Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 112 of 214
Found at i:33967527 original size:18 final size:18
Alignment explanation
Indices: 33967506--33967541 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33967496 TCTCTATTCT
*
33967506 TCTTCTTCTTCTTCTTTA
1 TCTTCATCTTCTTCTTTA
33967524 TCTTCATCTTCTTCTTTA
1 TCTTCATCTTCTTCTTTA
33967542 GTTATTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (18 bp):
TCTTCATCTTCTTCTTTA
Found at i:33971628 original size:28 final size:26
Alignment explanation
Indices: 33971574--33971628 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
33971564 AAACTCTTCT
* *
33971574 AAAAGAAAACTTAAGAGAAATTCTTA
1 AAAAGAAAACTAAAGAGAAATTATTA
*
33971600 AAAAGAAAAACTCAAAGAGAATTTATTA
1 AAAAG-AAAACT-AAAGAGAAATTATTA
33971628 A
1 A
33971629 CTTAAAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 6 0.25
28 13 0.54
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.22
Consensus pattern (26 bp):
AAAAGAAAACTAAAGAGAAATTATTA
Found at i:33977292 original size:433 final size:434
Alignment explanation
Indices: 33976583--33977452 Score: 1311
Period size: 433 Copynumber: 2.0 Consensus size: 434
33976573 TCAAGCTTTT
* * *
33976583 ACTTATGTAACATCCAAAAATATCAGGGGTTAGTAGAATCGGGTTTGTGAATCAAGAGAGAGTGG
1 ACTTATGTAACATCCAAAAATATCAGGGGTCAGTAGAATCAGGTTTGTGAATCAAGAAAGAGTGG
* * * *
33976648 TCATGCCTTAATTTTTTAGATTATTTATGGATTTTTAGGAAATAAATGAGGTTGGTTTGTTGGTT
66 TCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTTGGTTTGTTGGTT
* * * *
33976713 AAGTATTAGTAAAATGTTTCTTGAAACCCAAGTTCAAATCCCTTGTCTCGCGTCATTTTTATTAT
131 AAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTATTAT
* * * *
33976778 TTTGAAAATTTTTCCTTAAAGCCTAGTATGTGACATGCCTTATTTTTAAAATAAATATTGCAAAA
196 TTTGAAAATTTTTCCTTAAACCCTAGTATGTGACATGCATTATCTTTAAAATAAATATTGAAAAA
33976843 TTATTTCAAGAATGAGGAAAAAGCATAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
261 TTATTTCAAGAATGAGGAAAAAGCATAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
* **
33976908 GAGGTCCCAAGTATGAATCCTTTCCTTTGTGAAATAATTAAATTTTGCAAAATCCC-TTG-TTTT
326 GAGGTCCCAAGTATGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAA-CCCTTTGTTTTT
*
33976971 TAATTTGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
390 TAATATGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
* * *
33977016 ACTT-TGTAACATTCCAAAAAT-T-GGGGGTCAGTAGAATCAGGTTTGTGAATCGAGAAAGAGTT
1 ACTTATGTAACA-TCCAAAAATATCAGGGGTCAGTAGAATCAGGTTTGTGAATCAAGAAAGAGTG
* *
33977078 GTCATGCGTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTATTGGTTTTTTG
65 GTCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGG--TTGGTTTGTTG
* * *
33977143 GTTAAGTGTTAGTGAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATGATTTTTAT
128 GTTAAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTAT
* *
33977208 TATTTTGCAAATTTTGT-CTTAAACCCTAGTATGTGACATGTATTATCTTTAAAATAAATATTGA
193 TATTTTGAAAATTTT-TCCTTAAACCCTAGTATGTGACATGCATTATCTTTAAAATAAATATTGA
* * *
33977272 AAAATTATTTCAAGAATGAGGAAAAATCCTAATGGTTAAAAGAAATATGAGAAAGTATGGAAATT
257 AAAATTATTTCAAGAATGAGGAAAAAGCATAATGGTTAAAAGAAATATGAGAAAGCATGGAAATT
* *
33977337 AAATGAGGTCCCAAGTTTGAATCTTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCCTTTTGT
322 AAATGAGGTCCCAAGTATGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCC-TTTG-
* *
33977402 TTTTTTAATATGTGTGTCATCCATACTCTTGAACCCTAAGTATAAATACA
385 TTTTTTAATATGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
33977452 A
1 A
33977453 ATTTTTATTT
Statistics
Matches: 393, Mismatches: 36, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
431 81 0.21
432 11 0.03
433 250 0.64
434 4 0.01
436 47 0.12
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (434 bp):
ACTTATGTAACATCCAAAAATATCAGGGGTCAGTAGAATCAGGTTTGTGAATCAAGAAAGAGTGG
TCATGCCTTAATTTTTTAGATTATCTATGCATTTTTAAGAAATAAAAGAGGTTGGTTTGTTGGTT
AAGTATTAGTAAAACGTTTCTTAAAACCCAAGTTCAAATCCCTTCTCTCGCATCATTTTTATTAT
TTTGAAAATTTTTCCTTAAACCCTAGTATGTGACATGCATTATCTTTAAAATAAATATTGAAAAA
TTATTTCAAGAATGAGGAAAAAGCATAATGGTTAAAAGAAATATGAGAAAGCATGGAAATTAAAT
GAGGTCCCAAGTATGAATCCTTTCCCTTGCAAAATAATTAAATTTTGCAAAACCCTTTGTTTTTT
AATATGTGTGTCATCCATACCCTTGAAACCTAAGTATAAATACA
Found at i:33979392 original size:19 final size:19
Alignment explanation
Indices: 33979357--33979394 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33979347 TTGTATTGAA
*
33979357 TGTTATCGAAATTAATGAT
1 TGTTATCGAAATGAATGAT
33979376 TGTTACTCG-AATGAATGAT
1 TGTTA-TCGAAATGAATGAT
33979395 GGCCTATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTTATCGAAATGAATGAT
Found at i:33982396 original size:77 final size:77
Alignment explanation
Indices: 33982269--33982430 Score: 279
Period size: 77 Copynumber: 2.1 Consensus size: 77
33982259 CTATTCGACT
* *
33982269 CACACTGAGCTTTCATAAGCTCACCCCTAATAGTGTTTAACTTTTCAAGTAAACCTCAAAACTAG
1 CACACTGAGCTTTCATAAGCTCACCCCCAATAGTGTTTAACTTTTCAAGTAAACCTAAAAACTAG
*
33982334 GACTAGACCCAC
66 GACCAGACCCAC
*
33982346 CACACTGAGCTTTCATGAGCTCACCCCCAATAGTGTTTAACTTTTCAAGTAAACCTAAAAACTAG
1 CACACTGAGCTTTCATAAGCTCACCCCCAATAGTGTTTAACTTTTCAAGTAAACCTAAAAACTAG
*
33982411 GACCAGACCCAG
66 GACCAGACCCAC
33982423 CACACTGA
1 CACACTGA
33982431 AAATCTCCTT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (77 bp):
CACACTGAGCTTTCATAAGCTCACCCCCAATAGTGTTTAACTTTTCAAGTAAACCTAAAAACTAG
GACCAGACCCAC
Found at i:33984486 original size:44 final size:44
Alignment explanation
Indices: 33984431--33984528 Score: 187
Period size: 44 Copynumber: 2.2 Consensus size: 44
33984421 AATTTTTTTT
*
33984431 GCTTAAGCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
1 GCTTAACCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
33984475 GCTTAACCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
1 GCTTAACCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
33984519 GCTTAACCCA
1 GCTTAACCCA
33984529 TATAGAAATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (44 bp):
GCTTAACCCAATTTTTCATATGAACATTTGGGCTTGAGTAGGTA
Found at i:33994948 original size:4 final size:4
Alignment explanation
Indices: 33994939--33994976 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
33994929 GGATAAGTTT
*
33994939 ATAC ATAC ATA- AGCAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC AT
33994977 GAATACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 1 0.03
4 28 0.93
5 1 0.03
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:33996294 original size:47 final size:47
Alignment explanation
Indices: 33996198--33996307 Score: 129
Period size: 47 Copynumber: 2.3 Consensus size: 47
33996188 AAAATATTCT
* *
33996198 ATAAAAGGAGTGTAGTAAGGTTAAAACACCTTATTTATCAATATCAA
1 ATAAAAGAAGTGTAGTAAGGTTAAAACACCTTATTTATCAATATAAA
*
33996245 ATAAATGAAGTGTA-TAAGGTTGAAAA-ACCTTATTCTA--AATAAATAAA
1 ATAAAAGAAGTGTAGTAAGGTT-AAAACACCTTATT-TATCAAT--ATAAA
33996292 ATAAAAGAAGTGTAGT
1 ATAAAAGAAGTGTAGT
33996308 TCTATATGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
45 3 0.06
46 15 0.28
47 35 0.65
48 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.29
Consensus pattern (47 bp):
ATAAAAGAAGTGTAGTAAGGTTAAAACACCTTATTTATCAATATAAA
Found at i:34001507 original size:27 final size:27
Alignment explanation
Indices: 34001474--34001633 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
34001464 AAAAAACCCC
34001474 ATAGGGTAAAATGACTGAAATACCCTT
1 ATAGGGTAAAATGACTGAAATACCCTT
*
34001501 A-ATGGGTAAAATGA-TCGAAATACCCTC
1 ATA-GGGTAAAATGACT-GAAATACCCTT
*
34001528 ATAGGGTAAAAT-AATCGAAATA-CCTT
1 ATAGGGTAAAATGACT-GAAATACCCTT
*
34001554 CATAGGGTAAAATGACTGAAATACCATT
1 -ATAGGGTAAAATGACTGAAATACCCTT
* * *
34001582 ATAGGGTAAAATAACCGAAATACCCCT
1 ATAGGGTAAAATGACTGAAATACCCTT
*
34001609 ATAGGGTAAAATGACTGATATACCC
1 ATAGGGTAAAATGACTGAAATACCC
34001634 CTAGGAGATG
Statistics
Matches: 115, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.05
27 103 0.90
28 6 0.05
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (27 bp):
ATAGGGTAAAATGACTGAAATACCCTT
Found at i:34001818 original size:26 final size:26
Alignment explanation
Indices: 34001789--34001859 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
34001779 GGAAGTATAT
*
34001789 TGTTACTGGCAGCTTTGTTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
*
34001815 TGTTATTGGCAGCTTTGCTGCGATAC
1 TGTTACTGGCAGCTTTGCTGCGATAC
* *
34001841 TATTACTGGTAGCTTTGCT
1 TGTTACTGGCAGCTTTGCT
34001860 ACAGTATTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.41
Consensus pattern (26 bp):
TGTTACTGGCAGCTTTGCTGCGATAC
Found at i:34002038 original size:33 final size:28
Alignment explanation
Indices: 34001976--34002033 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
34001966 ATACTGATTT
34001976 TGTATTGGGCTAAGGCCCACACTGTTAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
*
34002004 TGTATTGGGCTAAGGCCCACATTG-TAC
1 TGTATTGGGCTAAGGCCCACACTGTTAC
34002031 TGT
1 TGT
34002034 TACTGAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACACTGTTAC
Found at i:34008192 original size:17 final size:17
Alignment explanation
Indices: 34008170--34008202 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34008160 CACTAACATT
34008170 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
*
34008187 AAAATGTAATGACAAT
1 AAAATGCAATGACAAT
34008203 GTGCACAAAC
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:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:34008631 original size:15 final size:15
Alignment explanation
Indices: 34008611--34008648 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
34008601 ATTGACAATG
34008611 TTCTCAGCAGATTCT
1 TTCTCAGCAGATTCT
* *
34008626 TTCTCAACAGCTTCT
1 TTCTCAGCAGATTCT
34008641 TTCTCAGC
1 TTCTCAGC
34008649 CTTCTCGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (15 bp):
TTCTCAGCAGATTCT
Found at i:34010421 original size:21 final size:20
Alignment explanation
Indices: 34010375--34010423 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
34010365 TATTTTGAAA
34010375 AAATAA-AAAAGTAAAAAAC
1 AAATAATAAAAGTAAAAAAC
34010394 AAA-AATAAAA-TAAAATAAC
1 AAATAATAAAAGTAAAA-AAC
34010413 ATAATAATAAA
1 A-AATAATAAA
34010424 TTCCATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.27
19 11 0.42
20 2 0.08
21 6 0.23
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (20 bp):
AAATAATAAAAGTAAAAAAC
Found at i:34015999 original size:17 final size:16
Alignment explanation
Indices: 34015968--34016001 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
34015958 AAATATTATG
34015968 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
34015984 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
34016001 A
1 A
34016002 CACCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:34017905 original size:33 final size:33
Alignment explanation
Indices: 34017865--34017930 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
34017855 ATAGAGTTAG
34017865 AGAAATTAGTTACATTCGGAAATGAATGTGGTT
1 AGAAATTAGTTACATTCGGAAATGAATGTGGTT
34017898 AGAAATTAGTTACATTCGGAAATGAATGTGGTT
1 AGAAATTAGTTACATTCGGAAATGAATGTGGTT
34017931 TCTCACTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (33 bp):
AGAAATTAGTTACATTCGGAAATGAATGTGGTT
Found at i:34020689 original size:24 final size:25
Alignment explanation
Indices: 34020661--34020708 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
34020651 ATATTCAAGA
*
34020661 AAAAAAGAAAGAAAAGAAA-ATGAAC
1 AAAAAA-ATAGAAAAGAAATATGAAC
*
34020686 AAAAAAATAGCAAAGAAATATGA
1 AAAAAAATAGAAAAGAAATATGA
34020709 TGAAAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.73, C:0.04, G:0.15, T:0.08
Consensus pattern (25 bp):
AAAAAAATAGAAAAGAAATATGAAC
Found at i:34023637 original size:16 final size:16
Alignment explanation
Indices: 34023616--34023646 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34023606 ATTGGGTTGA
*
34023616 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
34023632 GAAAATTAATTAATT
1 GAAAATTAATTAATT
34023647 TAAATTAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:34025168 original size:43 final size:40
Alignment explanation
Indices: 34025061--34025180 Score: 116
Period size: 42 Copynumber: 2.9 Consensus size: 40
34025051 CATAGGATTT
* * *
34025061 CGATATGTGATTACGTGTAAGACCATGTCTGGGACATCGA
1 CGATATATGATTACGTGTAAGACCCTGTCTGGGACATCAA
* *
34025101 TGTCATATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCAA
1 CG--ATATATGATTACGTGTAAGACCCTGTCTGGGACA-T--CAA
* *
34025146 CGATATTTGATTACATGTAAGACCAC-GTCTGGGAC
1 CGATATATGATTACGTGTAAGACC-CTGTCTGGGAC
34025181 GTTAGCATTG
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
42 31 0.48
43 29 0.45
44 1 0.02
45 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (40 bp):
CGATATATGATTACGTGTAAGACCCTGTCTGGGACATCAA
Found at i:34029266 original size:18 final size:17
Alignment explanation
Indices: 34029224--34029267 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
34029214 TGTCGTTCGT
34029224 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
34029241 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
34029260 TTTCAAAA
1 TTTCAAAA
34029268 TGTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:34038055 original size:18 final size:17
Alignment explanation
Indices: 34038025--34038060 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
34038015 AACCTACACC
34038025 TTTCCCTTTCTTTCTCT
1 TTTCCCTTTCTTTCTCT
*
34038042 TTTCCCTCTTCTTTTTCT
1 TTTCCCT-TTCTTTCTCT
34038060 T
1 T
34038061 CACCCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCCCTTTCTTTCTCT
Found at i:34041340 original size:29 final size:29
Alignment explanation
Indices: 34041295--34041358 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
34041285 GGGTAGATTG
* *
34041295 AAAGATTGAATAATTGAAGTTGGCTGGAT
1 AAAGATTGAAGAATTGAAATTGGCTGGAT
* *
34041324 AAAGATTGAAGATTTGAAATTGGTTGGAT
1 AAAGATTGAAGAATTGAAATTGGCTGGAT
34041353 AAAGAT
1 AAAGAT
34041359 CAAATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.31
Consensus pattern (29 bp):
AAAGATTGAAGAATTGAAATTGGCTGGAT
Found at i:34041418 original size:18 final size:17
Alignment explanation
Indices: 34041397--34041430 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
34041387 TTGTAATTAG
34041397 TTTAAATTTGATCTTTAC
1 TTTAAATTTGAT-TTTAC
34041415 TTTAAATTTGATTTTA
1 TTTAAATTTGATTTTA
34041431 AAATTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTAAATTTGATTTTAC
Found at i:34042851 original size:20 final size:20
Alignment explanation
Indices: 34042814--34042852 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34042804 TTTATTTTGA
*
34042814 ATTTTTTTTTAGATAATTAC
1 ATTTTTTTTTAGAAAATTAC
34042834 ATTTATTTTTTA-AAAATTA
1 ATTT-TTTTTTAGAAAATTA
34042853 AGAGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTTTTTAGAAAATTAC
Found at i:34052936 original size:10 final size:10
Alignment explanation
Indices: 34052914--34052948 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
34052904 TATTAAAAAC
34052914 GAGAGAG-TT
1 GAGAGAGTTT
34052923 GAGAGAGTTT
1 GAGAGAGTTT
*
34052933 GAGAGAATTT
1 GAGAGAGTTT
34052943 GAGAGA
1 GAGAGA
34052949 ATTAAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.40, T:0.23
Consensus pattern (10 bp):
GAGAGAGTTT
Found at i:34055882 original size:17 final size:17
Alignment explanation
Indices: 34055862--34055896 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34055852 TTCTTATGTA
*
34055862 TATTAGTTTCTATTATT
1 TATTAGTTTATATTATT
*
34055879 TATTTGTTTATATTATT
1 TATTAGTTTATATTATT
34055896 T
1 T
34055897 CTATGTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (17 bp):
TATTAGTTTATATTATT
Found at i:34055894 original size:13 final size:14
Alignment explanation
Indices: 34055860--34055900 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
34055850 CTTTCTTATG
34055860 TATATTAGTTTCTAT
1 TATATTA-TTTCTAT
*
34055875 TAT-TTATTTGT-T
1 TATATTATTTCTAT
34055887 TATATTATTTCTAT
1 TATATTATTTCTAT
34055901 GTCATTGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 4 0.18
13 11 0.50
14 4 0.18
15 3 0.14
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (14 bp):
TATATTATTTCTAT
Found at i:34063154 original size:88 final size:88
Alignment explanation
Indices: 34063000--34063332 Score: 438
Period size: 88 Copynumber: 3.8 Consensus size: 88
34062990 AACAAATCAG
* *
34063000 TGAAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATC-AATGACACCAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAA-GACACCAGCCTTGCC
*
34063064 TCCTTGGGTTGCAGCGGAGCAAGT
65 TCCCTGGGTTGCAGCGGAGCAAGT
* * * *
34063088 TGAAAATAGCAGATGTTG-CTTTCCTGTACTGACAGCGAAGCAGATTGAAGACACTAGCCTTGCC
1 TGAAAATAGCAGATCTTGCCTTT-CTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
** * *
34063152 TCCCTCAGTGGCAGCGGAGCAGGT
65 TCCCTGGGTTGCAGCGGAGCAAGT
* *
34063176 T-AAAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCC
1 TGAAA-ATAGCAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCC
*
34063240 TCCCTGGGTTGTAGCGGAGCAAGT
65 TCCCTGGGTTGCAGCGGAGCAAGT
* * * * * *
34063264 TAAAAATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGTAGATCGAAGACACTAGCCTTGCCT
1 TGAAAATAGCAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
34063329 CCCT
66 CCCT
34063333 CAGTGGTAGT
Statistics
Matches: 211, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
87 7 0.03
88 195 0.92
89 9 0.04
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTTCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAAGT
Found at i:34063226 original size:45 final size:45
Alignment explanation
Indices: 34063002--34063226 Score: 117
Period size: 45 Copynumber: 5.1 Consensus size: 45
34062992 CAAATCAGTG
34063002 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
1 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
* * * * ** * * * *
34063047 ATGACACCAG-CCTTGCCTCCTTGGGT---TGCAGCGGAGCAAGTTGA
1 AAGATAGCAGATCTTGCCT--TTCTGTACCGGCAGCGAAGC-AGATCA
* * * **
34063091 AA-ATAGCAGATGTTG-CTTTCCTGTACTGACAGCGAAGCAGATTG
1 AAGATAGCAGATCTTGCCTTT-CTGTACCGGCAGCGAAGCAGATCA
* * ** * ** * * *
34063135 AAGACA-CTAG-CCTTGCCTCCCT-CAGTGGCAGCGGAGCAGGTTA
1 AAGATAGC-AGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
34063178 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
1 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
34063223 AAGA
1 AAGA
34063227 CACCAGCCTT
Statistics
Matches: 122, Mismatches: 44, Indels: 28
0.63 0.23 0.14
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 38 0.31
44 36 0.30
45 40 0.33
46 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (45 bp):
AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCA
Found at i:34063238 original size:44 final size:44
Alignment explanation
Indices: 34063014--34063240 Score: 115
Period size: 44 Copynumber: 5.2 Consensus size: 44
34063004 GATAGCAGAT
*
34063014 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAATGACACCAGC
1 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
** * * * * * * *
34063058 CTTGCCTCCTTGGGT---TGCAGCGGAGCAAGTTGAAA-ATAGCAGAT
1 CTTGCCT--TTCTGTACCGGCAGCGAAGC-AGATCAAAGACACCAG-C
* * * ** *
34063102 GTTG-CTTTCCTGTACTGACAGCGAAGCAGATTGAAGACACTAGC
1 CTTGCCTTT-CTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
** * ** * * * * * *
34063146 CTTGCCTCCCT-CAGTGGCAGCGGAGCAGGTTAAAGATAGCAGAT
1 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAG-C
34063190 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
1 CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
34063234 CTTGCCT
1 CTTGCCT
34063241 CCCTGGGTTG
Statistics
Matches: 124, Mismatches: 47, Indels: 24
0.64 0.24 0.12
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 38 0.31
44 41 0.33
45 37 0.30
46 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.26, T:0.22
Consensus pattern (44 bp):
CTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
Found at i:34063296 original size:176 final size:176
Alignment explanation
Indices: 34063002--34063352 Score: 594
Period size: 176 Copynumber: 2.0 Consensus size: 176
34062992 CAAATCAGTG
*
34063002 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAATGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
* * * *
34063067 TTGGGTTGCAGCGGAGCAAGTTGAAAATAGCAGATGTTGCTTTCCTGTACTGACAGCGAAGCAGA
66 CTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
*
34063132 TTGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTA
131 TCGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTA
34063178 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
* * *
34063243 CTGGGTTGTAGCGGAGCAAGTTAAAAATAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGTAGA
66 CTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
* * *
34063308 TCGAAGACACTAGCCTTGCCTCCCTCAGTGGTAGTGGAGTAGGTT
131 TCGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTT
34063353 TGTGACAGCC
Statistics
Matches: 163, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
176 163 1.00
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (176 bp):
AAGATAGCAGATCTTGCCTTTCTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
CTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
TCGAAGACACTAGCCTTGCCTCCCTCAGTGGCAGCGGAGCAGGTTA
Found at i:34064934 original size:40 final size:40
Alignment explanation
Indices: 34064904--34065113 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
34064894 GGACTAAGAT
* * * *
34064904 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
34064944 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
34064984 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
34065024 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
34065064 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
34065103 CCGAAGGCATT
1 CCGAAGGCATT
34065114 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 34 0.22
40 123 0.78
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:34065133 original size:79 final size:80
Alignment explanation
Indices: 34064904--34065148 Score: 235
Period size: 80 Copynumber: 3.1 Consensus size: 80
34064894 GGACTAAGAT
* * * * * ** * *
34064904 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
*
34064968 AAATCTGGGTTAAGTC
65 AAATCCGGGTTAAGTC
** * * ** ** *
34064984 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
34065049 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
34065064 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
34065128 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
34065142 CCGAAGG
1 CCGAAGG
34065149 TACGTGATTT
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 81 0.57
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:34080140 original size:29 final size:29
Alignment explanation
Indices: 34080077--34080144 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
34080067 TAATCAACCA
34080077 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
34080106 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
34080135 CGCACACTTA
1 CGCACACTTA
34080145 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:34080286 original size:29 final size:30
Alignment explanation
Indices: 34080247--34080325 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
34080237 CTTAATAATC
34080247 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
34080277 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
34080306 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34080326 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:34080317 original size:175 final size:173
Alignment explanation
Indices: 34079967--34080319 Score: 546
Period size: 175 Copynumber: 2.0 Consensus size: 173
34079957 AACTCAAGGT
* *
34079967 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
34080032 GAAAATATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
* ***
34080097 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
34080140 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
34080205 GAAAATATATATATGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
66 GAAAATATATAT-TGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATG
* * **
34080270 TACTTTAAACTCGCACACTTAGTGCTGTACAATTT-AAACCCGCAC
129 CACTTTAAACTCACACACTTAGTGCCATAC-ATTTCAAACCCGCAC
34080315 ACTTA
1 ACTTA
34080320 GTGCCAATCT
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
173 75 0.46
174 6 0.04
175 78 0.48
176 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATACATTTCAAACCCGCAC
Found at i:34092605 original size:37 final size:37
Alignment explanation
Indices: 34092555--34092629 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
34092545 ACTACGACAA
* * *
34092555 GGGTGCTGTAAGCATAGCTCAAAATCCCATCCAACAC
1 GGGTGCTATAAGCATAGCCCAAAATCCAATCCAACAC
34092592 GGGTGCTATAAGCATAGCCCAAAATCCAATCCAACAC
1 GGGTGCTATAAGCATAGCCCAAAATCCAATCCAACAC
34092629 G
1 G
34092630 ATTGAACAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.17
Consensus pattern (37 bp):
GGGTGCTATAAGCATAGCCCAAAATCCAATCCAACAC
Found at i:34098618 original size:2 final size:2
Alignment explanation
Indices: 34098611--34098651 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
34098601 AAGGTAACAT
34098611 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
34098652 GAAGGGAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34107569 original size:26 final size:26
Alignment explanation
Indices: 34107514--34107574 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
34107504 GACTACTTAC
*
34107514 ACAACATAATCACTAAATTTCATATG
1 ACAACATAATCACTAAATCTCATATG
* *
34107540 ACAACATAATCACTGAATCTCCTAAT-
1 ACAACATAATCACTAAATCTCAT-ATG
34107566 ACAACATAA
1 ACAACATAA
34107575 AAGCAATATG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.48, C:0.23, G:0.03, T:0.26
Consensus pattern (26 bp):
ACAACATAATCACTAAATCTCATATG
Found at i:34117691 original size:26 final size:26
Alignment explanation
Indices: 34117662--34117711 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
34117652 TCTCATCCCT
*
34117662 ATTTTA-CCCTTAGTAAAATTTTGACA
1 ATTTTATCCC-TAGTAAAAATTTGACA
*
34117688 ATTTTATCCCTGGTAAAAATTTGA
1 ATTTTATCCCTAGTAAAAATTTGA
34117712 GAAAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTATCCCTAGTAAAAATTTGACA
Found at i:34128362 original size:27 final size:27
Alignment explanation
Indices: 34128319--34128653 Score: 286
Period size: 27 Copynumber: 12.4 Consensus size: 27
34128309 TGCGATTCGT
34128319 GGGT-AAATGACCAAAATACCCTCGAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* ***
34128345 GGGTAAAATAATTGAAATA-CCTCCGAA
1 GGGTAAAATGACCAAAATACCCT-CGAA
* *
34128372 GGGTAAAATGACAAAAATACCCTCAAA
1 GGGTAAAATGACCAAAATACCCTCGAA
*
34128399 GGGTAAAATAACCAAAATACCC-CTGAA
1 GGGTAAAATGACCAAAATACCCTC-GAA
* * * * *
34128426 AGGTAAAATAATCGAAATACCCTTGAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* * * *
34128453 AGGTAAAATTATCGAAATA-CCTCCGAA
1 GGGTAAAATGACCAAAATACCCT-CGAA
*
34128480 GGGTAAAATGACCAAAATACCCTCTAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* ** * *
34128507 GGGTAAAATAACTGAAATACCCCCAAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* *
34128534 GGGTAAAATGACTAAAATTCCCTCGAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* * * *
34128561 GCGTAAAATGATCAAAATAGCCACGAA
1 GGGTAAAATGACCAAAATACCCTCGAA
* * * *
34128588 GGGTAAAATGATCGAAATACCCCCAAA
1 GGGTAAAATGACCAAAATACCCTCGAA
*
34128615 GGGTAAAATGACACAAAA-ACCC-CTATA
1 GGGTAAAATGAC-CAAAATACCCTCGA-A
34128642 GGGTAAAATGAC
1 GGGTAAAATGAC
34128654 TGTTATACCC
Statistics
Matches: 253, Mismatches: 47, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
26 13 0.05
27 230 0.91
28 10 0.04
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (27 bp):
GGGTAAAATGACCAAAATACCCTCGAA
Found at i:34128383 original size:54 final size:53
Alignment explanation
Indices: 34128319--34128653 Score: 327
Period size: 54 Copynumber: 6.2 Consensus size: 53
34128309 TGCGATTCGT
*
34128319 GGGT-AAATGACCAAAATACCCTCGAAGGGTAAAATAATTGAAATACCTCCGAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACC-CCGAA
* * * *
34128372 GGGTAAAATGACAAAAATACCCTCAAAGGGTAAAATAACCAAAATACCCCTGAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCC-GAA
* * * * * * *
34128426 AGGTAAAATAATCGAAATACCCTTGAAAGGTAAAATTATCGAAATACCTCCGAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACC-CCGAA
* *
34128480 GGGTAAAATGACCAAAATACCCTCTAAGGGTAAAATAA-CTGAAATACCCCCAAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATC-GAAATA-CCCCGAA
* * * * * *
34128534 GGGTAAAATGACTAAAATTCCCTCGAAGCGTAAAATGATCAAAATAGCCACGAA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATA-CCCCGAA
* * * * * *
34128588 GGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATGACA-C-AAAAACCCCTATA
1 GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAAT-A-ATCGAAATACCCCGA-A
34128642 GGGTAAAATGAC
1 GGGTAAAATGAC
34128654 TGTTATACCC
Statistics
Matches: 227, Mismatches: 46, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
53 11 0.05
54 209 0.92
55 6 0.03
56 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (53 bp):
GGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCCGAA
Found at i:34128431 original size:81 final size:81
Alignment explanation
Indices: 34128319--34128653 Score: 357
Period size: 81 Copynumber: 4.1 Consensus size: 81
34128309 TGCGATTCGT
* * *
34128319 GGGT-AAATGACCAAAATA-CCCTCGAAGGGTAAAATAATTGAAATACCTCCGAAGGGTAAAATG
1 GGGTAAAATGACCAAAATACCCCT-GAAGGGTAAAATAATCGAAATACCCCCAAAGGGTAAAATG
34128382 ACAAAAATACCCTCAAA
65 ACAAAAATACCCTCAAA
* * ** *
34128399 GGGTAAAATAACCAAAATACCCCTGAAAGGTAAAATAATCGAAATACCCTTGAAA-GGTAAAATT
1 GGGTAAAATGACCAAAATACCCCTGAAGGGTAAAATAATCGAAATACCC-CCAAAGGGTAAAATG
* *
34128463 ATC-GAAATA-CCTCCGAA
65 A-CAAAAATACCCT-CAAA
34128480 GGGTAAAATGACCAAAATACCCTCT-AAGGGTAAAATAA-CTGAAATACCCCCAAAGGGTAAAAT
1 GGGTAAAATGACCAAAATACCC-CTGAAGGGTAAAATAATC-GAAATACCCCCAAAGGGTAAAAT
* * *
34128543 GACTAAAATTCCCTCGAA
64 GACAAAAATACCCTCAAA
* * * *
34128561 GCGTAAAATGATCAAAATAGCCAC-GAAGGGTAAAATGATCGAAATACCCCCAAAGGGTAAAATG
1 GGGTAAAATGACCAAAATA-CCCCTGAAGGGTAAAATAATCGAAATACCCCCAAAGGGTAAAATG
*
34128625 ACACAAAA-ACCC-CTATA
65 ACA-AAAATACCCTC-AAA
34128642 GGGTAAAATGAC
1 GGGTAAAATGAC
34128654 TGTTATACCC
Statistics
Matches: 213, Mismatches: 27, Indels: 29
0.79 0.10 0.11
Matches are distributed among these distances:
80 13 0.06
81 181 0.85
82 19 0.09
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (81 bp):
GGGTAAAATGACCAAAATACCCCTGAAGGGTAAAATAATCGAAATACCCCCAAAGGGTAAAATGA
CAAAAATACCCTCAAA
Found at i:34128899 original size:26 final size:26
Alignment explanation
Indices: 34128849--34128899 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
34128839 ACATATACTG
* *
34128849 TTACTAGCAGCTTTGCTGTGTTATTA
1 TTACTAGCAGCTTTGCTGCGATATTA
* *
34128875 TTACTGGCAGCTTTGTTGCGATATT
1 TTACTAGCAGCTTTGCTGCGATATT
34128900 GGTGTGTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.45
Consensus pattern (26 bp):
TTACTAGCAGCTTTGCTGCGATATTA
Found at i:34129045 original size:28 final size:28
Alignment explanation
Indices: 34129004--34129085 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
34128994 CATTGTACTA
*
34129004 ATTACTGTATTGGGATAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
* * *
34129032 GTTACTATATTGGGCTAAGGCCCATATT
1 ATTACTGTATTGGGCTAAGGCCCACATT
*
34129060 ATTACTGTAATGGGCTAAGGCCCACA
1 ATTACTGTATTGGGCTAAGGCCCACA
34129086 CTATATTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACATT
Found at i:34134945 original size:51 final size:51
Alignment explanation
Indices: 34134732--34135176 Score: 374
Period size: 51 Copynumber: 8.8 Consensus size: 51
34134722 TATCATTCGA
* * * *
34134732 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTTCCGG
* * * *
34134781 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AGTTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTTCCGG
* * **
34134831 CT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTTGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTTCCGG
* * * * * * *
34134882 TACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCATAG-TTTACCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTT-CCGG
* * * * *
34134933 TACACGTAGTAGCATTCACACAATACTACACACGTG-CTTAAAGC-TTCTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CATAGCTTTC-CGG
* * * * * *
34134984 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACTATTA--TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-TAGCTTT-CCGG
* * *
34135035 TACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTATT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCT-TTCCGG
* * * * * *
34135086 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCCAT--CATTCCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATAGCTTTCCGG
*
34135136 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAT
34135177 CACTTTTACT
Statistics
Matches: 319, Mismatches: 60, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
49 44 0.14
50 89 0.28
51 179 0.56
52 5 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATAGCTTTCCGG
Found at i:34134968 original size:102 final size:101
Alignment explanation
Indices: 34134729--34135175 Score: 478
Period size: 102 Copynumber: 4.4 Consensus size: 101
34134719 TTTTATCATT
* * * *
34134729 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TTTTACAGTTCACGTAGT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGGTACACATAGT
* * *
34134791 AGCCTTCACATAGTACTACACACGTGATCA-AGTTTTAC
65 AGCCTTCACATAGTACTACACATGTAACCATA--TTTAC
* * * * * *
34134829 GGCT-CACGTAGTAGCCTTCACATAGTACTACATACGTGACCAAAGCTTTTTGGTACCCATTGTA
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
*
34134893 GCCTTCACTTAGTACTACACATGTAACCATAGTTTAC
66 GCCTTCACATAGTACTACACATGTAACCATA-TTTAC
* * * * *
34134930 CGATACACGTAGTAGCATTCACACAATACTACACACGTG-CTTAAAGCTTCTCGGTACACATAGT
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAGCTTTTCGGTACACATAGT
* * * *
34134994 AGCCTTCACTTAGTACTACACATGTGACTATTATTTAT
65 AGCCTTCACATAGTACTACACATGTAACCA-TATTTAC
* * * *
34135032 CGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTATTCGGTACGCATAGTA
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
* * *
34135097 GCCTGCACATAGTACTACACATGCGACCCATCA-TT-C
66 GCCTTCACATAGTACTACACATG-TAACCAT-ATTTAC
* *
34135133 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
34135176 TCACTTTTAC
Statistics
Matches: 290, Mismatches: 47, Indels: 19
0.81 0.13 0.05
Matches are distributed among these distances:
99 35 0.12
100 2 0.01
101 82 0.28
102 166 0.57
103 5 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
GCCTTCACATAGTACTACACATGTAACCATATTTAC
Found at i:34141062 original size:13 final size:13
Alignment explanation
Indices: 34141044--34141068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34141034 TTCCTTTTAT
34141044 TCTTTTTGTTTTC
1 TCTTTTTGTTTTC
34141057 TCTTTTTGTTTT
1 TCTTTTTGTTTT
34141069 TGTTTTGACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TCTTTTTGTTTTC
Found at i:34141953 original size:27 final size:27
Alignment explanation
Indices: 34141910--34142189 Score: 318
Period size: 27 Copynumber: 10.4 Consensus size: 27
34141900 TGCGATTCAT
*
34141910 GGGT-AAATGACCAAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
34141936 GGGTAAAATGACCGAAATACCC-CTAAA
1 GGGTAAAATGACCGAAATACCCTC-GAA
* *
34141963 AGGTAAAATAACCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* * *
34141990 GGATAAAATGACCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
34142017 GGGTAAAATGATCGAAATACCCTCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
** * *
34142044 TTGTAAAATGACCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
34142071 GGGTAAAATGACCGAAATACTCTTGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
* *
34142098 GGGTAAAATGATCGAAATACCCCCGAA
1 GGGTAAAATGACCGAAATACCCTCGAA
*
34142125 GGGTAAAAT-ATCTGAAATA-CCTCCGAA
1 GGGTAAAATGA-CCGAAATACCCT-CGAA
* *
34142152 GGGTAAAATGCCCGAAATACCCT-TATA
1 GGGTAAAATGACCGAAATACCCTCGA-A
34142179 GGGTAAAATGA
1 GGGTAAAATGA
34142190 TCATTATACC
Statistics
Matches: 210, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.04
27 197 0.94
28 4 0.02
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
GGGTAAAATGACCGAAATACCCTCGAA
Found at i:34141985 original size:54 final size:54
Alignment explanation
Indices: 34141910--34142189 Score: 368
Period size: 54 Copynumber: 5.2 Consensus size: 54
34141900 TGCGATTCAT
* *
34141910 GGGT-AAATGACCAAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCTAAA
1 GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
* * *
34141963 AGGTAAAATAACCGAAATACCCTCGAAGGATAAAATGACCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
* **
34142017 GGGTAAAATGATCGAAATACCCTCGAATTGTAAAATGACCGAAATACCCCCAAA
1 GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
* * * *
34142071 GGGTAAAATGACCGAAATACTCTTGAAGGGTAAAATGATCGAAATACCCCCGAA
1 GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
* * ** *
34142125 GGGTAAAAT-ATCTGAAATA-CCTCCGAAGGGTAAAATGCCCGAAATACCCTTATA
1 GGGTAAAATGA-CCGAAATACCCT-CGAAGGGTAAAATGACCGAAATACCCCCAAA
34142179 GGGTAAAATGA
1 GGGTAAAATGA
34142190 TCATTATACC
Statistics
Matches: 196, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
53 6 0.03
54 189 0.96
55 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (54 bp):
GGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAA
Found at i:34142416 original size:26 final size:26
Alignment explanation
Indices: 34142385--34142487 Score: 188
Period size: 26 Copynumber: 4.0 Consensus size: 26
34142375 ACATATACTG
34142385 TTACTGGCAGCTTTCCTGCGTTATTA
1 TTACTGGCAGCTTTCCTGCGTTATTA
34142411 TTACTGGCAGCTTTCCTGCGTTATTA
1 TTACTGGCAGCTTTCCTGCGTTATTA
34142437 TTACTGGCAGCTTTCCTGCGTTATTA
1 TTACTGGCAGCTTTCCTGCGTTATTA
* *
34142463 TTACTGGCAGCTTTGCTGCGATATT
1 TTACTGGCAGCTTTCCTGCGTTATT
34142488 GGTGTGTTGG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (26 bp):
TTACTGGCAGCTTTCCTGCGTTATTA
Found at i:34142633 original size:28 final size:28
Alignment explanation
Indices: 34142588--34142681 Score: 127
Period size: 28 Copynumber: 3.4 Consensus size: 28
34142578 ACTGCATTGT
* *
34142588 ACTGATTACTGTATTGGGATAAGGCTCAC
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
* *
34142617 ATTGTTACTGTATTGGGCTAAGACCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
34142645 ACTGTTACTGTAATGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
34142673 ACTG-TACTG
1 ACTGTTACTG
34142682 ATACTGTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.09
28 50 0.86
29 3 0.05
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:34144067 original size:15 final size:15
Alignment explanation
Indices: 34144047--34144087 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
34144037 GAGATGGAAT
*
34144047 TCGAATCAAATCGAG
1 TCGAATCAAATCGAA
34144062 TCGAATCAAATCGAA
1 TCGAATCAAATCGAA
34144077 TCGAATCAAAT
1 TCGAATCAAAT
34144088 ATATTTGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (15 bp):
TCGAATCAAATCGAA
Found at i:34144477 original size:22 final size:22
Alignment explanation
Indices: 34144452--34144493 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34144442 ATAGTCCAAT
34144452 AAACCAACAACAATAACACACC
1 AAACCAACAACAATAACACACC
* *
34144474 AAACTAATAACAATAACACA
1 AAACCAACAACAATAACACA
34144494 TCAGTTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.29, G:0.00, T:0.10
Consensus pattern (22 bp):
AAACCAACAACAATAACACACC
Found at i:34146605 original size:39 final size:40
Alignment explanation
Indices: 34146542--34146626 Score: 127
Period size: 39 Copynumber: 2.1 Consensus size: 40
34146532 TTACGTAAAA
* *
34146542 TAATGACTAAGTTATTCTTACATTACAATTGTATGGTAAC
1 TAATGACTAAGTTACTCTTACATTACAATTGTAAGGTAAC
* *
34146582 -AATGACTAAGTTACTCTTGCATTATAATTGTAAGGTAAC
1 TAATGACTAAGTTACTCTTACATTACAATTGTAAGGTAAC
34146621 TAATGA
1 TAATGA
34146627 AAGGTAACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 35 0.88
40 5 0.12
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (40 bp):
TAATGACTAAGTTACTCTTACATTACAATTGTAAGGTAAC
Found at i:34146632 original size:14 final size:14
Alignment explanation
Indices: 34146613--34146641 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34146603 TTATAATTGT
34146613 AAGGTAACTAATGA
1 AAGGTAACTAATGA
34146627 AAGGTAACTAATGA
1 AAGGTAACTAATGA
34146641 A
1 A
34146642 TTAATTATTT
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:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
AAGGTAACTAATGA
Found at i:34151877 original size:3 final size:3
Alignment explanation
Indices: 34151869--34151898 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
34151859 ACTGATAATT
34151869 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
34151899 GACAAAGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34152199 original size:9 final size:10
Alignment explanation
Indices: 34152179--34152203 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34152169 GTAAAAGCTT
34152179 AAAATTTAAA
1 AAAATTTAAA
34152189 AAAATTTAAA
1 AAAATTTAAA
34152199 AAAAT
1 AAAAT
34152204 ATAGTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:34157652 original size:6 final size:6
Alignment explanation
Indices: 34157641--34157684 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
34157631 GATTGCGAGA
* *
34157641 ATGATG ATGATG ATGACG ATGACG ATGACG ATGACG ATGACG AT
1 ATGACG ATGACG ATGACG ATGACG ATGACG ATGACG ATGACG AT
34157685 TCTTTGATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (6 bp):
ATGACG
Found at i:34157839 original size:12 final size:12
Alignment explanation
Indices: 34157824--34157861 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
34157814 TTACAAGTTG
*
34157824 TTTTTTGTGTTA
1 TTTTTTGTGCTA
*
34157836 TTTTAT-TGCTA
1 TTTTTTGTGCTA
34157847 TTTTTTGTGCTA
1 TTTTTTGTGCTA
34157859 TTT
1 TTT
34157862 CACTGTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.11, C:0.05, G:0.13, T:0.71
Consensus pattern (12 bp):
TTTTTTGTGCTA
Found at i:34158787 original size:6 final size:6
Alignment explanation
Indices: 34158776--34158826 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
34158766 AAATAGACAC
34158776 AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT
1 AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT AGGAAT
34158824 AGG
1 AGG
34158827 CTCATATAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
AGGAAT
Found at i:34167208 original size:27 final size:27
Alignment explanation
Indices: 34167167--34167221 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
34167157 AAGATGAAGC
*
34167167 AACTGTAGCACCACTAGTAATAATAGA
1 AACTGTAGCACCACTAGTAACAATAGA
*
34167194 AACTGTAGCATCACTAGTAACAATAGA
1 AACTGTAGCACCACTAGTAACAATAGA
34167221 A
1 A
34167222 CCCTACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (27 bp):
AACTGTAGCACCACTAGTAACAATAGA
Found at i:34167495 original size:19 final size:20
Alignment explanation
Indices: 34167463--34167508 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
34167453 CAGAAAATAA
34167463 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
34167483 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
34167502 TTTCTGG
1 TTTCTGG
34167509 TGTTGGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:34169964 original size:21 final size:20
Alignment explanation
Indices: 34169940--34169978 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
34169930 GTTAAAAATA
34169940 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
34169961 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
34169979 TAATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:34183953 original size:20 final size:20
Alignment explanation
Indices: 34183930--34183978 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
34183920 GAACCACTCT
34183930 ATTTACATT-CTTACCATTCC
1 ATTTAC-TTACTTACCATTCC
* *
34183950 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
34183970 ATTTACTTA
1 ATTTACTTA
34183979 GCATAAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:34184688 original size:40 final size:40
Alignment explanation
Indices: 34184642--34184937 Score: 342
Period size: 40 Copynumber: 7.4 Consensus size: 40
34184632 AAATCAACTG
* * *
34184642 AACACACCAGACAGAAACTCATAAGAGCTGATCCACCCG-
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* *
34184681 AAGCACACTAAACAGGAGCTCATAAGAGCTGATCCAACCGT
1 AA-CACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* * *
34184722 AACACGCCAAACAGAAGCTCATAATAGCTTATCCAACCGT
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
** * *
34184762 AACATGCCAAACAGAAGCTCATAAGAGCTTATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* * *
34184802 AACACGCCAAACAAAAGCTCATAAGAGCTTATCCAACCGT
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
* *
34184842 AACACACCAAATAGAAGCTCATAAGAGCTGATCCAACCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
** * * * * *
34184882 AACATGCCAAATAGTAGCTCATAAGAGTTGATCTAATCGT
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
**
34184922 AACATGCCAAACAGAA
1 AACACACCAAACAGAA
34184938 AGTATAACAT
Statistics
Matches: 225, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
39 2 0.01
40 221 0.98
41 2 0.01
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.16
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGT
Found at i:34188818 original size:25 final size:25
Alignment explanation
Indices: 34188773--34188842 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
34188763 GTTTCTTGTT
* *
34188773 GAGCTTCCTGAT-TAATGGCTCTCCA
1 GAGCTTCCCGATAT-ATGGCTCACCA
* **
34188798 GAGCTTCCCGATATATTGCTCACTT
1 GAGCTTCCCGATATATGGCTCACCA
*
34188823 GAACTTCCCGATATATGGCT
1 GAGCTTCCCGATATATGGCT
34188843 ATTTGGAGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCACCA
Found at i:34188854 original size:25 final size:25
Alignment explanation
Indices: 34188798--34188890 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
34188788 TGGCTCTCCA
* *
34188798 GAGCTTCCCGATATATTGCTCACTT-
1 GAGCTTCCCGATATATGGCT-ATTTG
*
34188823 GAACTTCCCGATATATGGCTATTTG
1 GAGCTTCCCGATATATGGCTATTTG
* *
34188848 GAGCTTCCCGAT-TAATGGCTCTTCG
1 GAGCTTCCCGATAT-ATGGCTATTTG
* *
34188873 GAGCTACCCGTTAT-TGGC
1 GAGCTTCCCGATATATGGC
34188891 ACACATGAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
24 8 0.14
25 48 0.84
26 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTATTTG
Found at i:34188861 original size:75 final size:73
Alignment explanation
Indices: 34188772--34188933 Score: 186
Period size: 75 Copynumber: 2.2 Consensus size: 73
34188762 AGTTTCTTGT
* * * *
34188772 TGAGCTTCCTGATTAATGGCTCTCCAGAGCTTCCCGATATATT-GCTCACTTGAACTTCCCGATA
1 TGAGCTTCCCGATTAATGGCTCTCCAGAGCTACCCG-T-TATTGGCACACATGAACTTCCCGAT-
34188836 TATGGCTATT-
63 TATGGCTATTA
* * * *
34188846 TGGAGCTTCCCGATTAATGGCTCTTCGGAGCTACCCGTTATTGGCACACATGAGCTTCCTGATTA
1 T-GAGCTTCCCGATTAATGGCTCTCCAGAGCTACCCGTTATTGGCACACATGAACTTCCCGATTA
*
34188911 TGGCTCTTA
65 TGGCTATTA
34188920 TGAGCTTCCC-ATTA
1 TGAGCTTCCCGATTA
34188934 TATAGCCTAG
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
72 4 0.05
73 22 0.29
74 19 0.25
75 31 0.41
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (73 bp):
TGAGCTTCCCGATTAATGGCTCTCCAGAGCTACCCGTTATTGGCACACATGAACTTCCCGATTAT
GGCTATTA
Found at i:34188988 original size:25 final size:25
Alignment explanation
Indices: 34188909--34188991 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
34188899 GCTTCCTGAT
* *
34188909 TATGGCTCTTATGAGCTTCCCATTA
1 TATGGCTCTTATGAGCTTCTCGTTA
* * * *
34188934 TATAGC-CTAGATAAGCCTCTCGTTA
1 TATGGCTCT-TATGAGCTTCTCGTTA
*
34188959 CATGGCTCTTATGAGCTTCTCGTTA
1 TATGGCTCTTATGAGCTTCTCGTTA
34188984 TATGGCTC
1 TATGGCTC
34188992 GAGAGAGGGC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
24 2 0.05
25 40 0.91
26 2 0.05
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.37
Consensus pattern (25 bp):
TATGGCTCTTATGAGCTTCTCGTTA
Found at i:34196858 original size:24 final size:23
Alignment explanation
Indices: 34196798--34196864 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
34196788 TCCCCGATTA
** *
34196798 ATGGCTCTTCGGAGCTACCAATT
1 ATGGCTCTTATGAGCTTCCAATT
**
34196821 ATTGGCTCGCATGAGCTTCCTAATT
1 A-TGGCTCTTATGAGCTTCC-AATT
*
34196846 ATGGCTCTTATGATCTTCC
1 ATGGCTCTTATGAGCTTCC
34196865 CGTTATACAG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
23 1 0.03
24 28 0.82
25 5 0.15
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (23 bp):
ATGGCTCTTATGAGCTTCCAATT
Found at i:34207059 original size:17 final size:17
Alignment explanation
Indices: 34207017--34207059 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
34207007 AACCATATAT
*
34207017 CTCGTCCAAACCACAAAA
1 CTCG-CCAAAACACAAAA
* *
34207035 TTCACCAAAACACAAAA
1 CTCGCCAAAACACAAAA
34207052 CTCGCCAA
1 CTCGCCAA
34207060 TCAACGCATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.47, C:0.37, G:0.05, T:0.12
Consensus pattern (17 bp):
CTCGCCAAAACACAAAA
Found at i:34209317 original size:50 final size:50
Alignment explanation
Indices: 34209189--34209436 Score: 232
Period size: 50 Copynumber: 4.9 Consensus size: 50
34209179 TGATAATAAC
* ** * *
34209189 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTC-TGTACG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATAT-CG
* * **
34209240 --GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * ** *
34209288 GTGCCCATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
34209338 ATTCCAACGCCATGTCCCAGACATTGTCTTACATGGGACCTCTCATAGTCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA---TC---G
*
34209394 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34209437 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
48 7 0.04
49 35 0.22
50 78 0.48
53 2 0.01
56 40 0.25
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:34219741 original size:10 final size:10
Alignment explanation
Indices: 34219726--34219772 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
34219716 GAAAATGTTG
34219726 AATTTTAATT
1 AATTTTAATT
*
34219736 AATTTTATATCA
1 AATTTTA-AT-T
*
34219748 AATTTTGATT
1 AATTTTAATT
34219758 AATTTTAATT
1 AATTTTAATT
34219768 -ATTTT
1 AATTTT
34219773 CGACAGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 5 0.16
10 16 0.52
11 4 0.13
12 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:34230738 original size:24 final size:24
Alignment explanation
Indices: 34230709--34230757 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
34230699 CATTTACAAC
34230709 ATAAATACTAAAAGATCAAAAATA
1 ATAAATACTAAAAGATCAAAAATA
*
34230733 ATAAATACTAAGAGATCAAAAATA
1 ATAAATACTAAAAGATCAAAAATA
34230757 A
1 A
34230758 ATGACTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (24 bp):
ATAAATACTAAAAGATCAAAAATA
Found at i:34249323 original size:40 final size:40
Alignment explanation
Indices: 34249225--34249447 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
34249215 TCCTCGTTCA
* * ** *
34249225 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34249264 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34249304 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34249344 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
34249384 AATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCACG
* *
34249424 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34249448 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 126 0.75
41 6 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:34257161 original size:40 final size:40
Alignment explanation
Indices: 34257063--34257285 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
34257053 TCCTCGTTCA
* * ** *
34257063 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34257102 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34257142 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34257182 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
34257222 AATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCACG
* *
34257262 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34257286 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 126 0.75
41 6 0.04
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:34259857 original size:16 final size:16
Alignment explanation
Indices: 34259836--34259869 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
34259826 AAGAAAGAAT
34259836 GGTTTATTTAAAATTA
1 GGTTTATTTAAAATTA
34259852 GGTTTATTTAAAATTA
1 GGTTTATTTAAAATTA
34259868 GG
1 GG
34259870 ATTGACTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (16 bp):
GGTTTATTTAAAATTA
Found at i:34260065 original size:14 final size:16
Alignment explanation
Indices: 34260036--34260068 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
34260026 TTTTACATTC
34260036 ATAATTTAATTATATA
1 ATAATTTAATTATATA
34260052 ATAA-TTAA-TATATA
1 ATAATTTAATTATATA
34260066 ATA
1 ATA
34260069 TGTCATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 4 0.24
16 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAATTTAATTATATA
Found at i:34262295 original size:25 final size:24
Alignment explanation
Indices: 34262258--34262317 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
34262248 TAAACATTAA
***
34262258 AAAATATT-AAAATACCTATATAT
1 AAAATATTAAAAATAAAAATATAT
34262281 AAAATATTAATAAATAAAAATATAT
1 AAAATATTAA-AAATAAAAATATAT
34262306 AAAATTATTAAA
1 AAAA-TATTAAA
34262318 TATTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 8 0.26
24 1 0.03
25 16 0.52
26 6 0.19
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATATTAAAAATAAAAATATAT
Found at i:34262332 original size:23 final size:24
Alignment explanation
Indices: 34262255--34262344 Score: 69
Period size: 23 Copynumber: 3.8 Consensus size: 24
34262245 ATGTAAACAT
* *
34262255 TAAAAAA-TATTAAAATACCTATATA
1 TAAAAAATTATT-AAATA-TTAAATA
* * *
34262280 TAAAATATTAATAAATA-AAAATA
1 TAAAAAATTATTAAATATTAAATA
*
34262303 TATAAAATTATTAAATATTAAAT-
1 TAAAAAATTATTAAATATTAAATA
*
34262326 TAAAAAATAATATAAATAT
1 TAAAAAATTAT-TAAATAT
34262345 ATTTTTTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
23 27 0.52
24 11 0.21
25 11 0.21
26 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TAAAAAATTATTAAATATTAAATA
Found at i:34269048 original size:19 final size:19
Alignment explanation
Indices: 34269003--34269048 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
34268993 CATAATTTTT
34269003 ATATTATTACTAATATATA
1 ATATTATTACTAATATATA
* *
34269022 ATAATATTAACTAATTTA-A
1 ATATTATT-ACTAATATATA
34269041 ATATTATT
1 ATATTATT
34269049 TAAATGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTATTACTAATATATA
Found at i:34269162 original size:13 final size:13
Alignment explanation
Indices: 34269137--34269173 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
34269127 GCTAAACACT
*
34269137 CAAA-TTTTAAAC
1 CAAACTTTTCAAC
34269149 CAAACTTTTCAAC
1 CAAACTTTTCAAC
34269162 CAAACTTTTCAA
1 CAAACTTTTCAA
34269174 AAGTAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
CAAACTTTTCAAC
Found at i:34269183 original size:13 final size:13
Alignment explanation
Indices: 34269165--34269204 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
34269155 TTTCAACCAA
*
34269165 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
* *
34269178 AGTTTTCAAAAAC
1 ACTTTTCAAAAGC
34269191 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
34269204 A
1 A
34269205 ATGAAGAACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:34273065 original size:13 final size:11
Alignment explanation
Indices: 34273043--34273093 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
34273033 TCCACTTTAT
34273043 AAATTTTACAA
1 AAATTTTACAA
34273054 AAATACTTTAC-A
1 AAAT--TTTACAA
34273066 AAATTTTACAA
1 AAATTTTACAA
*
34273077 AAATCTT-CAA
1 AAATTTTACAA
*
34273087 AACTTTT
1 AAATTTT
34273094 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 13 0.38
11 11 0.32
12 5 0.15
13 5 0.15
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTTTACAA
Found at i:34276033 original size:18 final size:19
Alignment explanation
Indices: 34276001--34276037 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
34275991 TTCATCATTT
*
34276001 CATATTCCATTTCTCATCC
1 CATATTCCATCTCTCATCC
34276020 CATA-TCCATCTCTCATCC
1 CATATTCCATCTCTCATCC
34276038 TTGCCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.38
Consensus pattern (19 bp):
CATATTCCATCTCTCATCC
Found at i:34284851 original size:18 final size:17
Alignment explanation
Indices: 34284814--34284847 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34284804 ACATCATTAG
34284814 ATTGATTTTAATTTTTT
1 ATTGATTTTAATTTTTT
34284831 ATTGATTTTAATTTTTT
1 ATTGATTTTAATTTTTT
34284848 TATTTATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
ATTGATTTTAATTTTTT
Found at i:34286181 original size:14 final size:13
Alignment explanation
Indices: 34286132--34286182 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
34286122 AACTAGTCAT
34286132 AGAGATAATTGAGG
1 AGAGAT-ATTGAGG
* *
34286146 AGGGATATT-TGG
1 AGAGATATTGAGG
34286158 AGAGAT-TTGAGG
1 AGAGATATTGAGG
34286170 AGAGAATATTGAG
1 AGAG-ATATTGAG
34286183 ATTTGGGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 2 0.07
12 13 0.43
13 5 0.17
14 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.25
Consensus pattern (13 bp):
AGAGATATTGAGG
Found at i:34287207 original size:27 final size:27
Alignment explanation
Indices: 34287176--34287564 Score: 396
Period size: 27 Copynumber: 14.4 Consensus size: 27
34287166 CCCCAAAATA
* *
34287176 GGTAAAATGACCAAAATACCCCTAAAG
1 GGTAAAATGACCGAAATACCCCTATAG
* **
34287203 GGTAAAATGA-CTATTTTACCCCTAATA-
1 GGTAAAATGACCGA-AATACCCCT-ATAG
* *
34287230 GATGAAAATAACCGAAATACCCCTATAG
1 GGT-AAAATGACCGAAATACCCCTATAG
** *
34287258 GGTAAAATGATTGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* * *
34287285 GGTAAAATGACCAAAAT-GCCCTCATAA
1 GGTAAAATGACCGAAATACCCCT-ATAG
* * *
34287312 GTTAAAATGACCTAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
34287339 GGTAAAATGATCGAAATA-CCCTCATAG
1 GGTAAAATGACCGAAATACCCCT-ATAG
* *
34287366 GGTAAAATGACTGAAATACCTCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
34287393 GGTAACATGACCAAAATACACCC-ATAG
1 GGTAAAATGACCGAAATAC-CCCTATAG
*
34287420 GGTAAAATGACCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
34287447 GGTAAAATGACCAAAATACTCCC-ATAA
1 GGTAAAATGACCGAAATAC-CCCTATAG
* * *
34287474 GATAAAATGACCGAAATACCCCCAGAG
1 GGTAAAATGACCGAAATACCCCTATAG
* *
34287501 GGTAAAATGTCTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCTATAG
*
34287528 GGTAAAATGAACGAAATACCCC-ATAG
1 GGTAAAATGACCGAAATACCCCTATAG
34287554 GGTAAAATGAC
1 GGTAAAATGAC
34287565 TGTTATACCC
Statistics
Matches: 294, Mismatches: 55, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
26 27 0.09
27 238 0.81
28 27 0.09
29 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCTATAG
Found at i:34287837 original size:26 final size:26
Alignment explanation
Indices: 34287798--34287878 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
34287788 TTTACCACAT
*
34287798 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* * *
34287824 ATACTGATATTGGCAGCTCTGCTACG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
34287850 ATGCT-ATTACTGGCAGCTTTGCTGCG
1 ATACTGA-TACTGGCAGCTTTGCTGCG
34287876 ATA
1 ATA
34287879 TTAGTGTGTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.02
26 44 0.98
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:34296074 original size:211 final size:210
Alignment explanation
Indices: 34295447--34296075 Score: 990
Period size: 210 Copynumber: 3.0 Consensus size: 210
34295437 GTTAGGAACA
34295447 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
* *
34295512 TATTAGACTACAGAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCGGAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
*
34295577 GAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTACGATAAATTGTTGAATTCGTGATTGT
131 GAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34295642 TTGGTTAATTAAACT
196 TTGGTTGATTAAACT
* *
34295657 TGTATATAGGTTGATTGTATTTACTATAAAATTTGCATGATAGTAGATGATTTTAAATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
* * * * *
34295722 TATTAGACTACTAAGCTCTACATATTACATTATAAATAGGCATTAAACAATTGAACGTACCAGAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
* *
34295787 GAAATAGAAAATACAGGGAAACGAGCATGCTACTAAGTATGATAAATTGTTGAATTCGTGATTCT
131 GAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34295852 TTAGTTGATTAAACT
196 TTGGTTGATTAAACT
* * *
34295867 TGTATATAGGTTGATTGTATTTACTATAAATTTTTCCATGGTAGTAGATGATTTTAAAATTTTGA
1 TGTATATAGGTTGATTGTATTTACTATAAA-TTTTGCATGATAGTAGATGATTTTAAATTTTTGA
* * *
34295932 TT-TTCAGACTACAAAGTTTTATATATTACACTATACAGAGGCATTAAGCAATTGAACGTACCAG
65 TTATT-AGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAG
* * * * * *
34295996 ATGAAATAGAAAATATAGGGAAACAAGCATGCTACTATTTATGATAAATTATTGAATTTGTAATT
129 ATGAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATT
*
34296061 GTTTGGATGATTAAA
194 GTTTGGTTGATTAAA
34296076 TTTTTGAATA
Statistics
Matches: 380, Mismatches: 37, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
210 228 0.60
211 152 0.40
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (210 bp):
TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTAAATTTTTGAT
TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
GAAATAGAAAATACAGGGAAACGAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
TTGGTTGATTAAACT
Found at i:34297243 original size:210 final size:210
Alignment explanation
Indices: 34296874--34297501 Score: 954
Period size: 210 Copynumber: 3.0 Consensus size: 210
34296864 GTTAAGAACA
*
34296874 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGACTTTAAATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
* *
34296939 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGCCATTAAGCAATTGAACGTACCAAAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
** *
34297004 GAAATAGAAAATACTTGGAAACAAGCATGCTATTATGTATGATAAATTGTTGAATTCGTGATTGT
131 GAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34297069 TTGGTTGATTAATCT
196 TTGGTTGATTAAACT
* *
34297084 TGTATATAGG-TGTATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTACATTTTTTA
1 TGTATATAGGTTG-ATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTA
* * * * *
34297148 TTATTAGACTACTAAGTTCTACATATTACATTATAAATAGGCATTAAACAATTGAATGTACCAGA
65 TTATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGA
* * *
34297213 TGAAATAGAAAATACAGGGAAACGAGCATGCTACTAAGTATGATAAATTGTTGAATTCGTGATTC
130 TGAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTG
*
34297278 TTTAGTTGATTAAACT
195 TTTGGTTGATTAAACT
* * * *
34297294 TGTATATAGGTTGATTGTATTTACTATAAATTTTCCATGGTAGTAGATGATTTTAAAATTTTGAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
* *
34297359 T-TTCAGACTACAAAGTTTTATATATTACACTATAAAGAGGCATTAAGCAATTGAACGTACCAGA
66 TATT-AGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGA
* * * * *
34297423 TGAAATAGAAAATATAGGGAAACAAGCATGCTACTATTTATGATAAATTATTGAATTTGTAATTG
130 TGAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTG
*
34297488 TTTGGATGATTAAA
195 TTTGGTTGATTAAA
34297502 TTTTTGAATA
Statistics
Matches: 375, Mismatches: 40, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
209 4 0.01
210 369 0.98
211 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (210 bp):
TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
GAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
TTGGTTGATTAAACT
Found at i:34298674 original size:210 final size:210
Alignment explanation
Indices: 34298305--34298933 Score: 963
Period size: 210 Copynumber: 3.0 Consensus size: 210
34298295 GTTAAGAACA
*
34298305 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGACTTTAAATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
* *
34298370 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGCCATTAAGCAATTGAACGTACCAAAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
** *
34298435 GAAATAGAAAATACTTGGAAACAAGCATGCTATTATGTATGATAAATTGTTGAATTCGTGATTGT
131 GAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34298500 TTGGTTGATTAATCT
196 TTGGTTGATTAAACT
* *
34298515 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTACATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
* * * * *
34298580 TATTAGACTACTAAGTTCTACATATTACATTATAAATAGGCATTAAACAATTGAATGTACCAGAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
* * *
34298645 GAAATAGAAAATACAGGGAAACGAGCATGCTACTAAGTATGATAAATTGTTGAATTCGTGATTCT
131 GAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34298710 TTAGTTGATTAAACT
196 TTGGTTGATTAAACT
* * * *
34298725 TGTATATAGGTTGATTGTATTTACTATAAATTTTTCCATGGTAGTAGATGATTTTAAAATTTTGA
1 TGTATATAGGTTGATTGTATTTACTATAAA-TTTTACATGATAGTAGATGATTTTAAATTTTTTA
* *
34298790 TT-TTCAGACTACAAAGTTTTATATATTACACTATAAAGAGGCATTAAGCAATTGAACGTACCAG
65 TTATT-AGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAG
* * * * *
34298854 ATGAAATAGAAAATATAGGGAAACAAGCATGCTACTATTTATGATAAATTATTGAATTTGTAATT
129 ATGAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATT
*
34298919 GTTTGGATGATTAAA
194 GTTTGGTTGATTAAA
34298934 TTTTTGAATA
Statistics
Matches: 377, Mismatches: 40, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
210 224 0.59
211 153 0.41
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (210 bp):
TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
GAAATAGAAAATACAGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
TTGGTTGATTAAACT
Found at i:34300107 original size:210 final size:210
Alignment explanation
Indices: 34299738--34300366 Score: 956
Period size: 210 Copynumber: 3.0 Consensus size: 210
34299728 GTTAAGAACA
*
34299738 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGACTTTAAATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
* *
34299803 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGCCATTAAGCAATTGAACGTACCAAAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
* * *
34299868 GAAATAGAAAATACTTGGAAACAAGCATGCTATTATGTATGATAAATTGTTGAATTCGTGATTGT
131 GAAATAGAAAATAATGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34299933 TTGGTTGATTAATCT
196 TTGGTTGATTAAACT
* *
34299948 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTACATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
* * * * *
34300013 TATTAGACTACTAAGTTCTACATATTACATTATAAATAGGCATTAAACAATTGTACGTACCAGAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
* * *
34300078 GAAATAGAAAATAATGGGAAACGAGCATGCTACTAAGTATGATAAATTGTTGAATTCGTGATTCT
131 GAAATAGAAAATAATGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34300143 TTAGTTGATTAAACT
196 TTGGTTGATTAAACT
* * * *
34300158 TGTATATAGGTTGATTGTATTTACTATAAATTTTTCCATGGTAGTAGATGATTTTAAAATTTTGA
1 TGTATATAGGTTGATTGTATTTACTATAAA-TTTTACATGATAGTAGATGATTTTAAATTTTTTA
* *
34300223 TT-TTCAGACTACAAAGTTTTATATATTACACTATAAAGAGGCATTAAGCAATTGAACGTACCAG
65 TTATT-AGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAG
* * * *
34300287 ATGAAATAGAAAAT-ATAGGGAAACAAGCATGCTACTATTTATGATAAATTATTGAATTTGTAAT
129 ATGAAATAGAAAATAAT-GGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGAT
*
34300351 TGTTTGGATGATTAAA
193 TGTTTGGTTGATTAAA
34300367 TTTTTGAATA
Statistics
Matches: 377, Mismatches: 39, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
210 226 0.60
211 151 0.40
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (210 bp):
TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
GAAATAGAAAATAATGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
TTGGTTGATTAAACT
Found at i:34301540 original size:210 final size:210
Alignment explanation
Indices: 34301171--34301799 Score: 965
Period size: 210 Copynumber: 3.0 Consensus size: 210
34301161 GTTAAGAACA
*
34301171 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGACTTTAAATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
* *
34301236 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGCCATTAAGCAATTGAACGTACCAAAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
* * *
34301301 GAAATAGAAAATACTTGGAAACAAGCATGCTATTATGTATGATAAATTGTTGAATTCGTGATTGT
131 GAAATAGAAAATAATGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34301366 TTGGTTGATTAATCT
196 TTGGTTGATTAAACT
* *
34301381 TGTATATAGGTTGATTGTATTTACTATAAATTTTGCATGATAGTAGATGATTTTACATTTTTTAT
1 TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
* * * * *
34301446 TATTAGACTACTAAGTTCTACATATTACATTATAAATAGGCATTAAACAATTGTACGTACCAGAT
66 TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
* * *
34301511 GAAATAGAAAATAATGGGAAACGAGCATGCTACTAAGTATGATAAATTGTTGAATTCGTGATTCT
131 GAAATAGAAAATAATGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
*
34301576 TTAGTTGATTAAACT
196 TTGGTTGATTAAACT
* * * *
34301591 TGTATATAGGTTGATTGTATTTACTATAAATTTTTCCATGGTAGTAGATGATTTTAAAATTTTGA
1 TGTATATAGGTTGATTGTATTTACTATAAA-TTTTACATGATAGTAGATGATTTTAAATTTTTTA
* *
34301656 TT-TTCAGACTACAAAGTTTTATATATTACACTATAAAGAGGCATTAAGCAATTGAACGTACCAG
65 TTATT-AGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAG
* * *
34301720 ATGAAATAGAAAAT-ATAGGGAAACAAGCATGCTACTATTTATGATAAATTGTTGAATTTGTAAT
129 ATGAAATAGAAAATAAT-GGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGAT
*
34301784 TGTTTGGATGATTAAA
193 TGTTTGGTTGATTAAA
34301800 TTTTTGAATA
Statistics
Matches: 378, Mismatches: 38, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
210 226 0.60
211 152 0.40
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (210 bp):
TGTATATAGGTTGATTGTATTTACTATAAATTTTACATGATAGTAGATGATTTTAAATTTTTTAT
TATTAGACTACAAAGTTCTATATATTACACTATAAATAGGCATTAAGCAATTGAACGTACCAGAT
GAAATAGAAAATAATGGGAAACAAGCATGCTACTATGTATGATAAATTGTTGAATTCGTGATTGT
TTGGTTGATTAAACT
Found at i:34302456 original size:13 final size:13
Alignment explanation
Indices: 34302438--34302465 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34302428 AATCATGTAA
34302438 CTTTTTTCCTTAT
1 CTTTTTTCCTTAT
34302451 CTTTTTTCCTTAT
1 CTTTTTTCCTTAT
34302464 CT
1 CT
34302466 ATATATTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.68
Consensus pattern (13 bp):
CTTTTTTCCTTAT
Found at i:34311320 original size:25 final size:25
Alignment explanation
Indices: 34311234--34311321 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
34311224 CCTATACATG
* * *
34311234 TATGCTCACACGAGCTGTGAATC-A
1 TATGCTCTCACGAGCTATAAATCGA
* * *
34311258 GTATGCTTTCACAAGCTGTAAATCGA
1 -TATGCTCTCACGAGCTATAAATCGA
34311284 TATGCTCTCACGAGCTATAAATCGA
1 TATGCTCTCACGAGCTATAAATCGA
*
34311309 TGTGCTCTCACGA
1 TATGCTCTCACGA
34311322 ATTATGGAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATAAATCGA
Found at i:34334555 original size:11 final size:11
Alignment explanation
Indices: 34334534--34334592 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
34334524 TTTCCTCTCA
34334534 TTTACTTTTTGT
1 TTTA-TTTTTGT
34334546 TTTATTTTTG-
1 TTTATTTTTGT
*
34334556 TTTATTATTGT
1 TTTATTTTTGT
*
34334567 ATTATTTATT-T
1 TTTATTT-TTGT
*
34334578 CTTTATTTTTAT
1 -TTTATTTTTGT
34334590 TTT
1 TTT
34334593 TATTATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 9 0.23
11 17 0.44
12 13 0.33
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.76
Consensus pattern (11 bp):
TTTATTTTTGT
Found at i:34334571 original size:8 final size:7
Alignment explanation
Indices: 34334547--34334604 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 7
34334537 ACTTTTTGTT
34334547 TTATTT-
1 TTATTTA
*
34334553 TTGTTTA
1 TTATTTA
34334560 TTATTGTA
1 TTATT-TA
34334568 TTATTTA
1 TTATTTA
*
34334575 TTTCTTTA
1 -TTATTTA
34334583 TT-TTTA
1 TTATTTA
34334589 TT-TTTA
1 TTATTTA
34334595 TTATTATA
1 TTATT-TA
34334603 TT
1 TT
34334605 GTTATCATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
6 17 0.39
7 10 0.23
8 17 0.39
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:34334600 original size:3 final size:3
Alignment explanation
Indices: 34334580--34334705 Score: 60
Period size: 3 Copynumber: 41.7 Consensus size: 3
34334570 ATTTATTTCT
* * * * *
34334580 TTA TTT TTA TTT TTA TTA TTA -TA TTG TTA TCA TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * **
34334627 ATA ATA TTA TTA -TA CTGAA GTTA TTA CTA TTA CTA TTA TTA TTA CAA
1 TTA TTA TTA TTA TTA -T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
34334674 TTA TTA TTTA TTG TTA TTA GT- TTC TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
34334706 CTACTATTAA
Statistics
Matches: 89, Mismatches: 28, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
2 5 0.06
3 78 0.88
4 4 0.04
5 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:34336405 original size:10 final size:10
Alignment explanation
Indices: 34336370--34336406 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
34336360 ATTTTGTTAT
* *
34336370 AAAAAAATAT
1 AAAAAAAGAA
34336380 AAAAAAAGAA
1 AAAAAAAGAA
34336390 AAAAAAAGAA
1 AAAAAAAGAA
34336400 AAAAAAA
1 AAAAAAA
34336407 ATTATTGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.89, C:0.00, G:0.05, T:0.05
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:34346034 original size:40 final size:40
Alignment explanation
Indices: 34345950--34346133 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
34345940 TTGAATGCTG
* * * *
34345950 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
34345989 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
34346030 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
*
34346070 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT--AAT
34346111 T-CGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34346134 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 2 0.02
40 109 0.87
41 14 0.11
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:34346087 original size:80 final size:81
Alignment explanation
Indices: 34345950--34346130 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 81
34345940 TTGAATGCTG
* *
34345950 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
*
34346014 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAT
**
34346030 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
34346091 ATTCGTGCGAGTTTTAAAAT
63 ATTCGTGCGAGTTTT-AAAT
34346111 T-CGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
34346131 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
79 4 0.04
80 73 0.81
81 13 0.14
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAT
Found at i:34362784 original size:22 final size:23
Alignment explanation
Indices: 34362753--34362802 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
34362743 TCATAATTTA
*
34362753 AAAAGCTATAAAAAT-AAATAAAT
1 AAAAGCTAT-AAAATCAAATAAAG
34362776 AAAA-CTATAAAATCAAATAAAG
1 AAAAGCTATAAAATCAAATAAAG
34362798 AAAAG
1 AAAAG
34362803 GAATAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 15 0.62
23 4 0.17
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (23 bp):
AAAAGCTATAAAATCAAATAAAG
Found at i:34363695 original size:27 final size:25
Alignment explanation
Indices: 34363638--34363723 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 25
34363628 ATTATATATT
*
34363638 AAATATTTATTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
34363663 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
* * *
34363688 AAATATATATATTTTATATTT-ATT
1 AAATATATATTTTTTATTTTTAATC
34363712 AAATATATATTT
1 AAATATATATTT
34363724 AATATGGGTC
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 13 0.23
25 43 0.77
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATC
Found at i:34366401 original size:6 final size:6
Alignment explanation
Indices: 34366390--34366421 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
34366380 AAAATTGCAA
*
34366390 ATTTCC ATTTCC ATTTTC ATTTCC ATTTCC AT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC AT
34366422 ATTTGGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTTCC
Found at i:34368241 original size:67 final size:67
Alignment explanation
Indices: 34368123--34368258 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 67
34368113 TTTTTGTACA
** * * * ** *
34368123 ACTATATTCCTGACACTTGGAAACTTTCCAAGTGACAGAGTTCGTCGGCCATTGAGTGGGTATCC
1 ACTATATTCCCAACACTTGGAAACTTTCCAAGAGACAAAGTTCGTCAGCCATCAAGCGGGTATCC
34368188 CG
66 CG
* * *
34368190 ACTATATTCCCAACACTTGGAAACTTTTCAAGAGATAAAGTTTGTCAGCCATCAAGCGGGTATCC
1 ACTATATTCCCAACACTTGGAAACTTTCCAAGAGACAAAGTTCGTCAGCCATCAAGCGGGTATCC
34368255 CG
66 CG
34368257 AC
1 AC
34368259 CAGGTCATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (67 bp):
ACTATATTCCCAACACTTGGAAACTTTCCAAGAGACAAAGTTCGTCAGCCATCAAGCGGGTATCC
CG
Found at i:34370382 original size:41 final size:41
Alignment explanation
Indices: 34370337--34370441 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 41
34370327 CCCTGGTTGT
* * * * *
34370337 ACTTCGGTTCCCCTAAATTGCACATACGTGCCCTTGTTTGA
1 ACTTCGGTACCCCTGAATTGCACATACATGCCCCTATTTGA
** *
34370378 ACTTCAATACCCCCTGAATTGCACATACATGCCCCTATTTGT
1 ACTTCGGTA-CCCCTGAATTGCACATACATGCCCCTATTTGA
34370420 ACTTCGGTACCCCTGAA-TGCAC
1 ACTTCGGTACCCCTGAATTGCAC
34370442 TTTTGTGCCC
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
40 5 0.09
41 14 0.26
42 34 0.64
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.30
Consensus pattern (41 bp):
ACTTCGGTACCCCTGAATTGCACATACATGCCCCTATTTGA
Found at i:34381711 original size:23 final size:22
Alignment explanation
Indices: 34381660--34381711 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
34381650 CCTCGTCTTT
*
34381660 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
34381682 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
34381705 TTCTTTT
1 TTCTTTT
34381712 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:34381726 original size:18 final size:18
Alignment explanation
Indices: 34381705--34381743 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34381695 TTTCTTCAAC
* *
34381705 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
34381723 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
34381741 TTC
1 TTC
34381744 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:34386162 original size:27 final size:26
Alignment explanation
Indices: 34386130--34386199 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
34386120 GCGTGTGTTT
34386130 CAACATTCGGCCCATGTGAAGAGTATA
1 CAACATTCGGCCCATGTGAAGAGT-TA
** * *
34386157 CAACATTTTGCCCATGTGATGAGTTT
1 CAACATTCGGCCCATGTGAAGAGTTA
*
34386183 CTCACATTCGGCCCATG
1 C-AACATTCGGCCCATG
34386200 CATTACACGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (26 bp):
CAACATTCGGCCCATGTGAAGAGTTA
Found at i:34386398 original size:21 final size:21
Alignment explanation
Indices: 34386374--34386413 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34386364 ATTTTGCATG
34386374 CCAGCACT-CCAATTTTGACCA
1 CCAGCA-TGCCAATTTTGACCA
*
34386395 CCAGCATGCCTATTTTGAC
1 CCAGCATGCCAATTTTGAC
34386414 TCGCATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.35, G:0.12, T:0.28
Consensus pattern (21 bp):
CCAGCATGCCAATTTTGACCA
Found at i:34389630 original size:30 final size:30
Alignment explanation
Indices: 34389594--34389658 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
34389584 GTTAGAGGGG
** *
34389594 TGGAGGGCACATTTCAGGCGGCACCCAGAA
1 TGGAGGGCACATAACAGGCAGCACCCAGAA
* * *
34389624 TGGAGGGTACCTAACAGGCAGCACCCAGAG
1 TGGAGGGCACATAACAGGCAGCACCCAGAA
34389654 TGGAG
1 TGGAG
34389659 TCGATGTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.35, T:0.12
Consensus pattern (30 bp):
TGGAGGGCACATAACAGGCAGCACCCAGAA
Found at i:34391573 original size:50 final size:50
Alignment explanation
Indices: 34391515--34391651 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 50
34391505 TATTGGGATT
* *
34391515 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* * *
34391565 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
* ** * * *
34391615 ATGAAAACTCCCATGTAAGACCATATCTGGGATATGG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGG
34391652 AATTGGAAGT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCGAG
Found at i:34401268 original size:3 final size:3
Alignment explanation
Indices: 34401260--34401325 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
34401250 AAATTGTTAG
34401260 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
34401308 CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT
34401326 AATTTATAGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:34406458 original size:24 final size:23
Alignment explanation
Indices: 34406415--34406481 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 23
34406405 CATAAATTAT
34406415 TTTTTTAAAAATATTTTATTTTA
1 TTTTTTAAAAATATTTTATTTTA
*
34406438 TTTTTT--AAA-ATTTT-TTGTA
1 TTTTTTAAAAATATTTTATTTTA
*
34406457 -TTTTTAATAAT-TTTTA-TTTA
1 TTTTTTAAAAATATTTTATTTTA
34406477 TTTTT
1 TTTTT
34406482 ATTTTTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
18 5 0.14
19 4 0.11
20 14 0.39
21 7 0.19
23 6 0.17
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.70
Consensus pattern (23 bp):
TTTTTTAAAAATATTTTATTTTA
Found at i:34406471 original size:20 final size:19
Alignment explanation
Indices: 34406411--34406482 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
34406401 TTAACATAAA
*
34406411 TTATTT-TTTTAAAAATATT
1 TTATTTATTTTTAAAAT-TT
34406430 TTATTTTATTTTTTAAAATTT
1 TTA-TTTA-TTTTTAAAATTT
*
34406451 TT-TGTATTTTTAATAATTT
1 TTATTTATTTTTAA-AATTT
34406470 TTATTTATTTTTA
1 TTATTTATTTTTA
34406483 TTTTTTGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 7 0.16
19 13 0.29
20 12 0.27
21 4 0.09
22 9 0.20
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (19 bp):
TTATTTATTTTTAAAATTT
Found at i:34406472 original size:35 final size:35
Alignment explanation
Indices: 34406433--34406501 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
34406423 AAATATTTTA
*
34406433 TTTTATTT-TTTAAAATTTTTTGTATTTTTAATAAT
1 TTTTATTTATTT-AAATTTTTTGAATTTTTAATAAT
** *
34406468 TTTTATTTATTTTTATTTTTTGAATTTTTTATAA
1 TTTTATTTATTTAAATTTTTTGAATTTTTAATAA
34406502 AGCACATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 26 0.90
36 3 0.10
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (35 bp):
TTTTATTTATTTAAATTTTTTGAATTTTTAATAAT
Found at i:34406695 original size:4 final size:4
Alignment explanation
Indices: 34406686--34406715 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
34406676 CCGTTTTGAT
34406686 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
34406716 ATCCTTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:34407574 original size:28 final size:28
Alignment explanation
Indices: 34407534--34407589 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
34407524 CTTGGAGCAA
34407534 GCTTGTAGAAGAAATATTTGAACTCTTT
1 GCTTGTAGAAGAAATATTTGAACTCTTT
34407562 GCTTGTAGAAGAAATATTTGAACTCTTT
1 GCTTGTAGAAGAAATATTTGAACTCTTT
34407590 CATTTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (28 bp):
GCTTGTAGAAGAAATATTTGAACTCTTT
Done.