Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold74
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: 4633657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 25 characters in sequence are not A, C, G, or T
File 1 of 24
Found at i:108 original size:8 final size:7
Alignment explanation
Indices: 9--1686 Score: 1307
Period size: 7 Copynumber: 224.0 Consensus size: 7
1 CCGAAAAC
9 CCCG-AA
1 CCCGAAA
*
15 CCCGACA
1 CCCGAAA
22 CCCGAAA
1 CCCGAAA
29 CCCGAAA
1 CCCGAAA
36 CCCGAAA
1 CCCGAAA
*
43 CCCCAAA
1 CCCGAAA
50 CCCGAAA
1 CCCGAAA
57 CCCGAACAA
1 CCCG-A-AA
*
66 CCTGAAA
1 CCCGAAA
73 CCCGAAA
1 CCCGAAA
80 CCCGAAA
1 CCCGAAA
87 CCCGAAA
1 CCCGAAA
94 CCCGAAA
1 CCCGAAA
101 CTCCGAAAA
1 C-CCG-AAA
110 CCCGAAAA
1 CCCG-AAA
118 CCCGAAA
1 CCCGAAA
125 CCTCGAAA
1 CC-CGAAA
133 CCCCG-AA
1 -CCCGAAA
140 CCCGACAAA
1 CCCG--AAA
149 CTCCCGAAA
1 --CCCGAAA
*
158 CCCGCAA
1 CCCGAAA
165 CCCG-AA
1 CCCGAAA
171 CCCG-AA
1 CCCGAAA
177 CCCG-AA
1 CCCGAAA
183 CCCGAAA
1 CCCGAAA
190 CCCGAAA
1 CCCGAAA
197 CCCGAAA
1 CCCGAAA
204 CCCGAAA
1 CCCGAAA
211 CCCGAAAA
1 CCCG-AAA
219 CTCCGAAA
1 C-CCGAAA
227 CCCGATAA
1 CCCGA-AA
235 CCCGAAA
1 CCCGAAA
242 CCCGAAA
1 CCCGAAA
249 CCCGAAA
1 CCCGAAA
256 CCCGAAA
1 CCCGAAA
263 CCCGAAAA
1 CCCG-AAA
271 CTCCG-AA
1 C-CCGAAA
278 CCCGAAA
1 CCCGAAA
285 CCCGAAA
1 CCCGAAA
292 CCCGAAA
1 CCCGAAA
299 CCCGAAAA
1 CCCG-AAA
307 CCCCGAAA
1 -CCCGAAA
315 CCCGAAGAAA
1 CCC---GAAA
*
325 CCCTAAA
1 CCCGAAA
332 CCCGAAA
1 CCCGAAA
*
339 CCCGTACA
1 CCCG-AAA
347 CCCGAAA
1 CCCGAAA
354 CCCGAAA
1 CCCGAAA
*
361 CCCTAAA
1 CCCGAAA
368 CCCGAAA
1 CCCGAAA
375 CCCCGAAA
1 -CCCGAAA
383 CCCGAGAA
1 CCCGA-AA
*
391 CCCGGAAC
1 CCC-GAAA
399 CCCGAAA
1 CCCGAAA
406 CCCGAAA
1 CCCGAAA
413 CCCGAAAAA
1 CCCG--AAA
422 CCTCGGAAA
1 CC-C-GAAA
431 TCCCGAAA
1 -CCCGAAA
439 CCCGACAA
1 CCCGA-AA
447 CCCGAAA
1 CCCGAAA
*
454 CCGGAAA
1 CCCGAAA
461 CCCGAAA
1 CCCGAAA
*
468 CCC-AAC
1 CCCGAAA
474 CTCCGAAA
1 C-CCGAAA
482 CCCGGAAA
1 CCC-GAAA
490 -CCGAAA
1 CCCGAAA
496 CCCGATAAA
1 CCCG--AAA
*
505 TACCGAAA
1 -CCCGAAA
513 CCCGAAA
1 CCCGAAA
520 CCCCG-AA
1 -CCCGAAA
527 CCCGAAA
1 CCCGAAA
534 TCCCGAAA
1 -CCCGAAA
542 CCCGAAA
1 CCCGAAA
549 CCCG-AA
1 CCCGAAA
555 CCCGAAA
1 CCCGAAA
562 CCTCGAAA
1 CC-CGAAA
**
570 CCCCCAA
1 CCCGAAA
577 CCCGAAA
1 CCCGAAA
*
584 CCCATAATA
1 CCC-GAA-A
593 CCCGAAAA
1 CCCG-AAA
*
601 CCCCAAAA
1 -CCCGAAA
*
609 CCCCAAA
1 CCCGAAA
*
616 CCCCCAAA
1 -CCCGAAA
* *
624 CCCCACTAC
1 CCCGA--AA
*
633 CCCAAAA
1 CCCGAAA
640 CCCGAAA
1 CCCGAAA
*
647 CCCCCCAAAA
1 ---CCCGAAA
657 CCCG-AA
1 CCCGAAA
663 CCCGAAAAA
1 CCCG--AAA
672 CCCGAAA
1 CCCGAAA
679 CCCGAACA
1 CCCGAA-A
687 CCCGAAA
1 CCCGAAA
694 CCTCGAAAA
1 CC-CG-AAA
703 CCCGAGAAA
1 CCC--GAAA
712 CCTCGAAA
1 CC-CGAAA
*
720 ACCGAAA
1 CCCGAAA
*
727 CCTCGCAA
1 CC-CGAAA
735 CTCCG-AA
1 C-CCGAAA
742 -CCG-AA
1 CCCGAAA
747 CCCGAAACA
1 CCCG-AA-A
*
756 CCCGACA
1 CCCGAAA
763 CCCGAAA
1 CCCGAAA
770 CCCGAAA
1 CCCGAAA
777 CCCGAAA
1 CCCGAAA
784 CCCGAAA
1 CCCGAAA
791 CGCCGAAA
1 C-CCGAAA
*
799 CCCGACA
1 CCCGAAA
806 CCCGTAAA
1 CCCG-AAA
814 CCCGAAA
1 CCCGAAA
*
821 ---TAAA
1 CCCGAAA
825 CCCGGAAA
1 CCC-GAAA
833 CCCGAATAA
1 CCCG-A-AA
842 CCCGGATAA
1 CCC-GA-AA
851 TTTCCTCGGAGAAA
1 ---CC-C---GAAA
865 CCCGAAA
1 CCCGAAA
*
872 CCCGAAC
1 CCCGAAA
879 CCCGGAAAA
1 CCC-G-AAA
888 CCCGAAA
1 CCCGAAA
895 CCCGAAAA
1 CCCG-AAA
903 CCCGAAA
1 CCCGAAA
*
910 CCCGGCAA
1 CCC-GAAA
*
918 CCCGGACA
1 CCC-GAAA
926 CCCGAAA
1 CCCGAAA
*
933 CCCGAAC
1 CCCGAAA
*
940 CCCGCAA
1 CCCGAAA
947 CCC-AAA
1 CCCGAAA
953 CCCCGAAA
1 -CCCGAAA
961 CCCGAAAA
1 CCCG-AAA
969 CCCGAAA
1 CCCGAAA
976 CCCGAAA
1 CCCGAAA
*
983 -CCGGAA
1 CCCGAAA
989 CCCGAAA
1 CCCGAAA
996 CCCGAAA
1 CCCGAAA
1003 CTCCG-AA
1 C-CCGAAA
1010 CCCGAAA
1 CCCGAAA
* **
1017 ACTAAAA
1 CCCGAAA
*
1024 CCCGCAA
1 CCCGAAA
1031 CCCGATAA
1 CCCGA-AA
1039 CCCGAAA
1 CCCGAAA
1046 CCCGAAA
1 CCCGAAA
1053 CCCGTAAA
1 CCCG-AAA
1061 CCCGAAAA
1 CCCG-AAA
1069 CCCGGAAA
1 CCC-GAAA
* *
1077 ACCGAAC
1 CCCGAAA
1084 CCCGGAAAAA
1 CCC-G--AAA
1094 CCCGAAAAA
1 CCCG--AAA
*
1103 CCCGACAC
1 CCCGA-AA
1111 CCCGTAAA
1 CCCG-AAA
1119 CCCGAAA
1 CCCGAAA
1126 CCCGAATTAA
1 CCCG-A--AA
1136 CCCGAAA
1 CCCGAAA
1143 CCCGAAA
1 CCCGAAA
1150 -CCGTATATAA
1 CCCG---A-AA
1160 CCCCGAAA
1 -CCCGAAA
* *
1168 ACCTAACA
1 CCCGAA-A
1176 CCCTG-AA
1 CCC-GAAA
1183 CCCGAAA
1 CCCGAAA
1190 CCCGAATAAA
1 CCCG---AAA
*
1200 CCCGGAAC
1 CCC-GAAA
1208 CCCGAAA
1 CCCGAAA
1215 CCCGAACA
1 CCCGAA-A
1223 CCCGAAA
1 CCCGAAA
1230 CCCGAAA
1 CCCGAAA
1237 CCCGAAA
1 CCCGAAA
1244 CCCGAAA
1 CCCGAAA
1251 CCCCGAACAA
1 -CCCG-A-AA
* *
1261 CCTGTCAA
1 CCCG-AAA
1269 -CCGAAA
1 CCCGAAA
1275 CCCGAAA
1 CCCGAAA
*
1282 CCCTAAA
1 CCCGAAA
1289 TCCCGAAA
1 -CCCGAAA
*
1297 CCCTAAA
1 CCCGAAA
1304 CCCGAAA
1 CCCGAAA
1311 CCCGAAA
1 CCCGAAA
1318 -CCGAAA
1 CCCGAAA
1324 CCCGAAA
1 CCCGAAA
1331 CCCGAAA
1 CCCGAAA
1338 -CCGAAAA
1 CCCG-AAA
1345 CCCCGAAA
1 -CCCGAAA
*
1353 CCCGAAC
1 CCCGAAA
1360 CTCCGAAA
1 C-CCGAAA
1368 CCCGAAA
1 CCCGAAA
1375 CCCGAAA
1 CCCGAAA
1382 CCCGAAA
1 CCCGAAA
1389 CCCGAAA
1 CCCGAAA
1396 CCCGAAAA
1 CCCG-AAA
1404 CCCGAAAA
1 CCCG-AAA
1412 CCCGAAA
1 CCCGAAA
1419 TCCCGAAAA
1 -CCCG-AAA
1428 CCCGGAAA
1 CCC-GAAA
*
1436 -CCGACA
1 CCCGAAA
1442 CCCG-AA
1 CCCGAAA
1448 CCCGAAA
1 CCCGAAA
1455 CCCGAAA
1 CCCGAAA
1462 CTCCTTTG-AA
1 C-CC---GAAA
1472 -CCGAAAA
1 CCCG-AAA
*
1479 CCCAAAA
1 CCCGAAA
1486 CCCGAAA
1 CCCGAAA
*
1493 CCCTTATTTAA
1 CCC-GA---AA
1504 -CCGAAA
1 CCCGAAA
1510 -CCGAAA
1 CCCGAAA
1516 CCCGAAAA
1 CCCG-AAA
1524 CCCGAAAAA
1 CCCG--AAA
1533 CCCGAAAA
1 CCCG-AAA
1541 CTCCGAAA
1 C-CCGAAA
1549 CCCGAAA
1 CCCGAAA
1556 -CCGAAAAA
1 CCCG--AAA
*
1564 CCCTAAA
1 CCCGAAA
*
1571 CCCGAAC
1 CCCGAAA
*
1578 CCCTAAA
1 CCCGAAA
*
1585 CCCTAAA
1 CCCGAAA
1592 CCCGAAA
1 CCCGAAA
*
1599 CCCTAAAA
1 CCC-GAAA
*
1607 CCCTAAA
1 CCCGAAA
1614 CCCG-AA
1 CCCGAAA
1620 CCACGAAA
1 CC-CGAAA
1628 CCCGAAA
1 CCCGAAA
1635 CCCGAAA
1 CCCGAAA
*
1642 CCCTGACTA
1 CCC-GA-AA
*
1651 CCCTAAA
1 CCCGAAA
*
1658 CCCGCAA
1 CCCGAAA
1665 CCCGAAA
1 CCCGAAA
1672 CCCGAAA
1 CCCGAAA
1679 CCCCGAAA
1 -CCCGAAA
1687 ACCATAAACC
Statistics
Matches: 1401, Mismatches: 110, Indels: 320
0.77 0.06 0.17
Matches are distributed among these distances:
4 3 0.00
5 6 0.00
6 103 0.07
7 739 0.53
8 347 0.25
9 134 0.10
10 48 0.03
11 11 0.01
12 5 0.00
13 1 0.00
14 2 0.00
15 2 0.00
ACGTcount: A:0.41, C:0.42, G:0.13, T:0.04
Consensus pattern (7 bp):
CCCGAAA
Found at i:725 original size:33 final size:31
Alignment explanation
Indices: 21--1677 Score: 445
Period size: 29 Copynumber: 55.5 Consensus size: 31
11 CGAACCCGAC
* *
21 ACCCGAAACCCGAA-ACCCGAAACC-C-CAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
49 ACCCGAAACCCGAACAACCTGAAACC-CG-AA
1 ACCCGAAACCCGAACAACC-GAAACCTCGAAA
*
79 ACCCGAAACCCGAA-ACCCGAAA-CTCCGAAA
1 ACCCGAAACCCGAACAACCGAAACCT-CGAAA
109 ACCCG-AA----AAC--CCGAAACCTCGAAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
* *
133 CCCCG-AACCCG-ACAAACTCCCGAAACC-CG-CA
1 ACCCGAAACCCGAAC-AA---CCGAAACCTCGAAA
*
164 ACCCGAAC-CCGAAC--CCG-AACC-CGAAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
*
190 -CCCGAAACCCGAA-ACCCGAAACC-CGAAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
*
218 ACTCCGAAACCCGATA-ACCCGAAACC-CG-AA
1 AC-CCGAAACCCGA-ACAACCGAAACCTCGAAA
* *
248 ACCCGAAACCCGAA-ACCCGAAAACTCCG--A
1 ACCCGAAACCCGAACAACCGAAACCT-CGAAA
*
277 ACCCGAAACCCGAA-ACCCGAAACC-CGAAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
* *
306 ACCCCGAAACCCGAAGAAACCCTAAACC-CG-AA
1 A-CCCGAAACCCGAA-CAA-CCGAAACCTCGAAA
* * *
338 ACCCGTACACCCGAA-ACCCGAAACC-C-TAA
1 ACCCG-AAACCCGAACAACCGAAACCTCGAAA
* *
367 ACCCGAAACCCCGAA-ACCCGAGAACC-CGGAA
1 ACCCGAAA-CCCGAACAACCGA-AACCTCGAAA
* * *
398 CCCCGAAACCCGAA-ACCCGAAAAACCTCGGAA
1 ACCCGAAACCCGAACAACCG--AAACCTCGAAA
*
430 ATCCCGAAACCCG-ACAACCCGAAA-C-CGGAA
1 A-CCCGAAACCCGAACAA-CCGAAACCTCGAAA
** *
460 ACCCGAAACCC-AACCTCCGAAACC-CGGAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
*
489 A-CCGAAACCCGATAAATACCGAAACC-CGAAA
1 ACCCGAAACCCGA-ACA-ACCGAAACCTCGAAA
* *
520 CCCCG-AACCCGAA-ATCCCGAAACC-CG-AA
1 ACCCGAAACCCGAACA-ACCGAAACCTCGAAA
* **
548 ACCCG-AACCCGAA-ACCTCGAAACC-C-CCA
1 ACCCGAAACCCGAACAAC-CGAAACCTCGAAA
* * * *
576 ACCCGAAACCCATAATACCCGAAAACC-CCAAA
1 ACCCGAAACCC-GAACAACCG-AAACCTCGAAA
* * * * * *
608 ACCCCAAACCCCCAA-ACCCCACTACC-CCAAA
1 ACCCGAAA-CCCGAACAACCGA-AACCTCGAAA
*
639 ACCCGAAACCCCCCAA-AACCCG-AACC-CGAAAA
1 ACCCGAAA--CCCGAACAA-CCGAAACCTCG-AAA
*
671 ACCCGAAACCCGAACACCCGAAACCTCGAAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
*
702 ACCCGAGAAACCTCGAA-AACCGAAACCTCG-CA
1 ACCC--GAAACC-CGAACAACCGAAACCTCGAAA
* *
734 ACTCCG-AA-CCGAAC--CCGAAACACCCG-AC
1 AC-CCGAAACCCGAACAACCGAAAC-CTCGAAA
*
762 ACCCGAAACCCGAA-ACCCGAAACC-CG-AA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
*
790 ACGCCGAAACCCG-ACACCCGTAAACC-CGAAATAA
1 AC-CCGAAACCCGAACAACCG-AAACCTCG--A-AA
*
824 ACCCGGAAACCCGAATAACCCGGATAATTTCCTCGGAGAA
1 ACCC-GAAACCCGAACAA-CC-GA-AA---CCTC-GA-AA
*
864 ACCCGAAACCCGAAC-CCCGGAAAACC-CG-AA
1 ACCCGAAACCCGAACAACC-G-AAACCTCGAAA
* * * *
894 ACCCGAAAACCCGAA-ACCCGGCAACC-CGGAC
1 ACCCG-AAACCCGAACAACC-GAAACCTCGAAA
* *
925 ACCCGAAACCCGAAC-CCCGCAACC-C-AAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
*
953 CCCCGAAACCCGAA-AACCCGAAACC-CG-AA
1 ACCCGAAACCCGAACAA-CCGAAACCTCGAAA
* *
982 A-CCGGAACCCGAA-ACCCGAAA-CTCCG--A
1 ACCCGAAACCCGAACAACCGAAACCT-CGAAA
* * * *
1009 ACCCGAAA-ACTAA-AACCCGCAACC-CGATA
1 ACCCGAAACCCGAACAA-CCGAAACCTCGAAA
*
1038 ACCCGAAACCCGAA-ACCCGTAAACC-CGAAA
1 ACCCGAAACCCGAACAACCG-AAACCTCGAAA
* *
1068 ACCCGGAAAACCGAAC-CCCGGAAAAACC-CGAAAA
1 ACCC-GAAACCCGAACAACC-G--AAACCTCG-AAA
* *
1102 ACCCGACACCCCGTAA-ACCCGAAACC-CGAATTA
1 ACCCGA-AACCCG-AACAACCGAAACCTCGAA--A
*
1135 ACCCGAAACCCG-A-AACCGTATATAACCCCGAAA
1 ACCCGAAACCCGAACAACCG---A-AACCTCGAAA
*
1168 A-CCTAACACCCTGAAC--CCGAAACC-CGAATAA
1 ACCCGAA-ACCC-GAACAACCGAAACCTCG-A-AA
* *
1199 ACCCGGAACCCCGAA-ACCCGAACACC-CG-AA
1 ACCC-GAAACCCGAACAACCGAA-ACCTCGAAA
* *
1229 ACCCGAAACCCGAA-ACCCGAAACCCCGAACA
1 ACCCGAAACCCGAACAACCGAAACCTCGAA-A
* * * *
1260 ACCTGTCAA-CCGAA-ACCCGAAACC-CTAAA
1 ACCCG-AAACCCGAACAACCGAAACCTCGAAA
* * *
1289 TCCCGAAACCCTAA-ACCCGAAACC-CG-AA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
*
1317 A-CCGAAACCCGAA-ACCCGAAA-C-CGAAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
**
1344 ACCCCGAAACCCGAACCTCCGAAACC-CG-AA
1 A-CCCGAAACCCGAACAACCGAAACCTCGAAA
*
1374 ACCCGAAACCCGAA-ACCCGAAACC-CGAAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
1403 ACCCG-AA----AAC--CCGAAATCC-CGAAA
1 ACCCGAAACCCGAACAACCGAAA-CCTCGAAA
*
1427 ACCCGGAAA-CCG-ACACCCGA-ACC-CGAAA
1 ACCC-GAAACCCGAACAACCGAAACCTCGAAA
****
1455 -CCCGAAACTCCTTTGAACCGAAAACC-C-AAA
1 ACCCGAAAC-CCGAACAACCG-AAACCTCGAAA
* **
1485 ACCCGAAACCCTTATTTAACCGAAA-C-CG-AA
1 ACCCGAAACCC-GA-ACAACCGAAACCTCGAAA
* *
1515 ACCCGAAAACCCGAAAAACCCGAAAACTCCG-AA
1 ACCCG-AAACCCGAACAA-CCGAAACCT-CGAAA
* *
1548 ACCCGAAA-CCGAAAAACCCTAAACC-CG-AA
1 ACCCGAAACCCGAACAA-CCGAAACCTCGAAA
* * * * *
1577 CCCCTAAACCCTAA-ACCCGAAACC-CTAAA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
* *
1606 ACCCTAAACCCGAACCA-CGAAACC-CG-AA
1 ACCCGAAACCCGAACAACCGAAACCTCGAAA
* * *
1634 ACCCGAAACCCTG-ACTACCCTAAACC-CG-CA
1 ACCCGAAACCC-GAAC-AACCGAAACCTCGAAA
1664 ACCCGAAACCCGAA
1 ACCCGAAACCCGAA
1678 ACCCCGAAAA
Statistics
Matches: 1324, Mismatches: 126, Indels: 356
0.73 0.07 0.20
Matches are distributed among these distances:
23 6 0.00
24 30 0.02
25 17 0.01
26 19 0.01
27 59 0.04
28 190 0.14
29 277 0.21
30 235 0.18
31 205 0.15
32 103 0.08
33 96 0.07
34 41 0.03
35 12 0.01
36 3 0.00
37 9 0.01
38 1 0.00
39 10 0.01
40 9 0.01
41 1 0.00
42 1 0.00
ACGTcount: A:0.41, C:0.42, G:0.13, T:0.04
Consensus pattern (31 bp):
ACCCGAAACCCGAACAACCGAAACCTCGAAA
Found at i:1093 original size:25 final size:27
Alignment explanation
Indices: 1065--1114 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
1055 CGTAAACCCG
*
1065 AAAACCCGGAAAA-CCGA-ACCCCGGA
1 AAAACCCGAAAAACCCGACACCCCGGA
1090 AAAACCCGAAAAACCCGACACCCCG
1 AAAACCCGAAAAACCCGACACCCCG
1115 TAAACCCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 4 0.18
27 6 0.27
ACGTcount: A:0.44, C:0.40, G:0.16, T:0.00
Consensus pattern (27 bp):
AAAACCCGAAAAACCCGACACCCCGGA
Found at i:1728 original size:7 final size:7
Alignment explanation
Indices: 1561--3926 Score: 2331
Period size: 7 Copynumber: 327.9 Consensus size: 7
1551 CGAAACCGAA
1561 AAACCCT
1 AAACCCT
*
1568 AAACCCG
1 AAACCCT
*
1575 AACCCCT
1 AAACCCT
1582 AAACCCT
1 AAACCCT
*
1589 AAACCCG
1 AAACCCT
1596 AAACCCT
1 AAACCCT
1603 AAAACCCT
1 -AAACCCT
1611 AAACCC-
1 AAACCCT
* *
1617 GAACCACG
1 AAACC-CT
*
1625 AAACCCG
1 AAACCCT
*
1632 AAACCCG
1 AAACCCT
1639 AAACCCT
1 AAACCCT
*
1646 GACTACCCT
1 -A-AACCCT
*
1655 AAACCCG
1 AAACCCT
* *
1662 CAACCCG
1 AAACCCT
*
1669 AAACCCG
1 AAACCCT
*
1676 AAACCCCGA
1 AAA-CCC-T
*
1685 AAACCAT
1 AAACCCT
1692 AAACCCT
1 AAACCCT
*
1699 CCAACCCT
1 -AAACCCT
*
1707 AAAACCTTTT
1 -AAACC--CT
1717 AAACCCT
1 AAACCCT
1724 AAACCCT
1 AAACCCT
1731 AAA-CCT
1 AAACCCT
1737 ATAACCCCTT
1 A-AA-CCC-T
1747 AAAACCCT
1 -AAACCCT
1755 AAACCCTAAT
1 AAACCC---T
1765 AAACCCT
1 AAACCCT
*
1772 AAACCCG
1 AAACCCT
1779 AATACCCT
1 AA-ACCCT
*
1787 -CACCCT
1 AAACCCT
1793 AAACCCT
1 AAACCCT
1800 ACAAACCCT
1 --AAACCCT
1809 AAACCCT
1 AAACCCT
1816 AAACCCT
1 AAACCCT
1823 AAA-CCT
1 AAACCCT
1829 AAACCCT
1 AAACCCT
1836 AAACCCT
1 AAACCCT
1843 AAAACTCCT
1 -AAAC-CCT
1852 AAACCCTT
1 AAACCC-T
1860 AAACCCT
1 AAACCCT
1867 AAACCCT
1 AAACCCT
1874 AAACCCT
1 AAACCCT
1881 AAACCCCT
1 AAA-CCCT
1889 AAACCCT
1 AAACCCT
1896 AAACCCT
1 AAACCCT
1903 AAACCCT
1 AAACCCT
*
1910 AAACCATT
1 AAACC-CT
1918 AAACTCCT
1 AAAC-CCT
1926 -AA-CCT
1 AAACCCT
1931 GAAAACCCTT
1 --AAACCC-T
1941 AAAACCCT
1 -AAACCCT
1949 AAACCCT
1 AAACCCT
1956 AAACCCT
1 AAACCCT
1963 ATAACCCT
1 A-AACCCT
1971 AAACCCT
1 AAACCCT
1978 AAACCCT
1 AAACCCT
1985 AAACCCT
1 AAACCCT
1992 AAAACCCT
1 -AAACCCT
*
2000 AAACCCG
1 AAACCCT
2007 AAACCCT
1 AAACCCT
*
2014 TAACCCT
1 AAACCCT
2021 AAACCCT
1 AAACCCT
*
2028 AAAACCT
1 AAACCCT
2035 AAAACCCT
1 -AAACCCT
2043 AAAACCCT
1 -AAACCCT
2051 AAACCCT
1 AAACCCT
2058 AAAAACCCCT
1 --AAA-CCCT
2068 AAACCCT
1 AAACCCT
2075 -AACCCT
1 AAACCCT
2081 AAAACCCT
1 -AAACCCT
2089 AAACCCT
1 AAACCCT
2096 -AACCCT
1 AAACCCT
2102 AAA-CCT
1 AAACCCT
2108 AAACCCT
1 AAACCCT
2115 AAACCCT
1 AAACCCT
2122 AAAACCCT
1 -AAACCCT
2130 AAACCCT
1 AAACCCT
****
2137 AATTAATAA
1 AA--ACCCT
2146 AAACCCT
1 AAACCCT
*
2153 AAAACCT
1 AAACCCT
2160 AAAAACCCT
1 --AAACCCT
2169 AAACCCT
1 AAACCCT
*
2176 AACCCCT
1 AAACCCT
*
2183 ACACCCT
1 AAACCCT
2190 AAACCCT
1 AAACCCT
2197 AAACCCCTT
1 AAA-CCC-T
2206 AAACCCTT
1 AAACCC-T
2214 AAAACCCT
1 -AAACCCT
2222 AAACCCT
1 AAACCCT
2229 AAACCCCT
1 AAA-CCCT
2237 AAACCCT
1 AAACCCT
2244 AAACCCT
1 AAACCCT
*
2251 AAGCCCT
1 AAACCCT
2258 AAAACACCT
1 -AAAC-CCT
2267 AAA-CCT
1 AAACCCT
2273 AAACCCT
1 AAACCCT
2280 -AACCCT
1 AAACCCT
2286 AAAACCCT
1 -AAACCCT
2294 AAACCCT
1 AAACCCT
2301 AAACCCT
1 AAACCCT
2308 AAAACCCT
1 -AAACCCT
2316 -AACCCT
1 AAACCCT
2322 AAACCCT
1 AAACCCT
2329 AAACCCT
1 AAACCCT
2336 AAAAACCCT
1 --AAACCCT
2345 AAACCCT
1 AAACCCT
2352 AAACCCT
1 AAACCCT
2359 AAACCCT
1 AAACCCT
2366 AAACCCT
1 AAACCCT
2373 AAACCCCT
1 AAA-CCCT
2381 -AACCCTTT
1 AAACCC--T
2389 AAAACCCT
1 -AAACCCT
2397 AAACCCT
1 AAACCCT
*
2404 TAACCCTT
1 AAACCC-T
2412 AAACCCT
1 AAACCCT
2419 AAATCCCCT
1 AAA--CCCT
2428 AAAACCCT
1 -AAACCCT
2436 AAACCCT
1 AAACCCT
2443 AAACCCT
1 AAACCCT
*
2450 AAAACCCG
1 -AAACCCT
2458 AAACCCTAT
1 AAACCC--T
2467 AAACCCT
1 AAACCCT
2474 AAACCCT
1 AAACCCT
2481 AAA-CCT
1 AAACCCT
2487 AAACCCT
1 AAACCCT
2494 AAAAACCTCT
1 --AAACC-CT
*
2504 AACCCCT
1 AAACCCT
2511 AAACCCT
1 AAACCCT
*
2518 ACACCCT
1 AAACCCT
2525 AAACCCT
1 AAACCCT
2532 AAACCCT
1 AAACCCT
2539 AAACCCT
1 AAACCCT
2546 ACAAACCCT
1 --AAACCCT
2555 AAACTCCT
1 AAAC-CCT
2563 AAACCCT
1 AAACCCT
2570 AAAACCCT
1 -AAACCCT
2578 -AACCCT
1 AAACCCT
2584 AAACCCT
1 AAACCCT
2591 AAACCCT
1 AAACCCT
2598 AAACCCTT
1 AAACCC-T
2606 AAACCCT
1 AAACCCT
2613 -AACCCT
1 AAACCCT
2619 AAACCCAT
1 AAACCC-T
2627 AAAACCCT
1 -AAACCCT
2635 AAACCCT
1 AAACCCT
*
2642 ACACCCT
1 AAACCCT
2649 AAA-CCT
1 AAACCCT
2655 AAACCCT
1 AAACCCT
2662 AAACCCT
1 AAACCCT
2669 CAAACCCT
1 -AAACCCT
2677 AAAACCCT
1 -AAACCCT
2685 -AACCCT
1 AAACCCT
2691 AAACCCT
1 AAACCCT
*
2698 TAA-CCT
1 AAACCCT
* *
2704 AAAACCA
1 AAACCCT
2711 AAGACCCT
1 AA-ACCCT
2719 AACACCCT
1 AA-ACCCT
2727 AAACCCT
1 AAACCCT
2734 AAACCCT
1 AAACCCT
2741 AAACCCT
1 AAACCCT
2748 -AACCCT
1 AAACCCT
2754 AAAACCCT
1 -AAACCCT
2762 AAACCCT
1 AAACCCT
2769 AAACCCT
1 AAACCCT
* *
2776 CACCCCT
1 AAACCCT
2783 AAACCCT
1 AAACCCT
2790 AAACCCT
1 AAACCCT
*
2797 CAA-CCT
1 AAACCCT
*
2803 -ACCCCT
1 AAACCCT
*
2809 ACA-CCT
1 AAACCCT
2815 -AACCCT
1 AAACCCT
2821 AAACCCT
1 AAACCCT
2828 AAACCCT
1 AAACCCT
2835 AAACCCT
1 AAACCCT
2842 AAACCCT
1 AAACCCT
2849 AAACCCT
1 AAACCCT
*
2856 AAACACT
1 AAACCCT
2863 AAA-CCT
1 AAACCCT
2869 AAACCCT
1 AAACCCT
2876 AAACCCT
1 AAACCCT
2883 AAAACCCT
1 -AAACCCT
2891 AAACCCT
1 AAACCCT
2898 AAAACCCT
1 -AAACCCT
2906 AAA-CCT
1 AAACCCT
2912 AAACCCT
1 AAACCCT
2919 AAACCCT
1 AAACCCT
2926 -AACCCT
1 AAACCCT
2932 AAA-CCT
1 AAACCCT
2938 AAACCCT
1 AAACCCT
2945 AAACCCT
1 AAACCCT
2952 AAACACTCTT
1 AAAC-C-C-T
2962 AAACCCT
1 AAACCCT
2969 AACACCCT
1 AA-ACCCT
2977 AAACCCT
1 AAACCCT
2984 --ACCCT
1 AAACCCT
*
2989 ACACCCT
1 AAACCCT
2996 AAACCCT
1 AAACCCT
3003 AAAAACCCT
1 --AAACCCT
3012 AAACCCT
1 AAACCCT
3019 -AA-CCT
1 AAACCCT
3024 AAACCCT
1 AAACCCT
3031 AAACCCCT
1 AAA-CCCT
3039 AAA-CCT
1 AAACCCT
3045 AAACCCT
1 AAACCCT
*
3052 AAACCCC
1 AAACCCT
*
3059 AAACCCCA
1 AAA-CCCT
*
3067 AAACCCC
1 AAACCCT
*
3074 AAACCCC
1 AAACCCT
*
3081 AAACCCC
1 AAACCCT
*
3088 AAACCCC
1 AAACCCT
*
3095 AAACCCCAA
1 AAA-CCC-T
*
3104 AAACCCCAC
1 AAA-CCC-T
*
3113 AAACCCC
1 AAACCCT
*
3120 AAACCCC
1 AAACCCT
*
3127 AAACCCC
1 AAACCCT
3134 AAACCCT
1 AAACCCT
3141 AAAACCCTT
1 -AAACCC-T
3150 AAACCCTTT
1 AAACCC--T
3159 AAACCCT
1 AAACCCT
3166 AAACCCT
1 AAACCCT
3173 AAA-CCT
1 AAACCCT
3179 AAACCCT
1 AAACCCT
3186 AAACCCT
1 AAACCCT
*
3193 -ACCCCT
1 AAACCCT
3199 AAAACCCT
1 -AAACCCT
3207 AAACCCT
1 AAACCCT
3214 AAACCCT
1 AAACCCT
3221 AAACCCT
1 AAACCCT
3228 AAACCCT
1 AAACCCT
3235 AAAACCCT
1 -AAACCCT
*
3243 AAACCTCA
1 AAACC-CT
3251 AAACCCT
1 AAACCCT
3258 AAACCCT
1 AAACCCT
3265 -AACCCTT
1 AAACCC-T
3272 AAACCCTTTT
1 AAACCC---T
3282 AAACCCT
1 AAACCCT
3289 AAACCCCT
1 AAA-CCCT
3297 AAACCCT
1 AAACCCT
3304 -AACCCT
1 AAACCCT
*
3310 ACACCCT
1 AAACCCT
3317 AAACCCT
1 AAACCCT
3324 AAACCCCT
1 AAA-CCCT
*
3332 TAACCCT
1 AAACCCT
3339 AAAACCCT
1 -AAACCCT
3347 AAACCCT
1 AAACCCT
3354 AAAACCCT
1 -AAACCCT
3362 ATCAACCCT
1 A--AACCCT
3371 AAACCCT
1 AAACCCT
3378 AAACCCT
1 AAACCCT
3385 AAACCCT
1 AAACCCT
3392 AAA-CCT
1 AAACCCT
3398 AAACCCCT
1 AAA-CCCT
3406 AAACCCT
1 AAACCCT
3413 -AACCCTT
1 AAACCC-T
3420 AAACCCT
1 AAACCCT
3427 AAACCCT
1 AAACCCT
3434 -AACCCT
1 AAACCCT
3440 AAACCCT
1 AAACCCT
3447 CAAACCCT
1 -AAACCCT
3455 AAACCCT
1 AAACCCT
* *
3462 CACCCCT
1 AAACCCT
3469 AAACCCT
1 AAACCCT
3476 AAACCCT
1 AAACCCT
3483 AAAACCCT
1 -AAACCCT
3491 AAACCCT
1 AAACCCT
3498 AAA-CC-
1 AAACCCT
3503 -AACCCT
1 AAACCCT
3509 AAACCCT
1 AAACCCT
3516 -AACCCT
1 AAACCCT
*
3522 CAACCCT
1 AAACCCT
*
3529 AACCCCCT
1 AA-ACCCT
*
3537 CAACCCT
1 AAACCCT
3544 AAACCCT
1 AAACCCT
3551 -AACCCT
1 AAACCCT
3557 AAACCCT
1 AAACCCT
3564 AAACCCT
1 AAACCCT
3571 AAACCCT
1 AAACCCT
3578 -AACCCT
1 AAACCCT
3584 AAACCCT
1 AAACCCT
3591 AAACCCCT
1 AAA-CCCT
3599 AAACCCT
1 AAACCCT
*
3606 ACACCCT
1 AAACCCT
3613 AAACCCT
1 AAACCCT
3620 AAACCCT
1 AAACCCT
3627 AAACCCT
1 AAACCCT
*
3634 AACCCCT
1 AAACCCT
3641 AAACCCT
1 AAACCCT
3648 -AACCCT
1 AAACCCT
3654 AAACCCT
1 AAACCCT
3661 AAACCCT
1 AAACCCT
*
3668 AAACCCC
1 AAACCCT
*
3675 AAACCCC
1 AAACCCT
3682 AAACCCT
1 AAACCCT
3689 AAAACCCCT
1 -AAA-CCCT
3698 -AACCC-
1 AAACCCT
* *
3703 CAACCCC
1 AAACCCT
*
3710 ACACCC-
1 AAACCCT
* *
3716 CAACAAC-
1 AAAC-CCT
* *
3723 AACCCCA
1 AAACCCT
3730 AAACCC-
1 AAACCCT
*
3736 AAACCCC
1 AAACCCT
3743 AAACCC-
1 AAACCCT
*
3749 AAACCCC
1 AAACCCT
* *
3756 CAACCCC
1 AAACCCT
*
3763 AAACCCC
1 AAACCCT
*
3770 AAACCCC
1 AAACCCT
*
3777 AAACCCC
1 AAACCCT
*
3784 AAACCCC
1 AAACCCT
*
3791 AAACCCC
1 AAACCCT
*
3798 AAACCCC
1 AAACCCT
*
3805 AAACCCC
1 AAACCCT
*
3812 AAACCCC
1 AAACCCT
*
3819 AAACCCC
1 AAACCCT
*
3826 AAACCCC
1 AAACCCT
*
3833 AAACCCCA
1 AAA-CCCT
*
3841 AAACCCC
1 AAACCCT
*
3848 AAACCCC
1 AAACCCT
*
3855 AAACCCC
1 AAACCCT
*
3862 AAACCACC
1 AAACC-CT
3870 AAACCCCT
1 AAA-CCCT
*
3878 -AACCCC
1 AAACCCT
3884 AAACCCCT
1 AAA-CCCT
3892 AAACCCCT
1 AAA-CCCT
3900 AAACCCCT
1 AAA-CCCT
*
3908 AACCCCT
1 AAACCCT
*
3915 -AACCCA
1 AAACCCT
3921 AAACCC
1 AAACCC
3927 CAAAACCCCA
Statistics
Matches: 2063, Mismatches: 128, Indels: 336
0.82 0.05 0.13
Matches are distributed among these distances:
4 2 0.00
5 15 0.01
6 239 0.12
7 1227 0.59
8 400 0.19
9 140 0.07
10 39 0.02
11 1 0.00
ACGTcount: A:0.42, C:0.44, G:0.01, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:3942 original size:7 final size:7
Alignment explanation
Indices: 3932--4035 Score: 154
Period size: 7 Copynumber: 14.7 Consensus size: 7
3922 AACCCCAAAA
*
3932 CCCCAAG
1 CCCCAGG
*
3939 CCCCAAG
1 CCCCAGG
*
3946 CCCCAAG
1 CCCCAGG
*
3953 CCCCAAG
1 CCCCAGG
*
3960 CCCCAAG
1 CCCCAGG
3967 CCCCAGG
1 CCCCAGG
3974 CCCCAGGG
1 CCCCA-GG
3982 CCCCAGG
1 CCCCAGG
3989 CCCCAGG
1 CCCCAGG
3996 CCCCAGG
1 CCCCAGG
4003 CCCCAGG
1 CCCCAGG
4010 CCCCAGG
1 CCCCAGG
4017 CCCCAGG
1 CCCCAGG
4024 CCCCAGG
1 CCCCAGG
4031 CCCCA
1 CCCCA
4036 AACCCTAAAC
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
7 88 0.93
8 7 0.07
ACGTcount: A:0.19, C:0.58, G:0.23, T:0.00
Consensus pattern (7 bp):
CCCCAGG
Found at i:4178 original size:21 final size:21
Alignment explanation
Indices: 4140--4194 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
4130 AACCTTACCC
* *
4140 TAAACCCTAAATCTTAAACTT
1 TAAACCCTAAACCCTAAACTT
* *
4161 TAAACCTTAAACCCTAAATTT
1 TAAACCCTAAACCCTAAACTT
*
4182 TAAGCCC-AAACCC
1 TAAACCCTAAACCC
4195 CAACCCTAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAACTT
Found at i:4184 original size:14 final size:14
Alignment explanation
Indices: 4140--4184 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
4130 AACCTTACCC
4140 TAAACCCTAAATCT
1 TAAACCCTAAATCT
** *
4154 TAAACTTTAAACCT
1 TAAACCCTAAATCT
*
4168 TAAACCCTAAATTT
1 TAAACCCTAAATCT
4182 TAA
1 TAA
4185 GCCCAAACCC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAACCCTAAATCT
Found at i:4457 original size:19 final size:21
Alignment explanation
Indices: 4433--4489 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 21
4423 TTAAATCCCT
4433 AACCTTGAACCTTAAAC-TA-
1 AACCTTGAACCTTAAACTTAG
*
4452 AACCTTGAACCTTATATCTTAG
1 AACCTTGAACCTTA-AACTTAG
*
4474 AACCTTAAACCTTAAA
1 AACCTTGAACCTTAAA
4490 TATTAAACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
20 2 0.06
21 3 0.09
22 13 0.41
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (21 bp):
AACCTTGAACCTTAAACTTAG
Found at i:4487 original size:7 final size:7
Alignment explanation
Indices: 4411--4489 Score: 56
Period size: 7 Copynumber: 11.4 Consensus size: 7
4401 CCTTAAGCCC
*
4411 AAACCCT
1 AAACCTT
*
4418 AAAACTT
1 AAACCTT
*
4425 AAATCCCT
1 AAA-CCTT
4433 -AACCTT
1 AAACCTT
*
4439 GAACCTT
1 AAACCTT
4446 AAA-C-T
1 AAACCTT
4451 AAACCTT
1 AAACCTT
*
4458 GAACCTT
1 AAACCTT
* *
4465 ATATCTT
1 AAACCTT
4472 AGAACCTT
1 A-AACCTT
4480 AAACCTT
1 AAACCTT
4487 AAA
1 AAA
4490 TATTAAACTT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
5 4 0.07
6 5 0.09
7 39 0.71
8 7 0.13
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.28
Consensus pattern (7 bp):
AAACCTT
Found at i:8621 original size:13 final size:14
Alignment explanation
Indices: 8591--8626 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
8581 CTACTTAAAA
8591 TAAAATTATAAATAT
1 TAAAATT-TAAATAT
8606 TAAAATTTAAAT-T
1 TAAAATTTAAATAT
8619 TAAAATTT
1 TAAAATTT
8627 TTTATATGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.43
14 5 0.24
15 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAAATTTAAATAT
Found at i:8958 original size:6 final size:6
Alignment explanation
Indices: 8930--8988 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
8920 TAAGACTATT
* *
8930 TATAAA TTTAAA TATAATTA TATAAA TATAAA -ATAAAA AATAAA TAT-AA
1 TATAAA TATAAA TATAA--A TATAAA TATAAA TAT-AAA TATAAA TATAAA
8979 TATAAA TATA
1 TATAAA TATA
8989 TTTAAAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 7 0.16
6 30 0.67
7 2 0.04
8 6 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:9040 original size:32 final size:32
Alignment explanation
Indices: 8971--9047 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
8961 AATAAAAAAT
*
8971 AAATAT-AATATAAATATATTTAAAAATTTTA
1 AAATATAAATATTAATATATTTAAAAATTTTA
**
9002 TGATATAAATTATTAATATA-TT-AAAATTTATA
1 AAATATAAA-TATTAATATATTTAAAAATTT-TA
9034 AAATATAAAATATT
1 AAATAT-AAATATT
9048 TTAAATATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
31 11 0.30
32 14 0.38
33 12 0.32
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (32 bp):
AAATATAAATATTAATATATTTAAAAATTTTA
Found at i:10141 original size:16 final size:16
Alignment explanation
Indices: 10120--10153 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10110 TAGGGTCTGC
10120 TTGCAGCTCCAAGGCA
1 TTGCAGCTCCAAGGCA
10136 TTGCAGCTCCAAGGCA
1 TTGCAGCTCCAAGGCA
10152 TT
1 TT
10154 TCTTTTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (16 bp):
TTGCAGCTCCAAGGCA
Found at i:19694 original size:172 final size:172
Alignment explanation
Indices: 19408--19754 Score: 640
Period size: 172 Copynumber: 2.0 Consensus size: 172
19398 TTAAAGCTTT
19408 GTTGTTATTTAAATTTACGTCACATGTTGCAATATTTTTCCCTTTTTCTTTGCAATAATATTAAA
1 GTTGTTATTTAAATTTACGTCACATGTTGCAATATTTTTCCCTTTTTCTTTGCAATAATATTAAA
* *
19473 GAGGAAATAGGTGAAATAAATATGAGGTGACCTAGCATGCAATCCCAATAAATTTAAATCAGAAT
66 GAGGAAATAGGTGAAATAAATATGAGGTGACATAGCATGCAAGCCCAATAAATTTAAATCAGAAT
19538 GTCTATAGGATAGAATATAAAGAGGTAAAGGAAGTAGCTAAA
131 GTCTATAGGATAGAATATAAAGAGGTAAAGGAAGTAGCTAAA
* *
19580 GTTGTTATTTAAATTTACGTCACATGTTGCAGTATTTTTCCCTTTTTCTTTGCAATAATGTTAAA
1 GTTGTTATTTAAATTTACGTCACATGTTGCAATATTTTTCCCTTTTTCTTTGCAATAATATTAAA
*
19645 GAGTAAATAGGTGAAATAAATATGAGGTGACATAGCATGCAAGCCCAATAAATTTAAATCAGAAT
66 GAGGAAATAGGTGAAATAAATATGAGGTGACATAGCATGCAAGCCCAATAAATTTAAATCAGAAT
*
19710 GTCTATAGGATAGAATATAAAGAGGTAAAGGAATTAGCTAAA
131 GTCTATAGGATAGAATATAAAGAGGTAAAGGAAGTAGCTAAA
19752 GTT
1 GTT
19755 TTCATGCTTG
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 169 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (172 bp):
GTTGTTATTTAAATTTACGTCACATGTTGCAATATTTTTCCCTTTTTCTTTGCAATAATATTAAA
GAGGAAATAGGTGAAATAAATATGAGGTGACATAGCATGCAAGCCCAATAAATTTAAATCAGAAT
GTCTATAGGATAGAATATAAAGAGGTAAAGGAAGTAGCTAAA
Found at i:21955 original size:23 final size:22
Alignment explanation
Indices: 21896--21956 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
21886 TTCAACAGCA
21896 TTTGATTTTTTTCAT-AGCTTT
1 TTTGATTTTTTTCATCAGCTTT
21917 TTTGATTTTTTTCATCAGCTTT
1 TTTGATTTTTTTCATCAGCTTT
21939 TTT-ATTTTTCTTTCATCA
1 TTTGA-TTTT-TTTCATCA
21957 CCTCAGGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.43
22 13 0.35
23 8 0.22
ACGTcount: A:0.15, C:0.13, G:0.07, T:0.66
Consensus pattern (22 bp):
TTTGATTTTTTTCATCAGCTTT
Found at i:23729 original size:17 final size:17
Alignment explanation
Indices: 23704--23750 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
23694 CGATTGATCT
*
23704 AAACTTGAAAATGACCC
1 AAACCTGAAAATGACCC
*
23721 AAACCTG-AAATGATCC
1 AAACCTGAAAATGACCC
*
23737 GAACCT-AAAATGAC
1 AAACCTGAAAATGAC
23751 TCGGACCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (17 bp):
AAACCTGAAAATGACCC
Found at i:23733 original size:16 final size:16
Alignment explanation
Indices: 23711--23781 Score: 61
Period size: 16 Copynumber: 4.4 Consensus size: 16
23701 TCTAAACTTG
23711 AAAATGACCCAAACCT
1 AAAATGACCCAAACCT
* * *
23727 GAAATGATCCGAACCT
1 AAAATGACCCAAACCT
* **
23743 AAAATGACTCGGACCT
1 AAAATGACCCAAACCT
* * *
23759 AAAATGACCTAGACCC
1 AAAATGACCCAAACCT
23775 AAAATGA
1 AAAATGA
23782 TCCGAACTCG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.45, C:0.25, G:0.14, T:0.15
Consensus pattern (16 bp):
AAAATGACCCAAACCT
Found at i:23747 original size:32 final size:32
Alignment explanation
Indices: 23711--23803 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
23701 TCTAAACTTG
* *
23711 AAAATGACCCAAACCTGAAATGATCCGAACCT
1 AAAATGACCCGAACCTGAAATGATCCGAACCC
* * * *
23743 AAAATGACTCGGACCTAAAATGA-CCTAGACCC
1 AAAATGACCCGAACCTGAAATGATCCGA-ACCC
*
23775 AAAATGATCCGAA-CTCGAAATGATCCGAA
1 AAAATGACCCGAACCT-GAAATGATCCGAA
23804 TTTAAATTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
31 5 0.11
32 39 0.83
33 3 0.06
ACGTcount: A:0.43, C:0.26, G:0.15, T:0.16
Consensus pattern (32 bp):
AAAATGACCCGAACCTGAAATGATCCGAACCC
Found at i:24597 original size:16 final size:16
Alignment explanation
Indices: 24574--24613 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
24564 CCTGATTGAC
24574 CCGAACTCGAAATAAT
1 CCGAACTCGAAATAAT
* *
24590 CTGAACTCGAAATGAT
1 CCGAACTCGAAATAAT
24606 CCGAACTC
1 CCGAACTC
24614 AAAACGACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.20
Consensus pattern (16 bp):
CCGAACTCGAAATAAT
Found at i:26186 original size:91 final size:91
Alignment explanation
Indices: 26002--26416 Score: 385
Period size: 91 Copynumber: 4.7 Consensus size: 91
25992 TTATTGTGTC
* * * * * *
26002 AAAAGGAATCTGATACCTCATGCATTTATCACATCTTTCG-GATTCAA-A--AAATTTATTAGGC
1 AAAAGGAATCTGATACCACATGCATCTGTCACATCTTTCGAGTTTCAAGATTAATTTTATTAAGC
* * *
26063 ATTAATCAAATATTTTCTGTTATGTC
66 ATTAGTCAAATATTTTCTGTCATGTT
* * * *
26089 AAAAGGAATCTAATACCACATGCATCTGTCATATCTTTTGAGTTTCAAAATTAATTTTATTAAGC
1 AAAAGGAATCTGATACCACATGCATCTGTCACATCTTTCGAGTTTCAAGATTAATTTTATTAAGC
* *
26154 ATTAGTCAAATATTTTTTGTCATATT
66 ATTAGTCAAATATTTTCTGTCATGTT
* * ** **
26180 AGAAGGAATCTGTTGTCACATTAATCTGTCACATCTTTCGAG-TTCTAAGA--AA-TTTATTAAG
1 AAAAGGAATCTGATACCACATGCATCTGTCACATCTTTCGAGTTTC-AAGATTAATTTTATTAAG
26241 CATTAGTCAAATATTTTCTGTCA-G--
65 CATTAGTCAAATATTTTCTGTCATGTT
* *
26265 --AAGAAATCTGATATCC-CATGTATCTGTCACATCTTTCGA-TTTCTAAGATTAATTTTATTAA
1 AAAAGGAATCTGATA-CCACATGCATCTGTCACATCTTTCGAGTTTC-AAGATTAATTTTATTAA
* * * * *
26326 GTATTAGTCGAATATTTTTTATCATGCT
64 GCATTAGTCAAATATTTTCTGTCATGTT
** * * *
26354 AAAAAAAATCTGATACGCA-ATTCATCTATCACATCTTTCAAGTTTCAAGATTAATTTTATTAA
1 AAAAGGAATCTGATAC-CACATGCATCTGTCACATCTTTCGAGTTTCAAGATTAATTTTATTAA
26417 CACATATTAT
Statistics
Matches: 269, Mismatches: 41, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
83 39 0.14
84 1 0.00
85 2 0.01
86 28 0.10
87 35 0.13
88 37 0.14
89 3 0.01
90 4 0.01
91 116 0.43
92 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (91 bp):
AAAAGGAATCTGATACCACATGCATCTGTCACATCTTTCGAGTTTCAAGATTAATTTTATTAAGC
ATTAGTCAAATATTTTCTGTCATGTT
Found at i:26342 original size:174 final size:174
Alignment explanation
Indices: 26030--26350 Score: 425
Period size: 174 Copynumber: 1.8 Consensus size: 174
26020 CATGCATTTA
* *
26030 TCACATCTTTCGGATTCAAAAAATTTATTAGGCATTAATCAAATATTTTCTGTTATGTCAAAAGG
1 TCACATCTTTCGGATTCAAAAAATTTATTAAGCATTAATCAAATATTTTC---T-TGTCAAAAGA
* *
26095 AATCTAATACCACATGCATCTGTCATATCTTTTGAGTTTCAAAATTAATTTTATTAAGCATTAGT
62 AATCTAATACCACATGCATCTGTCACATCTTTCGAGTTTCAAAATTAATTTTATTAAGCATTAGT
*
26160 CAAATATTTTTTGTCATATTAGAAGGAATCTGTTGTCACATTAATCTG
127 CAAATATTTTTTATCATATTAGAAGGAATCTGTTGTCACATTAATCTG
* * *
26208 TCACATCTTTC-GAGTTCTAAGAAATTTATTAAGCATTAGTCAAATATTTTC-TGTCAGAAGAAA
1 TCACATCTTTCGGA-TTC-AAAAAATTTATTAAGCATTAATCAAATATTTTCTTGTCAAAAGAAA
* * * *
26271 TCTGATATCC-CATGTATCTGTCACATCTTTCGA-TTTCTAAGATTAATTTTATTAAGTATTAGT
64 TCTAATA-CCACATGCATCTGTCACATCTTTCGAGTTTC-AAAATTAATTTTATTAAGCATTAGT
*
26334 CGAATATTTTTTATCAT
127 CAAATATTTTTTATCAT
26351 GCTAAAAAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
173 4 0.03
174 74 0.59
175 2 0.02
177 2 0.02
178 14 0.11
179 30 0.24
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (174 bp):
TCACATCTTTCGGATTCAAAAAATTTATTAAGCATTAATCAAATATTTTCTTGTCAAAAGAAATC
TAATACCACATGCATCTGTCACATCTTTCGAGTTTCAAAATTAATTTTATTAAGCATTAGTCAAA
TATTTTTTATCATATTAGAAGGAATCTGTTGTCACATTAATCTG
Found at i:26388 original size:174 final size:174
Alignment explanation
Indices: 26028--26397 Score: 410
Period size: 174 Copynumber: 2.1 Consensus size: 174
26018 CTCATGCATT
*
26028 TATCACATCTTTCG-GATTCAAAAAATTTATTAGGCATTAATCAAATATTTTCTGTTATGTCAAA
1 TATCACATCTTTCGAG-TTCAAAAAATTTATTAAGCATTAATCAAATATTTTC---T-TGTCAAA
* * *
26092 AGGAATCTAATACCACATGCATCTGTCATATCTTTTGAGTTTCAAAATTAATTTTATTAAGCATT
61 AGAAATCTAATACCACATGCATCTGTCACATCTTTCGAGTTTCAAAATTAATTTTATTAAGCATT
* * * ** *
26157 AGTCAAATATTTTTTGTCATATTAGAAGGAATCTGTTGTCACATTAATC
126 AGTCAAATATTTTTTATCATACTAAAAAAAATCTGTCGTCACATTAATC
* * * *
26206 TGTCACATCTTTCGAGTTCTAAGAAATTTATTAAGCATTAGTCAAATATTTTC-TGTCAGAAGAA
1 TATCACATCTTTCGAGTTC-AAAAAATTTATTAAGCATTAATCAAATATTTTCTTGTCAAAAGAA
* * * *
26270 ATCTGATATCC-CATGTATCTGTCACATCTTTCGA-TTTCTAAGATTAATTTTATTAAGTATTAG
65 ATCTAATA-CCACATGCATCTGTCACATCTTTCGAGTTTC-AAAATTAATTTTATTAAGCATTAG
* * *
26333 TCGAATATTTTTTATCATGCTAAAAAAAATCTGATACG-CA-ATTCATC
128 TCAAATATTTTTTATCATACTAAAAAAAATCTG-T-CGTCACATTAATC
*
26380 TATCACATCTTTCAAGTT
1 TATCACATCTTTCGAGTT
26398 TCAAGATTAA
Statistics
Matches: 163, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
173 4 0.02
174 106 0.65
175 5 0.03
176 1 0.01
178 16 0.10
179 31 0.19
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (174 bp):
TATCACATCTTTCGAGTTCAAAAAATTTATTAAGCATTAATCAAATATTTTCTTGTCAAAAGAAA
TCTAATACCACATGCATCTGTCACATCTTTCGAGTTTCAAAATTAATTTTATTAAGCATTAGTCA
AATATTTTTTATCATACTAAAAAAAATCTGTCGTCACATTAATC
Found at i:26778 original size:11 final size:11
Alignment explanation
Indices: 26758--26791 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
26748 GCAAGTTTTC
*
26758 AACTAAAAAAA
1 AACTATAAAAA
26769 AACTAT-AAAA
1 AACTATAAAAA
26779 AACTATAAAAA
1 AACTATAAAAA
26790 AA
1 AA
26792 ATTATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (11 bp):
AACTATAAAAA
Found at i:26801 original size:13 final size:12
Alignment explanation
Indices: 26758--26814 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 12
26748 GCAAGTTTTC
26758 AACTA-AAAAAA
1 AACTATAAAAAA
26769 AACTAT--AAAA
1 AACTATAAAAAA
26779 AACTATAAAAAA
1 AACTATAAAAAA
*
26791 AATTATGAAAAGAA
1 AACTAT-AAAA-AA
26805 AA--ATAAAAAA
1 AACTATAAAAAA
26815 GTTGATGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
10 12 0.30
11 9 0.22
12 11 0.28
13 4 0.10
14 4 0.10
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (12 bp):
AACTATAAAAAA
Found at i:26829 original size:23 final size:23
Alignment explanation
Indices: 26786--26871 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
26776 AAAAACTATA
*
26786 AAAAAAATTATGAAAAGAAAAAT-
1 AAAAAAGTTATGAAAA-AAAAATC
*
26809 AAAAAAGTTGATGAAAAAAAAGTC
1 AAAAAAGTT-ATGAAAAAAAAATC
* *
26833 AAAAAAGCTATG-ATAAAAAATC
1 AAAAAAGTTATGAAAAAAAAATC
*
26855 --AAAAGCTATGAAAAAAA
1 AAAAAAGTTATGAAAAAAA
26872 TCAAAAGCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.19
21 5 0.09
22 8 0.15
23 16 0.30
24 15 0.28
ACGTcount: A:0.67, C:0.05, G:0.12, T:0.16
Consensus pattern (23 bp):
AAAAAAGTTATGAAAAAAAAATC
Found at i:26871 original size:19 final size:20
Alignment explanation
Indices: 26835--26882 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 20
26825 AAAAAGTCAA
26835 AAAAGCTATGATAAAAAATC
1 AAAAGCTATGATAAAAAATC
26855 AAAAGCTATGA-AAAAAATC
1 AAAAGCTATGATAAAAAATC
26874 AAAAGCTAT
1 AAAAGCTAT
26883 TAAACTGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.19
Consensus pattern (20 bp):
AAAAGCTATGATAAAAAATC
Found at i:26926 original size:17 final size:18
Alignment explanation
Indices: 26893--26927 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26883 TAAACTGATA
*
26893 TTAAAATTTAATTTATTT
1 TTAAAATTTAATCTATTT
26911 TTAAAA-TTAATCTATTT
1 TTAAAATTTAATCTATTT
26928 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAAATTTAATCTATTT
Found at i:29877 original size:2 final size:2
Alignment explanation
Indices: 29872--29899 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29862 TTCTTGTGTG
29872 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
29900 CAGACACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33089 original size:39 final size:39
Alignment explanation
Indices: 32988--33097 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 39
32978 TCAACTACAG
* * *
32988 TGCTTAACAATGCTAAGCCAGACTCCACTTCAGATTCAC
1 TGCTTAACAATGCTAAGACATACTCTACTTCAGATTCAC
33027 TGCTTAACAATGCTAA-ACGATACTCTACTTCAGATTCAC
1 TGCTTAACAATGCTAAGAC-ATACTCTACTTCAGATTCAC
* * *
33066 TGCTTAACGATGCTAAGTCATACTGTACTTCA
1 TGCTTAACAATGCTAAGACATACTCTACTTCA
33098 ACCTTACGGG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.02
39 61 0.97
40 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (39 bp):
TGCTTAACAATGCTAAGACATACTCTACTTCAGATTCAC
Found at i:39097 original size:193 final size:192
Alignment explanation
Indices: 38764--39142 Score: 514
Period size: 193 Copynumber: 2.0 Consensus size: 192
38754 ATTAAATCCC
* * * *
38764 AAATTTTGGATAAATCCTTAAAAGCCGAGCCTATCCACGTGTTAGCTATTATTTTTTTCATTTTT
1 AAATTTTAGATAAATCCTTAAAAGCCAAGCCTATCCACATGTCAGCTATTATTTTTTTCATTTTT
* * *
38829 CCTTCGGTTTTCGTGTAGTTATTTCTATTGCTTTTTCTACATTCTTTGTACTCAGCCTATTTGAC
66 CCTTCGATTGTCGTGTAGTTATTTCTATTGCTTTTTCTACATTCTTTATACTCAGCCTATTTGAC
* * *
38894 CAAGTTAAAAAGCTGACGAGTTTAGAAAAGATTTTATAGAGATATTTAAA-GATTTTTTGTTT
131 CAAATTAAAAAGCTGACGAGTTTAGAAAAGATTTTACAAAGAT-TTTAAAGGATTTTTTGTTT
* * ** *
38956 AAATTTTAGATAAATCCTTGAAAGCTAAGGTTATCCATATGTCAGCTATTATTTTTTTTCATTTT
1 AAATTTTAGATAAATCCTTAAAAGCCAAGCCTATCCACATGTCAGCTATTA-TTTTTTTCATTTT
* *
39021 TCCTTTGATTGTCGTGTA-TTCATTTCTATTGCTTTTT-TTCTATTCTTTATACTCAGCCTATTT
65 TCCTTCGATTGTCGTGTAGTT-ATTTCTATTGCTTTTTCTAC-ATTCTTTATACTCAGCCTATTT
* *
39084 -ATCCAAATTAAAAAGTTGATGAGTTTAGAAAAGATTTTACAAAGATTTTAAAGGATTTT
128 GA-CCAAATTAAAAAGCTGACGAGTTTAGAAAAGATTTTACAAAGATTTTAAAGGATTTT
39143 ATGTATTATT
Statistics
Matches: 163, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
192 53 0.33
193 110 0.67
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (192 bp):
AAATTTTAGATAAATCCTTAAAAGCCAAGCCTATCCACATGTCAGCTATTATTTTTTTCATTTTT
CCTTCGATTGTCGTGTAGTTATTTCTATTGCTTTTTCTACATTCTTTATACTCAGCCTATTTGAC
CAAATTAAAAAGCTGACGAGTTTAGAAAAGATTTTACAAAGATTTTAAAGGATTTTTTGTTT
Found at i:40800 original size:2 final size:2
Alignment explanation
Indices: 40787--40825 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
40777 TTGAATTCTT
*
40787 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
40826 TTGTAAAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42460 original size:29 final size:29
Alignment explanation
Indices: 42426--42501 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
42416 GCACTCTTGT
* *
42426 TTAAAATACTATTAATTTTTAAATAAATTA
1 TTAAAATAATATT-ATTTTGAAATAAATTA
42456 -TAAAATAATATT-TATTTGAAATAAATTA
1 TTAAAATAATATTAT-TTTGAAATAAATTA
*
42484 TTAAAATATTATTATTTT
1 TTAAAATAATATTATTTT
42502 AATTTGTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 1 0.03
28 13 0.32
29 25 0.62
30 1 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
TTAAAATAATATTATTTTGAAATAAATTA
Found at i:42498 original size:28 final size:28
Alignment explanation
Indices: 42426--42500 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
42416 GCACTCTTGT
* *
42426 TTAAAATACTATTAATTTTTAAATAAATTA
1 TTAAAATAATATT-A-TTTGAAATAAATTA
42456 -TAAAATAATATTTATTTGAAATAAATTA
1 TTAAAATAATA-TTATTTGAAATAAATTA
*
42484 TTAAAATATTATTATTT
1 TTAAAATAATATTATTT
42501 TAATTTGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 19 0.47
29 19 0.47
30 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TTAAAATAATATTATTTGAAATAAATTA
Found at i:42695 original size:3 final size:3
Alignment explanation
Indices: 42687--42737 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
42677 GTTGGTAACC
42687 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
42735 TAT
1 TAT
42738 GTTAATATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:42786 original size:26 final size:26
Alignment explanation
Indices: 42757--42812 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
42747 TTTTTAATAA
*
42757 TATTATTAGAGT-TATTATTATGTTCG
1 TATTATTA-AGTGTATTATTATATTCG
* * *
42783 TATTTTTAATTGTATTATTATATTGG
1 TATTATTAAGTGTATTATTATATTCG
42809 TATT
1 TATT
42813 TTTTTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (26 bp):
TATTATTAAGTGTATTATTATATTCG
Found at i:42862 original size:22 final size:19
Alignment explanation
Indices: 42820--42865 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
42810 ATTTTTTTAA
42820 ATTAATAAAAAATTTTATT
1 ATTAATAAAAAATTTTATT
**
42839 ATTAATAAAAAATAATATT
1 ATTAATAAAAAATTTTATT
42858 ATT-ATAAA
1 ATTAATAAA
42866 TATAATAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAATAAAAAATTTTATT
Found at i:42867 original size:22 final size:19
Alignment explanation
Indices: 42823--42867 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 19
42813 TTTTTAAATT
*
42823 AATAAAAAATTTTATTATT
1 AATAAAAAATTTTATTATA
42842 AATAAAAAATAATATTATTATA
1 AATAAAAAAT--T-TTATTATA
42864 AATA
1 AATA
42868 TAATAGTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
21 1 0.05
22 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAAAAAATTTTATTATA
Found at i:42902 original size:19 final size:19
Alignment explanation
Indices: 42820--42908 Score: 65
Period size: 19 Copynumber: 4.4 Consensus size: 19
42810 ATTTTTTTAA
42820 ATTAATAAAAAATT-TTATT
1 ATTAATAAAAAATTATT-TT
* *
42839 ATTAATAAAAAATAATATT
1 ATTAATAAAAAATTATTTT
42858 ATT-ATAAATATAATAGTAGTTTTT
1 ATTAATAAA-A-AAT--TA--TTTT
*
42882 ATTATTAAAAAATTATTTT
1 ATTAATAAAAAATTATTTT
*
42901 ATTTATAA
1 ATTAATAA
42909 TTAATGACAG
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
18 5 0.09
19 29 0.53
20 4 0.07
21 2 0.04
22 1 0.02
23 3 0.05
24 7 0.13
25 4 0.07
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTAATAAAAAATTATTTT
Found at i:43068 original size:39 final size:37
Alignment explanation
Indices: 42983--43073 Score: 119
Period size: 39 Copynumber: 2.4 Consensus size: 37
42973 ATTTGTTTAA
*
42983 TTTAAAATTTTAATTTAAGTTGTAATCATTTAATTAT
1 TTTAAAATTTTAATTTAAGTTATAATCATTTAATTAT
** *
43020 TTTTTAATTTTAATTTAGGAGTTATAATCGTTTAATTAT
1 TTTAAAATTTTAATTTA--AGTTATAATCATTTAATTAT
*
43059 TTTAAAATTTAAATT
1 TTTAAAATTTTAATT
43074 GTAATCGTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 15 0.33
39 30 0.67
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (37 bp):
TTTAAAATTTTAATTTAAGTTATAATCATTTAATTAT
Found at i:43164 original size:53 final size:55
Alignment explanation
Indices: 43038--43176 Score: 133
Period size: 53 Copynumber: 2.5 Consensus size: 55
43028 TTTAATTTAG
* * * * * *
43038 GAGTTATAATCGTTTAATTATTTTAAAATTTAAATTGTAATCGTTTAATTATTAA
1 GAGTTGTAATCATTTAATTATGTTAAAATTGAAATTGTAATCATCTAATTATTAA
* * *
43093 G-GTATGTAAT-AGTCTAATTA-GTTAAAATTGAACTTGT-ATCATCTCATTATTAA
1 GAGT-TGTAATCA-TTTAATTATGTTAAAATTGAAATTGTAATCATCTAATTATTAA
*
43146 GAGTTGTAATCATTTAATTATTTTTAAAATT
1 GAGTTGTAATCATTTAATTA-TGTTAAAATT
43177 ATTTATAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
53 27 0.40
54 19 0.28
55 21 0.31
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.47
Consensus pattern (55 bp):
GAGTTGTAATCATTTAATTATGTTAAAATTGAAATTGTAATCATCTAATTATTAA
Found at i:43201 original size:17 final size:16
Alignment explanation
Indices: 43179--43213 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
43169 TTAAAATTAT
43179 TTATAATTATTTTTAAA
1 TTATAATTA-TTTTAAA
43196 TTATAATTATTTTAAA
1 TTATAATTATTTTAAA
43212 TT
1 TT
43214 GCTAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATAATTATTTTAAA
Found at i:46335 original size:12 final size:12
Alignment explanation
Indices: 46318--46356 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
46308 GAAATATGAA
46318 AATTATCTAATT
1 AATTATCTAATT
46330 AATTATCTAATT
1 AATTATCTAATT
*
46342 ATATATATATAATT
1 A-AT-TATCTAATT
46356 A
1 A
46357 TTAAAATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
13 2 0.08
14 9 0.38
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (12 bp):
AATTATCTAATT
Found at i:46890 original size:29 final size:29
Alignment explanation
Indices: 46815--46893 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
46805 TCAATTAATT
* * *
46815 TAATGATTTATTGTAAAA-AAATAGTATTT
1 TAATAATTTATT-TAAAATTAATAGTATTC
* * *
46844 TGATAATTTATTTCAAATTAATATTATTC
1 TAATAATTTATTTAAAATTAATAGTATTC
46873 TAATAATTTATTTAAAATTAA
1 TAATAATTTATTTAAAATTAA
46894 GGGCGTTTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (29 bp):
TAATAATTTATTTAAAATTAATAGTATTC
Found at i:47364 original size:31 final size:31
Alignment explanation
Indices: 47327--47396 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
47317 ATTCAAATTG
47327 AATTGGCTAACGGTTAGATAATTCAATTTAA
1 AATTGGCTAACGGTTAGATAATTCAATTTAA
**
47358 AATTGGCTAACGGTTAGATAATTCAATTTGG
1 AATTGGCTAACGGTTAGATAATTCAATTTAA
47389 AATTGGCT
1 AATTGGCT
47397 GGTGGCTGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (31 bp):
AATTGGCTAACGGTTAGATAATTCAATTTAA
Found at i:47412 original size:38 final size:38
Alignment explanation
Indices: 47361--47470 Score: 157
Period size: 38 Copynumber: 2.9 Consensus size: 38
47351 AATTTAAAAT
*
47361 TGGCTAACGGTTAGATAATTCAATTTGGAATTGGCTGG
1 TGGCTAACGGTTAGAGAATTCAATTTGGAATTGGCTGG
** * *
47399 TGGCTGGCGGTTAGAGAATTCAATTTGGAATTAGTTGG
1 TGGCTAACGGTTAGAGAATTCAATTTGGAATTGGCTGG
* *
47437 TGGCTAATGGCTAGAGAATTCAATTTGGAATTGG
1 TGGCTAACGGTTAGAGAATTCAATTTGGAATTGG
47471 TTGACGGCTG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.26, C:0.09, G:0.31, T:0.34
Consensus pattern (38 bp):
TGGCTAACGGTTAGAGAATTCAATTTGGAATTGGCTGG
Found at i:51821 original size:38 final size:38
Alignment explanation
Indices: 51725--51832 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
51715 GAATTGGCTA
* * * * * *
51725 ACGGTTAGAGAATTTAATTTAAAATTAGCTAGCGGCTG
1 ACGGTTAGAGAATTCAATTTGAAATTGGCTGGAGACTG
*
51763 ATGGTTAGAGAATTCAATTTGAAATTGGCTGGAGACTG
1 ACGGTTAGAGAATTCAATTTGAAATTGGCTGGAGACTG
* *
51801 GCGGTTAGAGAATTCAATTTGGAATTGGCTGG
1 ACGGTTAGAGAATTCAATTTGAAATTGGCTGG
51833 CGACCATTGA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (38 bp):
ACGGTTAGAGAATTCAATTTGAAATTGGCTGGAGACTG
Found at i:59342 original size:21 final size:21
Alignment explanation
Indices: 59316--59364 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
59306 GGAGGATTCA
59316 GCTGAATTCTCTACTGATGAG
1 GCTGAATTCTCTACTGATGAG
59337 GCTGAATTCTCTACTGATGAG
1 GCTGAATTCTCTACTGATGAG
*
59358 ACTGAAT
1 GCTGAAT
59365 CCTCATCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (21 bp):
GCTGAATTCTCTACTGATGAG
Found at i:60968 original size:2 final size:2
Alignment explanation
Indices: 60961--60988 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
60951 TTTAAGGTAT
60961 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
60989 AATTCTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62667 original size:119 final size:119
Alignment explanation
Indices: 62471--62690 Score: 379
Period size: 119 Copynumber: 1.8 Consensus size: 119
62461 GAAAGTGTTT
* *
62471 GAGCAAACCAAAGAGCTCCTTCTCGAGGCACCCTTGGTCCTTGAACTACCTTGAAAACTGTTGTA
1 GAGCAAACCAAAGAGCTCCTTCTCGAGGCACCATTGGTCCTTGAACTACCTTGAAAACTCTTGTA
*
62536 GTAGATAGGAGTCCAATTACTTATAGAAATGTTTCTCTCAAAGAGAAGGCATTC
66 CTAGATAGGAGTCCAATTACTTATAGAAATGTTTCTCTCAAAGAGAAGGCATTC
* *
62590 GAGCAAACCAAAGAGCTCCTTCTCGA-GCTGCCATTGGTCCTTGAACTACCTTGAAAACTCTTTT
1 GAGCAAACCAAAGAGCTCCTTCTCGAGGC-ACCATTGGTCCTTGAACTACCTTGAAAACTCTTGT
62654 ACTAGATAGGAGTCCAATTACTTATAGAAATGTTTCT
65 ACTAGATAGGAGTCCAATTACTTATAGAAATGTTTCT
62691 TTCACTCACC
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
118 2 0.02
119 93 0.98
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (119 bp):
GAGCAAACCAAAGAGCTCCTTCTCGAGGCACCATTGGTCCTTGAACTACCTTGAAAACTCTTGTA
CTAGATAGGAGTCCAATTACTTATAGAAATGTTTCTCTCAAAGAGAAGGCATTC
Found at i:66787 original size:4 final size:4
Alignment explanation
Indices: 66778--66816 Score: 55
Period size: 4 Copynumber: 10.2 Consensus size: 4
66768 ACTAGCAGTT
*
66778 AAAG AAAG AAAG AAGG AAAG AAAG AAAG --AG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
66817 GACCGCAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
4 29 0.94
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:68055 original size:2 final size:2
Alignment explanation
Indices: 68048--68082 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
68038 TTATTCTAGT
68048 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
68083 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:68087 original size:2 final size:2
Alignment explanation
Indices: 68082--68120 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
68072 TCTCTCTCTC
68082 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
68121 CTTCTTTATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:69262 original size:20 final size:19
Alignment explanation
Indices: 69208--69262 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
69198 AAAACCCTTA
*
69208 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
69228 AAAGTATCGATACATATTGC
1 AAAGTATCGATACATATT-C
*
69248 AATGTATCGATACAT
1 AAAGTATCGATACAT
69263 GAAAAAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:69340 original size:13 final size:13
Alignment explanation
Indices: 69322--69347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69312 TACACCAAGT
69322 ATGTATCGATACA
1 ATGTATCGATACA
69335 ATGTATCGATACA
1 ATGTATCGATACA
69348 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:69345 original size:32 final size:33
Alignment explanation
Indices: 69304--69367 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
69294 TAGCCAAACT
* **
69304 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
69336 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
69368 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:73080 original size:13 final size:13
Alignment explanation
Indices: 73062--73087 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73052 ACATTTTTCT
73062 TTGTATCGATACA
1 TTGTATCGATACA
73075 TTGTATCGATACA
1 TTGTATCGATACA
73088 AGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:78802 original size:16 final size:15
Alignment explanation
Indices: 78775--78804 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
78765 ACAATTTAAT
78775 ATTTATTATATATAC
1 ATTTATTATATATAC
78790 ATTTATATATATATA
1 ATTTAT-TATATATA
78805 TATATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTATTATATATAC
Found at i:79582 original size:15 final size:15
Alignment explanation
Indices: 79562--79590 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79552 TTTCTGCATC
79562 TTCCTTTAACTGCAA
1 TTCCTTTAACTGCAA
79577 TTCCTTTAACTGCA
1 TTCCTTTAACTGCA
79591 TCTTCTGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.28, G:0.07, T:0.41
Consensus pattern (15 bp):
TTCCTTTAACTGCAA
Found at i:83228 original size:10 final size:10
Alignment explanation
Indices: 83213--83242 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
83203 TCTGATTATG
83213 TTTTCTTTTT
1 TTTTCTTTTT
83223 TTTTCTTTTT
1 TTTTCTTTTT
83233 TTTT-TTTTT
1 TTTTCTTTTT
83242 T
1 T
83243 GGGGGGGGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:86215 original size:4 final size:4
Alignment explanation
Indices: 86206--86233 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
86196 TATGCTACTT
86206 TTTG TTTG TTTG TTTG TTTG TTTG TTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG
86234 ATTCTCCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.25, T:0.75
Consensus pattern (4 bp):
TTTG
Found at i:89295 original size:2 final size:2
Alignment explanation
Indices: 89288--89318 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89278 ACCGTGGACA
89288 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
89319 TCCTGGATGT
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93955 original size:2 final size:2
Alignment explanation
Indices: 93950--93982 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
93940 GGGAGAAAAA
93950 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
93983 TGTGATTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:102307 original size:2 final size:2
Alignment explanation
Indices: 102300--102324 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102290 TCTTCTACTC
102300 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
102325 CATTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:102355 original size:2 final size:2
Alignment explanation
Indices: 102348--102390 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
102338 CTAACAAGAG
*
102348 AT AT AT AT AT AT AT AT AT AA 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
102390 A
1 A
102391 ATTAGCTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:102939 original size:12 final size:12
Alignment explanation
Indices: 102918--102947 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
102908 CACTCAACCC
102918 ATAT-TACATAT
1 ATATATACATAT
102929 ATATATACATAT
1 ATATATACATAT
102941 ATATATA
1 ATATATA
102948 TATGCACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATATACATAT
Found at i:105174 original size:2 final size:2
Alignment explanation
Indices: 105167--105193 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
105157 GGATATTATT
105167 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 T
105194 GGTTAAGTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107768 original size:2 final size:2
Alignment explanation
Indices: 107761--107795 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107751 CATGAGATGA
107761 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 A
107796 ACAAAAAAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:108864 original size:249 final size:248
Alignment explanation
Indices: 108397--108895 Score: 881
Period size: 249 Copynumber: 2.0 Consensus size: 248
108387 GGAGCATCAA
*
108397 GTCATCCTCAAGTGGTCATCACGGGCACGGGCTGTGGCTGGCAAGCTGAAGGGTTAATTGGAAAA
1 GTCATCATCAAGTGGTCATCACGGGCACGGGCTGTGGCTGGCAAGCTGAAGGGTTAATTGGAAAA
*
108462 ATGCTAGCTGAGGCGTTGATCGTAGTCCTCCGCCTCTGCCTCTGCATAAATGGGGAACATGCAGA
66 ATGCTAGCTGAGGCGTTGATCGTAGTCCTCCGCCTCTGCCTCTGCATAAATCGGGAACATGCAGA
108527 TTCTGCTTAATTATATATGCCAGTCAAGTCATCTTAACTAGTACCAGTATCATACATCAGATAAA
131 TTCTGCTTAATTATATATGCCAGTCAAGTCATCTTAACTAGTACCAGTATCATACATCAGATAAA
* *
108592 ATAAATGGGGGAACTGATGATTAACTTTAAATAGAAGTAAATCAGAAAATAAG
196 ATAAATGGGGGAACTGATGATTAACTTTAAATAGAAATAAATCAGAAAAAAAG
* * * * *
108645 GTCATCATCAAGTGGTCATCCCGTGCCCGTGGCTGTGGCTGGCAAGCTGAAGGGTTGATTGGAAC
1 GTCATCATCAAGTGGTCATCACGGGCACG-GGCTGTGGCTGGCAAGCTGAAGGGTTAATTGGAAA
108710 AATGCTAGCTGAGGCGTTGATCGTAGTCCTCCGCCTCTGCCTCTGCATAAATCGGGAACATGCAG
65 AATGCTAGCTGAGGCGTTGATCGTAGTCCTCCGCCTCTGCCTCTGCATAAATCGGGAACATGCAG
* *
108775 TTTCTGCTTAATTATATATGCGAGTCAAGTCATCTTAACTAGTACCAGTATCATACATCAGATAA
130 ATTCTGCTTAATTATATATGCCAGTCAAGTCATCTTAACTAGTACCAGTATCATACATCAGATAA
*
108840 AATAAATGGGGGAATTGATGATTAACTTTAAATAGAAATAAATCAGAAAAAAAG
195 AATAAATGGGGGAACTGATGATTAACTTTAAATAGAAATAAATCAGAAAAAAAG
108894 GT
1 GT
108896 TGATAATTGC
Statistics
Matches: 238, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
248 25 0.11
249 213 0.89
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (248 bp):
GTCATCATCAAGTGGTCATCACGGGCACGGGCTGTGGCTGGCAAGCTGAAGGGTTAATTGGAAAA
ATGCTAGCTGAGGCGTTGATCGTAGTCCTCCGCCTCTGCCTCTGCATAAATCGGGAACATGCAGA
TTCTGCTTAATTATATATGCCAGTCAAGTCATCTTAACTAGTACCAGTATCATACATCAGATAAA
ATAAATGGGGGAACTGATGATTAACTTTAAATAGAAATAAATCAGAAAAAAAG
Found at i:110071 original size:23 final size:25
Alignment explanation
Indices: 110045--110094 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
110035 TATGTTAATT
* *
110045 TTAATATATTTTTAAT-TAT-TAAA
1 TTAATAAATTATTAATATATATAAA
110068 TTAATAAATTATTAATATATATAAA
1 TTAATAAATTATTAATATATATAAA
110093 TT
1 TT
110095 TATTTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 14 0.61
24 3 0.13
25 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTAATAAATTATTAATATATATAAA
Found at i:110551 original size:9 final size:10
Alignment explanation
Indices: 110534--110582 Score: 59
Period size: 9 Copynumber: 5.1 Consensus size: 10
110524 TATTATTAAT
110534 AATAATTTTA
1 AATAATTTTA
110544 AA-AATTTTA
1 AATAATTTTA
110553 AATAA-TTTA
1 AATAATTTTA
*
110562 ATTAA-TTTA
1 AATAATTTTA
110571 AATAATATTTA
1 AATAAT-TTTA
110582 A
1 A
110583 TTAACTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 25 0.74
10 4 0.12
11 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AATAATTTTA
Found at i:110582 original size:20 final size:18
Alignment explanation
Indices: 110549--110586 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
110539 TTTTAAAAAT
110549 TTTAAATAATTTAATTAA
1 TTTAAATAATTTAATTAA
110567 TTTAAATAATATTTAATTAA
1 TTTAAAT-A-ATTTAATTAA
110587 CTCAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAATTTAATTAA
Found at i:112579 original size:2 final size:2
Alignment explanation
Indices: 112572--112607 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
112562 AAAACCATCC
112572 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
112608 TAATAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113345 original size:22 final size:23
Alignment explanation
Indices: 113310--113355 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
113300 TTTAAACTTC
113310 ATAATATTAATTAATAGATATAT
1 ATAATATTAATTAATAGATATAT
*
113333 ATAA-ATTTATTAATAGATATAT
1 ATAATATTAATTAATAGATATAT
113355 A
1 A
113356 AATTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
ATAATATTAATTAATAGATATAT
Found at i:113354 original size:20 final size:21
Alignment explanation
Indices: 113310--113359 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 21
113300 TTTAAACTTC
*
113310 ATAATATTAATTAATAGATATAT
1 ATAA-ATTTATTAATAGA-ATAT
113333 ATAAATTTATTAATAG-ATAT
1 ATAAATTTATTAATAGAATAT
113353 ATAAATT
1 ATAAATT
113360 ATAAATTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
22 11 0.42
23 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
ATAAATTTATTAATAGAATAT
Found at i:113391 original size:27 final size:27
Alignment explanation
Indices: 113332--113391 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
113322 AATAGATATA
* *
113332 TATAAATTTATTAATAGATATATAAAT
1 TATAAATTCATTAATAGATATATAAAG
* * *
113359 TATAAATTCATTTATAGATTTATAGAG
1 TATAAATTCATTAATAGATATATAAAG
*
113386 TCTAAA
1 TATAAA
113392 CTTTATAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (27 bp):
TATAAATTCATTAATAGATATATAAAG
Found at i:113727 original size:73 final size:73
Alignment explanation
Indices: 113642--113782 Score: 237
Period size: 73 Copynumber: 1.9 Consensus size: 73
113632 AACCTCATTT
* *
113642 ATTGAATTTAATATAATATATTAATTTCATTAATTATTTTTTAAATTACATTTTAATTCATTTTA
1 ATTGAATTTAATATAATACATTAATTTCATTAATTACTTTTTAAATTACATTTTAATTCATTTTA
113707 GTAAAATC
66 GTAAAATC
** *
113715 ATTGAATTTAATATAATACATTAATTTCATTAATTACTTTTTAAATTATGTTTTAATTCTTTTTA
1 ATTGAATTTAATATAATACATTAATTTCATTAATTACTTTTTAAATTACATTTTAATTCATTTTA
113780 GTA
66 GTA
113783 GAATTTAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (73 bp):
ATTGAATTTAATATAATACATTAATTTCATTAATTACTTTTTAAATTACATTTTAATTCATTTTA
GTAAAATC
Found at i:113859 original size:37 final size:36
Alignment explanation
Indices: 113812--113892 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
113802 ACTAAAAATA
*
113812 TAATA-ATAAAAATTATTA-AACATTAAAATTTTTATT
1 TAATATATAAAAATTATTATAA-ATTAAAA-TTTAATT
*
113848 TAATATATAAAAATTTTTATAAATTAAAATTTAATT
1 TAATATATAAAAATTATTATAAATTAAAATTTAATT
*
113884 TTATATATA
1 TAATATATA
113893 TTAAAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
36 19 0.47
37 19 0.47
38 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (36 bp):
TAATATATAAAAATTATTATAAATTAAAATTTAATT
Found at i:113878 original size:16 final size:17
Alignment explanation
Indices: 113820--113879 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 17
113810 TATAATAATA
*
113820 AAAATTATTA-AACATT
1 AAAATTTTTATAACATT
*
113836 AAAATTTTTATTTAATATAT
1 AAAATTTTTA--TAACAT-T
113856 AAAAATTTTTATAA-ATT
1 -AAAATTTTTATAACATT
113873 AAAATTT
1 AAAATTT
113880 AATTTTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 16 0.43
17 1 0.03
18 2 0.05
19 7 0.19
20 1 0.03
21 10 0.27
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTTTTATAACATT
Found at i:113887 original size:20 final size:23
Alignment explanation
Indices: 113859--113906 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
113849 AATATATAAA
*
113859 AATTTT-TATAAATTAAAAT-TT
1 AATTTTATATATATTAAAATATT
113880 AATTTTATATATATTAAAATATT
1 AATTTTATATATATTAAAATATT
113903 AATT
1 AATT
113907 ATGCATAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 6 0.25
22 12 0.50
23 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTTTATATATATTAAAATATT
Found at i:113939 original size:2 final size:2
Alignment explanation
Indices: 113932--113967 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
113922 TAAAATACTA
113932 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
113968 TGGATAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115718 original size:2 final size:2
Alignment explanation
Indices: 115711--115736 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
115701 ATTAATATTA
115711 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
115737 TAATTCTTCT
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:115933 original size:6 final size:6
Alignment explanation
Indices: 115924--115956 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
115914 AATATATAGA
115924 TATATG TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TATATG TAT
115957 TTGCAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:116552 original size:2 final size:2
Alignment explanation
Indices: 116545--116577 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
116535 AGGGCCCAAG
116545 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
116578 AGATTTCCAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:119074 original size:2 final size:2
Alignment explanation
Indices: 119067--119091 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
119057 TCATTTCAAT
119067 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 T
119092 CTTAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120133 original size:2 final size:2
Alignment explanation
Indices: 120126--120171 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
120116 GAATTTAGAC
120126 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120167 TA TA T
1 TA TA T
120172 CTTGATCCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121403 original size:8 final size:7
Alignment explanation
Indices: 121384--121427 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
121374 AAAAAGAAAG
121384 GAAAAAT
1 GAAAAAT
121391 GAAAAAT
1 GAAAAAT
121398 GTAAAAA-
1 G-AAAAAT
*
121405 GAAAAAA
1 GAAAAAT
121412 GAAAAA-
1 GAAAAAT
121418 GAAAAAT
1 GAAAAAT
121425 GAA
1 GAA
121428 CAGAAAGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 11 0.32
7 18 0.53
8 5 0.15
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (7 bp):
GAAAAAT
Found at i:123138 original size:3 final size:3
Alignment explanation
Indices: 123130--123164 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
123120 TTTCATTTTC
123130 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
123165 CGTACGCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:123373 original size:27 final size:27
Alignment explanation
Indices: 123343--123408 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
123333 AAATTGTGTT
*
123343 GTAAATTTTAAAATTTAATTTAAAACA
1 GTAAATTATAAAATTTAATTTAAAACA
*
123370 GTAAATTATAAAATTTAATTTAAAATA
1 GTAAATTATAAAATTTAATTTAAAACA
123397 GTGAAGATTATA
1 GT-AA-ATTATA
123409 TAGTATTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 27 0.77
28 2 0.06
29 6 0.17
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (27 bp):
GTAAATTATAAAATTTAATTTAAAACA
Found at i:123788 original size:204 final size:202
Alignment explanation
Indices: 123435--123830 Score: 684
Period size: 204 Copynumber: 2.0 Consensus size: 202
123425 TTTTATAAAT
* * *
123435 AGAAAAGTTTTCAGTAGTTTCAGATAGATTGACAGAAAAAAAATATATTTTCTTTCACTAAAAAT
1 AGAAAAGTTTTCAGTAGGTTCAGACAGATAGACAGAAAAAAAATATATTTTCTTTCACTAAAAAT
123500 TGTAAAAATAATGTGAAACAATGAGATTATCACACTATAAAAAATAGTAAAAAACATAATACTCC
66 TGTAAAAATAATGTGAAACAATGAGATTATCACACTATAAAAAATAGTAAAAAACATAATACTCC
123565 ACAGAGAGAGTATTGAGAGATAAAATTATGAGGATTGTGAGCATATCCTGGAGTGTGTGATAAAT
131 ACAGAGAGAGTATTGAGAGATAAAATTATGAGGATTGTGAGCATATCCTGGAGTGTGTGATAAAT
123630 AGTGAAC
196 AGTGAAC
* *
123637 AGAAGAGTTTTCAGTAGGTTCAGACAGATAGACAGAAAAGAAAAATATATTTTCTTTTACTAAAA
1 AGAAAAGTTTTCAGTAGGTTCAGACAGATAGACAG-AAA-AAAAATATATTTTCTTTCACTAAAA
* * * *
123702 ATTGTAAGAATAGTGTGAAACAATGGGATTATCACACTATAAAAAATAGTGAAAAACATAATACT
64 ATTGTAAAAATAATGTGAAACAATGAGATTATCACACTATAAAAAATAGTAAAAAACATAATACT
*
123767 CCACAGAGAGAGTATTGAGAGATAAAATTGTGAGGATTGTGAGCATATCCTGGAGTGTGTGATA
129 CCACAGAGAGAGTATTGAGAGATAAAATTATGAGGATTGTGAGCATATCCTGGAGTGTGTGATA
123831 CTCAAGTTAG
Statistics
Matches: 182, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
202 31 0.17
203 3 0.02
204 148 0.81
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (202 bp):
AGAAAAGTTTTCAGTAGGTTCAGACAGATAGACAGAAAAAAAATATATTTTCTTTCACTAAAAAT
TGTAAAAATAATGTGAAACAATGAGATTATCACACTATAAAAAATAGTAAAAAACATAATACTCC
ACAGAGAGAGTATTGAGAGATAAAATTATGAGGATTGTGAGCATATCCTGGAGTGTGTGATAAAT
AGTGAAC
Found at i:124027 original size:44 final size:44
Alignment explanation
Indices: 123962--124088 Score: 211
Period size: 44 Copynumber: 2.9 Consensus size: 44
123952 AGTGTTTTTA
123962 TTATTTATTTTTTCGTGGATTGGCATAGCCACCAAATTGCATAT
1 TTATTTATTTTTTCGTGGATTGGCATAGCCACCAAATTGCATAT
*
124006 TTATTTATTTTTTCGTAGATTGGCATAGCCACTC-AATTGCATAT
1 TTATTTATTTTTTCGTGGATTGGCATAGCCAC-CAAATTGCATAT
*
124050 TTATTTATTTTTCCGTGGATTGGCATAGCCACCCAAATT
1 TTATTTATTTTTTCGTGGATTGGCATAGCCA-CCAAATT
124089 CTAACAATCA
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
44 71 0.92
45 6 0.08
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (44 bp):
TTATTTATTTTTTCGTGGATTGGCATAGCCACCAAATTGCATAT
Found at i:128956 original size:2 final size:2
Alignment explanation
Indices: 128949--128986 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
128939 TTGTCTGCGT
128949 TA TA TA 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 TA TA TA
128987 GAACAAGAAA
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):
TA
Found at i:129009 original size:39 final size:39
Alignment explanation
Indices: 128966--129042 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
128956 ATATATATAT
128966 ATATATATATATATATATATAGAACAAGAAACAACTGAC
1 ATATATATATATATATATATAGAACAAGAAACAACTGAC
129005 ATATATATATATATATATATAGAACAAGAAACAACTGA
1 ATATATATATATATATATATAGAACAAGAAACAACTGA
129043 TATTCTTAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.29
Consensus pattern (39 bp):
ATATATATATATATATATATAGAACAAGAAACAACTGAC
Found at i:129367 original size:2 final size:2
Alignment explanation
Indices: 129362--129386 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
129352 AAGTACATTA
129362 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 A
129387 GTGCATGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:130709 original size:3 final size:3
Alignment explanation
Indices: 130701--130736 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
130691 AATATTAAGT
130701 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
130737 ATATTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:131228 original size:2 final size:2
Alignment explanation
Indices: 131221--131262 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
131211 TTTGGTTTGA
131221 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131262 A
1 A
131263 GAGAAAGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131547 original size:2 final size:2
Alignment explanation
Indices: 131540--131579 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
131530 AAAAACAATT
131540 TA TA TA TA 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 TA TA TA TA
131580 GTTATGAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:132819 original size:104 final size:104
Alignment explanation
Indices: 132639--132846 Score: 389
Period size: 104 Copynumber: 2.0 Consensus size: 104
132629 ATCATCTTTG
*
132639 AAGAGGTAGTATATTTACAAATATGCTTCAAGGGCCAGGATCATTCAACCAAGAAATAAGTGAGC
1 AAGAGGAAGTATATTTACAAATATGCTTCAAGGGCCAGGATCATTCAACCAAGAAATAAGTGAGC
132704 TGATCCCAGCCGTCCGATCAAATCCGCTACCAAATTAGA
66 TGATCCCAGCCGTCCGATCAAATCCGCTACCAAATTAGA
*
132743 AAGAGGAAGTATATTTACAAATATGCTTCAAGGGCCAGGATCATTCAATCAAGAAATAAGTGAGC
1 AAGAGGAAGTATATTTACAAATATGCTTCAAGGGCCAGGATCATTCAACCAAGAAATAAGTGAGC
*
132808 TGATCCCAGCCGTCCGTTCAAATCCGCTACCAAATTAGA
66 TGATCCCAGCCGTCCGATCAAATCCGCTACCAAATTAGA
132847 GCGCGGGAAT
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (104 bp):
AAGAGGAAGTATATTTACAAATATGCTTCAAGGGCCAGGATCATTCAACCAAGAAATAAGTGAGC
TGATCCCAGCCGTCCGATCAAATCCGCTACCAAATTAGA
Found at i:134813 original size:2 final size:2
Alignment explanation
Indices: 134806--134846 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
134796 TCCTTTTAAA
134806 TC TC TC 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 TC TC TC T
134847 TAATAATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:136084 original size:3 final size:3
Alignment explanation
Indices: 136076--136109 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
136066 TTGTTTTGGC
136076 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
136110 GAGTTATAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:136737 original size:3 final size:3
Alignment explanation
Indices: 136723--136752 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
136713 AAGGAACAGG
*
136723 TTC TTC TGC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
136753 ATCAGCAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:141442 original size:3 final size:3
Alignment explanation
Indices: 141427--141470 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
141417 CAGTTGAAAA
*
141427 ATT ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
141471 CAATAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:141587 original size:1 final size:1
Alignment explanation
Indices: 141583--141608 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
141573 CGGGGGAGGC
141583 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
141609 TTTGAGGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:143465 original size:3 final size:3
Alignment explanation
Indices: 143457--143482 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
143447 TTTAGGGTTG
143457 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
143483 TAAATCAAGA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:143627 original size:2 final size:2
Alignment explanation
Indices: 143620--143659 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
143610 GAATTTCACC
*
143620 TA TA TA TA TG 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 TA TA TA TA
143660 AAACAAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:145811 original size:2 final size:2
Alignment explanation
Indices: 145804--145836 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
145794 CTACTCATTT
145804 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
145837 AGAAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:148148 original size:12 final size:12
Alignment explanation
Indices: 148127--148160 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
148117 AAGCAAAACT
*
148127 TACATCTATATA
1 TACATATATATA
148139 TACATATATATA
1 TACATATATATA
*
148151 TATATATATA
1 TACATATATA
148161 ATCAGAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (12 bp):
TACATATATATA
Found at i:150872 original size:55 final size:55
Alignment explanation
Indices: 150784--150887 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
150774 TCTCAGCAAG
* * * *
150784 GCTTTGGAATATTACGAATGTGGCAGCAAATTCAATTAATCAAGGCTTAATTAAT
1 GCTTTGGAATATTAAGAACGTGGCAACAAATTCAATTAATCAAGACTTAATTAAT
*
150839 GCTTTGGAATATTAAGAACGTGGCAACAGATTCAATTAATCAAGACTTA
1 GCTTTGGAATATTAAGAACGTGGCAACAAATTCAATTAATCAAGACTTA
150888 CGTAATGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (55 bp):
GCTTTGGAATATTAAGAACGTGGCAACAAATTCAATTAATCAAGACTTAATTAAT
Found at i:154751 original size:50 final size:50
Alignment explanation
Indices: 154676--154881 Score: 272
Period size: 50 Copynumber: 4.1 Consensus size: 50
154666 AGTTACTTAG
* * * *
154676 AGTCAACAATTA-TAGTCACATCTCTCTATTGTCAAAGGTTGGTGAAGAAC
1 AGTCAACAATTACGA-TCACCTCTCTCTATTGTCAAAAGTTGGTGAAGAAT
154726 AGTCAACAATTACGATCACCTCTCTCTATTGTCAAAAGTTGGTGAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCTATTGTCAAAAGTTGGTGAAGAAT
* * * *
154776 AGTCAACAATTATGATCACCTCTCTCTATTATCAAAAATTGGTAAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCTATTGTCAAAAGTTGGTGAAGAAT
* * *
154826 AGTCAACAATTACGACCATCTCTCT-TGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCT-ATTGTCAAAAGTTGGTGAAGAAT
*
154876 AATCAA
1 AGTCAA
154882 TAATGACAAT
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 136 0.99
51 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTACGATCACCTCTCTCTATTGTCAAAAGTTGGTGAAGAAT
Found at i:159333 original size:50 final size:50
Alignment explanation
Indices: 159237--159335 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
159227 TTGCTTAGAA
* * * * *
159237 TCAACAATTACGGTCACCTCTCTCTATTATCAAAGGTTGGTGAAGAATAG
1 TCAACAATTACGATCACCTCTCTCTATTATCAAAAGTCGATAAAGAATAG
159287 TCAACAATTACGATCACCTCTCT-TAATTATCAAAAGTCGATAAAGAATA
1 TCAACAATTACGATCACCTCTCTCT-ATTATCAAAAGTCGATAAAGAATA
159336 ATAAATGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.02
50 42 0.98
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (50 bp):
TCAACAATTACGATCACCTCTCTCTATTATCAAAAGTCGATAAAGAATAG
Found at i:163480 original size:4 final size:4
Alignment explanation
Indices: 163471--163495 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
163461 TTGGTTTCCA
163471 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
163496 ATCTCAATTT
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:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:166701 original size:20 final size:20
Alignment explanation
Indices: 166662--166716 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
166652 TAACGTTACT
* *
166662 TTTTTCTCAAAATTTTATTTGC
1 TTTTT-TCAAAATATCATTT-C
*
166684 TTTTTT-AAAATATCATTTT
1 TTTTTTCAAAATATCATTTC
166703 TTTTTTCAAAATAT
1 TTTTTTCAAAATAT
166717 AAAATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 6 0.21
20 17 0.59
21 1 0.03
22 5 0.17
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTTCAAAATATCATTTC
Found at i:177340 original size:2 final size:2
Alignment explanation
Indices: 177333--177363 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
177323 ACTAGAAGAA
177333 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
177364 TTGGCTAATT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:177783 original size:4 final size:4
Alignment explanation
Indices: 177774--177799 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
177764 GCATGAAAAA
177774 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
177800 CTTTCTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:180796 original size:2 final size:2
Alignment explanation
Indices: 180789--180822 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
180779 CACCCGTGCT
180789 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
180823 AAAATGCCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:183793 original size:2 final size:2
Alignment explanation
Indices: 183788--183816 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
183778 ATATATATAG
183788 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
183817 ATATAATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:185446 original size:15 final size:16
Alignment explanation
Indices: 185414--185448 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
185404 AATGATTTAT
185414 AAATTTGTTGACAAAA
1 AAATTTGTTGACAAAA
*
185430 AAATTTGTTTA-AAAA
1 AAATTTGTTGACAAAA
185445 AAAT
1 AAAT
185449 ATTCTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (16 bp):
AAATTTGTTGACAAAA
Found at i:186092 original size:3 final size:3
Alignment explanation
Indices: 186086--186149 Score: 101
Period size: 3 Copynumber: 20.3 Consensus size: 3
186076 CAAAAAAAAA
186086 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG
186132 AAG AAG AAAG AAGG AAG A
1 AAG AAG -AAG AA-G AAG A
186150 CAACGCTCTG
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
3 49 0.84
4 9 0.16
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:197715 original size:3 final size:3
Alignment explanation
Indices: 197707--197761 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
197697 AATTAAGCAC
197707 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
197755 ATA ATA A
1 ATA ATA A
197762 GAAATAAGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:198682 original size:6 final size:6
Alignment explanation
Indices: 198666--198700 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
198656 TGACTTCTTT
198666 TTTTCCC TTTTCC TTTTCC TTTTCC TTTTCC TTTT
1 TTTT-CC TTTTCC TTTTCC TTTTCC TTTTCC TTTT
198701 AATTTTTGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCC
Found at i:198706 original size:18 final size:19
Alignment explanation
Indices: 198666--198706 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
198656 TGACTTCTTT
**
198666 TTTTCCCTTTTCCTTTTCC
1 TTTTCCCTTTTCCTTTTAA
198685 TTTT-CCTTTTCCTTTTAA
1 TTTTCCCTTTTCCTTTTAA
198703 TTTT
1 TTTT
198707 TGGCTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCCCTTTTCCTTTTAA
Done.