Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 1 of 130
Found at i:12 original size:7 final size:7
Alignment explanation
Indices: 1--2732 Score: 5448
Period size: 7 Copynumber: 390.3 Consensus size: 7
1 GTTTAGG
1 GTTTAGG
8 GTTTAGG
1 GTTTAGG
15 GTTTAGG
1 GTTTAGG
22 GTTTAGG
1 GTTTAGG
29 GTTTAGG
1 GTTTAGG
36 GTTTAGG
1 GTTTAGG
43 GTTTAGG
1 GTTTAGG
50 GTTTAGG
1 GTTTAGG
57 GTTTAGG
1 GTTTAGG
64 GTTTAGG
1 GTTTAGG
71 GTTTAGG
1 GTTTAGG
78 GTTTAGG
1 GTTTAGG
85 GTTTAGG
1 GTTTAGG
92 GTTTAGG
1 GTTTAGG
99 GTTTAGG
1 GTTTAGG
106 GTTTAGG
1 GTTTAGG
113 GTTTAGG
1 GTTTAGG
120 GTTTAGG
1 GTTTAGG
127 GTTTAGG
1 GTTTAGG
134 GTTTAGG
1 GTTTAGG
141 GTTTAGG
1 GTTTAGG
148 GTTTAGG
1 GTTTAGG
155 GTTTAGG
1 GTTTAGG
162 GTTTAGG
1 GTTTAGG
169 GTTTAGG
1 GTTTAGG
176 GTTTAGG
1 GTTTAGG
183 GTTTAGG
1 GTTTAGG
190 GTTTAGG
1 GTTTAGG
197 GTTTAGG
1 GTTTAGG
204 GTTTAGG
1 GTTTAGG
211 GTTTAGG
1 GTTTAGG
218 GTTTAGG
1 GTTTAGG
225 GTTTAGG
1 GTTTAGG
232 GTTTAGG
1 GTTTAGG
239 GTTTAGG
1 GTTTAGG
246 GTTTAGG
1 GTTTAGG
253 GTTTAGG
1 GTTTAGG
260 GTTTAGG
1 GTTTAGG
267 GTTTAGG
1 GTTTAGG
274 GTTTAGG
1 GTTTAGG
281 GTTTAGG
1 GTTTAGG
288 GTTTAGG
1 GTTTAGG
295 GTTTAGG
1 GTTTAGG
302 GTTTAGG
1 GTTTAGG
309 GTTTAGG
1 GTTTAGG
316 GTTTAGG
1 GTTTAGG
323 GTTTAGG
1 GTTTAGG
330 GTTTAGG
1 GTTTAGG
337 GTTTAGG
1 GTTTAGG
344 GTTTAGG
1 GTTTAGG
351 GTTTAGG
1 GTTTAGG
358 GTTTAGG
1 GTTTAGG
365 GTTTAGG
1 GTTTAGG
372 GTTTAGG
1 GTTTAGG
379 GTTTAGG
1 GTTTAGG
386 GTTTAGG
1 GTTTAGG
393 GTTTAGG
1 GTTTAGG
400 GTTTAGG
1 GTTTAGG
407 GTTTAGG
1 GTTTAGG
414 GTTTAGG
1 GTTTAGG
421 GTTTAGG
1 GTTTAGG
428 GTTTAGG
1 GTTTAGG
435 GTTTAGG
1 GTTTAGG
442 GTTTAGG
1 GTTTAGG
449 GTTTAGG
1 GTTTAGG
456 GTTTAGG
1 GTTTAGG
463 GTTTAGG
1 GTTTAGG
470 GTTTAGG
1 GTTTAGG
477 GTTTAGG
1 GTTTAGG
484 GTTTAGG
1 GTTTAGG
491 GTTTAGG
1 GTTTAGG
498 GTTTAGG
1 GTTTAGG
505 GTTTAGG
1 GTTTAGG
512 GTTTAGG
1 GTTTAGG
519 GTTTAGG
1 GTTTAGG
526 GTTTAGG
1 GTTTAGG
533 GTTTAGG
1 GTTTAGG
540 GTTTAGG
1 GTTTAGG
547 GTTTAGG
1 GTTTAGG
554 GTTTAGG
1 GTTTAGG
561 GTTTAGG
1 GTTTAGG
568 GTTTAGG
1 GTTTAGG
575 GTTTAGG
1 GTTTAGG
582 GTTTAGG
1 GTTTAGG
589 GTTTAGG
1 GTTTAGG
596 GTTTAGG
1 GTTTAGG
603 GTTTAGG
1 GTTTAGG
610 GTTTAGG
1 GTTTAGG
617 GTTTAGG
1 GTTTAGG
624 GTTTAGG
1 GTTTAGG
631 GTTTAGG
1 GTTTAGG
638 GTTTAGG
1 GTTTAGG
645 GTTTAGG
1 GTTTAGG
652 GTTTAGG
1 GTTTAGG
659 GTTTAGG
1 GTTTAGG
666 GTTTAGG
1 GTTTAGG
673 GTTTAGG
1 GTTTAGG
680 GTTTAGG
1 GTTTAGG
687 GTTTAGG
1 GTTTAGG
694 GTTTAGG
1 GTTTAGG
701 GTTTAGG
1 GTTTAGG
708 GTTTAAGG
1 GTTT-AGG
716 GTTTAGG
1 GTTTAGG
723 GTTTAGG
1 GTTTAGG
730 GTTTAGG
1 GTTTAGG
737 GTTTAGG
1 GTTTAGG
744 GTTTAGG
1 GTTTAGG
751 GTTTAGG
1 GTTTAGG
758 GTTTAGG
1 GTTTAGG
765 GTTTAGG
1 GTTTAGG
772 GTTTAGG
1 GTTTAGG
779 GTTTAGG
1 GTTTAGG
786 GTTTAGG
1 GTTTAGG
793 GTTTAGG
1 GTTTAGG
800 GTTTAGG
1 GTTTAGG
807 GTTTAGG
1 GTTTAGG
814 GTTTAGG
1 GTTTAGG
821 GTTTAGG
1 GTTTAGG
828 GTTTAGG
1 GTTTAGG
835 GTTTAGG
1 GTTTAGG
842 GTTTAGG
1 GTTTAGG
849 GTTTAGG
1 GTTTAGG
856 GTTTAGG
1 GTTTAGG
863 GTTTAGG
1 GTTTAGG
870 GTTTAGG
1 GTTTAGG
877 GTTTAGG
1 GTTTAGG
884 GTTTAGG
1 GTTTAGG
891 GTTTAGG
1 GTTTAGG
898 GTTTAGG
1 GTTTAGG
905 GTTTAGG
1 GTTTAGG
912 GTTTAGG
1 GTTTAGG
919 GTTTAGG
1 GTTTAGG
926 GTTTAGG
1 GTTTAGG
933 GTTTAGG
1 GTTTAGG
940 GTTTAGG
1 GTTTAGG
947 GTTTAGG
1 GTTTAGG
954 GTTTAGG
1 GTTTAGG
961 GTTTAGG
1 GTTTAGG
968 GTTTAGG
1 GTTTAGG
975 GTTTAGG
1 GTTTAGG
982 GTTTAGG
1 GTTTAGG
989 GTTTAGG
1 GTTTAGG
996 GTTTAGG
1 GTTTAGG
1003 GTTTAGG
1 GTTTAGG
1010 GTTTAGG
1 GTTTAGG
1017 GTTTAGG
1 GTTTAGG
1024 GTTTAGG
1 GTTTAGG
1031 GTTTAGG
1 GTTTAGG
1038 GTTTAGG
1 GTTTAGG
1045 GTTTAGG
1 GTTTAGG
1052 GTTTAGG
1 GTTTAGG
1059 GTTTAGG
1 GTTTAGG
1066 GTTTAGG
1 GTTTAGG
1073 GTTTAGG
1 GTTTAGG
1080 GTTTAGG
1 GTTTAGG
1087 GTTTAGG
1 GTTTAGG
1094 GTTTAGG
1 GTTTAGG
1101 GTTTAGG
1 GTTTAGG
1108 GTTTAGG
1 GTTTAGG
1115 GTTTAGG
1 GTTTAGG
1122 GTTTAGG
1 GTTTAGG
1129 GTTTAGG
1 GTTTAGG
1136 GTTTAGG
1 GTTTAGG
1143 GTTTAGG
1 GTTTAGG
1150 GTTTAGG
1 GTTTAGG
1157 GTTTAGG
1 GTTTAGG
1164 GTTTAGG
1 GTTTAGG
1171 GTTTAGG
1 GTTTAGG
1178 GTTTAGG
1 GTTTAGG
1185 GTTTAGG
1 GTTTAGG
1192 GTTTAGG
1 GTTTAGG
1199 GTTTAGG
1 GTTTAGG
1206 GTTTAGG
1 GTTTAGG
1213 GTTTAGG
1 GTTTAGG
1220 GTTTAGG
1 GTTTAGG
1227 GTTTAGG
1 GTTTAGG
1234 GTTTAGG
1 GTTTAGG
1241 GTTTAGG
1 GTTTAGG
1248 GTTTAGG
1 GTTTAGG
1255 GTTTAGG
1 GTTTAGG
1262 GTTTAGG
1 GTTTAGG
1269 GTTTAGG
1 GTTTAGG
1276 GTTTAGG
1 GTTTAGG
1283 GTTTAGG
1 GTTTAGG
1290 GTTTAGG
1 GTTTAGG
1297 GTTTAGG
1 GTTTAGG
1304 GTTTAGG
1 GTTTAGG
1311 GTTTAGG
1 GTTTAGG
1318 GTTTAGG
1 GTTTAGG
1325 GTTTAGG
1 GTTTAGG
1332 GTTTAGG
1 GTTTAGG
1339 GTTTAGG
1 GTTTAGG
1346 GTTTAGG
1 GTTTAGG
1353 GTTTAGG
1 GTTTAGG
1360 GTTTAGG
1 GTTTAGG
1367 GTTTAGG
1 GTTTAGG
1374 GTTTAGG
1 GTTTAGG
1381 G-TTAGG
1 GTTTAGG
1387 GTTTAGG
1 GTTTAGG
1394 GTTTAGG
1 GTTTAGG
1401 GTTTAGG
1 GTTTAGG
1408 GTTTAGG
1 GTTTAGG
1415 GTTTAGG
1 GTTTAGG
1422 GTTTAGG
1 GTTTAGG
1429 GTTTAGG
1 GTTTAGG
1436 GTTTAGG
1 GTTTAGG
1443 GTTTAGG
1 GTTTAGG
1450 GTTTAGG
1 GTTTAGG
1457 GTTTAGG
1 GTTTAGG
1464 GTTTAGG
1 GTTTAGG
1471 GTTTAGG
1 GTTTAGG
1478 GTTTAGG
1 GTTTAGG
1485 GTTTAGG
1 GTTTAGG
1492 GTTTAGG
1 GTTTAGG
1499 GTTTAGG
1 GTTTAGG
1506 GTTTAGG
1 GTTTAGG
1513 GTTTAGG
1 GTTTAGG
1520 GTTTAGG
1 GTTTAGG
1527 GTTTAGG
1 GTTTAGG
1534 GTTTAGG
1 GTTTAGG
1541 GTTTAGG
1 GTTTAGG
1548 GTTTAGG
1 GTTTAGG
1555 GTTTAGG
1 GTTTAGG
1562 GTTTAGG
1 GTTTAGG
1569 GTTTAGG
1 GTTTAGG
1576 GTTTAGG
1 GTTTAGG
1583 GTTTAGG
1 GTTTAGG
1590 GTTTAGG
1 GTTTAGG
1597 GTTTAGG
1 GTTTAGG
1604 GTTTAGG
1 GTTTAGG
1611 GTTTAGG
1 GTTTAGG
1618 GTTTAGG
1 GTTTAGG
1625 GTTTAGG
1 GTTTAGG
1632 GTTTAGG
1 GTTTAGG
1639 GTTTAGG
1 GTTTAGG
1646 GTTTAGG
1 GTTTAGG
1653 GTTTAGG
1 GTTTAGG
1660 GTTTAGG
1 GTTTAGG
1667 GTTTAGG
1 GTTTAGG
1674 GTTTAGG
1 GTTTAGG
1681 GTTTAGG
1 GTTTAGG
1688 GTTTAGG
1 GTTTAGG
1695 GTTTAGG
1 GTTTAGG
1702 GTTTAGG
1 GTTTAGG
1709 GTTTAGG
1 GTTTAGG
1716 GTTTAGG
1 GTTTAGG
1723 GTTTAGG
1 GTTTAGG
1730 GTTTAGG
1 GTTTAGG
1737 GTTTAGG
1 GTTTAGG
1744 GTTTAGG
1 GTTTAGG
1751 GTTTAGG
1 GTTTAGG
1758 GTTTAGG
1 GTTTAGG
1765 GTTTAGG
1 GTTTAGG
1772 GTTTAGG
1 GTTTAGG
1779 GTTTAGG
1 GTTTAGG
1786 GTTTAGG
1 GTTTAGG
1793 GTTTAGG
1 GTTTAGG
1800 GTTTAGG
1 GTTTAGG
1807 GTTTAGG
1 GTTTAGG
1814 GTTTAGG
1 GTTTAGG
1821 GTTTAGG
1 GTTTAGG
1828 GTTTAGG
1 GTTTAGG
1835 GTTTAGG
1 GTTTAGG
1842 GTTTAGG
1 GTTTAGG
1849 GTTTAGG
1 GTTTAGG
1856 GTTTAGG
1 GTTTAGG
1863 GTTTAGG
1 GTTTAGG
1870 GTTTAGG
1 GTTTAGG
1877 GTTTAGG
1 GTTTAGG
1884 GTTTAGG
1 GTTTAGG
1891 GTTTAGG
1 GTTTAGG
1898 GTTTAGG
1 GTTTAGG
1905 GTTTAGG
1 GTTTAGG
1912 GTTTAGG
1 GTTTAGG
1919 GTTTAGG
1 GTTTAGG
1926 GTTTAGG
1 GTTTAGG
1933 GTTTAGG
1 GTTTAGG
1940 GTTTAGG
1 GTTTAGG
1947 GTTTAGG
1 GTTTAGG
1954 GTTTAGG
1 GTTTAGG
1961 GTTTAGG
1 GTTTAGG
1968 GTTTAGG
1 GTTTAGG
1975 GTTTAGG
1 GTTTAGG
1982 GTTTAGG
1 GTTTAGG
1989 GTTTAGG
1 GTTTAGG
1996 GTTTAGG
1 GTTTAGG
2003 GTTTAGG
1 GTTTAGG
2010 GTTTAGG
1 GTTTAGG
2017 GTTTAGG
1 GTTTAGG
2024 GTTTAGG
1 GTTTAGG
2031 GTTTAGG
1 GTTTAGG
2038 GTTTAGG
1 GTTTAGG
2045 GTTTAGG
1 GTTTAGG
2052 GTTTAGG
1 GTTTAGG
2059 GTTTAGG
1 GTTTAGG
2066 GTTTAGG
1 GTTTAGG
2073 GTTTAGG
1 GTTTAGG
2080 GTTTAGG
1 GTTTAGG
2087 GTTTAGG
1 GTTTAGG
2094 GTTTAGG
1 GTTTAGG
2101 GTTTAGG
1 GTTTAGG
2108 GTTTAGG
1 GTTTAGG
2115 GTTTAGG
1 GTTTAGG
2122 GTTTAGG
1 GTTTAGG
2129 GTTTAGG
1 GTTTAGG
2136 GTTTAGG
1 GTTTAGG
2143 GTTTAGG
1 GTTTAGG
2150 GTTTAGG
1 GTTTAGG
2157 GTTTAGG
1 GTTTAGG
2164 GTTTAGG
1 GTTTAGG
2171 GTTTAGG
1 GTTTAGG
2178 GTTTAGG
1 GTTTAGG
2185 GTTTAGG
1 GTTTAGG
2192 GTTTAGG
1 GTTTAGG
2199 GTTTAGG
1 GTTTAGG
2206 GTTTAGG
1 GTTTAGG
2213 GTTTAGG
1 GTTTAGG
2220 GTTTAGG
1 GTTTAGG
2227 GTTTAGG
1 GTTTAGG
2234 GTTTAGG
1 GTTTAGG
2241 GTTTAGG
1 GTTTAGG
2248 GTTTAGG
1 GTTTAGG
2255 GTTTAGG
1 GTTTAGG
2262 GTTTAGG
1 GTTTAGG
2269 GTTTAGG
1 GTTTAGG
2276 GTTTAGG
1 GTTTAGG
2283 GTTTAGG
1 GTTTAGG
2290 GTTTAGG
1 GTTTAGG
2297 GTTTAGG
1 GTTTAGG
2304 GTTTAGG
1 GTTTAGG
2311 GTTTAGG
1 GTTTAGG
2318 GTTTAGG
1 GTTTAGG
2325 GTTTAGG
1 GTTTAGG
2332 GTTTAGG
1 GTTTAGG
2339 GTTTAGG
1 GTTTAGG
2346 GTTTAGG
1 GTTTAGG
2353 GTTTAGG
1 GTTTAGG
2360 GTTTAGG
1 GTTTAGG
2367 GTTTAGG
1 GTTTAGG
2374 GTTTAGG
1 GTTTAGG
2381 GTTTAGG
1 GTTTAGG
2388 GTTTAGG
1 GTTTAGG
2395 GTTTAGG
1 GTTTAGG
2402 GTTTAGG
1 GTTTAGG
2409 GTTTAGG
1 GTTTAGG
2416 GTTTAGG
1 GTTTAGG
2423 GTTTAGG
1 GTTTAGG
2430 GTTTAGG
1 GTTTAGG
2437 GTTTAGG
1 GTTTAGG
2444 GTTTAGG
1 GTTTAGG
2451 GTTTAGG
1 GTTTAGG
2458 GTTTAGG
1 GTTTAGG
2465 GTTTAGG
1 GTTTAGG
2472 GTTTAGG
1 GTTTAGG
2479 GTTTAGG
1 GTTTAGG
2486 GTTTAGG
1 GTTTAGG
2493 GTTTAGG
1 GTTTAGG
2500 GTTTAGG
1 GTTTAGG
2507 GTTTAGG
1 GTTTAGG
2514 GTTTAGG
1 GTTTAGG
2521 GTTTAGG
1 GTTTAGG
2528 GTTTAGG
1 GTTTAGG
2535 GTTTAGG
1 GTTTAGG
2542 GTTTAGG
1 GTTTAGG
2549 GTTTAGG
1 GTTTAGG
2556 GTTTAGG
1 GTTTAGG
2563 GTTTAGG
1 GTTTAGG
2570 GTTTAGG
1 GTTTAGG
2577 GTTTAGG
1 GTTTAGG
2584 GTTTAGG
1 GTTTAGG
2591 GTTTAGG
1 GTTTAGG
2598 GTTTAGG
1 GTTTAGG
2605 GTTTAGG
1 GTTTAGG
2612 GTTTAGG
1 GTTTAGG
2619 GTTTAGG
1 GTTTAGG
2626 GTTTAGG
1 GTTTAGG
2633 GTTTAGG
1 GTTTAGG
2640 GTTTAGG
1 GTTTAGG
2647 GTTTAGG
1 GTTTAGG
2654 GTTTAGG
1 GTTTAGG
2661 GTTTAGG
1 GTTTAGG
2668 GTTTAGG
1 GTTTAGG
2675 GTTTAGG
1 GTTTAGG
2682 GTTTAGG
1 GTTTAGG
2689 GTTTAGG
1 GTTTAGG
2696 GTTTAGG
1 GTTTAGG
2703 GTTTAGG
1 GTTTAGG
2710 GTTTAGG
1 GTTTAGG
2717 GTTTAGG
1 GTTTAGG
2724 GTTTAGG
1 GTTTAGG
2731 GT
1 GT
2733 NNNNNNNNNN
Statistics
Matches: 2723, Mismatches: 0, Indels: 4
1.00 0.00 0.00
Matches are distributed among these distances:
6 6 0.00
7 2710 1.00
8 7 0.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:7728 original size:22 final size:22
Alignment explanation
Indices: 7703--7744 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7693 CTGTATATTT
* *
7703 ATATTTGTATCTCTAGAATTAA
1 ATATTTGTATCCCTAAAATTAA
7725 ATATTTGTATCCCTAAAATT
1 ATATTTGTATCCCTAAAATT
7745 GAAGTATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (22 bp):
ATATTTGTATCCCTAAAATTAA
Found at i:8062 original size:25 final size:23
Alignment explanation
Indices: 8010--8069 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
8000 AAAATTTTCA
* *
8010 GCCTTCATTGCTGACTTTTTTAG
1 GCCTTCATTGCCGACTTGTTTAG
8033 GCCTTCATTGCCGAATCTTGTTTAG
1 GCCTTCATTGCCG-A-CTTGTTTAG
*
8058 GCCTTTATTGCC
1 GCCTTCATTGCC
8070 TAACCCTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 12 0.38
24 1 0.03
25 19 0.59
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.43
Consensus pattern (23 bp):
GCCTTCATTGCCGACTTGTTTAG
Found at i:8266 original size:18 final size:18
Alignment explanation
Indices: 8243--8277 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8233 ATGTTCTTTG
*
8243 GGTAAAGTTTCTAGTTCA
1 GGTAAAGCTTCTAGTTCA
*
8261 GGTAAAGCTTCTGGTTC
1 GGTAAAGCTTCTAGTTC
8278 TCATGGATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (18 bp):
GGTAAAGCTTCTAGTTCA
Found at i:11694 original size:27 final size:27
Alignment explanation
Indices: 11664--11719 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11654 TTGAGGGCGA
11664 GTGTGGGAAAACACTTATTTACAGCTG
1 GTGTGGGAAAACACTTATTTACAGCTG
11691 GTGTGGGAAAACACTTATTTACAGCTG
1 GTGTGGGAAAACACTTATTTACAGCTG
11718 GT
1 GT
11720 TGTAATATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (27 bp):
GTGTGGGAAAACACTTATTTACAGCTG
Found at i:11771 original size:22 final size:22
Alignment explanation
Indices: 11745--11810 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
11735 TGTATATTTA
*
11745 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
11767 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
11789 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
11811 GAAGATTTAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:11910 original size:20 final size:20
Alignment explanation
Indices: 11894--11931 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11884 GCAGTTTTTT
11894 CAATATACATTCAGTTTTCA
1 CAATATACATTCAGTTTTCA
*
11914 CAATATACATTCAATTTT
1 CAATATACATTCAGTTTT
11932 ACTCTTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.18, G:0.03, T:0.42
Consensus pattern (20 bp):
CAATATACATTCAGTTTTCA
Found at i:11911 original size:18 final size:19
Alignment explanation
Indices: 11889--11933 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
11879 GATAAGCAGT
* *
11889 TTTTTCAATATACATTCAG
1 TTTTACAATATACATTCAA
11908 TTTTCACAATATACATTCAA
1 TTTT-ACAATATACATTCAA
11928 TTTTAC
1 TTTTAC
11934 TCTTAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTTACAATATACATTCAA
Found at i:11963 original size:25 final size:21
Alignment explanation
Indices: 11934--11990 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 21
11924 TCAATTTTAC
11934 TCTTAGTTTTTCACACAGTTTTATT
1 TCTTAGTTTTT-ACACA---TTATT
*
11959 TCTTAGTTGTTACACATTATT
1 TCTTAGTTTTTACACATTATT
11980 TCTTAGTTTTT
1 TCTTAGTTTTT
11991 TCATATGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 15 0.50
24 5 0.17
25 10 0.33
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.58
Consensus pattern (21 bp):
TCTTAGTTTTTACACATTATT
Found at i:15772 original size:22 final size:22
Alignment explanation
Indices: 15746--15811 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
15736 AGTATATTTA
*
15746 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAAAATTAAG
*
15768 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCTCTAAAATTAAG
15790 TATTTGTATCTCTAAAATTAAG
1 TATTTGTATCTCTAAAATTAAG
15812 AACAGAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (22 bp):
TATTTGTATCTCTAAAATTAAG
Found at i:15978 original size:22 final size:23
Alignment explanation
Indices: 15953--15996 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
15943 AATATACATT
15953 CAGTTTTA-CTCTTAGTTTTTCA
1 CAGTTTTATCTCTTAGTTTTTCA
*
15975 CAGTTTTATTTCTTAGTTTTTC
1 CAGTTTTATCTCTTAGTTTTTC
15997 CACAAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.16, C:0.16, G:0.09, T:0.59
Consensus pattern (23 bp):
CAGTTTTATCTCTTAGTTTTTCA
Found at i:17883 original size:2 final size:2
Alignment explanation
Indices: 17876--17927 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
17866 GTCACTATTC
17876 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17918 CT CT CT CT CT
1 CT CT CT CT CT
17928 GTGAACATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:20740 original size:35 final size:35
Alignment explanation
Indices: 20695--20766 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
20685 TGCTGACATA
20695 AAAACTAATAACAAAAAAGTATTGAAGATAAAGGT
1 AAAACTAATAACAAAAAAGTATTGAAGATAAAGGT
* * *
20730 AAAATTAATAACAAAAATGTATTGAAGATGAAGGT
1 AAAACTAATAACAAAAAAGTATTGAAGATAAAGGT
20765 AA
1 AA
20767 GTATGACAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.22
Consensus pattern (35 bp):
AAAACTAATAACAAAAAAGTATTGAAGATAAAGGT
Found at i:22297 original size:3 final size:3
Alignment explanation
Indices: 22289--22316 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22279 GAGGTGACGT
22289 TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG T
22317 CTGTGTGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (3 bp):
TGG
Found at i:22397 original size:17 final size:18
Alignment explanation
Indices: 22371--22409 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
22361 AAGAAGAGGT
22371 GGGGGTAGGGGCGGGGGA
1 GGGGGTAGGGGCGGGGGA
* *
22389 GGGGG-AGGGGTGGGGGT
1 GGGGGTAGGGGCGGGGGA
22406 GGGG
1 GGGG
22410 TGGGGATGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.08, C:0.03, G:0.82, T:0.08
Consensus pattern (18 bp):
GGGGGTAGGGGCGGGGGA
Found at i:22614 original size:6 final size:6
Alignment explanation
Indices: 22603--22646 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
22593 AGGAAAAGCA
* * *
22603 GGGGGT GGGGGT GGAGGT GGAGGT GGAGGT GGGGGAT GGGGGT G
1 GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGG-T GGGGGT G
22647 AAAAAGGTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.09, C:0.00, G:0.75, T:0.16
Consensus pattern (6 bp):
GGGGGT
Found at i:40026 original size:29 final size:28
Alignment explanation
Indices: 39962--40028 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
39952 AATTTTCGTT
39962 TAATAAAAATTTAATTGAAGAAAACAAA
1 TAATAAAAATTTAATTGAAGAAAACAAA
* *
39990 TATTTAAAAATTTAATTGATAGTAATA-AAA
1 TA-ATAAAAATTTAATTGA-AG-AAAACAAA
40020 TAATAAAAA
1 TAATAAAAA
40029 GTTGAAAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 21 0.64
30 7 0.21
31 3 0.09
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (28 bp):
TAATAAAAATTTAATTGAAGAAAACAAA
Found at i:41480 original size:16 final size:16
Alignment explanation
Indices: 41459--41508 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
41449 TGATGTTCGA
41459 TAATTATTTTAAATTT
1 TAATTATTTTAAATTT
*
41475 TAATTATTTTAAAATT
1 TAATTATTTTAAATTT
* **
41491 AAATTAAATTAAATTT
1 TAATTATTTTAAATTT
41507 TA
1 TA
41509 TAAAAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAATTATTTTAAATTT
Found at i:42189 original size:27 final size:28
Alignment explanation
Indices: 42159--42242 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 28
42149 TTCAAGAAAG
*
42159 ATAAATTATTTAATTTTTAA-AA-TTAAA
1 ATAAATTATTTAA-TATTAATAATTTAAA
* * *
42186 ATAAAATATATCATATTAATAATTTAAA
1 ATAAATTATTTAATATTAATAATTTAAA
*
42214 ATAAATTATTATAA-ATTATATATTTTAAA
1 ATAAATTATT-TAATATTA-ATAATTTAAA
42243 TAATTTTAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
26 5 0.11
27 12 0.27
28 17 0.38
29 11 0.24
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (28 bp):
ATAAATTATTTAATATTAATAATTTAAA
Found at i:43480 original size:16 final size:16
Alignment explanation
Indices: 43459--43492 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
43449 GATCTCGTAG
43459 CTTTCTCTTTTCT-TTT
1 CTTTCT-TTTTCTGTTT
43475 CTTTCTTTTTCTGTTT
1 CTTTCTTTTTCTGTTT
43491 CT
1 CT
43493 GTGGAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (16 bp):
CTTTCTTTTTCTGTTT
Found at i:45972 original size:26 final size:27
Alignment explanation
Indices: 45943--46005 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
45933 ATCTAAAATG
45943 TTTATATATTAA-TAAAAATATATTTA
1 TTTATATATTAATTAAAAATATATTTA
* ** *
45969 TTTA-ATTTTAATTTTAAATATATTTT
1 TTTATATATTAATTAAAAATATATTTA
45995 TTTAT-TATTAA
1 TTTATATATTAA
46006 ACAATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTATATATTAATTAAAAATATATTTA
Found at i:46025 original size:20 final size:19
Alignment explanation
Indices: 45974--46025 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
45964 ATTTATTTAA
* *
45974 TTTTAATTTTAAATATATT
1 TTTTTATTTTAAACATATT
45993 TTTTTATTATTAAACA-ATT
1 TTTTTATT-TTAAACATATT
46012 TTTTAATATTTTAA
1 TTTT--TATTTTAA
46026 TAATAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 14 0.50
20 10 0.36
21 4 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATTTTAAACATATT
Found at i:46176 original size:26 final size:28
Alignment explanation
Indices: 46120--46182 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
46110 GTTATTGTTA
* *
46120 TAATAATTTTTTAATATTGTTAGTAATTT
1 TAATAATTTCTTAATATTGTTA-TAAATT
*
46149 TAATCATTTCTTAATATT-TT-TAAATT
1 TAATAATTTCTTAATATTGTTATAAATT
46175 TAA-AATTT
1 TAATAATTT
46183 ATAGTACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 4 0.13
26 8 0.27
28 2 0.07
29 16 0.53
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (28 bp):
TAATAATTTCTTAATATTGTTATAAATT
Found at i:46236 original size:28 final size:29
Alignment explanation
Indices: 46197--46275 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 29
46187 TACTTTTAAT
46197 ATATTAATATTTTAATAATAAATCTATTA
1 ATATTAATATTTTAATAATAAATCTATTA
* * * *
46226 AT-TTAA-AATTTAATGAA-AAATGTTTTT
1 ATATTAATATTTTAAT-AATAAATCTATTA
*
46253 ATATTAATATTTTAATTATAAAT
1 ATATTAATATTTTAATAATAAAT
46276 ATAAATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
27 16 0.40
28 11 0.28
29 13 0.32
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (29 bp):
ATATTAATATTTTAATAATAAATCTATTA
Found at i:46536 original size:24 final size:22
Alignment explanation
Indices: 46507--46592 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 22
46497 CTAGATTTTT
46507 AATATTTTTAATATTTCAATAATA
1 AATATTTTTAATATTT-AA-AATA
46531 AATATTTTCT-ATATTATAAAATA
1 AATATTTT-TAATATT-TAAAATA
* *
46554 AGTAATTTTCAATATTTTAACAATA
1 AAT-ATTTTTAATA-TTTAA-AATA
46579 AATA-TTTTAATATT
1 AATATTTTTAATATT
46593 CTAATAGTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
22 2 0.04
23 13 0.25
24 27 0.52
25 10 0.19
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (22 bp):
AATATTTTTAATATTTAAAATA
Found at i:50246 original size:17 final size:18
Alignment explanation
Indices: 50212--50249 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50202 CATGTAAAAA
* *
50212 TTTTAACTAAATCCTTTT
1 TTTTAACCAAATCATTTT
50230 TTTTAACCAAA-CATTTT
1 TTTTAACCAAATCATTTT
50247 TTT
1 TTT
50250 CTTATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAACCAAATCATTTT
Found at i:50869 original size:2 final size:2
Alignment explanation
Indices: 50864--50890 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50854 ACACACACAC
50864 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
50891 AAGCAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52867 original size:23 final size:24
Alignment explanation
Indices: 52841--52891 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
52831 TAAAAAAATT
*
52841 TTTTTACTTTTAAAAAAATCAA-A
1 TTTTAACTTTTAAAAAAATCAATA
* * *
52864 TTTTAATTTTTTAAAAAATTAATA
1 TTTTAACTTTTAAAAAAATCAATA
52888 TTTT
1 TTTT
52892 GAATTTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTTAACTTTTAAAAAAATCAATA
Found at i:52875 original size:24 final size:26
Alignment explanation
Indices: 52848--52901 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 26
52838 ATTTTTTTAC
52848 TTTTAAAAAAATCAA-ATTTT-AATT
1 TTTTAAAAAAATCAATATTTTGAATT
*
52872 TTTT-AAAAAATTAATATTTTGAATT
1 TTTTAAAAAAATCAATATTTTGAATT
52897 TTTTA
1 TTTTA
52902 TAAGTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 9 0.35
24 9 0.35
25 8 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTTAAAAAAATCAATATTTTGAATT
Found at i:52945 original size:22 final size:24
Alignment explanation
Indices: 52911--52966 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
52901 ATAAGTTTTT
*
52911 TCATATTGTTAAAA-TCTTAAAAA
1 TCATATTTTTAAAATTCTTAAAAA
* *
52934 T-ATTTTTTTAAAATTTTTAAAAA
1 TCATATTTTTAAAATTCTTAAAAA
52957 TCATATTTTT
1 TCATATTTTT
52967 GAATTTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.37
23 10 0.37
24 7 0.26
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (24 bp):
TCATATTTTTAAAATTCTTAAAAA
Found at i:52965 original size:24 final size:24
Alignment explanation
Indices: 52911--52981 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 24
52901 ATAAGTTTTT
* *
52911 TCATATTGTTAAAA-TCTTAAAAA
1 TCATATTTTTAAAATTTTTAAAAA
*
52934 T-ATTTTTTTAAAATTTTTAAAAA
1 TCATATTTTTAAAATTTTTAAAAA
*
52957 TCATATTTTT-GAATTTTTATAAAA
1 TCATATTTTTAAAATTTTTA-AAAA
52981 T
1 T
52982 AAGATTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 10 0.25
23 18 0.45
24 12 0.30
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (24 bp):
TCATATTTTTAAAATTTTTAAAAA
Found at i:52988 original size:24 final size:23
Alignment explanation
Indices: 52945--53000 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
52935 ATTTTTTTAA
* *
52945 AATTTTTAAAAATCATATTTTTG
1 AATTTTTAAAAATAAGATTTTTG
52968 AATTTTTATAAAATAAGA-TTTT-
1 AATTTTTA-AAAATAAGATTTTTG
52990 -ATTTTTAAAAA
1 AATTTTTAAAAA
53001 AATTAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.13
21 7 0.23
23 12 0.40
24 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
AATTTTTAAAAATAAGATTTTTG
Found at i:53026 original size:23 final size:22
Alignment explanation
Indices: 52969--53027 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
52959 ATATTTTTGA
**
52969 ATTTTTATAAAA-TAAGATTTT
1 ATTTTTATAAAATTAAGATTCC
* *
52990 ATTTTTAAAAAAATTAATATTCC
1 ATTTTT-ATAAAATTAAGATTCC
53013 ATTTTTATATAAATT
1 ATTTTTATA-AAATT
53028 TTATAGAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 17 0.57
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTTATAAAATTAAGATTCC
Found at i:53455 original size:47 final size:49
Alignment explanation
Indices: 53372--53466 Score: 115
Period size: 47 Copynumber: 2.0 Consensus size: 49
53362 TTATTCTTCA
* * * *
53372 CTTAATAACACAAAAAATGTGTAAACAAT-TTTTAAAA-TTTATAAAAT
1 CTTAATAAAACAAAAAATGTGTAAAAAATATATAAAAATTTTATAAAAT
*
53419 CTTAATAAAAGCAAAAAAT-TTTAAAAAATATATAAAAATTTTATAAAA
1 CTTAATAAAA-CAAAAAATGTGTAAAAAATATATAAAAATTTTATAAAA
53467 AAAACATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 17 0.43
48 14 0.35
49 9 0.22
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (49 bp):
CTTAATAAAACAAAAAATGTGTAAAAAATATATAAAAATTTTATAAAAT
Found at i:53465 original size:22 final size:21
Alignment explanation
Indices: 53431--53480 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
53421 TAATAAAAGC
* * *
53431 AAAAAATTTTAAAAAATATAT
1 AAAAATTTTTAAAAAAAACAT
53452 AAAAATTTTATAAAAAAAACAT
1 AAAAATTTT-TAAAAAAAACAT
53474 AAAAATT
1 AAAAATT
53481 AAAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATTTTTAAAAAAAACAT
Found at i:53506 original size:20 final size:20
Alignment explanation
Indices: 53431--53507 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
53421 TAATAAAAGC
53431 AAAAAATTTTAAAAAA-TAT
1 AAAAAATTTTAAAAAACTAT
** *
53450 ATAAAAATTTTATAAAAAAAAC
1 A-AAAAATTTTA-AAAAACTAT
53472 ATAAAAA--TT-AAAAACTAT
1 A-AAAAATTTTAAAAAACTAT
*
53490 AGAAAATTTTAAAAAACT
1 AAAAAATTTTAAAAAACT
53508 GCAAAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
17 4 0.09
18 7 0.15
19 3 0.07
20 19 0.41
21 5 0.11
22 8 0.17
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (20 bp):
AAAAAATTTTAAAAAACTAT
Found at i:53679 original size:21 final size:21
Alignment explanation
Indices: 53657--53715 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
53647 AAAAACTGAT
53657 TTTTTAAAAATAAAATCAT-A
1 TTTTTAAAAATAAAATCATGA
** *
53677 TTTAAAAAAATAAAAACATGA
1 TTTTTAAAAATAAAATCATGA
53698 TTTTTACAAAATTAAAAT
1 TTTTTA-AAAA-TAAAAT
53716 GATTTTAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 16 0.53
21 5 0.17
22 4 0.13
23 5 0.17
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
TTTTTAAAAATAAAATCATGA
Found at i:53699 original size:42 final size:41
Alignment explanation
Indices: 53647--53725 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
53637 AAAAAATTTA
53647 AAAAACTGATTTTTTA-AAAA-TAAAATCATATTTAAAAAAAT
1 AAAAACTGA-TTTTTACAAAATTAAAATCAT-TTTAAAAAAAT
*
53688 AAAAACATGATTTTTACAAAATTAAAATGATTTTAAAA
1 AAAAAC-TGATTTTTACAAAATTAAAATCATTTTAAAA
53726 TATTAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
41 12 0.35
42 14 0.41
43 8 0.24
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (41 bp):
AAAAACTGATTTTTACAAAATTAAAATCATTTTAAAAAAAT
Found at i:53795 original size:23 final size:22
Alignment explanation
Indices: 53752--53821 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
53742 TTTAAATATG
* * *
53752 ATATAATTCTAAAAAATTTAAA
1 ATATGATTTTAAAAAAATTAAA
*
53774 ATATTGATTTTATAAAAATTAAA
1 ATA-TGATTTTAAAAAAATTAAA
*
53797 ATATGATTTTAAAAAAAGTAAA
1 ATATGATTTTAAAAAAATTAAA
53819 ATA
1 ATA
53822 ATATATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 23 0.56
23 18 0.44
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (22 bp):
ATATGATTTTAAAAAAATTAAA
Found at i:54102 original size:15 final size:16
Alignment explanation
Indices: 54061--54102 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
54051 TAGTGATTAA
54061 ATTAAATTTATCAAAG
1 ATTAAATTTATCAAAG
*
54077 -TAAAATATTAT-AAAG
1 ATTAAAT-TTATCAAAG
54092 ATTAAATTTAT
1 ATTAAATTTAT
54103 TTGAATTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTAAATTTATCAAAG
Found at i:66178 original size:28 final size:29
Alignment explanation
Indices: 66147--66201 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
66137 TTATTAATCA
66147 AATTTAAATTATAA-AT-AATATTTTCAAT
1 AATTTAAA-TATAATATGAATATTTTCAAT
* *
66175 AATTTTAATATAATATGAATTTTTTCA
1 AATTTAAATATAATATGAATATTTTCA
66202 TTAAACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.22
28 9 0.39
29 9 0.39
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (29 bp):
AATTTAAATATAATATGAATATTTTCAAT
Found at i:71198 original size:10 final size:10
Alignment explanation
Indices: 71148--71207 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
71138 TTTTTGCTAT
*
71148 ATAAAATTACG
1 ATAAAATTA-A
*
71159 ATAAAATAAA
1 ATAAAATTAA
71169 AT-AAATT-A
1 ATAAAATTAA
**
71177 ATATTA-TAA
1 ATAAAATTAA
71186 ATAAAATTAA
1 ATAAAATTAA
71196 ATAAAATTAA
1 ATAAAATTAA
71206 AT
1 AT
71208 TGTTTTATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
8 4 0.10
9 10 0.26
10 17 0.44
11 8 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (10 bp):
ATAAAATTAA
Found at i:71204 original size:22 final size:22
Alignment explanation
Indices: 71162--71204 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
71152 AATTACGATA
*
71162 AAATAAAATAAATTAATATTAT
1 AAATAAAATAAATTAAAATTAT
71184 AAATAAAATTAAA-TAAAATTA
1 AAATAAAA-TAAATTAAAATTA
71205 AATTGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAAATAAATTAAAATTAT
Found at i:71448 original size:16 final size:17
Alignment explanation
Indices: 71427--71459 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71417 TATTAAAAAG
71427 ATAA-TTAAATTTATTT
1 ATAATTTAAATTTATTT
*
71443 ATAATTTTAATTTATTT
1 ATAATTTAAATTTATTT
71460 TTAAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATTTAAATTTATTT
Found at i:71835 original size:15 final size:17
Alignment explanation
Indices: 71805--71836 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
71795 TAGATTGTAC
71805 TATTGTTTATTTTAAAT
1 TATTGTTTATTTTAAAT
71822 TATT-TTTA-TTTAAAT
1 TATTGTTTATTTTAAAT
71837 AATCTATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TATTGTTTATTTTAAAT
Found at i:81933 original size:32 final size:31
Alignment explanation
Indices: 81894--81956 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
81884 TTAAATTTTT
* * *
81894 TTATATTTTTATATGGTTATTTTATTTTAAAA
1 TTATATTTTTATATAGATATTTT-TATTAAAA
81926 TTATATTTTTATATAGATATTTTTATTAAAA
1 TTATATTTTTATATAGATATTTTTATTAAAA
81957 AATTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (31 bp):
TTATATTTTTATATAGATATTTTTATTAAAA
Found at i:86757 original size:16 final size:16
Alignment explanation
Indices: 86732--86766 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
86722 ATTAAGAGAA
86732 TAATTAATCTTTCTTT
1 TAATTAATCTTTCTTT
* *
86748 TAATTTATCTTTTTTT
1 TAATTAATCTTTCTTT
86764 TAA
1 TAA
86767 AATACAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TAATTAATCTTTCTTT
Found at i:87440 original size:8 final size:8
Alignment explanation
Indices: 87429--87465 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
87419 TTTTTATTTA
87429 TATATATT
1 TATATATT
*
87437 TATATAAT
1 TATATATT
87445 TATATATT
1 TATATATT
*
87453 TAAATATT
1 TATATATT
87461 TATAT
1 TATAT
87466 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:87469 original size:14 final size:16
Alignment explanation
Indices: 87429--87483 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
87419 TTTTTATTTA
*
87429 TATATATTTATATAAT
1 TATATATTTAAATAAT
87445 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
*
87460 T-TATATTTAAAAAAT
1 TATATATTTAAATAAT
*
87475 AATAT-TTTA
1 TATATATTTA
87484 TTAATTTCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.29
15 9 0.26
16 15 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:90060 original size:19 final size:19
Alignment explanation
Indices: 90031--90078 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
90021 TTTTATGTTA
*
90031 AAAATAATAAATAAAATATT
1 AAAA-AATAAATAAAATAAT
90051 AAAAAATAAATAAAATAAT
1 AAAAAATAAATAAAATAAT
90070 AAAAAATAA
1 AAAAAATAA
90079 TTTTGAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAAATAAATAAAATAAT
Found at i:90913 original size:60 final size:57
Alignment explanation
Indices: 90836--91015 Score: 168
Period size: 60 Copynumber: 3.1 Consensus size: 57
90826 TTTTTATCTA
** *
90836 TTTTTGAAATACTTTTTATTTTAAGAAAATAGATATTTTGACTTTTCCTTAAAACATTT
1 TTTTTGAAATA-TTTTTATTTTAAGAAAATAGATATTTCAACTTTTCC-TAAAACAATT
* * * * *
90895 CTTTTTGAAATATATTTTATTTAAAAAAAATTGATATTTCAATTTTTCCTCAAACAATT
1 -TTTTTGAAATAT-TTTTATTTTAAGAAAATAGATATTTCAACTTTTCCTAAAACAATT
* * *
90954 TTTTT-AAATATTTTT-TGTTTATAGAAAATTA-ATACTTCAACTTTTCTTCAAAACTATT
1 TTTTTGAAATATTTTTAT-TTTA-AGAAAA-TAGATATTTCAACTTTTCCT-AAAACAATT
91012 TTTT
1 TTTT
91016 ATAATACTCC
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
55 1 0.01
56 7 0.07
57 25 0.25
58 17 0.17
59 9 0.09
60 40 0.40
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.51
Consensus pattern (57 bp):
TTTTTGAAATATTTTTATTTTAAGAAAATAGATATTTCAACTTTTCCTAAAACAATT
Found at i:90993 original size:57 final size:58
Alignment explanation
Indices: 90836--91015 Score: 150
Period size: 57 Copynumber: 3.1 Consensus size: 58
90826 TTTTTATCTA
* * * ** * *
90836 TTTTTGAAATACT-TTTTATTTTAAGAAAA-TAGATATTTTGACTTTTCCTTAAAACATTT
1 TTTTTGAAATA-TATTTTATTTAAAAAAAATTA-ATACTTCAACTTTTCCTCAAAACA-AT
* * *
90895 CTTTTTGAAATATATTTTATTTAAAAAAAATTGATATTTCAATTTTTCCTC-AAACAAT
1 -TTTTTGAAATATATTTTATTTAAAAAAAATTAATACTTCAACTTTTCCTCAAAACAAT
* * * * * * *
90953 TTTTTTAAATATTTTTTGTTTATAGAAAATTAATACTTCAACTTTTCTTCAAAACTAT
1 TTTTTGAAATATATTTTATTTAAAAAAAATTAATACTTCAACTTTTCCTCAAAACAAT
91011 TTTTT
1 TTTTT
91016 ATAATACTCC
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
57 41 0.41
58 12 0.12
59 6 0.06
60 39 0.39
61 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.51
Consensus pattern (58 bp):
TTTTTGAAATATATTTTATTTAAAAAAAATTAATACTTCAACTTTTCCTCAAAACAAT
Found at i:92494 original size:20 final size:20
Alignment explanation
Indices: 92469--92507 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
92459 GTATGGATAA
92469 AATTAAATTTATTTATCAAT
1 AATTAAATTTATTTATCAAT
*
92489 AATTAAATTTTTTTATCAA
1 AATTAAATTTATTTATCAA
92508 ACATGGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTAAATTTATTTATCAAT
Found at i:93083 original size:14 final size:13
Alignment explanation
Indices: 93058--93096 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
93048 ATTTAGTTAT
*
93058 AAAAAATTAAAGG
1 AAAAAATTAAAAG
93071 AAAAAATTAAAAG
1 AAAAAATTAAAAG
*
93084 AAAGAAAATAAAA
1 AAA-AAATTAAAA
93097 AAATCTCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (13 bp):
AAAAAATTAAAAG
Found at i:98540 original size:3 final size:3
Alignment explanation
Indices: 98532--98561 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
98522 TTACTCATCC
98532 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
98562 CACTGAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:120000 original size:357 final size:354
Alignment explanation
Indices: 119249--120155 Score: 1236
Period size: 355 Copynumber: 2.6 Consensus size: 354
119239 CTATGATAGG
** * *
119249 AATTATTAAAGGTGTCTTTCTTGGATATACGCCTTCAATAACCATGTTAAAATTTGTGTGGTGGT
1 AATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTGTGTGGCGGT
*
119314 ATATAGAAGGCATTTTAAAGTAGAAGACGCCTTTAATGATTCTCAAAATTTTTAATGAAAAAATT
66 ATATAGAAGGCATTTTACAGTAGAAGACGCCTTTAATGATTCTCAAAATTTTTAATGAAAAAATT
* **
119379 TT-ATAGACGTCTGTTATTAACAAACATCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGA
131 TTGAAAG-CGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGA
* * *
119443 AGGCGTTTTTCAAATAAATGCCTTTTATAACCATCGTGGTATATTCAAAGCATTTCATAATAAAA
195 AGGCGTTTTTCAAATAAATGCATTTCATAACCATCATGGTATATTCAAAGCATTTCATAATAAAA
* **
119508 GACGCCTTTAATAATCTGAAAATTATTTTTAAGAAAATTATTAAAGGCGTTGTTATCTGTAATTG
260 GACGCCTTTAATAATC-GAAAATTATTTTTAAGAAAATTATTAAAGGCATTGTTATCTGTAATCA
*
119573 CCTTCATTAATTATCTACAAACTGTGATAAA
324 CCTTCATTAATTATCTACAAACTGTAATAAA
* * * *
119604 AATTATTAAATGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTGTATGACGAT
1 AATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTGTGTGGCGGT
* *** * * *
119669 ATATAGAAGGCATTTTACAGTAAAAGACATATTTAATGATTCTCAAAATGTTTAGTGAAAAATTT
66 ATATAGAAGGCATTTTACAGTAGAAGACGCCTTTAATGATTCTCAAAATTTTTAATGAAAAAATT
* *
119734 TTGAAAGCGTCTGCTATTAACAAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATAGTGA
131 TTGAAAGCGTCTGTTATTAAC-AAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGA
*
119799 AGGCGCTTTTTCAAATAAATGCATTTCATAACCATCATGGTATATT-AAAGGCGTTTCATAATAA
195 AGGCG-TTTTTCAAATAAATGCATTTCATAACCATCATGGTATATTCAAA-GCATTTCATAATAA
* * * *
119863 AAGATGCCTTTAATAATC-CAAATT-TTTTTAAAAAATAAAATTATTGAAGGCATTGTTATCTGT
258 AAGACGCCTTTAATAATCGAAAATTATTTTT----AAGAAAATTATTAAAGGCATTGTTATCTGT
* * * *
119926 AATCACCTTCATTGATTGTCTAGATACTGTAATAAA
319 AATCACCTTCATTAATTATCTACAAACTGTAATAAA
* * * *
119962 AATTATTAAAGGCATCTTTCTTGGATACACG-ATTCAATAA-TCGTGTTAAAATTTATGTGGCGG
1 AATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACT-ATGTTAAAATTTGTGTGGCGG
* * * * *
120025 TATAT--AAGGTATTTTACAGTAGAAGACGCCTTTAATAATTTTTAAAATTTTTATTGAAAAAAT
65 TATATAGAAGGCATTTTACAGTAGAAGACGCCTTTAATGATTCTCAAAATTTTTAATGAAAAAAT
* *
120088 TTTGAAGGCGTCTGTTATTAACAAACGCCTTCAATAATGGATTACTAAGTTTAAAGGTATATTGA
130 TTTGAAAGCGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGA
120153 AGG
195 AGG
120156 TATTTTTTTG
Statistics
Matches: 483, Mismatches: 60, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
354 49 0.10
355 201 0.42
356 52 0.11
357 96 0.20
358 85 0.18
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (354 bp):
AATTATTAAAGGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTGTGTGGCGGT
ATATAGAAGGCATTTTACAGTAGAAGACGCCTTTAATGATTCTCAAAATTTTTAATGAAAAAATT
TTGAAAGCGTCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAA
GGCGTTTTTCAAATAAATGCATTTCATAACCATCATGGTATATTCAAAGCATTTCATAATAAAAG
ACGCCTTTAATAATCGAAAATTATTTTTAAGAAAATTATTAAAGGCATTGTTATCTGTAATCACC
TTCATTAATTATCTACAAACTGTAATAAA
Found at i:120242 original size:19 final size:17
Alignment explanation
Indices: 120218--120256 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
120208 TATTATATTA
* *
120218 TTTTTTTCTCTTTTTCT
1 TTTTTTTTTCTTTTTTT
120235 TTTTTTTTTCTTTTTTT
1 TTTTTTTTTCTTTTTTT
120252 TTTTT
1 TTTTT
120257 CAGACAGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (17 bp):
TTTTTTTTTCTTTTTTT
Found at i:120255 original size:12 final size:11
Alignment explanation
Indices: 120228--120254 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
120218 TTTTTTTCTC
120228 TTTTTCTTTTT
1 TTTTTCTTTTT
120239 TTTTTCTTTTT
1 TTTTTCTTTTT
120250 TTTTT
1 TTTTT
120255 TTCAGACAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:120536 original size:15 final size:16
Alignment explanation
Indices: 120511--120540 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
120501 AAAATTTTTT
120511 TTTGCCAAAAAAAACC
1 TTTGCCAAAAAAAACC
120527 TTTG-CAAAAAAAAC
1 TTTGCCAAAAAAAAC
120541 TTGCTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (16 bp):
TTTGCCAAAAAAAACC
Found at i:131635 original size:2 final size:2
Alignment explanation
Indices: 131628--131676 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
131618 CGAAAAGGGG
** *
131628 AT AT AT AT GC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131670 AT AT AT A
1 AT AT AT A
131677 GGAAAGCCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:134972 original size:16 final size:17
Alignment explanation
Indices: 134944--134985 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
134934 AAACTCAATT
*
134944 TTTAACTTT-TTTTTAA
1 TTTAATTTTATTTTTAA
134960 TTT-ATTTTATTTTTAA
1 TTTAATTTTATTTTTAA
134976 TTTAATTTTA
1 TTTAATTTTA
134986 ATACGTGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 13 0.57
17 6 0.26
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTAATTTTATTTTTAA
Found at i:136496 original size:2 final size:2
Alignment explanation
Indices: 136489--136523 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
136479 TCCCTCTTCT
* *
136489 TA TA TA TA TA TA TA TA TT TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
136524 GGGTTCACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:138509 original size:16 final size:15
Alignment explanation
Indices: 138473--138521 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 15
138463 CGAATTTTAA
*
138473 GGTTTTGGTTTGAGG
1 GGTTTTGGTTTTAGG
*
138488 GATTTTGGATTTTAGG
1 GGTTTTGG-TTTTAGG
*
138504 GGTTTTAGTTTT-GG
1 GGTTTTGGTTTTAGG
138518 GGTT
1 GGTT
138522 CAAAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 6 0.21
15 11 0.38
16 12 0.41
ACGTcount: A:0.10, C:0.00, G:0.39, T:0.51
Consensus pattern (15 bp):
GGTTTTGGTTTTAGG
Found at i:138550 original size:29 final size:29
Alignment explanation
Indices: 138518--138608 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 29
138508 TTAGTTTTGG
* * *
138518 GGTTCAAAATTTTTGGATTTCAATTTTAT
1 GGTTCAAAAGTTTAGGATTTCAATTTTAA
* *
138547 GGTTTAAAGGGTTTAGGATTT-AATTTTAA
1 GGTTCAAA-AGTTTAGGATTTCAATTTTAA
* * * *
138576 GGTTTAGAAGTTTGGGATTTCTATTTTAA
1 GGTTCAAAAGTTTAGGATTTCAATTTTAA
138605 GGTT
1 GGTT
138609 TCGAAAATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 10 0.20
29 32 0.63
30 9 0.18
ACGTcount: A:0.26, C:0.03, G:0.22, T:0.48
Consensus pattern (29 bp):
GGTTCAAAAGTTTAGGATTTCAATTTTAA
Found at i:138609 original size:29 final size:29
Alignment explanation
Indices: 138532--138609 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
138522 CAAAATTTTT
*
138532 GGATTTCAATTTTATGGTTTAAAGGGTTTA
1 GGATTTCAATTTTAAGGTTTAAA-GGTTTA
*
138562 GGATTT-AATTTTAAGGTTTAGAA-GTTTG
1 GGATTTCAATTTTAAGGTTTA-AAGGTTTA
*
138590 GGATTTCTATTTTAAGGTTT
1 GGATTTCAATTTTAAGGTTT
138610 CGAAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 10 0.23
29 25 0.58
30 8 0.19
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (29 bp):
GGATTTCAATTTTAAGGTTTAAAGGTTTA
Found at i:138716 original size:14 final size:13
Alignment explanation
Indices: 138697--138751 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
138687 GAATCTGGAT
138697 ATTTTAGGGATTTG
1 ATTTTAGGG-TTTG
*
138711 ATTTTAGAGTCTTG
1 ATTTTAGGGT-TTG
*
138725 AGGTTTAGGGTTTGG
1 A-TTTTAGGGTTT-G
138740 ATTTTAGGGTTT
1 ATTTTAGGGTTT
138752 AAAGAAAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 1 0.03
14 24 0.71
15 9 0.26
ACGTcount: A:0.18, C:0.02, G:0.31, T:0.49
Consensus pattern (13 bp):
ATTTTAGGGTTTG
Found at i:138742 original size:29 final size:29
Alignment explanation
Indices: 138672--138746 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
138662 TAAGGTTTGA
*
138672 AGGGTTTTGATTTTAGAATCTGGATATTTT
1 AGGG-TTTGATTTTAGAATCTGGATAGTTT
* * *
138702 AGGGATTTGATTTTAGAGTCTTGA-GGTTT
1 AGGG-TTTGATTTTAGAATCTGGATAGTTT
138731 AGGGTTTGGATTTTAG
1 AGGGTTT-GATTTTAG
138747 GGTTTAAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.08
29 15 0.38
30 21 0.54
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (29 bp):
AGGGTTTGATTTTAGAATCTGGATAGTTT
Found at i:140766 original size:134 final size:134
Alignment explanation
Indices: 140526--140789 Score: 379
Period size: 134 Copynumber: 2.0 Consensus size: 134
140516 ATCATGATTG
* *
140526 AACTTAGATTGAATCACAAGTCAAAAAATGAAGAGATCGAGATTAAACCACGAGTCAAAGGATAA
1 AACTTAGATTGAATCACAAGTCAAAAAATGAAGAGATCGAGATTAAACCACAAGTAAAAGGATAA
* * * * *
140591 CAACAATCGAGATTAAACTACGATTTTGACTTAAAAAGATCGAGATTGAACCACGAATCGAAGAA
66 CAACAATCGAGATTAAACTACAACTTTGAATTAAAAAGATCGAGATTAAACCACAAATCGAAGAA
140656 CGTT
131 CGTT
* * *
140660 AACTTGGATTGAATCATAAGT-AAGAAAAT-AAGGAGATCGGGATTAAACCACAAGTAAAAGGAT
1 AACTTAGATTGAATCACAAGTCAA-AAAATGAA-GAGATCGAGATTAAACCACAAGTAAAAGGAT
** *
140723 AACAACAATCGAGATTAAACTGTAACTTTGAATTAAAAAGATCGAGATTAAACCACAAATCGGAG
64 AACAACAATCGAGATTAAACTACAACTTTGAATTAAAAAGATCGAGATTAAACCACAAATCGAAG
140788 AA
129 AA
140790 TAAAAAGATC
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
133 4 0.03
134 111 0.97
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (134 bp):
AACTTAGATTGAATCACAAGTCAAAAAATGAAGAGATCGAGATTAAACCACAAGTAAAAGGATAA
CAACAATCGAGATTAAACTACAACTTTGAATTAAAAAGATCGAGATTAAACCACAAATCGAAGAA
CGTT
Found at i:140963 original size:34 final size:34
Alignment explanation
Indices: 140925--140995 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 34
140915 GATTTTGAAT
* **
140925 TAAAGAGATCGAGATTGAACCGCGAATCGGAGAA
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAA
*
140959 TAAAGAGATCGAGATTAAATCGCGAATCAAAGAA
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAA
140993 TAA
1 TAA
140996 TGTTAACTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.17
Consensus pattern (34 bp):
TAAAGAGATCGAGATTAAACCGCGAATCAAAGAA
Found at i:141101 original size:171 final size:170
Alignment explanation
Indices: 140622--142888 Score: 2197
Period size: 171 Copynumber: 13.3 Consensus size: 170
140612 GATTTTGACT
* * * * * *
140622 TAAAAAGATCGAGATTGAACCACGAATC---GAAGAACGTTAACTTGGATTGAATCATAAGTAAG
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * * * *
140684 AAAATAAGGAGATCGGGATTAAACCACAAGTAAAAGGATAACAACAATCGAGATTAAACTGTAAC
66 AAAATAAGGAGATC-GAATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGAT
* * ** *
140749 TTTGAATTAAAAAGATCGAGATTAAACCACAAATCGGAGAA
130 TTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
* * ** * * * * * * **
140790 TAAAAAGATCGGGATTAAATTGTGAGT-AAAAAATGACGTTAACCTGGATTGAATCACAAGTTCG
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * * * * * *
140854 AAAATAAAGAGATTGGATTAGACCACGAGTCAACGGATAACAACAACCAAGATTAAACTGTGATT
66 AAAATAAGGAGATCGAATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGATT
** *
140919 TTGAATTAAAGAGATCGAGATTGAACCGCGAATCGGAGAA
131 TTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
*
140959 TAAAGAGATCGAGATTAAATCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * * * ** *
141024 AGAATAAGGAGACCAGAATTAAATCACGAGTCAGAGGATAACAACAATCGAGATTAAACTACGAC
66 AAAATAAGGAGATC-GAATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGAT
* *
141089 TTTGATTTAAAGAGATTGA-ATTGAACCGTAAATC-AGAGAA
130 TTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGA-AGAA
* * * * *
141129 TAAAAAGATCGGGATTAAACCG-TAAGTTAGAA-AATGATGTTAACTTGGATTGAATCACAAGTC
1 TAAAGAGATCGAGATTAAACCGCGAA-TCA-AAGAATAATGTTAACTTGGATTGAATCACAAGT-
* * * * * * * **
141192 TA-AAAATAAAGAGACCGAAATTAGATCACGAGTCAAAAGATAACAACAACCGAGATTAAACTAC
63 AAGAAAATAAGGAGATCG-AATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGT
* * * *
141256 GATTTTAAATTAAAGAGATCGAGATTGAACCGTGAATTGGAGAA
127 GATTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
* * * * *
141300 TAAAGAGACCGAAATTAAACCACGAATCAGAGAATAATGTTAACTTGGATTGAATCACAAGCAAG
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * * ** **
141365 AAAATAAAGAGACCGAGATTAAACCACGAGTCAGAGGATAACAACAATTAAGATTAAACTGTGGC
66 AAAATAAGGAGATCGA-ATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGAT
* * *
141430 TTTGAATTAAAGGGATCGAGATTGAACCGTAAATCAAAAAA
130 TTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
* * *** * * * * * **
141471 TAAAAAGATCGGGATTAAATTACGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAACTCCG
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * * ***
141536 AAAATAAGGAGATCAAAATTAAACCATGAGTCAAAAGATAACAACAATCGAGATTAAACTACAAT
66 AAAATAAGGAGATC-GAATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGAT
* * * *
141601 TTTAAATTAAAGAGATC-AGGATTGAACTGTGAAT-AAGAGAA
130 TTTGAATTAAAGAGATCGA-GATTGAACCGTAAATCGA-AGAA
* * ** *
141642 TAAAGAGATCGAAATTAAATCGTAAATCAGAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * *
141707 AAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGAC
66 AAAATAAGGAGATCGA-ATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGAT
* * * ** *
141772 TTTGATTTAAAAAGATCGGGATTGAACCACAAATTGAAGAA
130 TTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
* * * ** * *
141813 TAAAGAGACCAAAATTAAACCGTAAATCAGAGAATAATGTTAACTTAGATTGAATCACAA--AAC
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAA-
* * * * * * *
141876 TGAAAATAAAGAGATCGAAATTAGATCACGAGTCAAAAGATAACAATAACCGAGATTAAACTATG
65 -GAAAATAAGGAGATCG-AATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTG
*
141941 ATTTTGAATTAAAGAGATCGAGATTGAATCGTAAATCGAAGAA
128 ATTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
* *
141984 TAAAGAGATCGGGATTAAACCACGAATCAGAA-AATAATGTTAACTTGGATTGAATCACAAGTAA
1 TAAAGAGATCGAGATTAAACCGCGAATCA-AAGAATAATGTTAACTTGGATTGAATCACAAGTAA
* * * *
142048 GAAAATACGGAGATCGGGATTAAATCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGA
65 GAAAATAAGGAGATC-GAATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGA
* * * *
142113 CTTTGAATT-AATAGATCAAGATTGAACCGTAAATCAAAGAA
129 TTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
* * * * * ** **
142154 TAAAAAGATCGGGATTAAATCGCGAGTCAGAA-AATGACATTAACTTGGATTGAATCACAAGTTC
1 TAAAGAGATCGAGATTAAACCGCGAATCA-AAGAATAATGTTAACTTGGATTGAATCACAAGTAA
* * * * * *
142218 GAAAATAAAGAGACTGGGATTAGATCACGAGTCAAAAGATAACAACAATCGAGATTAAACTGTGA
65 GAAAATAAGGAGA-TCGAATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGA
* * ** **
142283 TTTTGAATTCAAGAGATC-AGGATTAAATAGCGAATCGAAGAA
129 TTTTGAATTAAAGAGATCGA-GATTGAACCGTAAATCGAAGAA
* * **
142325 TAAAGAGAACGGGATTAAACCGTAAAT-AAGAGAATAATGTTAACTTGGATTGAATCACAAGTAA
1 TAAAGAGATCGAGATTAAACCGCGAATCAA-AGAATAATGTTAACTTGGATTGAATCACAAGTAA
* * * **
142389 GAAAATAAGAAGATCGAGATTCAACCAC-ATGT-AAGAGGATAACAACAATCGAGATTAAATTAC
65 GAAAATAAGGAGATCGA-ATTAAACCACGA-GTCAA-AGGATAACAACAATCGAGATTAAACTGT
* * *
142452 AATTTTAAATTAAAGAGATCGAGATTGAACCGTAAAT-AAGAGAA
127 GATTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGA-AGAA
* * * * * * * **
142496 TAAAAAGATTGAGATTAAACCGC-AAGTCAAAAAATGACGTTAACTTAGATTGAATTACAAGTCC
1 TAAAGAGATCGAGATTAAACCGCGAA-TCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAA
* * *
142560 GAAAATAAGGAGACCGAGATTAGACCACGAGTCAAAGGATAACAACAA-CAGAGATTAAACTATG
65 GAAAATAAGGAGATCGA-ATTAAACCACGAGTCAAAGGATAACAACAATC-GAGATTAAACTGTG
* * * * *
142624 ATTTTAAATTAAAGAGATCGAGATTGGATCGTAAATCAAAAAA
128 ATTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
** * *
142667 TAAAGAGATC-AGGATTAAACCGTAAATCAGAGAATAATATTAACTTGGATTGAATCACAAGTAA
1 TAAAGAGATCGA-GATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAA
* * *
142731 AAAAATAAGAAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGA
65 GAAAATAAGGAGATCGA-ATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGA
* * * **
142796 CTTTGAATTAAAGATATCGAGATTGAACTGCGAATCGAAGAA
129 TTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
* ** * * * *
142838 TAAAAAGATCGAGATTAAACCATGAGTCAAAAAATAATATTAAGTTGGATT
1 TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATT
142889 TAACCGCAAG
Statistics
Matches: 1724, Mismatches: 326, Indels: 95
0.80 0.15 0.04
Matches are distributed among these distances:
168 20 0.01
169 107 0.06
170 387 0.22
171 1189 0.69
172 19 0.01
173 2 0.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (170 bp):
TAAAGAGATCGAGATTAAACCGCGAATCAAAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
AAAATAAGGAGATCGAATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGATT
TTGAATTAAAGAGATCGAGATTGAACCGTAAATCGAAGAA
Found at i:141605 original size:342 final size:342
Alignment explanation
Indices: 140657--142872 Score: 2714
Period size: 342 Copynumber: 6.5 Consensus size: 342
140647 ATCGAAGAAC
* * * * * *
140657 GTTAACTTGGATTGAATCATAAGTAAGAAAATAAGGAGATCGGGATTAAACCACAAGTAAAAGGA
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGA
* * * ** **
140722 TAACAACAATCGAGATTAAACTGTAACTTTGAATTAAAAAGATCGAGATTAAACCACAAATCGGA
66 TAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCAAA
* * *
140787 GAATAAAAAGATCGGGATTAAATTGTGAGT-AAAAAATGACGTTAACCTGGATTGAATCACAAGT
131 GAATAAAAAGATCGGGATTAAATCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGT
* * * ** * *
140851 TCGAAAATAAAGAGATTG-GATTAGACCACGAGTCAACGGATAACAACAACCAAGATTAAACTGT
196 CCGAAAATAAAGAGATCGAAATTAGACCACGAGTCAAAAGATAACAACAACCGAGATTAAACTAT
* * * *
140915 GATTTTGAATTAAAGAGATCGAGATTGAACCGCGAATCGGAGAATAAAGAGATCGAGATTAAATC
261 GATTTTAAATTAAAGAGATCGAGATTGAACCGTGAATCGAAGAATAAAGAGATCGAGATTAAACC
* *
140980 GCGAATCAAAGAATAAT
326 GCAAATCAGAGAATAAT
* * * *
140997 GTTAACTTGGATTGAATCACAAGTAAGAGAATAAGGAGA-CCAGAATTAAATCACGAGTCAGAGG
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGATCGAG-ATTAAACCACGAGTCAGAGG
** * * *
141061 ATAACAACAATCGAGATTAAACTACGACTTTGATTTAAAGAGATTGA-ATTGAACCGTAAATCAG
65 ATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCAA
* ** * * *
141125 AGAATAAAAAGATCGGGATTAAACCGTAAGTTAGAAAATGATGTTAACTTGGATTGAATCACAAG
130 AGAATAAAAAGATCGGGATTAAATCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAG
** * *
141190 TCTAAAAATAAAGAGACCGAAATTAGATCACGAGTCAAAAGATAACAACAACCGAGATTAAACTA
195 TCCGAAAATAAAGAGATCGAAATTAGACCACGAGTCAAAAGATAACAACAACCGAGATTAAACTA
* * * * *
141255 CGATTTTAAATTAAAGAGATCGAGATTGAACCGTGAATTGGAGAATAAAGAGACCGAAATTAAAC
260 TGATTTTAAATTAAAGAGATCGAGATTGAACCGTGAATCGAAGAATAAAGAGATCGAGATTAAAC
* *
141320 CACGAATCAGAGAATAAT
325 CGCAAATCAGAGAATAAT
* *
141338 GTTAACTTGGATTGAATCACAAGCAAGAAAATAAAGAGACCGAGATTAAACCACGAGTCAGAGGA
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGA
** * *
141403 TAACAACAATTAAGATTAAACTGTGGCTTTGAATTAAAGGGATCGAGATTGAACCGTAAATCAAA
66 TAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCAAA
* ** *
141468 AAATAAAAAGATCGGGATTAAATTACGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAACT
131 GAATAAAAAGATCGGGATTAAATCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGT
* * * * * *
141533 CCGAAAATAAGGAGATCAAAATTAAACCATGAGTCAAAAGATAACAACAATCGAGATTAAACTAC
196 CCGAAAATAAAGAGATCGAAATTAGACCACGAGTCAAAAGATAACAACAACCGAGATTAAACTAT
* * * *
141598 AATTTTAAATTAAAGAGATC-AGGATTGAACTGTGAAT-AAGAGAATAAAGAGATCGAAATTAAA
261 GATTTTAAATTAAAGAGATCGA-GATTGAACCGTGAATCGA-AGAATAAAGAGATCGAGATTAAA
* *
141661 TCGTAAATCAGAGAATAAT
324 CCGCAAATCAGAGAATAAT
141680 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGA
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGA
* * * ** **
141745 TAACAACAATCGAGATTAAACTGTGACTTTGATTTAAAAAGATCGGGATTGAACCACAAATTGAA
66 TAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCAAA
* * *** * ** * * * * * * **
141810 GAATAAAGAGACCAAAATTAAACCGTAAATCAGAGAATAATGTTAACTTAGATTGAATCACAAAA
131 GAATAAAAAGATCGGGATTAAATCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGT
* * *
141875 CTGAAAATAAAGAGATCGAAATTAGATCACGAGTCAAAAGATAACAATAACCGAGATTAAACTAT
196 CCGAAAATAAAGAGATCGAAATTAGACCACGAGTCAAAAGATAACAACAACCGAGATTAAACTAT
* * * *
141940 GATTTTGAATTAAAGAGATCGAGATTGAATCGTAAATCGAAGAATAAAGAGATCGGGATTAAACC
261 GATTTTAAATTAAAGAGATCGAGATTGAACCGTGAATCGAAGAATAAAGAGATCGAGATTAAACC
* * *
142005 ACGAATCAGAAAATAAT
326 GCAAATCAGAGAATAAT
** * *
142022 GTTAACTTGGATTGAATCACAAGTAAGAAAATACGGAGATCGGGATTAAATCACGAGTCAGAGGA
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGA
* *
142087 TAACAACAATCGAGATTAAACTGTGACTTTGAATT-AATAGATCAAGATTGAACCGTAAATCAAA
66 TAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCAAA
* *
142151 GAATAAAAAGATCGGGATTAAATCGCGAGTCAGAAAATGACATTAACTTGGATTGAATCACAAGT
131 GAATAAAAAGATCGGGATTAAATCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGT
* ** * * *
142216 TCGAAAATAAAGAGA-CTGGGATTAGATCACGAGTCAAAAGATAACAACAATCGAGATTAAACTG
196 CCGAAAATAAAGAGATC-GAAATTAGACCACGAGTCAAAAGATAACAACAACCGAGATTAAACTA
* * * ** * * *
142280 TGATTTTGAATTCAAGAGATC-AGGATTAAATAGCGAATCGAAGAATAAAGAGAACGGGATTAAA
260 TGATTTTAAATTAAAGAGATCGA-GATTGAACCGTGAATCGAAGAATAAAGAGATCGAGATTAAA
* *
142344 CCGTAAATAAGAGAATAAT
324 CCGCAAATCAGAGAATAAT
* *
142363 GTTAACTTGGATTGAATCACAAGTAAGAAAAT-AAGAAGATCGAGATTCAACCAC-ATGTAAGAG
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAG-AGATCGAGATTAAACCACGA-GTCAGAG
* *** * *
142426 GATAACAACAATCGAGATTAAATTACAATTTTAAATTAAAGAGATCGAGATTGAACCGTAAAT-A
64 GATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCA
* * * * * *
142490 AGAGAATAAAAAGATTGAGATTAAACCGCAAGTCAAAAAATGACGTTAACTTAGATTGAATTACA
129 A-AGAATAAAAAGATCGGGATTAAATCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACA
* * * * *
142555 AGTCCGAAAATAAGGAGACCGAGATTAGACCACGAGTCAAAGGATAACAACAACAGAGATTAAAC
193 AGTCCGAAAATAAAGAGATCGAAATTAGACCACGAGTCAAAAGATAACAACAACCGAGATTAAAC
* * * * *
142620 TATGATTTTAAATTAAAGAGATCGAGATTGGATCGTAAATCAAAAAATAAAGAGATC-AGGATTA
258 TATGATTTTAAATTAAAGAGATCGAGATTGAACCGTGAATCGAAGAATAAAGAGATCGA-GATTA
*
142684 AACCGTAAATCAGAGAATAAT
322 AACCGCAAATCAGAGAATAAT
* *
142705 ATTAACTTGGATTGAATCACAAGTAAAAAAAT-AAGAAGATCGAGATTAAACCACGAGTCAGAGG
1 GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAG-AGATCGAGATTAAACCACGAGTCAGAGG
* * ** *
142769 ATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGATATCGAGATTGAACTGCGAATCGA
65 ATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCAA
* * **
142834 AGAATAAAAAGATCGAGATTAAACCATGAGTCAAAAAAT
130 AGAATAAAAAGATCGGGATTAAATCGCGAGTCAAAAAAT
142873 AATATTAAGT
Statistics
Matches: 1609, Mismatches: 247, Indels: 38
0.85 0.13 0.02
Matches are distributed among these distances:
339 43 0.03
340 142 0.09
341 490 0.30
342 928 0.58
343 6 0.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (342 bp):
GTTAACTTGGATTGAATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGA
TAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGAGATTGAACCGTAAATCAAA
GAATAAAAAGATCGGGATTAAATCGCGAGTCAAAAAATGACGTTAACTTGGATTGAATCACAAGT
CCGAAAATAAAGAGATCGAAATTAGACCACGAGTCAAAAGATAACAACAACCGAGATTAAACTAT
GATTTTAAATTAAAGAGATCGAGATTGAACCGTGAATCGAAGAATAAAGAGATCGAGATTAAACC
GCAAATCAGAGAATAAT
Found at i:142257 original size:683 final size:680
Alignment explanation
Indices: 140622--142925 Score: 2996
Period size: 683 Copynumber: 3.4 Consensus size: 680
140612 GATTTTGACT
* * * * *
140622 TAAAAAGATCGAGATTGAACCACGAATC---GAAGAACGTTAACTTGGATTGAATCATAAGTAAG
1 TAAAGAGATCGAGATTAAACCACGAATCAGAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * * * *
140684 AAAATAAGGAGATCGGGATTAAACCACAAGTAAAAGGATAACAACAATCGAGATTAAACTGTAAC
66 AAAATAAGGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGAC
* * ** ***
140749 TTTGAATTAAAAAGATCGAGATTAAACCACAAATCGGAGAATAAAAAGATCGGGATTAAATTGTG
131 TTTGAATT--AAAGATCGAGATTGAACCGCAAATCAAAGAATAAAAAGATCGGGATTAAATCACG
* *
140814 AGT-AAAAAATGACGTTAACCTGGATTGAATCACAAGTTCGAAAATAAAGAGATTG-GATTAGAC
194 AGTCAAAAAATGACATTAACTTGGATTGAATCACAAGTTCGAAAATAAAGAGA-TGAGATTAGAC
** * *
140877 CACGAGTCAACGGATAACAACAACCAAGATTAAACTGTGATTTTGAATTAAAGAGATC-GAGATT
258 CACGAGTCAAAAGATAACAACAATCGAGATTAAACTGTGATTTTGAATTAAAGAGATCAG-GATT
* * ** *
140941 GAACCGCGAATCGGAGAATAAAGAGATCGAGATTAAATCGCGAATCAAAGAATAATGTTAACTTG
322 GAACTGCGAAT-AGAGAATAAAGAGATCGAGATTAAATCGTAAATCAGAGAATAATGTTAACTTG
* * * *
141006 GATTGAATCACAAGTAAGAGAATAAGGAGA-CCAGAATTAAATCACGAGTCAGAGGATAACAACA
386 GATTGAATCACAAGTAAGAAAATAAAGAGATCGAG-ATTAAACCACGAGTCAGAGGATAACAACA
* * *
141070 ATCGAGATTAAACTACGACTTTGATTTAAAGAGAT-TGAATTGAACCGTAAATCAGAGAATAAAA
450 ATCGAGATTAAACTACGACTTTGATTTAAAGAGATCGGGATTGAACCGTAAATAAGAGAATAAAA
* * * *
141134 AGATCGGGATTAAACCGTAAGTTAGAAAATGATGTTAACTTGGATTGAATCACAAGTCTAAAAAT
515 AGATCGAGATTAAACCGTAAGTCAGAAAATGATGTTAACTTAGATTGAATCACAAGTCTGAAAAT
*
141199 AAAGAGACCGAAATTAGATCACGAGTCAAAAGATAACAACAACCGAGATTAAACTACGATTTTAA
580 AAAGAGACCGAAATTAGATCACGAGTCAAAAGATAACAACAACCGAGATTAAACTATGATTTTAA
* * * *
141264 ATTAAAGAGATCGAGATTGAACCGTGAATTGGAGAA
645 ATTAAAGAGATCGAGATTGAATCGTAAATCGAAGAA
* * *
141300 TAAAGAGACCGAAATTAAACCACGAATCAGAGAATAATGTTAACTTGGATTGAATCACAAGCAAG
1 TAAAGAGATCGAGATTAAACCACGAATCAGAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * ** *
141365 AAAATAAAGAGACCGAGATTAAACCACGAGTCAGAGGATAACAACAATTAAGATTAAACTGTGGC
66 AAAATAAGGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGAC
* * *
141430 TTTGAATTAAAGGGATCGAGATTGAACCGTAAATCAAAAAATAAAAAGATCGGGATTAAATTACG
131 TTTGAATTAAA--GATCGAGATTGAACCGCAAATCAAAGAATAAAAAGATCGGGATTAAATCACG
* * * * * * *
141495 AGTCAAAAAATGACGTTAACTTGGATTGAATCACAACTCCGAAAATAAGGAGATCAAAATTAAAC
194 AGTCAAAAAATGACATTAACTTGGATTGAATCACAAGTTCGAAAATAAAGAGAT-GAGATTAGAC
* *** *
141560 CATGAGTCAAAAGATAACAACAATCGAGATTAAACTACAATTTTAAATTAAAGAGATCAGGATTG
258 CACGAGTCAAAAGATAACAACAATCGAGATTAAACTGTGATTTTGAATTAAAGAGATCAGGATTG
* *
141625 AACTGTGAATAAGAGAATAAAGAGATCGAAATTAAATCGTAAATCAGAGAATAATGTTAACTTGG
323 AACTGCGAAT-AGAGAATAAAGAGATCGAGATTAAATCGTAAATCAGAGAATAATGTTAACTTGG
141690 ATTGAATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAAT
387 ATTGAATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAAT
** * ** * *
141755 CGAGATTAAACTGTGACTTTGATTTAAAAAGATCGGGATTGAACCACAAAT-TGAAGAATAAAGA
452 CGAGATTAAACTACGACTTTGATTTAAAGAGATCGGGATTGAACCGTAAATAAG-AGAATAAAAA
* * * * * * **
141819 GACCAAAATTAAACCGTAAATCAGAGAATAATGTTAACTTAGATTGAATCACAAAACTGAAAATA
516 GATCGAGATTAAACCGTAAGTCAGAAAATGATGTTAACTTAGATTGAATCACAAGTCTGAAAATA
* * *
141884 AAGAGATCGAAATTAGATCACGAGTCAAAAGATAACAATAACCGAGATTAAACTATGATTTTGAA
581 AAGAGACCGAAATTAGATCACGAGTCAAAAGATAACAACAACCGAGATTAAACTATGATTTTAAA
141949 TTAAAGAGATCGAGATTGAATCGTAAATCGAAGAA
646 TTAAAGAGATCGAGATTGAATCGTAAATCGAAGAA
* *
141984 TAAAGAGATCGGGATTAAACCACGAATCAGAAAATAATGTTAACTTGGATTGAATCACAAGTAAG
1 TAAAGAGATCGAGATTAAACCACGAATCAGAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
* * *
142049 AAAATACGGAGATCGGGATTAAATCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGAC
66 AAAATAAGGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGAC
* * *
142114 TTTGAATTAATAGATCAAGATTGAACCGTAAATCAAAGAATAAAAAGATCGGGATTAAATCGCGA
131 TTTGAATTAA-AGATCGAGATTGAACCGCAAATCAAAGAATAAAAAGATCGGGATTAAATCACGA
* * *
142179 GTCAGAAAATGACATTAACTTGGATTGAATCACAAGTTCGAAAATAAAGAGACTGGGATTAGATC
195 GTCAAAAAATGACATTAACTTGGATTGAATCACAAGTTCGAAAATAAAGAGA-TGAGATTAGACC
*
142244 ACGAGTCAAAAGATAACAACAATCGAGATTAAACTGTGATTTTGAATTCAAGAGATCAGGATT-A
259 ACGAGTCAAAAGATAACAACAATCGAGATTAAACTGTGATTTTGAATTAAAGAGATCAGGATTGA
* * * * * *
142308 AATAGCGAATCGAAGAATAAAGAGAACGGGATTAAACCGTAAATAAGAGAATAATGTTAACTTGG
324 ACT-GCGAATAG-AGAATAAAGAGATCGAGATTAAATCGTAAATCAGAGAATAATGTTAACTTGG
* *
142373 ATTGAATCACAAGTAAGAAAAT-AAGAAGATCGAGATTCAACCAC-ATGTAAGAGGATAACAACA
387 ATTGAATCACAAGTAAGAAAATAAAG-AGATCGAGATTAAACCACGA-GTCAGAGGATAACAACA
* * * * * *
142436 ATCGAGATTAAATTACAATTTTAAATTAAAGAGATCGAGATTGAACCGTAAATAAGAGAATAAAA
450 ATCGAGATTAAACTACGACTTTGATTTAAAGAGATCGGGATTGAACCGTAAATAAGAGAATAAAA
* * * * * *
142501 AGATTGAGATTAAACCGCAAGTCAAAAAATGACGTTAACTTAGATTGAATTACAAGTCCGAAAAT
515 AGATCGAGATTAAACCGTAAGTCAGAAAATGATGTTAACTTAGATTGAATCACAAGTCTGAAAAT
* * * * *
142566 AAGGAGACCGAGATTAGACCACGAGTCAAAGGATAACAACAACAGAGATTAAACTATGATTTTAA
580 AAAGAGACCGAAATTAGATCACGAGTCAAAAGATAACAACAACCGAGATTAAACTATGATTTTAA
* * *
142631 ATTAAAGAGATCGAGATTGGATCGTAAATCAAAAAA
645 ATTAAAGAGATCGAGATTGAATCGTAAATCGAAGAA
*** *
142667 TAAAGAGATC-AGGATTAAACCGTAAATCAGAGAATAATATTAACTTGGATTGAATCACAAGTAA
1 TAAAGAGATCGA-GATTAAACCACGAATCAGAGAATAATGTTAACTTGGATTGAATCACAAGTAA
* *
142731 AAAAATAAGAAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGA
65 GAAAATAAGGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGA
* * * * * *
142796 CTTTGAATTAAAGATATCGAGATTGAACTGCGAATCGAAGAATAAAAAGATCGAGATTAAACCAT
130 CTTTGAATTAAAG--ATCGAGATTGAACCGCAAATCAAAGAATAAAAAGATCGGGATTAAATCAC
* * * * * * *
142861 GAGTCAAAAAATAATATTAAGTTGGATTTAACCGCAAGTTAGAAAGATAAAAGAGACTGAGATTA
193 GAGTCAAAAAATGACATTAACTTGGATTGAATCACAAGTTCGAAA-AT-AAAGAGA-TGAGATTA
142926 AACTGCAAGT
Statistics
Matches: 1409, Mismatches: 193, Indels: 40
0.86 0.12 0.02
Matches are distributed among these distances:
678 24 0.02
679 3 0.00
681 141 0.10
682 55 0.04
683 790 0.56
684 378 0.27
685 3 0.00
686 15 0.01
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (680 bp):
TAAAGAGATCGAGATTAAACCACGAATCAGAGAATAATGTTAACTTGGATTGAATCACAAGTAAG
AAAATAAGGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTGTGAC
TTTGAATTAAAGATCGAGATTGAACCGCAAATCAAAGAATAAAAAGATCGGGATTAAATCACGAG
TCAAAAAATGACATTAACTTGGATTGAATCACAAGTTCGAAAATAAAGAGATGAGATTAGACCAC
GAGTCAAAAGATAACAACAATCGAGATTAAACTGTGATTTTGAATTAAAGAGATCAGGATTGAAC
TGCGAATAGAGAATAAAGAGATCGAGATTAAATCGTAAATCAGAGAATAATGTTAACTTGGATTG
AATCACAAGTAAGAAAATAAAGAGATCGAGATTAAACCACGAGTCAGAGGATAACAACAATCGAG
ATTAAACTACGACTTTGATTTAAAGAGATCGGGATTGAACCGTAAATAAGAGAATAAAAAGATCG
AGATTAAACCGTAAGTCAGAAAATGATGTTAACTTAGATTGAATCACAAGTCTGAAAATAAAGAG
ACCGAAATTAGATCACGAGTCAAAAGATAACAACAACCGAGATTAAACTATGATTTTAAATTAAA
GAGATCGAGATTGAATCGTAAATCGAAGAA
Found at i:143624 original size:41 final size:42
Alignment explanation
Indices: 143579--143674 Score: 142
Period size: 41 Copynumber: 2.3 Consensus size: 42
143569 AGGTTCCTTC
* *
143579 TAAACAGA-ACTTTTGAAATCTTGATTGAAAATGGTTTCTCT
1 TAAACAGAGACTTTTGAAATCTTAACTGAAAATGGTTTCTCT
* *
143620 TAAACAGAGGC-TTTGAAATCTTAACTGGAAATGGTTTCTCT
1 TAAACAGAGACTTTTGAAATCTTAACTGAAAATGGTTTCTCT
143661 TAAACAGAGACTTT
1 TAAACAGAGACTTT
143675 AAAACTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 45 0.94
42 3 0.06
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (42 bp):
TAAACAGAGACTTTTGAAATCTTAACTGAAAATGGTTTCTCT
Found at i:143793 original size:18 final size:18
Alignment explanation
Indices: 143767--143806 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
143757 TCATCAAATG
*
143767 ATGCTAATGAAAATGTCA
1 ATGCGAATGAAAATGTCA
* *
143785 ATGCGAATGTAAATGTCG
1 ATGCGAATGAAAATGTCA
143803 ATGC
1 ATGC
143807 AAATACAAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (18 bp):
ATGCGAATGAAAATGTCA
Found at i:144032 original size:15 final size:15
Alignment explanation
Indices: 144012--144041 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
144002 TGTCTTTTTT
144012 GTGATGCAAATACAA
1 GTGATGCAAATACAA
144027 GTGATGCAAATACAA
1 GTGATGCAAATACAA
144042 ATATCCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
GTGATGCAAATACAA
Found at i:149931 original size:23 final size:23
Alignment explanation
Indices: 149881--149932 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
149871 TTGCGTAGAA
* *
149881 GTTTTAAAGATTAGGGTTTCAAG
1 GTTTTGAAGATTAGGATTTCAAG
* * *
149904 ATTTTGAAGATTCGGATTTTAAG
1 GTTTTGAAGATTAGGATTTCAAG
149927 GTTTTG
1 GTTTTG
149933 GTTTGAGGGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.25, T:0.44
Consensus pattern (23 bp):
GTTTTGAAGATTAGGATTTCAAG
Found at i:150186 original size:15 final size:14
Alignment explanation
Indices: 150125--150204 Score: 72
Period size: 14 Copynumber: 5.5 Consensus size: 14
150115 TAAGGTTTGA
150125 AGGGTTTTGATTTT
1 AGGGTTTTGATTTT
* * *
150139 AGGATATGGATATTTT
1 AGGGTTTTG--ATTTT
*
150155 AGGGATTTGATTTT
1 AGGGTTTTGATTTT
*
150169 AGGGTTTTGAGGTTT
1 AGGGTTTTGA-TTTT
150184 AGGG-TTTGAATTTT
1 AGGGTTTTG-ATTTT
150198 AGGGTTT
1 AGGGTTT
150205 AAAGAAAACA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 31 0.61
15 10 0.20
16 10 0.20
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
AGGGTTTTGATTTT
Found at i:150532 original size:22 final size:22
Alignment explanation
Indices: 150507--150565 Score: 91
Period size: 24 Copynumber: 2.6 Consensus size: 22
150497 TAAAAAACAA
*
150507 TTAAAAAATTATCCTAACAAAT
1 TTAAAAATTTATCCTAACAAAT
150529 TTAAAAATTTATATCCTAACAAAT
1 TTAAAAA-TT-TATCCTAACAAAT
150553 TTAAAAATTTATC
1 TTAAAAATTTATC
150566 ATGCATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 11 0.32
23 3 0.09
24 20 0.59
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAAAATTTATCCTAACAAAT
Found at i:150548 original size:24 final size:24
Alignment explanation
Indices: 150516--150564 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
150506 ATTAAAAAAT
150516 TATCCTAACAAATTTAAAAATTTA
1 TATCCTAACAAATTTAAAAATTTA
150540 TATCCTAACAAATTTAAAAATTTA
1 TATCCTAACAAATTTAAAAATTTA
150564 T
1 T
150565 CATGCATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (24 bp):
TATCCTAACAAATTTAAAAATTTA
Found at i:151372 original size:11 final size:11
Alignment explanation
Indices: 151331--151377 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
151321 GGTGGAGTAA
*
151331 GGTGGCTGCAG
1 GGTGGCTGTAG
151342 GGATGGC--TAG
1 GG-TGGCTGTAG
151352 GGTAGGCTGTAG
1 GGT-GGCTGTAG
151364 GGTGGCTGTAG
1 GGTGGCTGTAG
151375 GGT
1 GGT
151378 AGGAGCGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
9 1 0.03
10 7 0.23
11 13 0.42
12 10 0.32
ACGTcount: A:0.13, C:0.11, G:0.53, T:0.23
Consensus pattern (11 bp):
GGTGGCTGTAG
Found at i:151517 original size:16 final size:15
Alignment explanation
Indices: 151477--151518 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
151467 CCCAGTTCTC
151477 TTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTG
*
151492 TTTCTATTTTTTTTTG
1 TTT-TTTTTTTTTTTG
151508 TTATTTTTTTT
1 TT-TTTTTTTT
151519 ATTAATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 19 0.83
17 1 0.04
ACGTcount: A:0.05, C:0.02, G:0.05, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTTTG
Found at i:157349 original size:6 final size:6
Alignment explanation
Indices: 157332--157368 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
157322 AAACCTCTCA
157332 AGCCTC -GCCTC AGCCTC AGCCTC AGCCTC AGCCTC AG
1 AGCCTC AGCCTC AGCCTC AGCCTC AGCCTC AGCCTC AG
157369 GTTTGCCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.16, C:0.49, G:0.19, T:0.16
Consensus pattern (6 bp):
AGCCTC
Found at i:168991 original size:3 final size:3
Alignment explanation
Indices: 168983--169028 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
168973 AAACTAGTAT
*
168983 ATA ATA ATA ATT AT- ATA ATA ATA ATA ATA ATA ATA A-A GATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
169027 AT
1 AT
169029 CTTATAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
2 3 0.08
3 35 0.90
4 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:171267 original size:2 final size:2
Alignment explanation
Indices: 171260--171294 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
171250 TGGTAGTTGA
171260 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
171295 ATATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:171299 original size:2 final size:2
Alignment explanation
Indices: 171294--171324 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
171284 TCTCTCTCTC
171294 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 T
171325 CAAATAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:173644 original size:3 final size:3
Alignment explanation
Indices: 173636--173661 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
173626 TGCAACCCAA
173636 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
173662 ATATGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:174665 original size:49 final size:50
Alignment explanation
Indices: 174570--174669 Score: 166
Period size: 49 Copynumber: 2.0 Consensus size: 50
174560 GTTAATTAGG
* * *
174570 AAAATCCTTATCCCGTTAATTATACCTTTTTATTTTAAAGATAGATACTA
1 AAAATCCGTATCCCGTTAATTACACCTTTTTATGTTAAAGATAGATACTA
174620 AAAATCCGTATCCCGTTAATTACA-CTTTTTATGTTAAAGATAGATACTA
1 AAAATCCGTATCCCGTTAATTACACCTTTTTATGTTAAAGATAGATACTA
174669 A
1 A
174670 TCTCCACATT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 25 0.53
50 22 0.47
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (50 bp):
AAAATCCGTATCCCGTTAATTACACCTTTTTATGTTAAAGATAGATACTA
Found at i:177525 original size:17 final size:18
Alignment explanation
Indices: 177500--177537 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
177490 TTCCTCGTGG
* *
177500 TTTTGTTGTTTGCT-TTC
1 TTTTCTTGTTTCCTCTTC
177517 TTTTCTTGTTTCCTCTTC
1 TTTTCTTGTTTCCTCTTC
177535 TTT
1 TTT
177538 CTATCTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.00, C:0.18, G:0.11, T:0.71
Consensus pattern (18 bp):
TTTTCTTGTTTCCTCTTC
Found at i:186059 original size:2 final size:2
Alignment explanation
Indices: 186052--186102 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
186042 CACCTATGCT
*
186052 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
186093 TA TA TA TA TA
1 TA TA TA TA TA
186103 AAATGCAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:189331 original size:5 final size:5
Alignment explanation
Indices: 189300--189330 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
189290 AGTCATTTTC
*
189300 CCTAT CCTAT CCTAT CCTAT CCTAT CTTAT C
1 CCTAT CCTAT CCTAT CCTAT CCTAT CCTAT C
189331 TATGAATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.19, C:0.39, G:0.00, T:0.42
Consensus pattern (5 bp):
CCTAT
Found at i:190978 original size:2 final size:2
Alignment explanation
Indices: 190973--191010 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
190963 ATATATATAT
190973 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
191011 TGTGTGATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:191666 original size:4 final size:4
Alignment explanation
Indices: 191657--191681 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
191647 ATTAAATATT
191657 CCAC CCAC CCAC CCAC CCAC CCAC C
1 CCAC CCAC CCAC CCAC CCAC CCAC C
191682 AAACTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.76, G:0.00, T:0.00
Consensus pattern (4 bp):
CCAC
Found at i:197403 original size:2 final size:2
Alignment explanation
Indices: 197396--197427 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
197386 TGTCTGCTTT
197396 TA 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 TA
197428 CATAAGGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:204603 original size:2 final size:2
Alignment explanation
Indices: 204596--204633 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
204586 ACCCTATTTA
204596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
204634 CCAATGGGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:205267 original size:2 final size:2
Alignment explanation
Indices: 205260--205297 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
205250 ACTTTTTACC
205260 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
205298 CAATTACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:206389 original size:2 final size:2
Alignment explanation
Indices: 206378--206417 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
206368 TTTTGGTTAG
206378 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
206418 TTGAAAAGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:209374 original size:26 final size:26
Alignment explanation
Indices: 209344--209394 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
209334 GATCAAAGGA
*
209344 CTATTGGTAATGCATGTCTATTTTAG
1 CTATTGGTAATACATGTCTATTTTAG
209370 CTATTGGTAATACATGTCTATTTTA
1 CTATTGGTAATACATGTCTATTTTA
209395 TCTAACACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (26 bp):
CTATTGGTAATACATGTCTATTTTAG
Found at i:209428 original size:14 final size:16
Alignment explanation
Indices: 209409--209440 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
209399 ACACTCAGTT
209409 AATCAC-AT-AATTAC
1 AATCACAATAAATTAC
209423 AATCACAATAAATTAC
1 AATCACAATAAATTAC
209439 AA
1 AA
209441 ATAATTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (16 bp):
AATCACAATAAATTAC
Found at i:213334 original size:6 final size:6
Alignment explanation
Indices: 213323--213347 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
213313 GTACTTGATA
213323 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
213348 TAAATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:215147 original size:26 final size:26
Alignment explanation
Indices: 215092--215149 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
215082 ATATAACATT
* ** *
215092 ATTTTATTTTATTTTTATTTTTTAAT
1 ATTTTATTTTATTTTTAATTTGAAAA
215118 ATTTTATTTT-TTTCTTAATTTGAAAA
1 ATTTTATTTTATTT-TTAATTTGAAAA
215144 ATTTTA
1 ATTTTA
215150 AAAAATGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
ATTTTATTTTATTTTTAATTTGAAAA
Found at i:215207 original size:22 final size:23
Alignment explanation
Indices: 215159--215206 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
215149 AAAAAATGGT
215159 AAATAAAAAGAGTAAAACAAAAA
1 AAATAAAAAGAGTAAAACAAAAA
215182 AAATAGAAAAG-GTAAAACAAAAA
1 AAATA-AAAAGAGTAAAACAAAAA
215205 AA
1 AA
215207 TTTATGATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.77, C:0.04, G:0.10, T:0.08
Consensus pattern (23 bp):
AAATAAAAAGAGTAAAACAAAAA
Found at i:220804 original size:2 final size:2
Alignment explanation
Indices: 220797--220830 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
220787 GTTTGGCCTA
* *
220797 AT AT AT AT TT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
220831 TAGTAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 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):
AT
Found at i:223660 original size:2 final size:2
Alignment explanation
Indices: 223653--223689 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
223643 TATCTCTAAA
223653 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
223690 ATGACTGAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:227307 original size:46 final size:46
Alignment explanation
Indices: 227241--227334 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
227231 ACATATGTAC
* *
227241 TTTTTCTTAAAGCTTAATAATTTATAGGAATAGGATGGAGAATCAT
1 TTTTTCTTAAAGCTTAATAATTAATAGGAATAGGAAGGAGAATCAT
227287 TTTTTCTTAAAGCTTAATAATTAATAGGAATAGGAAGGAGAATCAT
1 TTTTTCTTAAAGCTTAATAATTAATAGGAATAGGAAGGAGAATCAT
227333 TT
1 TT
227335 ACAAAAGCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (46 bp):
TTTTTCTTAAAGCTTAATAATTAATAGGAATAGGAAGGAGAATCAT
Found at i:234169 original size:2 final size:2
Alignment explanation
Indices: 234164--234207 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
234154 ATAGGTAAAG
234164 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
234206 GA
1 GA
234208 ATTCTTTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:242321 original size:12 final size:12
Alignment explanation
Indices: 242304--242335 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
242294 TGAACATTAA
242304 TCAAACATGTTC
1 TCAAACATGTTC
242316 TCAAACATGTTC
1 TCAAACATGTTC
242328 TCAAACAT
1 TCAAACAT
242336 ATATAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (12 bp):
TCAAACATGTTC
Found at i:242432 original size:20 final size:21
Alignment explanation
Indices: 242393--242447 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
242383 AAATCTAAAC
*
242393 AAACAAACCCTAAATGAACAT
1 AAACAAACCCTAAATAAACAT
*
242414 AAACGAACCC-AAATAAACAT
1 AAACAAACCCTAAATAAACAT
* *
242434 TAACAAACCTTAAA
1 AAACAAACCCTAAA
242448 ATAGGATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.58, C:0.24, G:0.04, T:0.15
Consensus pattern (21 bp):
AAACAAACCCTAAATAAACAT
Found at i:246588 original size:20 final size:24
Alignment explanation
Indices: 246542--246593 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
246532 TATATATTTA
246542 ATTTTATATTTATATTAAAATTAAT
1 ATTTTATATTTATA-TAAAATTAAT
246567 ATTTTATATTTA-A-AAAA-T-AT
1 ATTTTATATTTATATAAAATTAAT
246587 ATTTTAT
1 ATTTTAT
246594 TAATTTCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.33
21 1 0.04
22 4 0.15
24 1 0.04
25 12 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTATATTTATATAAAATTAAT
Found at i:246594 original size:18 final size:19
Alignment explanation
Indices: 246546--246594 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
246536 TATTTAATTT
246546 TATA-TTTATATTAAAATTAA
1 TATATTTTAT-TTAAAA-TAA
246566 TAT-TTTATATTTAAAA-AA
1 TATATTT-TATTTAAAATAA
246584 TATATTTTATT
1 TATATTTTATT
246595 AATTTCGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
18 9 0.35
19 3 0.12
20 11 0.42
21 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTTATTTAAAATAA
Found at i:256820 original size:12 final size:12
Alignment explanation
Indices: 256803--256828 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
256793 ATGTGCGTTG
256803 CCTCTCTTATAT
1 CCTCTCTTATAT
256815 CCTCTCTTATAT
1 CCTCTCTTATAT
256827 CC
1 CC
256829 AATATGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.46
Consensus pattern (12 bp):
CCTCTCTTATAT
Found at i:266870 original size:15 final size:17
Alignment explanation
Indices: 266841--266873 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
266831 AAATAATAAT
266841 TTTTTTATAATTATATC
1 TTTTTTATAATTATATC
266858 TTTTTTA-AATATATAT
1 TTTTTTATAAT-TATAT
266874 AAATAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTTATAATTATATC
Found at i:267320 original size:2 final size:2
Alignment explanation
Indices: 267315--267349 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
267305 TTTCAAAATC
267315 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
267350 AACCCATGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:272377 original size:3 final size:3
Alignment explanation
Indices: 272369--272393 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
272359 CAAATCATGT
272369 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
272394 GATGCAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:278385 original size:2 final size:2
Alignment explanation
Indices: 278380--278405 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
278370 ATACACACAC
278380 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
278406 TAGTAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:280948 original size:21 final size:22
Alignment explanation
Indices: 280897--280945 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
280887 ACTTGAATTC
280897 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
280919 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
280941 ATAAA
1 ATAAA
280946 TATGTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:280955 original size:8 final size:8
Alignment explanation
Indices: 280935--280975 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
280925 TATTATTTTT
280935 TAAA-ATA
1 TAAATATA
*
280942 TAAATATG
1 TAAATATA
280950 TAAATATA
1 TAAATATA
*
280958 TAATTATA
1 TAAATATA
280966 TAAATATA
1 TAAATATA
280974 TA
1 TA
280976 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (8 bp):
TAAATATA
Found at i:283948 original size:6 final size:6
Alignment explanation
Indices: 283940--283977 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
283930 CAAATCTATT
*
283940 CCCATT CCCATC CCCATC CCCATC CCCATC CCCATC CC
1 CCCATC CCCATC CCCATC CCCATC CCCATC CCCATC CC
283978 ACAAGTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.66, G:0.00, T:0.18
Consensus pattern (6 bp):
CCCATC
Found at i:284126 original size:29 final size:27
Alignment explanation
Indices: 284082--284138 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
284072 CTTACACAAT
*
284082 TATATAATTTTTATAAATATATATTAA
1 TATATAATTTTTATAAAAATATATTAA
*
284109 TATATATTTTTTAAATAAAAATATATTAA
1 TATATAATTTTT--ATAAAAATATATTAA
284138 T
1 T
284139 TGTAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 11 0.42
29 15 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TATATAATTTTTATAAAAATATATTAA
Found at i:287757 original size:32 final size:34
Alignment explanation
Indices: 287719--287781 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 34
287709 AATAATTTTA
* *
287719 TTAATTGAATCAAA-TTTATT-AGTTTTAAAATT
1 TTAATTGAATAAAATTTTATTAAATTTTAAAATT
*
287751 TTAATTGACTAAAATTTTATTAAATTTTAAA
1 TTAATTGAATAAAATTTTATTAAATTTTAAA
287782 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 12 0.46
33 6 0.23
34 8 0.31
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (34 bp):
TTAATTGAATAAAATTTTATTAAATTTTAAAATT
Found at i:287788 original size:16 final size:16
Alignment explanation
Indices: 287769--287836 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 16
287759 CTAAAATTTT
287769 ATTAAATTTTAAATTA
1 ATTAAATTTTAAATTA
287785 ATTAAA---T-AA-TA
1 ATTAAATTTTAAATTA
*
287796 AATAAA-TTTAAATTA
1 ATTAAATTTTAAATTA
*
287811 TATTATATTTTAAATT-
1 -ATTAAATTTTAAATTA
*
287827 CTTAAATTTT
1 ATTAAATTTT
287837 CATATTTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
11 7 0.17
12 2 0.05
13 2 0.05
14 2 0.05
15 10 0.24
16 10 0.24
17 8 0.20
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAAATTTTAAATTA
Done.