Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2630
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: 11089
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Found at i:695 original size:25 final size:28
Alignment explanation
Indices: 662--714 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
652 AATAAATAGT
662 AATATATA-TT-ATT-ATTTTTAATAAAA
1 AATATATATTTAATTAATTTTTAA-AAAA
688 AATA-ATATTTAATTAATTTTTAAAAAA
1 AATATATATTTAATTAATTTTTAAAAAA
715 TTTATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 3 0.12
26 6 0.25
27 7 0.29
28 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATATATATTTAATTAATTTTTAAAAAA
Found at i:708 original size:29 final size:29
Alignment explanation
Indices: 649--708 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
639 ATTTAAAAAA
* * *
649 TTTAATAAATAGTAATATATATTATTATT
1 TTTAATAAAAAATAATATATATTAATATT
*
678 TTTAATAAAAAATAATATTTAATTAAT-TT
1 TTTAATAAAAAATAATATAT-ATTAATATT
707 TT
1 TT
709 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTAATAAAAAATAATATATATTAATATT
Found at i:724 original size:25 final size:26
Alignment explanation
Indices: 666--725 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
656 AATAGTAATA
666 TATATT-ATTATTTTTAATAAAAAAT
1 TATATTAATTATTTTTAATAAAAAAT
* *
691 AATATTTAATTAATTTTT-A-AAAAATT
1 TATA-TTAATT-ATTTTTAATAAAAAAT
717 TATATTAAT
1 TATATTAAT
726 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 8 0.28
26 11 0.38
27 4 0.14
28 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATTAATTATTTTTAATAAAAAAT
Found at i:823 original size:22 final size:23
Alignment explanation
Indices: 798--840 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
788 TTATTATTAT
798 TATTTAA-TAAAATTAAAAATAA
1 TATTTAATTAAAATTAAAAATAA
*
820 TATTTAATTAAATTTAAAAAT
1 TATTTAATTAAAATTAAAAAT
841 TACATTAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TATTTAATTAAAATTAAAAATAA
Found at i:848 original size:22 final size:22
Alignment explanation
Indices: 799--858 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 22
789 TATTATTATT
*
799 ATTTAATAAAATTAAAAATAAT
1 ATTTAATAAAATTAAAAATAAC
* *
821 ATTTAATTAAATTTAAAAATTAC
1 ATTTAA-TAAAATTAAAAATAAC
*
844 A-TTAA-CAAATTAAAA
1 ATTTAATAAAATTAAAA
859 TATTAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 8 0.25
22 10 0.31
23 14 0.44
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (22 bp):
ATTTAATAAAATTAAAAATAAC
Found at i:891 original size:29 final size:31
Alignment explanation
Indices: 855--918 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
845 TTAACAAATT
*
855 AAAATATTAATTTTAT-GTTTTT-ATAAAAA
1 AAAATATTAATTTTATAATTTTTAATAAAAA
** *
884 AAAATATTTTTTTTATAATTTTTAATAAAAT
1 AAAATATTAATTTTATAATTTTTAATAAAAA
915 AAAA
1 AAAA
919 CTGATATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.48
30 5 0.17
31 10 0.34
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
AAAATATTAATTTTATAATTTTTAATAAAAA
Found at i:951 original size:24 final size:23
Alignment explanation
Indices: 915--965 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
905 TTAATAAAAT
* * *
915 AAAACTGATATTAATTAAATTTAA
1 AAAACTGACATTAA-CAAATTAAA
*
939 AAAACTTACATTAACAAATTAAA
1 AAAACTGACATTAACAAATTAAA
962 AAAA
1 AAAA
966 TTTAAAGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAACTGACATTAACAAATTAAA
Found at i:1247 original size:20 final size:21
Alignment explanation
Indices: 1216--1254 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1206 AAAATAATAA
1216 TAAATCTTTTTTATATTTATT
1 TAAATCTTTTTTATATTTATT
*
1237 TAAAT-TTTTTTATTTTTA
1 TAAATCTTTTTTATATTTA
1255 AAAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (21 bp):
TAAATCTTTTTTATATTTATT
Found at i:1266 original size:22 final size:22
Alignment explanation
Indices: 1239--1289 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
1229 TATTTATTTA
1239 AATTTTTTT-ATTT-TTAAAAAT
1 AATTTTTTTAATTTGTT-AAAAT
*
1260 AATTTTTTTAATTTGTTAATAT
1 AATTTTTTTAATTTGTTAAAAT
1282 AATTTTTT
1 AATTTTTT
1290 AAAAGTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 9 0.33
22 16 0.59
23 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
AATTTTTTTAATTTGTTAAAAT
Found at i:2019 original size:90 final size:89
Alignment explanation
Indices: 1859--2034 Score: 280
Period size: 90 Copynumber: 2.0 Consensus size: 89
1849 AATCGGATTC
* * *
1859 TTTTTTATGGAAAAAAGAAAAGTTGATTGATTATAAATGTCAGACTGTAAAGATTAGACTTATGC
1 TTTTTTATGAAAAAAAGAAAAGTTAATTGATTATAAATGTCAGACTGTAAAGATTAGACTAATGC
*
1924 TATGAATTATATCTGAGAATCAAT
66 AATGAATTATATCTGAGAATCAAT
* *
1948 TTTTTTATAGAAAAAAAGAAAAGTTAATTGATTGTAAATGTCAGACTGTAAGGATTAGACTAATG
1 TTTTTTAT-GAAAAAAAGAAAAGTTAATTGATTATAAATGTCAGACTGTAAAGATTAGACTAATG
*
2013 CAATGAATTATATTTGAGAATC
65 CAATGAATTATATCTGAGAATC
2035 GATTGTAAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 8 0.10
90 71 0.90
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.35
Consensus pattern (89 bp):
TTTTTTATGAAAAAAAGAAAAGTTAATTGATTATAAATGTCAGACTGTAAAGATTAGACTAATGC
AATGAATTATATCTGAGAATCAAT
Found at i:2077 original size:58 final size:59
Alignment explanation
Indices: 1977--2097 Score: 192
Period size: 58 Copynumber: 2.1 Consensus size: 59
1967 AAAGTTAATT
* * *
1977 GATTGTAAATGTCAGACTGTAAGGATTAGACTAATGCAATGAATTATATTTGAGAATC-
1 GATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCAATGAATTATATCTGAGAATCA
2035 GATTGTAAATGTCAGACTTGCAAAGATTAGACTAATGC-ATGAATTATATCTGAGAATCA
1 GATTGTAAATGTCAGAC-TGCAAAGATTAGACTAATGCAATGAATTATATCTGAGAATCA
2094 GATT
1 GATT
2098 TTTTTTATAG
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
58 36 0.62
59 22 0.38
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (59 bp):
GATTGTAAATGTCAGACTGCAAAGATTAGACTAATGCAATGAATTATATCTGAGAATCA
Found at i:2186 original size:88 final size:88
Alignment explanation
Indices: 2035--2557 Score: 583
Period size: 88 Copynumber: 5.9 Consensus size: 88
2025 TTTGAGAATC
* * *
2035 GATTGTAAATGTCAGACTTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTT
1 GATTGTAAATGTCAAAC-TACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTT
* *
2100 TTTTATAGAAAAAAAATG-TTGACT
65 TTTTATAGAAAAAAAA-GACTGATT
* * **
2124 GATTGTAAGTGTCAAACTATAAGGATTAGACTAATGCATGAATTATATCTGAGAATTGGA-TTTT
1 GATTGTAAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTT
* ** *
2188 TTTATCGAAAAAAACAGAAAGACT
66 TTTATAGAAAAAAA-AGACTGATT
* * * * * *
2212 GATTGTGAATATCCAACTACAAGGATTAAACTAATGCATGAATTATATTTGAGAATTAGATTCTT
1 GATTGTAAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGA-T-TT
2277 TTTTTATAGAAAAAAAGAAAGACTGATT
64 TTTTTATAG--AAAAA-AAAGACTGATT
* * * *
2305 GATTATAAATGTCAAACTAGAAGGATTAGACTAATGCATGAATTATATTTGAGAATCGGATTTCT
1 GATTGTAAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTT-T
* *
2370 TTTT-TATAAAAAAAAGACTAATT
65 TTTTATAGAAAAAAAAGACTGATT
* *
2393 GATTGTAAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGA--TT
1 GATTGT-AAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTT
2456 TTTTATA-AAAAAAAAGACTGATT
65 TTTTATAGAAAAAAAAGACTGATT
* * * * * * *
2479 GATTGTAAAT-ACTAGACTGCAAAGATTAGACTAATACATGAATTATATCTGAGAATTAGATTCT
1 GATTGTAAATGTC-AAACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTT
*
2543 TTTTATAGGAAAAAA
65 TTTTATAGAAAAAAA
2558 GAAAGACTAC
Statistics
Matches: 374, Mismatches: 45, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
84 1 0.00
85 48 0.13
86 26 0.07
87 29 0.08
88 116 0.31
89 69 0.18
91 14 0.04
92 6 0.02
93 63 0.17
94 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (88 bp):
GATTGTAAATGTCAAACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTT
TTTATAGAAAAAAAAGACTGATT
Found at i:2398 original size:181 final size:178
Alignment explanation
Indices: 2035--2565 Score: 613
Period size: 181 Copynumber: 3.0 Consensus size: 178
2025 TTTGAGAATC
* * *
2035 GATTGT-AAATGTCAGACTTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTT
1 GATTGTAAAATGCCAGAC-TACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTT
* * * * *
2099 TTTTTATAGAAAAAAAATG-TTGACTGATTGTAAGTGTCAAACTATAAGGATTAGACTAATGCAT
65 TTTTTATAGAAAAAAAAAGACTGATTGATTGTAAATGTCAAACTAGAAGGATTAGACTAATGCAT
* **
2163 GAATTATATCTGAGAATTGGATTT-TTTTATCGAAAAAAACAGAAAGACT
130 GAATTATATCTGAGAATTGGATTTCTTTTTTATAAAAAAA-AGAAAGACT
* * * *
2212 GATTGTGAATAT-CCA-ACTACAAGGATTAAACTAATGCATGAATTATATTTGAGAATTAGATTC
1 GATTGT-AAAATGCCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGA-T-
*
2275 TTTTTTTATAGAAAAAAAGAAAGACTGATTGATTATAAATGTCAAACTAGAAGGATTAGACTAAT
63 TTTTTTTATAG-AAAAAA-AAAGACTGATTGATTGTAAATGTCAAACTAGAAGGATTAGACTAAT
* * * *
2340 GCATGAATTATATTTGAGAATCGGATTTCTTTTTTATAAAAAAAAGACTA-ATT
126 GCATGAATTATATCTGAGAATTGGATTTCTTTTTTATAAAAAAAAGA-AAGACT
* *
2393 GATTGTAAAATGTCAGACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGA--TT
1 GATTGTAAAATGCCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTT
* * * *
2456 TTTTAT--AAAAAAAAAGACTGATTGATTGTAAAT-ACTAGACT-GCAAAGATTAGACTAATACA
66 TTTTATAGAAAAAAAAAGACTGATTGATTGTAAATGTC-AAACTAG-AAGGATTAGACTAATGCA
* *
2517 TGAATTATATCTGAGAATTAGA-TTC-TTTTTATAGGAAAAAAGAAAGACT
129 TGAATTATATCTGAGAATTGGATTTCTTTTTTATA-AAAAAAAGAAAGACT
2566 ACAAGGATTA
Statistics
Matches: 302, Mismatches: 37, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
172 9 0.03
173 15 0.05
174 59 0.20
175 6 0.02
176 38 0.13
177 9 0.03
178 21 0.07
179 9 0.03
180 7 0.02
181 75 0.25
182 54 0.18
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (178 bp):
GATTGTAAAATGCCAGACTACAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTT
TTTTATAGAAAAAAAAAGACTGATTGATTGTAAATGTCAAACTAGAAGGATTAGACTAATGCATG
AATTATATCTGAGAATTGGATTTCTTTTTTATAAAAAAAAGAAAGACT
Found at i:2610 original size:70 final size:70
Alignment explanation
Indices: 2492--2882 Score: 583
Period size: 70 Copynumber: 5.6 Consensus size: 70
2482 TGTAAATACT
*
2492 AGACTGCAAAGATTAGACTAATACATGAATTATATCTGAGAATTAGATTC-TTTTTATAGGAAAA
1 AGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATTAGATTCTTTTTTATAGGAAAA
2556 AAGAA
66 AAGAA
* * * *
2561 AGACTACAAGGATTAGACTAACGCATGAAATTATATCTGAGAATTAGATTGTTTTTTATAGGAAA
1 AGACTGCAAAGATTAGACTAATGCATG-AATTATATCTGAGAATTAGATTCTTTTTTATAGGAAA
2626 AAAGAA
65 AAAGAA
* * *
2632 AGGCTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGGAAAA
1 AGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATTAGATTCTTTTTTATAGGAAAA
2697 AAGAA
66 AAGAA
* * *
2702 AGATTGCAAAGATTAGATTAATGCATGAATTATATCTGAGAATCAGATTCTTTTTTATAGGAAAA
1 AGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATTAGATTCTTTTTTATAGGAAAA
2767 AAGAA
66 AAGAA
* *
2772 AAACTGCAAAGATTAGATTAATGCATGAATTATATCTGAGAATTAGATTCTTTTTTATAGG-AAA
1 AGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATTAGATTCTTTTTTATAGGAAAA
2836 AA-AA
66 AAGAA
* * **
2840 AGATTGCAATGATTAGACTAATATATGAATTAT-TCATGAGAAT
1 AGACTGCAAAGATTAGACTAATGCATGAATTATATC-TGAGAAT
2883 CGAATTTTTT
Statistics
Matches: 296, Mismatches: 23, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
67 2 0.01
68 36 0.12
69 28 0.09
70 187 0.63
71 43 0.15
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (70 bp):
AGACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATTAGATTCTTTTTTATAGGAAAA
AAGAA
Found at i:4693 original size:7 final size:7
Alignment explanation
Indices: 4681--4706 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4671 TTATAGTAAA
4681 GGTTTAG
1 GGTTTAG
4688 GGTTTAG
1 GGTTTAG
4695 GGTTTAG
1 GGTTTAG
4702 GGTTT
1 GGTTT
4707 TTTTCCATCG
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:0.42, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:7408 original size:17 final size:17
Alignment explanation
Indices: 7386--7421 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7376 CATTTCATAT
* *
7386 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
7403 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
7420 TT
1 TT
7422 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:7420 original size:11 final size:11
Alignment explanation
Indices: 7388--7442 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
7378 TTTCATATTT
* *
7388 TTTCTTTTTTT
1 TTTCTTTCTTC
7399 TTTCTTT-TTC
1 TTTCTTTCTTC
7409 TTTCTTTCTTC
1 TTTCTTTCTTC
*
7420 TTCATCTTCCTTC
1 TT--TCTTTCTTC
7433 TTTCTTTCTT
1 TTTCTTTCTT
7443 ATCTAACATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 9 0.24
11 19 0.50
13 10 0.26
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTCTTTCTTC
Found at i:9653 original size:13 final size:15
Alignment explanation
Indices: 9635--9666 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
9625 AACTGTAAAA
9635 TTTTATAAT-T-TTT
1 TTTTATAATATATTT
9648 TTTTATAATATATTT
1 TTTTATAATATATTT
9663 TTTT
1 TTTT
9667 GTAAGTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 1 0.06
15 7 0.41
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATAATATATTT
Found at i:10972 original size:120 final size:119
Alignment explanation
Indices: 10703--11058 Score: 426
Period size: 120 Copynumber: 3.0 Consensus size: 119
10693 TTATTATTTT
* * *
10703 AAATAAAAAATAATATTTAATTAACTTAAAAAATTTATATTAACAAATTAAAATATTAATTA-T-
1 AAATAAAAAATAATATTTAATTAAGTTTAAAAA-TTACATTAACAAATTAAAATATTAATTATTA
**
10766 T-TTTTA-AAATAA-AAAATTTAAATAAAATTAAAAAAGGTTTATATTATTATTTTTTTAATA
65 TGTTTTATAAA-AATAAAATTT---TAAAA-T-AAAAAGGTTT-T-TTATTATAATTTTAATA
* *
10826 AAATTAAAAATAATATTTAATTAAGTTTAGAAAATTACATTAACAAAGTAAAAT-TTAATTATTA
1 AAATAAAAAATAATATTTAATTAAGTTTA-AAAATTACATTAACAAATTAAAATATTAATTATTA
10890 TGTTTTATAAAAATAAATATTTTAAAATAAAAAGGTTTTTTATTATAATTTTAATA
65 TGTTTTATAAAAATAAA-ATTTTAAAATAAAAAGGTTTTTTATTATAATTTTAATA
* *
10946 AAATAAAAAATAATATTGAATTAAGTTTAAAATTTACATTAACAAATTAAAATATTAATTATTAT
1 AAATAAAAAATAATATTTAATTAAGTTTAAAAATTACATTAACAAATTAAAATATTAATTATTAT
* *
11011 GTTTT-TAAAAATAAAAAATTTTAAATTAAAAA---ATTTTATTATAATTTT
66 GTTTTATAAAAAT--AAAATTTTAAAATAAAAAGGTTTTTTATTATAATTTT
11059 TTATTATTTT
Statistics
Matches: 210, Mismatches: 13, Indels: 26
0.84 0.05 0.10
Matches are distributed among these distances:
117 15 0.07
119 29 0.14
120 72 0.34
121 4 0.02
122 17 0.08
123 46 0.22
124 10 0.05
125 7 0.03
126 6 0.03
127 4 0.02
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (119 bp):
AAATAAAAAATAATATTTAATTAAGTTTAAAAATTACATTAACAAATTAAAATATTAATTATTAT
GTTTTATAAAAATAAAATTTTAAAATAAAAAGGTTTTTTATTATAATTTTAATA
Found at i:11034 original size:16 final size:16
Alignment explanation
Indices: 11013--11048 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
11003 ATTATTATGT
11013 TTTTAAAAATAAAAAA
1 TTTTAAAAATAAAAAA
*
11029 TTTT-AAATTAAAAAA
1 TTTTAAAAATAAAAAA
11044 TTTTA
1 TTTTA
11049 TTATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTAAAAATAAAAAA
Done.