Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold227
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: 617646
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 5 of 5
Found at i:595520 original size:36 final size:38
Alignment explanation
Indices: 595441--595520 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 38
595431 TTTTTAAAAT
595441 TTAAGTAAATATCATTTTTATTTTATTAAAAAATAATAA
1 TTAA-TAAATATCATTTTTATTTTATTAAAAAATAATAA
595480 -TAATAAATA-C-TTTTTATTTT-TATAAAAACAT-ATAA
1 TTAATAAATATCATTTTTATTTTAT-TAAAAA-ATAATAA
595515 TTAATA
1 TTAATA
595521 TTTTAATTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
34 1 0.03
35 20 0.53
36 8 0.21
37 6 0.16
38 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (38 bp):
TTAATAAATATCATTTTTATTTTATTAAAAAATAATAA
Found at i:595575 original size:111 final size:113
Alignment explanation
Indices: 595410--595684 Score: 342
Period size: 111 Copynumber: 2.4 Consensus size: 113
595400 AATGTTATTT
* * **
595410 TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAAGTAAATATCATTTTT-ATTTTATTAAAAAA
1 TTTTAATTTGTTAATGT-AATTTTTTAAAACTTAATTAAATATTTTTTTTAATTTTATTAAAAAA
* * *
595474 TAATAATAATAAATACTTTTT-ATTT-TTATAAAAACATATAATTAATA
65 TAATAATAATAAACACTTTTTAATTTATTATAAAAACAAAAAATTAATA
*
595521 TTTTAATTTGTTAATGTGAATTTTTT-AAACTTAATTAAATATTTTTTTTAATTTTATTAGAAAA
1 TTTTAATTTGTTAATGT-AATTTTTTAAAACTTAATTAAATATTTTTTTTAATTTTATTAAAAAA
* * * * ** *
595585 TAATAATAATAAACCCTTTTTAATTTATTTTTATATTAAAAAATTAGTA
65 TAATAATAATAAACACTTTTTAATTTATTATAAAAACAAAAAATTAATA
* *
595634 TTTTAATTTATTAATGTAATTTTTTAAAAGTTAATTAAATATTATTTTTTA
1 TTTTAATTTGTTAATGTAATTTTTTAAAACTTAATTAAATATT-TTTTTTA
595685 TTAAAAATAA
Statistics
Matches: 141, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
110 19 0.13
111 57 0.40
112 12 0.09
113 46 0.33
114 7 0.05
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (113 bp):
TTTTAATTTGTTAATGTAATTTTTTAAAACTTAATTAAATATTTTTTTTAATTTTATTAAAAAAT
AATAATAATAAACACTTTTTAATTTATTATAAAAACAAAAAATTAATA
Found at i:596155 original size:15 final size:15
Alignment explanation
Indices: 596121--596191 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 15
596111 TTTAAATTTG
*
596121 GATTT-AAATTTGAA
1 GATTTAAAATTTTAA
596135 -ATTTAAAATTTTAA
1 GATTTAAAATTTTAA
*
596149 GATTTAAAA-TTTAT
1 GATTTAAAATTTTAA
* *
596163 GATTTTCAAATTCATAA
1 GA-TTTAAAATT-TTAA
596180 -ATTTAAAATTTT
1 GATTTAAAATTTT
596192 TTGTTTGGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 15 0.33
15 22 0.49
16 2 0.04
17 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (15 bp):
GATTTAAAATTTTAA
Found at i:596190 original size:7 final size:7
Alignment explanation
Indices: 596122--596190 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
596112 TTAAATTTGG
596122 ATTT-AA
1 ATTTAAA
*
596128 ATTTGAA
1 ATTTAAA
596135 ATTTAAA
1 ATTTAAA
*
596142 ATTTTAAG
1 A-TTTAAA
596150 ATTTAAA
1 ATTTAAA
*
596157 ATTTATGA
1 ATTTA-AA
* *
596165 TTTTCAA
1 ATTTAAA
*
596172 ATTCATAA
1 ATTTA-AA
596180 ATTTAAA
1 ATTTAAA
596187 ATTT
1 ATTT
596191 TTTGTTTGGA
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
6 4 0.08
7 28 0.58
8 16 0.33
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (7 bp):
ATTTAAA
Found at i:596544 original size:74 final size:75
Alignment explanation
Indices: 596465--596614 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
596455 CATAATAAAA
*
596465 ATTAGTATAAGTGATCTAATATATTA-TAATGAAAATTATCAAAATTAATATAAGTGATATAATT
1 ATTAGTATAAGTGATCTAATATATTAGTAATGAAAATTATCAAAATCAATATAAGTGATATAATT
596529 TATAAATAAT
66 TATAAATAAT
*
596539 ATTAGTATAAGTGATCTAATATATTAGTAATGAAAATTATCAGAATCAATATAAGTGATATAATT
1 ATTAGTATAAGTGATCTAATATATTAGTAATGAAAATTATCAAAATCAATATAAGTGATATAATT
596604 TATAAATAAT
66 TATAAATAAT
596614 A
1 A
596615 AAAATTTAAT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 26 0.36
75 47 0.64
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (75 bp):
ATTAGTATAAGTGATCTAATATATTAGTAATGAAAATTATCAAAATCAATATAAGTGATATAATT
TATAAATAAT
Found at i:596630 original size:30 final size:30
Alignment explanation
Indices: 596596--596652 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
596586 AATATAAGTG
596596 ATATAATTTA-T-AAATAATAAAAATTTAATA
1 ATATAATTTATTGAAAT--TAAAAATTTAATA
596626 ATATAATTTATTGAAATTAAAAATTTA
1 ATATAATTTATTGAAATTAAAAATTTA
596653 TTATATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 20 0.80
31 1 0.04
32 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (30 bp):
ATATAATTTATTGAAATTAAAAATTTAATA
Found at i:598409 original size:38 final size:38
Alignment explanation
Indices: 598367--598457 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
598357 AGTAATAAAT
*
598367 TAAATAGCATTGATTTGAAACATATAAATAGGTAGTAA
1 TAAATAGCATTGATGTGAAACATATAAATAGGTAGTAA
* *
598405 TAAATAGCATCGATGTGTAACATATAAATAGGTAGTAA
1 TAAATAGCATTGATGTGAAACATATAAATAGGTAGTAA
598443 TAAATAGCATTGATG
1 TAAATAGCATTGATG
598458 CGCAATGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.31
Consensus pattern (38 bp):
TAAATAGCATTGATGTGAAACATATAAATAGGTAGTAA
Found at i:598589 original size:41 final size:41
Alignment explanation
Indices: 598544--598625 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
598534 CTGCCTAAAC
* *
598544 TTATTCCACATGGAATACCTAGTGGCCCTATTTACTCCAAT
1 TTATTCCACATGGAATACCAAATGGCCCTATTTACTCCAAT
* * * *
598585 TTATTTCACTTGGAATATCAAATGTCCCTATTTACTCCAAT
1 TTATTCCACATGGAATACCAAATGGCCCTATTTACTCCAAT
598626 ATAAGCCGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (41 bp):
TTATTCCACATGGAATACCAAATGGCCCTATTTACTCCAAT
Found at i:601099 original size:20 final size:20
Alignment explanation
Indices: 601076--601114 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
601066 CATTAATTAC
* *
601076 TTTTTAAATTATATTTTAAA
1 TTTTTAAATAAAATTTTAAA
*
601096 TTTTTTAATAAAATTTTAA
1 TTTTTAAATAAAATTTTAA
601115 TAATTTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAATAAAATTTTAAA
Found at i:601206 original size:21 final size:23
Alignment explanation
Indices: 601177--601229 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
601167 TATTTAATAT
* *
601177 ATATAAATTTT-TATAAATTAAA
1 ATATTAATTTTATATAAATCAAA
*
601199 A-ATTAATTTTATATATATCAAA
1 ATATTAATTTTATATAAATCAAA
601221 ATATTAATT
1 ATATTAATT
601230 ATGCATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 8 0.31
22 11 0.42
23 7 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATTAATTTTATATAAATCAAA
Found at i:601587 original size:79 final size:79
Alignment explanation
Indices: 601497--601644 Score: 244
Period size: 79 Copynumber: 1.9 Consensus size: 79
601487 TTTTGGTGCT
* *
601497 TTCTTTCTTTAATCCTTTAATATTGTAGTTAATGTAGTACCAGCATACTTTCCCT-TTCTGCCTT
1 TTCTTTCTTTAATCCTTTAATATTGTAGTCAATGTAGTACCAGCATACTTCCCCTATT-TGCCTT
601561 TCACTACGGGCATAC
65 TCACTACGGGCATAC
* *
601576 TTCTTTTTTTAATCCTTTAATATTGTAGTCAGTGTAGTACCAGCATACTTCCCCTATTTGCCTTT
1 TTCTTTCTTTAATCCTTTAATATTGTAGTCAATGTAGTACCAGCATACTTCCCCTATTTGCCTTT
601641 CACT
66 CACT
601645 GCCATGGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
79 62 0.97
80 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (79 bp):
TTCTTTCTTTAATCCTTTAATATTGTAGTCAATGTAGTACCAGCATACTTCCCCTATTTGCCTTT
CACTACGGGCATAC
Found at i:602516 original size:2 final size:2
Alignment explanation
Indices: 602509--602542 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
602499 TAGTAGTTTC
602509 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
602543 ATTTATAATT
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):
TA
Found at i:606529 original size:2 final size:2
Alignment explanation
Indices: 606522--606548 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
606512 ATAGTCAATT
606522 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
606549 TGAGCAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:609500 original size:21 final size:21
Alignment explanation
Indices: 609476--609597 Score: 57
Period size: 21 Copynumber: 6.1 Consensus size: 21
609466 GGTTTTAGGT
609476 TTAGAGTTTAAAGTTTAGGGG
1 TTAGAGTTTAAAGTTTAGGGG
* *** *
609497 TTAGGGTTTTTGGGTTA-GGG
1 TTAGAGTTTAAAGTTTAGGGG
* *
609517 TTTGAGGTTTAAGGTTTAGGGG
1 TTAGA-GTTTAAAGTTTAGGGG
*
609539 TTAG-G-----A-TTTAGGGT
1 TTAGAGTTTAAAGTTTAGGGG
* *
609553 TTAGAGGTTAGGA-TTTAGGGG
1 TTAGAGTTTA-AAGTTTAGGGG
609574 TTAAGAG-TTAAAGTTTAGGGG
1 TT-AGAGTTTAAAGTTTAGGGG
609595 TTA
1 TTA
609598 TGGCTTTGAG
Statistics
Matches: 75, Mismatches: 15, Indels: 23
0.66 0.13 0.20
Matches are distributed among these distances:
14 11 0.15
15 1 0.01
20 9 0.12
21 44 0.59
22 10 0.13
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.39
Consensus pattern (21 bp):
TTAGAGTTTAAAGTTTAGGGG
Found at i:609664 original size:14 final size:15
Alignment explanation
Indices: 609623--609676 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 15
609613 AGCTTAAGGC
*
609623 TTGGGGTTTAGGG-C
1 TTGGGGTTTAGGGAT
*
609637 TTGGAGTTTAGGGAT
1 TTGGGGTTTAGGGAT
609652 TTGGGGTTT-GGGAT
1 TTGGGGTTTAGGGAT
*
609666 TTAGGGTTTAG
1 TTGGGGTTTAG
609677 TGTTCGGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 25 0.74
15 9 0.26
ACGTcount: A:0.13, C:0.02, G:0.44, T:0.41
Consensus pattern (15 bp):
TTGGGGTTTAGGGAT
Found at i:609676 original size:7 final size:7
Alignment explanation
Indices: 609388--609572 Score: 89
Period size: 7 Copynumber: 26.7 Consensus size: 7
609378 AAATGCAAAA
609388 TAGGGTT
1 TAGGGTT
*
609395 TGGGGTT
1 TAGGGTT
*
609402 T-GGGGT
1 TAGGGTT
*
609408 TAGGATT
1 TAGGGTT
*
609415 TAAGAGTT
1 T-AGGGTT
609423 T-GGGTTT
1 TAGGG-TT
609430 TA-GGTT
1 TAGGGTT
* *
609436 TCGAG-T
1 TAGGGTT
609442 TAGGGTT
1 TAGGGTT
*
609449 TAGGGTC
1 TAGGGTT
* * *
609456 CACGATT
1 TAGGGTT
609463 TAGGGTTT
1 TAGGG-TT
609471 TA-GGTT
1 TAGGGTT
*
609477 TAGAGTT
1 TAGGGTT
**
609484 TAAAGTT
1 TAGGGTT
*
609491 TAGGGGT
1 TAGGGTT
609498 TAGGGTTT
1 TAGGG-TT
*
609506 TTGGG-T
1 TAGGGTT
609512 TAGGGTT
1 TAGGGTT
609519 T-GAGGTT
1 TAG-GGTT
*
609526 TAAGGTT
1 TAGGGTT
*
609533 TAGGGGT
1 TAGGGTT
*
609540 TAGGATT
1 TAGGGTT
609547 TAGGGTT
1 TAGGGTT
609554 TAGAGG-T
1 TAG-GGTT
*
609561 TAGGATT
1 TAGGGTT
609568 TAGGG
1 TAGGG
609573 GTTAAGAGTT
Statistics
Matches: 129, Mismatches: 35, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
6 25 0.19
7 88 0.68
8 16 0.12
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.41
Consensus pattern (7 bp):
TAGGGTT
Found at i:609728 original size:21 final size:20
Alignment explanation
Indices: 609685--609736 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
609675 AGTGTTCGGG
* * *
609685 GTTCGAGGTTCGAGTTTAGA
1 GTTCAAGGTTTGAGTTTAAA
609705 GTTCAAGGTTTGAGATTTAAA
1 GTTCAAGGTTTGAG-TTTAAA
*
609726 GTTTAAGGTTT
1 GTTCAAGGTTT
609737 AACGGTTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.25, C:0.06, G:0.29, T:0.40
Consensus pattern (20 bp):
GTTCAAGGTTTGAGTTTAAA
Found at i:610627 original size:20 final size:22
Alignment explanation
Indices: 610593--610633 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
610583 AAACAATACA
610593 AGAAAGATAAGAAAAGTAAAAG
1 AGAAAGATAAGAAAAGTAAAAG
*
610615 AGAAAGA-AA-AAAATTAAAA
1 AGAAAGATAAGAAAAGTAAAA
610634 ATACCGGGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (22 bp):
AGAAAGATAAGAAAAGTAAAAG
Found at i:610785 original size:22 final size:21
Alignment explanation
Indices: 610733--610791 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
610723 TATGAAAGCT
* *
610733 TAAAAGT-CTCAATTTATGTTC
1 TAAAAGTCCT-AATTTAAGTCC
610754 TAAAAGGTCCTAATTTAAGTCC
1 TAAAA-GTCCTAATTTAAGTCC
610776 TAGAAAGTCCT-ATTTA
1 TA-AAAGTCCTAATTTA
610792 TAAGGTGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 10 0.30
22 18 0.55
23 5 0.15
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (21 bp):
TAAAAGTCCTAATTTAAGTCC
Found at i:611177 original size:31 final size:31
Alignment explanation
Indices: 611119--611178 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
611109 GGCTTATAAG
* *
611119 TTAAGGTTTTTGGTAAAAGGTTAGGTTTAGA
1 TTAAGGTTTATGGTAAAAGGTCAGGTTTAGA
*
611150 TTAAGGTTTATGGT-TAAGGTCAGGGTTTA
1 TTAAGGTTTATGGTAAAAGGTCA-GGTTTA
611179 CAGGTTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.27, C:0.02, G:0.30, T:0.42
Consensus pattern (31 bp):
TTAAGGTTTATGGTAAAAGGTCAGGTTTAGA
Found at i:611293 original size:21 final size:20
Alignment explanation
Indices: 611269--611336 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 20
611259 TAGAGGTTAT
611269 GATTTAGAGTTTAGGATTTAA
1 GATTTAGAGTTTAGG-TTTAA
*
611290 GATTTATG-GATTAGGGTTTAA
1 GATTTA-GAGTTTA-GGTTTAA
*
611311 GA-ATA-ATGTTTAGTGTTTAA
1 GATTTAGA-GTTTAG-GTTTAA
611331 GATTTA
1 GATTTA
611337 AGATTTAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 1 0.03
20 14 0.38
21 19 0.51
22 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (20 bp):
GATTTAGAGTTTAGGTTTAA
Found at i:612232 original size:14 final size:15
Alignment explanation
Indices: 612203--612245 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
612193 AGATGATCTA
*
612203 AGGTTTGGTGGTTTG
1 AGGTTTGATGGTTTG
612218 AGGTTTGAT-GTTTG
1 AGGTTTGATGGTTTG
*
612232 AGGGTTTAATGGTT
1 A-GGTTTGATGGTT
612246 AGGTTTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.25
15 15 0.62
16 3 0.12
ACGTcount: A:0.14, C:0.00, G:0.40, T:0.47
Consensus pattern (15 bp):
AGGTTTGATGGTTTG
Found at i:612318 original size:36 final size:35
Alignment explanation
Indices: 612254--612323 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 35
612244 TTAGGTTTTT
* *
612254 GGGTTTATGATTTGAGATTTAAGAATTAAAATTTA
1 GGGTTTATGAGTTAAGATTTAAGAATTAAAATTTA
* * *
612289 GGGTTTATGAGTTAAGGCTTTAAGGATTAAGATTT
1 GGGTTTATGAGTTAA-GATTTAAGAATTAAAATTT
612324 GGAATTAGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 13 0.45
36 16 0.55
ACGTcount: A:0.33, C:0.01, G:0.24, T:0.41
Consensus pattern (35 bp):
GGGTTTATGAGTTAAGATTTAAGAATTAAAATTTA
Found at i:614204 original size:53 final size:53
Alignment explanation
Indices: 614101--614206 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
614091 TGAACCCAAT
*
614101 TTAACTCGAATGTTAAACCCAATTGACCCGAATCCAGAATGACCCGAACCCGA
1 TTAACTCGAATGTTAAACCCAATTGACCCGAATCCAGAATGACCCAAACCCGA
* * * *
614154 TTAACTCGAGTGTTAAACCCGATTGACCCGAAT-CTGAAATGATCCAAACCCGA
1 TTAACTCGAATGTTAAACCCAATTGACCCGAATCCAG-AATGACCCAAACCCGA
614207 AATGACCTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 2 0.04
53 45 0.96
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (53 bp):
TTAACTCGAATGTTAAACCCAATTGACCCGAATCCAGAATGACCCAAACCCGA
Found at i:614470 original size:15 final size:15
Alignment explanation
Indices: 614450--614485 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
614440 TTATGTTAAT
614450 TATAAAAATTAAATA
1 TATAAAAATTAAATA
**
614465 TATAAAAATTATTTA
1 TATAAAAATTAAATA
614480 TATAAA
1 TATAAA
614486 TAATGTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAAATTAAATA
Done.