Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3424
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: 108919
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Found at i:12365 original size:79 final size:80
Alignment explanation
Indices: 12266--12486 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
12256 CTCGTTCAAG
* * ** * *
12266 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
12329 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
12345 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
12410 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
12425 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
12487 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:12417 original size:80 final size:80
Alignment explanation
Indices: 12306--12486 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
12296 CTCATTCAAT
* * *
12306 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
12369 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
12385 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
12449 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
12466 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
12487 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:12446 original size:40 final size:40
Alignment explanation
Indices: 12303--12486 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
12293 TAACTCATTC
* *
12303 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
12343 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
12383 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
12423 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
12464 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
12487 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:20261 original size:79 final size:80
Alignment explanation
Indices: 20162--20382 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
20152 CTCGTTCAAG
* * ** * *
20162 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
20225 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
20241 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
20306 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
20321 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
20383 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:20313 original size:80 final size:80
Alignment explanation
Indices: 20202--20382 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
20192 CTCATTCAAT
* * *
20202 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
20265 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
20281 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
20345 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
20362 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
20383 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:20342 original size:40 final size:40
Alignment explanation
Indices: 20199--20382 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
20189 TAACTCATTC
* *
20199 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
20239 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
20279 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
20319 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
20360 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20383 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:23505 original size:11 final size:10
Alignment explanation
Indices: 23479--23512 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23469 GGAGAGTACC
*
23479 AAGAGTCAAA
1 AAGAGCCAAA
23489 AAGAGCCAAA
1 AAGAGCCAAA
23499 AACGAGCCAAA
1 AA-GAGCCAAA
23510 AAG
1 AAG
23513 GGACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.18, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:32528 original size:36 final size:36
Alignment explanation
Indices: 32477--32549 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
32467 AAATGTATGT
*
32477 TTTATATTATTTTTTTAAGGTAATACTTCGTAACCC
1 TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
*
32513 TTTATATTATATTTTTACGGTAATACTTCGTAACCC
1 TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
32549 T
1 T
32550 ATTTCGACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.49
Consensus pattern (36 bp):
TTTATATTATATTTTTAAGGTAATACTTCGTAACCC
Found at i:35575 original size:23 final size:24
Alignment explanation
Indices: 35549--35599 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
35539 AGTATGATTT
35549 TAATTG-AAATGATAAATTTAAAA
1 TAATTGAAAATGATAAATTTAAAA
* **
35572 TAA-TGAAAATTATAAATTTTTAA
1 TAATTGAAAATGATAAATTTAAAA
35595 TAATT
1 TAATT
35600 TTAGAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 2 0.09
23 20 0.87
24 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (24 bp):
TAATTGAAAATGATAAATTTAAAA
Found at i:36731 original size:19 final size:18
Alignment explanation
Indices: 36689--36734 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
36679 ATTGATAAAT
*
36689 GAATATTTTATTAATTTAT
1 GAATA-TTTATTAATTTAA
*
36708 CAATATTTATTAATTTAGA
1 GAATATTTATTAATTTA-A
36727 GAATATTT
1 GAATATTT
36735 CATACTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (18 bp):
GAATATTTATTAATTTAA
Found at i:36851 original size:35 final size:37
Alignment explanation
Indices: 36809--36881 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
36799 GAATCAAAGC
*
36809 TAATTGGTTCATGTAA-C-AAAGAAAAAAGAGTTAAT
1 TAATTGGTTCATGTAACCAAAAGAAAAAAAAGTTAAT
*
36844 TAATTGGTTCGTGTAACCAAAAAGAAAAAAAAGTTAAT
1 TAATTGGTTCATGTAACC-AAAAGAAAAAAAAGTTAAT
36882 GGTTTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 15 0.45
36 1 0.03
38 17 0.52
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.27
Consensus pattern (37 bp):
TAATTGGTTCATGTAACCAAAAGAAAAAAAAGTTAAT
Found at i:37447 original size:53 final size:53
Alignment explanation
Indices: 37367--37472 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
37357 ATTTAACTTC
37367 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
1 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
37420 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
1 TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
37473 AAGATTTGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.32
Consensus pattern (53 bp):
TTAATTGGTTGGCTAGAACGGTTCAAGGCAAGATATGGGATTAAGTCTTATAG
Found at i:62412 original size:35 final size:35
Alignment explanation
Indices: 62338--62413 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
62328 TGATTTGCAT
* * *
62338 ATCTGTATCTGAAATGGGCTCAAGCCTGAATCTGT
1 ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
* * * *
62373 ATCTGTATCTGACATGGGCCCAGGCCCGATTGTGA
1 ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
62408 ATCTGT
1 ATCTGT
62414 TTGATTTGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (35 bp):
ATCTGTATCTGAAATGGGCCCAAGCCCGAATCTGA
Found at i:65621 original size:23 final size:22
Alignment explanation
Indices: 65564--65627 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 22
65554 TTATATTTAG
*
65564 ATATAAATATATTTATATGGAT
1 ATATAAATATATTTACATGGAT
* *
65586 ATAATTAAGATATATTTGCATGTAT
1 AT-A-TAA-ATATATTTACATGGAT
65611 ATATAATATATAATTTA
1 ATATAA-ATAT-ATTTA
65628 TTTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
22 2 0.06
23 8 0.24
24 8 0.24
25 15 0.45
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (22 bp):
ATATAAATATATTTACATGGAT
Found at i:68065 original size:20 final size:20
Alignment explanation
Indices: 68040--68079 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
68030 AAAATATTAA
68040 TTTTTTAGTGATGTTGGTGT
1 TTTTTTAGTGATGTTGGTGT
68060 TTTTTTAGTGATGTTGGTGT
1 TTTTTTAGTGATGTTGGTGT
68080 GGCAACCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.60
Consensus pattern (20 bp):
TTTTTTAGTGATGTTGGTGT
Found at i:71798 original size:27 final size:28
Alignment explanation
Indices: 71732--71828 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
71722 CATGAGATTG
* * * *
71732 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
71761 GCACTAAGTGTGCGAGTTTGATT-TATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
71788 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71815 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
71829 GACTTAATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
26 6 0.10
27 36 0.57
28 3 0.05
29 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71839 original size:27 final size:27
Alignment explanation
Indices: 71760--71841 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
71750 TAAATTGTAC
* *
71760 AGCACTAAGTGTGCGAGTTTG-ATTTAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
71787 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
71814 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
71841 A
1 A
71842 TTTTTGAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.06
27 40 0.85
28 4 0.09
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:80107 original size:27 final size:28
Alignment explanation
Indices: 80024--80120 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
80014 CATGAGATTG
* * * * *
80024 GCACTAAGTGTGCGGGTTTAAATGTACA
1 GCACTAAGTGTGCGAGTTTGATTATATA
80052 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
80080 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
80107 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
80121 GACTAATATA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 24 0.38
28 39 0.62
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:88375 original size:27 final size:28
Alignment explanation
Indices: 88291--88388 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
88281 CTGAGAATTG
* * * *
88291 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
88320 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
88348 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
88375 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
88389 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:88399 original size:27 final size:27
Alignment explanation
Indices: 88319--88401 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
88309 TAAATTGTAC
* *
88319 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
88347 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
88374 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
88401 A
1 A
88402 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:88402 original size:29 final size:27
Alignment explanation
Indices: 88291--88402 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
88281 CTGAGAATTG
** * *
88291 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
88320 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
88348 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
88375 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
88403 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:91322 original size:15 final size:15
Alignment explanation
Indices: 91302--91340 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
91292 TCATTTATGG
91302 AAAAAAAACACAA-AA
1 AAAAAAAACA-AATAA
*
91317 AAAAAAAATAAATAA
1 AAAAAAAACAAATAA
91332 AAAAAAAAC
1 AAAAAAAAC
91341 GACTAGTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (15 bp):
AAAAAAAACAAATAA
Done.