Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 236 of 316
Found at i:77731356 original size:17 final size:18
Alignment explanation
Indices: 77731329--77731362 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77731319 AATTAAATAT
77731329 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
77731347 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
77731363 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:77731703 original size:29 final size:30
Alignment explanation
Indices: 77731646--77731703 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
77731636 CTTGTGCAAA
* * *
77731646 TATTTACAAAAAGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
77731676 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
77731704 AAAATAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:77749631 original size:28 final size:29
Alignment explanation
Indices: 77749548--77749643 Score: 140
Period size: 29 Copynumber: 3.3 Consensus size: 29
77749538 GAAAGCATGA
*
77749548 ATATGAATGTGATTTGGGCCTAATGGCCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
77749577 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
77749606 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
77749634 ATATGCATGT
1 ATATGAATGT
77749644 ATGTAAACTC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
28 23 0.38
29 37 0.62
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:77751614 original size:40 final size:40
Alignment explanation
Indices: 77751514--77751685 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
77751504 GCTCCTCGTT
* * *
77751514 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
77751554 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
77751593 CGAATGCCTTCGAGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
77751633 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
77751673 CAAATGCCTTCGG
1 CAAATGCCTTCGG
77751686 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:77751698 original size:80 final size:78
Alignment explanation
Indices: 77751514--77751738 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 78
77751504 GCTCCTCGTT
* * * * *
77751514 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
77751578 ATTTAATAACTCGCA
64 ATTTAATAACTCGCA
* * *
77751593 CGAATGCCTTCGAGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCG-GACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
77751658 AATTT-GTATCTCGCA
63 AATTTAATAACTCGCA
* * * * *
77751673 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCGG
77751738 A
63 A
77751739 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
78 2 0.02
79 36 0.30
80 70 0.58
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAAT
TTAATAACTCGCA
Found at i:77751747 original size:41 final size:41
Alignment explanation
Indices: 77751670--77751747 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
77751660 TTTGTATCTC
* * *
77751670 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
77751711 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
77751748 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:77758868 original size:40 final size:39
Alignment explanation
Indices: 77758770--77758992 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
77758760 TCCTCGTTCA
* * * *
77758770 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
77758809 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
77758848 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
77758888 AAAGGCCTTCCGGG-CTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTT-CGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
77758928 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
77758969 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
77758993 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 39 0.25
40 100 0.64
41 16 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:77759001 original size:41 final size:41
Alignment explanation
Indices: 77758924--77759001 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
77758914 TTTGTATCTC
* * *
77758924 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
77758965 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
77759002 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:77763487 original size:40 final size:39
Alignment explanation
Indices: 77763387--77763559 Score: 188
Period size: 40 Copynumber: 4.4 Consensus size: 39
77763377 GCTCCTCGTT
* * *
77763387 CAAATGCCTTCGGAACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGG-ACATAACCCGGATTTAGTAACTCGCA
*
77763427 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTC-GGACATAACCCGGATTTAGTAACTCGCA
* * *
77763466 CGAATGCCTTCGAGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCG-GACATAACCCGGATTTAGTAACTCGCA
* * * *
77763506 CAAAGGCCTTCCGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTT-CGGACATAACCCGG-ATTTAGTAACTCGCA
77763546 CAAATGCCTTCGGA
1 CAAATGCCTTCGGA
77763560 TCTTAGTCCG
Statistics
Matches: 116, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 36 0.31
40 74 0.64
41 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACATAACCCGGATTTAGTAACTCGCA
Found at i:77763571 original size:80 final size:78
Alignment explanation
Indices: 77763387--77763611 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 78
77763377 GCTCCTCGTT
* * *
77763387 CAAATGCCTTCGGAACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGG-ACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
77763452 TTTAATAACTCGCA
65 TTTAATAACTCGCA
* * * * *
77763466 CGAATGCCTTCGAGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCCGGG-CTTAACCCG
1 CAAATGCCTTCG-GACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTT-CGGGACATAACCCG
* *
77763530 GAATTT-GTATCTCGCA
63 G-ATTTAATAACTCGCA
* * * * * * * *
77763546 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACATAACCCGG
77763611 A
64 A
77763612 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
79 40 0.34
80 67 0.57
81 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGAT
TTAATAACTCGCA
Found at i:77763620 original size:41 final size:41
Alignment explanation
Indices: 77763543--77763620 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
77763533 TTTGTATCTC
* * *
77763543 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
77763584 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
77763621 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:77781662 original size:39 final size:40
Alignment explanation
Indices: 77781617--77781788 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
77781607 GCTCCTCGTT
* * *
77781617 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
77781657 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
77781696 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
77781736 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
77781776 CAAATGCCTTCGG
1 CAAATGCCTTCGG
77781789 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.30
40 79 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:77781717 original size:40 final size:39
Alignment explanation
Indices: 77781619--77781841 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
77781609 TCCTCGTTCA
* * * *
77781619 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
77781658 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
77781697 GAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
77781737 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
77781777 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
77781818 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
77781842 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 104 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:77781783 original size:80 final size:80
Alignment explanation
Indices: 77781617--77781841 Score: 249
Period size: 80 Copynumber: 2.8 Consensus size: 80
77781607 GCTCCTCGTT
* * * * * *
77781617 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACCTCGCACAAAGCCTTCGGGACTTAACCCGGA
77781681 ATTTAATAACTCGCA
66 ATTTAATAACTCGCA
* * *
77781696 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACCTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
77781761 AATTT-GTATCTCGCA
65 AATTTAATAACTCGCA
* * * * * *
77781776 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ACCTCGCACAAAGCCTTCGGGACTTAACCCG
77781840 GA
64 GA
77781842 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 40 0.33
80 68 0.56
81 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACCTCGCACAAAGCCTTCGGGACTTAACCCGGA
ATTTAATAACTCGCA
Found at i:77781850 original size:41 final size:41
Alignment explanation
Indices: 77781773--77781850 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
77781763 TTTGTATCTC
* * *
77781773 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
77781814 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
77781851 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:77785810 original size:28 final size:29
Alignment explanation
Indices: 77785729--77785813 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
77785719 GCATGAATAT
*
77785729 GAATATGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
77785758 AAATGTGATTTGGGCCTGATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
**
77785787 GAATGTGA-TTGGGCCTAAAAGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
77785814 TGCATGTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 16 0.33
29 33 0.67
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:77786683 original size:18 final size:18
Alignment explanation
Indices: 77786660--77786696 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
77786650 TTGGACTTGT
77786660 TTTGGATTGTTATTATTA
1 TTTGGATTGTTATTATTA
*
77786678 TTTGGATTGTTATTTTTA
1 TTTGGATTGTTATTATTA
77786696 T
1 T
77786697 GCGTTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (18 bp):
TTTGGATTGTTATTATTA
Found at i:77790817 original size:63 final size:63
Alignment explanation
Indices: 77790737--77790915 Score: 161
Period size: 67 Copynumber: 2.8 Consensus size: 63
77790727 ATATAGTTCG
* * *
77790737 GCTCTCTTGTAC-ACATGGTGA-ACACTCAGTACCACCCATGTGACCTAGC-CAATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGACACA-TCAGTACCACCCATGCGACCTAGCGC-ATATATCCCGT
77790799 A
63 A
* * * * *
77790800 GCTCTCTTGTCTACATGGTGTC-CTTCACCTGGAACCACGCATGCGAACTAGCTGCATATATCCC
1 GCTCTCTTGTCTACATGGTGACACATCA----GTACCACCCATGCGACCTAGC-GCATATATCCC
77790864 GTA
61 GTA
*
77790867 GCTCTCTTGTCTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGC
1 GCTCTCTTGTCTACATGGTG-ACACATCAGTACCACCCATGCGACCTAGC
77790916 TACATCATAA
Statistics
Matches: 92, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
62 4 0.04
63 19 0.21
64 17 0.18
66 17 0.18
67 30 0.33
68 3 0.03
69 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGACACATCAGTACCACCCATGCGACCTAGCGCATATATCCCGTA
Found at i:77791344 original size:18 final size:19
Alignment explanation
Indices: 77791321--77791356 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77791311 TAAACTTGGC
*
77791321 AACATAA-TCATTTAATTT
1 AACATAATTCAATTAATTT
77791339 AACATAATTCAATTAATT
1 AACATAATTCAATTAATT
77791357 CACTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
AACATAATTCAATTAATTT
Found at i:77796975 original size:17 final size:17
Alignment explanation
Indices: 77796953--77796986 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
77796943 TGAGTATTGA
77796953 CGACGCCCATGCTCTCT
1 CGACGCCCATGCTCTCT
*
77796970 CGACGCCCGTGCTCTCT
1 CGACGCCCATGCTCTCT
77796987 TGTGTAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.47, G:0.21, T:0.24
Consensus pattern (17 bp):
CGACGCCCATGCTCTCT
Found at i:77798326 original size:46 final size:46
Alignment explanation
Indices: 77798276--77798451 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
77798266 TGGTTGAGCA
77798276 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
77798322 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
77798367 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
77798415 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77798452 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:77798432 original size:93 final size:93
Alignment explanation
Indices: 77798273--77798444 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
77798263 GGATGGTTGA
* *
77798273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
77798338 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
77798366 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
77798431 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
77798445 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77804331 original size:15 final size:17
Alignment explanation
Indices: 77804311--77804343 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
77804301 CAAACCCTAG
77804311 CTTTCTT-TTTAT-TTT
1 CTTTCTTGTTTATGTTT
77804326 CTTTCTTGTTTATGTTT
1 CTTTCTTGTTTATGTTT
77804343 C
1 C
77804344 GAAAATAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (17 bp):
CTTTCTTGTTTATGTTT
Found at i:77804963 original size:74 final size:74
Alignment explanation
Indices: 77804826--77804963 Score: 197
Period size: 74 Copynumber: 1.9 Consensus size: 74
77804816 TTTAATCGAT
* * *
77804826 TTAATATTAAATTAAATTTAATACTTATATTAATATTATTTTATTAATTTAATATTAAAGTGATC
1 TTAATATTAAATTAAATATAATACTTATATTAATAGTATTATATTAATTTAATATTAAAGTGATC
77804891 ATCTTAATA
66 ATCTTAATA
* * * *
77804900 TTAA-ATTAAATTTAATATAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTAAATATAATACTTATATTAAT-AGTATTATATTAATTTAATATTAAAGTGAT
77804964 TAAGCTTAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 24 0.43
74 32 0.57
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (74 bp):
TTAATATTAAATTAAATATAATACTTATATTAATAGTATTATATTAATTTAATATTAAAGTGATC
ATCTTAATA
Found at i:77806404 original size:21 final size:21
Alignment explanation
Indices: 77806380--77806421 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
77806370 AAACAAGAAG
77806380 AGAAAACTAAGAG-AAAAACTA
1 AGAAAACTAA-AGCAAAAACTA
77806401 AGAAAACTAAAGCAAAAACTA
1 AGAAAACTAAAGCAAAAACTA
77806422 TCCTAAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.67, C:0.12, G:0.12, T:0.10
Consensus pattern (21 bp):
AGAAAACTAAAGCAAAAACTA
Found at i:77809599 original size:27 final size:27
Alignment explanation
Indices: 77809557--77809808 Score: 335
Period size: 27 Copynumber: 9.3 Consensus size: 27
77809547 ATAGGGCGAA
* *
77809557 TCATCTTACCATATAAGGGCAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAG
* * *
77809584 TCATTTTACCACATAATGGCAAAACAA
1 TCATTTTACCACATAAGGGCAAAATAG
* *
77809611 CCATTTTACCACATAAGGGCAAAATAT
1 TCATTTTACCACATAAGGGCAAAATAG
*
77809638 TCATTTTACCGCATAAGGGCAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAG
*
77809665 TCATTTTACCGCATAAGGGCAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAG
* *
77809692 TCATGTTACCACTATAAGGGTAAAATAG
1 TCATTTTACCAC-ATAAGGGCAAAATAG
* * *
77809720 TTATTTTACCACCTAAGGGCAAAACAAG
1 TCATTTTACCACATAAGGGCAAAA-TAG
*
77809748 -CATTTTACCACATAAGGGCAAAACAG
1 TCATTTTACCACATAAGGGCAAAATAG
*
77809774 TCATTTTACCACATAAGGGTAAAATAG
1 TCATTTTACCACATAAGGGCAAAATAG
77809801 TCATTTTA
1 TCATTTTA
77809809 TCAATTAGGG
Statistics
Matches: 197, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 169 0.86
28 26 0.13
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
TCATTTTACCACATAAGGGCAAAATAG
Found at i:77815589 original size:16 final size:16
Alignment explanation
Indices: 77815570--77815600 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77815560 CTTCTTCACT
77815570 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
77815586 TACTTACTTACTTAA
1 TACTCACTTACTTAA
77815601 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:77815606 original size:20 final size:20
Alignment explanation
Indices: 77815567--77815606 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
77815557 AAACTTCTTC
* *
77815567 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
77815587 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
77815607 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:77815921 original size:53 final size:53
Alignment explanation
Indices: 77815792--77816042 Score: 255
Period size: 55 Copynumber: 4.7 Consensus size: 53
77815782 ACACAGGTAC
* * * * *
77815792 CTTACCATTGCCAAGACTTGTCATGGTCTTACGTGGTATCCTT---TTA-AAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
77815841 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * *
77815894 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCC-T-TAGAAA
* * * *
77815949 CTTATCAATGGCATGCCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
77816002 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTAT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTAT
77816043 TCTTAAACCC
Statistics
Matches: 168, Mismatches: 20, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
49 39 0.23
52 5 0.03
53 44 0.26
54 11 0.07
55 67 0.40
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:77817513 original size:16 final size:15
Alignment explanation
Indices: 77817488--77817517 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
77817478 TGGTGCCTTG
77817488 TTGAAATGTGTTAAT
1 TTGAAATGTGTTAAT
77817503 TTGATAATGTGTTAA
1 TTGA-AATGTGTTAA
77817518 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
TTGAAATGTGTTAAT
Found at i:77818939 original size:22 final size:23
Alignment explanation
Indices: 77818913--77818983 Score: 76
Period size: 22 Copynumber: 3.2 Consensus size: 23
77818903 AGCCTACCGT
77818913 TTCAGCTCGTATA-AGCTTACTG
1 TTCAGCTCGTATAGAGCTTACTG
* *
77818935 TTCAGCTTG-ATAGAGCTTACCG
1 TTCAGCTCGTATAGAGCTTACTG
* *
77818957 TTTTAGCTCAT-TAGAGCTTACTG
1 -TTCAGCTCGTATAGAGCTTACTG
77818980 TTCA
1 TTCA
77818984 TCAGCTCAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
21 3 0.08
22 19 0.49
23 17 0.44
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
TTCAGCTCGTATAGAGCTTACTG
Found at i:77818971 original size:23 final size:23
Alignment explanation
Indices: 77818852--77818991 Score: 79
Period size: 23 Copynumber: 5.9 Consensus size: 23
77818842 CAGCTCGCAT
* *
77818852 GAGCTTACCGATATATCAGCTCGTAA
1 GAGCTTACCG-T-T-TCAGCTCATTA
** * *
77818878 GAGCTTACTATTTTTAGCTCATTG
1 GAGCTTAC-CGTTTCAGCTCATTA
* *
77818902 GAGCCTACCGTTTCAGCTCGTATA
1 GAGCTTACCGTTTCAGCTCAT-TA
* *
77818926 -AGCTTACTG-TTCAGCTTGA-TA
1 GAGCTTACCGTTTCAGC-TCATTA
*
77818947 GAGCTTACCGTTTTAGCTCATTA
1 GAGCTTACCGTTTCAGCTCATTA
*
77818970 GAGCTTACTGTTCATCAGCTCA
1 GAGCTTACCGTT--TCAGCTCA
77818992 GGAGGAGCTT
Statistics
Matches: 85, Mismatches: 21, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
21 2 0.02
22 16 0.19
23 35 0.41
24 15 0.18
25 8 0.09
26 9 0.11
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCATTA
Found at i:77822902 original size:43 final size:43
Alignment explanation
Indices: 77822855--77822957 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
77822845 TTTGCCTGCC
* * * *
77822855 AGGCTTGAAGCCCGATATCATTTCATCGGCATTATAGCCTACT
1 AGGCTCGAAGCCCGATATCATCTCACCGACATTATAGCCTACT
* * * *
77822898 AGGCTCGAAACTCGATATTATCTCACCGACATTATAGCCTGCT
1 AGGCTCGAAGCCCGATATCATCTCACCGACATTATAGCCTACT
*
77822941 AGGATCGAAGCCCGATA
1 AGGCTCGAAGCCCGATA
77822958 ATATTATTCA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
AGGCTCGAAGCCCGATATCATCTCACCGACATTATAGCCTACT
Found at i:77829859 original size:43 final size:43
Alignment explanation
Indices: 77829782--77829908 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 43
77829772 AAGTCTGAAC
* * ***
77829782 TCAT-TCACCGGCATT-TCGCCTGCCAGGTTTGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
* *
77829823 TCATTTCATCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
*
77829866 TTATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
77829909 ATATTATTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
41 4 0.05
42 10 0.13
43 61 0.81
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:77831736 original size:16 final size:16
Alignment explanation
Indices: 77831717--77831747 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77831707 CTTCTTCACT
77831717 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
77831733 TACTTACTTACTTAA
1 TACTCACTTACTTAA
77831748 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:77831753 original size:20 final size:20
Alignment explanation
Indices: 77831714--77831753 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
77831704 AAACTTCTTC
* *
77831714 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
77831734 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
77831754 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:77832067 original size:53 final size:54
Alignment explanation
Indices: 77831939--77832193 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 54
77831929 ATGCGGGTAC
* * ** *
77831939 CTTACCATTGCCATGACTTTTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
77831988 CTTACCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * *
77832041 CTCACCAATGCCATACCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
77832096 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
77832149 CCTTACGAATTGCCATGCCTTGGCATGGTCTTACACGGTGTCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
77832194 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 2 0.01
53 47 0.28
54 9 0.05
55 70 0.42
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:77832138 original size:108 final size:110
Alignment explanation
Indices: 77831986--77832183 Score: 294
Period size: 108 Copynumber: 1.8 Consensus size: 110
77831976 ATCCTTTTGA
* * *
77831986 AACTTACCATTGCCATGTCTTGACATGGTCTTATATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
77832049 -TGCCATACCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATACCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
77832094 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACGAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
77832159 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATACCTTGGCATGGTCTTACA
77832184 CGGTGTCCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.61
109 6 0.08
110 24 0.30
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:77833648 original size:12 final size:12
Alignment explanation
Indices: 77833631--77833656 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77833621 CTTTCTCTGA
77833631 GAAATCACATGT
1 GAAATCACATGT
77833643 GAAATCACATGT
1 GAAATCACATGT
77833655 GA
1 GA
77833657 CGGATCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (12 bp):
GAAATCACATGT
Found at i:77839330 original size:16 final size:16
Alignment explanation
Indices: 77839311--77839341 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77839301 CTTCTTCACT
77839311 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
77839327 TACTTACTTACTTAA
1 TACTCACTTACTTAA
77839342 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:77839347 original size:20 final size:20
Alignment explanation
Indices: 77839308--77839347 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
77839298 AAACTTCTTC
* *
77839308 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
77839328 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
77839348 TTATTAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:77839662 original size:53 final size:54
Alignment explanation
Indices: 77839533--77839787 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
77839523 ACGTGGGTAC
* * ** *
77839533 CTTACCATTGCCATGACTTTTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
77839582 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
77839635 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
77839690 CTTATCAATGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
77839743 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
77839788 AAACCTTAAT
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 10 0.06
55 68 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:77839724 original size:108 final size:110
Alignment explanation
Indices: 77839580--77839777 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
77839570 ATCCTTTTGA
* * *
77839580 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
77839643 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
77839688 AACTTATCAATGCCATGTCTTGACATGATCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
77839753 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
77839778 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 7 0.09
110 24 0.30
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:77849827 original size:27 final size:27
Alignment explanation
Indices: 77849789--77849850 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
77849779 GTGAAAAATT
77849789 AGTAGAAGTGGGCTACTTAGAAGATGC
1 AGTAGAAGTGGGCTACTTAGAAGATGC
* *
77849816 AGTAGAAGTGGGCTACTTAGATGATGT
1 AGTAGAAGTGGGCTACTTAGAAGATGC
*
77849843 AGAAGAAG
1 AGTAGAAG
77849851 GTTTTGTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.08, G:0.34, T:0.23
Consensus pattern (27 bp):
AGTAGAAGTGGGCTACTTAGAAGATGC
Found at i:77870187 original size:16 final size:17
Alignment explanation
Indices: 77870166--77870198 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
77870156 CACATTGAAG
77870166 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
77870182 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
77870199 CTTCTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:77884208 original size:28 final size:29
Alignment explanation
Indices: 77884125--77884243 Score: 170
Period size: 28 Copynumber: 4.2 Consensus size: 29
77884115 GAAAGCATGA
*
77884125 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
77884154 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
77884183 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
77884211 ATATGAATGAGA-TTGGGCCTAATAGACC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
77884239 ATATG
1 ATATG
77884244 TATGTATGGA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 45 0.54
29 38 0.46
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:77884219 original size:57 final size:57
Alignment explanation
Indices: 77884125--77884243 Score: 168
Period size: 57 Copynumber: 2.1 Consensus size: 57
77884115 GAAAGCATGA
* * * *
77884125 ATATGAATGTGATTTGGGCCTAATGGGCCATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCCATACGAATGAGA-TTGGGCCTAATAGACC
* *
77884183 ATATGAATGAGA-TTGGGCCTAGTGGGCCATATGAATGAGATTGGGCCTAATAGACC
1 ATATGAATGAGATTTGGGCCTAATGGGCCATACGAATGAGATTGGGCCTAATAGACC
77884239 ATATG
1 ATATG
77884244 TATGTATGGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 19 0.35
57 25 0.45
58 11 0.20
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (57 bp):
ATATGAATGAGATTTGGGCCTAATGGGCCATACGAATGAGATTGGGCCTAATAGACC
Found at i:77891421 original size:40 final size:40
Alignment explanation
Indices: 77891352--77891576 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
77891342 AAACCAAGTA
* * * *
77891352 CCTTCGGGAATTAG-CCGGATATTGCAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
77891391 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
77891431 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
77891471 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
*
77891514 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
77891554 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
77891577 CATCCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 12 0.08
40 111 0.70
42 1 0.01
43 35 0.22
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:77891532 original size:83 final size:80
Alignment explanation
Indices: 77891352--77891576 Score: 283
Period size: 83 Copynumber: 2.8 Consensus size: 80
77891342 AAACCAAGTA
* * * * *
77891352 CCTTCGGGAATTAG-CCGGATATTGCAACTCA-CACAAATGCCTTCGGGACTTAACCCGGATATA
1 CCTTCGGGACTTAGCCCGGAAATAGTAACT-AGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
77891415 GTAACTCGCACACATG
65 GAAACTCGCACAAATG
* * * *
77891431 CCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAATACCTTCGGGACTTAGCCCGGGTATAG
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
77891496 CAACTACTCGCACAAATG
66 -AA--ACTCGCACAAATG
* *
77891514 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
77891577 CATCCGAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 13 0.10
80 41 0.33
81 1 0.01
83 69 0.56
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAAATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
AAACTCGCACAAATG
Found at i:77891567 original size:123 final size:119
Alignment explanation
Indices: 77891350--77891573 Score: 340
Period size: 123 Copynumber: 1.8 Consensus size: 119
77891340 TCAAACCAAG
*
77891350 TACCTTCGGGAATTAGCCGGATATTGCAACTCACACAAATGCCTTCGGGACTTAACCCGGATATA
1 TACCTTCGGGAATTAGCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAACCCGGATATA
* *
77891415 GTAACTCGCACACATGCCTTCGGGTCTTAGCCCGGAAATAGTCACTAGCACAAA
66 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTCACTAGCACAAA
* * * *
77891469 TACCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 TACCTTCGGGAATTAG-CCGGATATAGC-A--ACTCACACAAATGCCTTCGGGACTTAACCCGGA
*
77891534 TATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGA
62 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
77891574 TATCATCCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
119 15 0.16
120 9 0.10
121 1 0.01
123 68 0.73
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (119 bp):
TACCTTCGGGAATTAGCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAACCCGGATATA
GTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTCACTAGCACAAA
Found at i:77899734 original size:28 final size:27
Alignment explanation
Indices: 77899669--77899747 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 27
77899659 ATTATGGTAT
**
77899669 CGTGGCAAAGCCACCAGTGTCAGAATA
1 CGTGGCAAAGCCACCAGTAACAGAATA
* *
77899696 TGTGGCTAAGCCACCAG-AACAGGAAATA
1 CGTGGCAAAGCCACCAGTAACA-G-AATA
*
77899724 CGTGGCAAAGCCACTAGT-ACAGAA
1 CGTGGCAAAGCCACCAGTAACAGAA
77899748 CTTCCTCCAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
26 4 0.10
27 17 0.40
28 21 0.50
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.14
Consensus pattern (27 bp):
CGTGGCAAAGCCACCAGTAACAGAATA
Found at i:77903542 original size:16 final size:17
Alignment explanation
Indices: 77903509--77903543 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
77903499 TAATACACAT
77903509 ATGTTTACATTAGCATC
1 ATGTTTACATTAGCATC
*
77903526 ATGTTTA-ATTTGCATC
1 ATGTTTACATTAGCATC
77903542 AT
1 AT
77903544 ATATCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (17 bp):
ATGTTTACATTAGCATC
Found at i:77903766 original size:43 final size:42
Alignment explanation
Indices: 77903700--77903868 Score: 191
Period size: 43 Copynumber: 4.0 Consensus size: 42
77903690 TTATCATACA
*
77903700 ATGCCAGC-GTCCCAGACGTGGTCTTACACGCAATCACATATCG
1 ATGCCA-CTGTCCCAGACATGGTCTTACACG-AATCACATATCG
* * * *
77903743 ATGCCACTATCCTAGACAGGGTCTTACACGAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAATCACATATCG
* * *
77903784 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATATTG
1 ATGCCACTGTCCCAGACATGGTCTTACAC-GAATCACATATCG
*
77903827 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAAACACATATC
1 ATGCC-ACTGTCCCAGACATGGTCTTACACG-AATCACATATC
77903869 AGAAATCCTA
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 27 0.26
42 17 0.16
43 60 0.57
44 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:77910034 original size:28 final size:27
Alignment explanation
Indices: 77910003--77910077 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
77909993 TAAAATGGTT
*
77910003 AAATTCACTAAAATACCCCTAAGTATGA
1 AAATT-ACCAAAATACCCCTAAGTATGA
**
77910031 AAATTACCATCATACCCCTAAGTATGA
1 AAATTACCAAAATACCCCTAAGTATGA
**
77910058 AAATTACCATTATACCCCTA
1 AAATTACCAAAATACCCCTA
77910078 GGGTTAATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 38 0.88
28 5 0.12
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAAGTATGA
Found at i:77910048 original size:27 final size:27
Alignment explanation
Indices: 77910015--77910077 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
77910005 ATTCACTAAA
77910015 ATACCCCTAAGTATGAAAATTACCATC
1 ATACCCCTAAGTATGAAAATTACCATC
*
77910042 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAGTATGAAAATTACCATC
77910069 ATACCCCTA
1 ATACCCCTA
77910078 GGGTTAATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGTATGAAAATTACCATC
Found at i:77910249 original size:27 final size:26
Alignment explanation
Indices: 77910179--77910294 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
77910169 TGAAGGAAGC
*
77910179 GTTCTGGTGGCTCTGCCTCAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
* * *
77910206 ATTTTTGGTGGCTCTGCCACAAATATTT
1 -GTTCTGGTGGCTCTGCCAC-AATATCT
* *
77910234 GTTCTGGTGGCACTGCTACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
77910260 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
77910287 GTTCTGGT
1 GTTCTGGT
77910295 AGCCATGCTG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
26 14 0.19
27 37 0.50
28 23 0.31
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:77910269 original size:54 final size:54
Alignment explanation
Indices: 77910179--77910294 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 54
77910169 TGAAGGAAGC
* * * * *
77910179 GTTCTGGTGGCTCTGCCTCAAATATCTATTTTTGGTGGCTCTGCCACAAATATTT
1 GTTCTGGTGGCACTGCCTCAAATATCTATATCTGGTGACTCTGCCAC-AATATCT
* *
77910234 GTTCTGGTGGCACTG-CT-ACAATATCTGTATCTGGTGACTCTGTCACAATATCT
1 GTTCTGGTGGCACTGCCTCA-AATATCTATATCTGGTGACTCTGCCACAATATCT
77910287 GTTCTGGT
1 GTTCTGGT
77910295 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 15 0.28
54 24 0.45
55 14 0.26
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (54 bp):
GTTCTGGTGGCACTGCCTCAAATATCTATATCTGGTGACTCTGCCACAATATCT
Found at i:77917871 original size:28 final size:27
Alignment explanation
Indices: 77917840--77917903 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
77917830 TGAAATGGTT
* *
77917840 AAATTCACTAAAATACCCCTAAGTATGA
1 AAATT-ACCAAAACACCCCTAAGTATGA
*
77917868 AAATTACCATAACACCCCTAAGTATGA
1 AAATTACCAAAACACCCCTAAGTATGA
*
77917895 AAGTTACCA
1 AAATTACCA
77917904 TTATACCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.23
Consensus pattern (27 bp):
AAATTACCAAAACACCCCTAAGTATGA
Found at i:77917885 original size:27 final size:27
Alignment explanation
Indices: 77917854--77917914 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
77917844 TCACTAAAAT
77917854 ACCCCTAAGTATGAAAATTACCATAAC
1 ACCCCTAAGTATGAAAATTACCATAAC
* * *
77917881 ACCCCTAAGTATGAAAGTTACCATTAT
1 ACCCCTAAGTATGAAAATTACCATAAC
77917908 ACCCCTA
1 ACCCCTA
77917915 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (27 bp):
ACCCCTAAGTATGAAAATTACCATAAC
Found at i:77918054 original size:28 final size:28
Alignment explanation
Indices: 77918017--77918111 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
77918007 GGAGGAAGTG
77918017 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
77918045 TTCTGGTGGCTCTGCCACAAATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
77918072 TTCTGGTGGCACTGCTAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
77918099 ATCTGGTGACTCT
1 TTCTGGTGGCTCT
77918112 ATCACAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
26 8 0.13
27 26 0.43
28 27 0.44
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:77918086 original size:27 final size:27
Alignment explanation
Indices: 77918015--77918130 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
77918005 ATGGAGGAAG
77918015 TGTTCTGGTGGCTCTGCCACAAATATC
1 TGTTCTGGTGGCTCTGCCACAAATATC
77918042 TGTTTCTGGTGGCTCTGCCACAAATATC
1 TG-TTCTGGTGGCTCTGCCACAAATATC
* *
77918070 TGTTCTGGTGGCACTGCTAC-AATATC
1 TGTTCTGGTGGCTCTGCCACAAATATC
* **
77918096 TGTATCTGGTGACTCTATCAC-AATATC
1 TGT-TCTGGTGGCTCTGCCACAAATATC
*
77918123 TATTCTGG
1 TGTTCTGG
77918131 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.18
27 38 0.48
28 27 0.34
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TGTTCTGGTGGCTCTGCCACAAATATC
Found at i:77928352 original size:41 final size:42
Alignment explanation
Indices: 77928257--77928427 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 42
77928247 ATATTATACA
* * * * * *
77928257 ATGCCAACGTCCCAGGCGTGGTCTTTCATGCAATCACATATCA
1 ATGCCAATGTCCTAGACATGGTCTTACATG-AATCACATATCG
* * *
77928300 ATGCCACTGTCCTAGACAGGGTCTTACATGAATCAAATA-CG
1 ATGCCAATGTCCTAGACATGGTCTTACATGAATCACATATCG
77928341 ATGCCAATGTCCTAGACATGGTCTTACACAT-AATCACATATCG
1 ATGCCAATGTCCTAGACATGGTCTT--ACATGAATCACATATCG
* *
77928384 ATGCCAACGTTCC-AGACATGGTCTTACATGAAAACACATATCG
1 ATGCCAATG-TCCTAGACATGGTCTTACATG-AATCACATATCG
77928427 A
1 A
77928428 AAATCCTATG
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
41 28 0.26
42 16 0.15
43 61 0.56
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACATGAATCACATATCG
Found at i:77929603 original size:13 final size:13
Alignment explanation
Indices: 77929585--77929609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77929575 AGAAAATAAT
77929585 TTTAAAATATTTA
1 TTTAAAATATTTA
77929598 TTTAAAATATTT
1 TTTAAAATATTT
77929610 TTCTATCTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAAAATATTTA
Found at i:77930159 original size:34 final size:31
Alignment explanation
Indices: 77930121--77930193 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 31
77930111 TTCCATGCTA
*
77930121 AATTCAATTCAGCAATGTAGTTATACATACATAC
1 AATTCAATTCAGCAATGTA--TATA-ATAAATAC
*
77930155 AATTCAATTCAGCTATGTATATAATAAATAC
1 AATTCAATTCAGCAATGTATATAATAAATAC
77930186 -ATTCAATT
1 AATTCAATT
77930194 TAACATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 8 0.22
31 7 0.19
32 4 0.11
34 18 0.49
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (31 bp):
AATTCAATTCAGCAATGTATATAATAAATAC
Found at i:77943342 original size:43 final size:42
Alignment explanation
Indices: 77943275--77943398 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
77943265 AAGGCTTGTA
* *
77943275 CAATGCTAAAGTCCCAGACATGGTCTTACATGTAATCAACTAT
1 CAATGC-AAAGTCCCAGACATGGTCTTACACGTAATCAACCAT
* *
77943318 CAATGCAAACGTCCCAAACGTGGTCTTACACGTAATCAACCAT
1 CAATGCAAA-GTCCCAGACATGGTCTTACACGTAATCAACCAT
* * * *
77943361 CAGTGCCAATGTCCTAGACATGGTCTTACACGAAATCA
1 CAATG-CAAAGTCCCAGACATGGTCTTACACGTAATCA
77943399 CATATCGGAG
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.04
43 63 0.91
44 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
CAATGCAAAGTCCCAGACATGGTCTTACACGTAATCAACCAT
Found at i:77943512 original size:21 final size:22
Alignment explanation
Indices: 77943471--77943514 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
77943461 CTTTCGGACG
*
77943471 TCGTAATTCAATCGATTCATGC
1 TCGTAATTAAATCGATTCATGC
77943493 TCGTAA-TAAATC-ATTCCATGC
1 TCGTAATTAAATCGATT-CATGC
77943514 T
1 T
77943515 AAATTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 11 0.55
22 6 0.30
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (22 bp):
TCGTAATTAAATCGATTCATGC
Found at i:77948547 original size:46 final size:46
Alignment explanation
Indices: 77948495--77948666 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
77948485 TGGGCATCCA
* * *
77948495 AACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * * * *
77948541 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCCG
* * *
77948588 AGCTTATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * *
77948634 AGCTCATTGAGTTGAGTCCAAGTTCGCTTATGG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGG
77948667 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 57 0.56
47 26 0.25
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
Found at i:77950956 original size:9 final size:9
Alignment explanation
Indices: 77950894--77950969 Score: 55
Period size: 9 Copynumber: 8.3 Consensus size: 9
77950884 ATCATTATTT
77950894 ATATAAAATA
1 ATATAAAA-A
*
77950904 ATTTAAAAA
1 ATATAAAAA
* *
77950913 ATA-AATAT
1 ATATAAAAA
77950921 ATATAATAAA
1 ATATAA-AAA
* *
77950931 AAATTAAAA
1 ATATAAAAA
* *
77950940 CTAGAAAAA
1 ATATAAAAA
77950949 ATATAAAAA
1 ATATAAAAA
*
77950958 ATTTAAAAA
1 ATATAAAAA
77950967 ATA
1 ATA
77950970 AATTTACAGA
Statistics
Matches: 48, Mismatches: 16, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
8 6 0.12
9 30 0.62
10 12 0.25
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (9 bp):
ATATAAAAA
Found at i:77957779 original size:19 final size:18
Alignment explanation
Indices: 77957755--77957790 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
77957745 TCACATTTCA
77957755 TAATTTCATATTTCATTTT
1 TAATTTCATA-TTCATTTT
*
77957774 TAATTTCGTATTCATTT
1 TAATTTCATATTCATTT
77957791 CACATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (18 bp):
TAATTTCATATTCATTTT
Found at i:77962642 original size:41 final size:41
Alignment explanation
Indices: 77962510--77962644 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
77962500 AGTACAACTT
* * * *
77962510 ACCTAATACAATACATTGGCACGAAGACTGCTAGGCTCAAA
1 ACCTAATATAATACATCGGCACGAAGCCTGCTAGGCACAAA
* * * * * *
77962551 GCATGATAT-A-ACATACTGGCACAAAGCCTACTAGGCATAAA
1 ACCTAATATAATACAT-C-GGCACGAAGCCTGCTAGGCACAAA
* *
77962592 GCCTGATATAATACATCGGCACGAAGCCTGCTAGGCACAAA
1 ACCTAATATAATACATCGGCACGAAGCCTGCTAGGCACAAA
77962633 ACCTAATATAAT
1 ACCTAATATAAT
77962645 TGATACATGA
Statistics
Matches: 74, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
39 4 0.05
40 1 0.01
41 63 0.85
42 2 0.03
43 4 0.05
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
ACCTAATATAATACATCGGCACGAAGCCTGCTAGGCACAAA
Found at i:77966545 original size:12 final size:12
Alignment explanation
Indices: 77966530--77966568 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 12
77966520 TTCAAAATAT
77966530 AAATAAAGATAA
1 AAATAAAGATAA
77966542 AAATAAA-AT-A
1 AAATAAAGATAA
77966552 AAA-AAAG-TAA
1 AAATAAAGATAA
77966562 AAATAAA
1 AAATAAA
77966569 TAATAGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 4 0.17
10 8 0.33
11 5 0.21
12 7 0.29
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (12 bp):
AAATAAAGATAA
Found at i:77973786 original size:36 final size:36
Alignment explanation
Indices: 77973737--77973807 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
77973727 GTATTGATAT
*
77973737 GGTTGCACGGGTCGCACAAGACGACTATGGACCTAA
1 GGTTGCACAGGTCGCACAAGACGACTATGGACCTAA
*
77973773 GGTTGCACAGGTCGCACAAGACGACTGTGGACCTA
1 GGTTGCACAGGTCGCACAAGACGACTATGGACCTA
77973808 CTGATGGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.17
Consensus pattern (36 bp):
GGTTGCACAGGTCGCACAAGACGACTATGGACCTAA
Found at i:77973854 original size:20 final size:20
Alignment explanation
Indices: 77973809--77973939 Score: 145
Period size: 20 Copynumber: 6.5 Consensus size: 20
77973799 GTGGACCTAC
* * *
77973809 TGATGGCTTTCTACCACTAC
1 TGATGGCTTTGTGCCACTAT
* **
77973829 TAATGGCTTTGTGCTGCTAT
1 TGATGGCTTTGTGCCACTAT
* *
77973849 TGATGGCTTTGTGCCGCTAC
1 TGATGGCTTTGTGCCACTAT
*
77973869 AGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
* * *
77973889 TGATGGCTTGGTGCTATTAT
1 TGATGGCTTTGTGCCACTAT
*
77973909 TGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGCCACTAT
77973929 TGATGGCTTTG
1 TGATGGCTTTG
77973940 GACCTAGGCT
Statistics
Matches: 91, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 91 1.00
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.39
Consensus pattern (20 bp):
TGATGGCTTTGTGCCACTAT
Found at i:77973903 original size:60 final size:60
Alignment explanation
Indices: 77973805--77973939 Score: 189
Period size: 60 Copynumber: 2.2 Consensus size: 60
77973795 GACTGTGGAC
* * * *
77973805 CTACTGATGGCTTTCTACCACTACTAATGGCTTTGTGCTGCTATTGATGGCTTTGTGCCG
1 CTACTGATGGCTTTGTACCACTACTAATGGCTTGGTGCTACTATTGATGGCTTTGTGCCA
* * * * *
77973865 CTACAGATGGCTTTGTGCCACTATTGATGGCTTGGTGCTATTATTGATGGCTTTGTGCCA
1 CTACTGATGGCTTTGTACCACTACTAATGGCTTGGTGCTACTATTGATGGCTTTGTGCCA
77973925 CTACTGATGGCTTTG
1 CTACTGATGGCTTTG
77973940 GACCTAGGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (60 bp):
CTACTGATGGCTTTGTACCACTACTAATGGCTTGGTGCTACTATTGATGGCTTTGTGCCA
Found at i:77977841 original size:20 final size:20
Alignment explanation
Indices: 77977812--77977982 Score: 191
Period size: 20 Copynumber: 8.6 Consensus size: 20
77977802 GTAGACGTAC
*
77977812 TGATGGCTTTGTGTCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* *
77977832 TGATGCCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
* *
77977852 TGATGGCTTTGTGTCGCTAC
1 TGATGGCTTTGTGCCGCTAT
* *
77977872 AGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTAT
*
77977892 TGATGGCATTGTG-CGACTAT
1 TGATGGCTTTGTGCCG-CTAT
*
77977912 TGATGGTTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* **
77977932 TGATGGCTTGGTGCCATTAT
1 TGATGGCTTTGTGCCGCTAT
* *
77977952 TGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGCCGCTAT
*
77977972 TAATGGCTTTG
1 TGATGGCTTTG
77977983 GATCTAGGCA
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
19 1 0.01
20 122 0.98
21 2 0.02
ACGTcount: A:0.15, C:0.18, G:0.27, T:0.40
Consensus pattern (20 bp):
TGATGGCTTTGTGCCGCTAT
Found at i:77977856 original size:40 final size:40
Alignment explanation
Indices: 77977812--77977982 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
77977802 GTAGACGTAC
*
77977812 TGATGGCTTTGTGTCGCTATTGATGCCTTTGTGCCACTAT
1 TGATGGCTTTGTGTCGCTATTGATGGCTTTGTGCCACTAT
**
77977852 TGATGGCTTTGTGTCGCTACAGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGTCGCTATTGATGGCTTTGTGCCACTAT
* * *
77977892 TGATGGCATTGTG-CGACTATTGATGGTTTTGTGCCGCTAT
1 TGATGGCTTTGTGTCG-CTATTGATGGCTTTGTGCCACTAT
* * ** *
77977932 TGATGGCTTGGTGCCATTATTGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGTCGCTATTGATGGCTTTGTGCCACTAT
*
77977972 TAATGGCTTTG
1 TGATGGCTTTG
77977983 GATCTAGGCA
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 2 0.02
40 109 0.97
41 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.27, T:0.40
Consensus pattern (40 bp):
TGATGGCTTTGTGTCGCTATTGATGGCTTTGTGCCACTAT
Found at i:77977892 original size:60 final size:60
Alignment explanation
Indices: 77977813--77977982 Score: 223
Period size: 60 Copynumber: 2.8 Consensus size: 60
77977803 TAGACGTACT
* * * *
77977813 GATGGCTTTGTGTCGCTATTGATGCCTTTGTGCCACTATTGATGGCTTTGTGTCGCTACA
1 GATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCGCTACA
* * * **
77977873 GATGGCTTTGTGCCACTATTGATGGCATTGTGCGACTATTGATGGTTTTGTGCCGCTATT
1 GATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCGCTACA
* * * *
77977933 GATGGCTTGGTGCCATTATTGATGGCTTTGTGCCACTACTAATGGCTTTG
1 GATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGATGGCTTTG
77977983 GATCTAGGCA
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 94 1.00
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (60 bp):
GATGGCTTTGTGCCACTATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCGCTACA
Found at i:77981956 original size:20 final size:20
Alignment explanation
Indices: 77981908--77982057 Score: 158
Period size: 20 Copynumber: 7.5 Consensus size: 20
77981898 GTGGACGTAC
* *
77981908 TGATGGCTTTGTG-CACTAC
1 TGATGGCTTTGTGCCGCTAT
77981927 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
** * *
77981947 TGATACCTTTGTGTCGCTAC
1 TGATGGCTTTGTGCCGCTAT
* *
77981967 AGATGGCTTTGTCCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
*
77981987 TGATGGTTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCGCTAT
* * **
77982007 TAATGGCTTGGTGCCATTAT
1 TGATGGCTTTGTGCCGCTAT
* *
77982027 TGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGCCGCTAT
77982047 TGATGGCTTTG
1 TGATGGCTTTG
77982058 GACCTAGGGT
Statistics
Matches: 106, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
19 13 0.12
20 93 0.88
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (20 bp):
TGATGGCTTTGTGCCGCTAT
Found at i:77985969 original size:20 final size:20
Alignment explanation
Indices: 77985944--77986097 Score: 173
Period size: 20 Copynumber: 7.7 Consensus size: 20
77985934 ACTATGGACG
*
77985944 TACTGATGGCTTTGTGCCGC
1 TACTGATGGCTTTGTGCCAC
***
77985964 TACTGATGGCTTTGTGTTGC
1 TACTGATGGCTTTGTGCCAC
*
77985984 TACAGATGGCTTTGTGCCAC
1 TACTGATGGCTTTGTGCCAC
* *
77986004 GATTGATGGCTTTGTGCCAC
1 TACTGATGGCTTTGTGCCAC
* * *
77986024 TATTGATGGTTTTGTGCCGC
1 TACTGATGGCTTTGTGCCAC
* * *
77986044 TATTGATGGCTTGGTGCCAT
1 TACTGATGGCTTTGTGCCAC
* *
77986064 TATTGATGGCTTGGTGCCAC
1 TACTGATGGCTTTGTGCCAC
77986084 TACTGATGGCTTTG
1 TACTGATGGCTTTG
77986098 GACCGAGGCT
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 115 1.00
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (20 bp):
TACTGATGGCTTTGTGCCAC
Found at i:77986020 original size:60 final size:60
Alignment explanation
Indices: 77985947--77986097 Score: 203
Period size: 60 Copynumber: 2.5 Consensus size: 60
77985937 ATGGACGTAC
* ** *
77985947 TGATGGCTTTGTGCCGCTACTGATGGCTTTGTGTTGCTACAGATGGCTTTGTGCCACGAT
1 TGATGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACAGATGGCTTGGTGCCACGAT
* * ** **
77986007 TGATGGCTTTGTGCCACTATTGATGGTTTTGTGCCGCTATTGATGGCTTGGTGCCATTAT
1 TGATGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACAGATGGCTTGGTGCCACGAT
*
77986067 TGATGGCTTGGTGCCACTACTGATGGCTTTG
1 TGATGGCTTTGTGCCACTACTGATGGCTTTG
77986098 GACCGAGGCT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 78 1.00
ACGTcount: A:0.13, C:0.19, G:0.30, T:0.38
Consensus pattern (60 bp):
TGATGGCTTTGTGCCACTACTGATGGCTTTGTGCCGCTACAGATGGCTTGGTGCCACGAT
Found at i:77988562 original size:13 final size:13
Alignment explanation
Indices: 77988546--77988576 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
77988536 TCAATCGAAT
77988546 AATAACATTTCAA
1 AATAACATTTCAA
77988559 AATAACATTTCAA
1 AATAACATTTCAA
77988572 AATAA
1 AATAA
77988577 TTTCTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAACATTTCAA
Found at i:77991124 original size:37 final size:37
Alignment explanation
Indices: 77991074--77991152 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
77991064 TTATTACGAA
* *
77991074 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
77991111 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
77991148 GTCTT
1 GTCTT
77991153 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:77991349 original size:47 final size:47
Alignment explanation
Indices: 77991271--77991803 Score: 794
Period size: 47 Copynumber: 11.5 Consensus size: 47
77991261 CCCTTCGGGA
* * * * * * *
77991271 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
77991318 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77991365 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77991412 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77991459 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77991506 CTTATCACACATATACACTTTCACATTCATCACAT----C----GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77991545 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77991592 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77991639 CTTATCACATATATATACACTTTCACATCCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77991688 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77991735 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77991782 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
77991804 TTGGCTGAAT
Statistics
Matches: 449, Mismatches: 27, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
39 38 0.08
47 368 0.82
49 43 0.10
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77991724 original size:229 final size:227
Alignment explanation
Indices: 77991313--77991774 Score: 807
Period size: 229 Copynumber: 2.0 Consensus size: 227
77991303 CGTTGGCCAC
* * *
77991313 TCGGCCCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATA
1 TCGGCCCTATCACACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATA
* *
77991378 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATC
66 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATC
* *
77991443 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
131 ACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
77991508 TATCACACATATACACTTTCACATTCATCACA
196 TATCACACATATACACTTTCACATTCATCACA
* * *
77991540 TCGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATA
1 TCGGCCCTATCACACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATA
*
77991605 TACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATCCA
66 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATCCA
77991670 TCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
129 TCACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
77991735 CTTATCACACATATACACTTTCACATTCATCACA
194 CTTATCACACATATACACTTTCACATTCATCACA
77991769 TCGGCC
1 TCGGCC
77991775 ATTAGGCCTT
Statistics
Matches: 222, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
227 99 0.45
229 123 0.55
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (227 bp):
TCGGCCCTATCACACATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACACATA
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATC
ACATCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
TATCACACATATACACTTTCACATTCATCACA
Found at i:77991762 original size:276 final size:274
Alignment explanation
Indices: 77991271--77991803 Score: 868
Period size: 276 Copynumber: 1.9 Consensus size: 274
77991261 CCCTTCGGGA
** * * * * * *
77991271 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
*
77991336 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
* *
77991401 GGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
131 GACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
* *
77991466 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACA
196 CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACA
77991531 TTCATCACATCGGC
261 TTCATCACATCGGC
* * * *
77991545 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
* *
77991610 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATCCATCACA
66 TTTCACATTCATCACATCGGCCACTAGGCCTTATCAC--ATATATACACTTTCACATCCATCACA
77991675 TCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
129 TCGACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
*
77991740 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
194 CACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
77991804 TTGGCTGAAT
Statistics
Matches: 237, Mismatches: 20, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
274 88 0.37
276 149 0.63
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (274 bp):
CTTATCACACATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACACATATACAC
TTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
GACCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACA
TTCATCACATCGGC
Found at i:77994520 original size:40 final size:40
Alignment explanation
Indices: 77994471--77994574 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 40
77994461 CACCAGCATG
* *
77994471 ATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCA
1 ATGC-CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CA
* * *
77994512 ATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACA
1 ATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACA
* *
77994552 AAGCCTTCGAGACTTAGCCCGGA
1 ATGCCTTCGGGACTTAGCCCGGA
77994575 CATCATTCGA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.06
40 39 0.75
41 10 0.19
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
ATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCACA
Found at i:77994919 original size:29 final size:29
Alignment explanation
Indices: 77994880--77994958 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
77994870 CTTAATAATC
* *
77994880 AACCACGCACACTTAGTGCCATGTATTTTA
1 AACC-CGCACACTTAGTGCCATGCATTTCA
*
77994910 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
77994939 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77994959 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 41 0.93
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:77995001 original size:43 final size:43
Alignment explanation
Indices: 77994940--77995042 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
77994930 TGCATTTCAA
77994940 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77994983 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77995026 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
77995043 TAAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:77996943 original size:37 final size:37
Alignment explanation
Indices: 77996893--77996971 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
77996883 TTATTACGAA
* *
77996893 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
77996930 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
77996967 GTCTT
1 GTCTT
77996972 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:77997168 original size:47 final size:47
Alignment explanation
Indices: 77997090--77997583 Score: 781
Period size: 47 Copynumber: 10.5 Consensus size: 47
77997080 CCCTTCGGGA
* * * * * * *
77997090 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
77997137 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACGAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77997184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77997231 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77997278 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77997325 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77997372 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77997419 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77997468 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77997515 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77997562 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
77997584 TTGGCTGAAT
Statistics
Matches: 420, Mismatches: 25, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
47 376 0.90
49 44 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:78001680 original size:41 final size:41
Alignment explanation
Indices: 78001614--78001787 Score: 170
Period size: 41 Copynumber: 4.2 Consensus size: 41
78001604 CAATACATTG
** * * * * *
78001614 GCACGAAAACTGCTAAGCTCAAAGCCTAATATAACACACCG
1 GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACCA
* * *
78001655 GCGCGAAGCCTGCTAGGCCCAAAGCCTGATATAATA-ATTCAA
1 GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACA--CCA
** * *
78001697 AAACGAAGCCTACTAGGCACAAAGCCTGATATAATACACTA
1 GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACCA
* * *
78001738 GCACGAAGCCTGCTAGGCACAAAGCCTGATGTAGTACACCG
1 GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACCA
78001779 GCACGAAGC
1 GCACGAAGC
78001788 GGCACAAAGC
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 74 0.69
42 32 0.30
43 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.16
Consensus pattern (41 bp):
GCACGAAGCCTGCTAGGCACAAAGCCTGATATAATACACCA
Found at i:78004318 original size:12 final size:12
Alignment explanation
Indices: 78004301--78004342 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
78004291 GAATTGGAAC
*
78004301 CAAAATGAGAAT
1 CAAAATCAGAAT
78004313 CAAAATCAGAAT
1 CAAAATCAGAAT
* *
78004325 CAGAATCAAAAT
1 CAAAATCAGAAT
78004337 CAAAAT
1 CAAAAT
78004343 TACGTGACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.60, C:0.14, G:0.10, T:0.17
Consensus pattern (12 bp):
CAAAATCAGAAT
Found at i:78004325 original size:6 final size:6
Alignment explanation
Indices: 78004308--78004367 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
78004298 AACCAAAATG
* * * * *
78004308 AGAATC AAAATC AGAATC AGAATC AAAATC AAAATT ACGTGA-C AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
78004357 AGAATC AGAAT
1 AGAATC AGAAT
78004368 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
5 1 0.02
6 40 0.93
7 1 0.02
8 1 0.02
ACGTcount: A:0.53, C:0.15, G:0.13, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:78004522 original size:27 final size:26
Alignment explanation
Indices: 78004485--78004550 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
78004475 AGCATGGTTG
*
78004485 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
78004511 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
78004538 CCAGAATCAGATA
1 CCAGAA-CAGATA
78004551 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:78004555 original size:27 final size:27
Alignment explanation
Indices: 78004485--78004558 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
78004475 AGCATGGTTG
* *
78004485 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
78004511 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
78004538 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
78004559 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:78004565 original size:27 final size:27
Alignment explanation
Indices: 78004509--78004566 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
78004499 GTGACAGAGT
* * *
78004509 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
78004536 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
78004563 CACC
1 CACC
78004567 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:78004771 original size:22 final size:22
Alignment explanation
Indices: 78004723--78004781 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
78004713 GTAAATACGT
*
78004723 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
78004745 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
78004767 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
78004782 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:78004948 original size:27 final size:26
Alignment explanation
Indices: 78004869--78004951 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
78004859 TCGATCGGTC
* * *
78004869 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
78004895 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
78004922 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
78004949 AAC
1 AAC
78004952 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:78005180 original size:27 final size:27
Alignment explanation
Indices: 78005150--78005345 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
78005140 GGGGCAAAAT
* * * *
78005150 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
78005177 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78005204 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78005231 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
78005258 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
78005285 TGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
78005312 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
78005339 AGTAATT
1 GGTAATT
78005346 TCTCAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:78005380 original size:27 final size:27
Alignment explanation
Indices: 78005350--78006059 Score: 873
Period size: 27 Copynumber: 26.3 Consensus size: 27
78005340 GTAATTTCTC
*
78005350 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
78005377 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
78005404 AA-CTGAGGGTAAACCAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
78005431 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78005458 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
78005485 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
78005512 AA-CTGAGGGTAAAATGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
78005539 AATTGAGGGTAAAATAGTAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
78005565 AACCTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
78005593 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
78005620 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
78005647 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
78005674 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
78005701 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78005728 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
78005755 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
78005782 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
78005809 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78005836 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
78005863 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
78005890 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
78005917 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78005944 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
78005971 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78005998 AA-CTGA-GGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
78006024 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
78006051 AATCGAGGG
1 AATCGAGGG
78006060 CATTTTAGTA
Statistics
Matches: 600, Mismatches: 64, Indels: 38
0.85 0.09 0.05
Matches are distributed among these distances:
26 32 0.05
27 559 0.93
28 9 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:78006765 original size:82 final size:82
Alignment explanation
Indices: 78006628--78006794 Score: 325
Period size: 82 Copynumber: 2.0 Consensus size: 82
78006618 CTCAAATGCT
*
78006628 CCACACGCCATTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
1 CCACACGCCACTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
78006693 AGGCCTACCTACTACAC
66 AGGCCTACCTACTACAC
78006710 CCACACGCCACTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
1 CCACACGCCACTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
78006775 AGGCCTACCTACTACAC
66 AGGCCTACCTACTACAC
78006792 CCA
1 CCA
78006795 GGGTTTGATT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (82 bp):
CCACACGCCACTTGCCACTAAGCCATAAGGTTTTTTGTGTCACAATTTCTCCAACAATATTCTTA
AGGCCTACCTACTACAC
Found at i:78010635 original size:27 final size:26
Alignment explanation
Indices: 78010574--78010685 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 26
78010564 GGAAGCGTCT
* *
78010574 TGGTGGCTATGCCACAAATTATCTGATC
1 TGGTGGCTCTGCCAC--ATTATCTGTTC
78010602 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
** *
78010629 TAATGGCTCTGCCATGATTATCTGTATC
1 TGGTGGCTCTGCCA-CATTATCTGT-TC
* *
78010657 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
78010683 TGG
1 TGG
78010686 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.51
28 28 0.39
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:78018189 original size:27 final size:26
Alignment explanation
Indices: 78018131--78018243 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
78018121 AGGAAGCGTC
* *
78018131 CTGGTGGCTATGCCACAAATTATCTAAT
1 CTGGTGGCTCTGCCAC--ATTATCTATT
*
78018159 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTATT
*
78018186 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTAT-T
* *
78018214 CTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTCTGCCACATTATCTATT
78018240 CTGG
1 CTGG
78018244 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 32 0.42
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:78018216 original size:55 final size:54
Alignment explanation
Indices: 78018131--78018243 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
78018121 AGGAAGCGTC
* *
78018131 CTGGTGGCTATGCCACAAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTAATCTGGTGACTCTGCCACAT-TATCTATT
* * * *
78018186 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTATT
1 CTGGTGGCTATGCCACAAATTATCT-AATCTGGTGACTCTGCCACATTATCTATT
78018240 CTGG
1 CTGG
78018244 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTAATCTGGTGACTCTGCCACATTATCTATT
Found at i:78021423 original size:14 final size:15
Alignment explanation
Indices: 78021406--78021434 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78021396 GCACGAAAAT
78021406 TTCACACAA-ATAAA
1 TTCACACAATATAAA
78021420 TTCACACAATATAAA
1 TTCACACAATATAAA
78021435 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACAATATAAA
Found at i:78028644 original size:55 final size:55
Alignment explanation
Indices: 78028576--78028701 Score: 171
Period size: 55 Copynumber: 2.3 Consensus size: 55
78028566 TGCGATATGC
* * *
78028576 CCATGGTCAAGCCTGTCAAAACAACACGGGCGTACGACACGCCCGTGTGGAAGAA
1 CCATGGTCGAGCCTGTCAAAACAACACGGGCGTACAACACGCCCGTGTGGAACAA
* * * *
78028631 CCATGGTCGAGCCTGCCAAAACAGCACGGGCGTTCAACACGCCCGTGTGGAACAC
1 CCATGGTCGAGCCTGTCAAAACAACACGGGCGTACAACACGCCCGTGTGGAACAA
* *
78028686 CCGTGGTCGAACCTGT
1 CCATGGTCGAGCCTGT
78028702 TAAATTAACA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.14
Consensus pattern (55 bp):
CCATGGTCGAGCCTGTCAAAACAACACGGGCGTACAACACGCCCGTGTGGAACAA
Found at i:78032433 original size:19 final size:21
Alignment explanation
Indices: 78032409--78032448 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
78032399 CGAAAGGAAT
78032409 GAGAAA-TGGGCCAAA-AACG
1 GAGAAACTGGGCCAAAGAACG
78032428 GAGAAACTGGGCCAAAGAACG
1 GAGAAACTGGGCCAAAGAACG
78032449 AAATTAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.45, C:0.17, G:0.33, T:0.05
Consensus pattern (21 bp):
GAGAAACTGGGCCAAAGAACG
Found at i:78035360 original size:25 final size:23
Alignment explanation
Indices: 78035328--78035389 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
78035318 AATAGCCATG
*
78035328 AATCGGTAAGCTCTTCTGAGCTGTA
1 AATCGGTAAGCTCTAC-GAGCTG-A
* *
78035353 AATTGGTAAGCTAATACGAGCTGA
1 AATCGGTAAGCT-CTACGAGCTGA
78035377 AATCGGTAAGCTC
1 AATCGGTAAGCTC
78035390 ATATGAGTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 12 0.39
25 17 0.55
26 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (23 bp):
AATCGGTAAGCTCTACGAGCTGA
Found at i:78035384 original size:24 final size:25
Alignment explanation
Indices: 78035328--78035396 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
78035318 AATAGCCATG
* *
78035328 AATCGGTAAGCTCTTCTGAGCTGTA
1 AATCGGTAAGCTATACTGAGCTGTA
*
78035353 AATTGGTAAGCTAATAC-GAGCTG-A
1 AATCGGTAAGCT-ATACTGAGCTGTA
78035377 AATCGGTAAGCTCATA-TGAG
1 AATCGGTAAGCT-ATACTGAG
78035397 TTGAGAATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 18 0.49
25 17 0.46
26 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (25 bp):
AATCGGTAAGCTATACTGAGCTGTA
Found at i:78037475 original size:27 final size:27
Alignment explanation
Indices: 78037445--78037523 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
78037435 ACTTAATCGA
78037445 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
** **
78037472 TAAAATGACTGA-AATG-CCTCTACATGG
1 TAAAATGACT-ATTTTGCCCT-TATGTGG
*
78037499 TAAAATGACT-TTTTGCCCCTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
78037524 ATGTATATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
26 9 0.23
27 29 0.74
28 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:78040664 original size:14 final size:14
Alignment explanation
Indices: 78040647--78040674 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78040637 CAAGTATCAC
78040647 AAGGTTAGTGAGTT
1 AAGGTTAGTGAGTT
78040661 AAGGTTAGTGAGTT
1 AAGGTTAGTGAGTT
78040675 CATATATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
AAGGTTAGTGAGTT
Found at i:78040837 original size:27 final size:26
Alignment explanation
Indices: 78040807--78040857 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
78040797 AAATGTCTCT
**
78040807 TTTCACATATCTATATTCATATAAATA
1 TTTCACATAAATAT-TTCATATAAATA
*
78040834 TTTCATATAAATATTTCATATAAA
1 TTTCACATAAATATTTCATATAAA
78040858 CACTTCTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTCACATAAATATTTCATATAAATA
Found at i:78040840 original size:13 final size:13
Alignment explanation
Indices: 78040822--78040902 Score: 83
Period size: 13 Copynumber: 6.2 Consensus size: 13
78040812 CATATCTATA
*
78040822 TTCATATAAATAT
1 TTCATATAAACAT
*
78040835 TTCATATAAATAT
1 TTCATATAAACAT
*
78040848 TTCATATAAACAC
1 TTCATATAAACAT
* *
78040861 TTCTTATAACCAT
1 TTCATATAAACAT
*
78040874 TTCATAT-ATCTAT
1 TTCATATAAAC-AT
78040887 TTCCATATAAACAT
1 TT-CATATAAACAT
78040901 TT
1 TT
78040903 AATACATCCA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
12 2 0.04
13 44 0.77
14 9 0.16
15 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTCATATAAACAT
Found at i:78040914 original size:40 final size:39
Alignment explanation
Indices: 78040833--78040920 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 39
78040823 TCATATAAAT
*
78040833 ATTTCATATAAATATTTCATATAAACACTTCTTATAACC
1 ATTTCATATAAATATTTCATATAAACACTTCTAATAACC
**
78040872 ATTTCATATATCTATTTCCATATAAACA-TT-TAATACATCC
1 ATTTCATATAAATATTT-CATATAAACACTTCTAATA-A-CC
78040912 ATTTCATAT
1 ATTTCATAT
78040921 TACCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 4 0.09
39 18 0.42
40 21 0.49
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (39 bp):
ATTTCATATAAATATTTCATATAAACACTTCTAATAACC
Found at i:78040929 original size:40 final size:40
Alignment explanation
Indices: 78040846--78040930 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 40
78040836 TCATATAAAT
* *
78040846 ATTT-CATATAAACACTTCTTATAACCATTTCATATATCT
1 ATTTCCATATAAACACTTCTAATAACCATTTCATATATCC
78040885 ATTTCCATATAAACA-TT-TAATACATCCATTTCATAT-TACC
1 ATTTCCATATAAACACTTCTAATA-A-CCATTTCATATAT-CC
78040925 ATTTCC
1 ATTTCC
78040931 GTTTACTCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
38 4 0.10
39 8 0.20
40 28 0.70
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.42
Consensus pattern (40 bp):
ATTTCCATATAAACACTTCTAATAACCATTTCATATATCC
Found at i:78041055 original size:25 final size:25
Alignment explanation
Indices: 78040988--78041057 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
78040978 ACGTAGGAAC
* * * *
78040988 AATGCTCACACAAGCTATAATGGTA
1 AATGCTCACACGAGCTGTGATTGTA
* *
78041013 AATGCTCACATGATCTGTGATTGTA
1 AATGCTCACACGAGCTGTGATTGTA
78041038 AATGCTCA-ACCGAGCTGTGA
1 AATGCTCACA-CGAGCTGTGA
78041058 AATGGGCCTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (25 bp):
AATGCTCACACGAGCTGTGATTGTA
Found at i:78043686 original size:38 final size:38
Alignment explanation
Indices: 78043638--78043846 Score: 262
Period size: 38 Copynumber: 5.5 Consensus size: 38
78043628 GGCTCAAAGG
* * *
78043638 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
*
78043676 CCCGGATATAATACTAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
* * * *
78043714 CCCGGATAT-ATACCCAGCATGAAGCCTGCAGGATTTAT
1 CCCGGATATAATA-CCAGCACGAAGCCTACGGGATTTAA
*
78043752 CCCGGATATAATACTAGCACGAAGCCTGA-GGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCT-ACGGGATTTAA
* *
78043790 CCCGGATATATTACCAGCACGAAGCC-AGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTA-CGGGATTTAA
*
78043828 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
78043847 TATAGCCTGC
Statistics
Matches: 147, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
36 1 0.01
37 3 0.02
38 140 0.95
39 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:78043845 original size:114 final size:113
Alignment explanation
Indices: 78043638--78043860 Score: 301
Period size: 114 Copynumber: 2.0 Consensus size: 113
78043628 GGCTCAAAGG
* * *
78043638 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAACCCGGATATAATACTAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
78043703 ACGGGATTTAACCCGGATATATACCCAGCATGA-AGCCTGCAGGATTTAT
66 ACGGGATTTAACCCGGATATATACCCAGCAT-ATAGCCTGC-GGATTTAT
* * *
78043752 CCCGGATATAATACTAGCACGAAGCCTGA-GGGATTTAACCCGGATATATTACCAGCACGAAGCC
1 CCCGAATATAATACCAGCACGAAGCCT-ACGGGATTTAACCCGGATATAATACCAGCACGAAGCC
* *
78043816 -AGCGGGATTTATCCCGGATATA-ATTCCAGCATATAGCCTGCGGAT
65 TA-CGGGATTTAACCCGGATATATA-CCCAGCATATAGCCTGCGGAT
78043861 CTTTAAGCCC
Statistics
Matches: 97, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
113 7 0.07
114 89 0.92
115 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (113 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
ACGGGATTTAACCCGGATATATACCCAGCATATAGCCTGCGGATTTAT
Found at i:78052439 original size:37 final size:37
Alignment explanation
Indices: 78052398--78052475 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
78052388 TGCTATGAAA
78052398 GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
1 GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
78052435 GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
1 GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
78052472 GTAT
1 GTAT
78052476 TGATAATGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (37 bp):
GTATGTGAAACTTTAGTTAAGTTTATATGTGTTATAT
Found at i:78052861 original size:20 final size:21
Alignment explanation
Indices: 78052806--78052863 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
78052796 ATTCGAAATT
78052806 TGTATATGTATAAG-TATATAA
1 TGTATATG-ATAAGATATATAA
* * *
78052827 TGT-TTTGATATGATAT-TTA
1 TGTATATGATAAGATATATAA
78052846 TGTATATGATAAGATATA
1 TGTATATGATAAGATATA
78052864 CTTGTAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.31
20 17 0.59
21 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (21 bp):
TGTATATGATAAGATATATAA
Done.