Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold585
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: 39792
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Found at i:5453 original size:18 final size:19
Alignment explanation
Indices: 5430--5470 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
5420 CCCCATTTTA
*
5430 ATTTATTTT-TCAAAAAAT
1 ATTTATTTTACCAAAAAAT
5448 ATTTATTTTAACCAAAAAAT
1 ATTTATTTT-ACCAAAAAAT
5468 ATT
1 ATT
5471 GAAAACCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTATTTTACCAAAAAAT
Found at i:7883 original size:513 final size:513
Alignment explanation
Indices: 3281--11883 Score: 13881
Period size: 513 Copynumber: 16.8 Consensus size: 513
3271 GGAAAGAGGA
* *
3281 TGGAAGAATTTGTGTCAGCCTAAAAGGATTGGGGTATTAGTATTCATGATATTTGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
*
3346 CT-AAAA-ATTTTTATTTT-CGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTTTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
*
3408 TTAAACCCCATTTTAA-TTATTTTTTCAATAAAATATTTATTTTAACC-AAAAATATTTAAAACC
131 TGAAACCCCATTTTAATTTA-TTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACC
*
3471 ATAAAATTGATTTCTCTAAAAATA-TTTT-TTTTCC-GAATATTATTTACCGGTTTTTAAATGAA
195 ATAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAA
3533 ATTAAGCTAACTAA-TTTTTTTAAAGAAATTG--TAGTAAACCCGATTAACTCCTAGCTTTCACC
260 ATTAAGCTAACTAATTTTTTTTAAAGAAA-TGACTAGTAAACCCGATTAACTCCTAGCTTTCACC
3595 CGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATAC
324 CGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATAC
3660 TTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCA
389 TTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCA
3725 AAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGA-GAAAATATTGGGCGATACT-CCG
454 AAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
3783 TGGAAGAATTTGTGTCAGCCTAAAAGGAT-GGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
3847 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
*
3912 TGAAACCCCATTTTAATTTATTTTTCACTAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* *
3977 TAAAATTGATTTCTCTAAAAATATTTTTATTTT-CTGACATATTATTTACCGTTTTTTAAATGAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGA-ATATTATTTACCGATTTTTAAATGAA
4041 ATTAAGCTAAC----TTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCC
260 ATTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCC
4102 GGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACT
325 GGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACT
4167 TTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATT-GGATTGTGA-C-AGGAGCTTCTATCAA
390 TTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAA
4229 A-ATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
455 AGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
4287 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* * * **
4352 ATATAAATATTTTTATTTTCCGGAATATGATATATATATTTAGTTAATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
*
4417 TTAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
*
4482 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCAGAATATTATTTACCG--TTTTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
4545 TTAAGCTAACT-ATTTTTTTT----AAAT-ACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
*
4604 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTA-GGCGTTACAAAGACAACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
4668 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTT-TATCAAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
4732 GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGAGAAAATATTGGGCGATACT-CCG
456 GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAG-GAAAATATTGGGCGATACTCCCG
*
4790 TGGAAGAATTT-TGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGGTATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
*
4854 CT-AAAATATTTTTATTTT--GAAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
*
4916 TGAAA-CCCATTTTAA-AT-TTTTTCAA-AAAATATTTATTTTAACC-AAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
*
4976 TAAAATTGATTTCTCT-AAAATATTTTTATTTT-CGGAATATTATTTACCTA-TTTTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* *
5038 TTAAGCTAACTAATTTTTTTAAAAGAAATGACTAGT-AAGCCGA-TAACTCCTAGCTTTCACCC-
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
5100 GAA-CCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
* *
5164 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGAATTGTGATCGAGGATCTTCTAT-AAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
5228 TGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
456 -GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
5287 TGGAAGAATTTGTGTCAGCCTAAAAGGAT-GGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
5351 CTAAAAATATTTTTATTTTCC-GAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
*
5415 TGAAACCCCATTTTAATTTATTTTTCAA-AAAATATTTATTTTAACCAAAAAATATTGAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* * *
5479 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCTGGAATATTACTTACCGACTTTTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* * *
5544 TTAAGTTAACAAATTTTTTTT----AAATAACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
5605 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
*
5670 TGGAAAATTTGCGATTACATGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
*
5735 GATAAGCAGAATTTTGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
456 GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
5793 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
*
5858 CTATAAATATTTTTATTTTCCTGGAATA-T-TATACCTATTTAGTTAATATTGTAAC-T-TCTCA
66 CTAAAAATATTTTTATTTTCC-GGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCA
* *
5919 ATGAAACCCCATTTTAATTTATTTTTCACTAAAATATTTATTTTAACCAAAAAATATTTAAAACA
130 ATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACC
* *
5984 ATAAAATTTATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGGTTTTTAAATGAA
195 ATAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAA
6049 ATTAAGCTAACTAAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACC
260 ATTAAGCTAACT-AATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACC
6114 CGGAACCCGATAAACTTACTCAAAACTAGTAGACCT-TTTTTAGGGCGTTACAAACACAACATAC
324 CGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATAC
* *
6178 TTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGAATTGTGATCGAGGATCTTCTAT-A
389 TTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCA
* * * *
6242 AATGATAAGCAGAATTTGGTGGTCTAGAAAGGAAGGAGGAAAATATTTGGCGATACTCTCG
454 AA-GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
6303 TGGAAGAGTTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTCAGCCTAAA
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATA-T--T----C----
* *
6368 AGGATGGGGGTATATTGATATTTCTAAAGATATTTTTATTTTCCAGAATATTATATACCTATTTA
55 --G-T----G-ATA-T--T-TTTCTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTA
*
6433 GTTAATATTGTAACTTCTCTCAATTAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTT
108 GTTAATATTGTAACTTCTCTCAATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTT
* *
6498 TAACCAAAAAATATTGAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTCTGGAATAT
173 TAACCAAAAAATATTTAAAACCATAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATAT
* * * ** *
6563 TACTTACCGACTTTTAAATGAAATTAAGTTAA--AATTTTTTTT--TTAAATAACTAGTAAACCC
238 TATTTACCGATTTTTAAATGAAATTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCC
6624 GATTAACTCCTAGCTTTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAG
303 GATTAACTCCTAGCTTTCACCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAG
*
6689 GGCGTTACAAACACAACATACTTTGAAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATT
368 GGCGTTACAAACACAACATACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATT
* * * * *
6754 GTGATCGAGGAGCTTCTATTAAAGATAAGCAGAATTGGGTGGTTTGGAAAAGAAAGTGGAAAATA
433 GTGATCGAGGAGCTTCTATCAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATA
6819 TTGGGCGATACTCCCG
498 TTGGGCGATACTCCCG
6835 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* **
6900 CTATAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATACTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
6965 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
*
7030 TAAAATTGATTTCTCTAAAAATATTTTTTATTTTTCGGAATATTATTTACCGATTTTTAAATGAA
196 TAAAATTGATTTCTCTAAAAATA-TTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAA
* * * *
7095 GTTAAGATAAC-AATTTTTTTTTAAATTGAAATGACTAGTAAACCTGATAAACTCCTAGCTTTCA
260 ATTAAGCTAACTAA-TTTTTTTTAAA--GAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCA
* *
7159 CCCGGAACTCGATAAACTTACTCAAAACTAGTAGATCTATTTTTAGGGCGTTACAAACACAACAT
322 CCCGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACAT
* * *
7224 ACCTTGAAAAATTTTCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTAT
387 ACTTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTAT
*
7289 CAAGGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
452 CAAAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
7351 TGGAAGAATTTGTGTCAACCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* * * * * *
7416 CTAAAAATATTTTTAATTTCCGAAATATTATATACCTTTTTAGTTCATATTGTAACTTCTTTTAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
* *
7481 TGAAACCCCATTTTAATTTATTTTTCAATGAAATACTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* *
7546 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTCACCGATTTGTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* ** * * *
7611 TTAAGCTAAGTAATTTTTTTTAAAGAAATGGGTAGTAAACCCTATTAACTCCTAGCATTCACTCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
* * * *
7676 GAACACGATAAACTTACTCAAAACTAGTAGACCTATTTTTAAGGCGTTACAAGCACTACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
* *
7741 TGGAAAATTTGTGATTACAAGTAGGTTTGGAGAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
7806 GATAAGCAGAATTTGGTGGTCTAGG-AAGGAAAGAGGAAAATATTGGGCGATACTCCCG
456 GATAAGCAGAATTTGGTGGTCT-GGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
7864 TGGAAGAATTTGTGTCAACCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* * *
7929 CTAAAAATATTTTTAATTTCCGGAATATTATATACCTCTTTAGTTCATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
* *
7994 TGAAACCCCATTTTAATTTATTTTTCAATGAAATACTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* * *
8059 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGAAATATTATTCACCGATTTGTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* ** * *
8124 TTAAGCTAAGTAATTTTTTTTAAAGAAATGGGTAGTAAACTCGATTAACTCCTAGCATTCACCCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
* * ** *
8189 GAACACGAAAAACTTACTCAAAACTAGTAGACCTATTTTTAAAGCGTTACAAACACTACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
*
8254 TGGAAAATTTGTGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
* *
8319 GATAAGTAGAATTTGGTGGTCTAGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
456 GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
8377 TGGAAGAATTTGTGTCAACCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* * * * * *
8442 CTAAAAATATTTTTAATTTCCGAAATATTATATACCTTTTTAGTTCATATTGTAACTTCTTTTAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
* *
8507 TGAAACCCCATTTTAATTTATTTTTCAATGAAATACTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* *
8572 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTCACCGATTTGTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* ** * * *
8637 TTAAGCTAAGTAATTTTTTTTAAAGAAATGGGTAGTAAACCCTATTAACTCCTAGCATTCACTCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
* * * *
8702 GAACACGATAAACTTACTCAAAACTAGTAGACCTATTTTTAAGGCGTTACAAGCACTACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
* *
8767 TGGAAAATTTGTGATTACAAGTAGGTTTGGAGAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
8832 GATAAGCAGAATTTGGTGGTCTAGG-AAGGAAAGAGGAAAATATTGGGCGATACTCCCG
456 GATAAGCAGAATTTGGTGGTCT-GGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
8890 TGGAAGAATTTGTGTCAACCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* * *
8955 CTAAAAATATTTTTAATTTCCGGAATATTATATACCTCTTTAGTTCATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
* *
9020 TGAAACCCCATTTTAATTTATTTTTCAATGAAATACTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* * *
9085 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGAAATATTATTCACCGATTTGTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* * * *
9150 TTAAGCTAAGTAATTTTTTTTAAAGAAATG-GTAGTAAACTCGATTAACTCCTAGCATTCACCCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
* * ** *
9214 GAACACGAAAAACTTACTCAAAACTAGTAGACCTATTTTTAAAGCGTTACAAACACTACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
*
9279 TGGAAAATTTGTGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
* *
9344 GATAAGTAGAATTTGGTGGTCTAGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
456 GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
9402 TGGAAGAATTTGTGTCAACCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
*
9467 CTAAAAATATTTTTAATTTT-TGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCA
66 CTAAAAATATTTTT-ATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCA
* *
9531 ATGAAACCCCATTTTAATTTATTTTTCAATGAAATACTTATTTTAACCAAAAAATATTTAAAACC
130 ATGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACC
*
9596 ATAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTGTAAATGAA
195 ATAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAA
* ** *
9661 ATCAAGCTAACTAATTTTTTTTAAAGAAATGTGTAGTAAACCCGATTAACTCCTAGCATTCACCC
260 ATTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCC
* * *
9726 GGAACCCGATAAACTCACTCAAAACTAGTAGACCTATTTTTAAGGCGTTACAAACACTACATACT
325 GGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACT
* *
9791 TTGGAAAATTTGTGATTACATGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAA
390 TTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAA
*
9856 AGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGG---ATATTGGGCGATATTCCCG
455 AGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
9912 TGGAAGAATTTGTGTCAGCCTAAAAGGATTGGGGTATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* * ** * *
9977 CTAAAAATATTCTTATTTTCCGGAATATTACATATGTATTTTGTTAATATTGTAAGTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
* * * *
10042 TGAAATCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTATCCAAAAAAGATTTTAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* * * ** * *
10107 TAATATTGATTTGTCTAAAAA-AATTTTATTTTCTAGAATATTATTTACCCATTTTAAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* *
10171 TTAAGCTAACTAATGTTTTTTAAAGAAATGAGTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
*
10236 GAACCCGATAAATTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
* * *
10301 TGGAAAATTTGCGATGACAAGTAGGTTTGGGCAATTAGAATTGTGATCGAGGAGCTTCTATCAAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
*
10366 GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTTGGCGATACTCCCG
456 GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
* *
10424 TGGAAGAATTTGTGTCAGCCTAAAAGGATTGGGGTATTAGTATTCATGATATTCATGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
*
10489 CTAAAAATATTTTTATTTTCCAGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
*
10554 TTAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* ** *
10619 TAAAATTGATTTTTCTAAAAATATTTTTATTTTCATGAATATTATTTACCAATTTTTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* * * *
10684 TTAAGCTAACTAAGTTTTTTTTTCAAGAATTGACTAGAAAACCCGATTAACTTCTAGCTTTCACC
261 TTAAGCTAACTAA--TTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACC
* *
10749 CGGAACCCGATAAACTTACTCAAAATTAGAAGACCTATTTTTAGGGCGTTACAAACACAACATAC
324 CGGAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATAC
* * * * *
10814 TTTGGAAAATTTGCGATTACATGTAGGTTTAGACAATTTGGACTGTGACCGAGGAGCTTCTATCA
389 TTTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCA
*
10879 AAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGTGGAAAATATTGGGCGATACTCCCG
454 AAGATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
10939 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTTTTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* ** **
11004 CTATAAATATTTTTATTTTCCTTAATATTATATATGTATTTAGTTAATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
*
11069 TTAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* *
11134 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCAGAATATTATTTACCTATTTTTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
**
11199 TTAAGCTAACTAATTTTTTTTAAAGAAATGTGTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
* * * *
11264 GAACCCTATAAATTTACTCAAAACCAGTAGTCCTATTTTTAGGGCGTTACAAACACAACATACTT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
* * * *
11329 TGGAAAATTAGCAATTTCAAGTAGATTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
391 TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
* *
11394 GATAAGCAGAATTTGGTAGTCTGGAAAGGAAAGAGGATAATATTGGGCGATACTCCCG
456 GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
*
11452 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGCATTAGTATTCATGATATTCGTGATATTTTT
1 TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
* * *
11517 CTAAATATATTTTCATTTTTCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
66 CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
* * *
11582 TTAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAAGATTTTAAACCA
131 TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
* * * ** *
11647 TAATATTGATTTGTCTAAAAA-AATTTTATTTTCTAGAATATTATTTACCCATTTTTAAATGAAA
196 TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
* *
11711 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTACCTTTCATCCG
261 TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
* * * * *
11776 AAACCCGATAAACTTACTCGAAACTAGTAGACCTATTTTTATGGC-TGTGCAAACACAACATAGT
326 GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGT-TACAAACACAACATACT
*
11840 TTGGAAAATTTGCGATTACAAGTAAGTTTGGACAATTAGGATTG
390 TTGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTG
11884 GACAAAGGTT
Statistics
Matches: 7624, Mismatches: 366, Indels: 212
0.93 0.04 0.03
Matches are distributed among these distances:
492 15 0.00
493 39 0.01
494 41 0.01
495 55 0.01
496 110 0.01
497 108 0.01
498 53 0.01
499 97 0.01
500 68 0.01
501 137 0.02
502 167 0.02
503 162 0.02
504 174 0.02
505 321 0.04
506 488 0.06
507 100 0.01
508 37 0.00
509 417 0.05
510 448 0.06
511 78 0.01
512 909 0.12
513 2156 0.28
514 4 0.00
515 539 0.07
516 423 0.06
517 1 0.00
518 1 0.00
519 1 0.00
523 1 0.00
524 1 0.00
525 1 0.00
528 1 0.00
529 4 0.00
530 1 0.00
531 74 0.01
532 194 0.03
533 36 0.00
534 26 0.00
535 1 0.00
536 135 0.02
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (513 bp):
TGGAAGAATTTGTGTCAGCCTAAAAGGATGGGGGTATTAGTATTCATGATATTCGTGATATTTTT
CTAAAAATATTTTTATTTTCCGGAATATTATATACCTATTTAGTTAATATTGTAACTTCTCTCAA
TGAAACCCCATTTTAATTTATTTTTCAATAAAATATTTATTTTAACCAAAAAATATTTAAAACCA
TAAAATTGATTTCTCTAAAAATATTTTTATTTTCCGGAATATTATTTACCGATTTTTAAATGAAA
TTAAGCTAACTAATTTTTTTTAAAGAAATGACTAGTAAACCCGATTAACTCCTAGCTTTCACCCG
GAACCCGATAAACTTACTCAAAACTAGTAGACCTATTTTTAGGGCGTTACAAACACAACATACTT
TGGAAAATTTGCGATTACAAGTAGGTTTGGACAATTAGGATTGTGATCGAGGAGCTTCTATCAAA
GATAAGCAGAATTTGGTGGTCTGGAAAGGAAAGAGGAAAATATTGGGCGATACTCCCG
Found at i:10099 original size:20 final size:19
Alignment explanation
Indices: 10057--10099 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
10047 TCCCATTTTA
*
10057 ATTTATTTTTCAATAAAAT
1 ATTTATTTTTCAATAAAAG
10076 ATTTATTTTATCCAA-AAAAG
1 ATTTATTTT-T-CAATAAAAG
10096 ATTT
1 ATTT
10100 TAAACCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 9 0.43
21 3 0.14
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTTATTTTTCAATAAAAG
Found at i:17955 original size:47 final size:47
Alignment explanation
Indices: 17898--18026 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 47
17888 GGTGGAATAA
* * * * *
17898 TACCTAGATTTGGCTACGAGCCTTGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGAGCCATGATATAGGTACTATGAGAGAAGT
* * * *
17945 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTATGGGATAAGT
1 TACCTTGATTTGGCTACGAGCCATGATATAGGTACTATGAGAGAAGT
* *
17992 TACCTTGATTTGGCTACG-GCCATGGTATACGTACT
1 TACCTTGATTTGGCTACGAGCCATGATATAGGTACT
18027 TATCGATTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 16 0.22
47 56 0.78
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGAGCCATGATATAGGTACTATGAGAGAAGT
Found at i:22380 original size:129 final size:129
Alignment explanation
Indices: 22247--22489 Score: 333
Period size: 129 Copynumber: 1.9 Consensus size: 129
22237 GTCCTAACAC
* *** *
22247 ATACAATGCATAATTAGATAAATTGAAGTATCTATACTAGCACATACAATGCATAATTAGATAAT
1 ATACAATGCATAATCAGATAAACCAAAGTATCTATACTAGCACATACAATGCATAATTAGATAAA
*
22312 CTGAAATATCTATACTGGCACATACAGTGCATCATCGGATAAACTGAAGTATCTATACTAGCAA
66 CTGAAATATCTATACTGGAACATACAGTGCATCATCGGATAAACTGAAGTATCTATACTAGCAA
* * * * * *
22376 ATACAGTGCATTATCAGATAAACCAAAGTATCTATACTAGCATATATAGTGCATCATTAGATAAA
1 ATACAATGCATAATCAGATAAACCAAAGTATCTATACTAGCACATACAATGCATAATTAGATAAA
* * * * *
22441 CTGAAGTATCTATACTGGAACATATAGTGCATTATTGGATAAGCTGAAG
66 CTGAAATATCTATACTGGAACATACAGTGCATCATCGGATAAACTGAAG
22490 AAAATAGACT
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
129 97 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (129 bp):
ATACAATGCATAATCAGATAAACCAAAGTATCTATACTAGCACATACAATGCATAATTAGATAAA
CTGAAATATCTATACTGGAACATACAGTGCATCATCGGATAAACTGAAGTATCTATACTAGCAA
Found at i:22440 original size:43 final size:43
Alignment explanation
Indices: 22244--22528 Score: 300
Period size: 43 Copynumber: 6.6 Consensus size: 43
22234 ATTGTCCTAA
* * *
22244 CACATACAATGCATAATTAGATAAATTGAAGTATCTATACTAG
1 CACATACAGTGCATCATTAGATAAACTGAAGTATCTATACTAG
* * * * *
22287 CACATACAATGCATAATTAGATAATCTGAAATATCTATACTGG
1 CACATACAGTGCATCATTAGATAAACTGAAGTATCTATACTAG
**
22330 CACATACAGTGCATCATCGGATAAACTGAAGTATCTATACTAG
1 CACATACAGTGCATCATTAGATAAACTGAAGTATCTATACTAG
* * * **
22373 CAAATACAGTGCATTATCAGATAAACCAAAGTATCTATACTAG
1 CACATACAGTGCATCATTAGATAAACTGAAGTATCTATACTAG
* * *
22416 CATATATAGTGCATCATTAGATAAACTGAAGTATCTATACTGG
1 CACATACAGTGCATCATTAGATAAACTGAAGTATCTATACTAG
* * * * * * ** *
22459 AACATATAGTGCATTATTGGATAAGCTGAAGAAAATAGACTAG
1 CACATACAGTGCATCATTAGATAAACTGAAGTATCTATACTAG
* * *
22502 CACACATAGTGCATCATTGGATAAACT
1 CACATACAGTGCATCATTAGATAAACT
22529 AAAGAAAATA
Statistics
Matches: 205, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 205 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (43 bp):
CACATACAGTGCATCATTAGATAAACTGAAGTATCTATACTAG
Found at i:22556 original size:86 final size:86
Alignment explanation
Indices: 22337--22606 Score: 204
Period size: 86 Copynumber: 3.1 Consensus size: 86
22327 TGGCACATAC
* * * ** * * * * *
22337 AGTGCATCATCGGATAAACTGAAGTATCTATACTAGCAA-ATACAGTGCATTATCAGATAAACCA
1 AGTGCATCATTGGATAAACTAAAGAAAATATACT-GGAACACACAGTGCATCATCGGATAAATCA
* ** * * *
22401 AAGTATCTATACTAGCATATAT
65 AAGAAAATAGACTAGCACACAT
* * * ** * * * * * *
22423 AGTGCATCATTAGATAAACTGAAGTATCTATACTGGAACATATAGTGCATTATTGGAT-AAGCTG
1 AGTGCATCATTGGATAAACTAAAGAAAATATACTGGAACACACAGTGCATCATCGGATAAATC-A
22487 AAGAAAATAGACTAGCACACAT
65 AAGAAAATAGACTAGCACACAT
** *
22509 AGTGCATCATTGGATAAACTAAAGAAAATATGTTGGCACACACAGTGCATCATCGGATAAATCAA
1 AGTGCATCATTGGATAAACTAAAGAAAATATACTGGAACACACAGTGCATCATCGGATAAATCAA
*
22574 AGAAAATATACT-GTCACACAT
66 AGAAAATAGACTAG-CACACAT
*
22595 AGTGCATGATTG
1 AGTGCATCATTG
22607 CATATACCAA
Statistics
Matches: 150, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
85 7 0.05
86 140 0.93
87 3 0.02
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (86 bp):
AGTGCATCATTGGATAAACTAAAGAAAATATACTGGAACACACAGTGCATCATCGGATAAATCAA
AGAAAATAGACTAGCACACAT
Found at i:22556 original size:129 final size:129
Alignment explanation
Indices: 22279--22561 Score: 305
Period size: 129 Copynumber: 2.2 Consensus size: 129
22269 TTGAAGTATC
* * * *
22279 TATACTAGCACATACAATGCATAATTAGATAATCTGAAATATCTATACTGGCACATACAGTGCAT
1 TATACTAGCACATACAGTGCATCATTAGATAAACTGAAATATCTATACTGGAACATACAGTGCAT
* ** * * * * **
22344 CATCGGATAAACTGAAGTATCTATACTAGCAAATACAGTGCATTATCAGATAAACCAAAGTATC
66 CATCGGATAAACTGAAGAAAATAGACTAGCAAACACAGTGCATCATCAGATAAACCAAAGAAAA
* * * *
22408 TATACTAGCATATATAGTGCATCATTAGATAAACTGAAGTATCTATACTGGAACATATAGTGCAT
1 TATACTAGCACATACAGTGCATCATTAGATAAACTGAAATATCTATACTGGAACATACAGTGCAT
* * * * * ** *
22473 TATTGGATAAGCTGAAGAAAATAGACTAGCACACATAGTGCATCATTGGATAAACTAAAGAAAA
66 CATCGGATAAACTGAAGAAAATAGACTAGCAAACACAGTGCATCATCAGATAAACCAAAGAAAA
** * *
22537 TATGTTGGCACACACAGTGCATCAT
1 TATACTAGCACATACAGTGCATCAT
22562 CGGATAAATC
Statistics
Matches: 123, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (129 bp):
TATACTAGCACATACAGTGCATCATTAGATAAACTGAAATATCTATACTGGAACATACAGTGCAT
CATCGGATAAACTGAAGAAAATAGACTAGCAAACACAGTGCATCATCAGATAAACCAAAGAAAA
Found at i:22618 original size:43 final size:42
Alignment explanation
Indices: 22392--22618 Score: 166
Period size: 43 Copynumber: 5.3 Consensus size: 42
22382 TGCATTATCA
* ** * * *
22392 GATAAACCAAAGTATCTATACTAGCATATATAGTGCATCATTA
1 GATAAACCAAAGAAAATATACT-GCACACATAGTGCATCATTG
** * ** * * *
22435 GATAAACTGAAGTATCTATACTGGAACATATAGTGCATTATTG
1 GATAAACCAAAGAAAATATACT-GCACACATAGTGCATCATTG
* ** *
22478 GATAAGCTGAAGAAAATAGACTAGCACACATAGTGCATCATTG
1 GATAAACCAAAGAAAATATACT-GCACACATAGTGCATCATTG
* ** * *
22521 GATAAACTAAAGAAAATATGTTGGCACACACAGTGCATCATCG
1 GATAAACCAAAGAAAATATACT-GCACACATAGTGCATCATTG
* *
22564 GATAAATCAAAGAAAATATACTGTCACACATAGTGCATGATTG
1 GATAAACCAAAGAAAATATACTG-CACACATAGTGCATCATTG
* *
22607 CATATACCAAAG
1 GATAAACCAAAG
22619 TATAACTTGT
Statistics
Matches: 149, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
42 1 0.01
43 148 0.99
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (42 bp):
GATAAACCAAAGAAAATATACTGCACACATAGTGCATCATTG
Found at i:22690 original size:18 final size:18
Alignment explanation
Indices: 22667--22701 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22657 TCATTATGTG
22667 TTCATCTAACAATCTATT
1 TTCATCTAACAATCTATT
*
22685 TTCATCTCACAATCTAT
1 TTCATCTAACAATCTAT
22702 CAACCCCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (18 bp):
TTCATCTAACAATCTATT
Found at i:24900 original size:27 final size:27
Alignment explanation
Indices: 24862--24918 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
24852 AAATCATGTA
24862 ATATCAACATATACAACCATGATGCCC
1 ATATCAACATATACAACCATGATGCCC
24889 ATATCAACATATACAACCATGATGCCC
1 ATATCAACATATACAACCATGATGCCC
24916 ATA
1 ATA
24919 GGCACCTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.28, G:0.07, T:0.23
Consensus pattern (27 bp):
ATATCAACATATACAACCATGATGCCC
Found at i:26557 original size:22 final size:21
Alignment explanation
Indices: 26527--26573 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
26517 TACAAATTAA
26527 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
26549 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
26570 ATCT
1 ATCT
26574 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:26579 original size:19 final size:19
Alignment explanation
Indices: 26544--26622 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
26534 AGATTACAAG
26544 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
26565 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
26582 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
26601 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
26620 ATC
1 ATC
26623 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:26599 original size:36 final size:38
Alignment explanation
Indices: 26544--26616 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
26534 AGATTACAAG
26544 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
26582 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
26617 CATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:26631 original size:36 final size:35
Alignment explanation
Indices: 26545--26632 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 35
26535 GATTACAAGA
26545 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
26581 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
26617 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
26633 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 32 0.68
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:27538 original size:84 final size:84
Alignment explanation
Indices: 27363--28058 Score: 1046
Period size: 84 Copynumber: 8.3 Consensus size: 84
27353 ATCATCTTGG
* * * * *
27363 ACCCTACTACTTAGGGGGTTAAGGTGCATCGTCTTTGATCTGCTCCGCTACTGCTTA-GG-GATA
1 ACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
*
27426 AGATCTGCAAATTTAACCGGTT
63 AGATCTGCAAATTTAACCTGTT
*
27448 ACCCTACTGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* **
27513 TATGCAAATTTAATATGTT
66 TCTGCAAATTTAACCTGTT
* *
27532 ACCCTACTGCTTAGGGGATTAAGGCGAGTCGTTGTCGATCTGCTTCGCTACTGCTTAGGGAGATA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTC--T-TCGATCTGCTCCACTACTGCTTAGGGAGATA
**
27597 AGATCT----A-CGAACCTGTT
63 AGATCTGCAAATTTAACCTGTT
*
27614 ACCCTACTGCTTAGGGGATTAAGACGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
27679 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* * * *
27698 ACCCTACCGCTTAAGGGATTAAGGCGAGTCTTCGATCTGTTCCACTACTGCTTAGGGAAATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
27763 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* * *
27782 ACCCTAGTACTTAGGGGATTAAGGCGAGTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
27847 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* *
27866 ACCCTACTGCTTAGGGGATTAAAGTGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
27931 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* *
27950 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
28015 TCTGTAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
28034 ACCCTACTGCTTAGGGGATTAAGGC
1 ACCCTACTGCTTAGGGGATTAAGGC
28059 ACTGAATTTT
Statistics
Matches: 556, Mismatches: 45, Indels: 21
0.89 0.07 0.03
Matches are distributed among these distances:
79 35 0.06
80 1 0.00
82 60 0.11
83 4 0.01
84 398 0.72
85 23 0.04
86 1 0.00
87 34 0.06
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (84 bp):
ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTT
Found at i:29045 original size:21 final size:20
Alignment explanation
Indices: 29007--29079 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
28997 AGCCTCTCCA
29007 TTTTTTTTCTATATTCTTTTTTC
1 TTTTTTTT-T-TA-TCTTTTTTC
* *
29030 TATTTTTTTT-TCTCTTTTCC
1 TTTTTTTTTTATCT-TTTTTC
*
29050 TCTTTTTTTTATCTTTTTTCC
1 TTTTTTTTTTATCTTTTTT-C
29071 TTTTTTTTT
1 TTTTTTTTT
29080 GAAATAGAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 3 0.07
20 18 0.43
21 13 0.31
22 1 0.02
23 7 0.17
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTTTTATCTTTTTTC
Found at i:29047 original size:12 final size:12
Alignment explanation
Indices: 29007--29047 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
28997 AGCCTCTCCA
29007 TTTTTTTTCTAT
1 TTTTTTTTCTAT
29019 ATTCTTTTTTCTAT
1 -TT-TTTTTTCTAT
*
29033 TTTTTTTTCTCT
1 TTTTTTTTCTAT
29045 TTT
1 TTT
29048 CCTCTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 12 0.46
13 4 0.15
14 10 0.38
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTTCTAT
Found at i:29047 original size:19 final size:19
Alignment explanation
Indices: 29020--29079 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
29010 TTTTTCTATA
29020 TTCTTTTTT-CTATTTTTTT
1 TTCTTTTTTCCT-TTTTTTT
*
29039 TTCTCTTTTCCTCTTTTTTT
1 TTCTTTTTTCCT-TTTTTTT
29059 TATCTTTTTTCCTTTTTTTT
1 T-TCTTTTTTCCTTTTTTTT
29079 T
1 T
29080 GAAATAGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.22
20 18 0.50
21 10 0.28
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (19 bp):
TTCTTTTTTCCTTTTTTTT
Found at i:29076 original size:29 final size:29
Alignment explanation
Indices: 29021--29076 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
29011 TTTTCTATAT
* *
29021 TCTTTTTTCTATTTTTTTTTCTCTTTTCC
1 TCTTTTTTCTATCTTTTTTCCTCTTTTCC
* *
29050 TCTTTTTTTTATCTTTTTTCCTTTTTT
1 TCTTTTTTCTATCTTTTTTCCTCTTTT
29077 TTTGAAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (29 bp):
TCTTTTTTCTATCTTTTTTCCTCTTTTCC
Done.