Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011540.1 Kokia drynarioides strain JFW-HI SEQ_126526, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98017
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 84 characters in sequence are not A, C, G, or T
Found at i:3137 original size:37 final size:37
Alignment explanation
Indices: 3041--3127 Score: 156
Period size: 37 Copynumber: 2.4 Consensus size: 37
3031 GTCGTGATCC
*
3041 GAAATCGAGCGAACCGTAAAAATGACAATCACGATAT
1 GAAATCGAGCGAACCGTAAAAATGACAAGCACGATAT
*
3078 GAAATCGAGCGAACCGTAAAAATGACAGGCACGATAT
1 GAAATCGAGCGAACCGTAAAAATGACAAGCACGATAT
3115 GAAATCGAGCGAA
1 GAAATCGAGCGAA
3128 TTGTTAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (37 bp):
GAAATCGAGCGAACCGTAAAAATGACAAGCACGATAT
Found at i:11475 original size:30 final size:29
Alignment explanation
Indices: 11441--11793 Score: 311
Period size: 30 Copynumber: 11.9 Consensus size: 29
11431 AATTTTAGAA
*
11441 AAAGTTTAAGGGTAAAAATGTAATTTTTGG
1 AAAGTTTAAGGGTTAAAATGTAA-TTTTGG
** *
11471 AAAGTTTGGGGGTTAAAATGTGATTTTGG
1 AAAGTTTAAGGGTTAAAATGTAATTTTGG
* *
11500 AGAAATTTAA-GGTTAAAATGTGATTTTGGG
1 A-AAGTTTAAGGGTTAAAATGTAATTTT-GG
* ** *
11530 AAAGTTTAA-GGTCAAAACATAATTTTAG
1 AAAGTTTAAGGGTTAAAATGTAATTTTGG
**
11558 AGAAGTTTAAGGGTTAAAATGTAATTTTAA
1 A-AAGTTTAAGGGTTAAAATGTAATTTTGG
* *
11588 AAGAGTTTAAGGGTTAAAATGTGATTTTGA
1 AA-AGTTTAAGGGTTAAAATGTAATTTTGG
* *
11618 AGAAGTTT-GGGGTTAAAATGCAATTTTGG
1 A-AAGTTTAAGGGTTAAAATGTAATTTTGG
* **
11647 AAAAGTTTAAAGGTTAAAAT-TCAATTTTATA
1 -AAAGTTTAAGGGTTAAAATGT-AATTTT-GG
* **
11678 AAAGTTTAGGGGTTAACTTGTAATTTTGG
1 AAAGTTTAAGGGTTAAAATGTAATTTTGG
* *
11707 AAAAGTTTAGGGGTAAAAATGTAATTTTGG
1 -AAAGTTTAAGGGTTAAAATGTAATTTTGG
** *
11737 AAAAGTTT-AGGGAGCAAAATGTGATTTTGG
1 -AAAGTTTAAGGG-TTAAAATGTAATTTTGG
*
11767 GAAGTTTAAGGGTTAAAATGTAATTTT
1 AAAGTTTAAGGGTTAAAATGTAATTTT
11794 TAAAGAAAAC
Statistics
Matches: 264, Mismatches: 45, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 97 0.37
30 163 0.62
31 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAGTTTAAGGGTTAAAATGTAATTTTGG
Found at i:11532 original size:59 final size:60
Alignment explanation
Indices: 11419--11793 Score: 322
Period size: 59 Copynumber: 6.3 Consensus size: 60
11409 GAAGAATATG
** * * **
11419 GGGTTAAAACATAATTTTAGAAAAAGTTTAAGGGTAAAAATGTAATTTTTGG-AAAGTTTGG
1 GGGTTAAAATGTAATTTTAGAGAAAGTTTAA-GGTTAAAATGTAA-TTTTGGAAAAGTTTAA
* * * *
11480 GGGTTAAAATGTGATTTTGGAGAAA-TTTAAGGTTAAAATGTGATTTTGGGAAAGTTTAA
1 GGGTTAAAATGTAATTTTAGAGAAAGTTTAAGGTTAAAATGTAATTTTGGAAAAGTTTAA
* ** *
11539 -GGTCAAAACATAATTTTAGAG-AAGTTTAAGGGTTAAAATGTAATTTT-AAAAGAGTTTAA
1 GGGTTAAAATGTAATTTTAGAGAAAGTTTAA-GGTTAAAATGTAATTTTGGAAA-AGTTTAA
* ** *
11598 GGGTTAAAATGTGATTTT-GA-AGAAGTTTGGGGTTAAAATGCAATTTTGGAAAAGTTTAA
1 GGGTTAAAATGTAATTTTAGAGA-AAGTTTAAGGTTAAAATGTAATTTTGGAAAAGTTTAA
* * * ** *
11657 AGGTTAAAAT-TCAATTTTATA-AAAGTTTAGGGGTTAACTTGTAATTTTGGAAAAGTTTAG
1 GGGTTAAAATGT-AATTTTAGAGAAAGTTTA-AGGTTAAAATGTAATTTTGGAAAAGTTTAA
* * * ** * *
11717 GGGTAAAAATGTAATTTTGGA-AAAGTTTAGGGAGCAAAATGTGATTTTGG-GAAGTTTAA
1 GGGTTAAAATGTAATTTTAGAGAAAGTTTAAGG-TTAAAATGTAATTTTGGAAAAGTTTAA
11776 GGGTTAAAATGTAATTTT
1 GGGTTAAAATGTAATTTT
11794 TAAAGAAAAC
Statistics
Matches: 256, Mismatches: 45, Indels: 28
0.78 0.14 0.09
Matches are distributed among these distances:
57 2 0.01
58 30 0.12
59 113 0.44
60 90 0.35
61 21 0.08
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (60 bp):
GGGTTAAAATGTAATTTTAGAGAAAGTTTAAGGTTAAAATGTAATTTTGGAAAAGTTTAA
Found at i:11538 original size:89 final size:91
Alignment explanation
Indices: 11419--11793 Score: 353
Period size: 89 Copynumber: 4.2 Consensus size: 91
11409 GAAGAATATG
** * **
11419 GGGTTAAAACATAATTTTAGAAAAAGTTTAAGGGTAAAAATGTAATTTTTGG-AAAGTTTGGGGG
1 GGGTTAAAATGTAATTTT-GGAAAAGTTTAAGGGTAAAAATGTAA-TTTTGGAAAAGTTTAAGGG
*
11483 TTAAAATGTGATTTTGGAGAAA-TTTAA
64 TTAAAATGTAATTTTGGAGAAAGTTTAA
* * * ** * *
11510 -GGTTAAAATGTGATTTTGGGAAAGTTTAA-GGTCAAAACATAATTTTAGAGAAGTTTAAGGGTT
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTAAGGGTT
*
11573 AAAATGTAATTTT--AAAAGAGTTTAA
66 AAAATGTAATTTTGGAGAA-AGTTTAA
* * * * *
11598 GGGTTAAAATGTGATTTT-GAAGAAGTTT-GGGGTTAAAATGCAATTTTGGAAAAGTTTAAAGGT
1 GGGTTAAAATGTAATTTTGGAA-AAGTTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTAAGGGT
** *
11661 TAAAAT-TCAATTTTATA-AAAGTTTAG
65 TAAAATGT-AATTTTGGAGAAAGTTTAA
** * *
11687 GGGTTAACTTGTAATTTTGGAAAAGTTTAGGGGTAAAAATGTAATTTTGGAAAAGTTT-AGGGAG
1 GGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTAAGGG-T
* *
11751 CAAAATGTGATTTTGG-G-AAGTTTAA
65 TAAAATGTAATTTTGGAGAAAGTTTAA
11776 GGGTTAAAATGTAATTTT
1 GGGTTAAAATGTAATTTT
11794 TAAAGAAAAC
Statistics
Matches: 232, Mismatches: 38, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
86 3 0.01
87 6 0.03
88 41 0.18
89 124 0.53
90 56 0.24
91 2 0.01
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (91 bp):
GGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTAAAAATGTAATTTTGGAAAAGTTTAAGGGTT
AAAATGTAATTTTGGAGAAAGTTTAA
Found at i:12832 original size:4 final size:4
Alignment explanation
Indices: 12823--12871 Score: 62
Period size: 4 Copynumber: 11.8 Consensus size: 4
12813 CAGTTATGAC
* *
12823 ATAA ATAA ATAA ATAA ATATA TATAT ATAT ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATA-A -ATAA ATAA ATAA ATAA ATAA ATAA ATA
12872 TATTTATATC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 37 0.90
5 1 0.02
6 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (4 bp):
ATAA
Found at i:12859 original size:22 final size:22
Alignment explanation
Indices: 12831--12874 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12821 ACATAAATAA
* *
12831 ATAAATAAATATATATATATAT
1 ATAAATAAATAAATAAATATAT
12853 ATAAATAAATAAATAAATATAT
1 ATAAATAAATAAATAAATATAT
12875 TTATATCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAAATAAATAAATAAATATAT
Found at i:12859 original size:26 final size:26
Alignment explanation
Indices: 12827--12880 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
12817 TATGACATAA
*
12827 ATAAATAAATAAATATATATATATAT
1 ATAAATAAATAAATAAATATATATAT
*
12853 ATAAATAAATAAATAAATATATTTAT
1 ATAAATAAATAAATAAATATATATAT
12879 AT
1 AT
12881 CTATTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAAATAAATAAATAAATATATATAT
Found at i:12859 original size:30 final size:30
Alignment explanation
Indices: 12823--12880 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
12813 CAGTTATGAC
12823 ATAAATAAATAAATAAATATATATATATAT
1 ATAAATAAATAAATAAATATATATATATAT
*
12853 ATAAATAAATAAATAAATATATTTATAT
1 ATAAATAAATAAATAAATATATATATAT
12881 CTATTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
ATAAATAAATAAATAAATATATATATATAT
Found at i:14866 original size:209 final size:209
Alignment explanation
Indices: 13740--14865 Score: 1529
Period size: 209 Copynumber: 5.4 Consensus size: 209
13730 GCTTCATCTC
* ** * * * * *
13740 TTGGTCTACTTCTTTGTATCTCATCAGGAAGATGATTGCTTCA-TTATTGTGATTCACTTCTCTG
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTG
* * * *
13804 TATCTCATCAGGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATC-ATTTTT
66 TATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTAT
** * *
13868 TGCTTTGACTTACTTCTCAGTATCTCATCAGGAAGATGGGGTTCGAAGTTTCACTCGCATTGAGC
131 TGCTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC
* * *
13933 TTCGCTTCATCGAT
196 TTCACTTCATTGAA
* *
13947 TTGGTCTACTTCTCTGTATCTCATCACGAAGATGACCGCATCACTTGTTTTAATCTACTTCTCTG
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTG
* * * *
14012 TATCTCATTAGGAAGACGGATTTTGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTAT
66 TATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTAT
* * *
14077 TGCTTTGACCCACTTCTCAGTATCTCATTAGGAAGATGGGGTTTGAATTTTCACTCATATTGAGC
131 TGCTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC
** *
14142 TTTGCTTCATTGAT
196 TTCACTTCATTGAA
* * * * * * * * *
14156 TTGGTTTACTTCTCTGTATCTCATGAGGAAGATGATCACCTCATTTGTTTTAATCCGCTTTTCTA
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTG
* * * * * * * *
14221 TCTCTCATCAAAAAGATGGATTTGGTTCACTTCTCTATATATCATCAGGAAGACGATCGTTTTAT
66 TATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTAT
* *
14286 TGCTTTGACCCACTTCTCAGTATCTCATTAGGAAGACGGGGTTTGAAGTTTCACTCACATTGAGC
131 TGCTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC
* *
14351 TTCACTTCGTTAAA
196 TTCACTTCATTGAA
* * * *
14365 TTGGTCTACTTCTCTGTACCTCATCAGGAGGATGACTGCATCACTTATTTTAATCCACTTCTCTG
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTG
* * *
14430 TATCTCATCAAGAAGACGGATTTGGTCCACTTCTCTATATCTCATCAGGAAGATGACAGCTTTAT
66 TATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTAT
* * * * *
14495 TGCTTTGACACACTTCTCAGTATCTCATCAAGAAGATGAGGTTTGAAGTTTCACTGACTTTGAGC
131 TGCTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC
*
14560 TTCACTTCGTTGAA
196 TTCACTTCATTGAA
* * **
14574 TTGGTCTACTTCTCTGTACCTCATTAGGAAGATGATTGCATCACTTGTTTTAATCCACTTCTCTG
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTG
* * * *
14639 TATCTCATCAGGAAGATGAATTTGGTCCACTTTTCTGTATCTCATCAGGAAGAGGACCGCTTTAT
66 TATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTAT
* * * *
14704 TTCTTTGACCCAATTCTAAGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCACATTGAGC
131 TGCTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC
14769 TTCACTTCATTGAA
196 TTCACTTCATTGAA
14783 TTGGTCTACTTCTCTGTA-CTTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCT
1 TTGGTCTACTTCTCTGTATC-TCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCT
14847 GTATCTCATCAAGAAGATG
65 GTATCTCATCAAGAAGATG
14866 ATTGCTTTAT
Statistics
Matches: 807, Mismatches: 109, Indels: 4
0.88 0.12 0.00
Matches are distributed among these distances:
207 38 0.05
208 71 0.09
209 698 0.86
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (209 bp):
TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTG
TATCTCATCAAGAAGATGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTTAT
TGCTTTGACCCACTTCTCAGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGC
TTCACTTCATTGAA
Found at i:19421 original size:6 final size:6
Alignment explanation
Indices: 19410--19438 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19400 TGATTGTATT
19410 GTATGA GTATGA GTATGA GTATGA GTATG
1 GTATGA GTATGA GTATGA GTATGA GTATG
19439 TTTGTCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (6 bp):
GTATGA
Found at i:23175 original size:15 final size:16
Alignment explanation
Indices: 23155--23185 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
23145 ATATATGAAG
23155 ATGCGATGC-AATGCA
1 ATGCGATGCGAATGCA
23170 ATGCGATGCGAATGCA
1 ATGCGATGCGAATGCA
23186 TGTATGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (16 bp):
ATGCGATGCGAATGCA
Found at i:24232 original size:19 final size:19
Alignment explanation
Indices: 24205--24245 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24195 AATATAGGGA
24205 TAAAAATGAGC-ATGCAAAT
1 TAAAAATGAGCTATGC-AAT
*
24224 TAAATATGAGCTATGCAAT
1 TAAAAATGAGCTATGCAAT
24243 TAA
1 TAA
24246 TGATAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.27
Consensus pattern (19 bp):
TAAAAATGAGCTATGCAAT
Found at i:24346 original size:35 final size:37
Alignment explanation
Indices: 24285--24363 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 37
24275 CAAATATAGG
**
24285 AAAATAAATATGAGAAAAATAAAAAATGAATTATGAAT
1 AAAA-AAATATGAGAAAAATAAAAAATGAATTAAAAAT
* *
24323 AAAAAAA-ATGAG-AAAATACAAAATTAATTAAAAAT
1 AAAAAAATATGAGAAAAATAAAAAATGAATTAAAAAT
24358 AAAAAA
1 AAAAAA
24364 GTTAAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 25 0.68
36 5 0.14
37 3 0.08
38 4 0.11
ACGTcount: A:0.71, C:0.01, G:0.08, T:0.20
Consensus pattern (37 bp):
AAAAAAATATGAGAAAAATAAAAAATGAATTAAAAAT
Found at i:24510 original size:29 final size:27
Alignment explanation
Indices: 24410--24515 Score: 79
Period size: 30 Copynumber: 3.7 Consensus size: 27
24400 AAAAGGTTCG
* *
24410 AAAATA-AAGTTTCGGAGAGTTTGGGGTT
1 AAAATATAA-TTTTGGAAAGTTTGGGG-T
* * *
24438 AAAACATAATTTTAGAAAGTTTTTGTGGT
1 AAAATATAATTTTGGAAAG--TTTGGGGT
* *
24467 AAAAATGTTATTTTGGGAAAGTTTCGGGGT
1 -AAAATATAATTTT-GGAAAGTTT-GGGGT
24497 AAAATATAATTTTGGAAAG
1 AAAATATAATTTTGGAAAG
24516 CTCAGGGATC
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
28 18 0.30
29 17 0.28
30 20 0.33
31 5 0.08
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.36
Consensus pattern (27 bp):
AAAATATAATTTTGGAAAGTTTGGGGT
Found at i:24575 original size:29 final size:29
Alignment explanation
Indices: 24534--24677 Score: 159
Period size: 29 Copynumber: 4.9 Consensus size: 29
24524 TCAAAACATG
*
24534 ATTTTTAAAAAGTTTGAGGGTAAAAATGTA
1 ATTTTT-AGAAGTTTGAGGGTAAAAATGTA
* *
24564 ATTTTTAGAAGTTT-AGAGG-AAAATTTTA
1 ATTTTTAGAAGTTTGAG-GGTAAAAATGTA
*
24592 ATTTTTAGAAAGTTCGAGGGTAAAAATGTA
1 ATTTTTAG-AAGTTTGAGGGTAAAAATGTA
*
24622 ATTTTTAGAAGTTCG-GTGGTAAAAATGTA
1 ATTTTTAGAAGTTTGAG-GGTAAAAATGTA
* *
24651 ATTTTTGAGAAGTCTGAGGGTCAAAAT
1 ATTTTT-AGAAGTTTGAGGGTAAAAAT
24678 ATGATTTATG
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
28 18 0.18
29 41 0.42
30 38 0.39
31 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (29 bp):
ATTTTTAGAAGTTTGAGGGTAAAAATGTA
Found at i:25363 original size:10 final size:11
Alignment explanation
Indices: 25339--25364 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25329 GGAGGTAAAA
25339 TTTTCTTCCCT
1 TTTTCTTCCCT
25350 TTTTCTTCCCT
1 TTTTCTTCCCT
25361 TTTT
1 TTTT
25365 TATTTTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTCTTCCCT
Found at i:26463 original size:17 final size:17
Alignment explanation
Indices: 26443--26488 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
26433 TTTTTTAATT
26443 AAATTTAAATTTAAAAC
1 AAATTTAAATTTAAAAC
* *
26460 AAATTTAAATTTAGAAT
1 AAATTTAAATTTAAAAC
*
26477 GAATTTAAATTT
1 AAATTTAAATTT
26489 GTACTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (17 bp):
AAATTTAAATTTAAAAC
Found at i:26498 original size:17 final size:17
Alignment explanation
Indices: 26442--26502 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
26432 ATTTTTTAAT
*
26442 TAAATTTAAATTTAAAAC
1 TAAATTTAAATTT-AGAC
*
26460 -AAATTTAAATTTAGAA
1 TAAATTTAAATTTAGAC
*
26476 TGAATTTAAATTT-GTAC
1 TAAATTTAAATTTAG-AC
26493 TAAATTTAAA
1 TAAATTTAAA
26503 CGTAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.08
17 33 0.92
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAGAC
Found at i:26962 original size:39 final size:39
Alignment explanation
Indices: 26904--27359 Score: 203
Period size: 39 Copynumber: 11.7 Consensus size: 39
26894 AATGGTTGCA
* *
26904 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * ** * **
26943 ATTTACCTCAAGCAT-GGGGTAAAAGATCGAATGATTGCA
1 ATCTACCTCAAGC-TCGGGGTAAGAGATTGGCTGATGGTG
*
26982 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * ** *
27021 ATCTGCCTCAAGCTCGGGGTAAGAGATCGAAT-A-GCTG
1 ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * * * *
27058 CAATCTGCCCCATGATCGAGGTAAGAGATTTGCTGATGGTG
1 --ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * ** * *
27099 ATCTACCCCAAGCTCGGGGTAAAAGATCGAAT-AGTTGTA
1 ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTG
* * * ** * * * *
27138 ACCTGCCCCGGGCTCGAGGTAAGAGATTTGATGATAGTG
1 ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * *
27177 ATCTGCCTCAGGCTCGGAGTAAGAGA-T--C-GAATGGCTG
1 ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTG-ATGG-TG
* * * * *
27214 CAATCTACCTTATGGTCGAGGTAAGAGATTGGCTAATGGTG
1 --ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * * ** * * *
27255 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCT-ATA
1 ATCTACCTCAAGCTCGGGGTAAGAGATTGGCT-GATGGTG
* * * *
27294 ATCTACC-CTATGATCGGGGTAAGAGATTAGTTGATGGTG
1 ATCTACCTC-AAGCTCGGGGTAAGAGATTGGCTGATGGTG
* * *
27333 ATCTGCCTCAGGCTCGAGGTAAGAGAT
1 ATCTACCTCAAGCTCGGGGTAAGAGAT
27360 CGAATGGCTA
Statistics
Matches: 300, Mismatches: 97, Indels: 40
0.69 0.22 0.09
Matches are distributed among these distances:
35 1 0.00
36 3 0.01
37 5 0.02
38 7 0.02
39 268 0.89
40 6 0.02
41 5 0.02
42 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (39 bp):
ATCTACCTCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
Found at i:27153 original size:156 final size:155
Alignment explanation
Indices: 26854--27392 Score: 643
Period size: 156 Copynumber: 3.5 Consensus size: 155
26844 ATTTGGTTCA
* * * * * *
26854 GGCTGATGATGATCTGCC-CTAGGCTCGAGGTAAAAGGTCGAATGGTTGCAATCTACCCCAGGCT
1 GGCTGATGGTGATCTGCCTC-AGGCTCGAGGTAAGAGATCGAATGGCTGCAATCTACCCCATGAT
* * * *
26918 CGGGGTAAGAGATTGGCTGATGGTGATTTACCTCAAGCAT-GGGGTAAAAGATCGAATGATTGCA
65 CGAGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGC-TCGGGGTAAAAGATCGAATG-TTGTA
26982 ATCTACCCCAAGCTCGGGGTAAGAGATT
128 ATCTACCCCAAGCTCGGGGTAAGAGATT
* * * *
27010 GGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATAGCTGCAATCTGCCCCATGATC
1 GGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
* *
27075 GAGGTAAGAGATTTGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCGAATAGTTGTAAC
66 GAGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCGAAT-GTTGTAAT
* ** *
27140 CTGCCCCGGGCTCGAGGTAAGAGATT
130 CTACCCCAAGCTCGGGGTAAGAGATT
* * * ** *
27166 TGATGATAGTGATCTGCCTCAGGCTCG-GAGTAAGAGATCGAATGGCTGCAATCTACCTTATGGT
1 GGCTGATGGTGATCTGCCTCAGGCTCGAG-GTAAGAGATCGAATGGCTGCAATCTACCCCATGAT
* * * * *
27230 CGAGGTAAGAGATTGGCTAATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTATAA
65 CGAGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCGAAT-GTTGTAA
* * *
27295 TCTACCCTATGATCGGGGTAAGAGATT
129 TCTACCCCAAGCTCGGGGTAAGAGATT
* * ** *
27322 AGTTGATGGTGATCTGCCTCAGGCTCGAGGTAAGAGATCGAATGGCTATAATCTGCCCCATGATC
1 GGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
*
27387 GGGGTA
66 GAGGTA
27393 TTTGTCCTTC
Statistics
Matches: 325, Mismatches: 53, Indels: 10
0.84 0.14 0.03
Matches are distributed among these distances:
155 2 0.01
156 320 0.98
157 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (155 bp):
GGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
GAGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCGAATGTTGTAATC
TACCCCAAGCTCGGGGTAAGAGATT
Found at i:27366 original size:78 final size:78
Alignment explanation
Indices: 26854--27392 Score: 578
Period size: 78 Copynumber: 6.9 Consensus size: 78
26844 ATTTGGTTCA
* * * * * * * *
26854 GGCTGATGATGATCTGCC-CTAGGCTCGAGGTAAAAGGTCGAATGGTTGCAATCTACCCCAGGCT
1 GGCTGATGGTGATCTGCCTC-AAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCATGAT
26918 CGGGGTAAGAGATT
65 CGGGGTAAGAGATT
* * * ** * *
26932 GGCTGATGGTGATTTACCTCAAGCAT-GGGGTAAAAGATCGAATGATTGCAATCTACCCCAAGCT
1 GGCTGATGGTGATCTGCCTCAAGC-TCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCATGAT
26996 CGGGGTAAGAGATT
65 CGGGGTAAGAGATT
* *
27010 GGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATAGCTGCAATCTGCCCCATGATC
1 GGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
*
27075 GAGGTAAGAGATT
66 GGGGTAAGAGATT
* * * * * * * * * ** *
27088 TGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAGATCGAATAGTTGTAACCTGCCCCGGGCTC
1 GGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
*
27153 GAGGTAAGAGATT
66 GGGGTAAGAGATT
* * * * * ** *
27166 TGATGATAGTGATCTGCCTCAGGCTCGGAGTAAGAGATCGAATGGCTGCAATCTACCTTATGGTC
1 GGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
*
27231 GAGGTAAGAGATT
66 GGGGTAAGAGATT
* * ** *
27244 GGCTAATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTATAATCTACCCTATGATC
1 GGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
27309 GGGGTAAGAGATT
66 GGGGTAAGAGATT
* * * * ** *
27322 AGTTGATGGTGATCTGCCTCAGGCTCGAGGTAAGAGATCGAATGGCTATAATCTGCCCCATGATC
1 GGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
27387 GGGGTA
66 GGGGTA
27393 TTTGTCCTTC
Statistics
Matches: 393, Mismatches: 65, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
77 1 0.00
78 390 0.99
79 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (78 bp):
GGCTGATGGTGATCTGCCTCAAGCTCGGGGTAAGAGATCGAATGGCTGCAATCTACCCCATGATC
GGGGTAAGAGATT
Found at i:27376 original size:39 final size:39
Alignment explanation
Indices: 26865--27381 Score: 182
Period size: 39 Copynumber: 13.3 Consensus size: 39
26855 GCTGATGATG
* * * * *
26865 ATCTGCCCTAGGCTCGAGGTAAAAGGTCGAATGGTTGCA
1 ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCTGTA
* * * ** * *
26904 ATCTACCCCAGGCTCGGGGTAAGAGATTGGCT-GATGGTG
1 ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCT-GTA
* * * * * * ** *
26943 ATTTACCTCAAGCAT-GGGGTAAAAGATCGAATGATTGCA
1 ATCTGCCCCAGGC-TCGAGGTAAGAGATCGAATGGCTGTA
* * * * ** * *
26982 ATCTACCCCAAGCTCGGGGTAAGAGATTGGCT-GATGGTG
1 ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCT-GTA
* * * * *
27021 ATCTGCCTCAAGCTCGGGGTAAGAGATCGAATAGCTGCA
1 ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCTGTA
* *
27060 ATCTGCCCCATGATCGAGGTAAGAGATTTGCTG-ATGG-TG--
1 ATCTGCCCCAGGCTCGAGGTAAGAGA--T-C-GAATGGCTGTA
* * * * * *
27099 ATCTACCCCAAGCTCGGGGTAAAAGATCGAATAGTTGTA
1 ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCTGTA
* * * * *
27138 ACCTGCCCCGGGCTCGAGGTAAGAGATTTG-AT-GATAGTG
1 ATCTGCCCCAGGCTCGAGGTAAGAGA-TCGAATGGCT-GTA
* *
27177 ATCTGCCTCAGGCTCG-GAGTAAGAGATCGAATGGCTGCA
1 ATCTGCCCCAGGCTCGAG-GTAAGAGATCGAATGGCTGTA
* ** *
27216 ATCTACCTTATGG-TCGAGGTAAGAGATTGGCTAATGG-TG--
1 ATCTGCCCCA-GGCTCGAGGTAAGAGA-T--CGAATGGCTGTA
* * *
27255 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAATGGCTATA
1 ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCTGTA
* * * * * * * * * *
27294 ATCTACCCTATGATCGGGGTAAGAGAT-TAGTTGATGGTG
1 ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCT-GTA
* *
27333 ATCTGCCTCAGGCTCGAGGTAAGAGATCGAATGGCTATA
1 ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCTGTA
27372 ATCTGCCCCA
1 ATCTGCCCCA
27382 TGATCGGGGT
Statistics
Matches: 348, Mismatches: 100, Indels: 60
0.69 0.20 0.12
Matches are distributed among these distances:
35 1 0.00
36 10 0.03
37 4 0.01
38 15 0.04
39 286 0.82
40 16 0.05
41 5 0.01
42 10 0.03
43 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAGGCTCGAGGTAAGAGATCGAATGGCTGTA
Found at i:39212 original size:18 final size:20
Alignment explanation
Indices: 39176--39219 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
39166 AATTATGAAT
39176 CAAAA-TAATTGAGAAAATA
1 CAAAATTAATTGAGAAAATA
39195 CAAAATTAATT-A-AAAATA
1 CAAAATTAATTGAGAAAATA
*
39213 AAAAATT
1 CAAAATT
39220 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
19 6 0.26
20 5 0.22
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (20 bp):
CAAAATTAATTGAGAAAATA
Found at i:39354 original size:59 final size:57
Alignment explanation
Indices: 39289--39437 Score: 176
Period size: 59 Copynumber: 2.5 Consensus size: 57
39279 AGTTTGGGGT
39289 TAAAATGTAATTTTGGAAAGTTTTAGGGGTAAAA-ATGTCATTTTAGGAAAGTTCAAGGG
1 TAAAATGTAATTTTGGAAAG-TTTAGGGGTAAAACATG--ATTTTAGGAAAGTTCAAGGG
* * * * *
39348 TAAAATGTAATTTTGGAAAATTCAAGGGTAGAAACATGATTTTTGGAAAGTTCAGGGG
1 TAAAATGTAATTTTGGAAAGTTTAGGGGTA-AAACATGATTTTAGGAAAGTTCAAGGG
*
39406 TAAAAATGTAATTTT-TAGAAGTTTAGGGGTAA
1 T-AAAATGTAATTTTGGA-AAGTTTAGGGGTAA
39438 TAATTTTGAG
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
58 29 0.38
59 45 0.58
60 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (57 bp):
TAAAATGTAATTTTGGAAAGTTTAGGGGTAAAACATGATTTTAGGAAAGTTCAAGGG
Found at i:39427 original size:29 final size:29
Alignment explanation
Indices: 39284--39437 Score: 161
Period size: 30 Copynumber: 5.2 Consensus size: 29
39274 CGGAGAGTTT
* *
39284 GGGGTTAAAATGTAATTTTGGAAAGTTTTA
1 GGGGTAAAAATGTAATTTTGGAAAG-TTCA
*
39314 GGGGTAAAAATGTCATTTTAGGAAAGTTCA
1 GGGGTAAAAATGTAATTTT-GGAAAGTTCA
* *
39344 AGGGT-AAAATGTAATTTTGGAAAATTCA
1 GGGGTAAAAATGTAATTTTGGAAAGTTCA
* *
39372 AGGGTAGAAACATG-ATTTTTGGAAAGTTCA
1 GGGGTA-AAA-ATGTAATTTTGGAAAGTTCA
* *
39402 GGGGTAAAAATGTAATTTT-TAGAAGTTTA
1 GGGGTAAAAATGTAATTTTGGA-AAGTTCA
39431 GGGGTAA
1 GGGGTAA
39438 TAATTTTGAG
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
28 18 0.17
29 33 0.31
30 46 0.43
31 9 0.08
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTGGAAAGTTCA
Found at i:39493 original size:29 final size:30
Alignment explanation
Indices: 39442--39524 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
39432 GGGTAATAAT
39442 TTTGAGGGTAAAAATGTAA-TTTTAAGAAG-
1 TTTGAGGGT-AAAATGTAATTTTTAAGAAGA
*
39471 TTTGAGGGTAAAATGTAATTTTTGAGAAGA
1 TTTGAGGGTAAAATGTAATTTTTAAGAAGA
* * *
39501 TTAGAGGTTAAAATATAATTTTTA
1 TTTGAGGGTAAAATGTAATTTTTA
39525 GAAAATTCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
28 9 0.19
29 18 0.38
30 20 0.43
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.39
Consensus pattern (30 bp):
TTTGAGGGTAAAATGTAATTTTTAAGAAGA
Found at i:39966 original size:36 final size:36
Alignment explanation
Indices: 39925--40012 Score: 158
Period size: 36 Copynumber: 2.4 Consensus size: 36
39915 GTCGGAGGCC
39925 CAAAACGACGTCGTTTTGGGGCTAAAACCCAGCCCT
1 CAAAACGACGTCGTTTTGGGGCTAAAACCCAGCCCT
*
39961 CAAAACGACGTCGTTTTGGGGCTAAAACCCAGCGCT
1 CAAAACGACGTCGTTTTGGGGCTAAAACCCAGCCCT
*
39997 CAAAACGACGACGTTT
1 CAAAACGACGTCGTTT
40013 CTAGGGCCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.19
Consensus pattern (36 bp):
CAAAACGACGTCGTTTTGGGGCTAAAACCCAGCCCT
Found at i:44824 original size:23 final size:23
Alignment explanation
Indices: 44730--44821 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
44720 GCTTTTTGTT
*
44730 ATTAGCACTGTGTGTGCTCTCTA
1 ATTAGCACTGTGTGTGCTCTCTG
* *
44753 ATTAGCACTTTGTGTGCTCTTTG
1 ATTAGCACTGTGTGTGCTCTCTG
** * * *
44776 ATTAGTTCTTTATGTACTCTCTG
1 ATTAGCACTGTGTGTGCTCTCTG
* *
44799 TTTAGTACTGTGTGTGCTCTCTG
1 ATTAGCACTGTGTGTGCTCTCTG
44822 TTTCCTAGCA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.47
Consensus pattern (23 bp):
ATTAGCACTGTGTGTGCTCTCTG
Found at i:47315 original size:30 final size:30
Alignment explanation
Indices: 47281--47627 Score: 272
Period size: 30 Copynumber: 11.6 Consensus size: 30
47271 CAGAGAATAC
* * *
47281 GGGGTTAAAACATAATTTTAGAAAATTTTA
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
* *
47311 GGGGTAAAAATATAATTTTAGGAAAGTTTA
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
* * * * *
47341 AGGGTCAAAATGTGATTTTGGAGAAA-TCTA
1 GGGGTCAAAATATAATTTTAGA-AAAGTTTA
* * * *
47371 -AGGTCAAAATGTGATTTTAGAAAAGCTTA
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
* * * *
47400 GGGGTCAAAACATTATTTTGGAGAAGTTTA
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
* * * **
47430 GGGGTTAAAATGTAATTTTGGATGAGTTT-
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
* * * *
47459 GGAGGTTAAAATGTGATTTTAGAGAAGTTTA
1 GG-GGTCAAAATATAATTTTAGAAAAGTTTA
* *
47490 GGAGTC-AAATATAATTTTGGAAAAGTTTA
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
* *
47519 AGGGTCAAAATACAATTTTAGAAAAGTTTA
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
* *
47549 AGGGTCAAAATGTAATTTTAGAAAAGTTTA
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
* * * * * *
47579 GGGGTTAAAATGTGATTTTTGGAAAGTTTG
1 GGGGTCAAAATATAATTTTAGAAAAGTTTA
*
47609 GGGGTTAAAATCA-AATTTT
1 GGGGTCAAAAT-ATAATTTT
47628 GTTAAAGGGT
Statistics
Matches: 258, Mismatches: 52, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
28 3 0.01
29 46 0.18
30 204 0.79
31 5 0.02
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (30 bp):
GGGGTCAAAATATAATTTTAGAAAAGTTTA
Found at i:47401 original size:89 final size:87
Alignment explanation
Indices: 47295--47607 Score: 333
Period size: 89 Copynumber: 3.5 Consensus size: 87
47285 TTAAAACATA
* *
47295 ATTTTAGAAAATTTTAGGGGTAAAAATATAATTTTAGGAAAGTTTAAGGGTCAAAATGTGATTTT
1 ATTTTAGAAAAGTTTAGGGGT-AAAATATAATTTT-GGAAAGTTTAAGGGTCAAAATGTAATTTT
*
47360 GGAGAAATCTAAGGTCAAAATGTG
64 GGAGAAATTTAAGGTCAAAATGTG
* * * * *
47384 ATTTTAGAAAAGCTTAGGGGTCAAAACATTATTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTT
1 ATTTTAGAAAAGTTTAGGGGT-AAAATATAATTTTGGA-AAGTTTAAGGGTCAAAATGTAATTTT
* * *
47449 GGATG-AGTTTGGAGGTTAAAATGTG
64 GGA-GAAATTT-AAGGTCAAAATGTG
* * * ** *
47474 ATTTTAGAGAAGTTTAGGAGTCAAATATAATTTTGGAAAAGTTTAAGGGTCAAAATACAATTTTA
1 ATTTTAGAAAAGTTTAGGGGTAAAATATAATTTTGG-AAAGTTTAAGGGTCAAAATGTAATTTTG
*
47539 GA-AAAGTTTAAGGGTCAAAATGTA
65 GAGAAA-TTTAA-GGTCAAAATGTG
* *
47563 ATTTTAGAAAAGTTTAGGGGTTAAAATGTGATTTTTGGAAAGTTT
1 ATTTTAGAAAAGTTTAGGGG-TAAAATAT-AATTTTGGAAAGTTT
47608 GGGGGTTAAA
Statistics
Matches: 183, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
88 5 0.03
89 126 0.69
90 45 0.25
91 7 0.04
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (87 bp):
ATTTTAGAAAAGTTTAGGGGTAAAATATAATTTTGGAAAGTTTAAGGGTCAAAATGTAATTTTGG
AGAAATTTAAGGTCAAAATGTG
Found at i:47430 original size:119 final size:119
Alignment explanation
Indices: 47281--47597 Score: 370
Period size: 119 Copynumber: 2.7 Consensus size: 119
47271 CAGAGAATAC
* * * *
47281 GGGGTTAAAACATAATTTTAGAAAATTTTAGGGGTAAAAATATAATTTTAGGAAAGTTTAAGGGT
1 GGGGTCAAAACATAATTTTAGAAAAGTTTAGGGGTAAAAATGTAATTTTAGGAAAGTTTAGGGGT
* * * *
47346 CAAAATGTGATTTTGGAGAAATCTAAG-GTCAAAATGTGATTTTAGAAAAGCTTA
66 TAAAATGTGATTTTAGAGAAATCTAAGAGTC-AAATATAATTTTAGAAAAGCTTA
* * * * *
47400 GGGGTCAAAACATTATTTTGGAGAAGTTTAGGGGTTAAAATGTAATTTT-GGATGAGTTT-GGAG
1 GGGGTCAAAACATAATTTTAGAAAAGTTTAGGGGTAAAAATGTAATTTTAGGA-AAGTTTAGG-G
* * * * *
47463 GTTAAAATGTGATTTTAGAGAAGTTTAGGAGTCAAATATAATTTTGGAAAAGTTTA
64 GTTAAAATGTGATTTTAGAGAAATCTAAGAGTCAAATATAATTTTAGAAAAGCTTA
* * * * * *
47519 AGGGTCAAAATACAATTTTAGAAAAGTTTAAGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGGT
1 GGGGTCAAAACATAATTTTAGAAAAGTTTAGGGGTAAAAATGTAATTTTAGGAAAGTTTAGGGGT
47584 TAAAATGTGATTTT
66 TAAAATGTGATTTT
47598 TGGAAAGTTT
Statistics
Matches: 165, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
118 4 0.02
119 154 0.93
120 7 0.04
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34
Consensus pattern (119 bp):
GGGGTCAAAACATAATTTTAGAAAAGTTTAGGGGTAAAAATGTAATTTTAGGAAAGTTTAGGGGT
TAAAATGTGATTTTAGAGAAATCTAAGAGTCAAATATAATTTTAGAAAAGCTTA
Found at i:48618 original size:15 final size:16
Alignment explanation
Indices: 48600--48638 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
48590 TTAACTCTTT
48600 TTTATTTAAT-ATTTA
1 TTTATTTAATAATTTA
48615 TTTATTTAATACATTTA
1 TTTATTTAATA-ATTTA
48632 TTTATTT
1 TTTATTT
48639 GTTAAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.45
17 12 0.55
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTAATAATTTA
Found at i:48649 original size:21 final size:21
Alignment explanation
Indices: 48609--48651 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48599 TTTTATTTAA
* *
48609 TATTTATTTATTTAATACATT
1 TATTTATTTATTAAAAACATT
*
48630 TATTTATTTGTTAAAAACATT
1 TATTTATTTATTAAAAACATT
48651 T
1 T
48652 CAGATATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTTATTTATTAAAAACATT
Found at i:49754 original size:15 final size:14
Alignment explanation
Indices: 49734--49786 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
49724 TTACAATGCG
49734 AAAACGTAAGCGACT
1 AAAACGTAAG-GACT
49749 AAAACGTAA-GACTT
1 AAAACGTAAGGAC-T
*
49763 CAAACGTAAGTGACT
1 AAAACGTAAG-GACT
*
49778 AAAATGTAA
1 AAAACGTAA
49787 CTTGAGGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 3 0.09
14 9 0.28
15 17 0.53
16 3 0.09
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (14 bp):
AAAACGTAAGGACT
Found at i:49987 original size:25 final size:25
Alignment explanation
Indices: 49959--50010 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
49949 TTTTTTCTTT
49959 TAGCTACT-ATTTTATG-TTGTATATA
1 TAGCT-CTGATTTTATGATT-TATATA
*
49984 TAGCTTTGATTTTATGATTTATATA
1 TAGCTCTGATTTTATGATTTATATA
50009 TA
1 TA
50011 TATTCATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.04
25 21 0.88
26 2 0.08
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.54
Consensus pattern (25 bp):
TAGCTCTGATTTTATGATTTATATA
Found at i:56475 original size:29 final size:29
Alignment explanation
Indices: 56443--56716 Score: 158
Period size: 29 Copynumber: 9.5 Consensus size: 29
56433 TAAAAAATAC
*
56443 AATTTTTGGATGTTCGGAGGCAAAATGGT
1 AATTTTTGGAAGTTCGGAGGCAAAATGGT
* * *
56472 AATTTTTGGACA-TTCGGGGGTAAAACGGT
1 AATTTTTGGA-AGTTCGGAGGCAAAATGGT
* * * *
56501 AA-TTATGAACACTTCGGGGGCAAAATGGT
1 AATTTTTGGA-AGTTCGGAGGCAAAATGGT
* *
56530 AA-CTTTGGACACTTC-GAGGTCAAAATGGT
1 AATTTTTGGA-AGTTCGGAGG-CAAAATGGT
* *
56559 AATTTTTGGAAAGTTC-AAGGCCAAAAAT-GC
1 AATTTTTGG-AAGTTCGGAGG-C-AAAATGGT
*** *
56589 AA-TTTTGGAAGTTTAAAGGTAAAATGGT
1 AATTTTTGGAAGTTCGGAGGCAAAATGGT
* *
56617 AA-TTTTGGAAGTTTGAAGGCAAAAT-GT
1 AATTTTTGGAAGTTCGGAGGCAAAATGGT
* * *
56644 GATTTTTGGAAAGTTCGGGGGTAAAAAT-GT
1 AATTTTTGG-AAGTTCGGAGG-CAAAATGGT
* *
56674 GATTTTTGGAAAGTTCGG-GGTTAAAAT-GT
1 AATTTTTGG-AAGTTCGGAGG-CAAAATGGT
56703 AATTTTTGGAAGTT
1 AATTTTTGGAAGTT
56717 TAAGGGTCAA
Statistics
Matches: 205, Mismatches: 29, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
27 8 0.04
28 50 0.24
29 100 0.49
30 41 0.20
31 6 0.03
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (29 bp):
AATTTTTGGAAGTTCGGAGGCAAAATGGT
Found at i:56723 original size:29 final size:29
Alignment explanation
Indices: 56547--56877 Score: 262
Period size: 30 Copynumber: 11.2 Consensus size: 29
56537 GACACTTCGA
*
56547 GGTCAAAATGGTAATTTTTGGAAAGTTCAA-
1 GGTCAAAAT-GTAATTTTTGG-AAGTTTAAG
* * *
56577 GGCCAAAAATGCAA-TTTTGGAAGTTTAAA
1 GGTC-AAAATGTAATTTTTGGAAGTTTAAG
56606 GGT-AAAATGGTAA-TTTTGGAAGTTTGAA-
1 GGTCAAAAT-GTAATTTTTGGAAGTTT-AAG
* ***
56634 GG-CAAAATGTGATTTTTGGAAAGTTCGGG
1 GGTCAAAATGTAATTTTTGG-AAGTTTAAG
* * **
56663 GGTAAAAATGTGATTTTTGGAAAG-TTCGG
1 GGTCAAAATGTAATTTTTGG-AAGTTTAAG
*
56692 GGTTAAAATGTAATTTTTGGAAGTTTAAG
1 GGTCAAAATGTAATTTTTGGAAGTTTAAG
* * * *
56721 GGTCAAAATATGATTTTTGAAAAGTTTGAG
1 GGTCAAAATGTAATTTTTG-GAAGTTTAAG
* *
56751 GGTTAAAATGTAATTTTTAGAAAGTTTAAG
1 GGTCAAAATGTAATTTTT-GGAAGTTTAAG
* *
56781 GGCCAAAATGTGAATTTTTGGAAGTTTGAG
1 GGTCAAAATGT-AATTTTTGGAAGTTTAAG
* * * *
56811 GGTCAAAATGTGATTTTTGAAAAATTTAAA
1 GGTCAAAATGTAATTTTTG-GAAGTTTAAG
* *
56841 GGCCAAAATGTAATTTTTGGGAAGTTTGAG
1 GGTCAAAATGTAATTTTT-GGAAGTTTAAG
56871 GGTCAAA
1 GGTCAAA
56878 TTTTGATTAC
Statistics
Matches: 244, Mismatches: 42, Indels: 30
0.77 0.13 0.09
Matches are distributed among these distances:
27 8 0.03
28 38 0.16
29 64 0.26
30 120 0.49
31 14 0.06
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (29 bp):
GGTCAAAATGTAATTTTTGGAAGTTTAAG
Found at i:57964 original size:7 final size:7
Alignment explanation
Indices: 57952--57985 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
57942 GACTTTTTTT
57952 TTATTTA
1 TTATTTA
57959 TTATTTA
1 TTATTTA
*
57966 ATATTTA
1 TTATTTA
57973 TTATTTA
1 TTATTTA
57980 TCTATT
1 T-TATT
57986 AAATGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (7 bp):
TTATTTA
Found at i:58669 original size:12 final size:12
Alignment explanation
Indices: 58654--58692 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
58644 AATTTGAGAA
58654 TAAATTTAAACT
1 TAAATTTAAACT
**
58666 TAAATTTAAAAA
1 TAAATTTAAACT
*
58678 CAAATTTAAACT
1 TAAATTTAAACT
58690 TAA
1 TAA
58693 GATAAATTCA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAATTTAAACT
Found at i:58670 original size:24 final size:24
Alignment explanation
Indices: 58641--58692 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58631 TTTTATTAAT
* * *
58641 TTAAATTTGAGAATAAATTTAAAC
1 TTAAATTTAAAAACAAATTTAAAC
58665 TTAAATTTAAAAACAAATTTAAAC
1 TTAAATTTAAAAACAAATTTAAAC
58689 TTAA
1 TTAA
58693 GATAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
TTAAATTTAAAAACAAATTTAAAC
Found at i:59496 original size:18 final size:17
Alignment explanation
Indices: 59469--59502 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
59459 TATAATTCAT
*
59469 AAAAAAAATCTAAAATA
1 AAAAAAAATCAAAAATA
59486 AAAATAAAATCAAAAAT
1 AAAA-AAAATCAAAAAT
59503 TGTCGAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAAAAATCAAAAATA
Found at i:63436 original size:29 final size:31
Alignment explanation
Indices: 63381--63438 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
63371 AATAAAAATG
63381 TATAAAATTATTAAATAATAATATAATATAA
1 TATAAAATTATTAAATAATAATATAATATAA
63412 TATAAATATT-TTAAATAA-AA-ATAATAT
1 TATAAA-ATTATTAAATAATAATATAATAT
63439 GAATCGACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 7 0.27
30 2 0.08
31 14 0.54
32 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
TATAAAATTATTAAATAATAATATAATATAA
Found at i:63857 original size:19 final size:19
Alignment explanation
Indices: 63819--63855 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
63809 ATTGATGTAT
*
63819 TTTATTGTATTATTTTAAA
1 TTTATTGTATAATTTTAAA
63838 TTTATTG-ATAATTTTAAA
1 TTTATTGTATAATTTTAAA
63856 ATATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTATTGTATAATTTTAAA
Found at i:66123 original size:58 final size:57
Alignment explanation
Indices: 66043--66182 Score: 133
Period size: 56 Copynumber: 2.4 Consensus size: 57
66033 TTTTAATATT
* ** * *
66043 ATATATATAAAATATATTAAAATATTAATTGAT-T-TTTTAAAAAAAGTAAAATTTATTTG
1 ATATA-ATAATATATAAAAAAATATT-ATTGATGTATTTTAAAAAAA-T-AAATATATTTA
* *
66102 ATATAATAATATATAGAAAAAT-TTGTTGATGTATTTTAAAAAAATAAATATATTTA
1 ATATAATAATATATAAAAAAATATTATTGATGTATTTTAAAAAAATAAATATATTTA
* * *
66158 ATATAGTCATATGTAAAAAAATATT
1 ATATAATAATATATAAAAAAATATT
66183 TTTATCATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
56 32 0.47
57 6 0.09
58 25 0.37
59 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.41
Consensus pattern (57 bp):
ATATAATAATATATAAAAAAATATTATTGATGTATTTTAAAAAAATAAATATATTTA
Found at i:66305 original size:13 final size:13
Alignment explanation
Indices: 66287--66311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66277 TAACATGTTT
66287 ATTAATTAAAAAC
1 ATTAATTAAAAAC
66300 ATTAATTAAAAA
1 ATTAATTAAAAA
66312 TAAATAAAAA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:77660 original size:23 final size:21
Alignment explanation
Indices: 77621--77665 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
77611 ATGTTTAAAT
*
77621 TTTATTTTATTCATAATTTAA
1 TTTATTTTATTCATAATATAA
*
77642 TTTATTTTTTTCTATTAATATAA
1 TTTATTTTATTC-A-TAATATAA
77665 T
1 T
77666 ATATATTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
22 1 0.05
23 8 0.40
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTTTATTCATAATATAA
Found at i:78691 original size:6 final size:6
Alignment explanation
Indices: 78678--78710 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
78668 ACAAAAAAAC
78678 ATAA-T ATAATT ATAATT ATAATT ATAAATT ATA
1 ATAATT ATAATT ATAATT ATAATT AT-AATT ATA
78711 GTAATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 16 0.62
7 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
ATAATT
Found at i:86600 original size:23 final size:23
Alignment explanation
Indices: 86568--86669 Score: 150
Period size: 23 Copynumber: 4.4 Consensus size: 23
86558 GCTGAGGAAA
86568 CAGTAAGCACACATAGTGCAAAT
1 CAGTAAGCACACATAGTGCAAAT
* * *
86591 CAGTAGGCACACATAGTACAAAA
1 CAGTAAGCACACATAGTGCAAAT
*
86614 CAGTAAGCACACACAGTGCAAAT
1 CAGTAAGCACACATAGTGCAAAT
* *
86637 CAGTAAGCACATATAGTGCGAAT
1 CAGTAAGCACACATAGTGCAAAT
86660 CAGTAAGCAC
1 CAGTAAGCAC
86670 GTACAGTGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.16
Consensus pattern (23 bp):
CAGTAAGCACACATAGTGCAAAT
Found at i:86677 original size:23 final size:23
Alignment explanation
Indices: 86568--86689 Score: 111
Period size: 23 Copynumber: 5.3 Consensus size: 23
86558 GCTGAGGAAA
* * *
86568 CAGTAAGCACACATAGTGCAAAT
1 CAGTAAGCACATACAGTGCGAAT
* * * * * *
86591 CAGTAGGCACACATAGTACAAAA
1 CAGTAAGCACATACAGTGCGAAT
* *
86614 CAGTAAGCACACACAGTGCAAAT
1 CAGTAAGCACATACAGTGCGAAT
*
86637 CAGTAAGCACATATAGTGCGAAT
1 CAGTAAGCACATACAGTGCGAAT
*
86660 CAGTAAGCACGTACAGTGCTGAA-
1 CAGTAAGCACATACAGTGC-GAAT
86683 CAGTAAG
1 CAGTAAG
86690 TGCGCTAATG
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
23 83 0.97
24 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.16
Consensus pattern (23 bp):
CAGTAAGCACATACAGTGCGAAT
Found at i:86689 original size:46 final size:46
Alignment explanation
Indices: 86565--86678 Score: 156
Period size: 46 Copynumber: 2.5 Consensus size: 46
86555 AGTGCTGAGG
* *
86565 AAACAGTAAGCACACATAGTGCAAATCAGTAGGCACACATAGTACA
1 AAACAGTAAGCACACACAGTGCAAATCAGTAAGCACACATAGTACA
* * *
86611 AAACAGTAAGCACACACAGTGCAAATCAGTAAGCACATATAGTGCG
1 AAACAGTAAGCACACACAGTGCAAATCAGTAAGCACACATAGTACA
* **
86657 AATCAGTAAGCACGTACAGTGC
1 AAACAGTAAGCACACACAGTGC
86679 TGAACAGTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (46 bp):
AAACAGTAAGCACACACAGTGCAAATCAGTAAGCACACATAGTACA
Found at i:93646 original size:23 final size:23
Alignment explanation
Indices: 93629--93677 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
93619 AATTATTTTG
*
93629 TTAAATTTAAATTCATTATAATA
1 TTAAATTCAAATTCATTATAATA
*
93652 TTAAATTCAAATTTATTATAATA
1 TTAAATTCAAATTCATTATAATA
93675 TTA
1 TTA
93678 TTTTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAAATTCAAATTCATTATAATA
Found at i:93711 original size:53 final size:52
Alignment explanation
Indices: 93612--93711 Score: 114
Period size: 54 Copynumber: 1.9 Consensus size: 52
93602 TTAAGTTCAA
* **
93612 TTATTAAAATTATTTTGTTAAATTTAAATTCATTATAATATTAAATTCAAAT
1 TTATTAAAATTATTTTGTTAAATTTAAAATCATTATAATAACAAATTCAAAT
* *
93664 TTATTATAATATTATTTTTTTAATTTTAAAAT-ATTAT-ATGAACAAATT
1 TTATTA-AA-ATTATTTTGTTAAATTTAAAATCATTATAAT-AACAAATT
93712 AAAAAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
52 8 0.20
53 13 0.32
54 19 0.47
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (52 bp):
TTATTAAAATTATTTTGTTAAATTTAAAATCATTATAATAACAAATTCAAAT
Done.