Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011947.1 Kokia drynarioides strain JFW-HI SEQ_126945, 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: 85302
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:4010 original size:18 final size:17
Alignment explanation
Indices: 3977--4015 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
3967 GAAGTTTTAA
* *
3977 TTTAAATTTTATTATAG
1 TTTAAATTTAATTATAC
3994 TTTAAATTTGAATTATAC
1 TTTAAATTT-AATTATAC
4012 TTTA
1 TTTA
4016 TAATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAAATTTAATTATAC
Found at i:5353 original size:16 final size:16
Alignment explanation
Indices: 5311--5353 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
5301 TATAAATAAA
*
5311 ATATAAAATA-TAATT
1 ATATAAAATATTAATC
5326 AT-TAAAATATTAATC
1 ATATAAAATATTAATC
*
5341 ATATAAAAAATTA
1 ATATAAAATATTA
5354 TGAAAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 8 0.33
16 9 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAAAATATTAATC
Found at i:5648 original size:26 final size:26
Alignment explanation
Indices: 5602--5659 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
5592 TAAGTATGTC
*
5602 GATTTTTTTAATTGGTTAAATAAATT
1 GATTTTTTTAATTGGTGAAATAAATT
*
5628 -ATTTTTTTAATTTAGG-GAAATAAGTT
1 GATTTTTTTAA-TT-GGTGAAATAAATT
5654 GATTTT
1 GATTTT
5660 GAAGAGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 10 0.37
26 10 0.37
27 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (26 bp):
GATTTTTTTAATTGGTGAAATAAATT
Found at i:8340 original size:3 final size:3
Alignment explanation
Indices: 8332--8366 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8322 GATTAAATCA
8332 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8367 GGAAGAGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9422 original size:77 final size:77
Alignment explanation
Indices: 9290--9448 Score: 189
Period size: 77 Copynumber: 2.1 Consensus size: 77
9280 GACTTGGACA
* * * *
9290 CAAAGTTACCAAAACTTGAAATGATTTGGACTCGTAATACTCGAACCAAAAAGTAC-GACCCAAA
1 CAAAGTTACCAAAACTTGAAATGATTCGAACTCATAATACTCGAA-CAAAAAGTACAAACCCAAA
*
9354 ATGACCCTAAC-T
65 ATAACCCTAACTT
* *
9366 CAAAGTTATCCTAAACTTGAAATGATTCGAACTCATAATACTCCGATA-AAAGAGTACAAACCCA
1 CAAAGTTA-CCAAAACTTGAAATGATTCGAACTCATAATACT-CGA-ACAAAAAGTACAAACCCA
*
9430 AGATAACCCTAACTT
63 AAATAACCCTAACTT
9445 CAAA
1 CAAA
9449 TAAATTAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
76 8 0.11
77 37 0.53
78 19 0.27
79 6 0.09
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.22
Consensus pattern (77 bp):
CAAAGTTACCAAAACTTGAAATGATTCGAACTCATAATACTCGAACAAAAAGTACAAACCCAAAA
TAACCCTAACTT
Found at i:10437 original size:6 final size:7
Alignment explanation
Indices: 10421--10445 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10411 ATTCGAGTTG
10421 TTTTTAT
1 TTTTTAT
10428 TTTTTAT
1 TTTTTAT
10435 TTTTTAT
1 TTTTTAT
10442 TTTT
1 TTTT
10446 CAAGGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:17898 original size:30 final size:31
Alignment explanation
Indices: 17864--17928 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
17854 TCAACTAAAA
*
17864 AAAATTTATAATTT-AATCA-TTAAACTATTT
1 AAAATTTATAATTTAAATCACTT-AACTATTC
* *
17894 AAAATTTTTTATTTAAATCACTTAACTATTC
1 AAAATTTATAATTTAAATCACTTAACTATTC
17925 AAAA
1 AAAA
17929 CCTTCCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 12 0.40
31 16 0.53
32 2 0.07
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAATTTATAATTTAAATCACTTAACTATTC
Found at i:22200 original size:54 final size:54
Alignment explanation
Indices: 22118--22226 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
22108 CATGGAGAAA
**
22118 ATTCAATAACCCACCAAAGCAGAGTCAAAAGTTACATTAGATTAAAAGGCAACT
1 ATTCAATAACCCACCAAAGCAGAGTCAAAAGTTACATTAGAAAAAAAGGCAACT
*
22172 ATTCAATAATCCACCAAAGCAGAGTCAAAAGTTACATTAGAAAAAAAGGCAACT
1 ATTCAATAACCCACCAAAGCAGAGTCAAAAGTTACATTAGAAAAAAAGGCAACT
22226 A
1 A
22227 CAATGCAACT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.49, C:0.19, G:0.13, T:0.19
Consensus pattern (54 bp):
ATTCAATAACCCACCAAAGCAGAGTCAAAAGTTACATTAGAAAAAAAGGCAACT
Found at i:27392 original size:23 final size:23
Alignment explanation
Indices: 27376--27456 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
27366 AGCACGTTTC
27376 GTGCCCTCTGCTCAGCACTGTGT
1 GTGCCCTCTGCTCAGCACTGTGT
* * *
27399 GTGCCCTCTGTTATTAGCACTTTGT
1 GTGCCCTCTG--CTCAGCACTGTGT
* * * *
27424 GTGCCCTCTGATTAGCATTTTGT
1 GTGCCCTCTGCTCAGCACTGTGT
27447 GTGCCCTCTG
1 GTGCCCTCTG
27457 TTAAGTACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 32 0.62
25 20 0.38
ACGTcount: A:0.10, C:0.28, G:0.23, T:0.38
Consensus pattern (23 bp):
GTGCCCTCTGCTCAGCACTGTGT
Found at i:27424 original size:25 final size:25
Alignment explanation
Indices: 27389--27459 Score: 110
Period size: 23 Copynumber: 2.9 Consensus size: 25
27379 CCCTCTGCTC
*
27389 AGCACTGTGTGTGCCCTCTGTTATT
1 AGCACTTTGTGTGCCCTCTGTTATT
27414 AGCACTTTGTGTGCCCTCTG--ATT
1 AGCACTTTGTGTGCCCTCTGTTATT
*
27437 AGCATTTTGTGTGCCCTCTGTTA
1 AGCACTTTGTGTGCCCTCTGTTA
27460 AGTACTTCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 22 0.52
25 20 0.48
ACGTcount: A:0.13, C:0.24, G:0.23, T:0.41
Consensus pattern (25 bp):
AGCACTTTGTGTGCCCTCTGTTATT
Found at i:27764 original size:154 final size:154
Alignment explanation
Indices: 27484--27792 Score: 600
Period size: 154 Copynumber: 2.0 Consensus size: 154
27474 TTCTGCTTGT
*
27484 TCCGTTTATCCAATAGGTTCTATAAAAGTCTACTATGGGCCAAGTGGATAAATAAGCTAAGTGAG
1 TCCGTTTATCCAATAGGTTCTATAAAAGTCTACTATGGGCCAAGTGGATAAATAAACTAAGTGAG
27549 CTATGGTTAAGAAAGCTATGATGGCTAAATTGTAAAAAGTGAAAGAATATGCAAATTATGACATT
66 CTATGGTTAAGAAAGCTATGATGGCTAAATTGTAAAAAGTGAAAGAATATGCAAATTATGACATT
27614 GAGGTAAGTGAAATGATGAATACA
131 GAGGTAAGTGAAATGATGAATACA
27638 TCCGTTTATCCAATAGGTTCTATAAAAGTCTACTATGGGCCAAGTGGATAAATAAACTAAGTGAG
1 TCCGTTTATCCAATAGGTTCTATAAAAGTCTACTATGGGCCAAGTGGATAAATAAACTAAGTGAG
*
27703 CTATGGTTAAGAAAGCTATGATGGCTAAATTGTGAAAAGTGAAAGAATATGCAAATTATGACATT
66 CTATGGTTAAGAAAGCTATGATGGCTAAATTGTAAAAAGTGAAAGAATATGCAAATTATGACATT
27768 GAGGTAAGTGAAATGATGAATACA
131 GAGGTAAGTGAAATGATGAATACA
27792 T
1 T
27793 GAAAGATAAG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
154 153 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.28
Consensus pattern (154 bp):
TCCGTTTATCCAATAGGTTCTATAAAAGTCTACTATGGGCCAAGTGGATAAATAAACTAAGTGAG
CTATGGTTAAGAAAGCTATGATGGCTAAATTGTAAAAAGTGAAAGAATATGCAAATTATGACATT
GAGGTAAGTGAAATGATGAATACA
Found at i:28647 original size:44 final size:45
Alignment explanation
Indices: 28581--28671 Score: 148
Period size: 44 Copynumber: 2.0 Consensus size: 45
28571 ATCTGTCTCG
*
28581 TTATTTTATAACATGTTGTCAGCACGATTCTCATTTAATT-TTTT
1 TTATTTTATAACACGTTGTCAGCACGATTCTCATTTAATTATTTT
* *
28625 TTATTTTATATCACGTTTTCAGCACGATTCTCATTTAATTATTTT
1 TTATTTTATAACACGTTGTCAGCACGATTCTCATTTAATTATTTT
28670 TT
1 TT
28672 TCTTTCAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
44 37 0.86
45 6 0.14
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.54
Consensus pattern (45 bp):
TTATTTTATAACACGTTGTCAGCACGATTCTCATTTAATTATTTT
Found at i:30689 original size:23 final size:22
Alignment explanation
Indices: 30659--30784 Score: 121
Period size: 23 Copynumber: 5.5 Consensus size: 22
30649 CGTTAGCGCA
30659 CTTACTGTTTCGCACT-TCGTGTG
1 CTTACTGTTT-GCACTAT-GTGTG
30682 CTTACTGTTTAGCACCT-TGTGTG
1 CTTACTGTTT-GCA-CTATGTGTG
* * *
30705 CCTACTGATTTGCGCTATGTGCG
1 CTTACTG-TTTGCACTATGTGTG
* *
30728 CCTACTGATTGCACTATGTGTG
1 CTTACTGTTTGCACTATGTGTG
* *
30750 CTTACTGGATTGCACTGTGTGTG
1 CTTACT-GTTTGCACTATGTGTG
30773 CTTACTGTTTGC
1 CTTACTGTTTGC
30785 CCAGCACTTG
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
22 24 0.27
23 59 0.66
24 6 0.07
ACGTcount: A:0.13, C:0.23, G:0.24, T:0.40
Consensus pattern (22 bp):
CTTACTGTTTGCACTATGTGTG
Found at i:30779 original size:45 final size:45
Alignment explanation
Indices: 30661--30784 Score: 121
Period size: 45 Copynumber: 2.7 Consensus size: 45
30651 TTAGCGCACT
30661 TACTG-TTTCGCACT-TCGTGTGCTTACTGTTTAGCACCTTGTGTGCC
1 TACTGATTT-GCACTAT-GTGTGCTTACTGTTT-GCACCTTGTGTGCC
* * * * *
30707 TACTGATTTGCGCTATGTGCGCCTACTGATTGCA-CTATGTGTGCT
1 TACTGATTTGCACTATGTGTGCTTACTGTTTGCACCT-TGTGTGCC
*
30752 TACTGGA-TTGCACTGTGTGTGCTTACTGTTTGC
1 TACT-GATTTGCACTATGTGTGCTTACTGTTTGC
30785 CCAGCACTTG
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
44 2 0.03
45 35 0.55
46 23 0.36
47 4 0.06
ACGTcount: A:0.13, C:0.23, G:0.24, T:0.40
Consensus pattern (45 bp):
TACTGATTTGCACTATGTGTGCTTACTGTTTGCACCTTGTGTGCC
Found at i:32830 original size:15 final size:16
Alignment explanation
Indices: 32810--32840 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
32800 TTTTAATCTT
32810 TTAAAAAAT-TAAAAA
1 TTAAAAAATATAAAAA
32825 TTAAAAAATATAAAAA
1 TTAAAAAATATAAAAA
32841 AATATATAAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TTAAAAAATATAAAAA
Found at i:37206 original size:16 final size:16
Alignment explanation
Indices: 37182--37214 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
37172 TTTAAAATTT
37182 TATTAAAATA-AAAAA
1 TATTAAAATAGAAAAA
37197 TATTAGAAATAGAAAAA
1 TATTA-AAATAGAAAAA
37214 T
1 T
37215 CTAGTTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (16 bp):
TATTAAAATAGAAAAA
Found at i:54551 original size:18 final size:17
Alignment explanation
Indices: 54530--54564 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54520 TTATAAATAT
*
54530 AATTTATATATCAAATTA
1 AATTTATAAAT-AAATTA
54548 AATTTATAAATAAATTA
1 AATTTATAAATAAATTA
54565 TATTAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTTATAAATAAATTA
Found at i:54579 original size:30 final size:28
Alignment explanation
Indices: 54504--54601 Score: 85
Period size: 30 Copynumber: 3.4 Consensus size: 28
54494 TATCATTTAT
54504 TTATATTAATTA-TAAATTATAAATATAA
1 TTATATTAATTATTAAATTATAAATA-AA
54532 TTTATATATCAA--ATTAAATTTATAAATAAA
1 -TTATAT-T-AATTATTAAA-TTATAAATAAA
* **
54562 TTATATTAATTACTTAAAATATATTTAAAA
1 TTATATTAATTA-TTAAATTATAAAT-AAA
54592 TTATATTAAT
1 TTATATTAAT
54602 ATATCACAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
27 2 0.03
28 1 0.02
29 19 0.33
30 25 0.43
31 11 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTATATTAATTATTAAATTATAAATAAA
Found at i:54739 original size:23 final size:23
Alignment explanation
Indices: 54709--54752 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
54699 TATATTTTTA
54709 TTTTTATTTTTAAAAGTTTAATT
1 TTTTTATTTTTAAAAGTTTAATT
* *
54732 TTTTTATTTTTCAAATTTTAA
1 TTTTTATTTTTAAAAGTTTAA
54753 AATTCAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTTATTTTTAAAAGTTTAATT
Found at i:54835 original size:15 final size:14
Alignment explanation
Indices: 54815--54848 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
54805 TTACAATATC
54815 ATAAAAATTAAAAAA
1 ATAAAAA-TAAAAAA
54830 ATAAAAATAAAAAA
1 ATAAAAATAAAAAA
*
54844 TTAAA
1 ATAAA
54849 TTTCAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:62121 original size:18 final size:17
Alignment explanation
Indices: 62081--62127 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
62071 ATGGGAAGTT
62081 TTTGTCTGAAAGGAGAG
1 TTTGTCTGAAAGGAGAG
*
62098 TTTGTCTGAGATGGA-AG
1 TTTGTCTGA-AAGGAGAG
62115 CTTTGTCTGAAAG
1 -TTTGTCTGAAAG
62128 ACGTTCTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.34
Consensus pattern (17 bp):
TTTGTCTGAAAGGAGAG
Found at i:71492 original size:22 final size:22
Alignment explanation
Indices: 71451--71492 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
71441 CATATATGTC
**
71451 AAGTTTTTTTAATTAATTAAAT
1 AAGTTTTTTTAAAGAATTAAAT
*
71473 AAGTTTTTTTAAAGATTTAA
1 AAGTTTTTTTAAAGAATTAA
71493 GAAAATAGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AAGTTTTTTTAAAGAATTAAAT
Found at i:73476 original size:5 final size:5
Alignment explanation
Indices: 73466--73501 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
73456 TGGTCTAACA
73466 TAATT TAATT TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT T
73502 TGTGCTCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TAATT
Found at i:75265 original size:14 final size:14
Alignment explanation
Indices: 75246--75279 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
75236 TACAATATTC
75246 AAATAATAACAATA
1 AAATAATAACAATA
75260 AAATAATAACAATA
1 AAATAATAACAATA
*
75274 TAATAA
1 AAATAA
75280 CAAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:82641 original size:27 final size:27
Alignment explanation
Indices: 82596--82650 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
82586 ATCGAATTTG
* *
82596 ATTATTAATTTATTGAAAAT-TTGAATT
1 ATTATTAATTTAATAAAAATATT-AATT
*
82623 ATTATTATTTTAATAAAAATATTAATT
1 ATTATTAATTTAATAAAAATATTAATT
82650 A
1 A
82651 AAACGTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
ATTATTAATTTAATAAAAATATTAATT
Found at i:82724 original size:9 final size:9
Alignment explanation
Indices: 82712--82769 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
82702 ATTTAATGTA
82712 TTTTT-TAT
1 TTTTTATAT
82720 TTTTTAT-T
1 TTTTTATAT
82728 TTTTGTATA-
1 TTTT-TATAT
82737 TTTTTATAAT
1 TTTTTAT-AT
*
82747 TTTATATAT
1 TTTTTATAT
82756 TTTATGTATAT
1 TTT-T-TATAT
82767 TTT
1 TTT
82770 AGTAATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 13 0.32
9 14 0.34
10 6 0.15
11 8 0.20
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:82728 original size:23 final size:24
Alignment explanation
Indices: 82697--82743 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
82687 CTTCATGTTC
82697 TTTTAATTTAATGTAT-TTTTTAT
1 TTTTAATTTAATGTATATTTTTAT
* **
82720 TTTTTATTTTTTGTATATTTTTAT
1 TTTTAATTTAATGTATATTTTTAT
82744 AATTTTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTAATTTAATGTATATTTTTAT
Found at i:82744 original size:8 final size:8
Alignment explanation
Indices: 82713--82760 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
82703 TTTAATGTAT
82713 TTTTTAT-
1 TTTTTATA
*
82720 TTTTTATT
1 TTTTTATA
82728 TTTTGTATA
1 TTTT-TATA
82737 TTTTTATA
1 TTTTTATA
*
82745 ATTTTATA
1 TTTTTATA
82753 TATTTTAT
1 T-TTTTAT
82761 GTATATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.20
8 15 0.43
9 13 0.37
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (8 bp):
TTTTTATA
Done.