 AAACCCT
1 AAACCCC
*
367 AAACCCT
1 AAACCCC
*
374 AAACCCT
1 AAACCCC
*
381 AAACCCT
1 AAACCCC
*
388 AAACCCT
1 AAACCCC
*
395 AAACCCT
1 AAACCCC
*
402 AAACCCT
1 AAACCCC
*
409 AAACCCT
1 AAACCCC
*
416 AAACCCT
1 AAACCCC
*
423 AAACCCT
1 AAACCCC
*
430 AAACCCT
1 AAACCCC
*
437 AAACCCT
1 AAACCCC
*
444 AAACCCT
1 AAACCCC
*
451 AAACCCT
1 AAACCCC
*
458 AAACCCT
1 AAACCCC
*
465 AAACCCT
1 AAACCCC
472 AAA-CCC
1 AAACCCC
*
478 AAACCCT
1 AAACCCC
*
485 AAACCCT
1 AAACCCC
492 AAA-CCC
1 AAACCCC
* *
498 TAACCCT
1 AAACCCC
*
505 AAAACCC
1 AAACCCC
* *
512 TAACCCTA
1 AAACCC-C
*
520 AAACCCT
1 AAACCCC
*
527 AAACCCT
1 AAACCCC
*
534 AAACCCT
1 AAACCCC
*
541 AAACCCT
1 AAACCCC
*
548 AAACCCT
1 AAACCCC
*
555 AAACCCT
1 AAACCCC
*
562 AAACCCT
1 AAACCCC
*
569 AAACCCT
1 AAACCCC
*
576 AAACCCT
1 AAACCCC
*
583 AAACCCT
1 AAACCCC
*
590 AAACCCT
1 AAACCCC
*
597 AAACCCT
1 AAACCCC
*
604 AAACCCT
1 AAACCCC
*
611 AAACCCT
1 AAACCCC
*
618 AAACCCTA
1 AAACCC-C
*
626 AAACCCT
1 AAACCCC
*
633 AAACCCT
1 AAACCCC
*
640 AAACCCTA
1 AAACCC-C
*
648 AAACCCT
1 AAACCCC
*
655 AAACCCT
1 AAACCCC
*
662 AAACCCT
1 AAACCCC
*
669 AAACCCT
1 AAACCCC
*
676 AAACCCTA
1 AAACCC-C
*
684 AAACCCT
1 AAACCCC
*
691 AAACCCT
1 AAACCCC
*
698 AAACCCT
1 AAACCCC
*
705 AAA-CCT
1 AAACCCC
*
711 AAACCCT
1 AAACCCC
*
718 AAACCCT
1 AAACCCC
*
725 AAACCCTA
1 AAACCC-C
*
733 AAACCCT
1 AAACCCC
*
740 AAA-CCT
1 AAACCCC
*
746 AAACCCT
1 AAACCCC
*
753 AAACCCT
1 AAACCCC
*
760 AAACCCT
1 AAACCCC
*
767 AAACCCT
1 AAACCCC
*
774 AAACCCT
1 AAACCCC
*
781 AAACCCT
1 AAACCCC
*
788 AAACCCT
1 AAACCCC
*
795 AAACCCT
1 AAACCCC
*
802 AAACCCT
1 AAACCCC
*
809 AAACCCT
1 AAACCCC
*
816 AAA-CCT
1 AAACCCC
*
822 AAACCCT
1 AAACCCC
*
829 AAACCCT
1 AAACCCC
*
836 AAACCCT
1 AAACCCC
*
843 AAACCCT
1 AAACCCC
*
850 AAACCCT
1 AAACCCC
*
857 AAACCCT
1 AAACCCC
*
864 AAACCCT
1 AAACCCC
*
871 AAACCCT
1 AAACCCC
*
878 AAACCCTA
1 AAACCC-C
*
886 AAACCCT
1 AAACCCC
*
893 AAACCCT
1 AAACCCC
*
900 AAACCCT
1 AAACCCC
907 AAA-CCC
1 AAACCCC
* *
913 TAACCCTA
1 AAACCC-C
*
921 AAACCCTA
1 AAACCC-C
*
929 AAACCCTA
1 AAACCC-C
*
937 AAACCCTA
1 AAACCC-C
*
945 AAACCCT
1 AAACCCC
*
952 AAACCCT
1 AAACCCC
*
959 AAACCCT
1 AAACCCC
*
966 AAACCCT
1 AAACCCC
*
973 AAACCCT
1 AAACCCC
*
980 AAACCCT
1 AAACCCC
*
987 AAACCCT
1 AAACCCC
*
994 AAACCCT
1 AAACCCC
*
1001 AAACCCT
1 AAACCCC
*
1008 AAACCCT
1 AAACCCC
*
1015 AAACCCT
1 AAACCCC
*
1022 AAACCCT
1 AAACCCC
*
1029 AAACCCT
1 AAACCCC
*
1036 AAACCCT
1 AAACCCC
*
1043 AAACCCT
1 AAACCCC
*
1050 AAACCCT
1 AAACCCC
*
1057 AAACCCT
1 AAACCCC
*
1064 AAACCCT
1 AAACCCC
*
1071 AAACCCT
1 AAACCCC
*
1078 AAACCCT
1 AAACCCC
*
1085 AAA-CCT
1 AAACCCC
*
1091 AAACCCT
1 AAACCCC
*
1098 AAACCCT
1 AAACCCC
*
1105 AAACCCT
1 AAACCCC
*
1112 AAACCCT
1 AAACCCC
*
1119 AAACCCT
1 AAACCCC
*
1126 AAACCCT
1 AAACCCC
*
1133 AAACCCT
1 AAACCCC
*
1140 AAACCCT
1 AAACCCC
*
1147 AAACCCT
1 AAACCCC
*
1154 AAACCCT
1 AAACCCC
*
1161 AAACCCT
1 AAACCCC
*
1168 AAACCCT
1 AAACCCC
*
1175 AAACCCT
1 AAACCCC
*
1182 AAACCCT
1 AAACCCC
*
1189 AAACCCT
1 AAACCCC
*
1196 AAACCCT
1 AAACCCC
*
1203 AAA-CCT
1 AAACCCC
*
1209 AAACCCT
1 AAACCCC
*
1216 AAACCCT
1 AAACCCC
*
1223 AAACCCTA
1 AAACCC-C
*
1231 AAACCCT
1 AAACCCC
*
1238 AAACCCTA
1 AAACCC-C
*
1246 AAACCCT
1 AAACCCC
*
1253 AAACCCTAA
1 AAACCC--C
*
1262 AAACCCT
1 AAACCCC
*
1269 AAACCCT
1 AAACCCC
*
1276 AAACCCT
1 AAACCCC
*
1283 AAACCCT
1 AAACCCC
*
1290 AAACCCT
1 AAACCCC
*
1297 AAA-CCT
1 AAACCCC
*
1303 AAACCCT
1 AAACCCC
*
1310 AAACCCT
1 AAACCCC
*
1317 AAACCCT
1 AAACCCC
*
1324 AAACCCT
1 AAACCCC
*
1331 AAACCCT
1 AAACCCC
*
1338 AAACCCT
1 AAACCCC
*
1345 AAACCCT
1 AAACCCC
*
1352 AAACCCT
1 AAACCCC
*
1359 AAACCCT
1 AAACCCC
*
1366 AAACCCTA
1 AAACCC-C
*
1374 AAACCCT
1 AAACCCC
*
1381 AAACCCT
1 AAACCCC
*
1388 AAACCCTA
1 AAACCC-C
*
1396 AAACCCT
1 AAACCCC
*
1403 AAACCCT
1 AAACCCC
*
1410 AAACCCT
1 AAACCCC
*
1417 AAACCCT
1 AAACCCC
1424 AAA-CCC
1 AAACCCC
1430 AAACCCC
1 AAACCCC
1437 AAA-CCC
1 AAACCCC
1443 AAA-CCC
1 AAACCCC
1449 AAACCCC
1 AAACCCC
1456 AAA-CCC
1 AAACCCC
1462 AAACCCC
1 AAACCCC
1469 AAA-CCC
1 AAACCCC
*
1475 AAACCCT
1 AAACCCC
1482 AAA-CCC
1 AAACCCC
*
1488 AAACCCT
1 AAACCCC
*
1495 AAAACCC
1 AAACCCC
1502 AAA-CCC
1 AAACCCC
*
1508 AAACCCT
1 AAACCCC
*
1515 AAAACCC
1 AAACCCC
1522 AAA-CCC
1 AAACCCC
1528 AAA-CCC
1 AAACCCC
1534 AAACCCC
1 AAACCCC
*
1541 AAACCCT
1 AAACCCC
1548 AAA-CCC
1 AAACCCC
1554 AAA-CCC
1 AAACCCC
*
1560 AAACCCT
1 AAACCCC
1567 AAA-CCC
1 AAACCCC
*
1573 AAACCCA
1 AAACCCC
*
1580 AAAACCC
1 AAACCCC
1587 AAA-CCC
1 AAACCCC
1593 AAA-CCC
1 AAACCCC
*
1599 AAACCCT
1 AAACCCC
*
1606 AAAACCC
1 AAACCCC
1613 AAA-CCC
1 AAACCCC
1619 AAA-CCC
1 AAACCCC
1625 AAACCCC
1 AAACCCC
1632 TAAA-CCC
1 -AAACCCC
*
1639 AAACCCT
1 AAACCCC
1646 AAACCCC
1 AAACCCC
1653 AAACCCC
1 AAACCCC
1660 AAA-CCC
1 AAACCCC
*
1666 AAACCCT
1 AAACCCC
1673 AAA-CCC
1 AAACCCC
1679 AAA-CCC
1 AAACCCC
1685 AAA-CCC
1 AAACCCC
1691 AAA-CCC
1 AAACCCC
1697 AAACCCC
1 AAACCCC
1704 AAA-CCC
1 AAACCCC
*
1710 AAAACCC
1 AAACCCC
1717 AAA-CCC
1 AAACCCC
1723 AAA-CCC
1 AAACCCC
1729 AAA-CCC
1 AAACCCC
1735 AAA-CCC
1 AAACCCC
1741 AAA-CCC
1 AAACCCC
1747 AAA-CCC
1 AAACCCC
1753 -AA-CCC
1 AAACCCC
1758 -AACCCC
1 AAACCCC
*
1764 CAACCCC
1 AAACCCC
1771 AAACCCC
1 AAACCCC
1778 -AA-CCC
1 AAACCCC
1783 AAA-CCC
1 AAACCCC
*
1789 AACCCCC
1 AAACCCC
1796 AAACCCC
1 AAACCCC
*
1803 -AACCCT
1 AAACCCC
*
1809 AAACCCT
1 AAACCCC
*
1816 AAACCCT
1 AAACCCC
*
1823 AAACCCT
1 AAACCCC
*
1830 AAACCCT
1 AAACCCC
*
1837 AAACCCT
1 AAACCCC
*
1844 AAACCCT
1 AAACCCC
1851 AAACCCC
1 AAACCCC
*
1858 TAAACCCT
1 -AAACCCC
*
1866 AAACCCT
1 AAACCCC
*
1873 AAACCCT
1 AAACCCC
*
1880 AAACCCT
1 AAACCCC
*
1887 AAACCCT
1 AAACCCC
*
1894 AAACCCT
1 AAACCCC
*
1901 AAA-CCT
1 AAACCCC
*
1907 AAACCCT
1 AAACCCC
*
1914 AAACCCT
1 AAACCCC
*
1921 AAACCTCT
1 AAACC-CC
*
1929 AAACCCT
1 AAACCCC
*
1936 AAACCCT
1 AAACCCC
*
1943 AAACCCT
1 AAACCCC
*
1950 AAACCCT
1 AAACCCC
*
1957 AAACCCT
1 AAACCCC
*
1964 AAACCCT
1 AAACCCC
*
1971 ACAACCCT
1 A-AACCCC
*
1979 ACAACCCT
1 A-AACCCC
*
1987 ACAACCCT
1 A-AACCCC
*
1995 ACAACCCT
1 A-AACCCC
*
2003 AAACCCT
1 AAACCCC
*
2010 AAACCCT
1 AAACCCC
*
2017 AAACCCT
1 AAACCCC
*
2024 AAACCCT
1 AAACCCC
*
2031 ACAACCCT
1 A-AACCCC
*
2039 AAACCCT
1 AAACCCC
*
2046 ACAACCCT
1 A-AACCCC
*
2054 AAACCCT
1 AAACCCC
*
2061 AAACCCT
1 AAACCCC
*
2068 ACAACCCT
1 A-AACCCC
*
2076 AAACCCT
1 AAACCCC
*
2083 AAACCCT
1 AAACCCC
*
2090 AAACCCT
1 AAACCCC
*
2097 AAACCCT
1 AAACCCC
*
2104 AAACCCT
1 AAACCCC
*
2111 AAACCCT
1 AAACCCC
*
2118 ACAACCCT
1 A-AACCCC
* *
2126 AATCCCT
1 AAACCCC
*
2133 AAACCCT
1 AAACCCC
*
2140 AAACCCT
1 AAACCCC
* *
2147 AATCCCT
1 AAACCCC
* *
2154 AATCCCT
1 AAACCCC
* *
2161 AATCCCT
1 AAACCCC
2168 AAA-CCC
1 AAACCCC
* *
2174 TAA-TCC
1 AAACCCC
* *
2180 TAACCCT
1 AAACCCC
* *
2187 AATCCCT
1 AAACCCC
*
2194 AAACCCT
1 AAACCCC
*
2201 AAACCCA
1 AAACCCC
2208 AAACCCC
1 AAACCCC
*
2215 AAAACCCA
1 -AAACCCC
2223 AAACCCC
1 AAACCCC
2230 AAACCCC
1 AAACCCC
2237 AAACCCCC
1 AAA-CCCC
2245 AAACCCC
1 AAACCCC
2252 AAACCCCC
1 AAA-CCCC
2260 AAACCCC
1 AAACCCC
2267 -AACCCC
1 AAACCCC
*
2273 CAACCCC
1 AAACCCC
*
2280 -AACCCA
1 AAACCCC
*
2286 AAACCCA
1 AAACCCC
2293 AAACCCC
1 AAACCCC
2300 -AACCCC
1 AAACCCC
*
2306 CAACCCC
1 AAACCCC
*
2313 CAACCCC
1 AAACCCC
*
2320 CAACCCC
1 AAACCCC
2327 -AACCCC
1 AAACCCC
*
2333 AACCCCC
1 AAACCCC
2340 AAACCCCC
1 AAA-CCCC
2348 AAACCCCC
1 AAA-CCCC
2356 AAACCCCC
1 AAA-CCCC
2364 AAACCCC
1 AAACCCC
2371 AAACCCC
1 AAACCCC
2378 -AA--CC
1 AAACCCC
2382 AAACCCC
1 AAACCCC
2389 -AACCCC
1 AAACCCC
*
2395 AACCCCC
1 AAACCCC
2402 AAACCCC
1 AAACCCC
*
2409 CAACCCC
1 AAACCCC
*
2416 CAACCCC
1 AAACCCC
2423 --ACCCC
1 AAACCCC
*
2428 CAA-CCC
1 AAACCCC
*
2434 TAACCCC
1 AAACCCC
*
2441 TAACCCC
1 AAACCCC
*
2448 AACCCCC
1 AAACCCC
2455 TAAACCCCC
1 -AAA-CCCC
2464 TAAACCCCC
1 -AAA-CCCC
*
2473 TAAAACCCT
1 --AAACCCC
*
2482 AAAACCC
1 AAACCCC
2489 AAA-CCC
1 AAACCCC
*
2495 AAACCCAA
1 AAACCC-C
2503 AAACCCC
1 AAACCCC
2510 AAACCCC
1 AAACCCC
2517 AAAAACCCC
1 --AAACCCC
2526 -AACCCC
1 AAACCCC
*
2532 AACCCCCC
1 AA-ACCCC
2540 AAACCCC
1 AAACCCC
2547 AAACCCCC
1 AAA-CCCC
2555 AAACCCC
1 AAACCCC
2562 -AACCCC
1 AAACCCC
2568 -AACCCC
1 AAACCCC
*
2574 CAACCCC
1 AAACCCC
*
2581 CAACCCC
1 AAACCCC
* *
2588 CAACCTCA
1 AAACC-CC
2596 AAACCCC
1 AAACCCC
**
2603 TAAAACCTT
1 --AAACCCC
2612 AAACCCC
1 AAACCCC
*
2619 AAAACTCCTA
1 -AAAC-CC-C
*
2629 AAACCCTA
1 AAACCC-C
*
2637 AAACCTC
1 AAACCCC
*
2644 AAACTCC
1 AAACCCC
*
2651 AAACCTC
1 AAACCCC
* *
2658 AAACTCT
1 AAACCCC
2665 AAA-CCC
1 AAACCCC
2671 AAACCCC
1 AAACCCC
*
2678 AAACCCT
1 AAACCCC
2685 AAACCCC
1 AAACCCC
2692 CTTAGCCCCT
Statistics
Matches: 2436, Mismatches: 149, Indels: 192
0.88 0.05 0.07
Matches are distributed among these distances:
4 2 0.00
5 17 0.01
6 342 0.14
7 1750 0.72
8 282 0.12
9 40 0.02
10 3 0.00
ACGTcount: A:0.43, C:0.46, G:0.00, T:0.11
Consensus pattern (7 bp):
AAACCCC
Found at i:2268 original size:7 final size:7
Alignment explanation
Indices: 1--2257 Score: 3446
Period size: 7 Copynumber: 325.3 Consensus size: 7
1 CCTAAAC
1 CCTAAAC
8 CCTAAAC
1 CCTAAAC
15 CCTAAAC
1 CCTAAAC
22 CCTAAAC
1 CCTAAAC
29 CCTAAAC
1 CCTAAAC
36 CCTAAAC
1 CCTAAAC
43 CCTAAA-
1 CCTAAAC
*
49 CCTAAAA
1 CCTAAAC
56 CCT-AAC
1 CCTAAAC
*
62 CCGAAAC
1 CCTAAAC
69 CCT-AAC
1 CCTAAAC
75 CCTAAAC
1 CCTAAAC
82 CCTAAAC
1 CCTAAAC
89 CCTAAAC
1 CCTAAAC
96 CCTAAAC
1 CCTAAAC
103 CCTAAAC
1 CCTAAAC
110 CCTAAAAC
1 CCT-AAAC
118 CCTAAAC
1 CCTAAAC
125 CCTAAA-
1 CCTAAAC
131 CCTAAAC
1 CCTAAAC
138 CCTAAAC
1 CCTAAAC
145 CCTAAAC
1 CCTAAAC
152 CCT-AAC
1 CCTAAAC
158 CCTAAAC
1 CCTAAAC
165 CCTAAAC
1 CCTAAAC
172 CCTAAAC
1 CCTAAAC
179 CC-AAACC
1 CCTAAA-C
186 CCTAAACC
1 CCTAAA-C
194 CCTAAAC
1 CCTAAAC
201 CCTAAAC
1 CCTAAAC
208 CCTAAAC
1 CCTAAAC
215 CCTAAAAC
1 CCT-AAAC
223 CCT-AAC
1 CCTAAAC
*
229 CCTAACC
1 CCTAAAC
236 CCTAAAC
1 CCTAAAC
243 CCTAAAAC
1 CCT-AAAC
251 CCTAAAC
1 CCTAAAC
258 CCTAAAC
1 CCTAAAC
265 CCTAAAC
1 CCTAAAC
272 CCTAAAC
1 CCTAAAC
279 CCTAAAC
1 CCTAAAC
286 CCTAAAC
1 CCTAAAC
293 CCTAAAC
1 CCTAAAC
300 CCTAAAC
1 CCTAAAC
307 CCTAAAC
1 CCTAAAC
314 CCTAAAC
1 CCTAAAC
321 CCTAAAC
1 CCTAAAC
328 CCTAAAC
1 CCTAAAC
335 CCTAAAC
1 CCTAAAC
342 CCTAAAC
1 CCTAAAC
349 CCTAAAAC
1 CCT-AAAC
357 CCTAAAC
1 CCTAAAC
364 CCTAAAC
1 CCTAAAC
371 CCTAAAC
1 CCTAAAC
378 CCTAAAC
1 CCTAAAC
385 CCTAAAC
1 CCTAAAC
392 CCTAAAC
1 CCTAAAC
399 CCTAAAC
1 CCTAAAC
406 CCTAAAC
1 CCTAAAC
413 CCTAAAC
1 CCTAAAC
420 CCTAAAC
1 CCTAAAC
427 CCTAAAC
1 CCTAAAC
434 CCTAAAC
1 CCTAAAC
441 CCTAAAC
1 CCTAAAC
448 CCTAAAC
1 CCTAAAC
455 CCTAAAC
1 CCTAAAC
462 CCTAAAC
1 CCTAAAC
469 CCTAAAC
1 CCTAAAC
476 CC-AAAC
1 CCTAAAC
482 CCTAAAC
1 CCTAAAC
489 CCTAAAC
1 CCTAAAC
496 CCT-AAC
1 CCTAAAC
502 CCTAAAAC
1 CCT-AAAC
510 CCT-AAC
1 CCTAAAC
516 CCTAAAAC
1 CCT-AAAC
524 CCTAAAC
1 CCTAAAC
531 CCTAAAC
1 CCTAAAC
538 CCTAAAC
1 CCTAAAC
545 CCTAAAC
1 CCTAAAC
552 CCTAAAC
1 CCTAAAC
559 CCTAAAC
1 CCTAAAC
566 CCTAAAC
1 CCTAAAC
573 CCTAAAC
1 CCTAAAC
580 CCTAAAC
1 CCTAAAC
587 CCTAAAC
1 CCTAAAC
594 CCTAAAC
1 CCTAAAC
601 CCTAAAC
1 CCTAAAC
608 CCTAAAC
1 CCTAAAC
615 CCTAAAC
1 CCTAAAC
622 CCTAAAAC
1 CCT-AAAC
630 CCTAAAC
1 CCTAAAC
637 CCTAAAC
1 CCTAAAC
644 CCTAAAAC
1 CCT-AAAC
652 CCTAAAC
1 CCTAAAC
659 CCTAAAC
1 CCTAAAC
666 CCTAAAC
1 CCTAAAC
673 CCTAAAC
1 CCTAAAC
680 CCTAAAAC
1 CCT-AAAC
688 CCTAAAC
1 CCTAAAC
695 CCTAAAC
1 CCTAAAC
702 CCTAAA-
1 CCTAAAC
708 CCTAAAC
1 CCTAAAC
715 CCTAAAC
1 CCTAAAC
722 CCTAAAC
1 CCTAAAC
729 CCTAAAAC
1 CCT-AAAC
737 CCTAAA-
1 CCTAAAC
743 CCTAAAC
1 CCTAAAC
750 CCTAAAC
1 CCTAAAC
757 CCTAAAC
1 CCTAAAC
764 CCTAAAC
1 CCTAAAC
771 CCTAAAC
1 CCTAAAC
778 CCTAAAC
1 CCTAAAC
785 CCTAAAC
1 CCTAAAC
792 CCTAAAC
1 CCTAAAC
799 CCTAAAC
1 CCTAAAC
806 CCTAAAC
1 CCTAAAC
813 CCTAAA-
1 CCTAAAC
819 CCTAAAC
1 CCTAAAC
826 CCTAAAC
1 CCTAAAC
833 CCTAAAC
1 CCTAAAC
840 CCTAAAC
1 CCTAAAC
847 CCTAAAC
1 CCTAAAC
854 CCTAAAC
1 CCTAAAC
861 CCTAAAC
1 CCTAAAC
868 CCTAAAC
1 CCTAAAC
875 CCTAAAC
1 CCTAAAC
882 CCTAAAAC
1 CCT-AAAC
890 CCTAAAC
1 CCTAAAC
897 CCTAAAC
1 CCTAAAC
904 CCTAAAC
1 CCTAAAC
911 CCT-AAC
1 CCTAAAC
917 CCTAAAAC
1 CCT-AAAC
925 CCTAAAAC
1 CCT-AAAC
933 CCTAAAAC
1 CCT-AAAC
941 CCTAAAAC
1 CCT-AAAC
949 CCTAAAC
1 CCTAAAC
956 CCTAAAC
1 CCTAAAC
963 CCTAAAC
1 CCTAAAC
970 CCTAAAC
1 CCTAAAC
977 CCTAAAC
1 CCTAAAC
984 CCTAAAC
1 CCTAAAC
991 CCTAAAC
1 CCTAAAC
998 CCTAAAC
1 CCTAAAC
1005 CCTAAAC
1 CCTAAAC
1012 CCTAAAC
1 CCTAAAC
1019 CCTAAAC
1 CCTAAAC
1026 CCTAAAC
1 CCTAAAC
1033 CCTAAAC
1 CCTAAAC
1040 CCTAAAC
1 CCTAAAC
1047 CCTAAAC
1 CCTAAAC
1054 CCTAAAC
1 CCTAAAC
1061 CCTAAAC
1 CCTAAAC
1068 CCTAAAC
1 CCTAAAC
1075 CCTAAAC
1 CCTAAAC
1082 CCTAAA-
1 CCTAAAC
1088 CCTAAAC
1 CCTAAAC
1095 CCTAAAC
1 CCTAAAC
1102 CCTAAAC
1 CCTAAAC
1109 CCTAAAC
1 CCTAAAC
1116 CCTAAAC
1 CCTAAAC
1123 CCTAAAC
1 CCTAAAC
1130 CCTAAAC
1 CCTAAAC
1137 CCTAAAC
1 CCTAAAC
1144 CCTAAAC
1 CCTAAAC
1151 CCTAAAC
1 CCTAAAC
1158 CCTAAAC
1 CCTAAAC
1165 CCTAAAC
1 CCTAAAC
1172 CCTAAAC
1 CCTAAAC
1179 CCTAAAC
1 CCTAAAC
1186 CCTAAAC
1 CCTAAAC
1193 CCTAAAC
1 CCTAAAC
1200 CCTAAA-
1 CCTAAAC
1206 CCTAAAC
1 CCTAAAC
1213 CCTAAAC
1 CCTAAAC
1220 CCTAAAC
1 CCTAAAC
1227 CCTAAAAC
1 CCT-AAAC
1235 CCTAAAC
1 CCTAAAC
1242 CCTAAAAC
1 CCT-AAAC
1250 CCTAAAC
1 CCTAAAC
1257 CCTAAAAAC
1 CCT--AAAC
1266 CCTAAAC
1 CCTAAAC
1273 CCTAAAC
1 CCTAAAC
1280 CCTAAAC
1 CCTAAAC
1287 CCTAAAC
1 CCTAAAC
1294 CCTAAA-
1 CCTAAAC
1300 CCTAAAC
1 CCTAAAC
1307 CCTAAAC
1 CCTAAAC
1314 CCTAAAC
1 CCTAAAC
1321 CCTAAAC
1 CCTAAAC
1328 CCTAAAC
1 CCTAAAC
1335 CCTAAAC
1 CCTAAAC
1342 CCTAAAC
1 CCTAAAC
1349 CCTAAAC
1 CCTAAAC
1356 CCTAAAC
1 CCTAAAC
1363 CCTAAAC
1 CCTAAAC
1370 CCTAAAAC
1 CCT-AAAC
1378 CCTAAAC
1 CCTAAAC
1385 CCTAAAC
1 CCTAAAC
1392 CCTAAAAC
1 CCT-AAAC
1400 CCTAAAC
1 CCTAAAC
1407 CCTAAAC
1 CCTAAAC
1414 CCTAAAC
1 CCTAAAC
1421 CCTAAAC
1 CCTAAAC
1428 CC-AAAC
1 CCTAAAC
*
1434 CCCAAAC
1 CCTAAAC
1441 CC-AAAC
1 CCTAAAC
1447 CC-AAAC
1 CCTAAAC
*
1453 CCCAAAC
1 CCTAAAC
1460 CC-AAAC
1 CCTAAAC
*
1466 CCCAAAC
1 CCTAAAC
1473 CC-AAAC
1 CCTAAAC
1479 CCTAAAC
1 CCTAAAC
1486 CC-AAAC
1 CCTAAAC
1492 CCTAAAAC
1 CCT-AAAC
1500 CC-AAAC
1 CCTAAAC
1506 CC-AAAC
1 CCTAAAC
1512 CCTAAAAC
1 CCT-AAAC
1520 CC-AAAC
1 CCTAAAC
1526 CC-AAAC
1 CCTAAAC
1532 CC-AAAC
1 CCTAAAC
*
1538 CCCAAAC
1 CCTAAAC
1545 CCTAAAC
1 CCTAAAC
1552 CC-AAAC
1 CCTAAAC
1558 CC-AAAC
1 CCTAAAC
1564 CCTAAAC
1 CCTAAAC
1571 CC-AAAC
1 CCTAAAC
*
1577 CCAAAAAC
1 CC-TAAAC
1585 CC-AAAC
1 CCTAAAC
1591 CC-AAAC
1 CCTAAAC
1597 CC-AAAC
1 CCTAAAC
1603 CCTAAAAC
1 CCT-AAAC
1611 CC-AAAC
1 CCTAAAC
1617 CC-AAAC
1 CCTAAAC
1623 CC-AAACC
1 CCTAAA-C
1630 CCTAAAC
1 CCTAAAC
1637 CC-AAAC
1 CCTAAAC
1643 CCTAAAC
1 CCTAAAC
*
1650 CCCAAAC
1 CCTAAAC
*
1657 CCCAAAC
1 CCTAAAC
1664 CC-AAAC
1 CCTAAAC
1670 CCTAAAC
1 CCTAAAC
1677 CC-AAAC
1 CCTAAAC
1683 CC-AAAC
1 CCTAAAC
1689 CC-AAAC
1 CCTAAAC
1695 CC-AAAC
1 CCTAAAC
*
1701 CCCAAAC
1 CCTAAAC
*
1708 CCAAAAC
1 CCTAAAC
1715 CC-AAAC
1 CCTAAAC
1721 CC-AAAC
1 CCTAAAC
1727 CC-AAAC
1 CCTAAAC
1733 CC-AAAC
1 CCTAAAC
1739 CC-AAAC
1 CCTAAAC
1745 CC-AAAC
1 CCTAAAC
1751 CC--AAC
1 CCTAAAC
1756 CC--AAC
1 CCTAAAC
**
1761 CCCCAAC
1 CCTAAAC
*
1768 CCCAAAC
1 CCTAAAC
*
1775 CC-CAAC
1 CCTAAAC
1781 CC-AAAC
1 CCTAAAC
*
1787 CC-AACC
1 CCTAAAC
*
1793 CCCAAAC
1 CCTAAAC
*
1800 CC-CAAC
1 CCTAAAC
1806 CCTAAAC
1 CCTAAAC
1813 CCTAAAC
1 CCTAAAC
1820 CCTAAAC
1 CCTAAAC
1827 CCTAAAC
1 CCTAAAC
1834 CCTAAAC
1 CCTAAAC
1841 CCTAAAC
1 CCTAAAC
1848 CCTAAACC
1 CCTAAA-C
1856 CCTAAAC
1 CCTAAAC
1863 CCTAAAC
1 CCTAAAC
1870 CCTAAAC
1 CCTAAAC
1877 CCTAAAC
1 CCTAAAC
1884 CCTAAAC
1 CCTAAAC
1891 CCTAAAC
1 CCTAAAC
1898 CCTAAA-
1 CCTAAAC
1904 CCTAAAC
1 CCTAAAC
1911 CCTAAAC
1 CCTAAAC
1918 CCTAAAC
1 CCTAAAC
1925 CTCTAAAC
1 C-CTAAAC
1933 CCTAAAC
1 CCTAAAC
1940 CCTAAAC
1 CCTAAAC
1947 CCTAAAC
1 CCTAAAC
1954 CCTAAAC
1 CCTAAAC
1961 CCTAAAC
1 CCTAAAC
1968 CCTACAAC
1 CCTA-AAC
1976 CCTACAAC
1 CCTA-AAC
1984 CCTACAAC
1 CCTA-AAC
1992 CCTACAAC
1 CCTA-AAC
2000 CCTAAAC
1 CCTAAAC
2007 CCTAAAC
1 CCTAAAC
2014 CCTAAAC
1 CCTAAAC
2021 CCTAAAC
1 CCTAAAC
2028 CCTACAAC
1 CCTA-AAC
2036 CCTAAAC
1 CCTAAAC
2043 CCTACAAC
1 CCTA-AAC
2051 CCTAAAC
1 CCTAAAC
2058 CCTAAAC
1 CCTAAAC
2065 CCTACAAC
1 CCTA-AAC
2073 CCTAAAC
1 CCTAAAC
2080 CCTAAAC
1 CCTAAAC
2087 CCTAAAC
1 CCTAAAC
2094 CCTAAAC
1 CCTAAAC
2101 CCTAAAC
1 CCTAAAC
2108 CCTAAAC
1 CCTAAAC
2115 CCTACAAC
1 CCTA-AAC
*
2123 CCTAATC
1 CCTAAAC
2130 CCTAAAC
1 CCTAAAC
2137 CCTAAAC
1 CCTAAAC
*
2144 CCTAATC
1 CCTAAAC
*
2151 CCTAATC
1 CCTAAAC
*
2158 CCTAATC
1 CCTAAAC
2165 CCTAAAC
1 CCTAAAC
*
2172 CCT-AAT
1 CCTAAAC
2178 CCT-AAC
1 CCTAAAC
*
2184 CCTAATC
1 CCTAAAC
2191 CCTAAAC
1 CCTAAAC
2198 CCTAAAC
1 CCTAAAC
*
2205 CCAAAACC
1 CCTAAA-C
*
2213 CCAAAAC
1 CCTAAAC
*
2220 CCAAAAC
1 CCTAAAC
*
2227 CCCAAAC
1 CCTAAAC
*
2234 CCCAAACC
1 CCTAAA-C
*
2242 CCCAAAC
1 CCTAAAC
*
2249 CCCAAAC
1 CCTAAAC
2256 CC
1 CC
2258 CCAAACCCCA
Statistics
Matches: 2155, Mismatches: 25, Indels: 140
0.93 0.01 0.06
Matches are distributed among these distances:
5 10 0.00
6 322 0.15
7 1558 0.72
8 258 0.12
9 7 0.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (7 bp):
CCTAAAC
Found at i:2462 original size:9 final size:9
Alignment explanation
Indices: 2448--2476 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
2438 CCCTAACCCC
2448 AACCCCCTA
1 AACCCCCTA
2457 AACCCCCTA
1 AACCCCCTA
2466 AACCCCCTA
1 AACCCCCTA
2475 AA
1 AA
2477 ACCCTAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.10
Consensus pattern (9 bp):
AACCCCCTA
Found at i:2488 original size:18 final size:18
Alignment explanation
Indices: 2448--2484 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2438 CCCTAACCCC
*
2448 AACCCCCTAAACCCCCTA
1 AACCCCCTAAACACCCTA
2466 AACCCCCTAAA-ACCCTA
1 AACCCCCTAAACACCCTA
2483 AA
1 AA
2485 ACCCAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.41, C:0.49, G:0.00, T:0.11
Consensus pattern (18 bp):
AACCCCCTAAACACCCTA
Found at i:2616 original size:24 final size:25
Alignment explanation
Indices: 2589--2646 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
2579 CCCAACCCCC
*
2589 AACCTCAAAACCCCTAAAA-CCTTA
1 AACCTCAAAACCCCTAAAACCCTAA
* *
2613 AACCCCAAAACTCCTAAAACCCTAA
1 AACCTCAAAACCCCTAAAACCCTAA
2638 AACCTCAAA
1 AACCTCAAA
2647 CTCCAAACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (25 bp):
AACCTCAAAACCCCTAAAACCCTAA
Found at i:2634 original size:17 final size:16
Alignment explanation
Indices: 2595--2641 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
2585 CCCCAACCTC
2595 AAAACCCCTAAAA-CCT
1 AAAACCCC-AAAACCCT
*
2611 TAAACCCCAAAACTCCT
1 AAAACCCCAAAAC-CCT
*
2628 AAAACCCTAAAACC
1 AAAACCCCAAAACC
2642 TCAAACTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 4 0.15
16 8 0.31
17 14 0.54
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAACCCCAAAACCCT
Found at i:2674 original size:20 final size:20
Alignment explanation
Indices: 4--2690 Score: 2215
Period size: 21 Copynumber: 128.7 Consensus size: 20
1 CCT
*
4 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
25 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
* * *
46 AAA-CCTAAAACCTAACCCG
1 AAACCCTAAACCCAAACCCC
*
65 AAACCCT-AACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
85 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
106 AAACCCTAAAACCCTAAACCCT
1 AAACCCT-AAACCC-AAACCCC
*
128 AAA-CCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
148 AAACCCT-AACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
168 AAACCCTAAACCCAAACCCC
1 AAACCCTAAACCCAAACCCC
*
188 TAAACCCCTAAACCCTAAACCCT
1 -AAA-CCCTAAACCC-AAACCCC
* *
211 AAACCCTAAAACCCTAACCCT
1 AAACCCT-AAACCCAAACCCC
* *
232 AACCCCTAAACCCTAAAACCCT
1 AAACCCTAAACCC--AAACCCC
*
254 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
275 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
296 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
317 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
338 AAACCCTAAACCCTAAAACCCT
1 AAACCCTAAACCC--AAACCCC
*
360 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
381 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
402 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
423 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
444 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
465 AAACCCTAAACCCAAACCCT
1 AAACCCTAAACCCAAACCCC
* *
485 AAACCCTAAACCCTAACCCTA
1 AAACCCTAAACCCAAACCC-C
*
506 AAACCCT-AACCCTAAAACCCT
1 AAACCCTAAACCC--AAACCCC
*
527 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
548 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
569 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
590 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
611 AAACCCTAAACCCTAAAACCCT
1 AAACCCTAAACCC--AAACCCC
*
633 AAACCCTAAACCCTAAAACCCT
1 AAACCCTAAACCC--AAACCCC
*
655 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
676 AAACCCTAAAACCCTAAACCCT
1 AAACCCT-AAACCC-AAACCCC
* *
698 AAACCCTAAACCTAAACCCT
1 AAACCCTAAACCCAAACCCC
*
718 AAACCCTAAACCCTAAAACCCT
1 AAACCCTAAACCC--AAACCCC
*
740 AAA-CCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
760 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
781 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
802 AAACCCTAAACCCTAAA-CCT
1 AAACCCTAAACCC-AAACCCC
*
822 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
843 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
864 AAACCCTAAACCCTAAACCCTA
1 AAACCCTAAACCC-AAACCC-C
*
886 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
907 AAACCCT-AACCCTAAAACCCTA
1 AAACCCTAAACCC--AAACCC-C
*
929 AAACCCTAAAACCCTAAAACCCT
1 AAACCCT-AAACCC--AAACCCC
*
952 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
973 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
994 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1015 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1036 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1057 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
* *
1078 AAACCCTAAACCTAAACCCT
1 AAACCCTAAACCCAAACCCC
*
1098 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1119 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1140 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1161 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1182 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1203 AAA-CCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1223 AAACCCTAAAACCCTAAACCCTA
1 AAACCCT-AAACCC-AAACCC-C
*
1246 AAACCCTAAACCCTAAAAACCCT
1 AAACCCTAAACCC---AAACCCC
*
1269 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
* *
1290 AAACCCTAAACCTAAACCCT
1 AAACCCTAAACCCAAACCCC
*
1310 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1331 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1352 AAACCCTAAACCCTAAACCCTA
1 AAACCCTAAACCC-AAACCC-C
*
1374 AAACCCTAAACCCTAAACCCTA
1 AAACCCTAAACCC-AAACCC-C
*
1396 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
1417 AAACCCTAAACCCAAACCCC
1 AAACCCTAAACCCAAACCCC
1437 AAACCC-AAACCCAAACCCC
1 AAACCCTAAACCCAAACCCC
1456 AAACCC-AAACCCCAAA-CCC
1 AAACCCTAAA-CCCAAACCCC
1475 AAACCCTAAACCCAAACCCTAAAACCC
1 AAACCCTAAACCCAAA--C-----CCC
*
1502 AAACCC-AAACCCTAAAACCC
1 AAACCCTAAACCC-AAACCCC
1522 AAACCC-AAACCCAAACCCC
1 AAACCCTAAACCCAAACCCC
1541 AAACCCTAAACCCAAA-CCC
1 AAACCCTAAACCCAAACCCC
*
1560 AAACCCTAAACCCAAACCCAA
1 AAACCCTAAACCCAAACCC-C
1581 AAACCC-AAACCCAAA-CCC
1 AAACCCTAAACCCAAACCCC
1599 AAACCCTAAAACCCAAA-CCC
1 AAACCCT-AAACCCAAACCCC
1619 AAACCC-AAACCCCTAAA-CCC
1 AAACCCTAAA-CCC-AAACCCC
1639 AAACCCTAAACCCCAAACCCC
1 AAACCCTAAA-CCCAAACCCC
1660 AAACCC-AAACCCTAAA-CCC
1 AAACCCTAAACCC-AAACCCC
1679 AAACCC-AAACCCAAA-CCC
1 AAACCCTAAACCCAAACCCC
* *
1697 AAACCCCAAACCCAAAACCC
1 AAACCCTAAACCCAAACCCC
1717 AAACCC-AAACCCAAA-CCC
1 AAACCCTAAACCCAAACCCC
1735 AAACCC-AAACCCAAA-CCC
1 AAACCCTAAACCCAAACCCC
* *
1753 -AACCC-AACCCCCAACCCC
1 AAACCCTAAACCCAAACCCC
*
1771 AAACCC-CAACCCAAA-CCC
1 AAACCCTAAACCCAAACCCC
* * * *
1789 AACCCCCAAACCCCAACCCT
1 AAACCCTAAACCCAAACCCC
*
1809 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1830 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1851 AAACCCCTAAACCCTAAACCCT
1 AAA-CCCTAAACCC-AAACCCC
*
1873 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
* *
1894 AAACCCTAAACCTAAACCCT
1 AAACCCTAAACCCAAACCCC
*
1914 AAACCCTAAACCTCTAAACCCT
1 AAACCCTAAACC-C-AAACCCC
*
1936 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
1957 AAACCCTAAACCCTACAACCCT
1 AAACCCTAAACCC-A-AACCCC
*
1979 ACAACCCTACAACCCTACAACCCT
1 A-AACCCTA-AACCC-A-AACCCC
*
2003 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
*
2024 AAACCCTACAACCCTAAACCCT
1 AAACCCTA-AACCC-AAACCCC
*
2046 ACAACCCTAAACCCTAAACCCT
1 A-AACCCTAAACCC-AAACCCC
*
2068 ACAACCCTAAACCCTAAACCCT
1 A-AACCCTAAACCC-AAACCCC
*
2090 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCC-AAACCCC
* *
2111 AAACCCTACAACCCTAATCCCT
1 AAACCCTA-AACCC-AAACCCC
* *
2133 AAACCCTAAACCCTAATCCCT
1 AAACCCTAAACCC-AAACCCC
* *
2154 AATCCCTAATCCCTAAA-CCC
1 AAACCCTAAACCC-AAACCCC
* * * *
2174 TAATCCT-AACCCTAATCCCT
1 AAACCCTAAACCC-AAACCCC
2194 AAACCCTAAACCCAAAACCCC
1 AAACCCTAAACCC-AAACCCC
*
2215 AAAACCCAAAACCCCAAACCCC
1 -AAACCCTAAA-CCCAAACCCC
*
2237 AAACCCCCAAACCCCAAACCCCC
1 AAA-CCCTAAA-CCCAAA-CCCC
* * *
2260 AAACCCCAACCCCCAACCCC
1 AAACCCTAAACCCAAACCCC
*
2280 -AACCCAAAACCCAAAACCCC
1 AAACCCTAAACCC-AAACCCC
* * * *
2300 AACCCCCAACCCCCAACCCC
1 AAACCCTAAACCCAAACCCC
* * * *
2320 CAACCCCAACCCCAACCCCC
1 AAACCCTAAACCCAAACCCC
*
2340 AAACCCCCAAACCCCCAAACCCCC
1 AAA-CCCTAAA--CCCAAA-CCCC
* *
2364 AAACCCCAAACCCCAA--CC
1 AAACCCTAAACCCAAACCCC
* * *
2382 AAACCCCAACCCCAACCCCC
1 AAACCCTAAACCCAAACCCC
* * *
2402 AAACCCCCAACCCCCAACCCC
1 AAA-CCCTAAACCCAAACCCC
** *
2423 --ACCCCCAACCCTAACCCC
1 AAACCCTAAACCCAAACCCC
* * *
2441 TAACCCCAACCCCCTAAACCCCC
1 AAACCCTAA-ACCC-AAA-CCCC
*
2464 TAAACCCCCTAAAACCCTAAAACCC
1 -AAA--CCCT-AAACCC-AAACCCC
2489 AAACCC-AAACCCAAAAACCCC
1 AAACCCTAAACCC--AAACCCC
* *
2510 AAACCCCAAAAACCCCAACCCC
1 AAA-CCC-TAAACCCAAACCCC
2532 -AACCC----CCCAAACCCC
1 AAACCCTAAACCCAAACCCC
* *
2547 AAACCCCCAAACCCCAACCCC
1 AAA-CCCTAAACCCAAACCCC
* * * *
2568 AACCCCCAACCCCCAACCCC
1 AAACCCTAAACCCAAACCCC
* * **
2588 CAACCTCAAAACCCCTAAAACCTT
1 AAACC-CTAAA-CCC--AAACCCC
* *
2612 AAACCCCAAAACTCCTAAAACCCT
1 AAA-CCCTAAAC-CC--AAACCCC
* *
2636 AAAACCTCAAACTCCAAACCTC
1 AAACCCT-AAAC-CCAAACCCC
*
2658 AAACTCTAAACCCAAACCCC
1 AAACCCTAAACCCAAACCCC
2678 AAACCCTAAACCC
1 AAACCCTAAACCC
2691 CCTTAGCCCC
Statistics
Matches: 2418, Mismatches: 134, Indels: 229
0.87 0.05 0.08
Matches are distributed among these distances:
15 9 0.00
16 2 0.00
17 15 0.01
18 82 0.03
19 157 0.06
20 456 0.19
21 1059 0.44
22 437 0.18
23 83 0.03
24 83 0.03
25 5 0.00
26 16 0.01
27 14 0.01
ACGTcount: A:0.43, C:0.46, G:0.00, T:0.11
Consensus pattern (20 bp):
AAACCCTAAACCCAAACCCC
Found at i:2757 original size:7 final size:7
Alignment explanation
Indices: 2747--2785 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
2737 CCAACCCCAA
2747 CCCTGAC
1 CCCTGAC
2754 CCCTGAC
1 CCCTGAC
2761 CCCTGAC
1 CCCTGAC
*
2768 CCCTGAA
1 CCCTGAC
*
2775 CCCTGAA
1 CCCTGAC
2782 CCCT
1 CCCT
2786 TGGTCCAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.18, C:0.54, G:0.13, T:0.15
Consensus pattern (7 bp):
CCCTGAC
Found at i:5877 original size:25 final size:25
Alignment explanation
Indices: 5843--5893 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
5833 TTCCTTATAA
**
5843 ACTTTAAATTAAGAATTCTATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
*
5868 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAAGAATTAGATTAGG
5893 A
1 A
5894 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAAGAATTAGATTAGG
Found at i:14830 original size:267 final size:267
Alignment explanation
Indices: 14355--14893 Score: 1069
Period size: 267 Copynumber: 2.0 Consensus size: 267
14345 TTTCTAAAAT
14355 CATATTTCATAACAATCCTTGAAACCAAAATTTCATAACACTAATGAAACTAATAAAGATCTGTA
1 CATATTTCATAACAATCCTTGAAACCAAAATTTCATAACACTAATGAAACTAATAAAGATCTGTA
14420 AACCGAGACAATTAGAGACAATGAAGTATCACGGCAACAAAATGTAGATCTATGAAGACATCAAC
66 AACCGAGACAATTAGAGACAATGAAGTATCACGGCAACAAAATGTAGATCTATGAAGACATCAAC
14485 TCAAGATAACCCAGTATTCAAGTGTAACCTACGCAATTACTATATCATATTTCATCACAATGCAC
131 TCAAGATAACCCAGTATTCAAGTGTAACCTACGCAATTACTATATCATATTTCATCACAATGCAC
14550 TTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCTCTGTTCATGGAAATCAAAG
196 TTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCTCTGTTCATGGAAATCAAAG
14615 GTATACA
261 GTATACA
14622 CATATTTCATAACAATCCTTGAAACCAAAATTTCATAACACTAATGAAACTAATAAAGATCTGTA
1 CATATTTCATAACAATCCTTGAAACCAAAATTTCATAACACTAATGAAACTAATAAAGATCTGTA
14687 AACCGAGACAATTAGAGACAATGAAGTATCACGGCAACAAAATGTAGATCTATGAAGACATCAAC
66 AACCGAGACAATTAGAGACAATGAAGTATCACGGCAACAAAATGTAGATCTATGAAGACATCAAC
*
14752 TCAAGATAACCCAGTATTCAAGTTTAACCTACGCAATTACTATATCATATTTCATCACAATGCAC
131 TCAAGATAACCCAGTATTCAAGTGTAACCTACGCAATTACTATATCATATTTCATCACAATGCAC
14817 TTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCTCTGTTCATGGAAATCAAAG
196 TTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCTCTGTTCATGGAAATCAAAG
14882 GTATACA
261 GTATACA
14889 CATAT
1 CATAT
14894 CCCGTAGGCA
Statistics
Matches: 271, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
267 271 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.26
Consensus pattern (267 bp):
CATATTTCATAACAATCCTTGAAACCAAAATTTCATAACACTAATGAAACTAATAAAGATCTGTA
AACCGAGACAATTAGAGACAATGAAGTATCACGGCAACAAAATGTAGATCTATGAAGACATCAAC
TCAAGATAACCCAGTATTCAAGTGTAACCTACGCAATTACTATATCATATTTCATCACAATGCAC
TTTTGCAAACAATAAACATTTAGGCTTACCTAGCTGAGGCAGGCCTCTGTTCATGGAAATCAAAG
GTATACA
Found at i:20259 original size:6 final size:6
Alignment explanation
Indices: 20245--20283 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
20235 GCAGAAGGTA
* *
20245 AAAGGC AAAGTC AAAGGC AAAGGC GAAGGC AAAGGC AAA
1 AAAGGC AAAGGC AAAGGC AAAGGC AAAGGC AAAGGC AAA
20284 AGGATTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.15, G:0.31, T:0.03
Consensus pattern (6 bp):
AAAGGC
Found at i:29098 original size:10 final size:10
Alignment explanation
Indices: 29083--29114 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
29073 TTTGATACAA
29083 ATTTCCCTCG
1 ATTTCCCTCG
29093 ATTTCCCTCG
1 ATTTCCCTCG
*
29103 ATTTTCCTCG
1 ATTTCCCTCG
29113 AT
1 AT
29115 CAAAAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.12, C:0.34, G:0.09, T:0.44
Consensus pattern (10 bp):
ATTTCCCTCG
Found at i:37582 original size:7 final size:7
Alignment explanation
Indices: 37556--37824 Score: 89
Period size: 7 Copynumber: 39.0 Consensus size: 7
37546 TCCAGCCAAT
37556 CCCTAAA
1 CCCTAAA
*
37563 CCTTAAA
1 CCCTAAA
* *
37570 CTCTAAC
1 CCCTAAA
*
37577 CCCTAAT
1 CCCTAAA
*
37584 CTCTAAA
1 CCCTAAA
37591 CCCTAAA
1 CCCTAAA
*
37598 CCTTAAA
1 CCCTAAA
* * *
37605 TCATAAC
1 CCCTAAA
37612 CCCTAAA
1 CCCTAAA
* *
37619 CCTTATA
1 CCCTAAA
* *
37626 -TCTATA
1 CCCTAAA
37632 CCCTAAA
1 CCCTAAA
*
37639 CTCTAAA
1 CCCTAAA
* *
37646 CCTTATA
1 CCCTAAA
** *
37653 -TTTATA
1 CCCTAAA
*
37659 CCTTAAA
1 CCCTAAA
*
37666 CCTTAAA
1 CCCTAAA
*
37673 CCCTAGA
1 CCCTAAA
37680 -CCTAAA
1 CCCTAAA
37686 CCCTAAA
1 CCCTAAA
37693 -CCTAAA
1 CCCTAAA
*
37699 CCTTAAA
1 CCCTAAA
*
37706 ACCTAAA
1 CCCTAAA
*
37713 ACC-AAA
1 CCCTAAA
* *
37719 GCCCCAAG
1 -CCCTAAA
*
37727 CCCTAAG
1 CCCTAAA
*
37734 CCCCAAA
1 CCCTAAA
* *
37741 TCCTAAT
1 CCCTAAA
* *
37748 CCTTAAG
1 CCCTAAA
* *
37755 CCTTAAG
1 CCCTAAA
*
37762 CCTTAAA
1 CCCTAAA
*
37769 CCTTAAA
1 CCCTAAA
*
37776 CTCTAAA
1 CCCTAAA
*
37783 CTCTAAA
1 CCCTAAA
* *
37790 TCTTAAA
1 CCCTAAA
*
37797 CCTTAAA
1 CCCTAAA
*
37804 CACTAAA
1 CCCTAAA
*
37811 CCTTAAA
1 CCCTAAA
*
37818 CCATAAA
1 CCCTAAA
37825 TAAATAGTAA
Statistics
Matches: 198, Mismatches: 58, Indels: 12
0.74 0.22 0.04
Matches are distributed among these distances:
6 23 0.12
7 173 0.87
8 2 0.01
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.25
Consensus pattern (7 bp):
CCCTAAA
Found at i:37647 original size:27 final size:26
Alignment explanation
Indices: 37613--37703 Score: 110
Period size: 27 Copynumber: 3.4 Consensus size: 26
37603 AATCATAACC
37613 CCTAAACCTTATATCTATACCCTAAA
1 CCTAAACCTTATATCTATACCCTAAA
* *
37639 CTCTAAACCTTATATTTATACCTTAAA
1 C-CTAAACCTTATATCTATACCCTAAA
* * * *
37666 CCTTAAACCCTAGACCTAAACCCTAAA
1 CC-TAAACCTTATATCTATACCCTAAA
37693 CCTAAACCTTA
1 CCTAAACCTTA
37704 AAACCTAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.19
27 44 0.81
ACGTcount: A:0.38, C:0.31, G:0.01, T:0.30
Consensus pattern (26 bp):
CCTAAACCTTATATCTATACCCTAAA
Found at i:37709 original size:27 final size:26
Alignment explanation
Indices: 37557--37824 Score: 108
Period size: 28 Copynumber: 9.7 Consensus size: 26
37547 CCAGCCAATC
* *
37557 CCTAAACCTTAAACTCTAACCCCTAAT
1 CCTAAACCTTAAAC-CTAAACCCTAAA
* * * *
37584 CTCTAAACCCTAAACCTTAAATCATAACC
1 C-CTAAACCTTAAACC-TAAACCCTAA-A
* * *
37613 CCTAAACCTTATATCTATACCCTAAA
1 CCTAAACCTTAAACCTAAACCCTAAA
* ** * *
37639 CTCTAAACCTTATATTTATACCTTAAA
1 C-CTAAACCTTAAACCTAAACCCTAAA
* *
37666 CCTTAAACCCTAGACCTAAACCCTAAA
1 CC-TAAACCTTAAACCTAAACCCTAAA
*
37693 CCTAAACCTTAAAACCTAAAACC-AAA
1 CCTAAACCTT-AAACCTAAACCCTAAA
* * * * * * *
37719 GCCCCAAGCCCTAAGCCCCAAATCCTAAT
1 --CCTAAACCTTAA-ACCTAAACCCTAAA
* * *
37748 CCTTAAGCCTTAAGCCTTAAACCTTAAA
1 CC-TAAACCTTAAACC-TAAACCCTAAA
* *
37776 CTCTAAA-CTCTAAATCTTAAACCTTAAA
1 C-CTAAACCT-TAAA-CCTAAACCCTAAA
37804 CACTAAACCTTAAACCATAAA
1 C-CTAAACCTTAAACC-TAAA
37825 TAAATAGTAA
Statistics
Matches: 182, Mismatches: 42, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
26 12 0.07
27 72 0.40
28 91 0.50
29 7 0.04
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.25
Consensus pattern (26 bp):
CCTAAACCTTAAACCTAAACCCTAAA
Found at i:40727 original size:5 final size:5
Alignment explanation
Indices: 40713--40743 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
40703 TGGCTGTTAG
*
40713 TTTCT ATTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
40744 CTCCCCAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTCT
Found at i:48171 original size:19 final size:20
Alignment explanation
Indices: 48130--48174 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
48120 GTACTTGTTA
48130 GAGA-ATATTATTATTTAGT
1 GAGATATATTATTATTTAGT
* *
48149 GAGATATATTCTTATTTTG-
1 GAGATATATTATTATTTAGT
48168 GAGATAT
1 GAGATAT
48175 TTTGTTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (20 bp):
GAGATATATTATTATTTAGT
Found at i:49074 original size:5 final size:5
Alignment explanation
Indices: 49064--49093 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
49054 TTAATTTAGT
49064 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
49094 GTTAGTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:50057 original size:20 final size:20
Alignment explanation
Indices: 50022--50134 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
50012 TGTTTTGAAC
* * *
50022 GTGCCTCTAGTCGCACATAT
1 GTGCCTCTATTTGCACATTT
*
50042 GTGCCTCTATTTGCAC-TTCG
1 GTGCCTCTATTTGCACATT-T
* *
50062 GCGCCTCTATTTGCACATTC
1 GTGCCTCTATTTGCACATTT
* * *
50082 ATGCCTTTGTTTGCAC-TTT
1 GTGCCTCTATTTGCACATTT
50101 AGTGCCTCTATTTGCACATTT
1 -GTGCCTCTATTTGCACATTT
*
50122 GTGCCTCTGTTTG
1 GTGCCTCTATTTG
50135 TGTCATATCT
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.04
20 66 0.89
21 5 0.07
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (20 bp):
GTGCCTCTATTTGCACATTT
Found at i:50079 original size:40 final size:39
Alignment explanation
Indices: 50024--50134 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 39
50014 TTTTGAACGT
* * * *
50024 GCCTCTAGTCGCACATATGTGCCTCTATTTGCACTTCGGC
1 GCCTCTATTTGCACAT-TGTGCCTCTGTTTGCACTTCAGC
* * * *
50064 GCCTCTATTTGCACATTCATGCCTTTGTTTGCACTTTAGT
1 GCCTCTATTTGCACATT-GTGCCTCTGTTTGCACTTCAGC
50104 GCCTCTATTTGCACATTTGTGCCTCTGTTTG
1 GCCTCTATTTGCACA-TTGTGCCTCTGTTTG
50135 TGTCATATCT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.02
40 56 0.95
41 2 0.03
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.41
Consensus pattern (39 bp):
GCCTCTATTTGCACATTGTGCCTCTGTTTGCACTTCAGC
Found at i:54149 original size:16 final size:17
Alignment explanation
Indices: 54125--54160 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
54115 AATTTTTAAT
54125 TTTAATTTTCATTT-TC
1 TTTAATTTTCATTTCTC
*
54141 TTTACTTTTCATTTCTC
1 TTTAATTTTCATTTCTC
54158 TTT
1 TTT
54161 GTCCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTAATTTTCATTTCTC
Found at i:55217 original size:18 final size:19
Alignment explanation
Indices: 55190--55226 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
55180 ACAGATAATC
*
55190 CAGTTGTAATTC-ATATTT
1 CAGTTATAATTCAATATTT
55208 CAGTTATAATTCAATATTT
1 CAGTTATAATTCAATATTT
55227 TTGCATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (19 bp):
CAGTTATAATTCAATATTT
Found at i:57174 original size:82 final size:81
Alignment explanation
Indices: 57071--57226 Score: 201
Period size: 82 Copynumber: 1.9 Consensus size: 81
57061 TATTCGATAG
* * *
57071 GTGCACTTGCCTTTTTATCGTGATATTAGTTAGT-TTCCT-GGTACGATCAGATTTTATTACTTT
1 GTGCACTTGCCTTTTTATCGTGATAATAGTTAATCTT-CTAGGTACGATCA-A-TTTATTACTTC
57134 ATCACAATCACGAGAGATCA
63 ATCAC-ATCACGAGAGATCA
* * *
57154 GTGCGCTTGCC-TTTTATCGTGATAATAGTTAATCTTTTAGGTACGATTAATTTATTACTTCATC
1 GTGCACTTGCCTTTTTATCGTGATAATAGTTAATCTTCTAGGTACGATCAATTTATTACTTCATC
57218 ACATCACGA
66 ACATCACGA
57227 TCATTGGTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
80 7 0.11
81 15 0.23
82 22 0.34
83 21 0.32
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (81 bp):
GTGCACTTGCCTTTTTATCGTGATAATAGTTAATCTTCTAGGTACGATCAATTTATTACTTCATC
ACATCACGAGAGATCA
Found at i:68932 original size:13 final size:13
Alignment explanation
Indices: 68914--68938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68904 GGCCTCGACC
68914 CACACGGGCGTGG
1 CACACGGGCGTGG
68927 CACACGGGCGTG
1 CACACGGGCGTG
68939 TCCCTGTCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.44, T:0.08
Consensus pattern (13 bp):
CACACGGGCGTGG
Found at i:69771 original size:17 final size:17
Alignment explanation
Indices: 69746--69779 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
69736 TTGTGCAATC
69746 TTAGCTTAGTCTAATAA
1 TTAGCTTAGTCTAATAA
* *
69763 TTAGTTTAGTTTAATAA
1 TTAGCTTAGTCTAATAA
69780 AAATCTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAGCTTAGTCTAATAA
Found at i:71937 original size:42 final size:42
Alignment explanation
Indices: 71878--71995 Score: 155
Period size: 42 Copynumber: 2.8 Consensus size: 42
71868 TTAGGGCTAC
* *
71878 TGAGATTGTGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
71920 TGAGATTTTGTGTAAGACCATAGCGGGGCTATGGCATCGATA
1 TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATA
** *
71962 TGAGATTACATGTAAGACCATATCTAGGATATGG
1 TGAGATTATGTGTAAGACCATATCTGGGATATGG
71996 TATTGGTACT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.31
Consensus pattern (42 bp):
TGAGATTATGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:73782 original size:46 final size:44
Alignment explanation
Indices: 73624--73796 Score: 204
Period size: 46 Copynumber: 3.8 Consensus size: 44
73614 ATTTGGGCAT
*
73624 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
*** * * *
73668 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GC
*
73713 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GC
*
73761 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
73797 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
44 30 0.28
45 6 0.06
46 41 0.38
47 28 0.26
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGC
Found at i:76782 original size:15 final size:15
Alignment explanation
Indices: 76743--76822 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
76733 GTATCTTGGG
*
76743 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
76758 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
76773 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
76788 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
76803 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
76817 TTTCTT
1 TTTCTT
76823 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:76812 original size:30 final size:30
Alignment explanation
Indices: 76734--76821 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
76724 CATAGTATCG
* * *
76734 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
76764 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
76794 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
76822 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:79230 original size:46 final size:46
Alignment explanation
Indices: 79180--79355 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
79170 ATATTTGGCA
79180 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
79226 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
79273 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
79319 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
79356 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:79335 original size:93 final size:93
Alignment explanation
Indices: 79176--79347 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
79166 CTGGATATTT
* *
79176 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
79241 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
79269 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
79334 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
79348 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:82344 original size:15 final size:15
Alignment explanation
Indices: 82305--82384 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
82295 GTATCTTGGG
*
82305 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
82320 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
82335 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
82350 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
82365 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
82379 TTTCTT
1 TTTCTT
82385 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:82374 original size:30 final size:30
Alignment explanation
Indices: 82296--82383 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
82286 CATAGTATCG
* * *
82296 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
82326 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
82356 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
82384 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:84822 original size:46 final size:46
Alignment explanation
Indices: 84769--84944 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
84759 TATTTGGGCA
84769 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
84815 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
84862 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
84908 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84945 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:84924 original size:93 final size:93
Alignment explanation
Indices: 84765--84936 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
84755 GGGATATTTG
* *
84765 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
84830 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
84858 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
84923 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
84937 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:90993 original size:35 final size:34
Alignment explanation
Indices: 90954--91030 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
90944 ACATACGAAT
* * *
90954 CAGAATCAGCATAGTGGCATGCTTAACATGCAAAC
1 CAGAAT-AACATAGTGACATACTTAACATGCAAAC
* *
90989 CAGAAATAATATAGTGACATACTTAACATGCGAAC
1 CAG-AATAACATAGTGACATACTTAACATGCAAAC
*
91024 TAGAATA
1 CAGAATA
91031 TGAACCGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
34 4 0.11
35 28 0.80
36 3 0.09
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (34 bp):
CAGAATAACATAGTGACATACTTAACATGCAAAC
Found at i:93190 original size:16 final size:15
Alignment explanation
Indices: 93165--93194 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
93155 TATCGTCTTC
93165 TTAGTTTTAGTTTAG
1 TTAGTTTTAGTTTAG
93180 TTAGATTTTAGTTTA
1 TTAG-TTTTAGTTTA
93195 AAACAATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (15 bp):
TTAGTTTTAGTTTAG
Found at i:94706 original size:51 final size:51
Alignment explanation
Indices: 94630--94746 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
94620 CTCAAACTTA
* * * *
94630 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCAGAATAATTACCTTGTTCCTCTAACTTCAACAAGAG
* * *
94681 CTTCATATTTCATCCAGAATAATTACTTTGTTCCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCAGAATAATTACCTTGTTCCTCTAACTTCAACAAGAG
* *
94732 CTTTATATTTTATCC
1 CTTCATATTTCATCC
94747 GGATAACTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.40
Consensus pattern (51 bp):
CTTCATATTTCATCCAGAATAATTACCTTGTTCCTCTAACTTCAACAAGAG
Found at i:97858 original size:96 final size:97
Alignment explanation
Indices: 97742--97973 Score: 290
Period size: 96 Copynumber: 2.3 Consensus size: 97
97732 AATTTAAGGG
* * *
97742 TTTTAAGGAAAAAATTAAATAAATTAGGGTTTAAGGTTTCTTAATTAAATTAATTATAAATTTTA
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTATAAA-TTTA
* *
97807 AAAAA-TTAGATTATGG-TTTAATGTTTATGG-T
65 AAAAATTTAGATTA-GGCTTTAAGGTTTAGGGAT
* *
97838 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAA
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTATAAATTTAA
97903 AAAATTTAGATTAGGCTTTTAAGGTTTAGGGTAT
66 AAAATTTAGATTAGGC-TTTAAGGTTTAGGG-AT
*
97937 TAGGGTATTAACGAAAAAATCAAATAAATTAGGGTTT
1 T----T-TTAAGGAAAAAATCAAATAAATTAGGGTTT
97974 GGGGTTTAGG
Statistics
Matches: 118, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
95 11 0.09
96 63 0.53
97 12 0.10
99 2 0.02
103 1 0.01
104 29 0.25
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (97 bp):
TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAAGGTTACTTAAGTAAATTAATTATAAATTTAA
AAAATTTAGATTAGGCTTTAAGGTTTAGGGAT
Found at i:98187 original size:126 final size:126
Alignment explanation
Indices: 98023--98673 Score: 957
Period size: 126 Copynumber: 5.2 Consensus size: 126
98013 AAAAAGATCT
* * * *
98023 CACGTGGACGCTCTTTTGTTACAGTAGTTTCTGGAAAAAATAATTTTGAGAAAACGTTTCTGAGC
1 CACGTGGACGCTCTTTTGCTATAGTATTTTCT-GAAAAAATAATTTTGAGAAGACGTTTCTGAGC
* *
98088 AAATAGTGTCAAAAACACTTCAAGCA-GTTGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
65 AAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
* * * * *
98149 CGCATAGATGCTCTTTTGCTATAGTATTTTCTAAAAAAAATAATTTTGAGAAGACGTTTCTGAGC
1 CACGTGGACGCTCTTTTGCTATAGTATTTTCT-GAAAAAATAATTTTGAGAAGACGTTTCTGAGC
* * *
98214 AAATAGTGTCAAAAACACTTCAAGTAGGATGCATTGTCAGCAAAAGTATTGAAAGAAGCTCC
65 AAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
* **
98276 CACGTGGACGCTCTTTTGCTACAGTAGTTTT-TGAAAAAATAATTTTGAGAAGATTTTTCTGAGC
1 CACGTGGACGCTCTTTTGCTATAGTA-TTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGC
* *
98340 AAATAGTGTCAAAAACGCTTCAAGTAGGATGTATTGTCAGCAAAAGTACTGAAAGAAGCTCC
65 AAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
*
98402 CACGTGGACGCTCTTTTGCTATAGTATTTTCTGAAAAAATAATTTTGAAAAGACGTTTCTGAGCA
1 CACGTGGACGCTCTTTTGCTATAGTATTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCA
* * *
98467 AATAGTGTTAAAAACGCTTCAAGCAGGATGCATTGTTAGCAAAAGTACTGAAAGAAGTTCC
66 AATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
** * ** * *
98528 CACGT-GACGCTAATTTGCTATAATGGTTTCTAAAAAAATAATTTTGAGAAGATGTTTCTGAGCA
1 CACGTGGACGCTCTTTTGCTATAGTATTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCA
* * *
98592 AATAGTGTCAAAAACGCTTCAAGCAAGATGCAATGTCAGCAAAAATACTGAAAGAAGCTCC
66 AATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
98653 CACGTGGACGCTCTTTTGCTA
1 CACGTGGACGCTCTTTTGCTA
98674 CAATAGTTCC
Statistics
Matches: 472, Mismatches: 49, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
125 115 0.24
126 298 0.63
127 55 0.12
128 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (126 bp):
CACGTGGACGCTCTTTTGCTATAGTATTTTCTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCA
AATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCC
Found at i:99980 original size:16 final size:15
Alignment explanation
Indices: 99959--99988 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
99949 GGTTTTTTAA
99959 TAATATTGTTATTATG
1 TAATATTG-TATTATG
99975 TAATATTGTATTAT
1 TAATATTGTATTAT
99989 TTAACGTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
TAATATTGTATTATG
Found at i:104168 original size:11 final size:11
Alignment explanation
Indices: 104111--104162 Score: 81
Period size: 11 Copynumber: 4.9 Consensus size: 11
104101 TAACGAGAGC
104111 TTTGAGAGAAA
1 TTTGAGAGAAA
104122 TTTGAGAGAAA
1 TTTGAGAGAAA
*
104133 TTTAAGAGAAA
1 TTTGAGAGAAA
104144 TTTGAGAG--A
1 TTTGAGAGAAA
104153 TTTGAGAGAA
1 TTTGAGAGAA
104163 TATTGAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 9 0.24
11 28 0.76
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:104168 original size:20 final size:20
Alignment explanation
Indices: 104105--104162 Score: 80
Period size: 22 Copynumber: 2.8 Consensus size: 20
104095 AAAAATTAAC
*
104105 GAGAGCTTTGAGAGAAATTT
1 GAGAGATTTGAGAGAAATTT
*
104125 GAGAGAAATTTAAGAGAAATTT
1 GAGAG--ATTTGAGAGAAATTT
104147 GAGAGATTTGAGAGAA
1 GAGAGATTTGAGAGAA
104163 TATTGAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 15 0.45
22 18 0.55
ACGTcount: A:0.43, C:0.02, G:0.29, T:0.26
Consensus pattern (20 bp):
GAGAGATTTGAGAGAAATTT
Found at i:104173 original size:20 final size:20
Alignment explanation
Indices: 104115--104179 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
104105 GAGAGCTTTG
*
104115 AGAGAAATTTGAGAGAAATTTA
1 AGAGAAATTTGA-A-AGATTTA
* *
104137 AGAGAAATTTGAGAGATTTG
1 AGAGAAATTTGAAAGATTTA
*
104157 AGAG-AATATTGAAAGATTGA
1 AGAGAAAT-TTGAAAGATTTA
104177 AGA
1 AGA
104180 TGGAAAGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 3 0.08
20 21 0.58
22 12 0.33
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (20 bp):
AGAGAAATTTGAAAGATTTA
Found at i:106931 original size:30 final size:30
Alignment explanation
Indices: 106843--106931 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
106833 CGTTACTTCC
* * *
106843 TTGAAATTTTTAATTAAGTACTCCTAAAATTT
1 TTGAAAATTTTAATTATG-ACTCC-AAAATAT
* * *
106875 TTGAAAATTCTCATTAT-TCTCACAAAATAT
1 TTGAAAATTTTAATTATGACTC-CAAAATAT
*
106905 TTGAAAATTTTAATTATGCCTCCAAAA
1 TTGAAAATTTTAATTATGACTCCAAAA
106932 CTTAGTCCCA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
30 29 0.63
31 4 0.09
32 13 0.28
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (30 bp):
TTGAAAATTTTAATTATGACTCCAAAATAT
Found at i:114667 original size:22 final size:23
Alignment explanation
Indices: 114642--114687 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
114632 CAACCAAATC
114642 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
114664 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
114687 A
1 A
114688 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:114693 original size:23 final size:23
Alignment explanation
Indices: 114649--114693 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
114639 ATCAATTCAA
*
114649 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
114672 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
114694 CACACATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:122440 original size:22 final size:23
Alignment explanation
Indices: 122415--122460 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
122405 CAATCAAATC
122415 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
122437 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
122460 A
1 A
122461 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:122466 original size:23 final size:23
Alignment explanation
Indices: 122422--122466 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
122412 ATCAATTCAA
*
122422 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
122445 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
122467 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:126336 original size:22 final size:20
Alignment explanation
Indices: 126295--126340 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
126285 ATAATAAATC
* *
126295 AAATATATTTAAAAACATAA
1 AAATAAATTTAAAAAAATAA
126315 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
126337 AAAT
1 AAAT
126341 GATACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:126430 original size:15 final size:16
Alignment explanation
Indices: 126400--126432 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
126390 AAATGGTTAT
126400 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
126417 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
126432 A
1 A
126433 ATATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:148784 original size:23 final size:23
Alignment explanation
Indices: 148749--148817 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
148739 AATTCGAGGA
148749 TTTGTTTAT-ATTTTTTTTATTGT
1 TTTG-TTATCATTTTTTTTATTGT
**
148772 TTTGTTATCATTTTTAATATTGT
1 TTTGTTATCATTTTTTTTATTGT
* *
148795 TTTGTAACCATTTTGTTATTATT
1 TTTGTTATCATTTT-TT-TTATT
148818 TTACTGTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 4 0.11
23 28 0.76
24 1 0.03
25 4 0.11
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTGTTATCATTTTTTTTATTGT
Found at i:150691 original size:15 final size:16
Alignment explanation
Indices: 150664--150693 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
150654 TACTATTAAA
150664 TTATTTTTAAATTTTT
1 TTATTTTTAAATTTTT
150680 TTATTTTT-AATTTT
1 TTATTTTTAAATTTT
150694 AAATAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTTTAAATTTTT
Found at i:154530 original size:40 final size:40
Alignment explanation
Indices: 154472--154578 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
154462 TTCGAATGAT
* *
154472 ATCCGGGCTAAGTCCCGAAGGCTTT-GTGCTAAG-TGACTAA
1 ATCCGGACTAAGTCCCGAAGGCTTTCGAGC-AAGCT-ACTAA
154512 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAG-TCCCGAAGGCTTTCGAGCAAGCTACTAA
** * *
154552 ATCCGGGTTGAGTCCCGAAGGCATTCG
1 ATCCGGACTAAGTCCCGAAGGCTTTCG
154579 TGCGAGTTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 51 0.89
41 5 0.09
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATCCGGACTAAGTCCCGAAGGCTTTCGAGCAAGCTACTAA
Found at i:158420 original size:24 final size:24
Alignment explanation
Indices: 158371--158420 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
158361 CATGTATCCG
* * *
158371 TTGCCAGAATAGGGTTACTGAGCA
1 TTGCCAAAATAGGGTTACGGAACA
158395 TTGCCAAAATAGGGTTACGGAACA
1 TTGCCAAAATAGGGTTACGGAACA
158419 TT
1 TT
158421 ACCGGACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (24 bp):
TTGCCAAAATAGGGTTACGGAACA
Found at i:167200 original size:25 final size:25
Alignment explanation
Indices: 167170--167218 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
167160 GACCCACAAC
167170 TCGTGTGAGCATCCTGATTTACAGG
1 TCGTGTGAGCATCCTGATTTACAGG
**
167195 TCGTGTGAGCATTTTGATTTACAG
1 TCGTGTGAGCATCCTGATTTACAG
167219 CTCATGTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.37
Consensus pattern (25 bp):
TCGTGTGAGCATCCTGATTTACAGG
Found at i:167230 original size:25 final size:25
Alignment explanation
Indices: 167184--167231 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
167174 GTGAGCATCC
* * *
167184 TGATTTACAGGTCGTGTGAGCATTT
1 TGATTTACAGCTCATGTAAGCATTT
167209 TGATTTACAGCTCATGTAAGCAT
1 TGATTTACAGCTCATGTAAGCAT
167232 AAATGTACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (25 bp):
TGATTTACAGCTCATGTAAGCATTT
Found at i:167830 original size:25 final size:25
Alignment explanation
Indices: 167802--167852 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
167792 GAAATAGTAA
167802 GTTCATACTTGAAGTGTAAAATGAT
1 GTTCATACTTGAAGTGTAAAATGAT
167827 GTTCATACTTGAAGTGTAAAATGAT
1 GTTCATACTTGAAGTGTAAAATGAT
167852 G
1 G
167853 AAAAAGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (25 bp):
GTTCATACTTGAAGTGTAAAATGAT
Found at i:181382 original size:29 final size:30
Alignment explanation
Indices: 181331--181387 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
181321 TACGGGCTGC
181331 CACATGGGCGTGTGGCCAACCCGTGTGGCT
1 CACATGGGCGTGTGGCCAACCCGTGTGGCT
*
181361 CACA-GGGCGTGT-GCTCAGCCCGTGTGG
1 CACATGGGCGTGTGGC-CAACCCGTGTGG
181388 GAATGGTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 19 0.76
30 4 0.16
ACGTcount: A:0.12, C:0.30, G:0.39, T:0.19
Consensus pattern (30 bp):
CACATGGGCGTGTGGCCAACCCGTGTGGCT
Found at i:183679 original size:31 final size:31
Alignment explanation
Indices: 183644--183707 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
183634 TTTTTTTAAA
*
183644 TTTGAAAGGT-TTATTAAAAATTTTT-CAAGAT
1 TTTGAAAGGTCTAATT-AAAATTTTTACAA-AT
183675 TTTGAAAGGTCTAATTAAAATTTTTACAAAT
1 TTTGAAAGGTCTAATTAAAATTTTTACAAAT
183706 TT
1 TT
183708 AAAGAGCCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (31 bp):
TTTGAAAGGTCTAATTAAAATTTTTACAAAT
Found at i:184219 original size:17 final size:17
Alignment explanation
Indices: 184197--184251 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
184187 AATATTTTAT
*
184197 TATTATATTGTGAAATA
1 TATTATATTGTAAAATA
* **
184214 TATTATATAGTTTAATA
1 TATTATATTGTAAAATA
* *
184231 TATTATTTTGTAAAAAA
1 TATTATATTGTAAAATA
184248 TATT
1 TATT
184252 TTTAATAGCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (17 bp):
TATTATATTGTAAAATA
Found at i:184307 original size:20 final size:19
Alignment explanation
Indices: 184274--184315 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
184264 TTAGAATTAT
184274 TAAAAAAATTTATTTCATA
1 TAAAAAAATTTATTTCATA
* *
184293 TAAAAATATTATATTTTATA
1 TAAAAAAATT-TATTTCATA
184313 TAA
1 TAA
184316 TTTATATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAAAATTTATTTCATA
Found at i:184370 original size:34 final size:33
Alignment explanation
Indices: 184303--184373 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 33
184293 TAAAAATATT
*
184303 ATATTTTATATAATTTATATCATAATTATAAAA
1 ATATTTTATATAAATTATATCATAATTATAAAA
*
184336 ATATTTTA-ATAAATTATATTATAATATTATAAAA
1 ATATTTTATATAAATTATATCAT-A-ATTATAAAA
184370 ATAT
1 ATAT
184374 AATAGGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 12 0.35
33 9 0.26
34 13 0.38
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (33 bp):
ATATTTTATATAAATTATATCATAATTATAAAA
Found at i:192371 original size:25 final size:25
Alignment explanation
Indices: 192338--192385 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
192328 TTGTAAATCA
192338 GAAAAATATCTTTAGA-AATTTTTT
1 GAAAAATATCTTTAGAGAATTTTTT
192362 GAAATAATATCTTTAGAGAATTTT
1 GAAA-AATATCTTTAGAGAATTTT
192386 CTCTCTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.18
25 12 0.55
26 6 0.27
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (25 bp):
GAAAAATATCTTTAGAGAATTTTTT
Found at i:195903 original size:28 final size:28
Alignment explanation
Indices: 195834--195934 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
195824 GACAAGATTG
* * * *
195834 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
195864 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
195892 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
195921 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
195935 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:202439 original size:14 final size:14
Alignment explanation
Indices: 202420--202448 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
202410 TACAATATAT
202420 ATAAGAATTATACG
1 ATAAGAATTATACG
202434 ATAAGAATTATACG
1 ATAAGAATTATACG
202448 A
1 A
202449 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:216286 original size:16 final size:18
Alignment explanation
Indices: 216251--216287 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
216241 TTGGCTGGTT
216251 AGATGAAAGAAATGAAACA
1 AGATGAAAGAAA-GAAACA
216270 AGATGAAA-AAA-AAACA
1 AGATGAAAGAAAGAAACA
216286 AG
1 AG
216288 TTTCTCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.68, C:0.05, G:0.19, T:0.08
Consensus pattern (18 bp):
AGATGAAAGAAAGAAACA
Found at i:219222 original size:34 final size:34
Alignment explanation
Indices: 219180--219249 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
219170 TTAGGTGATC
219180 TTACATTTAATAAAACAAACAACAAAATTTTACA
1 TTACATTTAATAAAACAAACAACAAAATTTTACA
219214 TTACATTTAATAAAACAAACAACAAAATTTTACA
1 TTACATTTAATAAAACAAACAACAAAATTTTACA
219248 TT
1 TT
219250 TCAACAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.31
Consensus pattern (34 bp):
TTACATTTAATAAAACAAACAACAAAATTTTACA
Found at i:231074 original size:10 final size:10
Alignment explanation
Indices: 231061--231116 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
231051 GATTAAAATA
*
231061 TATACACATT
1 TATATACATT
231071 TATATACATT
1 TATATACATT
*
231081 TACATACATT
1 TATATACATT
*
231091 CATATACATT
1 TATATACATT
* *
231101 TACATGCATT
1 TATATACATT
231111 TATATA
1 TATATA
231117 AAATGGCATA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (10 bp):
TATATACATT
Found at i:231095 original size:20 final size:20
Alignment explanation
Indices: 231066--231116 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
231056 AAATATATAC
231066 ACATTTATATACATTTACAT
1 ACATTTATATACATTTACAT
*
231086 ACATTCATATACATTTACAT
1 ACATTTATATACATTTACAT
*
231106 GCATTTATATA
1 ACATTTATATA
231117 AAATGGCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (20 bp):
ACATTTATATACATTTACAT
Found at i:234345 original size:7 final size:7
Alignment explanation
Indices: 234333--234371 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
234323 AGATTTGTGA
234333 AAAAAAT
1 AAAAAAT
234340 AAAAAAT
1 AAAAAAT
234347 AAAAAAT
1 AAAAAAT
234354 AAAATAA-
1 AAAA-AAT
234361 AATAAAAT
1 AA-AAAAT
234369 AAA
1 AAA
234372 GAACACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAAAT
Found at i:234350 original size:5 final size:5
Alignment explanation
Indices: 234335--234371 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
234325 ATTTGTGAAA
234335 AAAAT AAAA- AATAA- AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAA
234372 GAACACACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:239011 original size:9 final size:9
Alignment explanation
Indices: 238997--239021 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
238987 ATTTTTAAAA
238997 ATTAAAATT
1 ATTAAAATT
239006 ATTAAAATT
1 ATTAAAATT
239015 ATTAAAA
1 ATTAAAA
239022 AAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATTAAAATT
Found at i:245778 original size:63 final size:63
Alignment explanation
Indices: 245674--245794 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 63
245664 GCTGGGTTTA
* * *
245674 TAACTTTGCCTTGCGAGCTAAATCCGTGGGCTGATCTTGCGACCTTAAC-CTGTAGGCTTCCCG
1 TAACTTTGCCTTGCGAGCTAAATCCGTGAGCTAATCCTGCGACCTT-ACTCTGTAGGCTTCCCG
** **
245737 TAACTTTGCCTTGCGAGCTGGATTTGTGAGCTAATCCTGCGACCTTACTCTGTAGGCT
1 TAACTTTGCCTTGCGAGCTAAATCCGTGAGCTAATCCTGCGACCTTACTCTGTAGGCT
245795 CGCTCAAGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 2 0.04
63 48 0.96
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.32
Consensus pattern (63 bp):
TAACTTTGCCTTGCGAGCTAAATCCGTGAGCTAATCCTGCGACCTTACTCTGTAGGCTTCCCG
Found at i:248936 original size:69 final size:69
Alignment explanation
Indices: 248785--249236 Score: 354
Period size: 69 Copynumber: 6.5 Consensus size: 69
248775 AACTGAGAGT
* * ** * * * *
248785 TTTGCTCTTGTTAACTGTTTTGGATGTTGGTGCTTTTCGTCTGCAAACCTTAATATGT-TAGCT-
1 TTTGCTCTTGCTAACTGTTTTGGAGGTTGCAGTTTTTCGCCTGCGAACCTTAATAT-TATAGTTA
248848 GGAAGC
65 GG-AGC
* * * * * * * *
248854 TTTACTCTAGCTAACTATTTTGGAGGTTGTAGTTTTTCACCTACGAACCTTAATATTACAATTAG
1 TTTGCTCTTGCTAACTGTTTTGGAGGTTGCAGTTTTTCGCCTGCGAACCTTAATATTATAGTTAG
*
248919 GAGT
66 GAGC
* * ** * * * *
248923 TTTGCTCTTGCTAATTGTTTTAGAGGTTGCAACTTTTCACCTGCGGACCTTAATATTATAGCTAA
1 TTTGCTCTTGCTAACTGTTTTGGAGGTTGCAGTTTTTCGCCTGCGAACCTTAATATTATAGTTAG
248988 GAGC
66 GAGC
* * * * * * *
248992 TTTGCTCTTACTAACTGTTTTGGAGGTTGCGGCTATTT-GTCTACGAATCTTAACATTATAGTTA
1 TTTGCTCTTGCTAACTGTTTTGGAGGTTGCAG-TTTTTCGCCTGCGAACCTTAATATTATAGTTA
*
249056 TGAGC
65 GGAGC
* * * ** * * * *
249061 TTTGCTCTCGTTAATTGTTTTGGAGGTTGTGGTTTTTCGCTTGCAAACCTTAATATGACAGTT-G
1 TTTGCTCTTGCTAACTGTTTTGGAGGTTGCAGTTTTTCGCCTGCGAACCTTAATATTATAGTTAG
*
249125 AGAGG
66 -GAGC
* * * * * * *
249130 TTTGCTCTCGCTAACTGTTTTAGAGGTTACAATTCTTCGCCTGCGAACCTTAATATGATAGCTAG
1 TTTGCTCTTGCTAACTGTTTTGGAGGTTGCAGTTTTTCGCCTGCGAACCTTAATATTATAGTTAG
249195 GAGC
66 GAGC
* * *
249199 TTTGCTTTTGCTCACTATTTTGGAGGTTGCAGCTTTTT
1 TTTGCTCTTGCTAACTGTTTTGGAGGTTGCAG-TTTTT
249237 TTCTATAAAC
Statistics
Matches: 293, Mismatches: 83, Indels: 13
0.75 0.21 0.03
Matches are distributed among these distances:
68 5 0.02
69 278 0.95
70 10 0.03
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (69 bp):
TTTGCTCTTGCTAACTGTTTTGGAGGTTGCAGTTTTTCGCCTGCGAACCTTAATATTATAGTTAG
GAGC
Found at i:249182 original size:138 final size:137
Alignment explanation
Indices: 248785--249227 Score: 397
Period size: 138 Copynumber: 3.2 Consensus size: 137
248775 AACTGAGAGT
* * *
248785 TTTGCTCTTGTTAACTGTTTTGGATGTTGGTGCTTTTCG-TCTGCAAACCTTAATATGTTAGCTG
1 TTTGCTCTTGTTAATTGTTTTGGAGGTTGG-GCTTTTCGCT-TGCAAACCTTAATATGATAGCTG
* * * * * *
248849 -GAAGCTTTACTCTAGCTAACTATTTTGGAGGTTGTAGTTTTTCACCTACGAACCTTAATATTAC
64 AG-AGCTTTGCTCTAGCTAACTGTTTTGGAGGTTGCAGTTATTCGCCTACGAACCTTAATATTAT
* *
248913 AATTAGGAGT
128 AGTTAGGAGC
* * ** * * ** * *
248923 TTTGCTCTTGCTAATTGTTTTAGAGGTTGCAACTTTTCACCTGCGGACCTTAATATTATAGCTAA
1 TTTGCTCTTGTTAATTGTTTTGGAGGTTG-GGCTTTTCGCTTGCAAACCTTAATATGATAGCTGA
* * * * * *
248988 GAGCTTTGCTCTTA-CTAACTGTTTTGGAGGTTGCGGCTATTTGTCTACGAATCTTAACATTATA
65 GAGCTTTGCTC-TAGCTAACTGTTTTGGAGGTTGCAGTTATTCGCCTACGAACCTTAATATTATA
*
249052 GTTATGAGC
129 GTTAGGAGC
* * * *
249061 TTTGCTCTCGTTAATTGTTTTGGAGGTTGTGGTTTTTCGCTTGCAAACCTTAATATGACAGTTGA
1 TTTGCTCTTGTTAATTGTTTTGGAGGTTG-GGCTTTTCGCTTGCAAACCTTAATATGATAGCTGA
* * * * * * * *
249126 GAGGTTTGCTCTCGCTAACTGTTTTAGAGGTTACAATTCTTCGCCTGCGAACCTTAATATGATAG
65 GAGCTTTGCTCTAGCTAACTGTTTTGGAGGTTGCAGTTATTCGCCTACGAACCTTAATATTATAG
*
249191 CTAGGAGC
130 TTAGGAGC
* * * * *
249199 TTTGCTTTTGCTCACTATTTTGGAGGTTG
1 TTTGCTCTTGTTAATTGTTTTGGAGGTTG
249228 CAGCTTTTTT
Statistics
Matches: 235, Mismatches: 65, Indels: 10
0.76 0.21 0.03
Matches are distributed among these distances:
137 1 0.00
138 231 0.98
139 3 0.01
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.41
Consensus pattern (137 bp):
TTTGCTCTTGTTAATTGTTTTGGAGGTTGGGCTTTTCGCTTGCAAACCTTAATATGATAGCTGAG
AGCTTTGCTCTAGCTAACTGTTTTGGAGGTTGCAGTTATTCGCCTACGAACCTTAATATTATAGT
TAGGAGC
Found at i:258057 original size:29 final size:29
Alignment explanation
Indices: 258025--258102 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
258015 ATACCCTCCG
** *
258025 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
258054 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
258083 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
258103 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:265566 original size:28 final size:28
Alignment explanation
Indices: 265534--265587 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
265524 GTCTGATTCT
*
265534 CTTGAGAATAGACTCATTAAGGACTTCC
1 CTTGAAAATAGACTCATTAAGGACTTCC
265562 CTTGAAAATAGACTCATTAAGGACTT
1 CTTGAAAATAGACTCATTAAGGACTT
265588 ACTCATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (28 bp):
CTTGAAAATAGACTCATTAAGGACTTCC
Found at i:280520 original size:19 final size:19
Alignment explanation
Indices: 280496--280541 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
280486 ATGTTTGAGC
* *
280496 ACTCAATTTAGTAAAAATG
1 ACTCAATTTAGCAAAAAGG
280515 ACTCAATTTAGCAAAAAGG
1 ACTCAATTTAGCAAAAAGG
*
280534 ACTAAATT
1 ACTCAATT
280542 GAAATAGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (19 bp):
ACTCAATTTAGCAAAAAGG
Found at i:283337 original size:24 final size:24
Alignment explanation
Indices: 283310--283372 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
283300 AGAATCATTT
*
283310 AGAATACACCATAAGACATCGTAC
1 AGAATACACCATAAGACATCATAC
* *
283334 AGAA-ATCACCATAAGGCATCATAT
1 AGAATA-CACCATAAGACATCATAC
* *
283358 AGAGTACGCCATAAG
1 AGAATACACCATAAG
283373 GCTTCATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 30 0.94
25 1 0.03
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.17
Consensus pattern (24 bp):
AGAATACACCATAAGACATCATAC
Found at i:286010 original size:16 final size:17
Alignment explanation
Indices: 285989--286032 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
285979 ATATTATATG
285989 TTATATGATTATTT-TA
1 TTATATGATTATTTATA
*
286005 TTATATG-TTATTTATT
1 TTATATGATTATTTATA
286021 TTATAT-ATTATT
1 TTATATGATTATT
286033 ATTACATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 6 0.24
16 19 0.76
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
TTATATGATTATTTATA
Found at i:286029 original size:23 final size:22
Alignment explanation
Indices: 285944--286031 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 22
285934 GCCGTATGTT
*
285944 TTATTTATTTTTATAAT-TAT-
1 TTATTTATTTTTATATTATATG
285964 TTATTTTACTTTCTTATATTATATG
1 TTA-TTTA-TTT-TTATATTATATG
*
285989 TTATATGATTATTT-TATTATATG
1 TTAT-TTATT-TTTATATTATATG
286012 TTATTTATTTTATATATTAT
1 TTATTTATTTT-TATATTAT
286032 TATTACATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
20 3 0.05
21 6 0.11
22 8 0.14
23 25 0.45
24 8 0.14
25 6 0.11
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.66
Consensus pattern (22 bp):
TTATTTATTTTTATATTATATG
Found at i:286031 original size:7 final size:7
Alignment explanation
Indices: 285978--286056 Score: 61
Period size: 7 Copynumber: 10.9 Consensus size: 7
285968 TTTACTTTCT
285978 TATATTA
1 TATATTA
*
285985 TATGTTA
1 TATATTA
285992 TATGATTA
1 TAT-ATTA
*
286000 TTTTATTA
1 -TATATTA
*
286008 TATGTTA
1 TATATTA
*
286015 TTTATTTTA
1 --TATATTA
286024 TATATTA
1 TATATTA
286031 T-TATTA
1 TATATTA
*
286037 CATATTA
1 TATATTA
286044 TATATTA
1 TATATTA
*
286051 CATATT
1 TATATT
286057 TTTATATATT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 5 0.09
7 37 0.65
8 7 0.12
9 8 0.14
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:286051 original size:14 final size:13
Alignment explanation
Indices: 286016--286061 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
286006 TATATGTTAT
*
286016 TTATT-TTATATA
1 TTATTATTACATA
286028 TTATTATTACATA
1 TTATTATTACATA
286041 TTATATATTACATA
1 TTAT-TATTACATA
*
286055 TTTTTAT
1 TTATTAT
286062 ATATTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 5 0.17
13 13 0.43
14 12 0.40
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTATTACATA
Found at i:287638 original size:47 final size:47
Alignment explanation
Indices: 287529--287631 Score: 145
Period size: 47 Copynumber: 2.2 Consensus size: 47
287519 CCGGGATAAG
* *
287529 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
287576 CACAAAGTACTTCATCAGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTA-TAGTA
287623 CACATAGTG
1 CACATAGTG
287632 TCTCATCGAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 46 0.96
48 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (47 bp):
CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:301068 original size:87 final size:89
Alignment explanation
Indices: 300886--301069 Score: 227
Period size: 87 Copynumber: 2.1 Consensus size: 89
300876 CGGAGAGCAG
* * *
300886 ATCGAAGACATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCATGATGATTTGG
1 ATCGAAGACATAGCAGATCTGACCTTAGGATGTTTACACATCGAAGCAGATCCAAGATGATTTGG
* *
300951 CATTCTTGTGTTTACAAGGAGCAA
66 CATTCTTGTATTTACAAGGAACAA
* *
300975 ATCGAAGACATAGTAGATCTGACCTTCAGG-TGTTTACAC-T-GAAGTAGATCCAAGATGATTTG
1 ATCGAAGACATAGCAGATCTGACCTT-AGGATGTTTACACATCGAAGCAGATCCAAGATGATTTG
301037 GCA-TCTCTGTA-TTATC-AGAGAACAA
65 GCATTCT-TGTATTTA-CAAG-GAACAA
301062 ATCGAAGA
1 ATCGAAGA
301070 AACAGATTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
86 8 0.10
87 40 0.48
88 1 0.01
89 33 0.39
90 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (89 bp):
ATCGAAGACATAGCAGATCTGACCTTAGGATGTTTACACATCGAAGCAGATCCAAGATGATTTGG
CATTCTTGTATTTACAAGGAACAA
Found at i:301151 original size:220 final size:219
Alignment explanation
Indices: 300764--301543 Score: 1169
Period size: 220 Copynumber: 3.6 Consensus size: 219
300754 AGGTTAAAGT
* * ** *
300764 ATAGCAGATCTGGCCTTCAGGTGTTCACGTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAA
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * *
300829 TGTCAGAGAACAAATCGAAGAAGCAGATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCG-AGA
* *
300894 CATAGCAGATCTGACCTTTGGATGTTTTCACATCGAAGCAGATCCATGATGATTTGGCATTCTTG
130 CATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
300959 TGTTTACAAGGAGCAAATCGAAGAC
195 TGTTTACAAGGAGCAAATCGAAGAC
* *
300984 ATAGTAGATCTGACCTTCAGGTGTTTACACTGAAGTAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * *
301049 TATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTCGACGGAGAGCAGATCGTAGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCG-AGA
301114 CATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
130 CATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
301179 TGTTTACAAGGAGCAAATCGAAGAC
195 TGTTTACAAGGAGCAAATCGAAGAC
*
301204 ATAGCAGATCTGACCTTCAGCTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* *
301269 TGTCAGAGAACCAATTGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGA-C---AC
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAGAC
* * *
301330 ATAGCAGATCTAACCTTCAGATGTTTAT-AC-T-GAAGCAGATCCAAGATGATTTGGCATCCTTG
131 ATAGCAGATCTGACCTTTAGATGTTT-TCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTG
301392 TGTTTACAAGGAGCAAATCGAAGAC
195 TGTTTACAAGGAGCAAATCGAAGAC
* * * * * * *
301417 ATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTAT
1 ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
* * * * ** *
301482 TGTCAGGGAACAAATTGAAGAAGCAGATTTGGCGTCTCTGTGTTCGACAGAGAGCAGATCGA
66 TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGA
301544 AGATATCAAC
Statistics
Matches: 516, Mismatches: 40, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
213 163 0.32
214 2 0.00
215 28 0.05
216 1 0.00
219 1 0.00
220 321 0.62
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (219 bp):
ATAGCAGATCTGACCTTCAGGTGTTTACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
TGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAGAC
ATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAGCAAATCGAAGAC
Found at i:301229 original size:89 final size:87
Alignment explanation
Indices: 301100--301260 Score: 259
Period size: 89 Copynumber: 1.8 Consensus size: 87
301090 ATTCGACGGA
* * * *
301100 GAGCAGATCGTAGACATAGCAGATCTGACCTTTAGATGTTTTCACATCGAAGCAGATCCAAGATG
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTACAC-T-GAAGCAGATCCAAGATG
301165 ATTTGGCATTCTTGTGTTTACAAG
64 ATTTGGCATTCTTGTGTTTACAAG
*
301189 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGCTGTTTACACTGAAGCAGATCCAAGATGAT
1 GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
301254 TTGGCAT
66 TTGGCAT
301261 CTCTGTATTG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
87 26 0.39
88 1 0.01
89 40 0.60
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (87 bp):
GAGCAAATCGAAGACATAGCAGATCTGACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATTCTTGTGTTTACAAG
Found at i:301852 original size:17 final size:17
Alignment explanation
Indices: 301830--301862 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
301820 AATAATTTTC
301830 AAACCCAAACTTAAACT
1 AAACCCAAACTTAAACT
*
301847 AAACCCACACTTAAAC
1 AAACCCAAACTTAAAC
301863 CCGTTATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (17 bp):
AAACCCAAACTTAAACT
Found at i:303300 original size:16 final size:17
Alignment explanation
Indices: 303234--303322 Score: 60
Period size: 16 Copynumber: 5.3 Consensus size: 17
303224 GCCCTATGTT
* *
303234 TTATTTAT-TTTTATAA
1 TTATTTATATTATATGA
* * **
303250 TTATTTATTTTATTTTC
1 TTATTTATATTATATGA
303267 TTATATTATATGTTATATGA
1 TTAT-TTATA--TTATATGA
303287 TTATTT-TATTATATG-
1 TTATTTATATTATATGA
*
303302 TTATTTATTTTATAT-A
1 TTATTTATATTATATGA
303318 TTATT
1 TTATT
303323 ACATATTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
15 6 0.10
16 27 0.47
17 8 0.14
18 6 0.10
19 2 0.03
20 9 0.16
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATTTATATTATATGA
Found at i:303319 original size:23 final size:22
Alignment explanation
Indices: 303234--303321 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 22
303224 GCCCTATGTT
*
303234 TTATTTATTTTTATAAT-TAT-
1 TTATTTATTTTTATATTATATG
303254 TTATTTTATTTTCTTATATTATATG
1 TTA-TTTA-TTT-TTATATTATATG
*
303279 TTATATGATTATTT-TATTATATG
1 TTAT-TTATT-TTTATATTATATG
303302 TTATTTATTTTATATATTAT
1 TTATTTATTTT-TATATTAT
303322 TACATATTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
20 3 0.05
21 6 0.11
22 8 0.14
23 25 0.45
24 8 0.14
25 6 0.11
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (22 bp):
TTATTTATTTTTATATTATATG
Found at i:303338 original size:14 final size:14
Alignment explanation
Indices: 303286--303348 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
303276 ATGTTATATG
*
303286 ATTATTTTATTATAT
1 ATTA-TTTATTACAT
* **
303301 GTTATTTATTTTAT
1 ATTATTTATTACAT
303315 A-TA-TTATTACAT
1 ATTATTTATTACAT
303327 ATTATTTATTACAT
1 ATTATTTATTACAT
303341 ATT-TTTAT
1 ATTATTTAT
303349 ATATTTTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
12 8 0.20
13 9 0.22
14 21 0.51
15 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (14 bp):
ATTATTTATTACAT
Found at i:303342 original size:26 final size:26
Alignment explanation
Indices: 303292--303342 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
303282 TATGATTATT
* * **
303292 TTATTATATGTTATTTATTTTATATA
1 TTATTACATATTATTTATTACATATA
303318 TTATTACATATTATTTATTACATAT
1 TTATTACATATTATTTATTACATAT
303343 TTTTATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATTACATATTATTTATTACATATA
Found at i:303428 original size:2 final size:2
Alignment explanation
Indices: 303421--303457 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
303411 TTTAAAGATT
303421 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
303458 TTGTGCATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:307736 original size:46 final size:46
Alignment explanation
Indices: 307683--307861 Score: 202
Period size: 46 Copynumber: 3.9 Consensus size: 46
307673 GGATATTTGG
307683 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
307729 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
* *
307775 GGCATCCGAGCTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* ** * *
307822 ACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
307862 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 68 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:307841 original size:93 final size:93
Alignment explanation
Indices: 307682--307854 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
307672 GGGATATTTG
* * * *
307682 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
307747 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
307775 GGCATCCGAGCTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
307840 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
307855 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:313845 original size:26 final size:24
Alignment explanation
Indices: 313814--313863 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
313804 AAATAAAAAA
*
313814 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
313840 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
313864 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:313883 original size:21 final size:21
Alignment explanation
Indices: 313834--313892 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
313824 ATAATAAATC
*
313834 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
313854 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
313876 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
313893 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:314162 original size:42 final size:44
Alignment explanation
Indices: 314110--314229 Score: 124
Period size: 43 Copynumber: 2.8 Consensus size: 44
314100 TTGACTTTTC
* *
314110 ATTTATGTGTAAGACCATGTTTGGTACA-TCGGCATCG-TATTTG
1 ATTTATGTGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTG
*
314153 ATTT-TGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTG
1 ATTTATGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTG
** * *
314196 A-TTACATGTAAGACTACGTCTGGGAC-GTTGGCAT
1 ATTTATGTGTAAGACCATGTCTGGGACAG-TGGCAT
314230 TGTATGAGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (44 bp):
ATTTATGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTG
Found at i:317198 original size:14 final size:13
Alignment explanation
Indices: 317165--317198 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
317155 TCATGTGAAA
317165 AAAATATTATTTT
1 AAAATATTATTTT
*
317178 TAAATATTATTTAT
1 AAAATATTATTT-T
317192 AAAATAT
1 AAAATAT
317199 GTAAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAAATATTATTTT
Found at i:318764 original size:27 final size:27
Alignment explanation
Indices: 318734--318792 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
318724 ATTCTAATTC
318734 TAAA-ATATACAAAGAAATATATAAAAA
1 TAAATATATACAAA-AAATATATAAAAA
* * * *
318761 TAAATATTTTCAAAATATATATAATAA
1 TAAATATATACAAAAAATATATAAAAA
318788 TAAAT
1 TAAAT
318793 TTAAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (27 bp):
TAAATATATACAAAAAATATATAAAAA
Found at i:319180 original size:52 final size:53
Alignment explanation
Indices: 319084--319193 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 53
319074 CATTGAGACA
* *
319084 AATTTGATGAGATTTTATTTCTTTATTTCTTTAGGATGGGGTCAATCTTTGATTAT
1 AATTTGATGAGATTTTA--T-TTTATTTCTTTAGGATGGAGTCAATCGTTGATTAT
*
319140 AATTTGATGAGATTTTA-TTTATTTCTTTAGGATTGAGTCAATCGTTGATTAT
1 AATTTGATGAGATTTTATTTTATTTCTTTAGGATGGAGTCAATCGTTGATTAT
319192 AA
1 AA
319194 GGATTCTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
52 34 0.67
56 17 0.33
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.50
Consensus pattern (53 bp):
AATTTGATGAGATTTTATTTTATTTCTTTAGGATGGAGTCAATCGTTGATTAT
Found at i:322088 original size:21 final size:21
Alignment explanation
Indices: 322038--322092 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
322028 CTCTTCCCCT
*
322038 TTTTCTT-TGTTTCTTTATTTC
1 TTTTCTTAT-TTTCTTTATTTA
322059 TTTTCTTATTTTCTTT-TTTA
1 TTTTCTTATTTTCTTTATTTA
*
322079 TTATTTTTATTTTC
1 TT-TTCTTATTTTC
322093 GAAAACGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 24 0.80
22 1 0.03
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTCTTATTTTCTTTATTTA
Found at i:326110 original size:20 final size:19
Alignment explanation
Indices: 326050--326113 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
326040 TATTTTATTT
*
326050 AATA-TTAAATTAATCATA
1 AATATTTAAATTAATTATA
**
326068 TTTATTTAATATTAA-TATA
1 AATATTTAA-ATTAATTATA
326087 AATATTTAAATTAATTATTA
1 AATATTTAAATTAATTA-TA
326107 AATATTT
1 AATATTT
326114 TTAATATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 7 0.19
19 16 0.43
20 14 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATTTAAATTAATTATA
Found at i:326124 original size:20 final size:19
Alignment explanation
Indices: 326072--326125 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
326062 ATCATATTTA
*
326072 TTTAATATTAATATAAATAT
1 TTTAATATTTAT-TAAATAT
* *
326092 TTAAATTAATTATTAAATATT
1 TTTAA-TATTTATTAAATA-T
326113 TTTAATATTTATT
1 TTTAATATTTATT
326126 TTTACATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATATTTATTAAATAT
Found at i:326139 original size:23 final size:22
Alignment explanation
Indices: 326088--326144 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
326078 ATTAATATAA
*
326088 ATATTTAAATTAATTATTAAAT
1 ATATTTAAATTTATTATTAAAT
* * *
326110 ATTTTTAATATTTATTTTTACAT
1 ATATTTAA-ATTTATTATTAAAT
326133 ATATTTAAATTT
1 ATATTTAAATTT
326145 TACATATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTAAATTTATTATTAAAT
Found at i:332164 original size:2 final size:2
Alignment explanation
Indices: 332157--332242 Score: 163
Period size: 2 Copynumber: 43.0 Consensus size: 2
332147 CCATTGTCAG
*
332157 GT GT GT GT GT GT GT AT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
332199 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
332241 GT
1 GT
332243 TCTTTCATGA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.01, C:0.00, G:0.49, T:0.50
Consensus pattern (2 bp):
GT
Found at i:332325 original size:30 final size:30
Alignment explanation
Indices: 332291--332348 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
332281 GGGCCACACT
*
332291 GGTGTTTGGGCCACCCGTATGGACCACATG
1 GGTGTTTGGGCCACCCGTATAGACCACATG
332321 GGTGTTTGGGCCACCCGTATAGACCACA
1 GGTGTTTGGGCCACCCGTATAGACCACA
332349 CGGCCCCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (30 bp):
GGTGTTTGGGCCACCCGTATAGACCACATG
Found at i:332706 original size:2 final size:2
Alignment explanation
Indices: 332699--332728 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
332689 TTATGATACT
332699 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
332729 AAGTTGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:334099 original size:20 final size:20
Alignment explanation
Indices: 334076--334167 Score: 53
Period size: 20 Copynumber: 4.2 Consensus size: 20
334066 TGATACAAAT
334076 ATTTTAATTATGATTTGAAA
1 ATTTTAATTATGATTTGAAA
**
334096 ATTTTTAATGT-T-ATTAAAAA
1 A-TTTTAAT-TATGATTTGAAA
*
334116 ATTATTAATTTATAATATTGTATAA
1 ATT-TTAA-TTATGAT-TTG-A-AA
*
334141 ATTCTTTAATTATGATTTCAAA
1 A-T-TTTAATTATGATTTGAAA
334163 ATTTT
1 ATTTT
334168 TCATTATATA
Statistics
Matches: 55, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.04
20 16 0.29
21 11 0.20
22 6 0.11
23 2 0.04
24 3 0.05
25 9 0.16
26 5 0.09
27 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
ATTTTAATTATGATTTGAAA
Found at i:334103 original size:21 final size:21
Alignment explanation
Indices: 334072--334174 Score: 75
Period size: 21 Copynumber: 4.7 Consensus size: 21
334062 AATATGATAC
334072 AAATATTTTAATTATGATTTGA
1 AAAT-TTTTAATTATGATTTGA
**
334094 AAATTTTTAATGT-T-ATTAAA
1 AAATTTTTAAT-TATGATTTGA
* *
334114 AAATTATTAATTTATAATATTGTA
1 AAATTTTTAA-TTATGAT-TTG-A
*
334138 TAAATTCTTTAATTATGATTTCA
1 -AAATT-TTTAATTATGATTTGA
*
334161 AAATTTTTCATTAT
1 AAATTTTTAATTAT
334175 ATATCAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
20 14 0.22
21 18 0.28
22 12 0.19
23 2 0.03
24 3 0.05
25 11 0.17
26 4 0.06
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (21 bp):
AAATTTTTAATTATGATTTGA
Found at i:339036 original size:56 final size:56
Alignment explanation
Indices: 338925--339038 Score: 140
Period size: 56 Copynumber: 2.0 Consensus size: 56
338915 TACATTAGGG
* * * * * *
338925 TCGATATGTGATTTCGATATGTGTGTGCAAGTAAGACCTTGTTTAATACGTTGGCA
1 TCGATATGTGACTCCGATATATGTGTGCAAGTAAGACCCTGTCTAAGACGTTGGCA
* *
338981 TCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCCTGTCTGAGACAG-TGGCA
1 TCGATATGTGACTCCGATATATGTGTGCAAGTAAGACCCTGTCTAAGAC-GTTGGCA
339037 TC
1 TC
339039 ATTATCTAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
56 48 0.98
57 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (56 bp):
TCGATATGTGACTCCGATATATGTGTGCAAGTAAGACCCTGTCTAAGACGTTGGCA
Found at i:341889 original size:22 final size:22
Alignment explanation
Indices: 341864--341909 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
341854 GAAGGCAAAA
341864 CTTAATTATAAATCATTTGAGG
1 CTTAATTATAAATCATTTGAGG
341886 CTTAATTATAAATCATTTGAGG
1 CTTAATTATAAATCATTTGAGG
341908 CT
1 CT
341910 CAACTACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (22 bp):
CTTAATTATAAATCATTTGAGG
Found at i:344672 original size:43 final size:43
Alignment explanation
Indices: 344610--344696 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
344600 CAGTTTAATA
* *
344610 ATTTGCAAACACTAATGGTTTATCCATATCTTACTGGCAGTTT
1 ATTTGCAAACACTAATGGTTTATCCACAACTTACTGGCAGTTT
* *
344653 ATTTGCAAACATTAGTGGTTTATCCACAACTTACTGGCAGTTT
1 ATTTGCAAACACTAATGGTTTATCCACAACTTACTGGCAGTTT
344696 A
1 A
344697 ACTGCAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (43 bp):
ATTTGCAAACACTAATGGTTTATCCACAACTTACTGGCAGTTT
Found at i:347571 original size:58 final size:60
Alignment explanation
Indices: 347499--347676 Score: 179
Period size: 58 Copynumber: 3.0 Consensus size: 60
347489 AATTAAGGCT
*
347499 TGAACTT-ACCATTTTGTT-ATAATTTAGTACCTAAACTTTTTT-TA-TCTAATTTGGTACC
1 TGAACTTGA-CATTTT-TTCATAATTTAGTACCTAAACTTTTTTGTAGTCCAATTTGGTACC
* *
347557 TGAACTTGACATTTTTTCTTAATTTGGTACCTAAACTTTTTTGTAGTCCAATTTGGTACC
1 TGAACTTGACATTTTTTCATAATTTAGTACCTAAACTTTTTTGTAGTCCAATTTGGTACC
* * * * * * * * *
347617 TTAACTTGGCA-TTTTTCTTAATATGGTACCT-AAGTTTTTTTTAGGTTCAATTTGATACC
1 TGAACTTGACATTTTTTCATAATTTAGTACCTAAACTTTTTTGTA-GTCCAATTTGGTACC
347676 T
1 T
347677 CAATTTATTA
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
57 2 0.02
58 45 0.43
59 36 0.34
60 22 0.21
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (60 bp):
TGAACTTGACATTTTTTCATAATTTAGTACCTAAACTTTTTTGTAGTCCAATTTGGTACC
Found at i:347580 original size:31 final size:30
Alignment explanation
Indices: 347518--347649 Score: 102
Period size: 31 Copynumber: 4.5 Consensus size: 30
347508 CATTTTGTTA
*
347518 TAATTTAGTACCTAAACTT---TTTTTATC-
1 TAATTTGGTACCTAAACTTGCATTTTT-TCT
*
347545 TAATTTGGTACCTGAACTTGACATTTTTTCT
1 TAATTTGGTACCTAAACTTG-CATTTTTTCT
347576 TAATTTGGTACCTAAACTT---TTTTGTAGTC-
1 TAATTTGGTACCTAAACTTGCATTTT-T--TCT
* *
347605 CAATTTGGTACCTTAACTTGGCA-TTTTTCT
1 TAATTTGGTACCTAAACTT-GCATTTTTTCT
*
347635 TAATATGGTACCTAA
1 TAATTTGGTACCTAA
347650 GTTTTTTTTA
Statistics
Matches: 84, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
27 21 0.25
28 1 0.01
29 19 0.23
30 16 0.19
31 24 0.29
32 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (30 bp):
TAATTTGGTACCTAAACTTGCATTTTTTCT
Found at i:347630 original size:60 final size:58
Alignment explanation
Indices: 347518--347676 Score: 203
Period size: 59 Copynumber: 2.7 Consensus size: 58
347508 CATTTTGTTA
* *
347518 TAATTTAGTACCTAAACTTTTTTTA-TCTAATTTGGTACCTGAACTTGACATTTTTTCT
1 TAATTTGGTACCTAAACTTTTTTTAGTCCAATTTGGTACCTGAACTTGACA-TTTTTCT
* *
347576 TAATTTGGTACCTAAACTTTTTTGTAGTCCAATTTGGTACCTTAACTTGGCATTTTTCT
1 TAATTTGGTACCTAAACTTTTTT-TAGTCCAATTTGGTACCTGAACTTGACATTTTTCT
* ** * *
347635 TAATATGGTACCTAAGTTTTTTTTAGGTTCAATTTGATACCT
1 TAATTTGGTACCTAAACTTTTTTTA-GTCCAATTTGGTACCT
347677 CAATTTATTA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
58 24 0.27
59 43 0.48
60 22 0.25
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (58 bp):
TAATTTGGTACCTAAACTTTTTTTAGTCCAATTTGGTACCTGAACTTGACATTTTTCT
Found at i:358945 original size:99 final size:94
Alignment explanation
Indices: 358693--359004 Score: 294
Period size: 99 Copynumber: 3.3 Consensus size: 94
358683 TGTGTGAGCC
* * * *
358693 AGTGTAAGACATGTCTGGGACATGCATC-AGCCACATTATGAGAGCTAGTGTAAGACCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CCTCATGATGATAG-TAGTGTAAGACCATGTCTG
* ** * * **
358757 GGACATGACATCGACATTGAGA-CGAGTGCT
64 GGACATGGCATCGACACAGATATGGAAAGCT
* *
358787 AGTGTAAGACATGTCTAGGACATGCATCGA-CT-ATGAGTTG-T-GTCAGTGTAAGGCCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTCATGA--TGATAGT-AGTGTAAGACCATGTCT
358848 GGGACATGGCATCGACACAGATATGTGAAAGCT
63 GGGACATGGCATCGACACAGATATG-GAAAGCT
*
358881 AGTGTAAGACCATGTTTGGGACATGGCATCGACCTCGATGATGATAGATAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTC-ATGATGATAG-TAGTGTAAGACCATGTC
* * * *
358946 TGGGACTTAGCATCGACACGGATATGCAAGAGCT
62 TGGGACATGGCATCGACACAGATATGGAA-AGCT
* *
358980 AGTGTAAGACCATATCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
359005 TATAACATCC
Statistics
Matches: 180, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
91 1 0.01
92 38 0.21
93 1 0.01
94 43 0.24
95 13 0.07
96 7 0.04
97 4 0.02
98 4 0.02
99 68 0.38
100 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCATGATGATAGTAGTGTAAGACCATGTCTGGG
ACATGGCATCGACACAGATATGGAAAGCT
Found at i:358950 original size:49 final size:47
Alignment explanation
Indices: 358693--359004 Score: 212
Period size: 50 Copynumber: 6.5 Consensus size: 47
358683 TGTGTGAGCC
* * *
358693 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACA-TTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACACAGATATGA-AGAT
* * ** * * * *
358739 AGTGTAAGACCATGTCTAGGACATGACATCGACATTGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGATATGA-AGAT
* * *
358787 AGTGTAAGA-CATGTCTAGGACAT-GCATCGACTA-TGAGT-TG-TG-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACAGA-TATGAAGAT
* *
358830 CAGTGTAAGGCCATGTCTGGGACATGGCATCGACACAGATATGTGAAAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGATA--TG-AAGAT
* *
358881 AGTGTAAGACCATGTTTGGGACATGGCATCGAC-CTCGATGATGATAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACAC-AGAT-ATGA-AGAT
* * *
358930 AGTGTAAGACCATGTCTGGGACTTAGCATCGACACGGATATGCAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGATATG-AAGA--T
* *
358980 AGTGTAAGACCATATCTAGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
359005 TATAACATCC
Statistics
Matches: 216, Mismatches: 28, Indels: 40
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.00
44 10 0.05
45 15 0.07
46 30 0.14
47 31 0.14
48 29 0.13
49 40 0.19
50 58 0.27
51 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGATATGAAGAT
Found at i:360282 original size:49 final size:50
Alignment explanation
Indices: 360227--360468 Score: 283
Period size: 49 Copynumber: 4.9 Consensus size: 50
360217 ATCTATTGTG
* *
360227 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
360277 -GGTCACATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAA-TT
* * * * * **
360327 CGATCATGTGTTTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
360377 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
360427 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
360469 AATAGCTTTG
Statistics
Matches: 160, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
49 74 0.46
50 51 0.32
51 35 0.22
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Done.