Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold206
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: 2736418
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 22040 characters in sequence are not A, C, G, or T
File 1 of 20
Found at i:56 original size:23 final size:23
Alignment explanation
Indices: 9--2849 Score: 609
Period size: 22 Copynumber: 130.3 Consensus size: 23
1 ACCCGAAC
** *
9 CGAAACCCGAAAAACAGAAACC-
1 CGAAACCCGAAACCCGGAAACCG
*
31 CGAAACCCGGAATA-CCGCAAACC-
1 CGAAACCC-GAA-ACCCGGAAACCG
54 CGAAACCCCGCAAACCC-GAAACC-
1 CGAAA-CCCG-AAACCCGGAAACCG
*
77 CGAAAACCGAAACCTC-GAAATCC-
1 CGAAACCCGAAACC-CGGAAA-CCG
* *
100 CGAAACCCG-AACCCTCGAAAAC-
1 CGAAACCCGAAACCC-GGAAACCG
*
122 CGAACACCCGAAACCCGAAAACC-
1 CGAA-ACCCGAAACCCGGAAACCG
*
145 CTGAAACCTGAAA-CC-G-AA-C-
1 C-GAAACCCGAAACCCGGAAACCG
*
164 C-AAACCCGAATA-CC-GAAACCT
1 CGAAACCCGAA-ACCCGGAAACCG
* *
185 CGAAACCGGCTTGATACCCGAAAACCG
1 CGAAACC--C--GAAACCCGGAAACCG
* *
212 -GGAACCCGAAACCC-TAAACC-
1 CGAAACCCGAAACCCGGAAACCG
232 CTGTAAACCCGAAAACCTC-GAAACC-
1 C-G-AAACCCG-AAACC-CGGAAACCG
* *
257 CG-AACCCGAAACCTTGAAAAACC-
1 CGAAACCCGAAACC-CG-GAAACCG
* * *
280 CGAAACCCG-AACTC-GATACCC
1 CGAAACCCGAAACCCGGAAACCG
301 CG-AACCCGAAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
321 CGAAACCCGAAACCC-GAATACC-
1 CGAAACCCGAAACCCGGAA-ACCG
343 CGAAACCTTCTGAAACCC-GAAGACC-
1 CGAAACC--C-GAAACCCGGAA-ACCG
* *
368 CG-AACCAGAAATACCC-GAAACCT
1 CGAAACCCG-AA-ACCCGGAAACCG
*
391 CGAAAAACCCGACACCC-GAAA-C-
1 CG--AAACCCGAAACCCGGAAACCG
413 CG-AACCCGAAACCC-G-AACC-
1 CGAAACCCGAAACCCGGAAACCG
*
432 CGAACCCCGAAA-CC-GATAACC-
1 CGAAACCCGAAACCCGGA-AACCG
*
453 AGAAACCCG-AACCC-GAAACCG
1 CGAAACCCGAAACCCGGAAACCG
474 C--AACCCGAAACCC-GATAACC-
1 CGAAACCCGAAACCCGGA-AACCG
*
494 CG-AACCCGACA-CC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
*
513 CGCAACCCGAAA--C-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
532 CGAAAACCCG-AACCCGAAAACCT
1 CG-AAACCCGAAACCCGGAAACCG
555 CGAAACCCG-AA-CC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
*
574 CGATACCCGAAAACCTC-G-AACC-
1 CGAAACCCG-AAACC-CGGAAACCG
*
596 CGAAA-CCG-AACCCCGAAACC-
1 CGAAACCCGAAACCCGGAAACCG
*
616 CGAAACCCGAAACCC-GAAATC-
1 CGAAACCCGAAACCCGGAAACCG
*
637 CGAAACCCCAAACCC-GAAA-C-
1 CGAAACCCGAAACCCGGAAACCG
657 CGAAACTCCGGAAACCC-GAAACC-
1 CGAAAC-CC-GAAACCCGGAAACCG
680 CGAAACCCGAAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
701 CGAAACCCGAAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
722 CGTAAACCCGAAACCC-GAAACC-
1 CG-AAACCCGAAACCCGGAAACCG
744 CGAAACCCGAAAAACCC-G--ACC-
1 CGAAACCCG--AAACCCGGAAACCG
*
765 CGAAACCTCGAATACCCGGAATACCTC
1 CGAAACC-CGAA-ACCCGGAA-ACC-G
* *
792 CGACACCCGAAACCCGTAATACC-
1 CGAAACCCGAAACCCGGAA-ACCG
815 CGAAACCCGAAA-CC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
835 CGGATAACCCGAAACCC-GAAACC-
1 C-GA-AACCCGAAACCCGGAAACCG
*
858 CGTAAACTCGAAATCCAC-G-AACC-
1 CG-AAACCCGAAA-CC-CGGAAACCG
* *
881 CGATAACTCGAAAACC-GAAA-C-
1 CGA-AACCCGAAACCCGGAAACCG
* *
902 AGAAACCCGAAA-CCGAAAGACC-
1 CGAAACCCGAAACCCGGAA-ACCG
* **
924 CGAACCCCCGAATTACCCTTTAAACC-
1 CGAA-ACCCGAA--ACCC-GGAAACCG
950 CGAAACCCGAAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
*
971 CTTAAA--CGAAATCCC-GATAACC-
1 C-GAAACCCGAAA-CCCGGA-AACCG
993 CGAAACCCTG-AA-CC-GAAA---
1 CGAAACCC-GAAACCCGGAAACCG
*
1011 CGAATACTAACCGAAACCC-TAAACC-
1 CGAA-AC---CCGAAACCCGGAAACCG
*
1036 CGAATACCCGAAACCC-TAAACC-
1 CGAA-ACCCGAAACCCGGAAACCG
1058 CGAAACCCGAAACCTC--AAACCG
1 CGAAACCCGAAACC-CGGAAACCG
*
1080 -AAAACTCCGAAACCC-GAAACC-
1 CGAAAC-CCGAAACCCGGAAACCG
* *
1101 CGAAAACCCGCAACCCTGAAACC-
1 CG-AAACCCGAAACCCGGAAACCG
*
1124 CGAAACCGGAAA--C-GAATACC-
1 CGAAACCCGAAACCCGGAA-ACCG
1144 CGAAA-CCGAAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
1164 CGAAA-CCGAAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
*
1184 CG-AACCCGAAAACC-GAAA-CG
1 CGAAACCCGAAACCCGGAAACCG
1204 CGAAGAACCCGAAACCC-GAATACC-
1 CG-A-AACCCGAAACCCGGAA-ACCG
*
1228 CGAAAAACTCCGCAACCC-GAAA-C-
1 CG--AAAC-CCGAAACCCGGAAACCG
*
1251 CGAAACCCGGACAACCCGAAAACTC-
1 CGAAACCC-GA-AACCCGGAAAC-CG
* *
1276 CGGAAACCCTAAA-CCAGAAACC-
1 C-GAAACCCGAAACCCGGAAACCG
1298 CG-AACCCGATAACCC-G-AA-C-
1 CGAAACCCGA-AACCCGGAAACCG
* * * **
1317 CGAAACCTGAAAAAACCTGCCACC-
1 CGAAACCCG--AAACCCGGAAACCG
*
1341 CGAAACCCGAAAACCC-GCAACCGG
1 CGAAACCCG-AAACCCGGAAACC-G
* *
1365 CCTAAACCCGATAA-CC-GACACC-
1 -CGAAACCCGA-AACCCGGAAACCG
1387 CGAAACCCGAAAACCTC-GAAACTC-
1 CGAAACCCG-AAACC-CGGAAAC-CG
*
1411 CG-AACCCGCCAACCC-GAAACC-
1 CGAAACCCG-AAACCCGGAAACCG
* *
1432 CGAAACCCGAAACCCCGAAAAC-
1 CGAAACCCGAAACCCGGAAACCG
*
1454 CGAAA-CCGTAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
1474 CGAAACCCGAAAAACCCGTAATCC-
1 CGAAACCCG--AAACCCGGAAACCG
* *
1498 CG-AACTCGATA-CC-G-AACC-
1 CGAAACCCGAAACCCGGAAACCG
* * *
1516 CGAAATCCCGCAATCCCTGCAA-C-
1 CGAAA-CCCG-AAACCCGGAAACCG
1539 CGAAACCC-AAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
1559 CTGAAACCCG-AA-CC-GAAACC-
1 C-GAAACCCGAAACCCGGAAACCG
1579 CGAAACCCGATAACCC-GAAACC-
1 CGAAACCCGA-AACCCGGAAACCG
*
1601 CGAAACCCGAAAGCC-GAAACCG
1 CGAAACCCGAAACCCGGAAACCG
*
1623 -GTAAA-CC-AACACCTC-AAAACTC-
1 CG-AAACCCGAA-ACC-CGGAAAC-CG
* *
1645 CGAAACCC-ATAAACC-GCAACC-
1 CGAAACCCGA-AACCCGGAAACCG
* * **
1666 CGCAACCCAAAACCCCAAAACC-
1 CGAAACCCGAAACCCGGAAACCG
*
1688 CTGAATACCCTGAAACCCGACAAACC-
1 C-GAA-ACCC-GAAACCCG-GAAACCG
1714 CGAAA--CG-AACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
1732 CGAAACCCGAAAGCCC-GAACCCC
1 CGAAACCCGAAA-CCCGGAAACCG
1755 CGAATACCCGTACAACCC-GAAACC-
1 CGAA-ACCCG-A-AACCCGGAAACCG
* *
1779 CGAAAACCG-AA-CCGAAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
1799 CGAATACCAG-AACCC-GAACCCG
1 CGAA-ACCCGAAACCCGGAAACCG
** ** *
1821 TAAAAACTCC-CTACCCCGAAA-C-
1 -CGAAAC-CCGAAACCCGGAAACCG
* *
1843 CTAAACCCGACACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* * *
1864 CG-ATCACCG-AACCTCGAAAACCCC
1 CGAAAC-CCGAAACC-CGGAAA-CCG
1888 CGAAACCCGAAACTCC-GAAACCG
1 CGAAACCCGAAAC-CCGGAAACCG
*
1911 -AAAACCCGAAA-CC-GAAACCCG
1 CGAAACCCGAAACCCGGAAA-CCG
*
1932 CTAAA-CCGAATACCC-GAAA-C-
1 CGAAACCCGAA-ACCCGGAAACCG
1952 CGAATACCCGAAAACCC-GAAACC-
1 CGAA-ACCCG-AAACCCGGAAACCG
* *
1975 CGAAAACCCG-GACCCCGAAACC-
1 CG-AAACCCGAAACCCGGAAACCG
1997 CGAAA-CCGAAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
2017 CGAAAAACCCGACAACCC-G-AACC-
1 CG--AAACCCGA-AACCCGGAAACCG
2040 CGAAA-CC-AAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
2059 CGAAACCCGGAAACCC-GAAACC-
1 CGAAACCC-GAAACCCGGAAACCG
2081 CGAAACCCGAAACCC-G-AACC-
1 CGAAACCCGAAACCCGGAAACCG
2101 CGAAACCCGAAACCC-GAAA-C-
1 CGAAACCCGAAACCCGGAAACCG
*
2121 CGAAA-CCGAAACCCAGAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
2142 CTTAAACCCTAAACCC-GAAA-C-
1 C-GAAACCCGAAACCCGGAAACCG
*
2163 CGAAA-CCAAAACCC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
2183 CG-AACCCTGAAA-CC-G-AACC-
1 CGAAACCC-GAAACCCGGAAACCG
**
2202 TAAAACCACGAAA-CCGG-AA-C-
1 CGAAACC-CGAAACCCGGAAACCG
2222 CGAAA-CCGAAA-CC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
2241 CGAAACCCGAAACCCGGAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
2263 CTAAACCCGAAACTCC-GAAACCC
1 CGAAACCCGAAAC-CCGGAAACCG
* * *
2286 CGAAATAACCGAAACCCCGCAACC-
1 CG-AA-ACCCGAAACCCGGAAACCG
* *
2310 CGAAA-CCGACACCC-TAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
2330 CGCAGTACCCGAAACCCGAAAACC-
1 CG-A-AACCCGAAACCCGGAAACCG
* * * *
2354 CGCAACCCTAAAACC-TAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* * *
2375 CGACACCCAAAACTCC-CAAACC-
1 CGAAACCCGAAAC-CCGGAAACCG
* * * *
2397 CCAGACCCTAAACCC-G-AACCC
1 CGAAACCCGAAACCCGGAAACCG
* * **
2418 CAAAAACCCCAAAACCCCAAAACC-
1 C-GAAA-CCCGAAACCCGGAAACCG
* *
2442 CGAAACCCTAAAACCC-GAAACCC
1 CGAAACCC-GAAACCCGGAAACCG
* * *
2465 CAAAAAAACCCCACAACCCGAAAACC-
1 C---GAAACCCGA-AACCCGGAAACCG
**
2491 CGAAACCCGAAACCCAAAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
2513 CTAAAACCCGAAA-CC-TACAACC-
1 C-GAAACCCGAAACCCGGA-AACCG
*
2535 CGAAACCCG-AA-CCGTAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* * * **
2555 CTACACCCTAAAAAC-GAAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
2576 CGAAAACCCTAAACCC-GACACC-
1 CG-AAACCCGAAACCCGGAAACCG
* *
2598 TGAAA-CCG-AACCC-TAAACC-
1 CGAAACCCGAAACCCGGAAACCG
2617 CGAAAACCCGAAA-CCGGAAACC-
1 CG-AAACCCGAAACCCGGAAACCG
*
2639 CGAAAACCCGAAAACCCGAAAACC-
1 CG-AAACCCG-AAACCCGGAAACCG
* *
2663 CGAAACCCGCAACCC-GCAACC-
1 CGAAACCCGAAACCCGGAAACCG
* *
2684 CGACACCCGAAACCCGAAAAACC-
1 CGAAACCCGAAACCCG-GAAACCG
*
2707 CGAAACCCTAAATCCC-GAAACC-
1 CGAAACCCGAAA-CCCGGAAACCG
* * *
2729 CGAAAATCCCTACACCC-G-AACCC
1 CG-AAA-CCCGAAACCCGGAAACCG
* **
2752 CGAAAACCCGAACCCCTAAAACC-
1 CG-AAACCCGAAACCCGGAAACCG
2775 CGAAATCCCGAAACCC-G-AACC-
1 CGAAA-CCCGAAACCCGGAAACCG
*
2796 CGAAAACCCGAAAACCCCGAAACCG
1 CG-AAACCCG-AAACCCGGAAACCG
2821 -GAAAACCCGAAAACCC-GAAACC-
1 CG-AAACCCG-AAACCCGGAAACCG
2843 CGAAACC
1 CGAAACC
2850 TACACCCTAA
Statistics
Matches: 2289, Mismatches: 236, Indels: 588
0.74 0.08 0.19
Matches are distributed among these distances:
17 9 0.00
18 41 0.02
19 145 0.06
20 338 0.15
21 453 0.20
22 533 0.23
23 403 0.18
24 173 0.08
25 121 0.05
26 55 0.02
27 18 0.01
ACGTcount: A:0.42, C:0.41, G:0.13, T:0.05
Consensus pattern (23 bp):
CGAAACCCGAAACCCGGAAACCG
Found at i:381 original size:40 final size:37
Alignment explanation
Indices: 8--3035 Score: 761
Period size: 36 Copynumber: 83.8 Consensus size: 37
1 ACCCGAA
* * *
8 CCGAAACC-CGAAAAACAGAAACCCGAAACCCGGAATA-
1 CCGAAACCTCG-AAACCCGAAACCCGAAA-CCAGAATAC
* *
45 CCGCAAACC-CGAAACCCCGCAAACCCGAAACCCGAA-AA
1 CCG-AAACCTCGAAA-CCCG-AAACCCGAAACCAGAATAC
* * *
83 CCGAAACCTCGAAATCCCGAAACCCGAACCCTCGAA-AA
1 CCGAAACCTCGAAA-CCCGAAACCCGAAACC-AGAATAC
*
121 CCGAACACC-CGAAACCCGAAAACCCTGAAACCTGAA-AC
1 CCGAA-ACCTCGAAACCCG-AAACCC-GAAACCAGAATAC
* * *
159 CGAACCAAACC-CGAATA-CCGAAACCTCGAAACCGGCTTGATAC
1 C---CGAAACCTCGAA-ACCCGAAACC-CGAAACCAG---AATAC
* * * *
202 CCGAAAACC-GGGAACCCGAAACCCTAAACCCTGTAA-AC
1 CCG-AAACCTCGAAACCCGAAACCCGAAA-CCAG-AATAC
*
240 CCGAAAACCTCGAAACCCG-AACCCGAAACCTTG-A-A-
1 CCG-AAACCTCGAAACCCGAAACCCGAAACC-AGAATAC
* * *
275 ---AAACC-CGAAACCCG-AACTCGATACCCCG-A-AC
1 CCGAAACCTCGAAACCCGAAACCCGA-AACCAGAATAC
*
306 CCGAAACC-CGAAACCCGAAACCCGAAACCCGAATAC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
342 CCGAAACCTTCTGAAACCCGAAGACCCG-AACCAGAAATAC
1 CCGAAACC-TC-GAAACCCGAA-ACCCGAAACCAG-AATAC
*
382 CCGAAACCTCGAAAAACCCGACACCCGAAACC-G-A-AC
1 CCGAAACCTCG--AAACCCGAAACCCGAAACCAGAATAC
*
418 CCGAAACC-CG-AACCCGAACCCCGAAACC-G-AT--
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* *
449 ----AACC-AGAAACCCG-AACCCGAAACC-GCA-AC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
*
478 CCGAAACC-CGATAACCCG-AACCCGACACC-GAA-AC
1 CCGAAACCTCGA-AACCCGAAACCCGAAACCAGAATAC
* *
512 CCGCAACC-CGAAA--CGAAACCCGAAAACCCG-A-AC
1 CCGAAACCTCGAAACCCGAAACCCG-AAACCAGAATAC
*
545 CCGAAAACCTCGAAACCCG-AA-CCGAAACCCG-ATAC
1 CCG-AAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* *
580 CCGAAAACCTCG-AACCCGAAA-CCGAACCCCGAA-AC
1 CCG-AAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* **
615 CCGAAACC-CGAAACCCGAAATCCGAAACCCCAA-AC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
*
650 CCGAAA-C-CGAAACTCCGGAAACCCGAAACCCGAA-AC
1 CCGAAACCTCGAAAC-CC-GAAACCCGAAACCAGAATAC
*
686 CCGAAACC-CGAAACCCGAAACCCGAAACCCGAA-AC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* *
721 CCGTAAACC-CGAAACCCGAAACCCGAAACCCGAAAAAC
1 CCG-AAACCTCGAAACCCGAAACCCGAAACCAG-AATAC
* *
759 CCG--ACC-CGAAACCTCGAATACCCGGAATACCTCCG-ACAC
1 CCGAAACCTCGAAACC-CGAA-ACCC-GAA-A-C-CAGAATAC
798 CCGAAACC-CGTAATACCCGAAACCCGAAACC-GAA-AC
1 CCGAAACCTCG-AA-ACCCGAAACCCGAAACCAGAATAC
834 CCGGATAACC-CGAAACCCGAAACCCGTAAACTC-GAA-ATC
1 CC-GA-AACCTCGAAACCCGAAACCCG-AAAC-CAGAATA-C
* *
873 CACG-AACC-CGATAACTCGAAAACCGAAA-CAGAA-AC
1 C-CGAAACCTCGA-AACCCGAAACCCGAAACCAGAATAC
* **
908 CCGAAA-C-CGAAAGACCCGAACCCCCGAATTACCCTTTAA-AC
1 CCGAAACCTCG-AA-ACCCGAA-ACCCGAA--A-CC-AGAATAC
* *
949 CCGAAACC-CGAAACCCGAAACCCTTAAACGA-AAT-C
1 CCGAAACCTCGAAACCCGAAACCC-GAAACCAGAATAC
984 CCGATAACC-CGAAACCCTG-AA-CCGAAA-C-GAATA-
1 CCGA-AACCTCGAAACCC-GAAACCCGAAACCAGAATAC
* * *
1017 -C-TAA-C-CGAAACCCTAAACCCGAATACCCGAA-AC
1 CCGAAACCTCGAAACCCGAAACCCGAA-ACCAGAATAC
* *
1050 CCTAAACC-CGAAACCCGAAACCTC-AAACC-GAAAAC
1 CCGAAACCTCGAAACCCGAAACC-CGAAACCAGAATAC
* *
1085 TCCGAAACC-CGAAACCCGAAAACCCGCAACCCTGAA-AC
1 -CCGAAACCTCGAAACCCG-AAACCCG-AAACCAGAATAC
*
1123 CCGAAACC-GGAAA--CGAATACCCGAAACC-GAA-AC
1 CCGAAACCTCGAAACCCGAA-ACCCGAAACCAGAATAC
*
1156 CCGAAACC-CGAAA-CCGAAACCCGAAACCCG-A-AC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* * *
1189 CCGAAAAC-CGAAACGCGAAGAACCCGAAACCCGAATAC
1 CCGAAACCTCGAAACCCG-A-AACCCGAAACCAGAATAC
* * *
1227 CCGAAAAACTCCGCAACCCGAAA-CCGAAACCCGGACA-AC
1 CCG-AAACCT-CGAAACCCGAAACCCGAAA-CCAGA-ATAC
* * * *
1266 CCGAAAACTCCGGAAACCCTAAACCAGAAACCCG-A-AC
1 CCGAAACCT-C-GAAACCCGAAACCCGAAACCAGAATAC
* * **
1303 CCGATAACC-CG-AA-CCGAAACCTGAAAAAACCTG-CCAC
1 CCGA-AACCTCGAAACCCGAAACCCG---AAACCAGAATAC
* * * *
1340 CCGAAACC-CGAAAACCCGCAACCGGCCTAAACCCG-ATAA
1 CCGAAACCTCG-AAACCCG-AAAC--CCGAAACCAGAATAC
* *
1379 CCGACACC-CGAAACCCGAAAACCTCGAAACTCCG-A-AC
1 CCGAAACCTCGAAACCCG-AAACC-CGAAAC-CAGAATAC
* * *
1416 CCGCCAACC-CGAAACCCGAAACCCGAAACCCCGAA-AA
1 CCG-AAACCTCGAAACCCGAAACCCGAAA-CCAGAATAC
* * *
1453 CCGAAA-C-CGTAACCCGAAACCCGAAACCCGAAAAAC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAG-AATAC
* * * *
1489 CCGTAATCC-CG-AACTCGATA-CCG-AACCCGAA-ATC
1 CCG-AAACCTCGAAACCCGAAACCCGAAACCAGAATA-C
* * *
1523 CCGCAATCC-CTGCAA-CCGAAACCC-AAACCCGAA-AC
1 CCG-AAACCTC-GAAACCCGAAACCCGAAACCAGAATAC
*
1558 CCTGAAACC-CG-AA-CCGAAACCCGAAACCCG-ATAAC
1 CC-GAAACCTCGAAACCCGAAACCCGAAACCAGAAT-AC
* *
1593 CCGAAACC-CGAAACCCGAAAGCCGAAACCGGTAA-A-
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAG-AATAC
* * *
1628 CC-AACACCTCAAAACTCCGAAACCCATAAACC-GCA-AC
1 CCGAA-ACCTCGAAAC-CCGAAACCC-GAAACCAGAATAC
* * * *
1665 CCGCAACC-CAAAACCCCAAAACCCTGAATACCCTGAA-AC
1 CCGAAACCTCGAAA-CCCGAAACCC-GAA-A-CCAGAATAC
*
1704 CCGACAAACC-CGAAA--CG-AACCCGAAACCCGAA-AC
1 CCG--AAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* *
1738 CCGAAAGCC-CGAACCCCCGAATACCCGTACAACCCGAA-AC
1 CCGAAA-CCTCGAA-ACCCGAA-ACCCG-A-AACCAGAATAC
*
1778 CCGAAAAC-CG-AA-CCGAAAACCCGAATACCAG-A-AC
1 CCGAAACCTCGAAACCCG-AAACCCGAA-ACCAGAATAC
* ** ** * *
1812 CCGAACCCGTAAAAACTCCCTACCCCGAAACC-TAA-AC
1 CCGAAACC-TCGAAAC-CCGAAACCCGAAACCAGAATAC
* * * *
1849 CCGACACC-CGAAACCCG-ATCACCG-AACCTCGAAAACCC
1 CCGAAACCTCGAAACCCGAAAC-CCGAAACC-AGAATA--C
*
1887 CCGAAACC-CGAAACTCCGAAA-CCGAAAACCCGAA-A-
1 CCGAAACCTCGAAAC-CCGAAACCCG-AAACCAGAATAC
1922 CCGAAACC-CGCTAAA-CCGAATACCCGAAACC-GAATAC
1 CCGAAACCTCG--AAACCCGAA-ACCCGAAACCAGAATAC
* * *
1959 CCGAAAACC-CGAAACCCGAAAACCCGGACCCCGAA-AC
1 CCG-AAACCTCGAAACCCG-AAACCCGAAACCAGAATAC
*
1996 CCGAAA-C-CGAAACCCGAAACCCGAAAAACCCGACA-AC
1 CCGAAACCTCGAAACCCGAAACCCG--AAACCAGA-ATAC
*
2033 CCG-AACC-CGAAA-CC-AAACCCGAAACCCGAA-AC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
*
2065 CCGGAAACC-CGAAACCCGAAACCCGAAACCCG-A-AC
1 CC-GAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
2100 CCGAAACC-CGAAACCCGAAA-CCGAAACC-GAA-AC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* *
2133 CCAGAAACC-CTTAAACCCTAAACCCGAAACC-GAA-A-
1 CC-GAAACCTC-GAAACCCGAAACCCGAAACCAGAATAC
*
2168 CCAAAACC-CGAAACCCG-AACCCTGAAACC-G-A-AC
1 CCGAAACCTCGAAACCCGAAACCC-GAAACCAGAATAC
** * *
2201 CTAAAACCACGAAA-CCGGAA-CCGAAACC-GAA-A-
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
**
2233 CCGAAACC-CGAAACCCGAAACCCGGAAACCCTAA-AC
1 CCGAAACCTCGAAACCCGAAACCC-GAAACCAGAATAC
* * *
2269 CCGAAA-CTCCGAAACCCCGAAATAACCGAAACCCCGCA-AC
1 CCGAAACCT-CGAAA-CCCG-AA-ACCCGAAA-CCAGAATAC
* * * *
2309 CCGAAA-C-CGACACCCTAAACCCGCAGTACCCGAA-AC
1 CCGAAACCTCGAAACCCGAAACCCG-A-AACCAGAATAC
* * * * * *
2345 CCGAAAACC-CGCAACCCTAAAACCTAAACCCG-ACAC
1 CCG-AAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* * * * * * *
2381 CC-AAAACTCCCAAACCCCAGACCCTAAACCCGAA-CC
1 CCGAAACCT-CGAAACCCGAAACCCGAAACCAGAATAC
* * * * ** *
2417 CCAAAAACCCCAAAACCCCAAAACCCGAAACCCTAAAAC
1 CC-GAAACCTCGAAA-CCCGAAACCCGAAACCAGAATAC
* * * *
2456 CCGAAACCCCAAAAAAACCCCACAACCCGAAAACCCGAA-AC
1 CCGAAACCTC---GAAACCCGA-AACCCG-AAACCAGAATAC
* * *
2497 CCGAAACC-CAAAAACCCTAAAACCCGAAACCTA-CA-AC
1 CCGAAACCTC-GAAACCC-GAAACCCGAAACC-AGAATAC
* * ** *
2534 CCGAAACC-CG-AA-CCGTAAACCCTACACCCTAA-AA
1 CCGAAACCTCGAAACCCG-AAACCCGAAACCAGAATAC
* * * *
2568 ACGAAACC-CGAAAACCCTAAACCCGACACCTGAA-A-
1 CCGAAACCTCG-AAACCCGAAACCCGAAACCAGAATAC
* *
2603 CCG-AACC-CTAAACCCGAAAACCCGAAACCGGAA-AC
1 CCGAAACCTCGAAACCCG-AAACCCGAAACCAGAATAC
* *
2638 CCGAAAACC-CGAAAACCCGAAAACCCGAAACCCGCA-AC
1 CCG-AAACCTCG-AAACCCG-AAACCCGAAACCAGAATAC
* * *
2676 CCGCAACC-CGACACCCGAAACCCGAAAAACCCGAA-AC
1 CCGAAACCTCGAAACCCGAAACCCG--AAACCAGAATAC
* * * * *
2713 CCTAAATCC-CGAAACCCGAAAATCCCTACACCCGAA-CC
1 CCGAAA-CCTCGAAACCCG-AAA-CCCGAAACCAGAATAC
* * *
2751 CCGAAAACC-CGAACCCCTAAAACCCGAAATCCCGAA-AC
1 CCG-AAACCTCGAAACCC-GAAACCCGAAA-CCAGAATAC
* *
2789 CCG-AACC-CGAAAACCCGAAAACCCCGAAACCGGAAAAC
1 CCGAAACCTCG-AAACCCG-AAA-CCCGAAACCAGAATAC
* * **
2827 CCGAAAACC-CGAAACCCGAAA-CCTACACCCTAA-AC
1 CCG-AAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* * *
2862 CCTAAACCCTAAACCGAAACTCCGAAAACCGAAACCATAA-AC
1 CCGAAA-CCT----CGAAAC-CCGAAACCCGAAACCAGAATAC
* * ** *
2904 CCG-TACAC-CAAAACCCGACAACCC-AAACCCTAA-CC
1 CCGAAAC-CTCGAAACCCGA-AACCCGAAACCAGAATAC
* *
2939 CCG-AACC-AG-AACCCGAAACCCGAAACC-TAA-AC
1 CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
* *
2971 CCGAAA-CTCCTAAACCCTGAAACCCTAAACC-GAA-AC
1 CCGAAACCT-CGAAACCC-GAAACCCGAAACCAGAATAC
* *
3007 CCGAAACC-CTAAACCCGAAACCCTAAACC
1 CCGAAACCTCGAAACCCGAAACCCGAAACC
3036 CTAACCCTAA
Statistics
Matches: 2441, Mismatches: 248, Indels: 607
0.74 0.08 0.18
Matches are distributed among these distances:
27 16 0.01
28 7 0.00
29 11 0.00
30 25 0.01
31 16 0.01
32 74 0.03
33 172 0.07
34 300 0.12
35 312 0.13
36 430 0.18
37 284 0.12
38 368 0.15
39 169 0.07
40 130 0.05
41 89 0.04
42 32 0.01
43 6 0.00
ACGTcount: A:0.42, C:0.41, G:0.13, T:0.05
Consensus pattern (37 bp):
CCGAAACCTCGAAACCCGAAACCCGAAACCAGAATAC
Found at i:832 original size:6 final size:7
Alignment explanation
Indices: 8--3267 Score: 2251
Period size: 7 Copynumber: 451.7 Consensus size: 7
1 ACCCGAA
8 CCGAAAC
1 CCGAAAC
*
15 CCGAAAAA
1 CCG-AAAC
*
23 CAGAAAC
1 CCGAAAC
30 CCGAAAC
1 CCGAAAC
37 CCGGAATA-
1 CC-GAA-AC
45 CCGCAAAC
1 CCG-AAAC
53 CCGAAACC
1 CCGAAA-C
61 CCGCAAAC
1 CCG-AAAC
69 CCGAAAC
1 CCGAAAC
*
76 CCGAAAA
1 CCGAAAC
83 CCGAAAC
1 CCGAAAC
90 CTCGAAATC
1 C-CGAAA-C
99 CCGAAAC
1 CCGAAAC
*
106 CCGAACC
1 CCGAAAC
*
113 CTCGAAAA
1 C-CGAAAC
121 CCGAACAC
1 CCGAA-AC
129 CCGAAAC
1 CCGAAAC
136 CCGAAAAC
1 CCG-AAAC
144 CCTGAAAC
1 CC-GAAAC
*
152 CTGAAA-
1 CCGAAAC
158 CCG-AA-
1 CCGAAAC
163 CC-AAAC
1 CCGAAAC
169 CCGAATA-
1 CCGAA-AC
176 CCGAAAC
1 CCGAAAC
183 CTCGAAAC
1 C-CGAAAC
*
191 CGGCTTGATAC
1 C--C--GAAAC
202 CCGAAAAC
1 CCG-AAAC
* *
210 CGGGAAC
1 CCGAAAC
217 CCGAAAC
1 CCGAAAC
*
224 CCTAAAC
1 CCGAAAC
231 CCTGTAAAC
1 CC-G-AAAC
240 CCGAAAAC
1 CCG-AAAC
248 CTCGAAAC
1 C-CGAAAC
256 CCG-AAC
1 CCGAAAC
262 CCGAAAC
1 CCGAAAC
*
269 CTTGAAAAAC
1 C-CG--AAAC
279 CCGAAAC
1 CCGAAAC
286 CCG-AAC
1 CCGAAAC
* *
292 TCGATACC
1 CCGA-AAC
300 CCG-AAC
1 CCGAAAC
306 CCGAAAC
1 CCGAAAC
313 CCGAAAC
1 CCGAAAC
320 CCGAAAC
1 CCGAAAC
327 CCGAAAC
1 CCGAAAC
334 CCGAATAC
1 CCGAA-AC
342 CCGAAAC
1 CCGAAAC
349 CTTCTGAAAC
1 C--C-GAAAC
359 CCGAAGAC
1 CCGAA-AC
367 CCG-AAC
1 CCGAAAC
*
373 CAGAAATAC
1 CCG-AA-AC
382 CCGAAAC
1 CCGAAAC
389 CTCGAAAAAC
1 C-CG--AAAC
*
399 CCGACAC
1 CCGAAAC
406 CCGAAA-
1 CCGAAAC
412 CCG-AAC
1 CCGAAAC
418 CCGAAAC
1 CCGAAAC
425 CCG-AAC
1 CCGAAAC
*
431 CCGAACC
1 CCGAAAC
438 CCGAAA-
1 CCGAAAC
444 CCGATAAC
1 CCGA-AAC
*
452 CAGAAAC
1 CCGAAAC
459 CCG-AAC
1 CCGAAAC
465 CCGAAA-
1 CCGAAAC
*
471 CCGCAAC
1 CCGAAAC
478 CCGAAAC
1 CCGAAAC
485 CCGATAAC
1 CCGA-AAC
493 CCG-AAC
1 CCGAAAC
*
499 CCGACA-
1 CCGAAAC
505 CCGAAAC
1 CCGAAAC
*
512 CCGCAAC
1 CCGAAAC
519 CCGAAA-
1 CCGAAAC
525 -CGAAAC
1 CCGAAAC
531 CCGAAAAC
1 CCG-AAAC
539 CCG-AAC
1 CCGAAAC
545 CCGAAAAC
1 CCG-AAAC
553 CTCGAAAC
1 C-CGAAAC
561 CCG-AA-
1 CCGAAAC
566 CCGAAAC
1 CCGAAAC
*
573 CCGATAC
1 CCGAAAC
580 CCGAAAAC
1 CCG-AAAC
588 CTCG-AAC
1 C-CGAAAC
595 CCGAAA-
1 CCGAAAC
*
601 CCGAACC
1 CCGAAAC
608 CCGAAAC
1 CCGAAAC
615 CCGAAAC
1 CCGAAAC
622 CCGAAAC
1 CCGAAAC
*
629 CCGAAAT
1 CCGAAAC
636 CCGAAAC
1 CCGAAAC
*
643 CCCAAAC
1 CCGAAAC
650 CCGAAA-
1 CCGAAAC
656 CCGAAAC
1 CCGAAAC
663 TCCGGAAAC
1 -CC-GAAAC
672 CCGAAAC
1 CCGAAAC
679 CCGAAAC
1 CCGAAAC
686 CCGAAAC
1 CCGAAAC
693 CCGAAAC
1 CCGAAAC
700 CCGAAAC
1 CCGAAAC
707 CCGAAAC
1 CCGAAAC
714 CCGAAAC
1 CCGAAAC
721 CCGTAAAC
1 CCG-AAAC
729 CCGAAAC
1 CCGAAAC
736 CCGAAAC
1 CCGAAAC
743 CCGAAAC
1 CCGAAAC
750 CCGAAAAAC
1 CCG--AAAC
759 CCG--AC
1 CCGAAAC
764 CCGAAAC
1 CCGAAAC
771 CTCGAATAC
1 C-CGAA-AC
780 CCGGAATACC
1 CC-GAA-A-C
*
790 TCCGACAC
1 -CCGAAAC
798 CCGAAAC
1 CCGAAAC
805 CCGTAATAC
1 CCG-AA-AC
814 CCGAAAC
1 CCGAAAC
821 CCGAAA-
1 CCGAAAC
827 CCGAAAC
1 CCGAAAC
834 CCGGATAAC
1 CC-GA-AAC
843 CCGAAAC
1 CCGAAAC
850 CCGAAAC
1 CCGAAAC
857 CCGTAAAC
1 CCG-AAAC
*
865 TCGAAATC
1 CCGAAA-C
873 CACG-AAC
1 C-CGAAAC
880 CCGATAAC
1 CCGA-AAC
* *
888 TCGAAAA
1 CCGAAAC
895 CCGAAA-
1 CCGAAAC
*
901 CAGAAAC
1 CCGAAAC
908 CCGAAA-
1 CCGAAAC
914 CCGAAAGAC
1 CCG-AA-AC
*
923 CCGAACCC
1 CCGAA-AC
931 CCGAATTAC
1 CCGAA--AC
*
940 CCTTTAAAC
1 CC--GAAAC
949 CCGAAAC
1 CCGAAAC
956 CCGAAAC
1 CCGAAAC
963 CCGAAAC
1 CCGAAAC
*
970 CCTTAAA-
1 CC-GAAAC
977 -CGAAATC
1 CCGAAA-C
984 CCGATAAC
1 CCGA-AAC
992 CCGAAAC
1 CCGAAAC
999 CCTG-AA-
1 CC-GAAAC
1005 CCGAAA-
1 CCGAAAC
1011 -CGAATAC
1 CCGAA-AC
1018 TAACCGAAAC
1 ---CCGAAAC
*
1028 CCTAAAC
1 CCGAAAC
1035 CCGAATAC
1 CCGAA-AC
1043 CCGAAAC
1 CCGAAAC
*
1050 CCTAAAC
1 CCGAAAC
1057 CCGAAAC
1 CCGAAAC
1064 CCGAAAC
1 CCGAAAC
1071 CTC-AAA-
1 C-CGAAAC
1077 CCGAAAAC
1 CCG-AAAC
1085 TCCGAAAC
1 -CCGAAAC
1093 CCGAAAC
1 CCGAAAC
1100 CCGAAAAC
1 CCG-AAAC
*
1108 CCGCAAC
1 CCGAAAC
1115 CCTGAAAC
1 CC-GAAAC
1123 CCGAAAC
1 CCGAAAC
*
1130 CGGAAA-
1 CCGAAAC
1136 -CGAATAC
1 CCGAA-AC
1143 CCGAAA-
1 CCGAAAC
1149 CCGAAAC
1 CCGAAAC
1156 CCGAAAC
1 CCGAAAC
1163 CCGAAA-
1 CCGAAAC
1169 CCGAAAC
1 CCGAAAC
1176 CCGAAAC
1 CCGAAAC
1183 CCG-AAC
1 CCGAAAC
*
1189 CCGAAAA
1 CCGAAAC
1196 CCGAAAC
1 CCGAAAC
*
1203 GCGAAGAAC
1 CCG-A-AAC
1212 CCGAAAC
1 CCGAAAC
1219 CCGAATAC
1 CCGAA-AC
1227 CCGAAAAAC
1 CCG--AAAC
*
1236 TCCGCAAC
1 -CCGAAAC
1244 CCGAAA-
1 CCGAAAC
1250 CCGAAAC
1 CCGAAAC
1257 CCGGACAAC
1 CC-GA-AAC
1266 CCGAAAAC
1 CCG-AAAC
1274 TCCGGAAAC
1 -CC-GAAAC
*
1283 CCTAAAC
1 CCGAAAC
*
1290 CAGAAAC
1 CCGAAAC
1297 CCG-AAC
1 CCGAAAC
1303 CCGATAAC
1 CCGA-AAC
1311 CCG-AA-
1 CCGAAAC
1316 CCGAAAC
1 CCGAAAC
*
1323 CTGAAAAAAC
1 CCG---AAAC
* **
1333 CTGCCAC
1 CCGAAAC
1340 CCGAAAC
1 CCGAAAC
1347 CCGAAAAC
1 CCG-AAAC
*
1355 CCGCAACC
1 CCG-AAAC
*
1363 GGCCTAAAC
1 --CCGAAAC
1372 CCGATAA-
1 CCGA-AAC
*
1379 CCGACAC
1 CCGAAAC
1386 CCGAAAC
1 CCGAAAC
1393 CCGAAAAC
1 CCG-AAAC
1401 CTCGAAAC
1 C-CGAAAC
1409 TCCG-AAC
1 -CCGAAAC
*
1416 CCGCCAAC
1 CCG-AAAC
1424 CCGAAAC
1 CCGAAAC
1431 CCGAAAC
1 CCGAAAC
1438 CCGAAACC
1 CCGAAA-C
*
1446 CCGAAAA
1 CCGAAAC
1453 CCGAAA-
1 CCGAAAC
*
1459 CCGTAAC
1 CCGAAAC
1466 CCGAAAC
1 CCGAAAC
1473 CCGAAAC
1 CCGAAAC
1480 CCGAAAAAC
1 CCG--AAAC
*
1489 CCGTAATC
1 CCG-AAAC
1497 CCG-AAC
1 CCGAAAC
* *
1503 TCGATA-
1 CCGAAAC
1509 CCG-AAC
1 CCGAAAC
1515 CCGAAATC
1 CCGAAA-C
*
1523 CCGCAATC
1 CCG-AAAC
*
1531 CCTGCAA-
1 CC-GAAAC
1538 CCGAAAC
1 CCGAAAC
1545 CC-AAAC
1 CCGAAAC
1551 CCGAAAC
1 CCGAAAC
1558 CCTGAAAC
1 CC-GAAAC
1566 CCG-AA-
1 CCGAAAC
1571 CCGAAAC
1 CCGAAAC
1578 CCGAAAC
1 CCGAAAC
1585 CCGATAAC
1 CCGA-AAC
1593 CCGAAAC
1 CCGAAAC
1600 CCGAAAC
1 CCGAAAC
*
1607 CCGAAAG
1 CCGAAAC
1614 CCGAAAC
1 CCGAAAC
*
1621 CGGTAAA-
1 CCG-AAAC
1628 CC-AACAC
1 CCGAA-AC
*
1635 CTCAAAAC
1 C-CGAAAC
1643 TCCGAAAC
1 -CCGAAAC
*
1651 CC-ATAAA
1 CCGA-AAC
*
1658 CCGCAAC
1 CCGAAAC
*
1665 CCGCAAC
1 CCGAAAC
*
1672 CCAAAACC
1 CCGAAA-C
*
1680 CCAAAAC
1 CCGAAAC
1687 CCTGAATAC
1 CC-GAA-AC
1696 CCTGAAAC
1 CC-GAAAC
1704 CCGACAAAC
1 CCG--AAAC
1713 CCGAAA-
1 CCGAAAC
1719 -CG-AAC
1 CCGAAAC
1724 CCGAAAC
1 CCGAAAC
1731 CCGAAAC
1 CCGAAAC
1738 CCGAAAGC
1 CCGAAA-C
*
1746 CCGAACCC
1 CCGAA-AC
1754 CCGAATAC
1 CCGAA-AC
1762 CCGTACAAC
1 CCG-A-AAC
1771 CCGAAAC
1 CCGAAAC
*
1778 CCGAAAA
1 CCGAAAC
1785 CCG-AA-
1 CCGAAAC
1790 CCGAAAAC
1 CCG-AAAC
1798 CCGAATAC
1 CCGAA-AC
*
1806 CAG-AAC
1 CCGAAAC
1812 CCG-AAC
1 CCGAAAC
1818 CCGTAAAAAC
1 CCG---AAAC
** *
1828 TCCCTACC
1 -CCGAAAC
1836 CCGAAA-
1 CCGAAAC
*
1842 CCTAAAC
1 CCGAAAC
*
1849 CCGACAC
1 CCGAAAC
1856 CCGAAAC
1 CCGAAAC
*
1863 CCG-ATC
1 CCGAAAC
1869 ACCG-AAC
1 -CCGAAAC
1876 CTCGAAAACCC
1 C-CG-AAA--C
1887 CCGAAAC
1 CCGAAAC
1894 CCGAAAC
1 CCGAAAC
1901 TCCGAAA-
1 -CCGAAAC
1908 CCGAAAAC
1 CCG-AAAC
1916 CCGAAA-
1 CCGAAAC
1922 CCGAAAC
1 CCGAAAC
1929 CCGCTAAA-
1 CCG--AAAC
1937 CCGAATAC
1 CCGAA-AC
1945 CCGAAA-
1 CCGAAAC
1951 CCGAATAC
1 CCGAA-AC
1959 CCGAAAAC
1 CCG-AAAC
1967 CCGAAAC
1 CCGAAAC
1974 CCGAAAAC
1 CCG-AAAC
* *
1982 CCGGACC
1 CCGAAAC
1989 CCGAAAC
1 CCGAAAC
1996 CCGAAA-
1 CCGAAAC
2002 CCGAAAC
1 CCGAAAC
2009 CCGAAAC
1 CCGAAAC
2016 CCGAAAAAC
1 CCG--AAAC
2025 CCGACAAC
1 CCGA-AAC
2033 CCG-AAC
1 CCGAAAC
2039 CCGAAA-
1 CCGAAAC
2045 CC-AAAC
1 CCGAAAC
2051 CCGAAAC
1 CCGAAAC
2058 CCGAAAC
1 CCGAAAC
2065 CCGGAAAC
1 CC-GAAAC
2073 CCGAAAC
1 CCGAAAC
2080 CCGAAAC
1 CCGAAAC
2087 CCGAAAC
1 CCGAAAC
2094 CCG-AAC
1 CCGAAAC
2100 CCGAAAC
1 CCGAAAC
2107 CCGAAAC
1 CCGAAAC
2114 CCGAAA-
1 CCGAAAC
2120 CCGAAA-
1 CCGAAAC
2126 CCGAAAC
1 CCGAAAC
2133 CCAGAAAC
1 CC-GAAAC
*
2141 CCTTAAAC
1 CC-GAAAC
*
2149 CCTAAAC
1 CCGAAAC
2156 CCGAAA-
1 CCGAAAC
2162 CCGAAA-
1 CCGAAAC
*
2168 CCAAAAC
1 CCGAAAC
2175 CCGAAAC
1 CCGAAAC
2182 CCG-AAC
1 CCGAAAC
2188 CCTGAAA-
1 CC-GAAAC
2195 CCG-AAC
1 CCGAAAC
**
2201 CTAAAAC
1 CCGAAAC
2208 CACGAAA-
1 C-CGAAAC
*
2215 CCGGAA-
1 CCGAAAC
2221 CCGAAA-
1 CCGAAAC
2227 CCGAAA-
1 CCGAAAC
2233 CCGAAAC
1 CCGAAAC
2240 CCGAAAC
1 CCGAAAC
2247 CCGAAAC
1 CCGAAAC
2254 CCGGAAAC
1 CC-GAAAC
*
2262 CCTAAAC
1 CCGAAAC
2269 CCGAAAC
1 CCGAAAC
2276 TCCGAAACC
1 -CCGAAA-C
*
2285 CCGAAATAA
1 CCG-AA-AC
2294 CCGAAACC
1 CCGAAA-C
*
2302 CCGCAAC
1 CCGAAAC
2309 CCGAAA-
1 CCGAAAC
*
2315 CCGACAC
1 CCGAAAC
*
2322 CCTAAAC
1 CCGAAAC
*
2329 CCGCAGTAC
1 CCG-A-AAC
2338 CCGAAAC
1 CCGAAAC
2345 CCGAAAAC
1 CCG-AAAC
*
2353 CCGCAAC
1 CCGAAAC
* *
2360 CCTAAAA
1 CCGAAAC
*
2367 CCTAAAC
1 CCGAAAC
*
2374 CCGACAC
1 CCGAAAC
*
2381 CCAAAAC
1 CCGAAAC
*
2388 TCCCAAAC
1 -CCGAAAC
* *
2396 CCCAGAC
1 CCGAAAC
*
2403 CCTAAAC
1 CCGAAAC
*
2410 CCGAACC
1 CCGAAAC
*
2417 CCAAAAACC
1 CC-GAAA-C
*
2426 CCAAAACC
1 CCGAAA-C
*
2434 CCAAAAC
1 CCGAAAC
2441 CCGAAAC
1 CCGAAAC
*
2448 CCTAAAAC
1 CC-GAAAC
2456 CCGAAAC
1 CCGAAAC
*
2463 CCCAAA-
1 CCGAAAC
*
2469 --AAAAC
1 CCGAAAC
*
2474 CCCACAAC
1 CCGA-AAC
2482 CCGAAAAC
1 CCG-AAAC
2490 CCGAAAC
1 CCGAAAC
2497 CCGAAAC
1 CCGAAAC
*
2504 CCAAAAAC
1 CC-GAAAC
*
2512 CCTAAAAC
1 CC-GAAAC
2520 CCGAAA-
1 CCGAAAC
*
2526 CCTACAAC
1 CCGA-AAC
2534 CCGAAAC
1 CCGAAAC
2541 CCG-AA-
1 CCGAAAC
2546 CCGTAAAC
1 CCG-AAAC
* *
2554 CCTACAC
1 CCGAAAC
* *
2561 CCTAAAA
1 CCGAAAC
*
2568 ACGAAAC
1 CCGAAAC
2575 CCGAAAAC
1 CCG-AAAC
*
2583 CCTAAAC
1 CCGAAAC
*
2590 CCGACAC
1 CCGAAAC
*
2597 CTGAAA-
1 CCGAAAC
2603 CCG-AAC
1 CCGAAAC
*
2609 CCTAAAC
1 CCGAAAC
2616 CCGAAAAC
1 CCG-AAAC
2624 CCGAAAC
1 CCGAAAC
*
2631 CGGAAAC
1 CCGAAAC
2638 CCGAAAAC
1 CCG-AAAC
2646 CCGAAAAC
1 CCG-AAAC
2654 CCGAAAAC
1 CCG-AAAC
2662 CCGAAAC
1 CCGAAAC
*
2669 CCGCAAC
1 CCGAAAC
*
2676 CCGCAAC
1 CCGAAAC
*
2683 CCGACAC
1 CCGAAAC
2690 CCGAAAC
1 CCGAAAC
2697 CCGAAAAAC
1 CCG--AAAC
2706 CCGAAAC
1 CCGAAAC
*
2713 CCTAAATC
1 CCGAAA-C
2721 CCGAAAC
1 CCGAAAC
2728 CCGAAAATC
1 CCG-AAA-C
* *
2737 CCTACAC
1 CCGAAAC
*
2744 CCGAACC
1 CCGAAAC
2751 CCGAAAAC
1 CCG-AAAC
*
2759 CCGAACC
1 CCGAAAC
*
2766 CCTAAAAC
1 CC-GAAAC
2774 CCGAAATC
1 CCGAAA-C
2782 CCGAAAC
1 CCGAAAC
2789 CCG-AAC
1 CCGAAAC
2795 CCGAAAAC
1 CCG-AAAC
2803 CCGAAAACC
1 CCG-AAA-C
2812 CCGAAAC
1 CCGAAAC
*
2819 CGGAAAAC
1 CCG-AAAC
2827 CCGAAAAC
1 CCG-AAAC
2835 CCGAAAC
1 CCGAAAC
2842 CCGAAA-
1 CCGAAAC
* *
2848 CCTACAC
1 CCGAAAC
*
2855 CCTAAAC
1 CCGAAAC
*
2862 CCTAAAC
1 CCGAAAC
*
2869 CCTAAA-
1 CCGAAAC
2875 CCGAAAC
1 CCGAAAC
*
2882 TCCGAAAA
1 -CCGAAAC
2890 CCGAAAC
1 CCGAAAC
**
2897 CATAAAC
1 CCGAAAC
*
2904 CCG-TAC
1 CCGAAAC
*
2910 ACCAAAAC
1 -CCGAAAC
2918 CCGACAAC
1 CCGA-AAC
2926 CC-AAAC
1 CCGAAAC
* *
2932 CCTAACC
1 CCGAAAC
2939 CCG-AAC
1 CCGAAAC
*
2945 CAG-AAC
1 CCGAAAC
2951 CCGAAAC
1 CCGAAAC
2958 CCGAAA-
1 CCGAAAC
*
2964 CCTAAAC
1 CCGAAAC
2971 CCGAAAC
1 CCGAAAC
*
2978 TCCTAAAC
1 -CCGAAAC
2986 CCTGAAAC
1 CC-GAAAC
*
2994 CCTAAA-
1 CCGAAAC
3000 CCGAAAC
1 CCGAAAC
3007 CCGAAAC
1 CCGAAAC
*
3014 CCTAAAC
1 CCGAAAC
3021 CCGAAAC
1 CCGAAAC
*
3028 CCTAAAC
1 CCGAAAC
*
3035 CC-TAAC
1 CCGAAAC
*
3041 CCTAAAC
1 CCGAAAC
*
3048 CCTAAAC
1 CCGAAAC
*
3055 CCTAAAC
1 CCGAAAC
*
3062 CCTAAAC
1 CCGAAAC
*
3069 CCTAAAC
1 CCGAAAC
*
3076 CCTAAAC
1 CCGAAAC
*
3083 CCTAAAC
1 CCGAAAC
*
3090 CCTAAAAC
1 CC-GAAAC
*
3098 CCTAAAC
1 CCGAAAC
*
3105 CCTAAAC
1 CCGAAAC
*
3112 CCTAAAC
1 CCGAAAC
*
3119 CCTAAACC
1 CCGAAA-C
*
3127 CCTAAACC
1 CCGAAA-C
*
3135 CTCTAAAC
1 C-CGAAAC
*
3143 CCTAAAC
1 CCGAAAC
*
3150 CCTAAAC
1 CCGAAAC
*
3157 CCTAAAC
1 CCGAAAC
*
3164 CCTAAAC
1 CCGAAAC
**
3171 CCTTAAC
1 CCGAAAC
*
3178 CCTAAAC
1 CCGAAAC
*
3185 CCTAAAC
1 CCGAAAC
*
3192 CCTAAAC
1 CCGAAAC
*
3199 CCTAAAC
1 CCGAAAC
*
3206 CCTAAAC
1 CCGAAAC
*
3213 CCTAAAC
1 CCGAAAC
*
3220 CCTAAAC
1 CCGAAAC
*
3227 CCTAAAC
1 CCGAAAC
*
3234 CCTAAACC
1 CCGAAA-C
*
3242 CCGAACC
1 CCGAAAC
*
3249 CCGAACC
1 CCGAAAC
*
3256 CCGAACC
1 CCGAAAC
3263 CCGAA
1 CCGAA
3268 CATCGAACTT
Statistics
Matches: 2690, Mismatches: 270, Indels: 586
0.76 0.08 0.17
Matches are distributed among these distances:
4 5 0.00
5 57 0.02
6 348 0.13
7 1384 0.51
8 649 0.24
9 187 0.07
10 43 0.02
11 17 0.01
ACGTcount: A:0.42, C:0.41, G:0.12, T:0.06
Consensus pattern (7 bp):
CCGAAAC
Found at i:1066 original size:72 final size:67
Alignment explanation
Indices: 66--3242 Score: 863
Period size: 68 Copynumber: 46.7 Consensus size: 67
56 AAACCCCGCA
* *
66 AACCCGAAACCCGAAAACCGAAACCTCGAAATCCCGAAACCCG-AACCCT--CGAAAACCGAACA
1 AACCCGAAACCCGAAACCCGAAACC-CTAAA-CCCGAAACCCGAAACCCTACCG-AAACCGAA-A
128 C-CCGA
62 CTCCGA
* *
133 AACCCGAAAACCCTGAAACCTGAAACCGAACCAAACCCGAATA-CCGAAA-CCT--CGAAACCG-
1 AACCCG-AAACCC-GAAACCCGAAACC---CTAAACCCGAA-ACCCGAAACCCTACCGAAACCGA
* *
193 -GCT-TGA
60 AACTCCGA
* * * *
199 TACCCGAAAACCGGGAACCCGAAACCCTAAACCCTGTAAACCCGAAAACCT--CGAAACCCG-AA
1 AACCCG-AAACCCGAAACCCGAAACCCTAAACCC-G-AAACCCGAAACCCTACCGAAA-CCGAAA
261 C-CCGA
62 CTCCGA
* * * *
266 AACCTTGAAAAACCCGAAACCCG-AACTCGATACCCCG-AACCCGAAA--C--CCGAAACCCGAA
1 AACC-CG--AAACCCGAAACCCGAAACCCTA-AACCCGAAACCCGAAACCCTACCGAAA-CCGAA
325 AC-CCGA
61 ACTCCGA
* *
331 AACCCGAATACCCGAAACCTTCTGAAACCCGAAGACCCG-AACCAGAAA---TACCCGAAACCTC
1 AACCCGAA-ACCCGAAACC--C-GAAACCCTAA-ACCCGAAACCCGAAACCCTA-CCGAAA-C-C
392 GAAAAAC-CCGA
58 G--AAACTCCGA
* * * *
403 CACCCGAAA-CCG-AACCCGAAACCC-GAACCCGAACCCCGAAACCGATAACCAGAAACCCG-AA
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAACC-CT-ACC-GAAA-CCGAAA
464 C-CCGA
62 CTCCGA
* * * *
469 AA-CCGCAACCCGAAACCCGATAACCC-GAACCCGACA-CCGAAACCCGCAACCCGAAA-CGAAA
1 AACCCGAAACCCGAAACCCGA-AACCCTAAACCCGAAACCCGAAA-CC-CTA-CCGAAACCGAAA
530 C-CCGAA
62 CTCCG-A
* * *
536 AACCCG-AACCCGAAAACCTCGAAACCC-GAA-CCGAAACCCGATACCCGA---AAACCTCG-AA
1 AACCCGAAACCCG-AAACC-CGAAACCCTAAACCCGAAACCCGAAACCCTACCGAAA-C-CGAAA
594 C-CCGA
62 CTCCGA
* * * *
599 AA-CCGAACCCCGAAACCCGAAACCCGAAACCCGAAATCCGAAACCCCAAACCCGAAACCGAAAC
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAA-CCC-TA-CCGAAACCGAAAC
663 TCCGGA
63 TCC-GA
* *
669 AACCCGAAACCCGAAACCCGAAACCCGAAACCCGAAACCCGAAACCCGAAACCCGTAAACCCGAA
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAACCC--TA-CCG-AAA-CCGAA
734 AC-CCGA
61 ACTCCGA
* *
740 AACCCGAAACCCGAAAAACCCG--ACCCGAAACCTCGAATACCCGGAATA-CCT-CCGACACCCG
1 AACCCGAAACCCG--AAACCCGAAACCCTAAACC-CGAA-ACCC-GAA-ACCCTACCGA-AACCG
801 AAAC-CCGTA
59 AAACTCCG-A
*
810 ATACCCGAAACCCGAAA-CCGAAACCCGGATAACCCGAAACCCGAAACCCGTAAACTCGAAATCC
1 A-ACCCGAAACCCGAAACCCGAAACCC-TA-AACCCGAAACCCGAAACCC-T--AC-CGAAA-CC
874 -ACGAAC-CCGA
58 GA--AACTCCGA
* * * *
884 TAACTCGAAAACCGAAA-CAGAAACCCGAAA-CCGAAAGACCCG-AACCC--CCGAATTACCCTT
1 -AACCCGAAACCCGAAACCCGAAACCCTAAACCCG-AA-ACCCGAAACCCTACCGAA--A-CC--
*
944 TAAAC-CCGA
58 GAAACTCCGA
* *
953 AACCCGAAACCCGAAACCCTTAAA--CGAAATCCCGATAACCCGAAACCCTGAACCGAAA-CGAA
1 AACCCGAAACCCGAAACCC-GAAACCCTAAA-CCCGA-AACCCGAAACCCT--ACCGAAACCGAA
1015 TACTAACCGA
61 -ACT--CCGA
*
1025 AACCCTAAACCCGAATACCCGAAACCCTAAACCCGAAACCCGAAA-CCT--C-AAACCGAAAACT
1 AACCCGAAACCCGAA-ACCCGAAACCCTAAACCCGAAACCCGAAACCCTACCGAAACCG-AAACT
1086 CCGA
64 CCGA
* * **
1090 AACCCGAAACCCGAAAACCCGCAACCCTGAAACCCGAAACCGGAAACGAATACCCGAAACCGAAA
1 AACCCGAAACCCG-AAACCCGAAACCCT-AAACCCGAAACCCGAAAC-CCTA-CCGAAACCGAAA
1155 C-CCGA
62 CTCCGA
* * * * * *
1160 AACCCGAAA-CCGAAACCCGAAACCC-GAACCCGAAAACCGAAACGCGA-AGAACCCGAAAC-CC
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAACCCTACCGAAACCGAAACTCC
1221 GA
66 GA
* * *
1223 ATACCCGAAAAACTCCGCAACCCGAAA-CCGAAACCCGGACAACCCGAAA-ACT-CCGGAAACCC
1 A-ACCCG--AAAC-CCGAAACCCGAAACCCTAAACCC-GA-AACCCGAAACCCTACC-GAAA-CC
* *
1285 TAAAC-CAGA
58 GAAACTCCGA
* * * *
1294 AACCCG-AACCCGATAACCCG-AA-CCGAAACCTGAAA----AAA-CCTGCC--ACCCGAAAC-C
1 AACCCGAAACCCGA-AACCCGAAACCCTAAACCCGAAACCCGAAACCCTACCGAAACCGAAACTC
1348 CGAA
65 CG-A
* * * * *
1352 AACCCGCAACCGGCCTAAACCCGATAA-CCGACACCCGAAACCCGAAAACCT--CGAAACTCCG-
1 AACCCG-AAAC--CCGAAACCCGA-AACCCTAAACCCGAAACCCGAAACCCTACCGAAA--CCGA
*
1413 AAC-CCGCC
60 AACTCCG-A
* * *
1421 AACCCGAAACCCGAAACCCGAAACCCCGAAAACCGAAA-CCGTAA--C--CCGAAACCCGAAAC-
1 AACCCGAAACCCGAAACCCGAAA-CCCTAAACCCGAAACCCGAAACCCTACCGAAA-CCGAAACT
1480 CCGAAA
64 CCG--A
* * * * * *
1486 AACCCGTAATCCCG-AACTCGATA-CC-GAACCCGAAATCCCGCAATCCCTGCAACCGAAACCCA
1 AACCCG-AAACCCGAAACCCGAAACCCTAAACCCGAAA-CCCG-AAACCCT---ACCGAAACCGA
1548 AAC-CCGA
60 AACTCCGA
* *
1555 AACCCTGAAACCCG-AA-CCGAAACCCGAAACCCGATAACCCGAAACCCGAAACCCGAAAGCCGA
1 AACCC-GAAACCCGAAACCCGAAACCCTAAACCCGA-AACCCGAAACCC--TA-CCGAAA-CCGA
*
1618 AAC-CGGTA
60 AACTCCG-A
* * * * *
1626 AA-CC-AACACCTCAAAACTCCGAAACCCATAAA-CCGCAACCCGCAACCCAAAACCCCAAAACC
1 AACCCGAA-ACC-CGAAAC-CCGAAACCC-TAAACCCGAAACCCGAAACCC--TA--CCGAAA-C
1688 CTGAATAC-CCTGA
57 C-GAA-ACTCC-GA
* *
1701 AACCCGACAAACCCGAAA--CG-AACCCGAAACCCGAAACCCGAAAGCCCGAACCCCCGAATACC
1 AACCCG--AAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAA-CCC-TA---CCGAA-A-C
1763 CGTACAAC-CCGA
57 CG-A-AACTCCGA
* * * * ***
1775 AACCCGAAAACCG-AA-CCGAAAACCCGAATACCAG-AACCCG-AACCCGTA--AAAACTCCCTA
1 AACCCGAAACCCGAAACCCG-AAACCCTAA-ACCCGAAACCCGAAACCC-TACCGAAAC-CGAAA
*
1834 CCCCGA
62 CTCCGA
* * * *
1840 AA-CCTAAACCCGACACCCGAAACCC-GATCACCG-AACCTCGAAAACCC--CCGAAACCCGAAA
1 AACCCGAAACCCGAAACCCGAAACCCTAAAC-CCGAAACC-CG-AAACCCTACCGAAA-CCGAAA
1900 CTCCGA
62 CTCCGA
*
1906 AA-CCGAAAACCCGAAA-CCGAAACCCGCTAAA-CCGAATACCCGAAACCGAATACCCGAAAACC
1 AACCCG-AAACCCGAAACCCGAAA-CC-CTAAACCCGAA-ACCCGAAACC--CTA-CCG-AAA-C
1968 CGAAAC-CCGAA
57 CGAAACTCCG-A
* * * * *
1979 AACCCGGACCCCGAAACCCGAAA-CCGAAACCCGAAACCCGAAAAACCCGACAACCCGAACCCGA
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCG--AAA-CC--CTA-CCGAAACCGA
2043 AA--CC-A
60 AACTCCGA
* *
2048 AACCCGAAACCCGAAACCCGGAAACCCGAAACCCGAAACCCGAAACCCGAACCCGAAACCCGAAA
1 AACCCGAAACCCGAAACCC-GAAACCCTAAACCCGAAACCCGAAACCC-TA-CCGAAA-CCGAAA
2113 C-CCGA
62 CTCCGA
* *
2118 AA-CCGAAA-CCGAAACCCAGAAACCCTTAAACCCTAAACCCG-AA----ACCGAAACCAAAAC-
1 AACCCGAAACCCGAAACCC-GAAACCC-TAAACCCGAAACCCGAAACCCTACCGAAACCGAAACT
2175 CCGA
64 CCGA
* **
2179 AACCCG-AACCCTGAAA-CCG-AA-CCTAAAACCACGAAA-CCGGAACCGAAACCGAAACCGAAA
1 AACCCGAAACCC-GAAACCCGAAACCCT-AAACC-CGAAACCCGAAACC-CTACCGAAACCGAAA
2239 C-CCGA
62 CTCCGA
* * *
2244 AACCCGAAACCCGGAAACCCTAAACCCGAAACTCCGAAACCCCGAAA---TAACCGAAACCCCGC
1 AACCCGAAACCC-GAAACCCGAAACCCTAAAC-CCGAAA-CCCGAAACCCT-ACCGAAA--CCGA
2306 AAC-CCGA
60 AACTCCGA
* * * * * *
2313 AA-CCGACACCCTAAACCCGCAGTACCCGAAACCCGAAAACCCGCAACCCTA---AAACCTAAAC
1 AACCCGAAACCCGAAACCCG-A-AACCCTAAACCCG-AAACCCGAAACCCTACCGAAACCGAAAC
2374 -CCGA
63 TCCGA
* * * * * * * * * *
2378 CACCCAAAACTCCCAAACCCCAGACCCTAAACCCGAACCCCAAAAACC--CCAAAACCCCAAAAC
1 AACCCGAAAC-CCGAAACCCGAAACCCTAAACCCGAAACCCGAAACCCTACCGAAA--CCGAAAC
2441 -CCGA
63 TCCGA
* * * * *
2445 AACCCTAAAACCCGAAACCCCAAA---AAAACCCCACAACCCGAAA-AC--CCGAAACCCGAAAC
1 AACCC-GAAACCCGAAACCCGAAACCCTAAACCCGA-AACCCGAAACCCTACCGAAA-CCGAAAC
*
2504 -CCAAA
63 TCC-GA
* * * * *
2509 AACCCTAAAACCCGAAA-CCTACAACCCGAAACCCG-AA-CCGTAAACCCTACACCCTAAAAACG
1 AACCC-GAAACCCGAAACCCGA-AACCCTAAACCCGAAACCCG-AAACCCT--A-CC-GAAACCG
2571 AAAC-CCGAA
59 AAACTCCG-A
* * * * * *
2580 AACCCTAAACCCGACACCTGAAA-CC-GAACCCTAAACCCGAAAACCCGAAACCGGAAACCCGAA
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCG-AAACCC--TACC-GAAA-CCG-A
2643 AAC-CCGAA
60 AACTCCG-A
* ** * * *
2651 AACCCGAAAACCCGAAACCCGCAACCCGCAACCCGACACCCGAAACCCGA--AAAACCCGAAAC-
1 AACCCG-AAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAACCCTACCGAAA-CCGAAACT
*
2713 CCTA
64 CCGA
* * * * *
2717 AATCCCGAAACCCGAAAATCCCTACACCCGAACCCCGAAAACCCGAACCCCTA---AAACCCGAA
1 AA-CCCGAAACCCG-AAA-CCCGAAACCCTAAACCCG-AAACCCGAAACCCTACCGAAA-CCGAA
2779 A-TCCCGA
61 ACT-CCGA
* * *
2786 AACCCG-AACCCGAAAACCCGAAAACCCCGAAACCGGAAAACCCGAAA-AC--CCGAAACCCGAA
1 AACCCGAAACCCG-AAACCCG-AAA-CCCTAAACCCG-AAACCCGAAACCCTACCGAAA-CCGAA
*
2847 A--CCTA
61 ACTCCGA
* * * * * * * * *
2852 CACCCTAAACCCTAAACCCTAAA-CCGAAACTCCGAAAACCGAAACCATAAACCCGTACACCAAA
1 AACCCGAAACCCGAAACCCGAAACCCTAAAC-CCGAAACCCGAAACCCT--A-CCG-AAACCGAA
2916 AC-CCGA
61 ACTCCGA
* * *
2922 CAACCC-AAACCCTAACCCCG-AA-CC-AGAACCCGAAACCCGAAA-CCTAAACCCGAAACTCCT
1 -AACCCGAAACCCGAAACCCGAAACCCTA-AACCCGAAACCCGAAACCCT--A-CCGAAA--CCG
2982 AAAC-CCTGA
59 AAACTCC-GA
* * * *
2991 AACCCTAAA-CCGAAACCCGAAACCCTAAACCCGAAACCCTAAACCCTAACCCTAAACCCTAAAC
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAACCCT-A-CCGAAA-CCGAAAC
*
3055 -CCTA
63 TCCGA
* * * * * * *
3059 AACCCTAAACCCTAAACCCTAAACCCTAAACCCTAAAACCCTAAACCCTA---AACCCTAAAC-C
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCC-GAAACCCGAAACCCTACCGAAACCGAAACTC
*
3120 CTA
65 CGA
* * * * * * *
3123 AACCCCTAAACCCTCTAAACCCTAAACCCTAAACCCTAAACCCTAAACCCTTAACCCTAAACCCT
1 AA-CCCGAAA-CC-CGAAACCCGAAACCCTAAACCCGAAACCCGAAACCC-T-A-CCGAAA-CCG
*
3188 AAAC-CCTA
59 AAACTCCGA
* * * * *
3196 AACCCTAAACCCTAAACCCTAAACCCTAAACCCTAAACCCTAAACCC
1 AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAACCC
3243 CGAACCCCGA
Statistics
Matches: 2486, Mismatches: 281, Indels: 683
0.72 0.08 0.20
Matches are distributed among these distances:
57 8 0.00
58 9 0.00
59 10 0.00
60 15 0.01
61 31 0.01
62 46 0.02
63 98 0.04
64 132 0.05
65 182 0.07
66 217 0.09
67 255 0.10
68 307 0.12
69 294 0.12
70 244 0.10
71 209 0.08
72 154 0.06
73 125 0.05
74 110 0.04
75 27 0.01
76 4 0.00
77 4 0.00
78 3 0.00
79 2 0.00
ACGTcount: A:0.42, C:0.41, G:0.12, T:0.06
Consensus pattern (67 bp):
AACCCGAAACCCGAAACCCGAAACCCTAAACCCGAAACCCGAAACCCTACCGAAACCGAAACTCC
GA
Found at i:1290 original size:39 final size:39
Alignment explanation
Indices: 1159--1299 Score: 115
Period size: 39 Copynumber: 3.7 Consensus size: 39
1149 CCGAAACCCG
1159 AAAC-CCGAAA-CCGAAACCCGAAACCC-G-A-ACCCG-A
1 AAACTCCGAAACCCGAAA-CCGAAACCCGGAATACCCGAA
*
1193 AAA--CCGAAACGCGAAGAACCCGAAACCC-GAATACCCGAA
1 AAACTCCGAAACCCG-A-AA-CCGAAACCCGGAATACCCGAA
*
1232 AAACTCCGCAACCCGAAACCGAAACCCGGACA-ACCCG-A
1 AAACTCCGAAACCCGAAACCGAAACCCGGA-ATACCCGAA
*
1270 AAACTCCGGAAACCCTAAACCAGAAACCCG
1 AAACTCC-GAAACCCGAAACC-GAAACCCG
1300 AACCCGATAA
Statistics
Matches: 90, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
33 6 0.07
34 5 0.06
35 1 0.01
36 13 0.14
37 1 0.01
38 22 0.24
39 24 0.27
40 10 0.11
41 8 0.09
ACGTcount: A:0.43, C:0.38, G:0.16, T:0.03
Consensus pattern (39 bp):
AAACTCCGAAACCCGAAACCGAAACCCGGAATACCCGAA
Found at i:2942 original size:21 final size:21
Alignment explanation
Indices: 2357--3480 Score: 540
Period size: 21 Copynumber: 52.3 Consensus size: 21
2347 GAAAACCCGC
* *
2357 AACCCTAAAACCTAAACCCGA
1 AACCCTAAACCCTAAACCCTA
* * * *
2378 CACCCAAAACTCCCAAACCCCA
1 AACCCTAAAC-CCTAAACCCTA
* * * *
2400 GACCCTAAACCCGAACCCCAAA
1 AACCCTAAACCCTAAACCC-TA
* * *
2422 AACCCCAAAACCCCAAAACCCGA
1 AA-CCCTAAA-CCCTAAACCCTA
* *
2445 AACCCTAAAACCCGAAACCCCA
1 AACCCT-AAACCCTAAACCCTA
* * *
2467 AA---AAAACCCCACAACCCGAA
1 AACCCTAAACCCTA-AACCC-TA
* * *
2487 AACCCGAAACCCGAAACCCAAA
1 AACCCTAAACCCTAAACCC-TA
*
2509 AACCCTAAAACCCGAAA-CCTA
1 AACCCT-AAACCCTAAACCCTA
* * *
2530 CAACCCGAAACCC-GAACCGTA
1 -AACCCTAAACCCTAAACCCTA
* ** *
2551 AACCCTACACCCTAAAAACGA
1 AACCCTAAACCCTAAACCCTA
* *
2572 AACCCGAAAACCCTAAACCCGA
1 AACCC-TAAACCCTAAACCCTA
* *
2594 CA-CCTGAAA-CC-GAACCCTA
1 AACCCT-AAACCCTAAACCCTA
* * **
2613 AACCCGAAAACCCGAAACCGGA
1 AACCC-TAAACCCTAAACCCTA
* * *
2635 AACCCGAAAACCCGAAAACCCGAA
1 AACCC-TAAACCC-TAAACCC-TA
* ** **
2659 AACCCGAAACCCGCAACCCGC
1 AACCCTAAACCCTAAACCCTA
* * * *
2680 AACCCGACACCCGAAACCCGAAA
1 AACCCTAAACCCTAAACCC--TA
* *
2703 AACCCGAAACCCTAAATCCCGA
1 AACCCTAAACCCTAAA-CCCTA
* * *
2725 AACCCGAAAATCCCTACACCCGA
1 AACCC-TAAA-CCCTAAACCCTA
* * * *
2748 ACCCCGAAAACCCGAACCCCTAA
1 AACCC-TAAACCCTAAACCCT-A
* * *
2771 AACCCGAAATCCCGAAACCC-G
1 AACCCTAAA-CCCTAAACCCTA
* * *
2792 AACCCGAAAACCCGAAAACCCCGA
1 AACCC-TAAACCC-TAAA-CCCTA
** * *
2816 AACCGGAAAACCCGAAAACCCGA
1 AACC-CTAAACCC-TAAACCCTA
* *
2839 AACCCGAAA-CCTACACCCTA
1 AACCCTAAACCCTAAACCCTA
*
2859 AACCCTAAACCCTAAA-CCGA
1 AACCCTAAACCCTAAACCCTA
* * * *
2879 AACTCCGAAAACCGAAACCATA
1 AAC-CCTAAACCCTAAACCCTA
* * *
2901 AACCCGTACA-CCAAAACCCGA
1 AACCC-TAAACCCTAAACCCTA
**
2922 CAACCC-AAACCCT-AACCCCG
1 -AACCCTAAACCCTAAACCCTA
* *
2942 AA-CC-AGAACCCGAAACCCGA
1 AACCCTA-AACCCTAAACCCTA
*
2962 AA-CCTAAACCCGAAACTCCTA
1 AACCCTAAACCCTAAAC-CCTA
*
2983 AACCCTGAAACCCTAAA-CCGA
1 AACCCT-AAACCCTAAACCCTA
* *
3004 AACCCGAAACCCTAAACCCGA
1 AACCCTAAACCCTAAACCCTA
3025 AACCCTAAACCCT-AACCCTA
1 AACCCTAAACCCTAAACCCTA
3045 AACCCTAAACCCTAAACCCTA
1 AACCCTAAACCCTAAACCCTA
3066 AACCCTAAACCCTAAACCCTA
1 AACCCTAAACCCTAAACCCTA
3087 AACCCTAAAACCCTAAACCCTA
1 AACCCT-AAACCCTAAACCCTA
3109 AACCCTAAACCCTAAACCCCTA
1 AACCCTAAACCCTAAA-CCCTA
3131 AACCCTCTAAACCCTAAACCCTA
1 AA-CC-CTAAACCCTAAACCCTA
*
3154 AACCCTAAACCCTAAACCCTT
1 AACCCTAAACCCTAAACCCTA
3175 AACCCTAAACCCTAAACCCTA
1 AACCCTAAACCCTAAACCCTA
3196 AACCCTAAACCCTAAACCCTA
1 AACCCTAAACCCTAAACCCTA
3217 AACCCTAAACCCTAAACCCTA
1 AACCCTAAACCCTAAACCCTA
** ** **
3238 AACCCCGAACCCCGAACCCCG
1 AACCCTAAACCCTAAACCCTA
** * * *
3259 AACCCCGAA-CATCGAA-CTTAA
1 AACCCTAAACCCT-AAACCCT-A
*
3280 AACCCTAAAACCCTAAACCATA
1 AACCCT-AAACCCTAAACCCTA
*
3302 AA-TCTAAACCCCTAAACCCTA
1 AACCCTAAA-CCCTAAACCCTA
* *
3323 AA-CTTGAAATCCTAAAACCCTA
1 AACCCT-AAACCCT-AAACCCTA
* *
3345 AACCTTAAA-TCTAAACCCCTA
1 AACCCTAAACCCTAAA-CCCTA
* * *
3366 AACCCCAAA-CCTGAACCCCA
1 AACCCTAAACCCTAAACCCTA
* * *
3386 AACGC-AAA-CCTCGAA-CCTCG
1 AACCCTAAACCCT-AAACCCT-A
* *
3406 AACCCTAAACCTTAAACCCCA
1 AACCCTAAACCCTAAACCCTA
* *
3427 AACCCCTAAAACCTTAAACCATGA
1 AA-CCCT-AAACCCTAAACCCT-A
*
3451 AACCCTAGATCCCTAAAACCCTA
1 AACCCTA-AACCCT-AAACCCTA
3474 AACCCTA
1 AACCCTA
3481 GATCTCGAAC
Statistics
Matches: 879, Mismatches: 152, Indels: 142
0.75 0.13 0.12
Matches are distributed among these distances:
18 10 0.01
19 27 0.03
20 120 0.14
21 321 0.37
22 191 0.22
23 150 0.17
24 60 0.07
ACGTcount: A:0.43, C:0.42, G:0.06, T:0.09
Consensus pattern (21 bp):
AACCCTAAACCCTAAACCCTA
Found at i:3274 original size:14 final size:14
Alignment explanation
Indices: 3242--3275 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3232 ACCCTAAACC
*
3242 CCGAACCCCGAACC
1 CCGAACCCCGAACA
3256 CCGAACCCCGAACA
1 CCGAACCCCGAACA
*
3270 TCGAAC
1 CCGAAC
3276 TTAAAACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.50, G:0.15, T:0.03
Consensus pattern (14 bp):
CCGAACCCCGAACA
Found at i:3303 original size:7 final size:7
Alignment explanation
Indices: 3279--3480 Score: 94
Period size: 7 Copynumber: 28.1 Consensus size: 7
3269 ATCGAACTTA
3279 AAACCCT
1 AAACCCT
3286 AAAACCCT
1 -AAACCCT
*
3294 AAACCAT
1 AAACCCT
*
3301 AAA-TCT
1 AAACCCT
3307 AAACCCCT
1 AAA-CCCT
3315 AAACCCT
1 AAACCCT
*
3322 AAA-CTT
1 AAACCCT
*
3328 GAAATCCT
1 -AAACCCT
3336 AAAACCCT
1 -AAACCCT
*
3344 AAACCTT
1 AAACCCT
*
3351 AAA-TCT
1 AAACCCT
3357 AAACCCCT
1 AAA-CCCT
*
3365 AAACCCC
1 AAACCCT
3372 AAA-CCT
1 AAACCCT
* *
3378 GAACCCC
1 AAACCCT
*
3385 AAACGC-
1 AAACCCT
3391 AAA-CCT
1 AAACCCT
*
3397 CGAA-CCT
1 -AAACCCT
*
3404 CGAACCCT
1 -AAACCCT
*
3412 AAACCTT
1 AAACCCT
*
3419 AAACCCC
1 AAACCCT
3426 AAACCCCT
1 AAA-CCCT
*
3434 AAAACCTT
1 -AAACCCT
*
3442 AAACCAT
1 AAACCCT
3449 GAAACCCT
1 -AAACCCT
*
3457 AGATCCCT
1 A-AACCCT
3465 AAAACCCT
1 -AAACCCT
3473 AAACCCT
1 AAACCCT
3480 A
1 A
3481 GATCTCGAAC
Statistics
Matches: 149, Mismatches: 30, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
5 1 0.01
6 17 0.11
7 77 0.52
8 50 0.34
9 4 0.03
ACGTcount: A:0.43, C:0.38, G:0.03, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:3384 original size:13 final size:13
Alignment explanation
Indices: 3362--3430 Score: 59
Period size: 13 Copynumber: 5.2 Consensus size: 13
3352 AATCTAAACC
3362 CCTAAACCCCAAA
1 CCTAAACCCCAAA
*
3375 CCTGAACCCCAAA
1 CCTAAACCCCAAA
* *
3388 CGC-AAACCTCGAA
1 C-CTAAACCCCAAA
* *
3401 CCTCGAACCCTAAA
1 CCT-AAACCCCAAA
3415 CCTTAAACCCCAAA
1 CC-TAAACCCCAAA
3429 CC
1 CC
3431 CCTAAAACCT
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
12 1 0.02
13 21 0.50
14 19 0.45
15 1 0.02
ACGTcount: A:0.39, C:0.45, G:0.06, T:0.10
Consensus pattern (13 bp):
CCTAAACCCCAAA
Found at i:3445 original size:16 final size:16
Alignment explanation
Indices: 3406--3478 Score: 62
Period size: 16 Copynumber: 4.8 Consensus size: 16
3396 TCGAACCTCG
*
3406 AACCCTAAA--CCTTA
1 AACCCTAAACCCCTAA
*
3420 AACCCCAAACCCCTAA
1 AACCCTAAACCCCTAA
* * *
3436 AACCTTAAA-CCATGA
1 AACCCTAAACCCCTAA
* *
3451 AACCCTAGATCCCTAA
1 AACCCTAAACCCCTAA
3467 AACCCTAAACCC
1 AACCCTAAACCC
3479 TAGATCTCGA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
14 8 0.18
15 11 0.25
16 25 0.57
ACGTcount: A:0.42, C:0.40, G:0.03, T:0.15
Consensus pattern (16 bp):
AACCCTAAACCCCTAA
Found at i:3533 original size:14 final size:14
Alignment explanation
Indices: 3516--3573 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
3506 CTAAACTCTA
* *
3516 AACCATAAACCTCG
1 AACCACAAACCACG
3530 AACCACAAACCACG
1 AACCACAAACCACG
* * *
3544 AACAACGAACCATG
1 AACCACAAACCACG
* *
3558 AACCTCAAACCTCG
1 AACCACAAACCACG
3572 AA
1 AA
3574 TCTTAAACCT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.47, C:0.36, G:0.09, T:0.09
Consensus pattern (14 bp):
AACCACAAACCACG
Found at i:3573 original size:21 final size:21
Alignment explanation
Indices: 3515--3573 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
3505 CCTAAACTCT
*
3515 AAACCATAAACCTCGAACCAC
1 AAACCACAAACCTCGAACCAC
* ** *
3536 AAACCACGAACAACGAACCAT
1 AAACCACAAACCTCGAACCAC
* *
3557 GAACCTCAAACCTCGAA
1 AAACCACAAACCTCGAA
3574 TCTTAAACCT
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.47, C:0.36, G:0.08, T:0.08
Consensus pattern (21 bp):
AAACCACAAACCTCGAACCAC
Found at i:3631 original size:20 final size:20
Alignment explanation
Indices: 3585--3627 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
3575 CTTAAACCTG
3585 TTAACCCTAACCCTAAACCC
1 TTAACCCTAACCCTAAACCC
* *
3605 TTAACCCTTACCCTTAA-CC
1 TTAACCCTAACCCTAAACCC
3624 TTAA
1 TTAA
3628 ACCCCAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.28
Consensus pattern (20 bp):
TTAACCCTAACCCTAAACCC
Found at i:3637 original size:27 final size:26
Alignment explanation
Indices: 3588--3638 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
3578 AAACCTGTTA
**
3588 ACCCTAACCCTAAACCCTTAACCCTT
1 ACCCTAACCCTAAACCCCAAACCCTT
*
3614 ACCCTTAACCTTAAACCCCAAACCC
1 ACCC-TAACCCTAAACCCCAAACCC
3639 CCAACCCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (26 bp):
ACCCTAACCCTAAACCCCAAACCCTT
Found at i:3639 original size:7 final size:7
Alignment explanation
Indices: 3626--3758 Score: 70
Period size: 7 Copynumber: 19.1 Consensus size: 7
3616 CCTTAACCTT
3626 AAACCCC
1 AAACCCC
3633 AAACCCC
1 AAACCCC
*
3640 CAACCCC
1 AAACCCC
*
3647 AAGCCCC
1 AAACCCC
* * *
3654 TAGCCGC
1 AAACCCC
* *
3661 AAGCCTC
1 AAACCCC
3668 AAACCCC
1 AAACCCC
*
3675 -AAGCCC
1 AAACCCC
* *
3681 AAGCCTC
1 AAACCCC
3688 AAACCCC
1 AAACCCC
* *
3695 AAGCCCT
1 AAACCCC
*
3702 AAACTCC
1 AAACCCC
*
3709 AAGCCCC
1 AAACCCC
* *
3716 AAGCCCT
1 AAACCCC
3723 AAACCCC
1 AAACCCC
** *
3730 AAGTCTC
1 AAACCCC
**
3737 AAACCTT
1 AAACCCC
3744 AAACCCC
1 AAACCCC
3751 AAACCCC
1 AAACCCC
3758 A
1 A
3759 TACTCCAGAC
Statistics
Matches: 92, Mismatches: 33, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
6 5 0.05
7 87 0.95
ACGTcount: A:0.35, C:0.50, G:0.08, T:0.08
Consensus pattern (7 bp):
AAACCCC
Found at i:3677 original size:14 final size:14
Alignment explanation
Indices: 3626--3758 Score: 79
Period size: 14 Copynumber: 9.6 Consensus size: 14
3616 CCTTAACCTT
*
3626 AAACCCCAAACCCC
1 AAACCCCAAGCCCC
*
3640 CAACCCCAAGCCCC
1 AAACCCCAAGCCCC
* * * *
3654 TAGCCGCAAGCCTC
1 AAACCCCAAGCCCC
3668 AAACCCCAAG-CCC
1 AAACCCCAAGCCCC
* * *
3681 AAGCCTCAAACCCC
1 AAACCCCAAGCCCC
* * * *
3695 AAGCCCTAAACTCC
1 AAACCCCAAGCCCC
* *
3709 AAGCCCCAAGCCCT
1 AAACCCCAAGCCCC
* *
3723 AAACCCCAAGTCTC
1 AAACCCCAAGCCCC
** *
3737 AAACCTTAAACCCC
1 AAACCCCAAGCCCC
3751 AAACCCCA
1 AAACCCCA
3759 TACTCCAGAC
Statistics
Matches: 87, Mismatches: 31, Indels: 2
0.73 0.26 0.02
Matches are distributed among these distances:
13 9 0.10
14 78 0.90
ACGTcount: A:0.35, C:0.50, G:0.08, T:0.08
Consensus pattern (14 bp):
AAACCCCAAGCCCC
Found at i:3685 original size:20 final size:20
Alignment explanation
Indices: 3650--3700 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
3640 CAACCCCAAG
*
3650 CCCCTAGCCGCAAGCCTCAAA
1 CCCCAAGCC-CAAGCCTCAAA
3671 CCCCAAGCCCAAGCCTCAAA
1 CCCCAAGCCCAAGCCTCAAA
3691 CCCCAAGCCC
1 CCCCAAGCCC
3701 TAAACTCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.29, C:0.53, G:0.12, T:0.06
Consensus pattern (20 bp):
CCCCAAGCCCAAGCCTCAAA
Found at i:3717 original size:21 final size:21
Alignment explanation
Indices: 3691--3758 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
3681 AAGCCTCAAA
*
3691 CCCCAAGCCCTAAACTCCAAG
1 CCCCAAGCCCTAAACCCCAAG
3712 CCCCAAGCCCTAAACCCCAAG
1 CCCCAAGCCCTAAACCCCAAG
* * * * *
3733 TCTCAAACCTTAAACCCCAAA
1 CCCCAAGCCCTAAACCCCAAG
3754 CCCCA
1 CCCCA
3759 TACTCCAGAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.35, C:0.49, G:0.06, T:0.10
Consensus pattern (21 bp):
CCCCAAGCCCTAAACCCCAAG
Found at i:3857 original size:7 final size:7
Alignment explanation
Indices: 3845--3870 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
3835 CTTGAATCCT
3845 AAACCTC
1 AAACCTC
3852 AAACCTC
1 AAACCTC
3859 AAACCTC
1 AAACCTC
3866 AAACC
1 AAACC
3871 CCGAACCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCTC
Found at i:4532 original size:19 final size:19
Alignment explanation
Indices: 4505--4594 Score: 78
Period size: 19 Copynumber: 4.7 Consensus size: 19
4495 AAAGCTATTC
*
4505 ATTTGTTTTTAAAAAAATT
1 ATTTATTTTTAAAAAAATT
*
4524 ATTTATTTTT--AAAAACT
1 ATTTATTTTTAAAAAAATT
*
4541 ATTAATTTTTAAAAAAATTTT
1 ATTTATTTTTAAAAAAA--TT
*
4562 ACTTTATTCTT-AAAAAATT
1 A-TTTATTTTTAAAAAAATT
**
4581 ACCTATTTTTAAAA
1 ATTTATTTTTAAAA
4595 GGTATTAAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
17 15 0.27
18 6 0.11
19 20 0.36
21 8 0.14
22 7 0.12
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.50
Consensus pattern (19 bp):
ATTTATTTTTAAAAAAATT
Found at i:4543 original size:17 final size:17
Alignment explanation
Indices: 4517--4555 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4507 TTGTTTTTAA
* *
4517 AAAAATTATTTATTTTT
1 AAAAACTATTAATTTTT
4534 AAAAACTATTAATTTTT
1 AAAAACTATTAATTTTT
4551 AAAAA
1 AAAAA
4556 AATTTTACTT
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAAACTATTAATTTTT
Found at i:21428 original size:21 final size:22
Alignment explanation
Indices: 21404--21466 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
21394 AAAAAATTAT
*
21404 TTTTAT-ATTAATATTTATAT-A
1 TTTTATAATTAA-ATTTAAATAA
21425 TTTTATAATTAAATTTAAATAA
1 TTTTATAATTAAATTTAAATAA
*
21447 TTTTTAATTATTAAATTTAA
1 -TTTT-ATAATTAAATTTAA
21467 TTTAAGTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 13 0.36
22 6 0.17
23 4 0.11
24 13 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATAATTAAATTTAAATAA
Found at i:21827 original size:24 final size:24
Alignment explanation
Indices: 21800--21849 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
21790 AATTATAATA
21800 TAGGAACTGCAGAAAGAATTTTAC
1 TAGGAACTGCAGAAAGAATTTTAC
*
21824 TAGGAACTGCTGAAAGAATTTTAC
1 TAGGAACTGCAGAAAGAATTTTAC
21848 TA
1 TA
21850 CCATTGTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (24 bp):
TAGGAACTGCAGAAAGAATTTTAC
Found at i:26607 original size:18 final size:17
Alignment explanation
Indices: 26577--26610 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26567 TTTGTTGTTT
*
26577 TTTTATTTATTAATTAA
1 TTTTATATATTAATTAA
26594 TTTTATATATTTAATTA
1 TTTTATATA-TTAATTA
26611 TTTATTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTATATATTAATTAA
Found at i:33863 original size:26 final size:26
Alignment explanation
Indices: 33788--33863 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
33778 TAGAGATAGT
*
33788 ATTAATAAAGTTCAACTTTATCTAGG
1 ATTAATAAAGTTCAACTTTATCTGGG
* *
33814 ATTGATAAAGTTCAATTTTATCTGGG
1 ATTAATAAAGTTCAACTTTATCTGGG
*
33840 ATTAATAAAGTTTAACTTTATCTG
1 ATTAATAAAGTTCAACTTTATCTG
33864 CATTCTAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (26 bp):
ATTAATAAAGTTCAACTTTATCTGGG
Found at i:40054 original size:2 final size:2
Alignment explanation
Indices: 40047--40077 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
40037 TTACTTTTAC
40047 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
40078 TAGTACTTAT
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:40893 original size:20 final size:20
Alignment explanation
Indices: 40849--40893 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
40839 CTAACTATAC
* *
40849 ATATATATACATTTACACAT
1 ATATACATACATATACACAT
* *
40869 GTATACATACATATACATAT
1 ATATACATACATATACACAT
40889 ATATA
1 ATATA
40894 AAGTCTGCGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (20 bp):
ATATACATACATATACACAT
Found at i:41291 original size:3 final size:3
Alignment explanation
Indices: 41285--41326 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
41275 TTACCACCAC
41285 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
41327 TCATTCGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:42374 original size:2 final size:2
Alignment explanation
Indices: 42367--42409 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
42357 TTTTCAACTT
42367 TA 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 TA
42409 T
1 T
42410 TAATAAGAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43159 original size:16 final size:16
Alignment explanation
Indices: 43076--43179 Score: 70
Period size: 16 Copynumber: 6.6 Consensus size: 16
43066 TTCAAGCATT
*
43076 TTCGGATTCGGACTTA
1 TTCGGGTTCGGACTTA
* * *
43092 TTCAGGTTC-GAATTT
1 TTCGGGTTCGGACTTA
* * * *
43107 TTTGAGTTTGGACTTT
1 TTCGGGTTCGGACTTA
* *
43123 TTCGAGTTCGAACTT-
1 TTCGGGTTCGGACTTA
43138 TCTCGGGTTCGGACTTA
1 T-TCGGGTTCGGACTTA
*
43155 TTCGGATTC-GAGCTTA
1 TTCGGGTTCGGA-CTTA
43171 TTCGGGTTC
1 TTCGGGTTC
43180 AGGCTCGGGT
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
15 12 0.18
16 55 0.81
17 1 0.01
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.42
Consensus pattern (16 bp):
TTCGGGTTCGGACTTA
Found at i:43165 original size:32 final size:31
Alignment explanation
Indices: 43074--43179 Score: 99
Period size: 32 Copynumber: 3.4 Consensus size: 31
43064 GGTTCAAGCA
* *
43074 TTTTCGGATTCGGACTTATTCAGG-TTCGAAT
1 TTTTCGGGTTCGGACTTATTC-GGATTCGAAC
* * * *
43105 TTTTTGAGTTTGGACTTTTTC-GAGTTCGAAC
1 TTTTCGGGTTCGGACTTATTCGGA-TTCGAAC
*
43136 TTTCTCGGGTTCGGACTTATTCGGATTCGAGC
1 TTT-TCGGGTTCGGACTTATTCGGATTCGAAC
43168 TTATTCGGGTTC
1 TT-TTCGGGTTC
43180 AGGCTCGGGT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.02
31 25 0.42
32 30 0.51
33 3 0.05
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.43
Consensus pattern (31 bp):
TTTTCGGGTTCGGACTTATTCGGATTCGAAC
Found at i:44631 original size:16 final size:16
Alignment explanation
Indices: 44612--44653 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
44602 ATTTGGATTC
*
44612 TTTCATATTCAAACCT
1 TTTCAAATTCAAACCT
* *
44628 TTTCAAATTCAGACTT
1 TTTCAAATTCAAACCT
44644 TTTCAAATTC
1 TTTCAAATTC
44654 GAATTATCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTCAAATTCAAACCT
Found at i:44696 original size:16 final size:16
Alignment explanation
Indices: 44675--44705 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44665 GATTCAAACT
44675 ATTTCAAATTTAAATA
1 ATTTCAAATTTAAATA
44691 ATTTCAAATTTAAAT
1 ATTTCAAATTTAAAT
44706 TTTTAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTCAAATTTAAATA
Found at i:47965 original size:16 final size:17
Alignment explanation
Indices: 47944--47988 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
47934 ATTATTTTCT
47944 TCTTTTTTTTAAT-TTA
1 TCTTTTTTTTAATATTA
**
47960 TCTTTTTTTTCTTATTA
1 TCTTTTTTTTAATATTA
47977 TCTTTGTTTTTA
1 TCTTT-TTTTTA
47989 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 8 0.33
18 5 0.21
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.76
Consensus pattern (17 bp):
TCTTTTTTTTAATATTA
Found at i:47967 original size:18 final size:18
Alignment explanation
Indices: 47935--47987 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
47925 ATTTTTAACA
47935 TTATTT-TCTTCTTTTTT-
1 TTATTTATCTT-TTTTTTC
47952 TTAATTTATCTTTTTTTTC
1 TT-ATTTATCTTTTTTTTC
47971 TTA-TTATCTTTGTTTTT
1 TTATTTATCTTT-TTTTT
47988 ATTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.31
18 16 0.50
19 6 0.19
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (18 bp):
TTATTTATCTTTTTTTTC
Found at i:47968 original size:17 final size:16
Alignment explanation
Indices: 47946--47988 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
47936 TATTTTCTTC
47946 TTTTTTTTAATTTATCT
1 TTTTTTTTAA-TTATCT
*
47963 TTTTTTTCTTATTATCT
1 TTTTTTT-TAATTATCT
*
47980 TTGTTTTTA
1 TTTTTTTTA
47989 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 19 0.86
18 2 0.09
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTTTTAATTATCT
Found at i:48601 original size:6 final size:6
Alignment explanation
Indices: 48591--48625 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
48581 ATACTGCTAC
* *
48591 TGGACA CGGACA TGGACA TGGACA TAGACA TGGAC
1 TGGACA TGGACA TGGACA TGGACA TGGACA TGGAC
48626 TGGCTGCTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.20, G:0.31, T:0.14
Consensus pattern (6 bp):
TGGACA
Found at i:48869 original size:2 final size:2
Alignment explanation
Indices: 48833--48882 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
48823 ACATACATAC
* *
48833 AT AT TT AT AT AT -T TT AT AT -T AT AT -T AT AT -T 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
48871 AT AT AT AT AT AT
1 AT AT AT AT AT AT
48883 TCCTCTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
1 4 0.10
2 37 0.90
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
AT
Found at i:53202 original size:3 final size:3
Alignment explanation
Indices: 53194--53240 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
53184 AGCATAACCT
*
53194 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
53241 CACTAACACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:55043 original size:2 final size:2
Alignment explanation
Indices: 55036--55069 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
55026 ATACTTTAGA
55036 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
55070 TATGTTAATT
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56635 original size:40 final size:40
Alignment explanation
Indices: 56577--56656 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
56567 GCAATATGAT
* *
56577 AATTTAGTTTATATATTTCTGTAGATGGTGATGTGAAGCC
1 AATTTAATTTATACATTTCTGTAGATGGTGATGTGAAGCC
56617 AATTTAATTTATACATTTCTGTAGATGGTGATGTGAAGCC
1 AATTTAATTTATACATTTCTGTAGATGGTGATGTGAAGCC
56657 TTATTAGCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (40 bp):
AATTTAATTTATACATTTCTGTAGATGGTGATGTGAAGCC
Found at i:56900 original size:2 final size:2
Alignment explanation
Indices: 56893--56920 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56883 CGTAGTGTGC
56893 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
56921 GAATTGAATA
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):
AT
Found at i:63071 original size:2 final size:2
Alignment explanation
Indices: 63064--63091 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63054 TAATTGGTTG
63064 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
63092 GTATGTGTAT
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):
AT
Found at i:70824 original size:5 final size:5
Alignment explanation
Indices: 70814--70847 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
70804 TAAGTTTAAT
* *
70814 ATATG ATATG ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
70848 GGCTGTTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:71001 original size:3 final size:3
Alignment explanation
Indices: 70993--71035 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
70983 GAGCAAGATT
70993 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
71036 TGATGATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:71040 original size:3 final size:3
Alignment explanation
Indices: 71034--71066 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
71024 AGAAGAAGAA
71034 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
71067 TATCTCATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:76801 original size:52 final size:52
Alignment explanation
Indices: 76716--76839 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 52
76706 ATATGAAAAG
* *
76716 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
76768 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
76820 TTGCCTGCATGTATCGATAC
1 TTGCCTGCATGTATCGATAC
76840 GAAGATCAGT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:76853 original size:52 final size:51
Alignment explanation
Indices: 76716--76860 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 51
76706 ATATGAAAAG
*
76716 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--TAGATAGTGTATCGATACATCTGGGCAAAT
** *
76768 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAGATAGTGTATCGATACATCTGGGCAAAT
76820 TTGCCTGCATGTATCGATACGA-AGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATAC-ATAGAT-AGTGTATCGATACA
76861 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 4 0.05
52 79 0.94
53 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATAGATAGTGTATCGATACATCTGGGCAAAT
Found at i:76867 original size:13 final size:13
Alignment explanation
Indices: 76849--76873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76839 CGAAGATCAG
76849 TGTATCGATACAA
1 TGTATCGATACAA
76862 TGTATCGATACA
1 TGTATCGATACA
76874 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:76958 original size:13 final size:13
Alignment explanation
Indices: 76940--76964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76930 AAAAAAAATA
76940 TGTATCGATACAT
1 TGTATCGATACAT
76953 TGTATCGATACA
1 TGTATCGATACA
76965 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:79455 original size:48 final size:49
Alignment explanation
Indices: 79395--79506 Score: 174
Period size: 49 Copynumber: 2.3 Consensus size: 49
79385 AAGATTATGA
*
79395 TAATAATTTTTT-AATTACACTTTGTAAAAATACAAATTTTATTATTTT
1 TAATATTTTTTTAAATTACACTTTGTAAAAATACAAATTTTATTATTTT
* * *
79443 TAATATTTTTTTAAATTACTCTTTGTAAACATATAAATTTTATTATTTT
1 TAATATTTTTTTAAATTACACTTTGTAAAAATACAAATTTTATTATTTT
79492 TAATA-TTTTTTAAAT
1 TAATATTTTTTTAAAT
79507 ATATATTATT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
48 21 0.36
49 38 0.64
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (49 bp):
TAATATTTTTTTAAATTACACTTTGTAAAAATACAAATTTTATTATTTT
Found at i:79949 original size:15 final size:15
Alignment explanation
Indices: 79929--79957 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
79919 TTAATCAAGC
79929 ATAAAAATTTAATTG
1 ATAAAAATTTAATTG
79944 ATAAAAATTTAATT
1 ATAAAAATTTAATT
79958 TTTTTAAAAT
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:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAAAAATTTAATTG
Found at i:79981 original size:18 final size:19
Alignment explanation
Indices: 79958--80004 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
79948 AAATTTAATT
79958 TTTTTAAAATAT-AAAATA
1 TTTTTAAAATATCAAAATA
** *
79976 TTTTTATCATATCAAACTA
1 TTTTTAAAATATCAAAATA
*
79995 CTTTTAAAAT
1 TTTTTAAAAT
80005 TATTTAGACG
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTTAAAATATCAAAATA
Found at i:80047 original size:3 final size:3
Alignment explanation
Indices: 80041--80082 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
80031 AATCATTTAG
80041 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
80083 TGGTGTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:80313 original size:11 final size:13
Alignment explanation
Indices: 80288--80315 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
80278 ATCACATCAC
80288 ATATGATTAATAT
1 ATATGATTAATAT
80301 ATATGATTAATAT
1 ATATGATTAATAT
80314 AT
1 AT
80316 TATGTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATATGATTAATAT
Found at i:80710 original size:2 final size:2
Alignment explanation
Indices: 80703--80737 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
80693 CAGAAGCATA
80703 AG 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 AG A
80738 AGAAAAACTC
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:80856 original size:3 final size:3
Alignment explanation
Indices: 80848--80877 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
80838 CTTCGTGAAT
80848 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
80878 TACGAATAGG
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):
AGA
Found at i:81057 original size:2 final size:2
Alignment explanation
Indices: 81050--81077 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
81040 ACAAAACAAA
81050 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
81078 TAACACCAAA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:88442 original size:2 final size:2
Alignment explanation
Indices: 88435--88477 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
88425 CATCATCATT
88435 TA 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 TA
88477 T
1 T
88478 TAAACCGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89478 original size:2 final size:2
Alignment explanation
Indices: 89471--89512 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
89461 TGCAGTCATT
89471 TA 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 TA
89513 AATTATTCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93918 original size:2 final size:2
Alignment explanation
Indices: 93911--93940 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
93901 ATTATTAATC
93911 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
93941 TCTTTTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105339 original size:27 final size:27
Alignment explanation
Indices: 105241--105366 Score: 70
Period size: 27 Copynumber: 4.9 Consensus size: 27
105231 AATATTATAA
* *
105241 TTATTAT-TTTATGATTTTAA-AAT-T
1 TTATTATATTTATAATTATAATAATAT
* * *
105265 TT-TTATTATTAATATTTATTAT-ATAT
1 TTATTA-TATTTATAATTATAATAATAT
** * *
105291 TTATCGTAATTA-AATTACAATAATAT
1 TTATTATATTTATAATTATAATAATAT
105317 TTATTATATTTATAATTATAATAA-AT
1 TTATTATATTTATAATTATAATAATAT
* *
105343 ATGATTATAATTAATAA-TATAATA
1 -TTATTAT-ATTTATAATTATAATA
105367 TTATAATAAT
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
23 3 0.04
24 3 0.04
25 16 0.21
26 22 0.29
27 24 0.32
28 7 0.09
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TTATTATATTTATAATTATAATAATAT
Found at i:111792 original size:17 final size:17
Alignment explanation
Indices: 111773--111806 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
111763 ATTAATAAAT
111773 AAATAAATAATATAATTA
1 AAATAAA-AATATAATTA
111791 AAATAAAAATATAATT
1 AAATAAAAATATAATT
111807 GCATCTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAAAAATATAATTA
Found at i:116931 original size:17 final size:17
Alignment explanation
Indices: 116894--116945 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
116884 ATATATTTTG
*
116894 AATTAAAT-ATTAATA-
1 AATTAAATAAATAATAT
116909 AA-TAAATAAATAATAT
1 AATTAAATAAATAATAT
116925 AATTAAAATAAA-AATAT
1 AATT-AAATAAATAATAT
116942 AATT
1 AATT
116946 GTATCTCTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 2 0.06
17 10 0.31
18 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTAAATAAATAATAT
Found at i:117089 original size:248 final size:258
Alignment explanation
Indices: 116729--117210 Score: 727
Period size: 248 Copynumber: 1.9 Consensus size: 258
116719 GAAATGCCCC
* * * *
116729 TTTTATAAGCAATGTAAAGTCACCTTTCAAATGAGTTGTCTATAGGGCAACAGTTGTGTTTTTAC
1 TTTTATAAGCAATGTAAAATCACCTTTCAAATGACTTGTCTATAGGACAACAGTTGTATTTTTA-
116794 ACAACATGCTTTTATTTAAATACTATATCTTTACATAACAAGTTTAAATGTTGTGTTCTTTCAAC
65 ACAACATGCTTTTATTTAAATACTATATCTTTACATAACAAGTTTAAATGTTGTGTTCTTTCAAC
116859 ACAACTTTTTAATGCAAT-AA-A-ATATATAT-AT-TTT-GAATTAAATATTAATAAATAAATAA
130 ACAACTTTTTAATGCAATAAATATATATATATAATATTTCGAATTAAATATTAATAAATAAATAA
116918 AT-AAT-A-TAATTAAAATAAAAATATAATTGTATCTCTGAAAATGACAAAATAAAAATATCTT
195 ATAAATAATTAATTAAAATAAAAATATAATTGTATCTCTGAAAATGACAAAATAAAAATATCTT
* *
116979 TTTTATAAGCAATGTAAAATCACATTTTCAAGTGACTTGTCTATAGGACAACAGTTGTATTTTT-
1 TTTTATAAGCAATGTAAAATCAC-CTTTCAAATGACTTGTCTATAGGACAACAGTTGTATTTTTA
* *
117043 AC-ACATG-TCTTTATTTAAATACTATGTCTTTACATAATAAGTTTAAATGTTGTGTTCTTTCAA
65 ACAACATGCT-TTTATTTAAATACTATATCTTTACATAACAAGTTTAAATGTTGTGTTCTTTCAA
* *
117106 CACAACTTTTTGATGCAATAAAATATATATATATAAAATATTTCGAATTATATATTAATAAATAA
129 CACAACTTTTTAATGCAAT-AAATATATATATAT--AATATTTCGAATTAAATATTAATAAATAA
117171 ATAAATAAATAATTTAATTAAAATAAAAATATAATTGTAT
191 ATAAATAAATAA-TTAATTAAAATAAAAATATAATTGTAT
117211 TTCTAAATTT
Statistics
Matches: 207, Mismatches: 10, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
247 1 0.00
248 75 0.36
249 2 0.01
250 24 0.12
251 36 0.17
252 8 0.04
255 2 0.01
256 3 0.01
257 26 0.13
258 3 0.01
259 1 0.00
261 26 0.13
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (258 bp):
TTTTATAAGCAATGTAAAATCACCTTTCAAATGACTTGTCTATAGGACAACAGTTGTATTTTTAA
CAACATGCTTTTATTTAAATACTATATCTTTACATAACAAGTTTAAATGTTGTGTTCTTTCAACA
CAACTTTTTAATGCAATAAATATATATATATAATATTTCGAATTAAATATTAATAAATAAATAAA
TAAATAATTAATTAAAATAAAAATATAATTGTATCTCTGAAAATGACAAAATAAAAATATCTT
Found at i:117205 original size:17 final size:18
Alignment explanation
Indices: 117173--117206 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
117163 ATAAATAAAT
*
117173 AAATAAATAATTTAATTA
1 AAATAAATAATATAATTA
117191 AAATAAA-AATATAATT
1 AAATAAATAATATAATT
117207 GTATTTCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATAAATAATATAATTA
Found at i:118443 original size:4 final size:4
Alignment explanation
Indices: 118434--118458 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
118424 TCATTTGTAG
118434 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
118459 GGTTGTTTGA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:119093 original size:2 final size:2
Alignment explanation
Indices: 119086--119117 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
119076 AATAAATGTC
119086 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
119118 GTAATTACTT
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:125167 original size:12 final size:12
Alignment explanation
Indices: 125146--125176 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
125136 GTGGTAAATA
125146 TATATATATATG
1 TATATATATATG
*
125158 TATATGTATATG
1 TATATATATATG
125170 TATATAT
1 TATATAT
125177 CTTTGTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:125983 original size:2 final size:2
Alignment explanation
Indices: 125976--126000 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
125966 TTAAAATCTA
125976 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
126001 ATGAATTAAA
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:126198 original size:22 final size:21
Alignment explanation
Indices: 126173--126213 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
126163 AATCTGATTC
* *
126173 AAATTATATTTTAATATTTTTT
1 AAATAATAATTTAA-ATTTTTT
126195 AAATAATAATTTAAATTTT
1 AAATAATAATTTAAATTTT
126214 CAAATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAATAATAATTTAAATTTTTT
Found at i:131266 original size:31 final size:31
Alignment explanation
Indices: 131190--131267 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
131180 AATCATTAGT
** *
131190 ATATGTGTATTGTGCCTATAGAAAGTATAAA
1 ATATGTGTATTGTGTTTATAAAAAGTATAAA
*
131221 ATATGTCTATTGTGTTTATAAAAAGTATAATA
1 ATATGTGTATTGTGTTTATAAAAAGTATAA-A
131253 A-ATGTGTATTGTGTT
1 ATATGTGTATTGTGTT
131268 GATCGTGGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 39 0.95
32 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.42
Consensus pattern (31 bp):
ATATGTGTATTGTGTTTATAAAAAGTATAAA
Found at i:134889 original size:2 final size:2
Alignment explanation
Indices: 134882--134950 Score: 102
Period size: 2 Copynumber: 34.5 Consensus size: 2
134872 AAAGAGGCTA
* * * *
134882 AT AT AT AT AT GT AT AC AT AT AT AT AT AT GT AT AC 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
134924 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
134951 AGATATGAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:136429 original size:2 final size:2
Alignment explanation
Indices: 136422--136458 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
136412 TTCGAAACAA
*
136422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
136459 ACCTGAATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:140028 original size:2 final size:2
Alignment explanation
Indices: 140021--140051 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
140011 GATTTATTTA
140021 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
140052 CTATATATAT
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:140588 original size:2 final size:2
Alignment explanation
Indices: 140581--140615 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
140571 TTGGGGAACC
* *
140581 AT AT AT AT TT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
140616 GCTTCCCCCT
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:141352 original size:26 final size:27
Alignment explanation
Indices: 141297--141352 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
141287 AAAATCACCT
* ***
141297 TTTGTGTTTGTCAAAAATGGTGGTTAC
1 TTTGTATTTGTCAAAAATGGTAAATAC
141324 TTTGTATTTGTCAAAAATGGTAAAT-C
1 TTTGTATTTGTCAAAAATGGTAAATAC
141350 TTT
1 TTT
141353 TTTTTGTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.46
Consensus pattern (27 bp):
TTTGTATTTGTCAAAAATGGTAAATAC
Found at i:144495 original size:42 final size:42
Alignment explanation
Indices: 144442--144551 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
144432 AAGAGAAAGA
*
144442 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
** *
144484 AGAGCTAGGAGGGATGATAGGAGGAGAGACATGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
144526 AGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
144552 GAGAGAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.40, C:0.03, G:0.46, T:0.11
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:152607 original size:27 final size:27
Alignment explanation
Indices: 152576--152649 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
152566 AAAAGCCACC
* *
152576 CTTTGTGTTTGTCAAAAATGGTGGTTA
1 CTTTGTGTTTGTCAAAAATAGTGGATA
* *
152603 CTTTGTATTTGTCAAAAATAGTGGATC
1 CTTTGTGTTTGTCAAAAATAGTGGATA
*
152630 CTTTTTTTGTTTGTCAAAAA
1 C--TTTGTGTTTGTCAAAAA
152650 CTGTAGCTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 24 0.62
29 15 0.38
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATAGTGGATA
Found at i:154003 original size:7 final size:7
Alignment explanation
Indices: 153993--154020 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
153983 GTCCGGAGTA
153993 TGGAGCC
1 TGGAGCC
154000 TGGAGCC
1 TGGAGCC
154007 TGGAGCC
1 TGGAGCC
154014 TGGAGCC
1 TGGAGCC
154021 CAGCAGTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.43, T:0.14
Consensus pattern (7 bp):
TGGAGCC
Found at i:154011 original size:21 final size:21
Alignment explanation
Indices: 153979--154020 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
153969 CATCTCAAGT
*
153979 TGGAGTCCGGAGTATGGAGCC
1 TGGAGTCCGGAGCATGGAGCC
*
154000 TGGAG-CCTGGAGCCTGGAGCC
1 TGGAGTCC-GGAGCATGGAGCC
154021 CAGCAGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.17, C:0.24, G:0.43, T:0.17
Consensus pattern (21 bp):
TGGAGTCCGGAGCATGGAGCC
Found at i:158870 original size:2 final size:2
Alignment explanation
Indices: 158863--158894 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
158853 TGGTCATGCC
158863 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
158895 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:159492 original size:2 final size:2
Alignment explanation
Indices: 159475--159519 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
159465 TTCTTGTGGT
*
159475 TA TA T- TA TA CA 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 TA
159516 TA TA
1 TA TA
159520 AAGACTAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:165737 original size:19 final size:19
Alignment explanation
Indices: 165715--165764 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
165705 TAATTTTGAC
*
165715 TAAATAATAATTTTTTATA
1 TAAATAATAATTATTTATA
* *
165734 TAAA-ATTACACTATTTATA
1 TAAATAATA-ATTATTTATA
165753 TAAATAA-AATTA
1 TAAATAATAATTA
165765 CAATCATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
18 6 0.25
19 17 0.71
20 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATAATAATTATTTATA
Found at i:168266 original size:6 final size:6
Alignment explanation
Indices: 168257--168362 Score: 69
Period size: 6 Copynumber: 17.8 Consensus size: 6
168247 TAAATTTAAA
* * * * *
168257 TATATT TATATCG TATATA TATATA TATATA TATATT TCATA-T TGTA-T
1 TATATT TATAT-T TATATT TATATT TATATT TATATT T-ATATT TATATT
* *
168305 TATATT T-TTTAT TATATT T-TATT TATTTT TATA-T TATATT TATATT
1 TATATT TATAT-T TATATT TATATT TATATT TATATT TATATT TATATT
*
168351 ATATAAT TATAT
1 -TATATT TATAT
168363 CTTGTACAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
5 18 0.22
6 48 0.59
7 15 0.19
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (6 bp):
TATATT
Found at i:168317 original size:17 final size:18
Alignment explanation
Indices: 168297--168362 Score: 75
Period size: 17 Copynumber: 3.7 Consensus size: 18
168287 ATATATTTCA
*
168297 TATTGTATTATATTT-TT
1 TATTATATTATATTTATT
*
168314 TATTATATTTTATTTATT
1 TATTATATTATATTTATT
168332 T-TTATATTATATTTATAT
1 TATTATATTATATTTAT-T
168350 TA-TATAATTATAT
1 TATTAT-ATTATAT
168363 CTTGTACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 27 0.64
18 8 0.19
19 7 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTATATTATATTTATT
Found at i:168327 original size:22 final size:23
Alignment explanation
Indices: 168296--168354 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
168286 TATATATTTC
*
168296 ATATTGTATTATATTTTT-TATT
1 ATATTTTATTATATTTTTATATT
168318 ATATTTTATT-TATTTTTATATT
1 ATATTTTATTATATTTTTATATT
168340 ATATTTATATTATAT
1 ATATTT-TATTATAT
168355 AATTATATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 19 0.58
23 4 0.12
24 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
ATATTTTATTATATTTTTATATT
Found at i:170741 original size:2 final size:2
Alignment explanation
Indices: 170734--170775 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
170724 GCCAATGAAT
170734 TA 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 TA
170776 GAGAGAGAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:170780 original size:2 final size:2
Alignment explanation
Indices: 170775--170809 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
170765 ATATATATAT
170775 AG 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 AG A
170810 ATAATAAGTT
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:175690 original size:2 final size:2
Alignment explanation
Indices: 175685--175729 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
175675 ATATATATAT
* *
175685 AC AC AC AC AC AC AC AC AA AC AC AC AC AC GC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
175727 AC A
1 AC A
175730 TACATCTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.47, G:0.02, T:0.00
Consensus pattern (2 bp):
AC
Found at i:176255 original size:2 final size:2
Alignment explanation
Indices: 176248--176278 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
176238 ATTTTCTTCC
176248 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
176279 CATCTTACAA
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:177493 original size:2 final size:2
Alignment explanation
Indices: 177481--177520 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
177471 CCACATTCAA
*
177481 CT CT CT TT 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
177521 TTCACTCTAA
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:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:177494 original size:8 final size:8
Alignment explanation
Indices: 177481--177528 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
177471 CCACATTCAA
177481 CTCTCTTT
1 CTCTCTTT
177489 CTCTCTCTCT
1 CTCTCT-T-T
*
177499 CTCTCTCT
1 CTCTCTTT
*
177507 CTCTCTCT
1 CTCTCTTT
177515 CTCTCTTT
1 CTCTCTTT
*
177523 CACTCT
1 CTCTCT
177529 AATGAGAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 27 0.77
9 1 0.03
10 7 0.20
ACGTcount: A:0.02, C:0.46, G:0.00, T:0.52
Consensus pattern (8 bp):
CTCTCTTT
Found at i:180279 original size:12 final size:12
Alignment explanation
Indices: 180259--180288 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
180249 TATTAACTCA
180259 TATACCTGCTGGT
1 TATA-CTGCTGGT
180272 TATACTGCTGGT
1 TATACTGCTGGT
180284 TATAC
1 TATAC
180289 CGATCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (12 bp):
TATACTGCTGGT
Found at i:180988 original size:3 final size:3
Alignment explanation
Indices: 180980--181022 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
180970 ACATGAACAC
* * * *
180980 GAT GAT GAT GAT GAT GAT GGT GAT GGT GAT GGT GAT GGT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
181023 GCATGTCATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:180989 original size:6 final size:6
Alignment explanation
Indices: 180982--181023 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
180972 ATGAACACGA
* *
180982 TGATGA TGATGA TGATGG TGATGG TGATGG TGATGG TGATGG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG
181024 CATGTCATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.33
Consensus pattern (6 bp):
TGATGG
Found at i:181786 original size:15 final size:15
Alignment explanation
Indices: 181762--181791 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
181752 ACAAGAGAAA
*
181762 AAAAATATTAATTTT
1 AAAAACATTAATTTT
181777 AAAAACATTAATTTT
1 AAAAACATTAATTTT
181792 CTTACATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAAACATTAATTTT
Found at i:184296 original size:2 final size:2
Alignment explanation
Indices: 184289--184322 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
184279 CAATCACCAA
184289 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
184323 TGTTACCATT
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:185074 original size:2 final size:2
Alignment explanation
Indices: 185067--185127 Score: 88
Period size: 2 Copynumber: 31.0 Consensus size: 2
185057 GTAAAGATCC
* *
185067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
185109 AC AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT
185128 CAAGCGCAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:185786 original size:7 final size:7
Alignment explanation
Indices: 185776--185863 Score: 79
Period size: 7 Copynumber: 12.0 Consensus size: 7
185766 AAATAAAAAA
185776 TAAATTT
1 TAAATTT
185783 TAAATTT
1 TAAATTT
185790 TAAATTT
1 TAAATTT
185797 TAAATTT
1 TAAATTT
185804 TAAAATTT
1 T-AAATTT
*
185812 AAAATTAT
1 TAAATT-T
*
185820 TAAATAT
1 TAAATTT
*
185827 TAATTTT
1 TAAATTT
185834 TATAATTAAT
1 TA-AATT--T
185844 TAAA-TT
1 TAAATTT
*
185850 AAAATTT
1 TAAATTT
*
185857 TGAATTT
1 TAAATTT
185864 AAGATAAATG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
6 4 0.06
7 42 0.64
8 15 0.23
9 2 0.03
10 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (7 bp):
TAAATTT
Found at i:185793 original size:21 final size:21
Alignment explanation
Indices: 185769--185815 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
185759 ATATAAAAAA
*
185769 TAAAAAATAAATTTTAAATTT
1 TAAAAAATAAATTTTAAAATT
***
185790 TAAATTTTAAATTTTAAAATT
1 TAAAAAATAAATTTTAAAATT
185811 TAAAA
1 TAAAA
185816 TTATTAAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAAATAAATTTTAAAATT
Found at i:185801 original size:14 final size:14
Alignment explanation
Indices: 185776--185863 Score: 79
Period size: 15 Copynumber: 6.0 Consensus size: 14
185766 AAATAAAAAA
185776 TAAATTTTAAATTT
1 TAAATTTTAAATTT
185790 TAAATTTTAAATTT
1 TAAATTTTAAATTT
*
185804 TAAAATTTAAAATTAT
1 T-AAATTTTAAATT-T
* *
185820 TAAATATTAATTTT
1 TAAATTTTAAATTT
185834 TATAATTAATTAAA-TT
1 TA-AATT--TTAAATTT
* *
185850 AAAATTTTGAATTT
1 TAAATTTTAAATTT
185864 AAGATAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
13 4 0.07
14 20 0.33
15 27 0.45
16 5 0.08
17 4 0.07
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (14 bp):
TAAATTTTAAATTT
Found at i:185829 original size:23 final size:22
Alignment explanation
Indices: 185803--185856 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
185793 ATTTTAAATT
185803 TTAAAATTTAAAATT-ATTAAATA
1 TTAAAATTTAAAATTAATT-AA-A
** *
185826 TTAATTTTTATAATTAATTAAA
1 TTAAAATTTAAAATTAATTAAA
185848 TTAAAATTT
1 TTAAAATTT
185857 TGAATTTAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 8 0.32
23 14 0.56
24 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAAAATTTAAAATTAATTAAA
Found at i:189528 original size:22 final size:21
Alignment explanation
Indices: 189495--189542 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
189485 ATGATTCAGG
189495 TAATATTTAAAAATTTAAAATA
1 TAAT-TTTAAAAATTTAAAATA
*
189517 TAATTTTAAAAATTTTAAATA
1 TAATTTTAAAAATTTAAAATA
189538 TAATT
1 TAATT
189543 AATGTATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTTTAAAAATTTAAAATA
Found at i:190341 original size:26 final size:26
Alignment explanation
Indices: 190311--190369 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
190301 TTGATCAAAC
* *
190311 TAATTTTATATAACTTTTA-ATTCATT-
1 TAATTTTA-A-AAATTTTATATTAATTA
190337 TAATTTTAAAAATTTTATATTAATTA
1 TAATTTTAAAAATTTTATATTAATTA
190363 TAATTTT
1 TAATTTT
190370 TTTCTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 7 0.24
26 15 0.52
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (26 bp):
TAATTTTAAAAATTTTATATTAATTA
Found at i:191766 original size:17 final size:16
Alignment explanation
Indices: 191746--191779 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
191736 TCAATTTATA
191746 TTAAAAATAAATTTTTT
1 TTAAAAAT-AATTTTTT
*
191763 TTAATAATAATTTTTT
1 TTAAAAATAATTTTTT
191779 T
1 T
191780 ATTTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAAAAATAATTTTTT
Found at i:191793 original size:13 final size:13
Alignment explanation
Indices: 191776--191816 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
191766 ATAATAATTT
191776 TTTTATTTATAAAA
1 TTTTATTT-TAAAA
*
191790 TTTAATATTTAAAA
1 TTTTAT-TTTAAAA
191804 TTTTATTTTAAAA
1 TTTTATTTTAAAA
191817 AATAAATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 7 0.29
14 15 0.62
15 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTATTTTAAAA
Found at i:192009 original size:2 final size:2
Alignment explanation
Indices: 192002--192043 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
191992 ATGGTCATTA
* *
192002 TC TC TC TC TC TC TC TC TC TC CC CC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
192044 CAATCCTGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (2 bp):
TC
Found at i:192160 original size:2 final size:2
Alignment explanation
Indices: 192153--192178 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
192143 ACTCACTTCC
192153 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
192179 TTGCATTTTG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:192329 original size:2 final size:2
Alignment explanation
Indices: 192322--192360 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
192312 GGTAATTAAT
192322 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 T
192361 ACGTATATAT
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:197112 original size:2 final size:2
Alignment explanation
Indices: 197105--197130 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
197095 TATCAAACTG
197105 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
197131 GGGGGATGGA
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:205564 original size:15 final size:15
Alignment explanation
Indices: 205541--205570 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
205531 AATGCCCTTC
*
205541 AATGCCATAAAAAAT
1 AATGACATAAAAAAT
205556 AATGACATAAAAAAT
1 AATGACATAAAAAAT
205571 CAAAAGCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (15 bp):
AATGACATAAAAAAT
Found at i:210205 original size:28 final size:30
Alignment explanation
Indices: 210174--210233 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
210164 ATATTTAATT
*
210174 TTTTTATTTTT-T-TTATATTTTAAAAAA-A
1 TTTTTATTTTTATATT-TATATTAAAAAATA
210202 -TTTTATTTTTATATTTATATTAAAAAATA
1 TTTTTATTTTTATATTTATATTAAAAAATA
210231 TTT
1 TTT
210234 AATATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
27 10 0.37
28 12 0.44
29 3 0.11
30 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
TTTTTATTTTTATATTTATATTAAAAAATA
Found at i:213912 original size:28 final size:28
Alignment explanation
Indices: 213872--213928 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
213862 TTAAGCGACA
213872 TGAAAATGCCTAGCTAAGTATAATAGTT
1 TGAAAATGCCTAGCTAAGTATAATAGTT
213900 TGAAAATGCCTAGCTAAGTATAATAGTT
1 TGAAAATGCCTAGCTAAGTATAATAGTT
213928 T
1 T
213929 TCTCTTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (28 bp):
TGAAAATGCCTAGCTAAGTATAATAGTT
Found at i:220307 original size:19 final size:18
Alignment explanation
Indices: 220285--220346 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
220275 CATATTTATT
*
220285 TTATTTTTAAATATTATAA
1 TTATATTTAAA-ATTATAA
220304 TTATATTTAAAATTATATA
1 TTATATTTAAAATTATA-A
* *
220323 TTTTA-TTAATAATTATTA
1 TTATATTTAA-AATTATAA
220341 TTATAT
1 TTATAT
220347 AAATTTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 15 0.42
19 21 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTTAAAATTATAA
Found at i:220343 original size:25 final size:24
Alignment explanation
Indices: 220315--220390 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 24
220305 TATATTTAAA
220315 ATTATATATTTTATTAATAATTATT
1 ATTATATATTTTATT-ATAATTATT
*
220340 ATTATATAAATTTTAATATAATTATT
1 ATTATAT--ATTTTATTATAATTATT
* *
220366 AATATTATATTTTATTTTAATTATT
1 ATTA-TATATTTTATTATAATTATT
220391 TTTTCGTGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
25 22 0.50
26 12 0.27
27 10 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATATATTTTATTATAATTATT
Found at i:220366 original size:29 final size:27
Alignment explanation
Indices: 220317--220375 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
220307 TATTTAAAAT
* *
220317 TATATATTTTATTAATAATTATTATTA
1 TATAAATTTTATTAATAATTAATATTA
*
220344 TATAAATTTTAATATAATTATTAATATTA
1 TATAAATTTT-AT-TAATAATTAATATTA
220373 TAT
1 TAT
220376 TTTATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 9 0.33
28 2 0.07
29 16 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TATAAATTTTATTAATAATTAATATTA
Found at i:225693 original size:7 final size:7
Alignment explanation
Indices: 225683--225708 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
225673 CTTTTTTTTC
225683 TTTTTAT
1 TTTTTAT
225690 TTTTTAT
1 TTTTTAT
225697 TTTTTAT
1 TTTTTAT
225704 TTTTT
1 TTTTT
225709 TAGCGTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:225694 original size:14 final size:13
Alignment explanation
Indices: 225675--225709 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
225665 ACCTTTCCCT
225675 TTTTTTTCTTTTTA
1 TTTTTTT-TTTTTA
225689 TTTTTTATTTTTTA
1 TTTTTT-TTTTTTA
225703 TTTTTTT
1 TTTTTTT
225710 AGCGTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 18 0.90
15 1 0.05
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:226174 original size:21 final size:20
Alignment explanation
Indices: 226149--226190 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
226139 TATTCAAAAG
226149 TAAATTTTAATGTATTATATA
1 TAAATTTTAATGTATT-TATA
*
226170 TAAATTTTAATTTATTTATA
1 TAAATTTTAATGTATTTATA
226190 T
1 T
226191 TTATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TAAATTTTAATGTATTTATA
Done.