Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 81 of 135
Found at i:27232866 original size:431 final size:431
Alignment explanation
Indices: 27231643--27236509 Score: 6408
Period size: 431 Copynumber: 11.3 Consensus size: 431
27231633 AAATAAGTTC
* * * *
27231643 AGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCCTGAGCACGGAATATTCG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* * * *
27231708 AAAAATTATCTTAAAGGAATGGATCATCTTGAATAATTTAAGGAA-CAGAAGTTATAATAGAACT
66 AAAAATT-GCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATC-GAAGTTATAAAAGAACT
* * * * * * *
27231772 CATACAAGCTTGACAAGTTCGAAAGTTCGGCTAAGAACCAAGAAAGAAACAACTCTCATGTAAAT
129 CGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAAT
* *
27231837 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGATAAAC-ACTTTAGACCAAATGGTGC
194 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAGACCAAATGATGC
* * * **
27231901 GATTTCTCAAGCATGTAATGTTCGAAAAGTTGCTCGAAGGAATGGATTGTCTTGAATACTTTAAG
258 GATTTCTCGAGCATGGAATGTTCGAAAAATTGCTC-AAGGAATGGATCATCTTGAATACTTTAAG
* * * * *
27231966 GAACCGAAGTTATAAAAGAACTCATATAAGTTTGACAAGTTCAGAAGTTCGGCCAAGAACCAAGA
322 GAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGA
* * * *
27232031 GAGAAACAACTCTCATGTAAATAAGTTTTTAATTCAAATAACAAA
387 GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* ** * *
27232076 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTT-TTGAGTATGGAATGTTTG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* * *
27232140 AAAAATTGCTCGATGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCG
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCG
* * * *
27232205 TAAAAGTTTGACGAGTTCGAAAG-TTCGACAAGAACCAAGAGAGAAACAACTCTCACGTGAATAA
131 TAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAA
* ** * * * *
27232269 GTTTTTATTTCATTGACCAAAA-TTGTTTACAAAGTTAGAAACTATTTGGACCAAATGATGCGAT
196 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGAT
* * * * * * *
27232333 TTATCGAGCTTGGGATGATT-GGAAAATTGCTCGAAGGAATGGACCGTCTTGAATGCTTTAAGGA
261 TTCTCGAGCATGGAATG-TTCGAAAAATTGCTC-AAGGAATGGATCATCTTGAATACTTTAAGGA
* *
27232397 ATCGAAGTTATAAAAGAACTCTTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGA
324 ATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAGA
27232462 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
389 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* ** * *
27232505 AGTTGTTTACAAAATGACAAAGTATTTAGACCAAATGAAACGATTTCTCGAGCTTGGAATGTTCG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* ** * **
27232570 AAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTTTATGGAATCGATAAATATAAAAGAACTC
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATCGA-AGTTATAAAAGAACTC
* * * *
27232635 GTAAAAGTTTGGCAAGTTCAAAAGTTTAGCCAAGAACCAAGAGAGAAACAACTGTCACGTAAATA
130 GTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATA
* * ** * * * *
27232700 A-ATTTTAATTCAAATACC-AATTTTTTTTACAAAATGACAAACTATTTAGAACAAATGATCCAA
195 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * * * *
27232763 CTTT-TCGAGCATGGAATGTTTGAAAAATTTCACAACGAAATGGATCATCTTGAATAATATAAGG
260 -TTTCTCGAGCATGGAATGTTCGAAAAATTGCTCAA-GGAATGGATCATCTTGAATACTTTAAGG
* *
27232827 AATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTTGACCAAGAACCAAGAG
323 AATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAG
27232892 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
388 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * *
27232936 TGTTGTTTACAAAATGACAAACTATTTAGACTAAATGATGCGATTTCCCGAGCATGGAATGTTTG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* * *
27233001 GAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAA-CAGAAGTTATAACAGAACTC
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATC-GAAGTTATAAAAGAACTC
* * ** * * *
27233065 GTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTCTCATGTAGATA
130 GTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATA
*
27233130 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGA
195 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* *
27233195 TTTCTCGAGCATGAAATGTTCGAAAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGA
260 TTTCTCGAGCATGGAATGTTCGAAAAATTGCTC-AAGGAATGGATCATCTTGAATACTTTAAGGA
* * *
27233260 A-CATAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCGGCCAAGAACCAAGAG
324 ATC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAG
27233324 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
388 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * *
27233368 AGTTGTTTACAAAATGACAAAGTATTTAGACCAAATGATACGATTTCCCGAGCTTGGAATGTTCG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* ** * **
27233433 AAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTTTATGGAATCGATAAATATAAAAGAACTC
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATCGA-AGTTATAAAAGAACTC
* * *
27233498 GTAAAAGTATGGCAAGTTC-AAACGTTTGGCCAAGAACCAAGAGAGAAACAACTATCACGTAAAT
130 GTAAAAGTTTGACAAGTTCGAAA-GTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAAT
* ** * * * *
27233562 AA-ATTTTAATTCAAAGACC-AATTTTTTTTACAAAATGACAAACTATTTAGAACAAATGATCCA
194 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCG
* * * * * *
27233625 ATTTCCCGAGCATGGAATGTTCGAAAAATTTCACGACGGAATGGATCTTCTTGAATAATTTAAGG
259 ATTTCTCGAGCATGGAATGTTCGAAAAATTGCTC-AAGGAATGGATCATCTTGAATACTTTAAGG
*
27233690 AATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGACCAAGAACCAAGAG
323 AATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAG
27233755 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
388 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * *
27233799 TGTTGTTTACAAAATGACAAACTATTTAGACTAAATGATGCGATTTCCCGAGCATGGAATGTTTG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* * *
27233864 GAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAA-CAGAAGTTATAACAGAACTC
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATC-GAAGTTATAAAAGAACTC
* * ** * * * *
27233928 GTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTTTCATGTAGATA
130 GTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATA
* * *
27233993 AGTTTTTAATTCAAAGACCAAAAGTTATTTACAAAAAGACAAACTATTTAGACCAAATGATACGA
195 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * *
27234058 TTTCCCGAGCATGAAATGTTCGAAAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGA
260 TTTCTCGAGCATGGAATGTTCGAAAAATTGCTC-AAGGAATGGATCATCTTGAATACTTTAAGGA
* * * *
27234123 A-CATAAGTTATAATAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAG
324 ATC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAG
27234187 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
388 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * *
27234231 TGTTGTTTACAAAATGACAAACTATTTAAACTAAATGATGCCATTTCCCGAGCATGGAATGTTTG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
*
27234296 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAA-CTGAAGTTATAAATGAACTC
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATC-GAAGTTATAAAAGAACTC
* * *
27234360 GTAAAAGTTTGACAAGTTCGAAAGTTCGACCAAGAACCAAGAGAGAAACAACTCTCACGTGAATA
130 GTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATA
* ** * * *
27234425 AGTTTTTATTTCATTGACCAAAAATTGTTTACAAAGTGACAAACTATTTGGACCAAATGATGCGA
195 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * * * * *
27234490 TTTCTCGAGCTTGTAAT-TATTGGAAAATTGCTTGAAGGAATGGACCGTCTTGAATACTTTAAGG
260 TTTCTCGAGCATGGAATGT-TCGAAAAATTGC-TCAAGGAATGGATCATCTTGAATACTTTAAGG
* *
27234554 AATCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGTTCGGAAGTTTGACCAAGAACCAAGAG
323 AATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAG
27234619 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
388 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * *
27234663 AGTTGTTTACAAAATGACAAAGTATTTAGACCAAAGGATACGATTTCCCGAGCATGGATTGTTGG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* * * * **
27234728 AAAAATTGGTCAAAGGAATGGATCGTTTTGAATACTTTATGGAATCGAAAATATAAAAGAACTCG
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCG
* *
27234793 TAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTTAATAA
131 TAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAA
* * * * * * *
27234858 ATTTATAATTCAATGACC-AAATTTTTTTATAAAATGACAAACTATTTAGACCAAATGATTCGAT
196 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGAT
* * * * *
27234922 TTCCCGAGAATGGAATGTTCGAAAAATTTCACAACGGAATGGAT-AGTCTTGAATACTTTACGGA
261 TTCTCGAGCATGGAATGTTCGAAAAATTGCTCAA-GGAATGGATCA-TCTTGAATACTTTAAGGA
*
27234986 ATCGAAGTTATATAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAGA
324 ATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAGA
* *
27235051 GAAACAATTCTCACGTAAATAAATTTTTAATTCAAACACCAAA
389 GAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * *
27235094 AGTTGTTTACAAAATTACAAACTATTTAGACCAAATGATACGATTTCCCGAGCTTGAAATGTTCG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* * ** * * * **
27235159 AAAAATTGTTCAAATGAATGGATTGTCTTAAATACTTTATGGAATCAAAAATATAAAAGAACTCG
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCG
27235224 TAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAA
131 TAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAA
* * *** * * *
27235289 -ATTTAAATTCAAAGACCAATTTTTTTTTACAAAATGACAAACTATTTAGAACAAATGATCCGAT
196 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGAT
* * * * * * * *
27235353 TTCCCGAGCATGGAATGTTCGGAAAATTTCACGATGAAATGGATCGTCTTGAATAATTTAAGGAA
261 TTCTCGAGCATGGAATGTTCGAAAAATTGCTC-AAGGAATGGATCATCTTGAATACTTTAAGGAA
*
27235418 TCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAAAGAG
325 TCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAGAG
27235483 AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
390 AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * * * *
27235525 TGTTATTTACAAAATGACAAACTATTTAGACTAAATGATGCGATTTTCCGAGCATGGAATGTTTG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
* * *
27235590 GAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAA-CAGAAGTTATAATAGAACTC
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATC-GAAGTTATAAAAGAACTC
* * ** * * **
27235654 ATAAAAGATTGACAAGTTCGAAAGTTCAGCCAAGAACTAAGAGGGAAACAACTCTCATTTAAATA
130 GTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATA
* *
27235719 AGTTTATAATTCAAAGACCAAAAGTTGTTTACAAAA-GACAAACTATTTAGACCAAATGATGTGA
195 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * *
27235783 TTTCCCGAGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGTGGATCATATTGAATACTTTAAG
260 TTTCTCGAGCATGGAATGTTCGAAAAATTGCTC-AAGGAA--TGGATCATCTTGAATACTTTAAG
* * *
27235848 GAA-CATAAGTTATAATAA-AACTCGTAAAAGTTTGACAAGTTTGAAAGTTTGGCCAAGAACCAA
322 GAATC-GAAGTTATAA-AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAA
* * * *
27235911 GAGAGAATCAACTCTCATGTAAATAAGTTTTTAATTTAAAGACCAAA
385 GAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
* * *
27235958 AGTTGTTTACAAAATGATAAAC-ACTTTAGACCAAATGATGCGATTTCTCGAGCATGTAATGTTC
1 AGTTGTTTACAAAATGACAAACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC
* * * **
27236022 GGAAAATTGCTCGAAGAAATGGATTGTCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTC
65 GAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTC
* * * * **
27236087 GTAAAAGTTTGATAAGTTCGGAAGTTCGGCCAAAAACTGAGAGAGAAACAACTCTCACGTAAATA
130 GTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATA
*
27236152 AGTTTTTAATTCAAATACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
195 AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA
* * * * ** *
27236217 TTT-TTGAGCATGGAATGTTCAAAAAATTGCTTGATGGAATGGATCGCCTTGAATATTTTAAGGA
260 TTTCTCGAGCATGGAATGTTCGAAAAATTGC-TCAAGGAATGGATCATCTTGAATACTTTAAGGA
*
27236281 A-CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAG
324 ATC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAG
* * * * * *
27236345 AGAAACAACTCTCACGTGAATAAGTTCTCATTTCATTA-ACCAAA
388 AGAAACAATTCTCACGTAAATAAGTTTTTAATTCA-AAGACCAAA
** * * * * * *
27236389 AACTATTTACAAAGTGACAAACTATTTGGACCAAATGATGCGATTTCTCGAGCTTTGAATGTTCG
1 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
** * * * * *
27236454 GCAAATTGATCAATGGACTGGATCTTCTTGAATACTTTAAGGAATTGAAGTTATAA
66 AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAA
27236510 TTTATCCATA
Statistics
Matches: 3913, Mismatches: 473, Indels: 98
0.87 0.11 0.02
Matches are distributed among these distances:
429 230 0.06
430 273 0.07
431 1736 0.44
432 1177 0.30
433 463 0.12
434 34 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (431 bp):
AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCG
AAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCG
TAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTAAATAA
GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGAT
TTCTCGAGCATGGAATGTTCGAAAAATTGCTCAAGGAATGGATCATCTTGAATACTTTAAGGAAT
CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAGAGA
AACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAA
Found at i:27233337 original size:863 final size:864
Alignment explanation
Indices: 27231441--27236509 Score: 6855
Period size: 863 Copynumber: 5.9 Consensus size: 864
27231431 CCCTTAATTG
* * * **
27231441 CAAAAGGTT-TTTACAAAATGACAAACTATTTAGACCAAATTATGCGGTTT-TTGAGCATGGAAT
1 CAAAA-GTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * * *
27231504 GTTTTG-AAAATTGCTCGAAAGAATGGACCATCTTGAATACTTTAAGGAACCA-AAGTTATAAAA
65 G-TTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAATCATAAGTTATAAAA
* * *
27231567 GAACTCGTAAAAATTTGACATGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACG
129 GAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACG
*
27231632 TAAATAAG-------TT-------C---AGTTGTTTACAAAAAGACAAACTATTTAGACCAAATG
194 TAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATG
* * * * * * ** *
27231680 ATGCGATTTCCTGAGCACGGAATATTCGAAAAATTATCTTAAAGGAATGGATCATCTTGAATAAT
259 ATACGATTTCCCGAGCATGGAATGTTCGAAAAATTGT-TCAAAGGAATGGATTGTCTTGAATACT
** * * * * * *
27231745 TTAAGGAA-CAGAAGTTATAATAGAACTCATACAAGCTTGACAAGTTCGAAAGTTCGGCTAAGAA
323 TTAAGGAATC-GAAAATATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAA
* * * *
27231809 CCAAGAAAGAAACAACTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAA
387 CCAAGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAATTTGTTTACAAAA
* * * * * * * *
27231874 TGATAAAC-ACTTTAGACCAAATGGTGCGATTTCTCAAGCATGTAATGTTCGAAAAGTTGCTCGA
452 TGACAAACTA-TTTAGAACAAATGATCCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCAC-A
* * * * *
27231938 AGGAATGGATTGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCATATAAGTTTGACA
515 AGGAATGGATCGTCTTGAATAATTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACA
* * * * *
27232003 AGTTCAGAAGTTCGGCCAAGAACCAAGAGAGAAACAACTCTCATGTAAATAAGTTTTTAATTCAA
580 AGTTCGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
* * * ** *
27232068 ATAACAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTT-TTGAGTATGG
645 AGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * *
27232132 AATGTTTGAAAAATTGCTCGATGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAA
710 AATGTTTGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATAAA
* * * * * *
27232197 AGAACTCGTAAAAGTTTGACGAGTTCGAAAGTTC-GACAAGAACCAAGAGAGAAACAACTCTCAC
775 AGAACTCGTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTCTCAT
* **
27232261 GT-GAATAAGTTTTTATTTCATTGAC
840 GTAG-ATAAGTTTTTAATTCAAAGAC
*** * * ** * *
27232286 CAAAA-TTGTTTACAAAGTTAGAAACTATTTGGACCAAATGATGCGATTTATCGAGCTTGGGATG
1 CAAAAGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* * * * *
27232350 ATT-GGAAAATTGCTCGAAGGAATGGACCGTCTTGAATGCTTTAAGGAATC-GAAGTTATAAAAG
66 -TTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAATCATAAGTTATAAAAG
*
27232413 AACTCTTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGT
130 AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGT
*
27232478 AAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAGTATTTAGACCAAATGA
195 AAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGA
* * *
27232543 AACGATTTCTCGAGCTTGGAATGTTCGAAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTTT
260 TACGATTTCCCGAGCATGGAATGTTCGAAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTTT
* * * *
27232608 ATGGAATCGATAAATATAAAAGAACTCGTAAAAGTTTGGCAAGTTCAAAAGTTTAGCCAAGAACC
325 AAGGAATCGA-AAATATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACC
* * * *
27232673 AAGAGAGAAACAACTGTCACGTAAATAA-ATTTTAATTCAAATACC-AATTTTTTTTACAAAATG
389 AAGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAATTTGTTTACAAAATG
* * *
27232736 ACAAACTATTTAGAACAAATGATCCAACTTT-TCGAGCATGGAATGTTTGAAAAATTTCACAACG
454 ACAAACTATTTAGAACAAATGATCCGA-TTTCTCGAGCATGGAATGTTCGAAAAATTGCACAA-G
* * *
27232800 AAATGGATCATCTTGAATAATATAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG
517 GAATGGATCGTCTTGAATAATTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG
*
27232865 TTTGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
582 TTCGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* *
27232930 ACCAAATGTTGTTTACAAAATGACAAACTATTTAGACTAAATGATGCGATTTCCCGAGCATGGAA
647 ACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
*
27232995 TGTTTGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATAACAG
712 TGTTTGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATAAAAG
27233060 AACTCGTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTCTCATGT
777 AACTCGTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTCTCATGT
27233125 AGATAAGTTTTTAATTCAAAGAC
842 AGATAAGTTTTTAATTCAAAGAC
* *
27233148 CAAAAGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGAAATG
1 CAAAAGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
*
27233213 TTCGAAAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGAA-CATAAGTTATAAAAGA
66 TTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAATCATAAGTTATAAAAGA
*
27233277 ACTCGTAAAAGTTTGACAAGTTTGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTA
131 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTA
*
27233342 AATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAAGTATTTAGACCAAATGAT
196 AATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAT
*
27233407 ACGATTTCCCGAGCTTGGAATGTTCGAAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTTTA
261 ACGATTTCCCGAGCATGGAATGTTCGAAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTTTA
* * *
27233472 TGGAATCGATAAATATAAAAGAACTCGTAAAAGTATGGCAAGTTC-AAACGTTTGGCCAAGAACC
326 AGGAATCGA-AAATATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAA-GTTTGGCCAAGAACC
* * *
27233536 AAGAGAGAAACAACTATCACGTAAATAA-ATTTTAATTCAAAGACC-AATTTTTTTTACAAAATG
389 AAGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAATTTGTTTACAAAATG
* * * *
27233599 ACAAACTATTTAGAACAAATGATCCAATTTCCCGAGCATGGAATGTTCGAAAAATTTCACGACGG
454 ACAAACTATTTAGAACAAATGATCCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCAC-AAGG
*
27233664 AATGGATCTTCTTGAATAATTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
518 AATGGATCGTCTTGAATAATTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
27233729 TCGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
583 TCGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* *
27233794 CCAAATGTTGTTTACAAAATGACAAACTATTTAGACTAAATGATGCGATTTCCCGAGCATGGAAT
648 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
27233859 GTTTGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATAACAGA
713 GTTTGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATAAAAGA
*
27233924 ACTCGTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTTTCATGTA
778 ACTCGTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTCTCATGTA
27233989 GATAAGTTTTTAATTCAAAGAC
843 GATAAGTTTTTAATTCAAAGAC
* * *
27234011 CAAAAGTTATTTACAAAAAGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCATGAAATG
1 CAAAAGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* *
27234076 TTCGAAAAATTGCTCGAAGGAATGGATTATCTTGAATACTTTAAGGAA-CATAAGTTATAATAGA
66 TTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAATCATAAGTTATAAAAGA
*
27234140 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTA
131 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTA
* * *
27234205 AATAAGTTTTTAATTCAAAGACCAAATGTTGTTTACAAAATGACAAACTATTTAAACTAAATGAT
196 AATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAT
* * * * **
27234270 GCCATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTA
261 ACGATTTCCCGAGCATGGAATGTTCGAAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTTTA
** * * *
27234335 AGGAA-CTGAAGTTATAAATGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGACCAAGAACCA
326 AGGAATC-GAAAATATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCA
* * * ** * *
27234399 AGAGAGAAACAACTCTCACGTGAATAAGTTTTTATTTCATTGACCAAAAATTGTTTACAAAGTGA
390 AGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAATTTGTTTACAAAATGA
* * * * * * * **
27234464 CAAACTATTTGGACCAAATGATGCGATTTCTCGAGCTTGTAAT-TATTGGAAAATTGCTTGAAGG
455 CAAACTATTTAGAACAAATGATCCGATTTCTCGAGCATGGAATGT-TCGAAAAATTGC-ACAAGG
* * *
27234528 AATGGACCGTCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCATAAAAGTTTGACAAGT
518 AATGGATCGTCTTGAATAATTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
27234593 TCGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
583 TCGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
27234658 CCAAAAGTTGTTTACAAAATGACAAAGTATTTAGACCAAAGGATACGATTTCCCGAGCATGGATT
648 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * * * * **
27234723 G-TTGGAAAAATTGGTCAAAGGAATGGATCGTTTTGAATACTTTATGGAATC-GAAAATATAAAA
713 GTTTGG-AAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAA-CAGAAGTTATAAAA
* ** * *
27234786 GAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACG
776 GAACTCGTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTCTCATG
* * *
27234851 TTA-ATAAATTTATAATTCAATGAC
841 -TAGATAAGTTTTTAATTCAAAGAC
* * * * * *
27234875 C-AAATTTTTTTATAAAATGACAAACTATTTAGACCAAATGATTCGATTTCCCGAGAATGGAATG
1 CAAAAGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* * * * *
27234939 TTCGAAAAATTTCAC-AACGGAATGGAT-AGTCTTGAATACTTTACGGAATC-GAAGTTATATAA
66 TTCGAAAAATTGCTCGAA-GGAATGGATCA-TCTTGAATACTTTAAGGAATCATAAGTTATAAAA
*
27235001 GAACTCGTAAAAGTTTGACAAGTTCGGAAGTTTGGCCAAGAACCAAGAGAGAAACAATTCTCACG
129 GAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACG
* * *
27235066 TAAATAAATTTTTAATTCAAACACCAAAAGTTGTTTACAAAATTACAAACTATTTAGACCAAATG
194 TAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATG
* * * *
27235131 ATACGATTTCCCGAGCTTGAAATGTTCGAAAAATTGTTCAAATGAATGGATTGTCTTAAATACTT
259 ATACGATTTCCCGAGCATGGAATGTTCGAAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTT
* *
27235196 TATGGAATCAAAAATATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACC
324 TAAGGAATCGAAAATATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACC
* ** *
27235261 AAGAGAGAAACAACTCTCACGTAAATAA-ATTTAAATTCAAAGACCAATTTTTTTTTACAAAATG
389 AAGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAATTTGTTTACAAAATG
* * * * *
27235325 ACAAACTATTTAGAACAAATGATCCGATTTCCCGAGCATGGAATGTTCGGAAAATTTCACGATGA
454 ACAAACTATTTAGAACAAATGATCCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCAC-AAGG
27235390 AATGGATCGTCTTGAATAATTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
518 AATGGATCGTCTTGAATAATTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* *
27235455 TCGGAAGTTTGGCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
583 TCGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
27235520 CCAAATGTTATTTACAAAATGACAAACTATTTAGACTAAATGATGCGATTTTCCGAGCATGGAAT
648 CCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
27235585 GTTTGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATAATAGA
713 GTTTGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATAAAAGA
* * * * *
27235650 ACTCATAAAAGATTGACAAGTTCGAAAGTTCAGCCAAGAACTAAGAGGGAAACAACTCTCATTTA
778 ACTCGTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTCTCATGTA
* *
27235715 AATAAGTTTATAATTCAAAGAC
843 GATAAGTTTTTAATTCAAAGAC
*
27235737 CAAAAGTTGTTTAC-AAAAGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATG
1 CAAAAGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* *
27235801 TTCGGAAAATTGCTCGAAGGAATGTGGATCATATTGAATACTTTAAGGAA-CATAAGTTATAATA
66 TTCGAAAAATTGCTCGAAGGAA--TGGATCATCTTGAATACTTTAAGGAATCATAAGTTATAA-A
* * * * * *
27235865 A-AACTCGTAAAAGTTTGACAAGTTTGAAAGTTTGGCCAAGAACCAAGAGAGAATCAACTCTCAT
128 AGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCAC
* *
27235929 GTAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTTTACAAAATGATAAAC-ACTTTAGACCAAA
193 GTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTA-TTTAGACCAAA
* * * * * * *
27235993 TGATGCGATTTCTCGAGCATGTAATGTTCGGAAAATTGCTCGAAGAAATGGATTGTCTTGAATAC
257 TGATACGATTTCCCGAGCATGGAATGTTCGAAAAATTGTTCAAAGGAATGGATTGTCTTGAATAC
** * * * *
27236058 TTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGATAAGTTCGGAAGTTCGGCCAAAAA
322 TTTAAGGAATCGAAAATATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAA
** * * *
27236123 CTGAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAATACCAAAAGTTGTTTACAAAA
387 CCAAGAGAGAAACAACTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAATTTGTTTACAAAA
* * * * ** *
27236188 TGACAAACTATTTAGACCAAATGATGCGATTT-TTGAGCATGGAATGTTCAAAAAATTGCTTGAT
452 TGACAAACTATTTAGAACAAATGATCCGATTTCTCGAGCATGGAATGTTCGAAAAATTGC-ACAA
* *
27236252 GGAATGGATCGCCTTGAATATTTTAAGGAA-CTGAAGTTATAAAAGAACTCGTAAAAGTTTGACA
516 GGAATGGATCGTCTTGAATAATTTAAGGAATC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACA
* * * * * * *
27236316 AGTTCGAAAGTTTGGCCAAGAACCAAGAGAGAAACAACTCTCACGTGAATAAGTTCTCATTTCAT
580 AGTTCGGAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA-
* ** * * * * * *
27236381 TA-ACCAAAAACTATTTACAAAGTGACAAACTATTTGGACCAAATGATGCGATTTCTCGAGCTTT
644 AAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATG
* * * * * **
27236445 GAATGTTCGGCAAATTGATC-AATGGACTGGATCTTCTTGAATACTTTAAGGAATTGAAGTTATA
709 GAATGTTTGGAAAATTGCTCGAA-GGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATA
27236509 A
773 A
27236510 TTTATCCATA
Statistics
Matches: 3773, Mismatches: 385, Indels: 113
0.88 0.09 0.03
Matches are distributed among these distances:
843 2 0.00
844 36 0.01
845 139 0.04
852 2 0.00
859 3 0.00
860 222 0.06
861 153 0.04
862 711 0.19
863 1532 0.41
864 909 0.24
865 64 0.02
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (864 bp):
CAAAAGTTGTTTACAAAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
TTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAATCATAAGTTATAAAAGA
ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACCAAGAGAGAAACAATTCTCACGTA
AATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGAT
ACGATTTCCCGAGCATGGAATGTTCGAAAAATTGTTCAAAGGAATGGATTGTCTTGAATACTTTA
AGGAATCGAAAATATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTTGGCCAAGAACCAA
GAGAGAAACAACTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAATTTGTTTACAAAATGAC
AAACTATTTAGAACAAATGATCCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCACAAGGAAT
GGATCGTCTTGAATAATTTAAGGAATCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCG
GAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA
AAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTT
TGGAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACT
CGTAAAAGCTTGACAAGTTCGGAAGTTCAGCCAAGAACCAAGAGGGAAACAACTCTCATGTAGAT
AAGTTTTTAATTCAAAGAC
Found at i:27236894 original size:24 final size:24
Alignment explanation
Indices: 27236865--27236919 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
27236855 TTTCATTGCC
**
27236865 ATCCTTTTTGACCTTGTCAATGAT
1 ATCCTTTTCAACCTTGTCAATGAT
* *
27236889 ATCCTTTTCAACCTTTTCATTGAT
1 ATCCTTTTCAACCTTGTCAATGAT
27236913 ATCCTTT
1 ATCCTTT
27236920 CGGATAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.49
Consensus pattern (24 bp):
ATCCTTTTCAACCTTGTCAATGAT
Found at i:27236967 original size:40 final size:39
Alignment explanation
Indices: 27236889--27237030 Score: 239
Period size: 39 Copynumber: 3.6 Consensus size: 39
27236879 TGTCAATGAT
27236889 ATCCTTTTCAACCTTTTCATTGATATCCTTTCGGATAAC
1 ATCCTTTTCAACCTTTTCATTGATATCCTTTCGGATAAC
* **
27236928 ATCCTTTTCAACCTTTCCATTTGATATCCTTTCATATAAC
1 ATCCTTTTCAACCTTTTCA-TTGATATCCTTTCGGATAAC
27236968 ATCCTTTTCAACCTTTTCATTGATATCCTTTCGGATAAC
1 ATCCTTTTCAACCTTTTCATTGATATCCTTTCGGATAAC
*
27237007 ATCCTTTTTAACCTTTTCATTGAT
1 ATCCTTTTCAACCTTTTCATTGAT
27237031 TCAGAAATAC
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 59 0.62
40 36 0.38
ACGTcount: A:0.23, C:0.25, G:0.06, T:0.46
Consensus pattern (39 bp):
ATCCTTTTCAACCTTTTCATTGATATCCTTTCGGATAAC
Found at i:27237226 original size:20 final size:20
Alignment explanation
Indices: 27237188--27237226 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27237178 ATATATCAAT
* *
27237188 TAATGTTTTAAATTCAAATG
1 TAATATTTTAAAATCAAATG
*
27237208 TAATATTTTAAAATGAAAT
1 TAATATTTTAAAATCAAAT
27237227 ATGAACTTAC
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:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (20 bp):
TAATATTTTAAAATCAAATG
Found at i:27238595 original size:25 final size:23
Alignment explanation
Indices: 27238555--27238600 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
27238545 TCTTTAATAT
* *
27238555 TGAGAGAAAATTTGTGTTTGGAA
1 TGAGAGAAAATCTGTGGTTGGAA
27238578 TGAGAGAAAATCACTGTGGTTGG
1 TGAGAGAAAAT--CTGTGGTTGG
27238601 TTAATTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.30
Consensus pattern (23 bp):
TGAGAGAAAATCTGTGGTTGGAA
Found at i:27242952 original size:15 final size:15
Alignment explanation
Indices: 27242932--27242970 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
27242922 TCATTAGACT
27242932 GATTTTGATATTAAG
1 GATTTTGATATTAAG
27242947 GATTTTGATATTAAG
1 GATTTTGATATTAAG
27242962 GATTTTGAT
1 GATTTTGAT
27242971 TCTTCTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.49
Consensus pattern (15 bp):
GATTTTGATATTAAG
Found at i:27244420 original size:16 final size:15
Alignment explanation
Indices: 27244391--27244419 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27244381 AGGTGTAGTA
27244391 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
27244406 AAATATTAAAAAAA
1 AAATATTAAAAAAA
27244420 AGACACATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:27245347 original size:12 final size:11
Alignment explanation
Indices: 27245326--27245380 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
27245316 TTGGGTTAGT
27245326 TAAAGGAAAAAA
1 TAAA-GAAAAAA
27245338 TAAAGCAAAAAA
1 TAAAG-AAAAAA
27245350 -AAAGAAAAAA
1 TAAAGAAAAAA
*
27245360 GAAA-AAAGAAA
1 TAAAGAAA-AAA
*
27245371 AAAAGAAAAA
1 TAAAGAAAAA
27245381 GGACACCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 9 0.24
11 16 0.42
12 13 0.34
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.04
Consensus pattern (11 bp):
TAAAGAAAAAA
Found at i:27245359 original size:7 final size:7
Alignment explanation
Indices: 27245347--27245380 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
27245337 ATAAAGCAAA
27245347 AAAAAAG
1 AAAAAAG
27245354 AAAAAAG
1 AAAAAAG
27245361 AAAAAAG
1 AAAAAAG
27245368 AAAAAAAG
1 -AAAAAAG
27245376 AAAAA
1 AAAAA
27245381 GGACACCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:27245364 original size:14 final size:15
Alignment explanation
Indices: 27245347--27245380 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
27245337 ATAAAGCAAA
27245347 AAAAAAG-AAAAAAG
1 AAAAAAGAAAAAAAG
27245361 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
27245376 AAAAA
1 AAAAA
27245381 GGACACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:27245653 original size:36 final size:36
Alignment explanation
Indices: 27245603--27245676 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
27245593 GTTTGTTAAT
*
27245603 GAAGTTTACCGTGTAACAATAATTTTTCATTTCTGG
1 GAAGTTTACCGTGTAACAATAATTTTCCATTTCTGG
* *
27245639 GAAGTTTACTGTGTAATAATAATTTTCCATTTCTGG
1 GAAGTTTACCGTGTAACAATAATTTTCCATTTCTGG
27245675 GA
1 GA
27245677 TAGTATGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (36 bp):
GAAGTTTACCGTGTAACAATAATTTTCCATTTCTGG
Found at i:27246914 original size:2 final size:2
Alignment explanation
Indices: 27246907--27246941 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
27246897 GAAACTGAAA
* *
27246907 CT CT CT CT CT CT CT GT CT CT CT CT GT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
27246942 ACAAACTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.46, G:0.06, T:0.49
Consensus pattern (2 bp):
CT
Found at i:27246925 original size:10 final size:10
Alignment explanation
Indices: 27246907--27246940 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
27246897 GAAACTGAAA
*
27246907 CTCTCTCTCT
1 CTCTGTCTCT
27246917 CTCTGTCTCT
1 CTCTGTCTCT
27246927 CTCTGTCTCT
1 CTCTGTCTCT
27246937 CTCT
1 CTCT
27246941 CACAAACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.44, G:0.06, T:0.50
Consensus pattern (10 bp):
CTCTGTCTCT
Found at i:27254311 original size:52 final size:52
Alignment explanation
Indices: 27254252--27254356 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
27254242 TATGGTAGAA
27254252 ATTTTACTGCTTTCCACAAATAAAGCCAACGTTATATATTTATTGTTTTTTT
1 ATTTTACTGCTTTCCACAAATAAAGCCAACGTTATATATTTATTGTTTTTTT
27254304 ATTTTACTGCTTTCCACAAATAAAGCCAACGTTATATATTTATTGTTTTTTT
1 ATTTTACTGCTTTCCACAAATAAAGCCAACGTTATATATTTATTGTTTTTTT
27254356 A
1 A
27254357 ATATTATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.48
Consensus pattern (52 bp):
ATTTTACTGCTTTCCACAAATAAAGCCAACGTTATATATTTATTGTTTTTTT
Found at i:27262040 original size:20 final size:20
Alignment explanation
Indices: 27262017--27262057 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27262007 TAATTCAAAT
27262017 TAAATTGGATTAAAAATAAA
1 TAAATTGGATTAAAAATAAA
27262037 TAAATTGGATTAAAAATAAA
1 TAAATTGGATTAAAAATAAA
27262057 T
1 T
27262058 TATAAAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (20 bp):
TAAATTGGATTAAAAATAAA
Found at i:27265639 original size:18 final size:18
Alignment explanation
Indices: 27265612--27265646 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27265602 GTCTGACCCT
*
27265612 CGAAGCTGTCAACGTAAC
1 CGAAGATGTCAACGTAAC
*
27265630 CGAAGATGTCAGCGTAA
1 CGAAGATGTCAACGTAA
27265647 TCCTATGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (18 bp):
CGAAGATGTCAACGTAAC
Found at i:27271759 original size:17 final size:17
Alignment explanation
Indices: 27271737--27271769 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27271727 TTTTAGTGCA
*
27271737 CATTGTTATTGCATTTC
1 CATTGTCATTGCATTTC
27271754 CATTGTCATTGCATTT
1 CATTGTCATTGCATTT
27271770 TAGTGTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (17 bp):
CATTGTCATTGCATTTC
Found at i:27275428 original size:25 final size:26
Alignment explanation
Indices: 27275400--27275473 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 26
27275390 AAACTTCTAA
27275400 AAAAACTC-AAGAGTAATTCTTGAAG
1 AAAAACTCAAAGAGTAATTCTTGAAG
27275425 AAAAACTCAAAGAGAAGAGTAATTCTTGAAG
1 AAAAACTC----A-AAGAGTAATTCTTGAAG
27275456 AAAAACTCAAAGAG-AATT
1 AAAAACTCAAAGAGTAATT
27275474 ATTATTAGCT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
25 12 0.28
26 5 0.12
27 1 0.02
31 25 0.58
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.20
Consensus pattern (26 bp):
AAAAACTCAAAGAGTAATTCTTGAAG
Found at i:27275443 original size:31 final size:31
Alignment explanation
Indices: 27275408--27275471 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
27275398 AAAAAAACTC
27275408 AAGAGTAATTCTTGAAGAAAAACTCAAAGAG
1 AAGAGTAATTCTTGAAGAAAAACTCAAAGAG
27275439 AAGAGTAATTCTTGAAGAAAAACTCAAAGAG
1 AAGAGTAATTCTTGAAGAAAAACTCAAAGAG
27275470 AA
1 AA
27275472 TTATTATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (31 bp):
AAGAGTAATTCTTGAAGAAAAACTCAAAGAG
Found at i:27276538 original size:24 final size:24
Alignment explanation
Indices: 27276506--27276561 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
27276496 TGTATGGGTA
27276506 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
27276530 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
27276554 TCCTCTTG
1 TCTTCTTG
27276562 AGAACTCTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:27284273 original size:18 final size:18
Alignment explanation
Indices: 27284246--27284289 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
27284236 GCAAGTTGAA
*
27284246 GAAGATGAAGAAGATCCT
1 GAAGAAGAAGAAGATCCT
27284264 GAAGAAGAAGAAGATCCT
1 GAAGAAGAAGAAGATCCT
27284282 GAAGAAGA
1 GAAGAAGA
27284290 TCCTGTGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.50, C:0.09, G:0.30, T:0.11
Consensus pattern (18 bp):
GAAGAAGAAGAAGATCCT
Found at i:27285573 original size:21 final size:21
Alignment explanation
Indices: 27285547--27285591 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
27285537 AGTTAAGAAG
*
27285547 AAGTATTAAA-ATGCTCAACAA
1 AAGTA-TAAAGATGCTCAAAAA
27285568 AAGTATAAATGATGCTCAAAAA
1 AAGTATAAA-GATGCTCAAAAA
27285590 AA
1 AA
27285592 TAGAAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 5 0.24
22 12 0.57
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (21 bp):
AAGTATAAAGATGCTCAAAAA
Found at i:27285598 original size:21 final size:22
Alignment explanation
Indices: 27285557--27285600 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
27285547 AAGTATTAAA
* *
27285557 ATGCTCAACAAAAGTATAAATG
1 ATGCTCAACAAAAATAGAAATG
27285579 ATGCTCAA-AAAAATAGAAATG
1 ATGCTCAACAAAAATAGAAATG
27285600 A
1 A
27285601 AAAAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (22 bp):
ATGCTCAACAAAAATAGAAATG
Found at i:27285616 original size:14 final size:14
Alignment explanation
Indices: 27285599--27285627 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27285589 AAATAGAAAT
27285599 GAAAAAGAAAAAGA
1 GAAAAAGAAAAAGA
27285613 GAAAAAGAAAAAGA
1 GAAAAAGAAAAAGA
27285627 G
1 G
27285628 CATATGTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
GAAAAAGAAAAAGA
Found at i:27288684 original size:16 final size:16
Alignment explanation
Indices: 27288643--27288689 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
27288633 GCGACAAAAA
27288643 TTTCTTCCTTCTCTCCT
1 TTTCTTCCTTCT-TCCT
27288660 TATT-TTCCTTCTTCCT
1 T-TTCTTCCTTCTTCCT
* *
27288676 TTTCCTCCTCCTTC
1 TTTCTTCCTTCTTC
27288690 TCTTCTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.08
16 13 0.50
17 9 0.35
18 2 0.08
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTCTTCCTTCTTCCT
Found at i:27300039 original size:20 final size:20
Alignment explanation
Indices: 27300010--27300095 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
27300000 AAATCAAATT
*
27300010 AAAATGATTTTAAACAAGTC
1 AAAATAATTTTAAACAAGTC
* *
27300030 AAAATAATTTGAACCAAGTC
1 AAAATAATTTTAAACAAGTC
* **
27300050 AAAATCATTTT-AACACTTC
1 AAAATAATTTTAAACAAGTC
*
27300069 AAAAT-GTTTGTCAAACAAGTC
1 AAAATAATTT-T-AAACAAGTC
27300090 AAAATA
1 AAAATA
27300096 GTTCTAGGCC
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
18 3 0.06
19 11 0.22
20 26 0.51
21 11 0.22
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (20 bp):
AAAATAATTTTAAACAAGTC
Found at i:27309199 original size:20 final size:20
Alignment explanation
Indices: 27309159--27309228 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
27309149 ATTTTGAAGC
*
27309159 AATTTTAAAATCAAGTTAAAAT
1 AATTTT-AAA-CAAGTCAAAAT
*
27309181 GATTTTAAACAAGTCAAAAT
1 AATTTTAAACAAGTCAAAAT
* *
27309201 AATTTGAACCAAGTCAAAAT
1 AATTTTAAACAAGTCAAAAT
*
27309221 CATTTTAA
1 AATTTTAA
27309229 CACTTCAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 33 0.80
21 3 0.07
22 5 0.12
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
AATTTTAAACAAGTCAAAAT
Found at i:27315583 original size:21 final size:21
Alignment explanation
Indices: 27315545--27315584 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27315535 GATTGACTCC
*
27315545 AAGGACAAGAAAAGAAAGAGG
1 AAGGACAAGAAAAAAAAGAGG
27315566 AAGGACAA-AAAGAAAAAGA
1 AAGGACAAGAAA-AAAAAGA
27315585 AGCACAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.68, C:0.05, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGGACAAGAAAAAAAAGAGG
Found at i:27315586 original size:18 final size:19
Alignment explanation
Indices: 27315554--27315592 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27315544 CAAGGACAAG
* *
27315554 AAAAGAAAGAGGAAGGACA
1 AAAAGAAAGAAGAAGCACA
27315573 AAAAGAAA-AAGAAGCACA
1 AAAAGAAAGAAGAAGCACA
27315591 AA
1 AA
27315593 GAGGAGCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.69, C:0.08, G:0.23, T:0.00
Consensus pattern (19 bp):
AAAAGAAAGAAGAAGCACA
Found at i:27315717 original size:21 final size:21
Alignment explanation
Indices: 27315676--27315734 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 21
27315666 TTTTCATTAG
*
27315676 TTAGTTG-CA-TGCATCTCAT
1 TTAGTTGTCATTGCATTTCAT
*
27315695 TTAGTTGTCATTGCATTTTAT
1 TTAGTTGTCATTGCATTTCAT
27315716 TT-GTTAGTACATTTGCATT
1 TTAGTT-GT-CA-TTGCATT
27315735 GTAGTTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 7 0.21
20 5 0.15
21 12 0.36
22 2 0.06
23 7 0.21
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (21 bp):
TTAGTTGTCATTGCATTTCAT
Found at i:27321223 original size:35 final size:35
Alignment explanation
Indices: 27321153--27321276 Score: 146
Period size: 35 Copynumber: 3.6 Consensus size: 35
27321143 ATTGATATTC
* *
27321153 TGATTCGCATG-TAAGCATG-TAATATTCTGTTTA
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
* * *
27321186 TGATTCACATGATAAGCATGCTATTATTCTGACTA
1 TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
* * *
27321221 TGACTT-GCATGTTAAGCATGCCATTATTCTGGTTC
1 TGA-TTCGCATGTTAAGCATGCTATTATTCTGATTA
27321256 TGATTCGCATGTTAAGCATGC
1 TGATTCGCATGTTAAGCATGC
27321277 CACTATGTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
33 10 0.13
34 10 0.13
35 55 0.71
36 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (35 bp):
TGATTCGCATGTTAAGCATGCTATTATTCTGATTA
Found at i:27323158 original size:15 final size:14
Alignment explanation
Indices: 27323137--27323190 Score: 72
Period size: 15 Copynumber: 3.7 Consensus size: 14
27323127 TACTGTTTAC
27323137 CATTTATTTTCTTG
1 CATTTATTTTCTTG
27323151 CAATTTATTTTCTTG
1 C-ATTTATTTTCTTG
**
27323166 CATTTATATTTCAAG
1 CATTTAT-TTTCTTG
27323181 CATTTATTTT
1 CATTTATTTT
27323191 TCCGTACTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
14 10 0.28
15 26 0.72
ACGTcount: A:0.22, C:0.13, G:0.06, T:0.59
Consensus pattern (14 bp):
CATTTATTTTCTTG
Found at i:27323282 original size:36 final size:37
Alignment explanation
Indices: 27323242--27323322 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
27323232 GCATCTATAT
**
27323242 ATATATATTTCTGGTAC-TATCTAATTTCTATTCTTC
1 ATATATATTTCTAATACTTATCTAATTTCTATTCTTC
* * * *
27323278 ATATATATTTCTAATACTTATTTTATTTTTATTCTTT
1 ATATATATTTCTAATACTTATCTAATTTCTATTCTTC
27323315 ATATATAT
1 ATATATAT
27323323 ATATCTTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 15 0.39
37 23 0.61
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (37 bp):
ATATATATTTCTAATACTTATCTAATTTCTATTCTTC
Found at i:27326061 original size:22 final size:23
Alignment explanation
Indices: 27326019--27326062 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
27326009 AATTTGATTT
*
27326019 ACTTTTAGTTGCACTGACAATTA
1 ACTTTTAGTTACACTGACAATTA
*
27326042 ACTTTTA-TTACATTGACAATT
1 ACTTTTAGTTACACTGACAATT
27326063 TTGACTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (23 bp):
ACTTTTAGTTACACTGACAATTA
Found at i:27375742 original size:16 final size:18
Alignment explanation
Indices: 27375700--27375739 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
27375690 AACAAAAGAG
27375700 ATGCAATGACAAAATAAA
1 ATGCAATGACAAAATAAA
*
27375718 ATGCAATGACAATA-AAA
1 ATGCAATGACAAAATAAA
27375735 ATGCA
1 ATGCA
27375740 TGAAAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.17
Consensus pattern (18 bp):
ATGCAATGACAAAATAAA
Found at i:27379350 original size:52 final size:50
Alignment explanation
Indices: 27379277--27379381 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 50
27379267 AACTAATGAA
* * *
27379277 TTACTAATGCATGACTTGATTTAAAGATGGAAACTTTAACTAA-CATGGGAG
1 TTACTAATGCATGACTGGATTT-AAGATGCAAA-TTTAACTAACCATGAGAG
* *
27379328 TTACATAATGCATGA-TAGGATTTATGATGCATATTTAACTAACCATGAGAG
1 TTAC-TAATGCATGACT-GGATTTAAGATGCAAATTTAACTAACCATGAGAG
27379379 TTA
1 TTA
27379382 ATAGACGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
50 9 0.20
51 22 0.48
52 15 0.33
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (50 bp):
TTACTAATGCATGACTGGATTTAAGATGCAAATTTAACTAACCATGAGAG
Found at i:27379607 original size:17 final size:17
Alignment explanation
Indices: 27379576--27379608 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27379566 CAAACACTTA
27379576 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
27379593 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
27379609 AGTCCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:27393369 original size:7 final size:7
Alignment explanation
Indices: 27393357--27393381 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27393347 AAACCCCAAT
27393357 TCCATCA
1 TCCATCA
27393364 TCCATCA
1 TCCATCA
27393371 TCCATCA
1 TCCATCA
27393378 TCCA
1 TCCA
27393382 CGCTACTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.44, G:0.00, T:0.28
Consensus pattern (7 bp):
TCCATCA
Found at i:27395105 original size:3 final size:3
Alignment explanation
Indices: 27395097--27395134 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
27395087 CTTAGCTCCT
27395097 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
27395135 AGGGTTCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:27405550 original size:19 final size:19
Alignment explanation
Indices: 27405526--27405572 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
27405516 CTAACTTAAC
*
27405526 AAAAATGCAATGATAAAAT
1 AAAAATGCAATGACAAAAT
27405545 AAAAATGCAATGACAAAAT
1 AAAAATGCAATGACAAAAT
27405564 AAAAATGCA
1 AAAAATGCA
27405573 TGAAAACTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.17
Consensus pattern (19 bp):
AAAAATGCAATGACAAAAT
Found at i:27411418 original size:20 final size:20
Alignment explanation
Indices: 27411405--27411543 Score: 165
Period size: 20 Copynumber: 7.0 Consensus size: 20
27411395 AGCCTGATAC
27411405 ACCGGCATAAAGCCTGAATT
1 ACCGGCATAAAGCCTGAATT
*
27411425 ACCGGCATAAATCCTGAATT
1 ACCGGCATAAAGCCTGAATT
27411445 ACCGGCATAAAGCCTGAATT
1 ACCGGCATAAAGCCTGAATT
* *
27411465 ACTGGCATAAAGCCT-AATAC
1 ACCGGCATAAAGCCTGAAT-T
** *
27411485 ACCGGTGTAAAGCCTGAATC
1 ACCGGCATAAAGCCTGAATT
*
27411505 ACCAGG-ATAAAGCCTGATTT
1 ACC-GGCATAAAGCCTGAATT
* *
27411525 ACCAGCATAAATCCTGAAT
1 ACCGGCATAAAGCCTGAAT
27411544 ACTTAAGTAT
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
19 4 0.04
20 93 0.91
21 5 0.05
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (20 bp):
ACCGGCATAAAGCCTGAATT
Found at i:27415395 original size:3 final size:3
Alignment explanation
Indices: 27415389--27415447 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
27415379 GAAATTATTA
27415389 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
27415437 TTG TTG TTG TT
1 TTG TTG TTG TT
27415448 ATTATTATTA
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:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:27415541 original size:3 final size:3
Alignment explanation
Indices: 27415446--27415522 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
27415436 GTTGTTGTTG
27415446 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27415494 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27415523 TTCGTCCTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27419019 original size:31 final size:29
Alignment explanation
Indices: 27418958--27419030 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 29
27418948 TGCCCTTTAA
* *
27418958 TTTTTTATTTTTTTTTTAACTTACACTGT
1 TTTTTTATTTTTTATTTAACTTACAATGT
27418987 TTTTTTATGTTTTTCATTTAACTCTA-AATGT
1 TTTTTTAT-TTTTT-ATTTAACT-TACAATGT
*
27419018 TTCTTT-TTTTTTA
1 TTTTTTATTTTTTA
27419031 ATTCATGCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 1 0.03
29 13 0.34
30 6 0.16
31 16 0.42
32 2 0.05
ACGTcount: A:0.18, C:0.10, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTTTTATTTTTTATTTAACTTACAATGT
Found at i:27419187 original size:147 final size:145
Alignment explanation
Indices: 27419025--27419295 Score: 461
Period size: 147 Copynumber: 1.9 Consensus size: 145
27419015 TGTTTCTTTT
*
27419025 TTTTTAATTCATGCTTTAGACTTCATTTTGATTTTAATTTAGTCCTCTCATGTTTTATTCTTTTT
1 TTTTTAATTCATGCTTTAAACTTCATTTTGATTTTAATTTAGTCCTCTCATGTTTTATTCTTTTT
* * * *
27419090 TAAATTGGCCCTAATCTTCCTGTTTATTTTATTTTATTTTGAATTTCATTTTTATTTTAATTTAG
66 AAAATTAGCCCTAATCTTCCT-ATT-TTTTACTTTATTTTGAATTTCATTTTTATTTTAATTTAG
27419155 TCCTTAGACTTTTTCCC
129 TCCTTAGACTTTTTCCC
* *
27419172 TTTTTAATTCGTGCTTTAAACTTCATTTTGGTTTTAATTTAGTCCTCTCATGTTTTATTCTTTTT
1 TTTTTAATTCATGCTTTAAACTTCATTTTGATTTTAATTTAGTCCTCTCATGTTTTATTCTTTTT
27419237 AAAATTAGCCCTAATCTTCCTATTTTTTACTTTATTTTGAATTTCATTTTTATTTTAAT
66 AAAATTAGCCCTAATCTTCCTATTTTTTACTTTATTTTGAATTTCATTTTTATTTTAAT
27419296 CCTTAAATTA
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
145 34 0.29
146 2 0.02
147 81 0.69
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.58
Consensus pattern (145 bp):
TTTTTAATTCATGCTTTAAACTTCATTTTGATTTTAATTTAGTCCTCTCATGTTTTATTCTTTTT
AAAATTAGCCCTAATCTTCCTATTTTTTACTTTATTTTGAATTTCATTTTTATTTTAATTTAGTC
CTTAGACTTTTTCCC
Found at i:27419361 original size:29 final size:28
Alignment explanation
Indices: 27419339--27419405 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
27419329 TTTTTTTATG
* *
27419339 TTTTTTTAAAATTAAATCCTTTTATTCTC
1 TTTTTTTAAAATT-AACCCTTTTATTCTA
* *
27419368 TTTTTTTTAAATTAACCCTTTTGTTCTA
1 TTTTTTTAAAATTAACCCTTTTATTCTA
27419396 TTTTTTTAAA
1 TTTTTTTAAA
27419406 TCCTTTCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTTTTTAAAATTAACCCTTTTATTCTA
Found at i:27422118 original size:16 final size:15
Alignment explanation
Indices: 27422083--27422112 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27422073 ATTCAAAAAT
27422083 CAAAAAAAATTTGTG
1 CAAAAAAAATTTGTG
27422098 CAAAAGAAAATTTGT
1 CAAAA-AAAATTTGT
27422113 TGAAAACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
CAAAAAAAATTTGTG
Found at i:27422912 original size:41 final size:41
Alignment explanation
Indices: 27422865--27422962 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
27422855 AAAAGGTAAA
* * * *
27422865 TCATTAGCGGCGCTT-CACCGCAAGCGCTGCTAAAAGTGGAG
1 TCATTAGCGGCGCTTAC-CCACAAACGCCGCTAAAAGTCGAG
* **
27422906 TCATTAGCGGCGCTTACCCACAAACGCCGCTAAAGGTCTTG
1 TCATTAGCGGCGCTTACCCACAAACGCCGCTAAAAGTCGAG
27422947 TCATTAGCGGCGCTTA
1 TCATTAGCGGCGCTTA
27422963 TATAGAAAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
41 48 0.98
42 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (41 bp):
TCATTAGCGGCGCTTACCCACAAACGCCGCTAAAAGTCGAG
Found at i:27424121 original size:44 final size:44
Alignment explanation
Indices: 27424069--27424217 Score: 194
Period size: 44 Copynumber: 3.4 Consensus size: 44
27424059 CACCCCCAGA
* *
27424069 CCGCAGAACCCTCTTCTGTTTCCCTCACTCCGTTGCCTCTTCAC
1 CCGCAGAACCCGCTTCTGTTTCCCTCACTCCGTTCCCTCTTCAC
* * * *
27424113 CTGCAGAACCCGCTTCTGTTCCCCTCACCCCGTTCCCTTTTCAC
1 CCGCAGAACCCGCTTCTGTTTCCCTCACTCCGTTCCCTCTTCAC
* *
27424157 CCCCAAAACCCGCTTCT-TTTCCCCTCACTCCGTTCCCTCTTCAC
1 CCGCAGAACCCGCTTCTGTTT-CCCTCACTCCGTTCCCTCTTCAC
27424201 CC-CTAGAACCCGCTTCT
1 CCGC-AGAACCCGCTTCT
27424218 TGAGCCGATC
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 3 0.03
44 87 0.97
ACGTcount: A:0.13, C:0.48, G:0.09, T:0.30
Consensus pattern (44 bp):
CCGCAGAACCCGCTTCTGTTTCCCTCACTCCGTTCCCTCTTCAC
Found at i:27424159 original size:23 final size:23
Alignment explanation
Indices: 27424133--27424204 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
27424123 CGCTTCTGTT
27424133 CCCCTCACCCCGTTCCCTTTTCA
1 CCCCTCACCCCGTTCCCTTTTCA
*
27424156 CCCC-CAAAACCCGCTT--CTTTT--
1 CCCCTC--ACCCCG-TTCCCTTTTCA
* *
27424177 CCCCTCACTCCGTTCCCTCTTCA
1 CCCCTCACCCCGTTCCCTTTTCA
27424200 CCCCT
1 CCCCT
27424205 AGAACCCGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 4 0.11
21 8 0.22
22 2 0.05
23 14 0.38
24 5 0.14
25 2 0.05
ACGTcount: A:0.11, C:0.56, G:0.04, T:0.29
Consensus pattern (23 bp):
CCCCTCACCCCGTTCCCTTTTCA
Found at i:27426861 original size:18 final size:18
Alignment explanation
Indices: 27426815--27427933 Score: 261
Period size: 18 Copynumber: 63.3 Consensus size: 18
27426805 TAAAAGATTT
27426815 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
27426833 AAGTAAATAATTACATTA
1 AATTATTTAATTATATTA
* *
27426851 AATTATTTAATGATGTTTA
1 AATTATTTAATTAT-ATTA
27426870 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
**
27426889 ACATTA-TCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
27426906 AA-TATTTAAGTTAAAAGATTT
1 AATTATTTAA-TT---ATATTA
27426927 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
27426945 AAGTAAATAATTACATTA
1 AATTATTTAATTATATTA
* * *
27426963 AATTATTTAATCATGTTT
1 AATTATTTAATTATATTA
* *
27426981 AATTATGTATTTA-ATTATA
1 AATTATTTAATTATA-T-TA
* *
27427000 AATAATATCAATTA-ATTA
1 AATTAT-TTAATTATATTA
*
27427018 AA-TATTTAATTATAAAGATTT
1 AATTATTTAATTAT----ATTA
27427039 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427057 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
*
27427075 AATTA---AA-GAT-TT-
1 AATTATTTAATTATATTA
27427087 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427105 AAGTAAATAATTATATT-
1 AATTATTTAATTATATTA
* * *
27427122 -A--ATTTAA-AAGATTT
1 AATTATTTAATTATATTA
27427136 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427154 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
* *
27427172 AATTATTTAATCATGTTTA
1 AATTATTTAATTAT-ATTA
27427191 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* **
27427210 ACACTA-TCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
27427227 AA-TATTTAAGTTAAAAGATTT
1 AATTATTTAA-TT---ATATTA
27427248 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427266 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* * *
27427284 AGTTA---AA--AGATTT
1 AATTATTTAATTATATTA
27427297 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427315 AAGTAAATAATTATATT-
1 AATTATTTAATTATATTA
* **
27427332 AA-T-TTAAAAGATA-T-
1 AATTATTTAATTATATTA
27427346 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427364 AACTAAATAATTATA-TA
1 AATTATTTAATTATATTA
* *
27427381 AATTATTTAATCATGTTTA
1 AATTATTTAATTAT-ATTA
27427400 ATTATGTATTTAATTATA--A
1 A--AT-TATTTAATTATATTA
* **
27427419 ACACTA-TCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
27427436 AA-TATTTAAGTTAAAAGATTT
1 AATTATTTAA-TT---ATATTA
27427457 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
27427475 AAATAAATAATTACATTA
1 AATTATTTAATTATATTA
* * *
27427493 AATTATTTAATCATGTTT
1 AATTATTTAATTATATTA
* *
27427511 AATTATGTATTTA-ATTATA
1 AATTATTTAATTATA-T-TA
* *
27427530 AATAATATCAATTA-ATTA
1 AATTAT-TTAATTATATTA
*
27427548 AA-TATTTAATTATAAAGATTT
1 AATTATTTAATTAT----ATTA
27427569 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427587 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
*
27427605 AATTA---AA-CAT-TT-
1 AATTATTTAATTATATTA
27427617 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* *
27427635 AAGTGA-ATAATTATATT-
1 AA-TTATTTAATTATATTA
* * *
27427652 -A--ATTTAA-AAGATTT
1 AATTATTTAATTATATTA
27427666 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427684 AACTAAATAATTATATTA
1 AATTATTTAATTATATTA
* * *
27427702 AATTATTTAATCATGTTT
1 AATTATTTAATTATATTA
* * *
27427720 AATTATGTATTTAGTTATAA
1 AATTATTTAATTA--TATTA
* **
27427740 ACACTA-TCGATTA-ATTA
1 A-ATTATTTAATTATATTA
* *
27427757 AA-TATTTAAGTTAAAAGATTT
1 AATTATTTAA-TT---ATATTA
*
27427778 AATTATTTAATTATGTTA
1 AATTATTTAATTATATTA
* **
27427796 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
* * *
27427814 AGTTA---AA--AGATTT
1 AATTATTTAATTATATTA
27427827 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
27427845 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
27427863 AATTA---AA-TAT-TT-
1 AATTATTTAATTATATTA
27427875 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* ** *
27427893 AAGTAAATAATCATATTA
1 AATTATTTAATTATATTA
* * * *
27427911 AATTTTTTCATTGTATTT
1 AATTATTTAATTATATTA
27427929 AATTA
1 AATTA
27427934 ACTATTTAAC
Statistics
Matches: 777, Mismatches: 212, Indels: 224
0.64 0.17 0.18
Matches are distributed among these distances:
12 15 0.02
13 31 0.04
14 17 0.02
15 35 0.05
16 60 0.08
17 61 0.08
18 378 0.49
19 33 0.04
20 20 0.03
21 47 0.06
22 80 0.10
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:27427055 original size:32 final size:34
Alignment explanation
Indices: 27426978--27427055 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 34
27426968 TTTAATCATG
27426978 TTTAATTATGTATTTAATTATAAATAATATCAATTA
1 TTTAATTA--TATTTAATTATAAATAATATCAATTA
* * *
27427014 ATTAA--ATATTTAATTATAAA-GAT-TTAATTA
1 TTTAATTATATTTAATTATAAATAATATCAATTA
27427044 TTTAATTATATT
1 TTTAATTATATT
27427056 AAAGTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
30 10 0.28
31 2 0.06
32 19 0.53
34 1 0.03
36 4 0.11
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (34 bp):
TTTAATTATATTTAATTATAAATAATATCAATTA
Found at i:27427087 original size:48 final size:48
Alignment explanation
Indices: 27427030--27427176 Score: 267
Period size: 48 Copynumber: 3.0 Consensus size: 48
27427020 TATTTAATTA
27427030 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
1 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
*
27427078 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATT
1 TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
*
27427126 TAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAAT
1 T-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
27427175 TA
1 TA
27427177 TTTAATCATG
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
48 49 0.52
49 46 0.48
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (48 bp):
TAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAAT
Found at i:27427137 original size:209 final size:215
Alignment explanation
Indices: 27426756--27427914 Score: 1225
Period size: 209 Copynumber: 5.5 Consensus size: 215
27426746 AATAATTAAA
* * *
27426756 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTA-AAAGATTTAATTA
1 TAATTATGTATTTAATTATAAATAATATCAATTAATTAAATATTTAA-TTATAAAGATTTAATTA
* * * *
27426820 TTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATGATGTTTAATTATGTATTTAATT
65 TTTAATTATATTAAAGTAAATAATTATATTAAATTA--TAATCA-GTTTAATTATTTAATT-A-T
* * *
27426885 ATAAACATTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTA
125 ATTAACAGTA---AATAATT-AATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTA
*
27426950 AATAATTACATTAAATTATTTAATCATGTT
186 AATAATTATATTAAATTATTTAATCATGTT
27426980 TAATTATGTATTTAATTATAAATAATATCAATTAATTAAATATTTAATTATAAAGATTTAATTAT
1 TAATTATGTATTTAATTATAAATAATATCAATTAATTAAATATTTAATTATAAAGATTTAATTAT
*
27427045 TTAATTATATTAAAGTAAATAATTATATTAAATTA-AA-GA-TTTAATTATTTAATTATATTAA-
66 TTAATTATATTAAAGTAAATAATTATATTAAATTATAATCAGTTTAATTATTTAATTATATTAAC
* *
27427106 AGTAAATAATT-ATA-TTAATTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATA
131 AGTAAATAATTAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
27427169 TTAAATTATTTAATCATGTT
196 TTAAATTATTTAATCATGTT
* * *
27427189 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTA-AAAGATTTAATTA
1 TAATTATGTATTTAATTATAAATAATATCAATTAATTAAATATTTAA-TTATAAAGATTTAATTA
*
27427253 TTTAATTATATTAAAGTAAATAATTATATTAAGTTA-AA--AGATTTAATTATTTAATTATATTA
65 TTTAATTATATTAAAGTAAATAATTATATTAAATTATAATCAG-TTTAATTATTTAATTATATTA
* * *
27427315 A-AGTAAATAATT-ATA-TTAATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTA
129 ACAGTAAATAATTAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTA
27427377 TA-TAAATTATTTAATCATGTT
194 TATTAAATTATTTAATCATGTT
* * *
27427398 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTA-AAAGATTTAATTA
1 TAATTATGTATTTAATTATAAATAATATCAATTAATTAAATATTTAA-TTATAAAGATTTAATTA
* *
27427462 TTTAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATT
65 TTTAATTATATTAAAGTAAATAATTATATTAAATTA--TAATCA-GTTT-A--AT-TATTTAATT
* * *
27427527 ATAAATAATA-TCAATTAATTAAATATTTAA-TTATAAAGATTTAATTATTTAATTATATTAAAG
123 AT-ATTAACAGT-AAATAATT-AATATTTAAGTTA-AAAGATTTAATTATTTAATTATATTAAAG
27427590 TAAATAATTATATTAAATTA---AA-CA--TT
184 TAAATAATTATATTAAATTATTTAATCATGTT
* *
27427616 T-A--AT-TATTTAATTAT-ATTAA-AGTGAA-TAATT--ATA-TTAATT-TAAAAGATTTAATT
1 TAATTATGTATTTAATTATAAATAATA-TCAATTAATTAAATATTTAATTAT-AAAGATTTAATT
* * *
27427670 ATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTAGT
64 ATTTAATTATATTAAAGTAAATAATTATATTAAATTA--TAATCA-GTTTAATTATTTAATTA--
* * * *
27427735 TATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATGTTAAAGT
124 TATTAACAGTA---AATAATT-AATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGT
*
27427800 AAATAATTATATTAAGTTA---AA--A-GATT
185 AAATAATTATATTAAATTATTTAATCATG-TT
* * * *
27427826 T-A--AT-TATTTAATTAT-ATTAA-AGT-AAATAATT--ATA-TTAAAT-TAAATATTTAATTA
1 TAATTATGTATTTAATTATAAATAATA-TCAATTAATTAAATATTTAATTATAAAGATTTAATTA
*
27427880 TTTAATTATATTAAAGTAAATAATCATATTAAATT
65 TTTAATTATATTAAAGTAAATAATTATATTAAATT
27427915 TTTTCATTGT
Statistics
Matches: 858, Mismatches: 42, Indels: 85
0.87 0.04 0.09
Matches are distributed among these distances:
205 8 0.01
206 7 0.01
207 2 0.00
208 5 0.01
209 453 0.53
210 135 0.16
212 14 0.02
213 4 0.00
214 15 0.02
215 7 0.01
216 5 0.01
217 4 0.00
218 27 0.03
219 5 0.01
220 12 0.01
221 4 0.00
222 6 0.01
223 46 0.05
224 99 0.12
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (215 bp):
TAATTATGTATTTAATTATAAATAATATCAATTAATTAAATATTTAATTATAAAGATTTAATTAT
TTAATTATATTAAAGTAAATAATTATATTAAATTATAATCAGTTTAATTATTTAATTATATTAAC
AGTAAATAATTAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
TTAAATTATTTAATCATGTT
Found at i:27427151 original size:49 final size:49
Alignment explanation
Indices: 27427023--27427384 Score: 360
Period size: 49 Copynumber: 7.1 Consensus size: 49
27427013 AATTAAATAT
27427023 TTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAATTTA-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
*
27427072 TTAAATT-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
*
27427120 TTAATTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATA
1 TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
* * * ** * *
27427169 TTAAATTATTTAATCATG-TTTAATTATGTATTTA-ATTATAAACACTATCGATTA-A
1 TT--A--ATTTAA--AAGATTTAATTATTTAATTATATTA-AAGTA-AAT-AATTATA
* *
27427224 TTAAATATT-TAAG-TTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TT-AAT-TTAAAAGATT--TA-A-TT-ATT---TAATTATATTAAAGTAAATAATTATA
*
27427281 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
* *
27427330 TTAATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATA
1 TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
*
27427379 TAAATT
1 TTAATT
27427385 ATTTAATCAT
Statistics
Matches: 264, Mismatches: 25, Indels: 48
0.78 0.07 0.14
Matches are distributed among these distances:
48 47 0.18
49 123 0.47
50 6 0.02
51 1 0.00
52 6 0.02
53 15 0.06
54 22 0.08
55 12 0.05
56 13 0.05
57 7 0.03
58 8 0.03
59 4 0.02
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (49 bp):
TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
Found at i:27427351 original size:321 final size:318
Alignment explanation
Indices: 27426757--27427814 Score: 1323
Period size: 321 Copynumber: 3.3 Consensus size: 318
27426747 ATAATTAAAT
* ** * *
27426757 AATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATT
1 AATTAAGTATTTAATTATAAACACTATAAAGTAAATAAATATTTAAGTTAAAAGATTTAATTATT
* *
27426822 TAATTATATTAAAGTAAATAATTACATTAAATTATTTAATGATGTTTAATTATGTATTTAATTAT
66 TAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTAT
*
27426887 AAACATTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAA
131 AAACAATATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAA
* * *
27426952 TAATTACATTAAATTATTTAATCATG-TTTAATTATGTATTTA-ATT--A-TAAATAA-TATCAA
196 TAATTATATTAAATTA---AA--A-GATTTAATTATTTAATTATATTAAAGTAAATAATTAT--A
* * * ** *
27427011 TTAA-TT-AAATATTTAATTATAA-AGATTTAATTATTTAATTATATTAAAGTAAATAATTATAT
253 TTAATTTAAAAGATTTAATTATAATAGATTAAACTAAATAATTATA-TAAAGTAAATAATCATAT
27427073 TA
317 TA
** * *
27427075 AATTAAAG-ATTTAATTATTTAATTA-TATTAAAGTAAATAATTATATTAATTTAAAAGATTTAA
1 AATT-AAGTATTTAATTA--TAAACACTA-TAAAGTAAATAAATAT-TTAAGTTAAAAGATTTAA
* *
27427138 TTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTTAATTATGTATTTA
61 TTATTTAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTA
*
27427203 ATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAA
126 ATTATAAACAATATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAA
*
27427268 GTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTA
191 GTAAATAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTA
* * * ** *
27427333 ATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATATAAATTATTTAATCATGTT
256 ATTTAAAAGATTTAATTA--TAA-TAGATTAAACTAAATAATTATATAAAGTAAATAATCATATT
*
27427398 T
318 A
* ** * *
27427399 AATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATT
1 AATTAAGTATTTAATTATAAACACTATAAAGTAAATAAATATTTAAGTTAAAAGATTTAATTATT
27427464 TAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTAT
66 TAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTAT
* *
27427529 AAATAATATCAATTAATTAAATATTTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGTAA
131 AAACAATATCGATTAATTAAATATTTAAGTTA-AAAGATTTAATTATTTAATTATATTAAAGTAA
* *
27427593 ATAATTATATTAAATT-AAACATTTAATTATTTAATTATATTAAAGTGAATAATTATATTAATTT
195 ATAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTT
* * ** * *
27427657 AAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTTT
260 AAAAGATTTAATTA--TAA-TAGATTAAACTAAATAATTATA-TAAAGTAAATAATCATATTA
* * ** * *
27427720 AATTATGTATTTAGTTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATT
1 AATTAAGTATTTAATTATAAACACTATAAAGTAAATAAATATTTAAGTTAAAAGATTTAATTATT
* * *
27427785 TAATTATGTTAAAGTAAATAATTATATTAA
66 TAATTATATTAAAATAAATAATTACATTAA
27427815 GTTAAAAGAT
Statistics
Matches: 667, Mismatches: 52, Indels: 39
0.88 0.07 0.05
Matches are distributed among these distances:
315 1 0.00
316 15 0.02
317 3 0.00
318 15 0.02
319 10 0.01
320 114 0.17
321 444 0.67
322 15 0.02
323 7 0.01
324 27 0.04
325 16 0.02
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.46
Consensus pattern (318 bp):
AATTAAGTATTTAATTATAAACACTATAAAGTAAATAAATATTTAAGTTAAAAGATTTAATTATT
TAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTAATTAT
AAACAATATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAA
TAATTATATTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAATTTA
AAAGATTTAATTATAATAGATTAAACTAAATAATTATATAAAGTAAATAATCATATTA
Found at i:27427585 original size:32 final size:34
Alignment explanation
Indices: 27427508--27427585 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 34
27427498 TTTAATCATG
27427508 TTTAATTATGTATTTAATTATAAATAATATCAATTA
1 TTTAATTA--TATTTAATTATAAATAATATCAATTA
* * *
27427544 ATTAA--ATATTTAATTATAAA-GAT-TTAATTA
1 TTTAATTATATTTAATTATAAATAATATCAATTA
27427574 TTTAATTATATT
1 TTTAATTATATT
27427586 AAAGTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
30 10 0.28
31 2 0.06
32 19 0.53
34 1 0.03
36 4 0.11
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (34 bp):
TTTAATTATATTTAATTATAAATAATATCAATTA
Found at i:27427622 original size:22 final size:22
Alignment explanation
Indices: 27427013--27427176 Score: 88
Period size: 22 Copynumber: 7.2 Consensus size: 22
27427003 AATATCAATT
27427013 AATTAAATATTTAATTATA--A
1 AATTAAATATTTAATTATATTA
*
27427033 AGATTTAATTATTTAATTATATTA
1 A-A-TTAAATATTTAATTATATTA
*
27427057 AAGT-AA-A--TAATTATATTA
1 AATTAAATATTTAATTATATTA
*
27427075 AATTAAAGATTTAATTATTTAATTA
1 AATTAAATATTTAATTA--T-ATTA
* **
27427100 TATTAAAGTAAATAATTATATTA
1 AATTAAA-TATTTAATTATATTA
* *
27427123 ATTTAAAAGATTTAATTATTTAATTA
1 AATT-AAATATTTAATTA--T-ATTA
* **
27427149 TATTAAACTAAATAATTATATTA
1 AATTAAA-TATTTAATTATATTA
27427172 AATTA
1 AATTA
27427177 TTTAATCATG
Statistics
Matches: 108, Mismatches: 19, Indels: 31
0.68 0.12 0.20
Matches are distributed among these distances:
18 14 0.13
19 2 0.02
20 3 0.03
21 2 0.02
22 23 0.21
23 22 0.20
24 8 0.07
25 14 0.13
26 20 0.19
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (22 bp):
AATTAAATATTTAATTATATTA
Found at i:27427685 original size:49 final size:49
Alignment explanation
Indices: 27427553--27427911 Score: 402
Period size: 49 Copynumber: 7.1 Consensus size: 49
27427543 AATTAAATAT
27427553 TTAA-TTATAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAATTTA-AAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
* * *
27427602 TTAAATT-AAACATTTAATTATTTAATTATATTAAAGTGAATAATTATA
1 TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
*
27427650 TTAATTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATA
1 TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
* * * * * *
27427699 TTAAATTATTTAATCATG-TTTAATTATGTATTTAGTTATAAACACTATCGATTAATTAAATA
1 TT--A--ATTTAA--AAGATTTAATTATTTAATTA--TATTAA-AGTA---AATAATT--ATA
* *
27427761 TTTAAGTTAAAAGATTTAATTATTTAATTATGTTAAAGTAAATAATTATA
1 -TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
*
27427811 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
1 TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
* * *
27427860 TTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAATCATA
1 TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
27427908 TTAA
1 TTAA
27427912 ATTTTTTCAT
Statistics
Matches: 269, Mismatches: 23, Indels: 37
0.82 0.07 0.11
Matches are distributed among these distances:
48 88 0.33
49 98 0.36
50 5 0.02
51 1 0.00
52 6 0.02
53 6 0.02
54 14 0.05
55 5 0.02
56 9 0.03
57 6 0.02
58 14 0.05
59 5 0.02
60 6 0.02
61 1 0.00
62 3 0.01
63 2 0.01
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (49 bp):
TTAATTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATA
Found at i:27427850 original size:530 final size:531
Alignment explanation
Indices: 27426799--27427914 Score: 2092
Period size: 530 Copynumber: 2.1 Consensus size: 531
27426789 AATTAAATAT
* * *
27426799 TTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATGA
1 TTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATCA
*
27426864 TGTTTAATTATGTATTTAATTATAAACATTATCGATTAATTAAATATTTAAGTTAAAAGATTTAA
66 TGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAA
*
27426929 TTATTTAATTATATTAAAGTAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTA
131 TTATTTAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTA
27426994 ATTATAAATAATATCAATTAATTAAATATTTAATTATAAAGATTTAATTATTTAATTATATTAAA
196 ATTATAAATAATATCAATTAATTAAATATTTAATTATAAAGATTTAATTATTTAATTATATTAAA
*
27427059 GTAAATAATTATATTAAATTAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAA
261 GTAAATAATTATATTAAATTAAACATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAA
27427124 TTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
326 TTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
27427189 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
391 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
27427254 TTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGT
456 TTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGT
27427319 AAATAATTATA
521 AAATAATTATA
* * *
27427330 TTAATTTAAAAGATATAATTATTTAATTATATTAAACTAAATAATTATA-TAAATTATTTAATCA
1 TTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATCA
27427394 TGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAA
66 TGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAA
27427459 TTATTTAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTA
131 TTATTTAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTA
27427524 ATTATAAATAATATCAATTAATTAAATATTTAATTATAAAGATTTAATTATTTAATTATATTAAA
196 ATTATAAATAATATCAATTAATTAAATATTTAATTATAAAGATTTAATTATTTAATTATATTAAA
*
27427589 GTAAATAATTATATTAAATTAAACATTTAATTATTTAATTATATTAAAGTGAATAATTATATTAA
261 GTAAATAATTATATTAAATTAAACATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAA
27427654 TTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
326 TTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
*
27427719 TAATTATGTATTTAGTTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
391 TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
*
27427784 TTAATTATGTTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGT
456 TTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGT
27427849 AAATAATTATA
521 AAATAATTATA
* *
27427860 TTAAATT-AAATATTTAATTATTTAATTATATTAAAGTAAATAATCATATTAAATT
1 TTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATT
27427915 TTTTCATTGT
Statistics
Matches: 568, Mismatches: 16, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
529 37 0.07
530 486 0.86
531 45 0.08
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (531 bp):
TTAAATTAAAAGATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAAATTATTTAATCA
TGTTTAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAA
TTATTTAATTATATTAAAATAAATAATTACATTAAATTATTTAATCATGTTTAATTATGTATTTA
ATTATAAATAATATCAATTAATTAAATATTTAATTATAAAGATTTAATTATTTAATTATATTAAA
GTAAATAATTATATTAAATTAAACATTTAATTATTTAATTATATTAAAGTAAATAATTATATTAA
TTTAAAAGATTTAATTATTTAATTATATTAAACTAAATAATTATATTAAATTATTTAATCATGTT
TAATTATGTATTTAATTATAAACACTATCGATTAATTAAATATTTAAGTTAAAAGATTTAATTAT
TTAATTATATTAAAGTAAATAATTATATTAAGTTAAAAGATTTAATTATTTAATTATATTAAAGT
AAATAATTATA
Found at i:27427886 original size:30 final size:30
Alignment explanation
Indices: 27427852--27428055 Score: 108
Period size: 30 Copynumber: 6.2 Consensus size: 30
27427842 TTAAAGTAAA
27427852 TAATTATATTAAATTAAATATTTAATTATT
1 TAATTATATTAAATTAAATATTTAATTATT
* *
27427882 TAATTATATTAAAGTAAATAATCATATTAAATTTTT
1 TAATTATATTAAA-T---TAA--ATATTTAATTATT
* * * *
27427918 TCATTGTATTTAATTAACTATTTAACTTAAAATGTGGTT
1 TAATTATATTAAATTAAATATTTAA-TT---A-----TT
* * *
27427957 GTAAATA-ATTATATATAATTATTTAAGCTTATT
1 -TAATTATATTAAAT-TAAATATTTAA--TTATT
*
27427990 TAATTAT-TT-AATTGAAAAGATTTAATTATT
1 TAATTATATTAAATT--AAATATTTAATTATT
27428020 TAATTATATTAAATTAAATATTTAATTATT
1 TAATTATATTAAATTAAATATTTAATTATT
27428050 TAATTA
1 TAATTA
27428056 ATAAAAACAG
Statistics
Matches: 132, Mismatches: 19, Indels: 46
0.67 0.10 0.23
Matches are distributed among these distances:
30 52 0.39
31 7 0.05
32 22 0.17
33 2 0.02
34 3 0.02
35 1 0.01
36 21 0.16
38 1 0.01
39 7 0.05
40 13 0.10
41 3 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (30 bp):
TAATTATATTAAATTAAATATTTAATTATT
Found at i:27427998 original size:8 final size:8
Alignment explanation
Indices: 27427962--27428055 Score: 65
Period size: 8 Copynumber: 11.8 Consensus size: 8
27427952 TGGTTGTAAA
27427962 TAATTATAT
1 TAATTAT-T
27427971 ATAATTATT
1 -TAATTATT
27427980 TAAGCTTATT
1 TAA--TTATT
27427990 TAATTATT
1 TAATTATT
27427998 TAATTGA--
1 TAATT-ATT
**
27428005 -AAAGATT
1 TAATTATT
27428012 TAATTATT
1 TAATTATT
27428020 TAATTATAT
1 TAATTAT-T
27428029 TAA--A-T
1 TAATTATT
*
27428034 TAAATATT
1 TAATTATT
27428042 TAATTATT
1 TAATTATT
27428050 TAATTA
1 TAATTA
27428056 ATAAAAACAG
Statistics
Matches: 69, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
5 5 0.07
6 2 0.03
7 2 0.03
8 39 0.57
9 6 0.09
10 15 0.22
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (8 bp):
TAATTATT
Found at i:27433257 original size:64 final size:65
Alignment explanation
Indices: 27433113--27433267 Score: 215
Period size: 64 Copynumber: 2.4 Consensus size: 65
27433103 GCAAATTGCT
* * *
27433113 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAATATGATGAACTCCATCTA
1 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAATATAAAGAACTCCACCTA
* * *
27433178 AAACTTAAAGAGGAGGCTGCAGTGAGAGAAGTAGA-G-TCAAAAAAAATATAAAGAACTCCACCT
1 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTC-AAAAAAATATAAAGAACTCCACCT
27433241 A
65 A
* *
27433242 CAACTTAAAGCGGAGGCAGCAGCGAG
1 CAACTTAAAGAGGAGGCTGCAGCGAG
27433268 GCAAGCGAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
63 2 0.03
64 45 0.57
65 32 0.41
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.14
Consensus pattern (65 bp):
CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAATATAAAGAACTCCACCTA
Found at i:27433505 original size:15 final size:15
Alignment explanation
Indices: 27433485--27433513 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27433475 ATTTAAAGTT
27433485 ATTGGTTGGATTTGC
1 ATTGGTTGGATTTGC
27433500 ATTGGTTGGATTTG
1 ATTGGTTGGATTTG
27433514 AATTTACAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGC
Found at i:27439123 original size:3 final size:3
Alignment explanation
Indices: 27439109--27439143 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
27439099 CGTAAAAGGC
*
27439109 TCA TCG TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
27439144 TATATATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:27442802 original size:325 final size:325
Alignment explanation
Indices: 27442212--27442856 Score: 1186
Period size: 325 Copynumber: 2.0 Consensus size: 325
27442202 GTTGATGAAG
27442212 ACCCTGGCATGTTTTTGACTCTCTCTTCATCTTGGAAACAATCATTGTATCAAAACAATAATTTC
1 ACCCTGGCATGTTTTTGACTCTCTCTTCATCTTGGAAACAATCATTGTATCAAAACAATAATTTC
27442277 TATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAATATTTTAGAGG
66 TATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAATATTTTAGAGG
*
27442342 GATAATAATGTAGAGAAGGGAAATCATGGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAGGA
131 GATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAGGA
27442407 GGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCTTGAGTAAATGCC
196 GGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCTTGAGTAAATGCC
* *
27442472 TTTATGATCAGTTTAATCATAAATAACGTCGGGGCTTTTCCCATACGTGGTTACCTTTTTATTTT
261 TTTATGATCAGTTTAATCATAAATAACCTCGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
* *
27442537 ACCCTGGCATGTTTTTGACTCTCTCTCTTCATCTTGGAAACGATCATTGTATCAATACAATAATT
1 ACCCTGGCATGTTTTTGA--CTCTCTCTTCATCTTGGAAACAATCATTGTATCAAAACAATAATT
27442602 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAA-TTCAATATTTTAGA
64 TCTATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAATATTTTAGA
27442666 GGGATAATAATGTAGAGAAGGGAAATCATAGTG-TTTTTTATTTTATTTCAAGCAAGCAACAGAG
129 GGGATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAG
27442730 GAGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCTTGAGTAAATG
194 GAGGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCTTGAGTAAATG
** *
27442795 CCTTTATGATCAGTTTCTTCATAAATAACCTTGGGGCTTTCCCCATACGTGGTTACCTTTTT
259 CCTTTATGATCAGTTTAATCATAAATAACCTCGGGGCTTTCCCCATACGTGGTTACCTTTTT
27442857 CTCCAAAGGA
Statistics
Matches: 310, Mismatches: 8, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
325 171 0.55
326 46 0.15
327 93 0.30
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (325 bp):
ACCCTGGCATGTTTTTGACTCTCTCTTCATCTTGGAAACAATCATTGTATCAAAACAATAATTTC
TATCAATTAGGAAACCTTGAAAGTTGTTTCTTTAATTATTATAAAAAATTTCAATATTTTAGAGG
GATAATAATGTAGAGAAGGGAAATCATAGTGTTTTTTTATTTTATTTCAAGCAAGCAACAGAGGA
GGTTGAGACACTTATTGTTGTATGGGGTAATTTATCCATATAGGAACTGGTCTTGAGTAAATGCC
TTTATGATCAGTTTAATCATAAATAACCTCGGGGCTTTCCCCATACGTGGTTACCTTTTTATTTT
Found at i:27458616 original size:26 final size:26
Alignment explanation
Indices: 27458580--27458629 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
27458570 AATACATGTT
*
27458580 ATAAAATAAAAGATA-GAGAGTAAAGA
1 ATAAAA-AAAAAATAGGAGAGTAAAGA
27458606 ATAAAAAAAAAATAGGAGAGTAAA
1 ATAAAAAAAAAATAGGAGAGTAAA
27458630 AAAGAGAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (26 bp):
ATAAAAAAAAAATAGGAGAGTAAAGA
Found at i:27462145 original size:12 final size:12
Alignment explanation
Indices: 27462128--27462152 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27462118 TTAAGATACT
27462128 TATTTATAAATA
1 TATTTATAAATA
27462140 TATTTATAAATA
1 TATTTATAAATA
27462152 T
1 T
27462153 TGCATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTTATAAATA
Found at i:27467595 original size:28 final size:28
Alignment explanation
Indices: 27467529--27467606 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
27467519 CTTGAACAAT
* * *
27467529 AGATAGCCATAAGGGCGTCCATAAGCAA
1 AGATAGCCACAAAGGCGTCCATAAGAAA
* ***
27467557 ATATTTACACAAAGGCGTCCATAAGAAA
1 AGATAGCCACAAAGGCGTCCATAAGAAA
*
27467585 AGATAGCCACAAAGGCATCCAT
1 AGATAGCCACAAAGGCGTCCAT
27467607 TACAAATTTT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (28 bp):
AGATAGCCACAAAGGCGTCCATAAGAAA
Found at i:27467727 original size:29 final size:28
Alignment explanation
Indices: 27467671--27467767 Score: 108
Period size: 29 Copynumber: 3.4 Consensus size: 28
27467661 TAGAGATAGT
* *
27467671 CACAAAGGCTTCA-TATAATAGAACCAAC
1 CACAAAGGC-TCATTATAACAGAATCAAC
27467699 CACAAAGGCTCATGTATAACAGAATCAAC
1 CACAAAGGCTCAT-TATAACAGAATCAAC
* *
27467728 CAAAAAGACTC-TCATATAACAGAATCAAC
1 CACAAAGGCTCAT--TATAACAGAATCAAC
27467757 CACAAAGGCTC
1 CACAAAGGCTC
27467768 CTTTTTGGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 3 0.05
28 10 0.17
29 46 0.78
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.16
Consensus pattern (28 bp):
CACAAAGGCTCATTATAACAGAATCAAC
Found at i:27469060 original size:13 final size:12
Alignment explanation
Indices: 27469018--27469060 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
27469008 ACTTTTAATG
27469018 CTTTCAAATTTC
1 CTTTCAAATTTC
**
27469030 CTTTGTAATTTC
1 CTTTCAAATTTC
27469042 CTTTTCAAATTTTC
1 C-TTTCAAA-TTTC
27469056 CTTTC
1 CTTTC
27469061 TCTTAGGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 11 0.44
13 9 0.36
14 5 0.20
ACGTcount: A:0.19, C:0.23, G:0.02, T:0.56
Consensus pattern (12 bp):
CTTTCAAATTTC
Found at i:27479013 original size:5 final size:5
Alignment explanation
Indices: 27479003--27479027 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27478993 AACAAAAGCG
27479003 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
27479028 TACGTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:27501465 original size:18 final size:19
Alignment explanation
Indices: 27501434--27501475 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
27501424 GAGTGGACTG
*
27501434 TTGAGAGGCAGAAG-AGTT
1 TTGAGAAGCAGAAGTAGTT
*
27501452 TTGAGAAGCTGAAGTTAGTT
1 TTGAGAAGCAGAAG-TAGTT
27501472 TTGA
1 TTGA
27501476 CTGAAGCGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (19 bp):
TTGAGAAGCAGAAGTAGTT
Found at i:27510637 original size:12 final size:12
Alignment explanation
Indices: 27510622--27510652 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27510612 TTCTTCTTCT
27510622 TCTTCTTCAAGA
1 TCTTCTTCAAGA
*
27510634 TCTTCTTCAGGA
1 TCTTCTTCAAGA
27510646 TCTTCTT
1 TCTTCTT
27510653 TTTTTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.10, T:0.48
Consensus pattern (12 bp):
TCTTCTTCAAGA
Found at i:27510641 original size:3 final size:3
Alignment explanation
Indices: 27510586--27510629 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
27510576 TTTTGAAAGA
27510586 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
27510630 AAGATCTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:27511602 original size:25 final size:26
Alignment explanation
Indices: 27511555--27511604 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
27511545 GTCTAAAATA
27511555 TTAACAATTTAAAATAAATTAAAAAG
1 TTAACAATTTAAAATAAATTAAAAAG
*
27511581 TTAACAATTT-ATATAAATTAAAAA
1 TTAACAATTTAAAATAAATTAAAAA
27511605 TTAGAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
TTAACAATTTAAAATAAATTAAAAAG
Found at i:27523558 original size:38 final size:38
Alignment explanation
Indices: 27523476--27523559 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
27523466 TCCTGTGGCG
* * *
27523476 ACAATTCTGGACATGCTCATGCATTGATAATTTTGGGC
1 ACAATTCTAGACATGCTCATGCACTGACAATTTTGGGC
* *
27523514 AAAATTCTAGACAT-CGTCATGCACTGACAATTTTTGGC
1 ACAATTCTAGACATGC-TCATGCACTGACAATTTTGGGC
*
27523552 TCAATTCT
1 ACAATTCT
27523560 GAATAGACTC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.03
38 37 0.97
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (38 bp):
ACAATTCTAGACATGCTCATGCACTGACAATTTTGGGC
Found at i:27531006 original size:19 final size:20
Alignment explanation
Indices: 27530959--27531006 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
27530949 TTGATAATTT
27530959 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
27530977 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
27530996 TTAATTATTAT
1 TTAATTATTAT
27531007 CAATAATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 14 0.56
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:27531093 original size:25 final size:27
Alignment explanation
Indices: 27531038--27531093 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 27
27531028 GTTTTCTTTA
27531038 AAATTTAAAATTTAAATAAAGTTTTTC
1 AAATTTAAAATTTAAATAAAGTTTTTC
* *
27531065 --ATTT-AAATTTAATTTAA-TTTTTC
1 AAATTTAAAATTTAAATAAAGTTTTTC
27531088 AAATTT
1 AAATTT
27531094 TGATAATCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.24
24 11 0.44
25 8 0.32
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
AAATTTAAAATTTAAATAAAGTTTTTC
Found at i:27531347 original size:104 final size:104
Alignment explanation
Indices: 27531083--27531365 Score: 382
Period size: 104 Copynumber: 2.7 Consensus size: 104
27531073 TTAATTTAAT
* *
27531083 TTTTC-AAATTTTGATAATCCTTAATAT--TTATAAATTAAATTTTATAATTTATATTAATCATT
1 TTTTCAAAATTTTGATAATTCTTAATATAATTATAAATTAAATTTTATAATTTATATTAATTATT
* *
27531145 ATCAAAAGTTTGAATTAAGATTTTTCATTTAAAGTTTTA
66 ATCAAAAGTTTGAATTAAGATTTCTCATTTAAACTTTTA
* * *
27531184 TTTTTCAAAGTGTTGATAATTCTTAATATAAATTATAAATTAAATTTTATAATTAATATTAATTA
1 -TTTTCAAAATTTTGATAATTCTTAATAT-AATTATAAATTAAATTTTATAATTTATATTAATTA
*
27531249 TTAT--AAAGATTTGAGATT-AGGTTTGCTCATTTAAACTTTTA
64 TTATCAAAAG-TTTGA-ATTAAGATTT-CTCATTTAAACTTTTA
*
27531290 -TTTCAAAATTTTGATAATTCTTAATAATAATTATAAATTAAACTTTATAATTTATATTAATTAT
1 TTTTCAAAATTTTGATAATTCTTAAT-ATAATTATAAATTAAATTTTATAATTTATATTAATTAT
27531354 TATCAAAAGTTT
65 TATCAAAAGTTT
27531366 TCATTTAAAT
Statistics
Matches: 159, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
102 5 0.03
103 19 0.12
104 64 0.40
105 15 0.09
106 56 0.35
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (104 bp):
TTTTCAAAATTTTGATAATTCTTAATATAATTATAAATTAAATTTTATAATTTATATTAATTATT
ATCAAAAGTTTGAATTAAGATTTCTCATTTAAACTTTTA
Found at i:27532081 original size:29 final size:29
Alignment explanation
Indices: 27532039--27532096 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
27532029 TTAAATTTTA
*
27532039 TAAAAATGTTTGTTTCCATTTGTTGGTTG
1 TAAAAATATTTGTTTCCATTTGTTGGTTG
27532068 TAAAAATATTTGTTTCCATTTGTTGGTTG
1 TAAAAATATTTGTTTCCATTTGTTGGTTG
27532097 ATTAGGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (29 bp):
TAAAAATATTTGTTTCCATTTGTTGGTTG
Found at i:27532938 original size:18 final size:19
Alignment explanation
Indices: 27532915--27532972 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
27532905 TTTGTTAAAT
*
27532915 AAGAAGAAGATTC-TGAAG
1 AAGAAGAAGATCCTTGAAG
* *
27532933 AAGAAGAGGA-CCTTGAGG
1 AAGAAGAAGATCCTTGAAG
*
27532951 AAGAAGAAGAT-CTTGAGG
1 AAGAAGAAGATCCTTGAAG
27532969 AAGA
1 AAGA
27532973 CCTTGAGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 1 0.03
18 33 0.97
ACGTcount: A:0.47, C:0.07, G:0.33, T:0.14
Consensus pattern (19 bp):
AAGAAGAAGATCCTTGAAG
Found at i:27547482 original size:47 final size:47
Alignment explanation
Indices: 27546669--27547500 Score: 759
Period size: 47 Copynumber: 17.7 Consensus size: 47
27546659 CCATTAAATT
* * ** ** **
27546669 TTATACCCCAAATCTAAAAGGGCAAATTGAAATCATCGTATTAAGTC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
* * * *
27546716 TTATACCCCAAATCCA-AAGGGACAGATTGAAGCTATCTCATCCAGTT
1 TTATACCCCAAATCTAGAAGGG-CAGATTGAAGCCATCACATCCAGTC
* * *** *
27546763 TTATACCCCAAATCCAAAAAAACAAATTGAAGCCATCACATCCAGTC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
* * * *
27546810 TTATACCTCAAATCCAG-AGGGACAGATTGAAGTCATCACATCCAATC
1 TTATACCCCAAATCTAGAAGGG-CAGATTGAAGCCATCACATCCAGTC
* *
27546857 TTATACCCCAAATCAAGAAGGGCAGATTGAAGCCATCACATCTAGTC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
* * * * * *
27546904 TTATACTCCAAATC-AAAAAGGTAGATTAAAGCCATCACATTCAGTC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
* * * * * *
27546950 TTATACCCCAAATCAAAAAAGGCAGATTAAAGCCATTACATTCAGTC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
* * * *
27546997 TTATACCCCAAATCTAG-AGAGGCAAATTAAAGACATCACATCCAATC
1 TTATACCCCAAATCTAGAAG-GGCAGATTGAAGCCATCACATCCAGTC
** * ** **
27547044 TTATACCTTAAATTTAGAAGGGCAGACCGAAGCCATCACATTTAGTC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
** * * * * *
27547091 TTATACCTTAAATCCAGAGGGGCAGCTTGAAGCCATCACATCTAATC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
* * * * * * *
27547138 TTATACCCCAAATCTTGAGGGGTAGATTTAAGCCATCCCACCCTATTC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCC-AGTC
* *
27547186 TTATACCCAAAATCCA-AAGGGGCAGATTGAAGCCATCACATCCAGTC
1 TTATACCCCAAATCTAGAA-GGGCAGATTGAAGCCATCACATCCAGTC
* * * *
27547233 TTATACCCAAAATCCAGAGGGGCAGATTGAAGCCATCACATCCAATC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
* * * * *
27547280 TTATACCTCAAATCCAGATGGACAGATTGAAGTCATCACATCCAGTC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
* * * *
27547327 TTATACCTCAAATCTA-AAGGGGCACACTGAAGCCATCACATCCAATC
1 TTATACCCCAAATCTAGAA-GGGCAGATTGAAGCCATCACATCCAGTC
*
27547374 TTATACCCCAAAT-T-GAAATGGGCA-ATTTGAAGCCATTACATCC-GATC
1 TTATACCCCAAATCTAG-AA-GGGCAGA-TTGAAGCCATCACATCCAG-TC
* *
27547421 TTATACCCCAAATCTAGAAGGGC-GAATTGAAGCCATCATATCCAGTA
1 TTATACCCCAAATCTAGAAGGGCAG-ATTGAAGCCATCACATCCAGTC
* *
27547468 TTATACCCCAAATCTAGAGGGGTAGATTGAAGC
1 TTATACCCCAAATCTAGAAGGGCAGATTGAAGC
27547501 TACTAGATCA
Statistics
Matches: 652, Mismatches: 112, Indels: 42
0.81 0.14 0.05
Matches are distributed among these distances:
46 49 0.08
47 551 0.85
48 51 0.08
49 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.24
Consensus pattern (47 bp):
TTATACCCCAAATCTAGAAGGGCAGATTGAAGCCATCACATCCAGTC
Found at i:27551906 original size:26 final size:25
Alignment explanation
Indices: 27551871--27551919 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
27551861 ATAATGACAA
27551871 AATAAATAAATATAAA-AAATACATG
1 AATAAATAAAT-TAAATAAATACATG
27551896 AATAAGATAAATTAAATAAATACA
1 AATAA-ATAAATTAAATAAATACA
27551920 ATTAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (25 bp):
AATAAATAAATTAAATAAATACATG
Found at i:27551938 original size:26 final size:25
Alignment explanation
Indices: 27551875--27551940 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
27551865 TGACAAAATA
27551875 AATA-AATATAAA-AAATACATGAAT
1 AATATAATA-AAATAAATACATGAAT
* * *
27551899 AAGATAAATTAAATAAATACAATTAAT
1 AATAT-AATAAAATAAATAC-ATGAAT
27551926 AATATAATAAAATAA
1 AATATAATAAAATAA
27551941 TAATGACAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
24 3 0.09
25 3 0.09
26 18 0.55
27 9 0.27
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (25 bp):
AATATAATAAAATAAATACATGAAT
Found at i:27553367 original size:17 final size:17
Alignment explanation
Indices: 27553345--27553377 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27553335 TCAAACTGGG
27553345 TTTATTGTA-TTATTTAT
1 TTTATT-TATTTATTTAT
27553362 TTTATTTATTTATTTA
1 TTTATTTATTTATTTA
27553378 CATTTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTATTTAT
Found at i:27556354 original size:22 final size:22
Alignment explanation
Indices: 27556329--27556371 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
27556319 AAAATATTTC
*
27556329 ATTA-ATAATTTGGGTTTAATTA
1 ATTATATAAATTGGG-TTAATTA
*
27556351 ATTATTTAAATTGGGTTAATT
1 ATTATATAAATTGGGTTAATT
27556372 TTATTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
ATTATATAAATTGGGTTAATTA
Found at i:27561307 original size:16 final size:16
Alignment explanation
Indices: 27561287--27561354 Score: 77
Period size: 16 Copynumber: 4.2 Consensus size: 16
27561277 ATTATCATTA
27561287 CTTATTATA-TTTATT
1 CTTATTATATTTTATT
27561302 CTTTATTAT-TTTTATT
1 C-TTATTATATTTTATT
* *
27561318 ACGTATTATATTTTATA
1 -CTTATTATATTTTATT
27561335 CTTATTATATTTTTATT
1 CTTATTATA-TTTTATT
27561352 CTT
1 CTT
27561355 TACATATTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.02
16 27 0.61
17 16 0.36
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.66
Consensus pattern (16 bp):
CTTATTATATTTTATT
Found at i:27561316 original size:25 final size:25
Alignment explanation
Indices: 27561247--27561319 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
27561237 TTGCTTGTTC
**
27561247 TTATTCTTTATAATTTTTAACACAT
1 TTATTCTTTATAATTTTTATTACAT
* * * *
27561272 TTATT-ATTATCATTACTTATTATAT
1 TTATTCTTTATAATT-TTTATTACAT
*
27561297 TTATTCTTTATTATTTTTATTAC
1 TTATTCTTTATAATTTTTATTAC
27561320 GTATTATATT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
24 7 0.19
25 22 0.61
26 7 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATTCTTTATAATTTTTATTACAT
Found at i:27561319 original size:32 final size:33
Alignment explanation
Indices: 27561271--27561347 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 33
27561261 TTTTAACACA
* * * *
27561271 TTTATTATTATCATTACTTATTATA-TTTATTC
1 TTTATTATTTTTATTACGTATTATATTTTATAC
27561303 TTTATTATTTTTATTACGTATTATATTTTATAC
1 TTTATTATTTTTATTACGTATTATATTTTATAC
27561336 -TTATTATATTTT
1 TTTATTAT-TTTT
27561348 TATTCTTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
32 29 0.74
33 10 0.26
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.65
Consensus pattern (33 bp):
TTTATTATTTTTATTACGTATTATATTTTATAC
Found at i:27561348 original size:17 final size:17
Alignment explanation
Indices: 27561308--27561374 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
27561298 TATTCTTTAT
*
27561308 TATTTTTATTACGTATTA
1 TATTTTTA-TACTTATTA
27561326 TA-TTTTATACTTATTA
1 TATTTTTATACTTATTA
* *
27561342 TATTTTTATTCTT-TACA
1 TATTTTTATACTTAT-TA
*
27561359 TATTTCTATACTTATT
1 TATTTTTATACTTATT
27561375 TTTATTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
16 11 0.28
17 26 0.65
18 3 0.08
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (17 bp):
TATTTTTATACTTATTA
Found at i:27561388 original size:35 final size:34
Alignment explanation
Indices: 27561325--27561407 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 34
27561315 ATTACGTATT
*
27561325 ATATTT-TATACTTATTATATTTTTATTCTTTAC
1 ATATTTCTATACTTATTATATTTATATTCTTTAC
* *
27561358 ATATTTCTATACTTATTTTTATTTATATTCTTTAT
1 ATATTTCTATACTTA-TTATATTTATATTCTTTAC
*
27561393 ATAATTCTAATACTT
1 ATATTTCT-ATACTT
27561408 TTTGTAACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 6 0.14
34 8 0.19
35 23 0.53
36 6 0.14
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (34 bp):
ATATTTCTATACTTATTATATTTATATTCTTTAC
Found at i:27565738 original size:15 final size:15
Alignment explanation
Indices: 27565718--27565752 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27565708 CGAGAAGGAC
27565718 GAGAAAGAAGATGCT
1 GAGAAAGAAGATGCT
**
27565733 GAGAAAGAATCTGCT
1 GAGAAAGAAGATGCT
27565748 GAGAA
1 GAGAA
27565753 CACTATCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.09, G:0.31, T:0.14
Consensus pattern (15 bp):
GAGAAAGAAGATGCT
Found at i:27569498 original size:24 final size:24
Alignment explanation
Indices: 27569466--27569521 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
27569456 TGTATGGGTA
27569466 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
27569490 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
27569514 TCCTCTTG
1 TCTTCTTG
27569522 AGAACTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:27571140 original size:11 final size:10
Alignment explanation
Indices: 27571116--27571154 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
27571106 ACCCACAGAA
*
27571116 TATTTTTCTT
1 TATTTTTCTC
27571126 TATTTTTCTC
1 TATTTTTCTC
27571136 GTATTTTTCTC
1 -TATTTTTCTC
27571147 T-TTTTTCT
1 TATTTTTCT
27571155 TGACTTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 7 0.26
10 10 0.37
11 10 0.37
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.74
Consensus pattern (10 bp):
TATTTTTCTC
Found at i:27571142 original size:21 final size:20
Alignment explanation
Indices: 27571116--27571154 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
27571106 ACCCACAGAA
*
27571116 TATTTTTCTTTATTTTTCTCG
1 TATTTTTCTCT-TTTTTCTCG
27571137 TATTTTTCTCTTTTTTCT
1 TATTTTTCTCTTTTTTCT
27571155 TGACTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.74
Consensus pattern (20 bp):
TATTTTTCTCTTTTTTCTCG
Found at i:27573124 original size:24 final size:24
Alignment explanation
Indices: 27573092--27573147 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
27573082 TGTATGGGTA
27573092 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
27573116 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
27573140 TCCTCTTG
1 TCTTCTTG
27573148 AGAACTCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:27574767 original size:20 final size:21
Alignment explanation
Indices: 27574742--27574780 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27574732 AACCCACAGA
27574742 ATATTTTT-TTTATTTTTCTC
1 ATATTTTTCTTTATTTTTCTC
*
27574762 ATATTTTTCTTTTTTTTTC
1 ATATTTTTCTTTATTTTTC
27574781 GATTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (21 bp):
ATATTTTTCTTTATTTTTCTC
Found at i:27576751 original size:24 final size:24
Alignment explanation
Indices: 27576719--27576774 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
27576709 TGTATTAGTA
27576719 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
* *
27576743 TCTTCTTGTTTTTCTTTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
27576767 TCCTCTTG
1 TCTTCTTG
27576775 AGAATTCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:27576755 original size:12 final size:12
Alignment explanation
Indices: 27576719--27576774 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
27576709 TGTATTAGTA
27576719 TCTTCTTGTTTT
1 TCTTCTTGTTTT
**
27576731 TCATT-TTCATTT
1 TC-TTCTTGTTTT
27576743 TCTTCTTGTTTT
1 TCTTCTTGTTTT
* *
27576755 TCTTTTTCTTTT
1 TCTTCTTGTTTT
*
27576767 TCCTCTTG
1 TCTTCTTG
27576775 AGAATTCTCC
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
11 2 0.06
12 29 0.88
13 2 0.06
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (12 bp):
TCTTCTTGTTTT
Found at i:27578405 original size:19 final size:20
Alignment explanation
Indices: 27578371--27578409 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27578361 AACCCACAAA
*
27578371 ATATTTTTTTTATTTTTCTC
1 ATATTTTTCTTATTTTTCTC
27578391 ATATTTTTCTT-TTTTTCTC
1 ATATTTTTCTTATTTTTCTC
27578410 GACTTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (20 bp):
ATATTTTTCTTATTTTTCTC
Found at i:27582725 original size:57 final size:57
Alignment explanation
Indices: 27582621--27582734 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
27582611 TTTACTACCG
* *
27582621 GTAGAAGTGTAGGTTCTATCGATACAAGTATGGCTACTACTAATACAACCCACTCTA
1 GTAGAAGTGTAGGTTCTACCGATACAAGTATGGCTACTACCAATACAACCCACTCTA
** *
27582678 GTAGAAGTGTAGGTTCTACCGATACAAGTATGGCTACTACCGTTACAACCCCCTCTA
1 GTAGAAGTGTAGGTTCTACCGATACAAGTATGGCTACTACCAATACAACCCACTCTA
27582735 CTACCGATAC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (57 bp):
GTAGAAGTGTAGGTTCTACCGATACAAGTATGGCTACTACCAATACAACCCACTCTA
Found at i:27583434 original size:26 final size:26
Alignment explanation
Indices: 27583404--27583473 Score: 97
Period size: 25 Copynumber: 2.7 Consensus size: 26
27583394 CTTCCAGATC
* *
27583404 TTTAGCTCATACAAACCCAGACAAAG
1 TTTAGCTCTTACAAGCCCAGACAAAG
* *
27583430 TTTAGCTCTTA-GAGCCCAGACAGAG
1 TTTAGCTCTTACAAGCCCAGACAAAG
27583455 TTTAGCTCTTACAAGCCCA
1 TTTAGCTCTTACAAGCCCA
27583474 AACAGTGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 22 0.58
26 16 0.42
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (26 bp):
TTTAGCTCTTACAAGCCCAGACAAAG
Found at i:27583478 original size:26 final size:26
Alignment explanation
Indices: 27583404--27583484 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
27583394 CTTCCAGATC
* * *
27583404 TTTAGCTCATACAAACCCAGACAAAG
1 TTTAGCTCTTACAAGCCCAGACAGAG
*
27583430 TTTAGCTCTTA-GAGCCCAGACAGAG
1 TTTAGCTCTTACAAGCCCAGACAGAG
* *
27583455 TTTAGCTCTTACAAGCCCAAACAGTG
1 TTTAGCTCTTACAAGCCCAGACAGAG
27583481 TTTA
1 TTTA
27583485 ACCAGTATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 22 0.47
26 25 0.53
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (26 bp):
TTTAGCTCTTACAAGCCCAGACAGAG
Found at i:27585578 original size:17 final size:17
Alignment explanation
Indices: 27585558--27585590 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27585548 TTTAAGGACT
27585558 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTAGTTTAAG
27585575 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
27585591 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAG
Found at i:27585864 original size:50 final size:50
Alignment explanation
Indices: 27585785--27585940 Score: 172
Period size: 50 Copynumber: 3.1 Consensus size: 50
27585775 TGACATCCAT
* *
27585785 TAACTCTCATGATTAGTTAAGTTTGCATCATAAATAATGACATGCATTAAG
1 TAACTCACATG-TTAGTTAAATTTGCATCATAAATAATGACATGCATTAAG
* * * *
27585836 TAACTTACATGTTAGTTAAATATGCATCATAAATCAT-ATCATGCATTATG
1 TAACTCACATGTTAGTTAAATTTGCATCATAAATAATGA-CATGCATTAAG
* * *
27585886 TAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATCAA-GTCATGCATTTAG
1 TAACTCACATGTTAGTTAAA-TTTGCATCA-TAAAT-AATGACATGCATTAAG
27585938 TAA
1 TAA
27585941 TCCATTAGTT
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
49 1 0.01
50 51 0.59
51 17 0.20
52 17 0.20
53 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (50 bp):
TAACTCACATGTTAGTTAAATTTGCATCATAAATAATGACATGCATTAAG
Found at i:27587161 original size:26 final size:26
Alignment explanation
Indices: 27587132--27587213 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 26
27587122 AAATATGACA
*
27587132 AAAATTCGAAAAAAAAGAAAAAAATCA
1 AAAATT-GAAAAAAAAGAAAAAAATCG
* *
27587159 AAATATTGAAAAAATA-AAAAAATTCG
1 AAA-ATTGAAAAAAAAGAAAAAAATCG
**
27587185 AAGCTTGAAAAAAAGAAGAAAAAAATCG
1 AAAATTG-AAAAAA-AAGAAAAAAATCG
27587213 A
1 A
27587214 GTTAAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
25 3 0.07
26 16 0.36
27 12 0.27
28 13 0.30
ACGTcount: A:0.68, C:0.06, G:0.11, T:0.15
Consensus pattern (26 bp):
AAAATTGAAAAAAAAGAAAAAAATCG
Found at i:27587213 original size:28 final size:26
Alignment explanation
Indices: 27587174--27587241 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 26
27587164 TTGAAAAAAT
*
27587174 AAAAAAATTCGAAGCTTGAAAAAAAGAA
1 AAAAAAAATCGAAG-TT-AAAAAAAGAA
*
27587202 GAAAAAAATCG-AGTTAAAAAAAGAA
1 AAAAAAAATCGAAGTTAAAAAAAGAA
27587227 AAAGAAAGAATCGAA
1 AAA-AAA-AATCGAA
27587242 AGAAGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 12 0.35
26 5 0.15
27 7 0.21
28 10 0.29
ACGTcount: A:0.66, C:0.06, G:0.16, T:0.12
Consensus pattern (26 bp):
AAAAAAAATCGAAGTTAAAAAAAGAA
Found at i:27588299 original size:21 final size:21
Alignment explanation
Indices: 27588275--27588316 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
27588265 AAAAGAGTGC
27588275 AAGAGAGAAGAAA-AAGAAAGT
1 AAGAGAGAA-AAAGAAGAAAGT
**
27588296 AAGATTGAAAAAGAAGAAAGT
1 AAGAGAGAAAAAGAAGAAAGT
27588317 GATCAAGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (21 bp):
AAGAGAGAAAAAGAAGAAAGT
Found at i:27589515 original size:27 final size:27
Alignment explanation
Indices: 27589477--27589538 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
27589467 AGAGGGAGGG
*
27589477 TATGATGTGAGCACGATCACATCATGT
1 TATGATGCGAGCACGATCACATCATGT
27589504 TATGATGCGAGCACGATCACATCATGT
1 TATGATGCGAGCACGATCACATCATGT
27589531 TATGATGC
1 TATGATGC
27589539 AATTCGAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (27 bp):
TATGATGCGAGCACGATCACATCATGT
Found at i:27589659 original size:17 final size:17
Alignment explanation
Indices: 27589639--27589671 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27589629 TTTAAGGACT
27589639 TTTTAATTTTA-TTTAAA
1 TTTT-ATTTTAGTTTAAA
27589656 TTTTATTTTAGTTTAA
1 TTTTATTTTAGTTTAA
27589672 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTATTTTAGTTTAAA
Found at i:27589820 original size:33 final size:34
Alignment explanation
Indices: 27589767--27589831 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
27589757 AAGATTATTA
* * *
27589767 TTTAATTATGTCATGTATTAT-TAATCTACATCT
1 TTTAAATATGACATGCATTATGTAATCTACATCT
*
27589800 TTTAAATATGACATGCATTATGTGATCTACAT
1 TTTAAATATGACATGCATTATGTAATCTACAT
27589832 TTAATAGTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (34 bp):
TTTAAATATGACATGCATTATGTAATCTACATCT
Found at i:27589941 original size:50 final size:50
Alignment explanation
Indices: 27589864--27590000 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
27589854 TGACATCCAT
* *
27589864 TAACTCTCATGATTAGTTAAGTTTGCATCATAAATAACGA-CATGAATTAAG
1 TAACTCACATG-TTAGTTAAATTTGCATCATAAAT-ACGATCATGAATTAAG
* * * * * *
27589915 TAACTTACATGTTAGTTAAATATGCATCATAAATCCTATCATGCATTATG
1 TAACTCACATGTTAGTTAAATTTGCATCATAAATACGATCATGAATTAAG
*
27589965 TAACTCCCATGTTAGTTAAAGTTTGCATCATTAAAT
1 TAACTCACATGTTAGTTAAA-TTTGCATCA-TAAAT
27590001 CAAGTCATGC
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.03
50 48 0.67
51 17 0.24
52 5 0.07
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (50 bp):
TAACTCACATGTTAGTTAAATTTGCATCATAAATACGATCATGAATTAAG
Found at i:27595282 original size:25 final size:25
Alignment explanation
Indices: 27595243--27595319 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 25
27595233 ATACTTGTTA
* * * *
27595243 AACTCTGTCTAGGCTTGTAAGAGTT
1 AACTCTATCTGGGCTCGTAAGAGCT
* *
27595268 GACTCTATTTGGGCTCGTAAGAGCT
1 AACTCTATCTGGGCTCGTAAGAGCT
*
27595293 AACTCTATCTGGGCTCGTATGAGCT
1 AACTCTATCTGGGCTCGTAAGAGCT
27595318 AA
1 AA
27595320 ATTTTTGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (25 bp):
AACTCTATCTGGGCTCGTAAGAGCT
Found at i:27607582 original size:3 final size:3
Alignment explanation
Indices: 27607574--27607623 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
27607564 GACAGTGACA
27607574 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
27607622 AG
1 AG
27607624 ATGGATGAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:27609709 original size:21 final size:21
Alignment explanation
Indices: 27609684--27609724 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
27609674 CCTATGCTAC
*
27609684 AATTAATCCCCTATTTTTTTA
1 AATTAAGCCCCTATTTTTTTA
* *
27609705 AATTAAGCCTCTCTTTTTTT
1 AATTAAGCCCCTATTTTTTT
27609725 TTTTGCACTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (21 bp):
AATTAAGCCCCTATTTTTTTA
Found at i:27609881 original size:91 final size:93
Alignment explanation
Indices: 27609720--27609908 Score: 231
Period size: 91 Copynumber: 2.0 Consensus size: 93
27609710 AGCCTCTCTT
* * * * * *
27609720 TTTTTTTTTGCACTCATTTGGGTGCTTGAACTTTCAAAATGCATCAAAATGACCCTCAAACCTT-
1 TTTTTCTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACCTTA
** * *
27609784 TTAAAAAAAACA-CAATTAAGCCCTTAC
66 AAAAAAAAAAAAGCAATTAAGCCCCTAC
* *
27609811 TTTTTCTTTGCACTCAATTGGGTACTTAAACTTTTAAAATGCATAAAAAAGACCCTTAAA-CTTA
1 TTTTTCTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACCTT-
27609875 AAAAAAAAAAAAAAGCAATTAAGCCCCTAC
65 -AAAAAAAAAAAAAGCAATTAAGCCCCTAC
27609905 TTTT
1 TTTT
27609909 ATTAAAAATA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
90 3 0.04
91 52 0.63
93 9 0.11
94 18 0.22
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (93 bp):
TTTTTCTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACCTTA
AAAAAAAAAAAAGCAATTAAGCCCCTAC
Found at i:27609993 original size:30 final size:30
Alignment explanation
Indices: 27609951--27610066 Score: 98
Period size: 30 Copynumber: 3.9 Consensus size: 30
27609941 GGTTTTAAAT
*
27609951 ATTATTAAATTTTAATAAAAA-AATATAA-AA
1 ATTATAAAATTTT-ATAAAAATAATA-AAGAA
*
27609981 ATTGTAAAATTTTATAAAAATAATAAAGAA
1 ATTATAAAATTTTATAAAAATAATAAAGAA
* *
27610011 ATTATAAAA-TATATAGAAAT-ATAAA-AA
1 ATTATAAAATTTTATAAAAATAATAAAGAA
* * *
27610038 ATATATAGAAATTATATAGAAATTATAAA
1 AT-TATA-AAATTTTATAAAAATAATAAA
27610067 ATATATAGAA
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
27 4 0.05
28 9 0.12
29 21 0.28
30 36 0.48
31 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (30 bp):
ATTATAAAATTTTATAAAAATAATAAAGAA
Found at i:27610007 original size:19 final size:18
Alignment explanation
Indices: 27609964--27610094 Score: 76
Period size: 19 Copynumber: 7.1 Consensus size: 18
27609954 ATTAAATTTT
27609964 AATAA-AAAA-ATATAAA
1 AATAATAAAATATATAAA
** *
27609980 AATTGTAAAATTTTATAAA
1 AATAATAAAA-TATATAAA
*
27609999 AATAATAAAGAAAT-TATAA
1 AATAATAAA-ATATATA-AA
27610018 AATATATAGAAATATA-AAA
1 AATA-ATA-AAATATATAAA
*
27610037 AATATATAGAAATTATATAGA
1 AATA-ATA-AAA-TATATAAA
*
27610058 AATTATAAAATATATAGAA
1 AATAATAAAATATATA-AA
27610077 ATATAA-AAAAT-TATAAA
1 A-ATAATAAAATATATAAA
27610094 A
1 A
27610095 TTTTATAAAG
Statistics
Matches: 91, Mismatches: 12, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
16 3 0.03
17 7 0.08
18 12 0.13
19 44 0.48
20 18 0.20
21 7 0.08
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AATAATAAAATATATAAA
Done.