Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 239 of 310
Found at i:78750643 original size:56 final size:57
Alignment explanation
Indices: 78750581--78750745 Score: 226
Period size: 56 Copynumber: 2.9 Consensus size: 57
78750571 CATGGCATCG
* * *
78750581 ATATATGGGTGCGAGAAAGACCACGTATAATACATTGGCATCGATATGTGATTTC-A
1 ATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATTTCTA
* * *
78750637 ATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGA-TTCTG
1 ATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATTTCTA
* * * *
78750693 ATATATGTGTGCGAGTATGACCAAGTCTAGTACGTTGGCATCGATATGTGATT
1 ATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATT
78750746 ACATGTAAGA
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
55 3 0.03
56 92 0.96
57 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (57 bp):
ATATATGTGTGCGAGTAAGACCACGTATAATACGTTGGCATCGATATGTGATTTCTA
Found at i:78752850 original size:5 final size:5
Alignment explanation
Indices: 78752840--78752865 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
78752830 CAAGTTATAT
78752840 GAAAA GAAAA GAAAA GAAAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA G
78752866 TTGATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:78758078 original size:43 final size:42
Alignment explanation
Indices: 78758003--78758149 Score: 154
Period size: 43 Copynumber: 3.5 Consensus size: 42
78757993 TGTGATTACA
* *
78758003 TGTAAGACCATGTCT-AGACATTGGCATTGTATTGAGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTG-GATTTCG
* *
78758045 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGCTTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTG-GATTTCG
* * * * *
78758088 TGTAAGACCCTGTCTGGGAGAGTGGCATCG-ATATGTATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGGATTT-CG
*
78758131 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
78758150 TATGCCATTG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 20 0.23
43 68 0.77
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTGGATTTCG
Found at i:78761139 original size:29 final size:29
Alignment explanation
Indices: 78761106--78761404 Score: 167
Period size: 29 Copynumber: 10.3 Consensus size: 29
78761096 TCGACCAATA
*
78761106 AAAAGGGATAGCTTCAACTATCGATTATG
1 AAAAGGGATAGCTTCGACTATCGATTATG
* * * * *
78761135 AAAAGGGATAGTTTTGGCTATTGAATATG
1 AAAAGGGATAGCTTCGACTATCGATTATG
* * * * *
78761164 AAAAGAGATAGCTTTGGCTATTGAATATG
1 AAAAGGGATAGCTTCGACTATCGATTATG
* * *
78761193 AACAGGGACAGCTTCGGCTATCGATTATG
1 AAAAGGGATAGCTTCGACTATCGATTATG
* * * *
78761222 AAAAGGGAT-GGTGAT-GACCATCAACTATG
1 AAAAGGGATAGCT--TCGACTATCGATTATG
* * * * * *
78761251 AAAAGGGAT-GGTGACAACCATCAAATATG
1 AAAAGGGATAGCT-TCGACTATCGATTATG
* *
78761280 AAAAGGGATAGCTTCGGCCATCGATTATG
1 AAAAGGGATAGCTTCGACTATCGATTATG
* *
78761309 AAAATGGATAGCTTC-AGCTATCGATTATA
1 AAAAGGGATAGCTTCGA-CTATCGATTATG
* * * *
78761338 AAAAGGGAT-GGTGACGACCATTGATTAATG
1 AAAAGGGATAGCT-TCGACTATCGATT-ATG
* * * * * *
78761368 AAAAGTGATGGTTTCAACGATCGAATATG
1 AAAAGGGATAGCTTCGACTATCGATTATG
78761397 AAAAGGGA
1 AAAAGGGA
78761405 CGGTTACGAC
Statistics
Matches: 212, Mismatches: 49, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
28 4 0.02
29 184 0.87
30 22 0.10
31 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGACTATCGATTATG
Found at i:78761342 original size:58 final size:58
Alignment explanation
Indices: 78761106--78761404 Score: 201
Period size: 58 Copynumber: 5.1 Consensus size: 58
78761096 TCGACCAATA
* * * ** *
78761106 AAAAGGGATAGCTTCAACTATCGATTATGAAAAGGGATAGTTTTGGCTATTGAATATG
1 AAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGATAGCTTCAGCTATCGAATATG
* * * * * * * * * *
78761164 AAAAGAGATAGCTTTGGCTATTGAATATGAACAGGGACAGCTTCGGCTATCGATTATG
1 AAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGATAGCTTCAGCTATCGAATATG
* * * * * * * *
78761222 AAAAGGGAT-GGTGAT-GACCATCAACTATGAAAAGGGAT-GGTGACAACCATCAAATATG
1 AAAAGGGATAGCT--TCGACCATCGATTATGAAAAGGGATAGCT-TCAGCTATCGAATATG
* * * *
78761280 AAAAGGGATAGCTTCGGCCATCGATTATGAAAATGGATAGCTTCAGCTATCGATTATA
1 AAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGATAGCTTCAGCTATCGAATATG
* * * * * * * *
78761338 AAAAGGGAT-GGTGACGACCATTGATTAATGAAAAGTGATGGTTTCAACGATCGAATATG
1 AAAAGGGATAGCT-TCGACCATCGATT-ATGAAAAGGGATAGCTTCAGCTATCGAATATG
78761397 AAAAGGGA
1 AAAAGGGA
78761405 CGGTTACGAC
Statistics
Matches: 181, Mismatches: 52, Indels: 15
0.73 0.21 0.06
Matches are distributed among these distances:
57 7 0.04
58 137 0.76
59 37 0.20
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (58 bp):
AAAAGGGATAGCTTCGACCATCGATTATGAAAAGGGATAGCTTCAGCTATCGAATATG
Found at i:78761342 original size:87 final size:87
Alignment explanation
Indices: 78761187--78761358 Score: 213
Period size: 87 Copynumber: 2.0 Consensus size: 87
78761177 TTGGCTATTG
* * * *
78761187 AATATGAACAGGGACAGCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATCAACTATGA
1 AATATGAAAAGGGACAGCTTCGGCCATCGATTATGAAAAGGGATGGTCATGACCATCAACTATAA
78761252 AAAGGGATGGTGACAACCATCA
66 AAAGGGATGGTGACAACCATCA
* * * * * *
78761274 AATATGAAAAGGGATAGCTTCGGCCATCGATTATGAAAATGGATAGCTTCA-G-CTATCGATTAT
1 AATATGAAAAGGGACAGCTTCGGCCATCGATTATGAAAAGGGAT-G-GTCATGACCATCAACTAT
*
78761337 AAAAAGGGATGGTGACGACCAT
64 AAAAAGGGATGGTGACAACCAT
78761359 TGATTAATGA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
87 68 0.94
88 2 0.03
89 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.23
Consensus pattern (87 bp):
AATATGAAAAGGGACAGCTTCGGCCATCGATTATGAAAAGGGATGGTCATGACCATCAACTATAA
AAAGGGATGGTGACAACCATCA
Found at i:78765702 original size:40 final size:40
Alignment explanation
Indices: 78765602--78765866 Score: 263
Period size: 40 Copynumber: 6.7 Consensus size: 40
78765592 GCTCCTCGTT
* * * * *
78765602 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
78765642 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
78765681 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
78765721 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
*
78765761 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
78765801 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
78765842 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
78765867 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
39 39 0.20
40 142 0.72
41 15 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:78765875 original size:41 final size:41
Alignment explanation
Indices: 78765798--78765875 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
78765788 TTTGTATCTC
* * *
78765798 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
78765839 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
78765876 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:78773667 original size:40 final size:40
Alignment explanation
Indices: 78773567--78773831 Score: 263
Period size: 40 Copynumber: 6.7 Consensus size: 40
78773557 GCTCCTCGTT
* * * * *
78773567 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
78773607 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
78773646 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
78773686 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
*
78773726 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
78773766 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
78773807 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
78773832 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 22, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
39 39 0.20
40 142 0.72
41 15 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:78773840 original size:41 final size:41
Alignment explanation
Indices: 78773763--78773840 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
78773753 TTTGTATCTC
* * *
78773763 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
78773804 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
78773841 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:78775430 original size:27 final size:28
Alignment explanation
Indices: 78775346--78775443 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
78775336 GGCTGTCACA
*
78775346 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
78775374 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
78775402 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
78775429 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78775444 GACTTAATAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.35
28 44 0.65
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:78775454 original size:27 final size:27
Alignment explanation
Indices: 78775346--78775456 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
78775336 GGCTGTCACA
* * *
78775346 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
78775374 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
78775402 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
78775429 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
78775456 A
1 A
78775457 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:78783590 original size:56 final size:56
Alignment explanation
Indices: 78783499--78783620 Score: 174
Period size: 55 Copynumber: 2.2 Consensus size: 56
78783489 GAGATTGGCG
* * *
78783499 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
78783556 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
78783611 CTGAGTGTGC
1 CTAAGTGTGC
78783621 AGACTTAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 22 0.37
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:78783608 original size:27 final size:28
Alignment explanation
Indices: 78783499--78783620 Score: 174
Period size: 28 Copynumber: 4.4 Consensus size: 28
78783489 GAGATTGGCG
* * * *
78783499 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
78783528 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78783556 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78783584 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
78783611 CTGAGTGTGC
1 CTAAGTGTGC
78783621 AGACTTAATA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.27
28 48 0.56
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:78783632 original size:27 final size:27
Alignment explanation
Indices: 78783524--78783634 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
78783514 TAAATTGTAC
* * *
78783524 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
78783552 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
78783580 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
78783607 AGCACTGAGTGTGCAGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
78783634 A
1 A
78783635 CTTTTGAACC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:78785786 original size:55 final size:55
Alignment explanation
Indices: 78785697--78785812 Score: 198
Period size: 55 Copynumber: 2.1 Consensus size: 55
78785687 ATCCCACATC
78785697 AGGA-AGCTAACATAAGAGGAGATGCGAAGATGGCTTTAAATAGAGAGAACCATG
1 AGGAGAGCTAACATAAGAGGAGATGCGAAGATGGCTTTAAATAGAGAGAACCATG
* * *
78785751 AGGAGAGCTAGCATAAGAGGGGATGCGAAGCTGGCTTTAAATAGAGAGAACCATG
1 AGGAGAGCTAACATAAGAGGAGATGCGAAGATGGCTTTAAATAGAGAGAACCATG
78785806 AGGAGAG
1 AGGAGAG
78785813 TAGAGATACC
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
54 4 0.07
55 54 0.93
ACGTcount: A:0.40, C:0.11, G:0.34, T:0.16
Consensus pattern (55 bp):
AGGAGAGCTAACATAAGAGGAGATGCGAAGATGGCTTTAAATAGAGAGAACCATG
Found at i:78787120 original size:27 final size:28
Alignment explanation
Indices: 78787039--78787133 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
78787029 GAGATTGGCG
* * * *
78787039 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
78787068 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
78787096 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
78787123 CTGAGTGTGCG
1 CTAAGTGTGCG
78787134 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:78787144 original size:27 final size:27
Alignment explanation
Indices: 78787064--78787146 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
78787054 TAAATTGTAC
* *
78787064 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
78787092 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
78787119 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
78787146 A
1 A
78787147 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:78790968 original size:29 final size:30
Alignment explanation
Indices: 78790905--78791018 Score: 114
Period size: 28 Copynumber: 4.0 Consensus size: 30
78790895 TACATACATG
* *
78790905 CATATAGCCCA-CTAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
78790933 CAAATGGCCGATCT-GGCCCAATTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
78790962 CTTATGGCCCA-CTAGGCCCAATTCA-CTT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
78790990 CATATGGCCTAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
78791019 ATACTCATAC
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
28 40 0.58
29 29 0.42
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:78791008 original size:57 final size:57
Alignment explanation
Indices: 78790911--78791018 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
78790901 CATGCATATA
* *
78790911 GCCCACTAGGCCCAATCTTATTCAAATGGCCGATCTGGCCCAATTCATATTCTTATG
1 GCCCACTAGGCCCAATCTCATTCAAATGGCCGATCTGGCCCAAATCATATTCTTATG
* *
78790968 GCCCACTAGGCCCAAT-TCACTTCATATGGCCTAT-TAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTCA-TTCAAATGGCCGATCT-GGCCCAAATCATATT
78791019 ATACTCATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
56 3 0.07
57 42 0.93
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.29
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTCATTCAAATGGCCGATCTGGCCCAAATCATATTCTTATG
Found at i:78791114 original size:18 final size:19
Alignment explanation
Indices: 78791091--78791136 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
78791081 TAGGCCCAAC
*
78791091 AGCCCA-TCAGTCCCATTT
1 AGCCCATTCAGGCCCATTT
*
78791109 AGCCCATTCTGGCCCATTT
1 AGCCCATTCAGGCCCATTT
*
78791128 AGCCAATTC
1 AGCCCATTC
78791137 TCAACCCAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.22, C:0.37, G:0.13, T:0.28
Consensus pattern (19 bp):
AGCCCATTCAGGCCCATTT
Found at i:78791277 original size:8 final size:8
Alignment explanation
Indices: 78791234--78791280 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
78791224 GTAGCCCAAC
78791234 TTTCGGCT
1 TTTCGGCT
*
78791242 TTTTGGCAT
1 TTTCGGC-T
78791251 TTT-GGCT
1 TTTCGGCT
*
78791258 TTTCAGCT
1 TTTCGGCT
*
78791266 TTTCGGCA
1 TTTCGGCT
78791274 TTTCGGC
1 TTTCGGC
78791281 CTTTGTCGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 4 0.12
8 25 0.76
9 4 0.12
ACGTcount: A:0.06, C:0.21, G:0.23, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:78797166 original size:23 final size:25
Alignment explanation
Indices: 78797147--78797217 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 25
78797137 TCTTGTACAT
*
78797147 GTATGCTCATACGAGCTGTAAATTG
1 GTATGCTCACACGAGCTGTAAATTG
* * *
78797172 GTATGCTCACACGAACTATGAAAATAG
1 GTATGCTCACACGAGC--TGTAAATTG
**
78797199 GCCTGCTCACACGAGCTGT
1 GTATGCTCACACGAGCTGT
78797218 GGGTCAGAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 16 0.44
27 20 0.56
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATTG
Found at i:78800620 original size:71 final size:71
Alignment explanation
Indices: 78800504--78800804 Score: 575
Period size: 71 Copynumber: 4.2 Consensus size: 71
78800494 GGCCTTGGTA
78800504 AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTCCA
1 AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTCCA
78800569 GGGTTC
66 GGGTTC
78800575 AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTCCA
1 AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTCCA
78800640 GGGTTC
66 GGGTTC
78800646 AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTCCA
1 AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTCCA
78800711 GGGTTC
66 GGGTTC
*
78800717 AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTTCA
1 AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTCCA
78800782 GGGTTC
66 GGGTTC
*
78800788 AAGTTGCAAGGTAGGCA
1 AAGTGGCAAGGT-GGCA
78800805 TATGGTTACT
Statistics
Matches: 227, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
71 223 0.98
72 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (71 bp):
AAGTGGCAAGGTGGCACCACTAAGTTCCTAAAAAAGATGGCGTCTAGGAAGGAATTAAAGGTCCA
GGGTTC
Found at i:78801644 original size:40 final size:38
Alignment explanation
Indices: 78801599--78801681 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
78801589 ATATCGGAGC
* *
78801599 AGCTATGCTGCAACTATGGAGTGTAGGGATGGGTGGGTTG
1 AGCTATGC-CCAACT-TGGAGTGTAGGGATAGGTGGGTTG
* * *
78801639 AGCTATTCCCCACTTGGAGTGTAGGGCTAGGTGGGTTG
1 AGCTATGCCCAACTTGGAGTGTAGGGATAGGTGGGTTG
78801677 AGCTA
1 AGCTA
78801682 CCTGAATGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 27 0.71
39 4 0.11
40 7 0.18
ACGTcount: A:0.19, C:0.14, G:0.39, T:0.28
Consensus pattern (38 bp):
AGCTATGCCCAACTTGGAGTGTAGGGATAGGTGGGTTG
Found at i:78813646 original size:49 final size:49
Alignment explanation
Indices: 78813587--78813813 Score: 292
Period size: 49 Copynumber: 4.6 Consensus size: 49
78813577 CTGATACGCA
*
78813587 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
* * ** *
78813636 TAGTACCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGGTACACG
* * * * * *
78813686 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCTGGTACACG
* *
78813737 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
*
78813786 TAGTAGCCTACACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
78813814 TACCTCACAA
Statistics
Matches: 149, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 66 0.44
50 47 0.32
51 36 0.24
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
Found at i:78814499 original size:30 final size:30
Alignment explanation
Indices: 78814465--78814524 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78814455 CTTTAATATG
78814465 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
78814495 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
78814525 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:78816603 original size:15 final size:15
Alignment explanation
Indices: 78816574--78816612 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
78816564 AACAGAGAAG
78816574 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
78816590 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
78816605 CCATGATA
1 CCAAGATA
78816613 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:78819432 original size:49 final size:49
Alignment explanation
Indices: 78819357--78819601 Score: 303
Period size: 49 Copynumber: 4.9 Consensus size: 49
78819347 TGGCCGAAGC
* * *
78819357 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
78819406 TATCTGGTACACGTAGTAGCCAGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
78819456 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
** * * * *
78819507 TAT-TAGGTATGCATAGTAGCCTCCACTTAGTACTACACATGCGACCAAT
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
78819556 TATCTGGTACACGTAGTAGCCCGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
78819602 TCACAATAGC
Statistics
Matches: 163, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 80 0.49
50 49 0.30
51 34 0.21
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:78819545 original size:101 final size:98
Alignment explanation
Indices: 78819370--78819601 Score: 286
Period size: 100 Copynumber: 2.3 Consensus size: 98
78819360 CTGGTACGCA
** * *
78819370 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACGTAGTAGCCAGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCTGGTACACATAGTAGCCACCACTTA
*
78819435 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCTGATACACG
* ** *
78819469 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTAT-TAGGTATGCATAGTAGCCTCCAC
1 TAGTAGCCTGCACTTAGTACTACACACATGA-CCAA-TTATCT-GGTACACATAGTAGCCACCAC
* ** *
78819533 TTAGTACTACACATGCGACCAATTATCTGGTACACG
63 TTAGTACTACACACGCGACCAACCATCTGATACACG
* *
78819569 TAGTAGCCCGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACATGACC
78819602 TCACAATAGC
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 30 0.26
100 46 0.40
101 38 0.33
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCTGGTACACATAGTAGCCACCACTTA
GTACTACACACGCGACCAACCATCTGATACACG
Found at i:78820283 original size:30 final size:30
Alignment explanation
Indices: 78820249--78820308 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78820239 CTTTAATACG
78820249 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
78820279 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
78820309 GGCTCAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:78822270 original size:43 final size:42
Alignment explanation
Indices: 78822204--78822318 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
78822194 AGCATATGCA
* * * *
78822204 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAACCAAACA-CG
* * * ***
78822247 ATGCCATTGTCCCAGACAAGGTCTTACACGAAACCAGGTACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAACCAAACACG
78822289 ATGCCAATGTCCCAGACATGGTCTTACATG
1 ATGCCAATGTCCCAGACATGGTCTTACATG
78822319 CAAAACAGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAACCAAACACG
Found at i:78823256 original size:26 final size:26
Alignment explanation
Indices: 78823218--78823268 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
78823208 ATGATGATTT
* * *
78823218 TTAATTTGGTTTTAACTAATATAACA
1 TTAATATGCTTTTAACCAATATAACA
*
78823244 TTAATATGCTTTTTACCAATATAAC
1 TTAATATGCTTTTAACCAATATAAC
78823269 CTTATTATAA
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:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (26 bp):
TTAATATGCTTTTAACCAATATAACA
Found at i:78824987 original size:27 final size:27
Alignment explanation
Indices: 78824946--78825023 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
78824936 GAATACTTTA
* * *
78824946 GTTTACCAAAA-TACTGAAATGCCCTTG
1 GTTTA-CAAAATTACTAAAATACCCTCG
78824973 GTTTACAAAATTACTAAAATACCCTCG
1 GTTTACAAAATTACTAAAATACCCTCG
* * *
78825000 ATTAACAAAATTACCAAAATACCC
1 GTTTACAAAATTACTAAAATACCC
78825024 CTAGTTTGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.11
27 39 0.89
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
GTTTACAAAATTACTAAAATACCCTCG
Found at i:78825065 original size:27 final size:27
Alignment explanation
Indices: 78824974--78825066 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
78824964 ATGCCCTTGG
* *
78824974 TTTACAAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCCCGA
* *
78825001 TTAACAAAATTACCAAAATA-CCCCTA
1 TTTACAAAATTACCAAAATACCCCCGA
** *
78825027 GTTTGTAAAATTACCAAAGTACCCCCGA
1 -TTTACAAAATTACCAAAATACCCCCGA
*
78825055 TTTACAGAATTA
1 TTTACAAAATTA
78825067 TCGTTTTACC
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 4 0.08
27 43 0.83
28 5 0.10
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCCCGA
Found at i:78825119 original size:27 final size:27
Alignment explanation
Indices: 78825089--78825391 Score: 360
Period size: 27 Copynumber: 11.2 Consensus size: 27
78825079 CAATTTAAAA
*
78825089 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
78825116 AATTACTAAAATACTCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
78825143 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
78825170 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
78825197 AATTA-TCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
78825224 AATTATTAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
78825251 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
78825278 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
78825305 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
78825332 AATTACTAAAATACCTCTATAGGCTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
78825359 AATTACCGAGATA-CCCTCGTGGGGTAA
1 AATTACTGAAATACCCCT-GTAGGGTAG
78825386 AATTAC
1 AATTAC
78825392 AATTTTGCCC
Statistics
Matches: 233, Mismatches: 38, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
26 5 0.02
27 226 0.97
28 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:78825147 original size:54 final size:54
Alignment explanation
Indices: 78825089--78825391 Score: 432
Period size: 54 Copynumber: 5.6 Consensus size: 54
78825079 CAATTTAAAA
* * *
78825089 AATTATTGAAATACCCCTGTAGGGTAGAATTACTAAAATACTCTTGTAAGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
*
78825143 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
* *
78825197 AATTATCGAAATACCCCTATAGGGTAGAATTATTAAAATACCCCTGTAAGGTAG
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
* *
78825251 AATTA-CTGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAG
1 AATTATC-GAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
* *
78825305 AATTATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCTCTAT-AGGCTAG
1 AATTATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGG-TAG
* * * *
78825359 AATTACCGAGATA-CCCTCGTGGGGTAAAATTAC
1 AATTATCGAAATACCCCT-GTAGGGTAGAATTAC
78825392 AATTTTGCCC
Statistics
Matches: 226, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
53 8 0.04
54 217 0.96
55 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (54 bp):
AATTATCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
Found at i:78825985 original size:27 final size:26
Alignment explanation
Indices: 78825962--78826062 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
78825952 TAAGTGGTTT
*
78825962 TGCCACATTATTTGATTCTGGTGGCTA
1 TGCCACAATATTTG-TTCTGGTGGCTA
* *
78825989 TGCCACAAATATCTGTTCTGGTGGCTC
1 TGCCAC-AATATTTGTTCTGGTGGCTA
* *
78826016 TGCCACAATATTTGTATCTGGTGACTC
1 TGCCACAATATTTGT-TCTGGTGGCTA
*
78826043 TGTCACAATATTTGTTCTGG
1 TGCCACAATATTTGTTCTGG
78826063 CAGCCATGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 13 0.20
27 47 0.71
28 6 0.09
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
TGCCACAATATTTGTTCTGGTGGCTA
Found at i:78826189 original size:6 final size:6
Alignment explanation
Indices: 78826180--78826264 Score: 66
Period size: 6 Copynumber: 13.8 Consensus size: 6
78826170 TTGCATTTAC
* * * *
78826180 ATTCTG ATTCTG ATTCTG -TTACCTA ATACTG ATTCTG ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
78826230 ATACTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
78826265 CATTTTGGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
5 4 0.06
6 54 0.83
7 4 0.06
8 3 0.05
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:78826211 original size:25 final size:25
Alignment explanation
Indices: 78826183--78826247 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
78826173 CATTTACATT
*
78826183 CTGATTCTGATTCTGTTACCTAATA
1 CTGATTCTGATTCTGTCACCTAATA
*
78826208 CTGATTCTGATTCTATCACCTAATA
1 CTGATTCTGATTCTGTCACCTAATA
*
78826233 CTAATTCTGATTCTG
1 CTGATTCTGATTCTG
78826248 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.43
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:78826215 original size:31 final size:29
Alignment explanation
Indices: 78826180--78826254 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 29
78826170 TTGCATTTAC
*
78826180 ATTCTGATTCTGATTCTGTTACCTAATACTG
1 ATTCTGATTCTGATTCTG--ACCTAATACTA
78826211 ATTCTGATTCT-A-TC--ACCTAATACTA
1 ATTCTGATTCTGATTCTGACCTAATACTA
78826236 ATTCTGATTCTGATTCTGA
1 ATTCTGATTCTGATTCTGA
78826255 TTCTGATTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 21 0.54
26 1 0.03
27 2 0.05
29 3 0.08
30 1 0.03
31 11 0.28
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (29 bp):
ATTCTGATTCTGATTCTGACCTAATACTA
Found at i:78828852 original size:25 final size:27
Alignment explanation
Indices: 78828824--78828882 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
78828814 CTATTCACCA
* *
78828824 AATTCATA-AAGATA-GCATGTCTAAG
1 AATTCATATAAGAAAGGCATATCTAAG
*
78828849 AATTCA-ATCAGAAAGGCATATCTAAG
1 AATTCATATAAGAAAGGCATATCTAAG
78828875 AATTCATA
1 AATTCATA
78828883 GTGACCATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.04
25 10 0.36
26 16 0.57
27 1 0.04
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (27 bp):
AATTCATATAAGAAAGGCATATCTAAG
Found at i:78832619 original size:43 final size:42
Alignment explanation
Indices: 78832571--78832677 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 42
78832561 CAATGCGAAC
* *
78832571 GTCCCAGACATGGTCTTACATGTAATCAAACATCGATGCCACT
1 GTCCCAGACATGGTCTTACATGAAATCAAACA-CGATGCCAAT
* ** * *
78832614 GTCCCAGACAGGGTCTTACACAAAATCAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTACATGAAATCAAACACGATGCCAAT
78832656 GTCCCAGACATGGTCTTACATG
1 GTCCCAGACATGGTCTTACATG
78832678 CAAAACAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGAAATCAAACACGATGCCAAT
Found at i:78834418 original size:48 final size:46
Alignment explanation
Indices: 78834343--78834513 Score: 200
Period size: 48 Copynumber: 3.6 Consensus size: 46
78834333 GTAAATTGCT
*
78834343 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATAATAT-GCC
* * * *
78834391 GATGCCATGTCCCAGACATGGTTTTACACTAGCATACAT-ATCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATAAT--ATGCC
* *
78834439 GATGCCATGTCCAAGACATGGTCTTACACTGGCTTTCATAATGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TTCATAATAT-GCC
*
78834487 GATGCTATGTCCCAGACATGGTCTTAC
1 GATGCCATGTCCCAGACATGGTCTTAC
78834514 GCTAGCACAC
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 3 0.03
48 96 0.92
49 5 0.05
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATAATATGCC
Found at i:78834507 original size:96 final size:96
Alignment explanation
Indices: 78834343--78834529 Score: 293
Period size: 96 Copynumber: 1.9 Consensus size: 96
78834333 GTAAATTGCT
* *
78834343 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAGAC
1 GATGCCATGCCCAAGACATGGTCTTACACTGGCTCTCATAATATAGCCGATGCCATGTCCCAGAC
* *
78834408 ATGGTTTTACACTAGCATACATATCAATGTC
66 ATGGTCTTACACTAGCACACATATCAATGTC
* * * *
78834439 GATGCCATGTCCAAGACATGGTCTTACACTGGCTTTCATAATGTAGCCGATGCTATGTCCCAGAC
1 GATGCCATGCCCAAGACATGGTCTTACACTGGCTCTCATAATATAGCCGATGCCATGTCCCAGAC
*
78834504 ATGGTCTTACGCTAGCACACATATCA
66 ATGGTCTTACACTAGCACACATATCA
78834530 CCCAAATGTC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (96 bp):
GATGCCATGCCCAAGACATGGTCTTACACTGGCTCTCATAATATAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACATATCAATGTC
Found at i:78840321 original size:47 final size:48
Alignment explanation
Indices: 78840229--78840411 Score: 208
Period size: 48 Copynumber: 3.8 Consensus size: 48
78840219 GGTGAATTGT
* *
78840229 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
*
78840277 CGATGCCATGTCCCAGACATGG-CTTACACTGGCTCTCGTAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
* * * * * * ****
78840324 TGATGCCATATCCCACACATGGTCTTACACTAGCACACAT-ATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGC
* *
78840372 CGATGCCATGTCCCAGACATGGTCTCACACTTGCTCTCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
78840412 TGTAACAGTC
Statistics
Matches: 112, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 44 0.39
48 68 0.61
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
Found at i:78848629 original size:46 final size:46
Alignment explanation
Indices: 78848579--78848754 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
78848569 TGGTTGAGAA
78848579 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
78848625 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
78848670 CATCTGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
78848718 -CCCAAGCTCATTCAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78848755 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 6 0.06
46 57 0.55
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:78855841 original size:46 final size:46
Alignment explanation
Indices: 78855791--78855919 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
78855781 TGGTTGAGCA
*
78855791 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
78855837 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
78855883 CCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78855920 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:78858258 original size:46 final size:47
Alignment explanation
Indices: 78858182--78858330 Score: 147
Period size: 47 Copynumber: 3.1 Consensus size: 47
78858172 CTGCACATAG
* * * ** *
78858182 TCACATACTACACACCGAAGCCATAGCCCAGCCATGGTCTTACA-CGGA
1 TCACATA-T-CACACTGATGCCATATCCCAGATATGGTCTTACATAGGA
* *
78858230 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGTA
1 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTACATAGGA
* * * * *
78858277 GCACATATCACATTGATGCCATATCCTAGATATGGTCTTATATAGAA
1 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTACATAGGA
*
78858324 GCACATA
1 TCACATA
78858331 ATTACATCTC
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 28 0.32
47 53 0.60
48 7 0.08
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (47 bp):
TCACATATCACACTGATGCCATATCCCAGATATGGTCTTACATAGGA
Found at i:78858298 original size:47 final size:47
Alignment explanation
Indices: 78858231--78858330 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
78858221 TTACACGGAT
*
78858231 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGTAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGAAG
* *
78858278 CACATATCACATTGATGCCATATCCTAGATATGGTCTTATATAGAAG
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGAAG
78858325 CACATA
1 CACATA
78858331 ATTACATCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (47 bp):
CACATATCACACTGATGCCATATCCCAGATATGGTCTTATATAGAAG
Found at i:78858415 original size:54 final size:54
Alignment explanation
Indices: 78858307--78858498 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 54
78858297 ATATCCTAGA
* * * * * * * * *
78858307 TATGGTCTTATA-TAGAAGCACATAATTACATCTCTCCGATGCCATAGCCAAGC
1 TATGGTCTTATACGAAAATCACATGATCACATCACACCGATGCCACAGCCCAGC
*
78858360 TATGGTATTATACGAAAATCACATGATCACATCACACCGATGCCACAGCCCAGC
1 TATGGTCTTATACGAAAATCACATGATCACATCACACCGATGCCACAGCCCAGC
* * * *
78858414 TACGATCTTATACGGAAATCACATGATCACATCACATCGATGCC-CTAGCCCAGC
1 TATGGTCTTATACGAAAATCACATGATCACATCACACCGATGCCAC-AGCCCAGC
78858468 TATGGTCTTATACGAAAATCACAT-ATCACAT
1 TATGGTCTTATACGAAAATCACATGATCACAT
78858499 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 19 0.16
54 100 0.84
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (54 bp):
TATGGTCTTATACGAAAATCACATGATCACATCACACCGATGCCACAGCCCAGC
Found at i:78859288 original size:105 final size:105
Alignment explanation
Indices: 78859106--78859527 Score: 808
Period size: 105 Copynumber: 4.0 Consensus size: 105
78859096 ATAAAATAAG
* *
78859106 AACTTCAATTCCATAATAATTCATCATAATAATATAGCATGTATTCATGGTAACTTTTAAAGTCA
1 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
78859171 CCCATAAAATCAAAAACTAATGAATTAGATAGTTTGACCT
66 CCCATAAAATCAAAAACTAATGAATTAGATAGTTTGACCT
78859211 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
1 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
78859276 CCCATAAAATCAAAAACTAATGAATTAGATAGTTTGACCT
66 CCCATAAAATCAAAAACTAATGAATTAGATAGTTTGACCT
78859316 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
1 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
*
78859381 CCCATAAAATCAAAAACTAATGAATTAGATAGTTTCACCT
66 CCCATAAAATCAAAAACTAATGAATTAGATAGTTTGACCT
78859421 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
1 AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
*
78859486 CCCATAAAATCAAAAACTAATGAATTAGATAGTTGGACCT
66 CCCATAAAATCAAAAACTAATGAATTAGATAGTTTGACCT
78859526 AA
1 AA
78859528 TTGTAAAAGT
Statistics
Matches: 312, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 312 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (105 bp):
AACTTCAATTCCATAATAATTCACCATAATAATACAGCATGTATTCATGGTAACTTTTAAAGTCA
CCCATAAAATCAAAAACTAATGAATTAGATAGTTTGACCT
Found at i:78865763 original size:29 final size:29
Alignment explanation
Indices: 78865728--78865801 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
78865718 GTTGTGAGAT
* *
78865728 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
78865757 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
78865786 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78865802 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:78868478 original size:45 final size:45
Alignment explanation
Indices: 78868423--78868552 Score: 197
Period size: 45 Copynumber: 2.9 Consensus size: 45
78868413 CGATATCATT
*
78868423 TCACCGGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
78868468 TCATCGGCATTATAGCCTGCTAGGTTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
78868513 TCACCAGCATCACAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
78868553 ATACCTTACA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:78870464 original size:13 final size:13
Alignment explanation
Indices: 78870446--78870471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78870436 TAGATTTCAG
78870446 CAAATGAAAGAAA
1 CAAATGAAAGAAA
78870459 CAAATGAAAGAAA
1 CAAATGAAAGAAA
78870472 GAATGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (13 bp):
CAAATGAAAGAAA
Found at i:78872146 original size:29 final size:29
Alignment explanation
Indices: 78872113--78872175 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
78872103 GTCTAGGCCC
78872113 TGTGAGGGACACGGGCATGTGCTCCGCCG
1 TGTGAGGGACACGGGCATGTGCTCCGCCG
* *
78872142 TGTGAGGGACACGGGCGTGTGCTCGGCCG
1 TGTGAGGGACACGGGCATGTGCTCCGCCG
78872171 TGTGA
1 TGTGA
78872176 AATCCCTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.44, T:0.19
Consensus pattern (29 bp):
TGTGAGGGACACGGGCATGTGCTCCGCCG
Found at i:78872572 original size:48 final size:48
Alignment explanation
Indices: 78872512--78872694 Score: 217
Period size: 48 Copynumber: 3.8 Consensus size: 48
78872502 AGTAAATTGC
* * * *** *
78872512 CGATGCCTTGTCCCAGACATGGTCTTACAC-AGGCTCTCAGAAT-GTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTA-GCACACA-AATCAACGA
*
78872560 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
* * *
78872608 CGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
* *
78872656 CGATGCCATGTCCCAGATATGGTCTTACAGTAGCACACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
78872695 TCACCCAAAT
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 2 0.02
48 117 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
Found at i:78872695 original size:48 final size:48
Alignment explanation
Indices: 78872560--78872695 Score: 236
Period size: 48 Copynumber: 2.8 Consensus size: 48
78872550 AGAATGTGGT
78872560 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
* *
78872608 CGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
* *
78872656 CGATGCCATGTCCCAGATATGGTCTTACAGTAGCACACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
78872696 CACCCAAATG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
Found at i:78874004 original size:20 final size:20
Alignment explanation
Indices: 78873959--78874004 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
78873949 GAGTACACAA
**
78873959 GCGTGTCCCAAGCCATGCGG
1 GCGTGTCCCAAGCCACACGG
* *
78873979 GTGTGTCCCAAGCCACATGG
1 GCGTGTCCCAAGCCACACGG
78873999 GCGTGT
1 GCGTGT
78874005 GTATGACCAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (20 bp):
GCGTGTCCCAAGCCACACGG
Found at i:78881769 original size:29 final size:29
Alignment explanation
Indices: 78881737--78881794 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
78881727 TACATGTTTT
*
78881737 GACAATGTGAAATTATTAATAATTGACTA
1 GACAATGTGAAATTAGTAATAATTGACTA
78881766 GACAATGTGAAATTAGTAATAATTGACTA
1 GACAATGTGAAATTAGTAATAATTGACTA
78881795 TTTGTGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (29 bp):
GACAATGTGAAATTAGTAATAATTGACTA
Found at i:78885426 original size:27 final size:27
Alignment explanation
Indices: 78885396--78885456 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
78885386 CGACTTGTAA
* *
78885396 AATTACCAAAGTACCCTCGATTTCCAT
1 AATTACCAAAGTACCCCCGATTTACAT
****
78885423 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
78885450 AATTACC
1 AATTACC
78885457 TTTTACCCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAT
Found at i:78885480 original size:53 final size:54
Alignment explanation
Indices: 78885407--78885564 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 54
78885397 ATTACCAAAG
** * ** * *
78885407 TACCCTCGATTTCCATAATTACCGTTTTACCCCCGATTTACATAATTAC-CTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCATGATTTACAAAATTACTATTT
** * *
78885460 TACCCTCGATTTATAGAATTACCGTTTTAAACATGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCATGATTTACAAAATTACTATTT
* * ** *
78885514 TACCATTGATTTATAGAATTACTATTTTACCCTTGATTTACAAAATTACTA
1 TACCCTCGATTTATAGAATTACCGTTTTACCCATGATTTACAAAATTACTA
78885565 AAATACCCTT
Statistics
Matches: 85, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 40 0.47
54 45 0.53
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCATGATTTACAAAATTACTATTT
Found at i:78885563 original size:27 final size:27
Alignment explanation
Indices: 78885407--78885589 Score: 134
Period size: 27 Copynumber: 6.8 Consensus size: 27
78885397 ATTACCAAAG
* * * **
78885407 TACCCTCGATTTCCATAATTACCGTTT
1 TACCCTTGATTTACAGAATTACTATTT
** * *
78885434 TACCCCCGATTTACATAATTAC-CTTT
1 TACCCTTGATTTACAGAATTACTATTT
* * **
78885460 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACTATTT
** * *
78885487 TAAACATGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACTATTT
* *
78885514 TACCATTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACTATTT
* ***
78885541 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACTATTT
* *
78885568 TACCCTTGGTTTACAAAATTAC
1 TACCCTTGATTTACAGAATTAC
78885590 CAAAATACCC
Statistics
Matches: 131, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 22 0.17
27 109 0.83
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACTATTT
Found at i:78885594 original size:27 final size:27
Alignment explanation
Indices: 78885541--78885873 Score: 242
Period size: 27 Copynumber: 12.3 Consensus size: 27
78885531 ATTACTATTT
* ** *
78885541 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
**
78885568 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * ** *
78885595 TACCCTCGATCAGTAAATTTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * *
78885622 TA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
*
78885648 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * *
78885675 TACCCCTAGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
78885702 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTGTAAAATTACCAAAA
***
78885729 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * ** *
78885756 TACCCCTGATTTACAAAATTA-TAGAAA
1 TACCCTTGGTTTGTAAAATTACCA-AAA
* * *
78885783 TACACTTGACTTTCTAAAAGTTA-CAGAAA
1 TACCCTTG-GTTTGTAAAA-TTACCA-AAA
* ** **
78885812 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
78885839 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
*
78885866 CACCCTTG
1 TACCCTTG
78885874 TAGGGTGAAA
Statistics
Matches: 242, Mismatches: 57, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
26 22 0.09
27 191 0.79
28 15 0.06
29 14 0.06
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTGTAAAATTACCAAAA
Found at i:78885677 original size:80 final size:81
Alignment explanation
Indices: 78885555--78885761 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 81
78885545 CTTGATTTAC
* ** *
78885555 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAATTTACCA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
*
78885619 AAATACC-TTGGTCTGT
65 AAATACCACTGGTCTGT
* * ** *
78885635 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
78885700 AATACCACTGGTTTGT
66 AATACCACTGGTCTGT
* ** **
78885716 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCC
78885762 TGATTTACAA
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 2 0.02
80 63 0.59
81 42 0.39
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:78886710 original size:16 final size:16
Alignment explanation
Indices: 78886689--78886719 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78886679 CAAATATGGG
*
78886689 CATGACATTTTGCATA
1 CATGACATGTTGCATA
78886705 CATGACATGTTGCAT
1 CATGACATGTTGCAT
78886720 GGGTTGGGTT
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:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:78886788 original size:25 final size:25
Alignment explanation
Indices: 78886750--78886840 Score: 121
Period size: 25 Copynumber: 3.7 Consensus size: 25
78886740 AGGAAGTGCT
* * *
78886750 AAAAGGGCTATGCCCGAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
* *
78886775 AAAAGGGCTTTGCCCTAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATCG
78886800 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
78886824 AAAAAGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
78886841 ATTATTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
24 16 0.27
25 43 0.73
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:78886855 original size:24 final size:24
Alignment explanation
Indices: 78886749--78886856 Score: 110
Period size: 25 Copynumber: 4.4 Consensus size: 24
78886739 GAGGAAGTGC
* * *
78886749 TAAAAGGGCTATGCCCGAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
78886774 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
78886798 TGAAAAGGGCTTTGCCCCAGTTTAT
1 T-AAAAGGGCTTTGCCCCAGTTTAT
* * *
78886823 CAAAAAGGCTTTGCCCCA-ATTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
78886846 TAAAAGAGGCT
1 TAAAAG-GGCT
78886857 AGGCCTCCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
23 8 0.11
24 20 0.29
25 42 0.60
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:78889404 original size:27 final size:27
Alignment explanation
Indices: 78889358--78889570 Score: 146
Period size: 27 Copynumber: 7.9 Consensus size: 27
78889348 ATTATTGAAA
**
78889358 TACCCTCGACTTGTA-A-AATTACCAAAG
1 TACCCTCGA-TT-TACATAATTACCAATT
* **
78889385 TACCCCCGATTTACATAATTACCGCTT
1 TACCCTCGATTTACATAATTACCAATT
*
78889412 TACCCTCGATTTACATATTTACC-ATT
1 TACCCTCGATTTACATAATTACCAATT
* * *
78889438 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACATAATTACCAATT
* * * * * *
78889465 TACCTTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACATAATTACCAATT
* * ***
78889492 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACATAATTACCAATT
* * **
78889519 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACATAATTACCAATT
*
78889546 TACCCTC-AGTTTACAAAATTACCAA
1 TACCCTCGA-TTTACATAATTACCAA
78889571 AATACCTTCG
Statistics
Matches: 157, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.01
26 26 0.17
27 129 0.82
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACATAATTACCAATT
Found at i:78889434 original size:54 final size:54
Alignment explanation
Indices: 78889358--78889568 Score: 183
Period size: 54 Copynumber: 3.9 Consensus size: 54
78889348 ATTATTGAAA
* ** * * * *
78889358 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACATAATTACCGCTT
1 TACCCTCGATTTACAAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTT
* * * * *
78889412 TACCCTCGATTTACATATTTACC-ATTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTT
* * * * * ** * *
78889465 TACCTTTGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTT
* * *
78889519 TACCCTCGATTTACAAAATTACTAAAATACCCTC-AGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACCAAATTACCCTCGA-TTTACAGAATTACC
78889569 AAAATACCTT
Statistics
Matches: 122, Mismatches: 33, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
53 41 0.34
54 81 0.66
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTT
Found at i:78889582 original size:54 final size:54
Alignment explanation
Indices: 78889521--78889755 Score: 217
Period size: 54 Copynumber: 4.4 Consensus size: 54
78889511 TACTGTTTTA
* * **
78889521 CCCTCGATTTACAAAATTACTAAAATACCCTCAGTTTACAAAATTACCAAAATA-
1 CCCT-GATTTATAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATAC
* * * * * *
78889575 CCTTCGA-TCAGTAAAATTACCAAAATACCCT-GGTCTGTAAAATTGCTAAAATAC
1 CCCT-GATTTA-TAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATAC
* *
78889629 CCCTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATACCCTC-AGTTTGTAAAATTACCAAAATAC
* * * * * * *
78889683 CACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTGATTTATAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATAC
* *
78889737 CCCAGATTTACAAAATTAC
1 CCCTGATTTATAAAATTAC
78889756 AGAAGTACCC
Statistics
Matches: 145, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
53 38 0.26
54 106 0.73
55 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
CCCTGATTTATAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATAC
Found at i:78889625 original size:26 final size:27
Alignment explanation
Indices: 78889533--78889739 Score: 197
Period size: 27 Copynumber: 7.7 Consensus size: 27
78889523 CTCGATTTAC
* * **
78889533 AAAATTACTAAAATA-CCCTCAGTTTAC
1 AAAATTACCAAAATACCCCT-GGTTTGT
* * **
78889560 AAAATTACCAAAATA-CCTTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
78889587 AAAATTACCAAAATA-CCCTGGTCTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
78889613 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
78889640 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
78889667 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * **
78889694 GAAATTATCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
78889721 AAAATTACCAAAATACCCC
1 AAAATTACCAAAATACCCC
78889740 AGATTTACAA
Statistics
Matches: 149, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
26 21 0.14
27 125 0.84
28 3 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:78889752 original size:81 final size:80
Alignment explanation
Indices: 78889533--78889755 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 80
78889523 CTCGATTTAC
* ** * *
78889533 AAAATTACTAAAATACCCTCAGTTTACAAAATTACCAAAATACCTTC-GA-TCAGTAAAATTACC
1 AAAATTGCTAAAATACCCTCAGTTTGTAAAATTACCAAAATACC-CCAGATTTA-TAAAATTACC
78889596 AAAATACCCTGGTCTGT
64 AAAATACCCTGGTCTGT
* *
78889613 AAAATTGCTAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACC
1 AAAATTGCTAAAATACCCTC-AGTTTGTAAAATTACCAAAATACCCC-AGATTTATAAAATTACC
*
78889676 AAAATACCACTGGTTTGT
64 AAAATACC-CTGGTCTGT
* * * * *
78889694 GAAATT-ATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCAGATTTACAAAATTAC
1 AAAATTGCT-AAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCAGATTTATAAAATTAC
78889756 AGAAGTACCC
Statistics
Matches: 120, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
79 2 0.02
80 59 0.49
81 58 0.48
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTGCTAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCAGATTTATAAAATTACCAA
AATACCCTGGTCTGT
Found at i:78889816 original size:27 final size:27
Alignment explanation
Indices: 78889777--78889828 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
78889767 TGACTTTCTA
78889777 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
78889804 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
78889829 GTAGATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:78889946 original size:27 final size:27
Alignment explanation
Indices: 78889869--78889946 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
78889859 AAATGACTAA
* *
78889869 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
78889896 AA-AGCCTCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
78889923 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
78889947 GAATATGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 38 0.95
28 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:78890427 original size:18 final size:18
Alignment explanation
Indices: 78890404--78890443 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
78890394 AGCATTCATA
78890404 GGGCCCATTAGAGGTTTT
1 GGGCCCATTAGAGGTTTT
78890422 GGGCCCATTAGAGGTTTT
1 GGGCCCATTAGAGGTTTT
78890440 GGGC
1 GGGC
78890444 TCAAAAGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.38, T:0.30
Consensus pattern (18 bp):
GGGCCCATTAGAGGTTTT
Found at i:78890839 original size:24 final size:25
Alignment explanation
Indices: 78890756--78890862 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 25
78890746 AGGAAGTGCT
* **
78890756 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
78890781 AAAAGGGCTTTGCCCTAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATTG
78890806 AAAAGGGCTTTGCCCCAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
78890831 -AAAGGGCTTTTCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
78890853 AAAAGAGGCT
1 AAAAG-GGCT
78890863 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 9 0.12
24 20 0.27
25 45 0.61
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:78893416 original size:27 final size:27
Alignment explanation
Indices: 78893386--78893446 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
78893376 CGACTTGTAA
78893386 AATTACCAAAGTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
****
78893413 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
*
78893440 ATTTACC
1 AATTACC
78893447 TTTTACTCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAT
Found at i:78893484 original size:27 final size:27
Alignment explanation
Indices: 78893397--78893552 Score: 143
Period size: 27 Copynumber: 5.8 Consensus size: 27
78893387 ATTACCAAAG
* * *
78893397 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
78893424 TACCCCCGATTTACATATTTACC-TTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
78893450 TACTCTCGATTTATAGAATTGCCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
78893477 TACCCTCGATTTATAGAATTAATATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
78893504 TACCCTTGATTTGCAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
78893531 TTCCCTCGATATACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
78893553 TAAAATACCA
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 20 0.19
27 88 0.81
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:78893660 original size:22 final size:22
Alignment explanation
Indices: 78893617--78893660 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
78893607 CAAAATACCC
*
78893617 TGGTCTGTAAAATTGCTAAAAT
1 TGGTCTGTAAAATTACTAAAAT
* *
78893639 TGGTTTGTAAAATTACTGAAAT
1 TGGTCTGTAAAATTACTAAAAT
78893661 ACCACTGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (22 bp):
TGGTCTGTAAAATTACTAAAAT
Found at i:78893678 original size:27 final size:27
Alignment explanation
Indices: 78893545--78893717 Score: 101
Period size: 27 Copynumber: 6.6 Consensus size: 27
78893535 CTCGATATAC
** * **
78893545 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACCGAAATACCACTGGTTTGT
* * **
78893572 AAAATTACCAAAATACC-CTTGATCAGT
1 AAAATTACCGAAATACCAC-TGGTTTGT
* *
78893599 AAAATTACCAAAATACC-CTGGTCTGT
1 AAAATTACCGAAATACCACTGGTTTGT
* * *
78893625 AAAATT-GC-TAA-A--ATTGGTTTGT
1 AAAATTACCGAAATACCACTGGTTTGT
*
78893647 AAAATTACTGAAATACCACTGGTTTGT
1 AAAATTACCGAAATACCACTGGTTTGT
* **
78893674 GAAATTACCGAAATACC-CTCAATTTGT
1 AAAATTACCGAAATACCACT-GGTTTGT
*
78893701 AAAATTACCAAAATACC
1 AAAATTACCGAAATACC
78893718 CCAGATTTAC
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
22 13 0.11
23 1 0.01
24 4 0.03
25 2 0.02
26 14 0.12
27 81 0.70
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCACTGGTTTGT
Found at i:78893718 original size:27 final size:26
Alignment explanation
Indices: 78893642--78893746 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 26
78893632 CTAAAATTGG
* **
78893642 TTTGTAAAATTACTGAAATACCACTGG
1 TTTGTAAAATTACCGAAATACC-CTAA
*
78893669 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCCT-AA
* *
78893696 TTTGTAAAATTACCAAAATACCCCAGA
1 TTTGTAAAATTACCGAAATACCCTA-A
** * *
78893723 TTTACAAATTTACAGAAATACCCT
1 TTTGTAAAATTACCGAAATACCCT
78893747 TGACTTTTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.05
27 60 0.95
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
TTTGTAAAATTACCGAAATACCCTAA
Found at i:78893796 original size:27 final size:26
Alignment explanation
Indices: 78893753--78893808 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
78893743 CCCTTGACTT
*
78893753 TTTAAAAATTAGAGAAATA-CCATTGG
1 TTTAAAAATTACAGAAATATCC-TTGG
*
78893779 TTTACAAAATTACTGAAATATCCTTGG
1 TTTA-AAAATTACAGAAATATCCTTGG
78893806 TTT
1 TTT
78893809 GTAGATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 20 0.77
28 2 0.08
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTACAGAAATATCCTTGG
Found at i:78893926 original size:27 final size:27
Alignment explanation
Indices: 78893862--78893926 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
78893852 ACCCTAATTA
*
78893862 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
78893889 GGTAAAGTGACCGTAATA-CCTCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
78893916 GGTAAAATGAC
1 GGTAAAATGAC
78893927 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:78894813 original size:24 final size:25
Alignment explanation
Indices: 78894757--78894814 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
78894747 TATGTTTACC
*
78894757 GAAAAG-GGCTTTGCTCCAGTTTAT
1 GAAAAGAGGCTTTGCCCCAGTTTAT
* *
78894781 CAAAA-AGGCTTTGCCCCTG-TTAT
1 GAAAAGAGGCTTTGCCCCAGTTTAT
78894804 GAAAAGAGGCT
1 GAAAAGAGGCT
78894815 AGGCCTCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (25 bp):
GAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:78895055 original size:31 final size:31
Alignment explanation
Indices: 78895020--78895096 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
78895010 CATTTACAGT
78895020 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
* *
78895051 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
*
78895082 AAAGGCTTCGACCCA
1 AAAGGCTTCGGCCCA
78895097 CTAACCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAA
Found at i:78899453 original size:46 final size:46
Alignment explanation
Indices: 78898477--78899434 Score: 1773
Period size: 46 Copynumber: 20.8 Consensus size: 46
78898467 TGTAACCCGC
* * *
78898477 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
*
78898523 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
78898573 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898616 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898662 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898708 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898754 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898800 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898846 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898892 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898938 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78898984 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899030 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899076 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899122 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899168 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899214 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899260 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899306 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899352 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78899398 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78899435 TGCTCAATCA
Statistics
Matches: 893, Mismatches: 9, Indels: 20
0.97 0.01 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.00
44 2 0.00
45 4 0.00
46 843 0.94
47 29 0.03
48 2 0.00
49 2 0.00
50 3 0.00
51 2 0.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78901150 original size:27 final size:27
Alignment explanation
Indices: 78901114--78901484 Score: 499
Period size: 27 Copynumber: 13.7 Consensus size: 27
78901104 TACTGAAATG
* * *
78901114 CCCTCAATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
78901141 CCCACGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
78901168 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
** * *
78901195 CCCTTAATTTACAGAATTACCATCTTA
1 CCCTCGATTTATAGAATTACCATTTTA
78901222 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
78901249 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
78901276 CCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
78901303 CCCTCGGTTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
78901330 CCCTCGATTTACAGAGTTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
78901357 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
78901384 CCCTCGATTTATAGAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
78901411 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* ***
78901438 CCCTCGATTTATAAAATTATTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
78901465 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
78901485 TGAAATACCT
Statistics
Matches: 303, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 303 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:78901493 original size:27 final size:27
Alignment explanation
Indices: 78901382--78901548 Score: 104
Period size: 27 Copynumber: 6.2 Consensus size: 27
78901372 ATTACCATTT
* * **
78901382 TACCCTCGATTTATAGAATTA-TCATTT
1 TACCCTCGATTTATAAAATTACTGA-AA
* * ***
78901409 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGAAA
* ***
78901436 TACCCTCGATTTATAAAATTATTGTTT
1 TACCCTCGATTTATAAAATTACTGAAA
*
78901463 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTGAAA
* * * * **
78901490 TACCTTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTGAAA
* *
78901517 CACCCTCGA-TCAGTAAAATTACTGAAA
1 TACCCTCGATTTA-TAAAATTACTGAAA
78901544 TACCC
1 TACCC
78901549 CTGTAGGGTA
Statistics
Matches: 113, Mismatches: 25, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
26 2 0.02
27 111 0.98
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGAAA
Found at i:78901563 original size:27 final size:27
Alignment explanation
Indices: 78901533--78901697 Score: 260
Period size: 27 Copynumber: 6.1 Consensus size: 27
78901523 CGATCAGTAA
78901533 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
78901560 AATTACTGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
78901587 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
78901614 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
78901641 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
78901668 AAATACCGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
78901695 AAT
1 AAT
78901698 CACCCCTGTA
Statistics
Matches: 126, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:78901564 original size:54 final size:54
Alignment explanation
Indices: 78901506--78901683 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 54
78901496 TGGTTTACAA
* *
78901506 AATTACCAAAACACCCTCGATCA-GTAAAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTCGAT-AGGTAGAATTACTGAAATACCCCTGTAGGGTAG
**
78901560 AATTACTGAAATAACCCT-G-TAGGGTAGAATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAAT-ACCCTCGATA-GGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* *
78901614 AATTACTAAAATACCC-CTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTCGATA-GGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
78901668 AAATACCGAAATACCC
1 AATTACCAAAATACCC
78901684 CTGTAGGATA
Statistics
Matches: 108, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
52 1 0.01
53 6 0.06
54 95 0.88
55 6 0.06
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (54 bp):
AATTACCAAAATACCCTCGATAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:78901591 original size:81 final size:79
Alignment explanation
Indices: 78901506--78901690 Score: 223
Period size: 81 Copynumber: 2.3 Consensus size: 79
78901496 TGGTTTACAA
* *
78901506 AATTACCAAAACACCCTCGATCA-GTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAA
1 AATTACCAAAACACCCT-G-T-AGGTAAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAA
78901570 ATAACCCTGTAGGGTAG
63 ATAACCCTGTAGGGTAG
* *
78901587 AATTATCGAAATAC-CCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAA
1 AATTA-CCAAA-ACACCCTGTA-GGTAAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAA
*
78901651 ATACCCCTGTAGGGTAG
63 ATAACCCTGTAGGGTAG
*
78901668 AAATACCGAAATAC-CCCTGTAGG
1 AATTACC-AAA-ACACCCTGTAGG
78901691 ATAGAATCAC
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 1 0.01
80 4 0.04
81 77 0.84
82 8 0.09
83 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (79 bp):
AATTACCAAAACACCCTGTAGGTAAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATA
ACCCTGTAGGGTAG
Found at i:78901684 original size:54 final size:54
Alignment explanation
Indices: 78901533--78901770 Score: 255
Period size: 54 Copynumber: 4.6 Consensus size: 54
78901523 CGATCAGTAA
* * * * *
78901533 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
* ** *
78901587 AATTA-TCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
*
78901641 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
*
78901695 AA-T-C------ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
* * *
78901741 AATTA-TCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACT-GAAATACCCCTGTAGGGTAGAAAT
78901771 TACCATTTTG
Statistics
Matches: 161, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
46 42 0.26
47 1 0.01
52 1 0.01
53 6 0.04
54 110 0.68
55 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
Found at i:78901704 original size:46 final size:46
Alignment explanation
Indices: 78901653--78901743 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
78901643 TTACTGAAAT
* *
78901653 ACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATC
1 ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAGAATC
78901699 ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAGAAT
1 ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAGAAT
78901744 TATCGAGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (46 bp):
ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAGAATC
Found at i:78901785 original size:100 final size:100
Alignment explanation
Indices: 78901533--78901770 Score: 273
Period size: 100 Copynumber: 2.3 Consensus size: 100
78901523 CGATCAGTAA
* * * *
78901533 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAG-A--ATC----
* * **
78901598 TACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
59 -ACCCCTGTAGGGTAGAAATACCAAAATACCCCTATAGAATAG
78901641 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATCACCCCTG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATCACCCCTG
*
78901706 TAGGGTAGAAATACCGAAATACCCCTATAGAATAG
66 TAGGGTAGAAATACCAAAATACCCCTATAGAATAG
* * *
78901741 AATTA-TCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACT-GAAATACCCCTGTAGGGTAGAAAT
78901771 TACCATTTTG
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
99 5 0.04
100 58 0.50
105 3 0.03
107 1 0.01
108 50 0.43
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (100 bp):
AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATCACCCCTG
TAGGGTAGAAATACCAAAATACCCCTATAGAATAG
Found at i:78902019 original size:25 final size:25
Alignment explanation
Indices: 78901977--78902071 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
78901967 AGGAAGTGCT
* *
78901977 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTATCG
* *
78902002 AAAAGGACTTTGCTCTAGTTTATCG
1 AAAAGGGCTTTGCCCTAGTTTATCG
* *
78902027 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTATCG
*
78902052 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
78902072 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTATCG
Found at i:78902084 original size:24 final size:24
Alignment explanation
Indices: 78902021--78902098 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
78902011 TTGCTCTAGT
78902021 TTATCGAAAAG-GGCTTTGCCCCAG
1 TTATC-AAAAGAGGCTTTGCCCCAG
78902045 TTTATCAAAA-AGGGCTTTGCCCCAG
1 -TTATCAAAAGA-GGCTTTGCCCCAG
* **
78902070 TTATTAAAAGAGGCTAGGCCTCCAG
1 TTATCAAAAGAGGCTTTGCC-CCAG
78902095 TTAT
1 TTAT
78902099 ATGATAAAGC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 19 0.41
25 27 0.59
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
TTATCAAAAGAGGCTTTGCCCCAG
Found at i:78902386 original size:29 final size:29
Alignment explanation
Indices: 78902303--78902386 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
78902293 CATTTACAGT
* *
78902303 AAAA-GCTTCGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGT-ATATG-TTAACG
*
78902333 AAAAGGCTTCGGCCTAGTA-ACTGTTAAACG
1 AAAAGGCTTCGGCCCAGTATA-TGTT-AACG
78902363 -AAAGGCTTCGGCCCAGTATATGTT
1 AAAAGGCTTCGGCCCAGTATATGTT
78902387 GAGAATGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
29 24 0.52
30 10 0.22
31 12 0.26
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (29 bp):
AAAAGGCTTCGGCCCAGTATATGTTAACG
Found at i:78903750 original size:28 final size:27
Alignment explanation
Indices: 78903686--78903837 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
78903676 TTATTAAGTC
* *
78903686 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
78903713 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
78903741 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
78903768 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
78903796 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
78903823 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78903838 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:78903770 original size:55 final size:55
Alignment explanation
Indices: 78903686--78903862 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
78903676 TTATTAAGTC
* * *
78903686 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
78903741 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
78903796 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
78903852 CGCACACTTAG
1 CGCACACTTAG
78903863 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:78904305 original size:74 final size:74
Alignment explanation
Indices: 78904184--78904331 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
78904174 AAGAGTATTC
78904184 AATATTTAACCCAATAACATGAATTTATTTATCACATTCGGCAATCACATATCATTAAATTTTCA
1 AATATTTAACCCAATAACATGAATTTATTTATCACATTCGGCAATCACATATCATTAAATTTTCA
78904249 AACCAAAAT
66 AACCAAAAT
*
78904258 AATATTTAACCCAATAACATGAATTTATTTATCACATTCGGCAATCACATATCATTAAATTTTCG
1 AATATTTAACCCAATAACATGAATTTATTTATCACATTCGGCAATCACATATCATTAAATTTTCA
78904323 AACCAAAAT
66 AACCAAAAT
78904332 GTCATTATAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.34
Consensus pattern (74 bp):
AATATTTAACCCAATAACATGAATTTATTTATCACATTCGGCAATCACATATCATTAAATTTTCA
AACCAAAAT
Found at i:78906971 original size:21 final size:21
Alignment explanation
Indices: 78906938--78907011 Score: 50
Period size: 21 Copynumber: 3.6 Consensus size: 21
78906928 AAGACACTCA
**
78906938 TTTTTTCAATTTCCTTCTCTT
1 TTTTTTCTTTTTCCTTCTCTT
78906959 TTTTTTCTTTTT-CTT-TAC-T
1 TTTTTTCTTTTTCCTTCT-CTT
**
78906978 GATTTTC-TTTTCAC-TCTCTT
1 TTTTTTCTTTTTC-CTTCTCTT
78906998 TTGTTTTCTTTTTC
1 TT-TTTTCTTTTTC
78907012 TGATTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 4 0.10
19 9 0.22
20 7 0.17
21 15 0.38
22 5 0.12
ACGTcount: A:0.07, C:0.20, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTTTTCTTTTTCCTTCTCTT
Found at i:78909159 original size:17 final size:17
Alignment explanation
Indices: 78909132--78909165 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
78909122 TATGTTCAAA
78909132 TTTTCAGATTTTGTTTTT
1 TTTTCAGATTTT-TTTTT
78909150 TTTTCA-ATTTTTTTTT
1 TTTTCAGATTTTTTTTT
78909166 GAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTCAGATTTTTTTTT
Found at i:78909162 original size:11 final size:11
Alignment explanation
Indices: 78909146--78909187 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
78909136 CAGATTTTGT
78909146 TTTTTTTTCAA
1 TTTTTTTTCAA
*
78909157 TTTTTTTTTGAA
1 -TTTTTTTTCAA
78909169 TTTTTTTTCAA
1 TTTTTTTTCAA
78909180 TTTTTTTT
1 TTTTTTTT
78909188 TTGAAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:78909162 original size:12 final size:12
Alignment explanation
Indices: 78909145--78909188 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
78909135 TCAGATTTTG
78909145 TTTTTTTTTCAA
1 TTTTTTTTTCAA
*
78909157 TTTTTTTTTGAA
1 TTTTTTTTTCAA
78909169 -TTTTTTTTCAA
1 TTTTTTTTTCAA
78909180 TTTTTTTTT
1 TTTTTTTTT
78909189 TGAAACTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:78910060 original size:12 final size:12
Alignment explanation
Indices: 78910045--78910076 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
78910035 GATTTTGCTT
*
78910045 TTTTTTTTTCAA
1 TTTTTTTTACAA
78910057 TTTTTTTTACAA
1 TTTTTTTTACAA
78910069 TTTTTTTT
1 TTTTTTTT
78910077 GAAACTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTTTACAA
Found at i:78917041 original size:49 final size:49
Alignment explanation
Indices: 78916802--78917046 Score: 258
Period size: 49 Copynumber: 4.9 Consensus size: 49
78916792 TCTATTGTGG
* * * * *
78916802 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * * * **
78916853 GATCACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * **
78916902 AGGTCACGTGTGTAGTACAAAGT-CTAGGCTACTACGTATACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGC-AGGCTACTACGTGTACCAGATAATT
*
78916952 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
78917001 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
78917047 GCTTTCGCTA
Statistics
Matches: 163, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
49 86 0.53
50 41 0.25
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:78920075 original size:30 final size:29
Alignment explanation
Indices: 78920040--78920109 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
78920030 AGTATCGATC
*
78920040 TTGGGTTTCTTTA-CTCTGGGTTTCTTTAT
1 TTGGGTTTCTTTATCT-TGGATTTCTTTAT
*
78920069 TCTGGGTTTCTCTATCTTGGATTTCTTTAT
1 T-TGGGTTTCTTTATCTTGGATTTCTTTAT
*
78920099 TTGGTTTTCTT
1 TTGGGTTTCTT
78920110 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 9 0.26
30 24 0.69
31 2 0.06
ACGTcount: A:0.07, C:0.14, G:0.19, T:0.60
Consensus pattern (29 bp):
TTGGGTTTCTTTATCTTGGATTTCTTTAT
Found at i:78920107 original size:14 final size:14
Alignment explanation
Indices: 78920040--78920109 Score: 77
Period size: 15 Copynumber: 4.8 Consensus size: 14
78920030 AGTATCGATC
78920040 TTGGGTTTCTTTACT
1 TTGGGTTTCTTTA-T
*
78920055 CTGGGTTTCTTTAT
1 TTGGGTTTCTTTAT
*
78920069 TCTGGGTTTCTCTAT
1 T-TGGGTTTCTTTAT
*
78920084 CTTGGATTTCTTTAT
1 -TTGGGTTTCTTTAT
*
78920099 TTGGTTTTCTT
1 TTGGGTTTCTT
78920110 GTTATCTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
14 11 0.23
15 35 0.74
16 1 0.02
ACGTcount: A:0.07, C:0.14, G:0.19, T:0.60
Consensus pattern (14 bp):
TTGGGTTTCTTTAT
Found at i:78921903 original size:49 final size:49
Alignment explanation
Indices: 78921773--78921968 Score: 230
Period size: 49 Copynumber: 4.0 Consensus size: 49
78921763 TCTATTGTAA
* * ** *
78921773 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-T-T
* * *
78921824 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * *
78921873 GGTCACATGTGTACTACTAACTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * * * *
78921922 GGTCGCAAGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA
78921969 CTTTGGCTAC
Statistics
Matches: 125, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 85 0.68
50 1 0.01
51 39 0.31
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
Found at i:78924351 original size:26 final size:26
Alignment explanation
Indices: 78924322--78924381 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
78924312 TTTACTAAAC
** * *
78924322 TACCCCTAAGTATGGAATTACCATTA
1 TACCCCTAAGTATAAAATGACCATGA
*
78924348 TACCCCTAAGTGTAAAATGACCATGA
1 TACCCCTAAGTATAAAATGACCATGA
78924374 TACCCCTA
1 TACCCCTA
78924382 GGGTTAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (26 bp):
TACCCCTAAGTATAAAATGACCATGA
Found at i:78924526 original size:28 final size:26
Alignment explanation
Indices: 78924485--78924599 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
78924475 TGGAGGAAGC
78924485 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
78924512 GTTTCTGGTGGCTATGCCACAAACATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
* *
78924540 GTTCTGATGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
78924566 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
78924593 GTTCTGG
1 GTTCTGG
78924600 CAGTCATGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 12 0.16
27 39 0.51
28 26 0.34
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:78926249 original size:10 final size:11
Alignment explanation
Indices: 78926225--78926275 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
78926215 AAACGAGTTC
78926225 ATTGAGCTAGA
1 ATTGAGCTAGA
78926236 ATTGAGCT-GA
1 ATTGAGCTAGA
*
78926246 ATTGAGCT-CA
1 ATTGAGCTAGA
78926256 A-TGAGCTAGA
1 ATTGAGCTAGA
*
78926266 TTTGAGCTAG
1 ATTGAGCTAG
78926276 GTCAACTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 6 0.17
10 13 0.37
11 16 0.46
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (11 bp):
ATTGAGCTAGA
Found at i:78928207 original size:15 final size:16
Alignment explanation
Indices: 78928189--78928222 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
78928179 ACACACTTTC
78928189 TTCCTTTTC-ACTCAT
1 TTCCTTTTCAACTCAT
78928204 TTCCTTTTCTAACTCAT
1 TTCCTTTTC-AACTCAT
78928221 TT
1 TT
78928223 TCAAACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.15, C:0.29, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCCTTTTCAACTCAT
Found at i:78945103 original size:56 final size:56
Alignment explanation
Indices: 78945043--78945179 Score: 238
Period size: 56 Copynumber: 2.4 Consensus size: 56
78945033 TCCCAGATAA
* * *
78945043 GGTCTTACTCGTACACATATCTCGAAGTAACATATCAATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTAACATATCAATGCCAACGTATAAAACGT
*
78945099 GGTCTTACTCGCACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTAACATATCAATGCCAACGTATAAAACGT
78945155 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
78945180 TGCTGTGGTC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 77 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTAACATATCAATGCCAACGTATAAAACGT
Found at i:78969122 original size:29 final size:29
Alignment explanation
Indices: 78969059--78969126 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
78969049 TAATCAACCG
*
78969059 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
78969088 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
78969117 CGCACACTTA
1 CGCACACTTA
78969127 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:78974016 original size:45 final size:43
Alignment explanation
Indices: 78973960--78974047 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 43
78973950 TTTCTTGGTG
* *
78973960 GGTGCAAAGGTAACCCACTCACAAAGTCTATTGTTACTCTTTC
1 GGTGCAAAGGTAACCCACTCACAAAGTCCATTATTACTCTTTC
78974003 NGGTGTCAAAGGTAACCCACTCACAAAGTCCATTATTACTCTTTC
1 -GGTG-CAAAGGTAACCCACTCACAAAGTCCATTATTACTCTTTC
78974048 CCACTTCCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 4 0.10
45 37 0.90
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (43 bp):
GGTGCAAAGGTAACCCACTCACAAAGTCCATTATTACTCTTTC
Found at i:78979329 original size:43 final size:43
Alignment explanation
Indices: 78979265--78979351 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
78979255 TAATTTGCCC
*
78979265 TTCTCTTACCCATATTGGTCCGTAAGCCCATTGGGCCCAGTTT
1 TTCTCTTACCCATATTCGTCCGTAAGCCCATTGGGCCCAGTTT
78979308 TTCTCTTACCCATATTCGTCCGTAAGCCCATTGGGCCCAGTTT
1 TTCTCTTACCCATATTCGTCCGTAAGCCCATTGGGCCCAGTTT
78979351 T
1 T
78979352 GGCCCATCGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (43 bp):
TTCTCTTACCCATATTCGTCCGTAAGCCCATTGGGCCCAGTTT
Found at i:78984211 original size:42 final size:43
Alignment explanation
Indices: 78984127--78984281 Score: 172
Period size: 42 Copynumber: 3.6 Consensus size: 43
78984117 TTCGGGCATT
* * * *
78984127 GGCCTAGCAAGCT-TTATGCTGGTGAATAATATTATCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTG-A-AATAATATCGGGCTTCG
* *
78984171 GGCCTAGCAGGCTATAATGTCGGTGAGATAAT-TCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
* *
78984213 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
* * *
78984256 AGCCTAGCAGGC-AAAATGCTGGTGAA
1 GGCCTAGCAGGCTATAATGCCGGTGAA
78984282 TGAGTTCAGA
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
42 51 0.53
43 24 0.25
44 13 0.14
45 8 0.08
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
Found at i:78984362 original size:40 final size:40
Alignment explanation
Indices: 78984172--78984361 Score: 150
Period size: 42 Copynumber: 4.6 Consensus size: 40
78984162 CGGGCTTCGG
* ***
78984172 GCCTAGCAGGCTATAATGTCGGTGAGAT-AATTCGGGCTTCGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAA-TCGGGCTTAAA
*
78984214 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGA-ATCGGGCTTAAA
* * * * *
78984257 GCCTAGCAGGCAAAATGCTGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGA-ATCGGGCTTAAA
* *** *
78984298 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATGCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAAT-CGGGCTTAAA
*
78984338 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
78984362 TTTGATAAAA
Statistics
Matches: 118, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.01
40 29 0.25
41 30 0.25
42 34 0.29
43 23 0.19
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (40 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATCGGGCTTAAA
Done.