Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2361
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: 53879
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:234 original size:19 final size:19
Alignment explanation
Indices: 210--252 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
200 GTTTGGTTAA
210 AAGTGTTTTTACACTGCAG
1 AAGTGTTTTTACACTGCAG
*
229 AAGTGTTTTTCCACTGCAG
1 AAGTGTTTTTACACTGCAG
248 AAGTG
1 AAGTG
253 ACGAAGAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (19 bp):
AAGTGTTTTTACACTGCAG
Found at i:385 original size:34 final size:33
Alignment explanation
Indices: 346--423 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 33
336 AGATTAATTT
346 ATATTTTATATATTATTATATTAA-TTGTTT--AA
1 ATATTTTATATATTA-TAT-TTAATTTGTTTCAAA
* *
378 ATCTATTTAT-TATTATATTTAATTTTTTTCAAA
1 ATAT-TTTATATATTATATTTAATTTGTTTCAAA
411 ATATTTTATATAT
1 ATATTTTATATAT
424 CATCAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
30 4 0.11
31 8 0.21
32 13 0.34
33 13 0.34
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (33 bp):
ATATTTTATATATTATATTTAATTTGTTTCAAA
Found at i:9750 original size:44 final size:45
Alignment explanation
Indices: 9523--9794 Score: 194
Period size: 44 Copynumber: 6.1 Consensus size: 45
9513 GGAGCAGGTT
* * * * * *
9523 GAAGAAAACAGACCTTGTCTCCCCATACTGGTGGTGGAGTAGATC
1 GAAGAAAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * **
9568 GAAGAAAACAGATCTTATCTTCATGTACTGG-CGTGAAGTAGATC
1 GAAGAAAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * * * * * * *
9612 AAAGATAGCAGGTCCTGTCTTC-CTATATTGGTAGCGAAGTGGATC
1 GAAGAAAGCAGATCTTGTCTTCAC-ATACTGGTCGTGAAGTAGATC
* * * * * * * * *
9657 GAATATA-CAGAT-TTCATCTCCCCATACTGGTGGCGGAGTAGATT
1 GAAGAAAGCAGATCTT-GTCTTCACATACTGGTCGTGAAGTAGATC
* * *
9701 GAAGAAAGTAGATCTTGTCTTCACGTGCTGG-CGTGAAGTAGATC
1 GAAGAAAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
* * *
9745 AAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
1 GAAGAAAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
9790 GAAGA
1 GAAGA
9795 TACAAGTCTT
Statistics
Matches: 170, Mismatches: 50, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
43 1 0.01
44 96 0.56
45 71 0.42
46 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (45 bp):
GAAGAAAGCAGATCTTGTCTTCACATACTGGTCGTGAAGTAGATC
Found at i:9811 original size:133 final size:133
Alignment explanation
Indices: 9540--9798 Score: 374
Period size: 133 Copynumber: 1.9 Consensus size: 133
9530 ACAGACCTTG
* *
9540 TCTCCCCATACTGGTGGTGGAGTAGATCGAAGAAAACAGATCTTATCTTCATGTACTGGCGTGAA
1 TCTCCCCATACTGGTGGCGGAGTAGATCGAAGAAAACAGATCTTATCTTCACGTACTGGCGTGAA
* * * * * *
9605 GTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAATATACAGATT
66 GTAGATCAAAGAAAGCAGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGATACAGATT
9670 TCA
131 TCA
* ** * *
9673 TCTCCCCATACTGGTGGCGGAGTAGATTGAAGAAAGTAGATCTTGTCTTCACGTGCTGGCGTGAA
1 TCTCCCCATACTGGTGGCGGAGTAGATCGAAGAAAACAGATCTTATCTTCACGTACTGGCGTGAA
* * *
9738 GTAGATCAAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATACA
66 GTAGATCAAAGAAAGCAGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGATACA
9799 AGTCTTATCT
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 110 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (133 bp):
TCTCCCCATACTGGTGGCGGAGTAGATCGAAGAAAACAGATCTTATCTTCACGTACTGGCGTGAA
GTAGATCAAAGAAAGCAGATCCTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGATACAGATT
TCA
Found at i:11359 original size:3 final size:3
Alignment explanation
Indices: 11351--11386 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
11341 ATTTATTTAT
*
11351 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11387 CTATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12933 original size:22 final size:22
Alignment explanation
Indices: 12918--12964 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
12908 ATTAAAATTT
*
12918 ATTATTAATAATATTATTAATA
1 ATTATTAATAATATTATAAATA
*
12940 ATTATTAATATTATTATTAAATA
1 ATTATTAATAATATTA-TAAATA
12963 AT
1 AT
12965 AAGAAGTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATTAATAATATTATAAATA
Found at i:12934 original size:12 final size:12
Alignment explanation
Indices: 12917--12965 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
12907 AATTAAAATT
12917 TATTATTAATAA
1 TATTATTAATAA
12929 TATTATTAAT-A
1 TATTATTAATAA
*
12940 -ATTATTAATAT
1 TATTATTAATAA
12951 TATTATTAAATAA
1 TATTATT-AATAA
12964 TA
1 TA
12966 AGAAGTGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 9 0.28
11 1 0.03
12 16 0.50
13 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTATTAATAA
Found at i:12938 original size:9 final size:9
Alignment explanation
Indices: 12920--12955 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
12910 TAAAATTTAT
*
12920 TATTAATAA
1 TATTATTAA
12929 TATTATTAA
1 TATTATTAA
12938 TAATTATTAA
1 T-ATTATTAA
12948 TATTATTA
1 TATTATTA
12956 TTAAATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TATTATTAA
Found at i:13391 original size:19 final size:17
Alignment explanation
Indices: 13363--13408 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
13353 ACTTATAAAC
*
13363 ATAAATATTTAAAAAAGTT
1 ATAAAAATTT-AAAAA-TT
*
13382 ATAAAAATTTTAAAATT
1 ATAAAAATTTAAAAATT
13399 ATAAAAATTT
1 ATAAAAATTT
13409 TAATTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.48
18 4 0.16
19 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAAAAATTTAAAAATT
Found at i:13402 original size:17 final size:18
Alignment explanation
Indices: 13375--13411 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
13365 AAATATTTAA
13375 AAAAGTTATAAAAATTTT
1 AAAAGTTATAAAAATTTT
13393 AAAA-TTATAAAAATTTT
1 AAAAGTTATAAAAATTTT
13410 AA
1 AA
13412 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAGTTATAAAAATTTT
Found at i:16080 original size:14 final size:14
Alignment explanation
Indices: 16061--16088 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16051 CCCCGTCATT
16061 CGTGTTCACACTAG
1 CGTGTTCACACTAG
16075 CGTGTTCACACTAG
1 CGTGTTCACACTAG
16089 ATCTAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (14 bp):
CGTGTTCACACTAG
Found at i:17322 original size:34 final size:34
Alignment explanation
Indices: 17252--17464 Score: 205
Period size: 34 Copynumber: 6.2 Consensus size: 34
17242 TGGTTTACAT
* * * * *
17252 ATAAAACCAAAACCAAGACCTAAAATTT-CAAGA
1 ATAAAAACAAAATCAAGACTTAAATTTTCCATGA
*
17285 ATAAAAACAAAATCAAGACTTAAATTTTCCATTA
1 ATAAAAACAAAATCAAGACTTAAATTTTCCATGA
* *
17319 ATAAAACCAAAATCAAGACTAAAAATTTT-CATGA
1 ATAAAAACAAAATCAAGACT-TAAATTTTCCATGA
* * * *
17353 ATAGAAACGAAATCAAGGCCTAAATTTTCCATGA
1 ATAAAAACAAAATCAAGACTTAAATTTTCCATGA
* * * *
17387 ATGAAAACAAAACCATGAATTAAACTTTTCCATGA
1 ATAAAAACAAAATCAAGACTTAAA-TTTTCCATGA
* * *
17422 ATTAAAACAAAATCAAGGCTTAAACTTCTCCATGA
1 ATAAAAACAAAATCAAGACTTAAA-TTTTCCATGA
*
17457 ATTAAAAC
1 ATAAAAAC
17465 TTTGTATGTA
Statistics
Matches: 147, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
33 31 0.21
34 62 0.42
35 54 0.37
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.24
Consensus pattern (34 bp):
ATAAAAACAAAATCAAGACTTAAATTTTCCATGA
Found at i:17379 original size:68 final size:66
Alignment explanation
Indices: 17252--17464 Score: 232
Period size: 68 Copynumber: 3.1 Consensus size: 66
17242 TGGTTTACAT
* *
17252 ATAAAACCAAAACCAAGACCTAAAA-TTTCAAGAATAAAAACAAAATCAAGACTTAAATTTTCCA
1 ATAAAACCAAAACCAAGA-CTAAAATTTTCATGAAT-AAAACAAAATCAAGGCTTAAATTTTCCA
*
17316 TTA
64 TGA
* * *
17319 ATAAAACCAAAATCAAGACTAAAAATTTTCATGAATAGAAACGAAATCAAGGCCTAAATTTTCCA
1 ATAAAACCAAAACCAAGACT-AAAATTTTCATGAATA-AAACAAAATCAAGGCTTAAATTTTCCA
17384 TGA
64 TGA
* * * *
17387 ATGAAAA-CAAAACCATGAATTAAACTTTTCCATGAATTAAAACAAAATCAAGGCTTAAACTTCT
1 AT-AAAACCAAAACCAAG-ACTAAAATTTT-CATGAA-TAAAACAAAATCAAGGCTTAAA-TTTT
17451 CCATGA
61 CCATGA
17457 ATTAAAAC
1 A-TAAAAC
17465 TTTGTATGTA
Statistics
Matches: 123, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
66 2 0.02
67 22 0.18
68 52 0.42
69 30 0.24
70 16 0.13
71 1 0.01
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.24
Consensus pattern (66 bp):
ATAAAACCAAAACCAAGACTAAAATTTTCATGAATAAAACAAAATCAAGGCTTAAATTTTCCATG
A
Found at i:25097 original size:3 final size:3
Alignment explanation
Indices: 25089--25147 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
25079 TTTAAGAATA
25089 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
25137 ATG ATG ATG AT
1 ATG ATG ATG AT
25148 AAATAAATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:27268 original size:21 final size:21
Alignment explanation
Indices: 27243--27292 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
27233 CTACAACTTA
*
27243 AAGCAGAGGCTA-CTGCGAGGG
1 AAGCAGAGG-TAGCAGCGAGGG
* *
27264 AAGCAAAGGTAGCAGTGAGGG
1 AAGCAGAGGTAGCAGCGAGGG
27285 AAGCAGAG
1 AAGCAGAG
27293 TAGAGCAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.36, C:0.14, G:0.42, T:0.08
Consensus pattern (21 bp):
AAGCAGAGGTAGCAGCGAGGG
Found at i:29681 original size:17 final size:19
Alignment explanation
Indices: 29656--29690 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
29646 TGAAAATCAA
29656 ATAATTTTTAAAA-ATTGC
1 ATAATTTTTAAAATATTGC
29674 ATAA-TTTTAAAATATTG
1 ATAATTTTTAAAATATTG
29691 GTGTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (19 bp):
ATAATTTTTAAAATATTGC
Found at i:30982 original size:18 final size:18
Alignment explanation
Indices: 30956--31018 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
30946 ATTAATTACT
*
30956 TATATTAAAAATATATAA
1 TATAATAAAAATATATAA
30974 TATAAT-AAAATACTA-AA
1 TATAATAAAAATA-TATAA
* * *
30991 AATAAAAAAAATTGTATAA
1 TATAATAAAAA-TATATAA
31010 T-TAATAAAA
1 TATAATAAAA
31019 TGAATGAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 12 0.34
18 20 0.57
19 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TATAATAAAAATATATAA
Found at i:36863 original size:20 final size:20
Alignment explanation
Indices: 36834--36874 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
36824 ATATTTTAGA
36834 TATTTCTTAAATTCATTAAG
1 TATTTCTTAAATTCATTAAG
*
36854 TATTTGTTAAATTCATTAAG
1 TATTTCTTAAATTCATTAAG
36874 T
1 T
36875 TCTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
TATTTCTTAAATTCATTAAG
Found at i:37074 original size:10 final size:10
Alignment explanation
Indices: 37059--37083 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37049 ATGATGGCTT
37059 TTTTTTTTTC
1 TTTTTTTTTC
37069 TTTTTTTTTC
1 TTTTTTTTTC
37079 TTTTT
1 TTTTT
37084 GCTATTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:37538 original size:41 final size:40
Alignment explanation
Indices: 37458--37538 Score: 90
Period size: 41 Copynumber: 2.0 Consensus size: 40
37448 AACTAAATTT
* * *
37458 TCAAAATCAAAACCTAAAATGTGCAAGAATAAAAGCAAAA
1 TCAAAATCAAAAACTAAAATGTCCAAGAATAAAACCAAAA
* * * *
37498 TCAAAATCAAAGAAGTAAAATTTCCATGAATGAAACCAAAA
1 TCAAAATCAAA-AACTAAAATGTCCAAGAATAAAACCAAAA
37539 ATGAAGACCT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
40 11 0.33
41 22 0.67
ACGTcount: A:0.58, C:0.15, G:0.10, T:0.17
Consensus pattern (40 bp):
TCAAAATCAAAAACTAAAATGTCCAAGAATAAAACCAAAA
Found at i:39348 original size:24 final size:23
Alignment explanation
Indices: 39297--39350 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
39287 TGTTTGATAA
*
39297 AAAAAATTAATTGATCATTCTGTT
1 AAAAAATTAATTCAT-ATTCTGTT
39321 -AAAAATTATATTCAT-TTCTGTT
1 AAAAAATTA-ATTCATATTCTGTT
*
39343 GAAAAATT
1 AAAAAATT
39351 TAGAGTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.26
23 15 0.56
24 5 0.19
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (23 bp):
AAAAAATTAATTCATATTCTGTT
Found at i:41348 original size:16 final size:16
Alignment explanation
Indices: 41327--41361 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
41317 TCAAAGAAGT
41327 AAAATTTCCATGAATA
1 AAAATTTCCATGAATA
41343 AAAATTTCCATGAATA
1 AAAATTTCCATGAATA
41359 AAA
1 AAA
41362 CAAAAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (16 bp):
AAAATTTCCATGAATA
Found at i:44222 original size:17 final size:18
Alignment explanation
Indices: 44197--44235 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
44187 CTTTGAGCAT
* *
44197 AAGGTTCAATGGAT-TGA
1 AAGGATCAATAGATATGA
44214 AAGGATCAATAGATATGA
1 AAGGATCAATAGATATGA
44232 AAGG
1 AAGG
44236 TAAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.44, C:0.05, G:0.28, T:0.23
Consensus pattern (18 bp):
AAGGATCAATAGATATGA
Found at i:44497 original size:23 final size:25
Alignment explanation
Indices: 44448--44501 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
44438 AGTTTTGATC
*
44448 TCATATATTATAATAACGGTTATTA
1 TCATATATTATAATAACAGTTATTA
44473 TCATATA-TATTAATAA-AGTTA-TA
1 TCATATATTA-TAATAACAGTTATTA
44496 TCATAT
1 TCATAT
44502 CATACTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 8 0.30
24 6 0.22
25 13 0.48
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (25 bp):
TCATATATTATAATAACAGTTATTA
Found at i:52754 original size:18 final size:19
Alignment explanation
Indices: 52731--52772 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
52721 TTTGGGTTAA
52731 AAGTG-TTTTACACTGCAG
1 AAGTGTTTTTACACTGCAG
*
52749 AAGTGTTTTTCCACTGCAG
1 AAGTGTTTTTACACTGCAG
52768 AAGTG
1 AAGTG
52773 ACGAAGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (19 bp):
AAGTGTTTTTACACTGCAG
Found at i:52889 original size:27 final size:27
Alignment explanation
Indices: 52858--52923 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 27
52848 ATACTCTTAG
* *
52858 ATTAATTTATATTTTATATATTATTAT
1 ATTAATTTAAATCTTATATATTATTAT
*
52885 ATTAATTGTTTAAATCTTATTTATTATTAT
1 ATTAA---TTTAAATCTTATATATTATTAT
52915 ATTTAATTT
1 A-TTAATTT
52924 TTTTCAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
27 5 0.16
28 3 0.09
30 20 0.62
31 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
ATTAATTTAAATCTTATATATTATTAT
Done.