Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 144 of 410
Found at i:43673821 original size:81 final size:80
Alignment explanation
Indices: 43673680--43673841 Score: 193
Period size: 81 Copynumber: 2.0 Consensus size: 80
43673670 AAAACCCATT
* *
43673680 TGTAAAATTATCGAAATACCCTCAGTTTGTAAAATTATCGAAATAGTCCCAGTTTATAAAATTAC
1 TGTAAAATTATCGAAATACCCTCAGTGTGTAAAATTATCGAAATAG-CCCAGTGTATAAAATTAC
*
43673745 CCAAATACCCTTATAG
65 CCAAATACCCCTATAG
* * * * *
43673761 TGTACAATTATCGAAATACCCTTA-TAGTGTACAATTATCGAAATA-CCCTTGTAGTGTAAAATT
1 TGTAAAATTATCGAAATACCCTCAGT-GTGTAAAATTATCGAAATAGCCC-AGT-GTATAAAATT
*
43673824 ACCGAAATACCCCTATAG
63 ACCCAAATACCCCTATAG
43673842 GGCAAAATGA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.04
80 3 0.04
81 63 0.91
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.31
Consensus pattern (80 bp):
TGTAAAATTATCGAAATACCCTCAGTGTGTAAAATTATCGAAATAGCCCAGTGTATAAAATTACC
CAAATACCCCTATAG
Found at i:43674587 original size:27 final size:27
Alignment explanation
Indices: 43674497--43674598 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
43674487 ATCTTGATTA
* *
43674497 TGGCTTTGTGCCAATCATATTTACCTG
1 TGGCTATGTGCCGATCATATTTACCTG
* * *
43674524 TGGCAATGTGCCTATCATATTTA-TTG
1 TGGCTATGTGCCGATCATATTTACCTG
* * * *
43674550 ATGACTTTGTGTCGATCATATTTACCCG
1 -TGGCTATGTGCCGATCATATTTACCTG
*
43674578 TGGCTATGTGCCGATTATATT
1 TGGCTATGTGCCGATCATATT
43674599 ATCGTCGCTG
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
26 2 0.03
27 55 0.95
28 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.41
Consensus pattern (27 bp):
TGGCTATGTGCCGATCATATTTACCTG
Found at i:43674648 original size:247 final size:247
Alignment explanation
Indices: 43674212--43674686 Score: 878
Period size: 247 Copynumber: 1.9 Consensus size: 247
43674202 ATTATAGCTC
43674212 TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTG
1 TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTG
* * *
43674277 TGGCTATGTACCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTGTGTGT
66 TGGCAATGTACCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
43674342 CGATTATATTATCGTCGCTGATGGCTATGTGCCAAACTTATTACAGTTACCGATAGCCTTGTGCC
131 CGATTATATTATCGTCGCTGATGGCTATGTGCCAAACTTATTACAGTTACCGATAGCCTTGTGCC
43674407 ATCCGGATTATGACTCTGTGCCATCCTGATTATGGTTTATAACCATTTTGTT
196 ATCCGGATTATGACTCTGTGCCATCCTGATTATGGTTTATAACCATTTTGTT
43674459 TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTG
1 TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTG
*
43674524 TGGCAATGTGCCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
66 TGGCAATGTACCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
*
43674589 CGATTATATTATCGTCGCTGATGGCTATGTGCCACACTTATTACAGTTACCGATAGCCTTGTGCC
131 CGATTATATTATCGTCGCTGATGGCTATGTGCCAAACTTATTACAGTTACCGATAGCCTTGTGCC
* * *
43674654 GTCCTGATTATGGCTCTGTGCCATCCTGATTAT
196 ATCCGGATTATGACTCTGTGCCATCCTGATTAT
43674687 AGCTCTGTGC
Statistics
Matches: 220, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
247 220 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (247 bp):
TATGCCAACCTAAAAATGGCTCTGTGCCATCTTGATTATGGCTTTGTGCCAATCATATTTACCTG
TGGCAATGTACCTATCATATTTATTGATGACTTTGTGTCGATCATATTTACCCGTGGCTATGTGC
CGATTATATTATCGTCGCTGATGGCTATGTGCCAAACTTATTACAGTTACCGATAGCCTTGTGCC
ATCCGGATTATGACTCTGTGCCATCCTGATTATGGTTTATAACCATTTTGTT
Found at i:43674680 original size:22 final size:22
Alignment explanation
Indices: 43674648--43674710 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
43674638 CCGATAGCCT
*
43674648 TGTGCCGTCCTGATTATGGCTC
1 TGTGCCATCCTGATTATGGCTC
*
43674670 TGTGCCATCCTGATTATAGCTC
1 TGTGCCATCCTGATTATGGCTC
*
43674692 TGTGCCATCTTGATTATGG
1 TGTGCCATCCTGATTATGG
43674711 TTTATAACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (22 bp):
TGTGCCATCCTGATTATGGCTC
Found at i:43676846 original size:47 final size:47
Alignment explanation
Indices: 43676791--43676921 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 47
43676781 CACAATCAAT
* *
43676791 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATTC-CG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAAC-TACTCTCA
* * *
43676838 GAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTACTCTCA
* * *
43676885 AAATACCTATATCATGTCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
43676922 TTATTGCACC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 3 0.04
47 70 0.96
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTACTCTCA
Found at i:43681244 original size:11 final size:11
Alignment explanation
Indices: 43681217--43681256 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
43681207 CTCAAACGTT
43681217 GAAATTTTCAAAC
1 GAAATTTTC--AC
43681230 GAAATTTTCAC
1 GAAATTTTCAC
43681241 GAAATTTTCAC
1 GAAATTTTCAC
43681252 GAAAT
1 GAAAT
43681257 CATTCTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 18 0.67
13 9 0.33
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (11 bp):
GAAATTTTCAC
Found at i:43683018 original size:46 final size:46
Alignment explanation
Indices: 43682968--43683142 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
43682958 TGGTTGAGCA
43682968 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43683014 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
43683059 CATCCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAA-G
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43683105 GCCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43683143 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 22 0.20
46 47 0.43
47 25 0.23
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43683123 original size:92 final size:93
Alignment explanation
Indices: 43682965--43683135 Score: 301
Period size: 92 Copynumber: 1.8 Consensus size: 93
43682955 GGATGGTTGA
*
43682965 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGGCCGAACTCGTTGAGT
43683030 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43683058 GCATCCGAACTCGTTGAGTTGAGTCC-AGTTCACTTATGGATGCGAA-GGCCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGGCC-GAACTCGTTGAG
43683121 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
43683136 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
91 3 0.04
92 46 0.61
93 26 0.35
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43686667 original size:40 final size:40
Alignment explanation
Indices: 43686618--43686825 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
43686608 TCTTCGGAAT
* * *
43686618 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
43686657 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
43686697 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
43686737 TTAGCCCGGATATAATCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
43686777 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
43686817 TTAGCCCGG
1 TTAGCCCGG
43686826 GTATCATTCA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 140 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:43693906 original size:46 final size:46
Alignment explanation
Indices: 43693856--43694031 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43693846 TGGTTGAGCA
43693856 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43693902 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43693947 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43693995 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43694032 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43694012 original size:93 final size:93
Alignment explanation
Indices: 43693853--43694024 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43693843 GGATGGTTGA
* *
43693853 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43693918 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43693946 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43694011 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
43694025 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43710003 original size:40 final size:39
Alignment explanation
Indices: 43709835--43710005 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
43709825 AGAAATTGAA
* *
43709835 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
43709875 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
43709915 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
43709955 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
43709995 TGATATCCGGG
1 TGATATCCGGG
43710006 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:43715315 original size:80 final size:79
Alignment explanation
Indices: 43715119--43715334 Score: 240
Period size: 80 Copynumber: 2.7 Consensus size: 79
43715109 GATGATAACT
* * * * *
43715119 GGGCTAAGTCCCGAAGGCATTTGCA-CTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTCG-AGCAAGTTACTA-TATCC-GGTTAAGTCCCGAAGGCATTGG
*
43715182 TGCGAGTTACTATATCT
63 TGCGAGTTACTATATCC
* * * * *
43715199 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGTTAAGTCCCGAAGGCATTGGTG
1 GGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTATATC-CGGTTAAGTCCCGAAGGCATTGGTG
43715264 CGAGTTACTATATCC
65 CGAGTTACTATATCC
* * *
43715279 GGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATATCCGGTTAAATCGCGAAGG
1 GGGCTAAGTCCCGAAGGCATTCGAGCAAGTTA-CTATATCCGGTTAAGTCCCGAAGG
43715335 TACTTGGCTT
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
79 17 0.15
80 99 0.85
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTATATCCGGTTAAGTCCCGAAGGCATTGGTGC
GAGTTACTATATCC
Found at i:43715320 original size:40 final size:40
Alignment explanation
Indices: 43715119--43715299 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
43715109 GATGATAACT
** * *
43715119 GGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
*
43715159 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
43715199 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
43715239 GGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
43715279 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
43715300 CGAGCAAGTA
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.01
40 129 0.99
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:43720574 original size:12 final size:12
Alignment explanation
Indices: 43720557--43720582 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43720547 AAAATAAGGC
43720557 TTTAGCGGCGTT
1 TTTAGCGGCGTT
43720569 TTTAGCGGCGTT
1 TTTAGCGGCGTT
43720581 TT
1 TT
43720583 ATCAACAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:43720696 original size:42 final size:40
Alignment explanation
Indices: 43720606--43720698 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 40
43720596 GCAAAAATTT
* * *
43720606 TAAAATACAGAGCAATAGCGGCGTTTTAAGAAAAACGCCGC
1 TAAAA-ACAGAGCAACAGCGGCGTTTTAACAAAAACCCCGC
* * *
43720647 TAAAAACAGAGCAACAGCGGCGTTTTTTTACTAAAACCCCTC
1 TAAAAACAGAGCAACAGCGGCG--TTTTAACAAAAACCCCGC
43720689 TAAAAACAGA
1 TAAAAACAGA
43720699 TCATTAGCGG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 16 0.36
41 5 0.11
42 23 0.52
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCAACAGCGGCGTTTTAACAAAAACCCCGC
Found at i:43720749 original size:41 final size:41
Alignment explanation
Indices: 43720613--43721019 Score: 455
Period size: 41 Copynumber: 10.0 Consensus size: 41
43720603 TTTTAAAATA
* * ** *
43720613 CAGAGCAATAGCGGCGTTTTAAGAAAAACGCCGCTAAAAA-
1 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
** * *** * *
43720653 CAGAGCAACAGCGGCGTTTTTTTACTAAAACCCCTCTAAAAA-
1 CAGAGCATTAGCGGCG--CTTTCGGTAAAACGCCGCTAAAAAC
* * * *
43720695 CAGATCATTAGCGGCGCTTTAGGTAAAACACTGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
* *
43720736 CAGATCATTAGCGGCGC-TTCGGGTAAAACGTCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTC-GGTAAAACGCCGCTAAAAAC
* * * *
43720777 CAGAGCATTAGCGGCACTTTGGGTAAAACGCCACTAAAAAA
1 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
* * * *
43720818 TAGATCATTAGCGACGCTTTGGGTAAAACGCCGCTAAAAA-
1 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
* *
43720858 TAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
* *
43720899 CGGAGCATTAGCGGCG-TTTTGTGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTCG-GTAAAACGCCGCTAAAAAC
*
43720940 CAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
43720981 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
1 CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
43721020 GTCATAGAAC
Statistics
Matches: 316, Mismatches: 43, Indels: 15
0.84 0.11 0.04
Matches are distributed among these distances:
40 74 0.23
41 204 0.65
42 38 0.12
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
Found at i:43720896 original size:163 final size:163
Alignment explanation
Indices: 43720678--43721019 Score: 477
Period size: 163 Copynumber: 2.1 Consensus size: 163
43720668 GTTTTTTTAC
* * * * * *
43720678 TAAAACCCCTCTAAAAACAGATCATTAGCGGCGCTTTAGGTAAAACACTGCTAAAAACCAGATCA
1 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTAGATAAAACACCGCTAAAAACCAGAGCA
* * *
43720743 TTAGCGGCGCTTCGGGTAAAACGTCGCTAAAAACCAGAGCATTAGCGGCACTTTGGGTAAAACGC
66 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCGATAAAACGC
* * *
43720808 CACTAAAAAATAGATCATTAGCGACGCTTTGGG
131 CACTAAAAAACAGAGCATTAGCGACGCTTTCGG
* * * *
43720841 TAAAACGCCGCTAAAAATAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCGGAGCA
1 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTAGATAAAACACCGCTAAAAACCAGAGCA
* * * *
43720906 TTAGCGGCGTTTTGTGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGC
66 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCGATAAAACGC
* * *
43720971 CGCTAAAAACCAGAGCATTAGCGGCGCTTTCGG
131 CACTAAAAAACAGAGCATTAGCGACGCTTTCGG
43721004 TAAAACGCCGCTAAAA
1 TAAAACGCCGCTAAAA
43721020 GTCATAGAAC
Statistics
Matches: 156, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
163 156 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (163 bp):
TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTAGATAAAACACCGCTAAAAACCAGAGCA
TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCGATAAAACGC
CACTAAAAAACAGAGCATTAGCGACGCTTTCGG
Found at i:43721269 original size:36 final size:39
Alignment explanation
Indices: 43721199--43721274 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 39
43721189 ATAGTTTAAG
* * *
43721199 ATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
43721238 ATATATGGTTTAAGATTT-A-C-GGTTTAGGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
43721274 A
1 A
43721275 GTAATTGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
38 1 0.03
39 16 0.47
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (39 bp):
ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
Found at i:43725191 original size:133 final size:133
Alignment explanation
Indices: 43724953--43725337 Score: 743
Period size: 133 Copynumber: 2.9 Consensus size: 133
43724943 TGGTGATTCC
*
43724953 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
43725018 TGGACTTAGATTGATTTAAGAGTTTATTGTTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
43725083 TAT
131 TAT
43725086 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
43725151 TGGACTTAGATTGATTTAAGAGTTTATTGCCGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
43725216 TAT
131 TAT
43725219 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
43725284 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
43725338 TGTTGAATTC
Statistics
Matches: 248, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 248 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTATTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:43727895 original size:93 final size:93
Alignment explanation
Indices: 43727783--43727953 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43727773 CGCCCATAAG
* *
43727783 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
43727848 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
43727876 CGAACTCGGACTCAACTCAATGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
43727941 ACGAGTTCGGATG
66 ACGAGTTCGGATG
43727954 GCCAAATATC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43727951 original size:46 final size:46
Alignment explanation
Indices: 43727776--43727951 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
43727766 TGTAACCCGC
* * *
43727776 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
43727822 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
43727872 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
43727915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43727952 TGGCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:43727970 original size:46 final size:44
Alignment explanation
Indices: 43727827--43727970 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 44
43727817 CGCATCCATA
*
43727827 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACATCCC
* * * * *
43727875 A-CGAACTCGGACTCAACTCAATGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACATCC--C
*
43727920 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGGCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGAT-GCC-AACATCCC
43727966 AGTGA
1 AGTGA
43727971 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 34 0.44
47 32 0.42
48 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACATCCC
Found at i:43730092 original size:21 final size:21
Alignment explanation
Indices: 43730063--43730102 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43730053 GTTTTTATAT
*
43730063 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
*
43730084 TTTGATTCAACTTATGTAT
1 TTTGATTCAACTTAAGTAT
43730103 GAATTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:43736275 original size:21 final size:21
Alignment explanation
Indices: 43736249--43736289 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
43736239 ACTTAGAGCA
43736249 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGGGAGGCG
43736270 GAGGCAGCAGCGAGGGAGGC
1 GAGGCAGCAGCGAGGGAGGC
43736290 AAAGCAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.56, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCG
Found at i:43736684 original size:41 final size:41
Alignment explanation
Indices: 43736613--43736728 Score: 198
Period size: 41 Copynumber: 2.9 Consensus size: 41
43736603 TTTAAAAAAA
*
43736613 CGCCGCTAAAGGTCCTGGTCTTTGGC-GCGTTTTTTAAGAG
1 CGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAAGAG
*
43736653 CGCCGCTAAAGTTCCTGGTCTTTAGCGGCGTTTTTTAAGAG
1 CGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAAGAG
*
43736694 CGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTT
1 CGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTT
43736729 ATAAAAAACG
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
40 24 0.34
41 47 0.66
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.33
Consensus pattern (41 bp):
CGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTTTTAAGAG
Found at i:43742462 original size:40 final size:40
Alignment explanation
Indices: 43742303--43742482 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
43742293 GATGTCCAGG
* * *
43742303 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGA
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGA
43742343 CTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
* *
43742383 CTAAGAT-CCGAAGGCATTTGTGCTAGTTACTAAATCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
* * *
43742423 TTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGA
* *
43742463 CTATGTCCCGAAGGTATTTG
1 CTAAGTCCCGAAGGCATTTG
43742483 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 114 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGA
Found at i:43742474 original size:80 final size:81
Alignment explanation
Indices: 43742301--43742482 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
43742291 ATGATGTCCA
*
43742301 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
43742365 CGAGTTACTAAATCCG
66 CGAGCTACTAAATCCG
* * **
43742381 GACTAAGAT-CCGAAGGCATTTGTGCT-AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
43742443 TGCGAGCTACTATAA-CCG
64 TGCGAGCTACTA-AATCCG
* *
43742461 GGCTATGTCCCGAAGGTATTTG
1 GGCTAAGTCCCGAAGGCATTTG
43742483 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
79 2 0.02
80 75 0.85
81 11 0.12
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGCTACTAAATCCG
Found at i:43742496 original size:40 final size:40
Alignment explanation
Indices: 43742301--43742501 Score: 119
Period size: 40 Copynumber: 5.0 Consensus size: 40
43742291 ATGATGTCCA
** * *
43742301 GGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGAAC-GAGCT-ACTATAACCG
* ** *
43742341 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCG
1 GGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA-CCG
* ** * *
43742381 GACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTA-AATCCG
1 GGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA-CCG
* **
43742421 GGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAACCG
* * *
43742461 GGCTATGTCCCGAAGGTATTTGAACGAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGAACGAGCTA-CTATAACCG
43742501 G
1 G
43742502 TTAAACTCCG
Statistics
Matches: 140, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
39 4 0.03
40 125 0.89
41 11 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAACCG
Found at i:43742500 original size:80 final size:80
Alignment explanation
Indices: 43742331--43742515 Score: 193
Period size: 80 Copynumber: 2.3 Consensus size: 80
43742321 GTGCTAAGTG
** *
43742331 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
1 ACTATATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAG
** *
43742396 GCATTTGTGCTAGTT
66 GCATTTGAACGAGTT
* * *
43742411 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCG
1 ACTATATCCGGGTTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCG
*
43742473 AAGGTATTTGAACGAG-T
63 AAGGCATTTGAACGAGTT
43742490 AGCTATATCC-GGTTAA-ACTCCGAAGG
1 A-CTATATCCGGGTTAAGA-TCCGAAGG
43742516 TACGTGATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
79 17 0.19
80 69 0.78
81 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (80 bp):
ACTATATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAG
GCATTTGAACGAGTT
Found at i:43746540 original size:38 final size:38
Alignment explanation
Indices: 43746498--43746787 Score: 429
Period size: 38 Copynumber: 7.6 Consensus size: 38
43746488 ATAGTACTAG
*
43746498 GCCTGCGGGATTTAACCCGGATATAATACCAGTACGAA
1 GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
*
43746536 GCCTGCGGGATTTAACCCAGATATAATACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
* * *
43746574 GCCTGCGAGATTTAACCCGGATATATTACTAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
** *
43746612 GCCTGTAGGATTTAACCCGGATATATTACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
43746650 GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
* * *
43746688 GCCTG-GGGATTTAACCCAGATATATTACCAGCATGAA
1 GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
*
43746725 GCCTACGGGATTTAACCCGGATATAATACCAGCACGAA
1 GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
* *
43746763 GCTTGCGGGTCTTTAAGCCCGGATA
1 GCCTGCGGG-ATTTAA-CCCGGATA
43746788 CACATCAAAT
Statistics
Matches: 226, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
37 33 0.15
38 180 0.80
39 5 0.02
40 8 0.04
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (38 bp):
GCCTGCGGGATTTAACCCGGATATAATACCAGCACGAA
Found at i:43747127 original size:43 final size:44
Alignment explanation
Indices: 43747066--43747151 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 44
43747056 TAACATTTCA
* *
43747066 TTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCG-ATATCG
1 TTTCACAGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATCG
*
43747109 TTTCACAGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATATC
1 TTTCACAGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATC
43747152 ATATTTTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 34 0.87
44 5 0.13
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
TTTCACAGGCATTATAGCCTGCTAGGCCCAAAGCCCGAATATCG
Found at i:43753676 original size:23 final size:24
Alignment explanation
Indices: 43753642--43753687 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
43753632 TCAACAGGGG
*
43753642 AATGAGGAAG-AAAATGA-AGAAC
1 AATGAAGAAGAAAAATGAGAGAAC
43753664 AATGAAGAGAGAAAAATGAGAGAA
1 AATGAAGA-AGAAAAATGAGAGAA
43753688 AATTAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 7 0.35
25 4 0.20
ACGTcount: A:0.61, C:0.02, G:0.28, T:0.09
Consensus pattern (24 bp):
AATGAAGAAGAAAAATGAGAGAAC
Found at i:43757591 original size:24 final size:24
Alignment explanation
Indices: 43757559--43757655 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
43757549 GTCTGTCAGA
43757559 ATAGGATTTAGGAGTTGATAAGGG
1 ATAGGATTTAGGAGTTGATAAGGG
*
43757583 ATAGGATTTAGGAGTTGACAAGGG
1 ATAGGATTTAGGAGTTGATAAGGG
* *
43757607 ATAAGATTTAAGAGTTGATAAGGG
1 ATAGGATTTAGGAGTTGATAAGGG
* * *
43757631 AGAGGATTTAGGAGCTGATTAGGG
1 ATAGGATTTAGGAGTTGATAAGGG
43757655 A
1 A
43757656 GAACAGCGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.35, C:0.02, G:0.36, T:0.27
Consensus pattern (24 bp):
ATAGGATTTAGGAGTTGATAAGGG
Found at i:43759139 original size:27 final size:27
Alignment explanation
Indices: 43759063--43759173 Score: 100
Period size: 27 Copynumber: 4.1 Consensus size: 27
43759053 AGGAAGCATC
* * * *
43759063 CTGGTGGCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTACCATAATTATCTGTT
*
43759090 CTGGTGGCTCTACCA-CATATATCTGTT
1 CTGGTGGCTCTACCATAAT-TATCTGTT
* *
43759117 CTGGTGGCTCTACTATAATTATCTATT
1 CTGGTGGCTCTACCATAATTATCTGTT
* ** *
43759144 CTGGTGACTCTGTCA-CATTATCTGTT
1 CTGGTGGCTCTACCATAATTATCTGTT
43759170 CTGG
1 CTGG
43759174 CAGCAATGCT
Statistics
Matches: 68, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
26 14 0.21
27 52 0.76
28 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.41
Consensus pattern (27 bp):
CTGGTGGCTCTACCATAATTATCTGTT
Found at i:43759147 original size:54 final size:53
Alignment explanation
Indices: 43759063--43759173 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 53
43759053 AGGAAGCATC
* * *
43759063 CTGGTGGCTATGCCATATTTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATACCATAATTATCTGATCTGGTGACTCTACCACAT-TATCTGTT
* * **
43759117 CTGGTGGCTCTACTATAATTATCT-ATTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATACCATAATTATCTGA-TCTGGTGACTCTACCACATTATCTGTT
43759170 CTGG
1 CTGG
43759174 CAGCAATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 13 0.27
54 36 0.73
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.41
Consensus pattern (53 bp):
CTGGTGGCTATACCATAATTATCTGATCTGGTGACTCTACCACATTATCTGTT
Found at i:43765204 original size:47 final size:45
Alignment explanation
Indices: 43765132--43765299 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 45
43765122 AGATTTGTGT
* *
43765132 GCCAGTGTAAGACATGTCTGTGACATGCATCGGCCAC-ATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATG-TA
* *
43765178 GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGATGTTA
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACGAGATG-TA
* * * *
43765225 ACCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTA
* *
43765269 GCTAGTGTAAGACATGTCTGGGATATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
43765300 AGCACGGTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
44 26 0.25
45 1 0.01
46 39 0.38
47 37 0.36
48 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTA
Found at i:43765252 original size:93 final size:90
Alignment explanation
Indices: 43765133--43765302 Score: 234
Period size: 93 Copynumber: 1.9 Consensus size: 90
43765123 GATTTGTGTG
* *
43765133 CCAGTGTAAGACATGTCTGTGACATGCATCGGCCAC-ATTATGATAGCCAGTGTAAGACCATGTC
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATG-T-GCCAGTGTAAGA-CATGTC
43765197 TGGGACATGCATCAGCCTCGAGATGTTAA
62 TGGGACATGCATCAGCCTCGAGATGTTAA
* * * *
43765226 CCAGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGCTAGTGTAAGACATGTCTGGG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTGCCAGTGTAAGACATGTCTGGG
*
43765291 ATATGCATCAGC
66 ACATGCATCAGC
43765303 ACGGTTACAT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 21 0.30
91 11 0.16
92 1 0.01
93 35 0.51
94 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (90 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTGCCAGTGTAAGACATGTCTGGG
ACATGCATCAGCCTCGAGATGTTAA
Found at i:43770130 original size:40 final size:40
Alignment explanation
Indices: 43770073--43770335 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 40
43770063 GATGATAACG
*
43770073 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
*
43770113 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
* * *
43770153 GGGCTAAGTCTCGAAGGAATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
* * *
43770193 GGGCTAAGTCTCGAAGGCATTTGTGTGAGTTACTATTTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
* * *
43770233 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
* **
43770273 GGGCTAAGTCTCGAAGGCATTTGTGCGAACTACTATATT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TTCC
**
43770313 GGGCTAAGTCAGGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
43770336 AGCTAGTAGC
Statistics
Matches: 198, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 197 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCC
Found at i:43770286 original size:120 final size:120
Alignment explanation
Indices: 43770073--43770335 Score: 411
Period size: 120 Copynumber: 2.2 Consensus size: 120
43770063 GATGATAACG
* * *
43770073 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTG
* **
43770138 CGAGTTACTATTTCTGGGCTAAGTCTCGAAGGAATTTGTGCGAGTTACTA-ATTCC
66 CGAGTTACTATATCTGGGCTAAGTCTCGAAGGAATTTGTGCGAACTACTATATT-C
* * *
43770193 GGGCTAAGTCTCGAAGGCATTTGTGTGAGTTACTATTTTCGGGCTAAGTCCCAAAGGCATTTGTG
1 GGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTG
*
43770258 CGAGTTACTATATCTGGGCTAAGTCTCGAAGGCATTTGTGCGAACTACTATATTC
66 CGAGTTACTATATCTGGGCTAAGTCTCGAAGGAATTTGTGCGAACTACTATATTC
*
43770313 GGGCTAAGTCAGGAAGGCATTTG
1 GGGCTAAGTCACGAAGGCATTTG
43770336 AGCTAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
120 128 0.98
121 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (120 bp):
GGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCAAAGGCATTTGTG
CGAGTTACTATATCTGGGCTAAGTCTCGAAGGAATTTGTGCGAACTACTATATTC
Found at i:43771483 original size:17 final size:17
Alignment explanation
Indices: 43771461--43771497 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
43771451 GGGGAGACTT
43771461 TAACTAATAAACTGTAC
1 TAACTAATAAACTGTAC
43771478 TAACTAATAAACTGTAC
1 TAACTAATAAACTGTAC
43771495 TAA
1 TAA
43771498 TTGGCCCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (17 bp):
TAACTAATAAACTGTAC
Found at i:43773107 original size:24 final size:24
Alignment explanation
Indices: 43773076--43773124 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
43773066 CCTATATGAT
43773076 TATTCTTATGCATGTATGTTATTA
1 TATTCTTATGCATGTATGTTATTA
43773100 TATTCTTATGCATGTATGTTATTA
1 TATTCTTATGCATGTATGTTATTA
43773124 T
1 T
43773125 CTTTTGTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.55
Consensus pattern (24 bp):
TATTCTTATGCATGTATGTTATTA
Found at i:43778401 original size:27 final size:27
Alignment explanation
Indices: 43778335--43778401 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
43778325 ATATCTCTGA
43778335 AAAAGGAAGCCTTTGTGCCGATATATG
1 AAAAGGAAGCCTTTGTGCCGATATATG
* * *
43778362 AAAAGGAAACCTTTGTGGCGATTTATG
1 AAAAGGAAGCCTTTGTGCCGATATATG
43778389 ATAAA-GAAGCCTT
1 A-AAAGGAAGCCTT
43778402 CATGGAGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.91
28 3 0.09
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTGCCGATATATG
Found at i:43779927 original size:27 final size:27
Alignment explanation
Indices: 43779897--43779998 Score: 159
Period size: 27 Copynumber: 3.8 Consensus size: 27
43779887 TCTTACCATA
* * *
43779897 AAGGGCAAAATAGTTATTTTACCTCAT
1 AAGGGCAAAACAATCATTTTACCTCAT
*
43779924 AAGGGCAAAACAATCATTTTACCACAT
1 AAGGGCAAAACAATCATTTTACCTCAT
43779951 AAGGGCAAAACAATCATTTTACCTCAT
1 AAGGGCAAAACAATCATTTTACCTCAT
*
43779978 AAGGGCAAAACAGTCATTTTA
1 AAGGGCAAAACAATCATTTTA
43779999 TCGATTAAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAACAATCATTTTACCTCAT
Found at i:43779946 original size:53 final size:54
Alignment explanation
Indices: 43779868--43779998 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
43779858 ACATACATCA
* * * * * * *
43779868 CATAGGGGTAAAACAGTCATCTTACCATA-AAGGGCAAAATAGTTATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
*
43779921 CATAAGGGCAAAACAATCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
43779975 CATAAGGGCAAAACAGTCATTTTA
1 CATAAGGGCAAAACAGTCATTTTA
43779999 TCGATTAAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 24 0.35
54 44 0.65
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (54 bp):
CATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAATCATTTTACCT
Found at i:43780007 original size:27 final size:25
Alignment explanation
Indices: 43779868--43780009 Score: 122
Period size: 27 Copynumber: 5.3 Consensus size: 25
43779858 ACATACATCA
* * * *
43779868 CATAGGGGTAAAACAGTCATCTTAC
1 CATAAGGGCAAAACAGTCATTTTAT
* *
43779893 CATAAAGGGCAAAATAGTTATTTTACCT
1 CAT-AAGGGCAAAACAGTCATTTTA--T
* *
43779921 CATAAGGGCAAAACAATCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTA--T
*
43779948 CATAAGGGCAAAACAATCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTA--T
43779975 CATAAGGGCAAAACAGTCATTTTAT
1 CATAAGGGCAAAACAGTCATTTTAT
43780000 CGATTAAGGG
1 C-A-TAAGGG
43780010 TCCAGGTACG
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.05
26 17 0.17
27 75 0.75
28 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (25 bp):
CATAAGGGCAAAACAGTCATTTTAT
Found at i:43787122 original size:28 final size:28
Alignment explanation
Indices: 43787061--43787158 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
43787051 TCACAAATTG
** * *
43787061 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
43787090 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
43787118 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
43787146 GCACTAAGTGTGC
1 GCACTAAGTGTGC
43787159 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:43794381 original size:39 final size:40
Alignment explanation
Indices: 43794309--43794487 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
43794299 AACCCAAGTA
* *
43794309 CCTTC-GGATTTAG-CCGGATATAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
43794347 CCTTCGGGTCTTAGCCCGGATATAGTCA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43794386 CCTTCGGGACTTA-CCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43794425 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
43794465 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43794488 CATTCGAATA
Statistics
Matches: 132, Mismatches: 4, Indels: 8
0.92 0.03 0.06
Matches are distributed among these distances:
38 19 0.14
39 52 0.39
40 60 0.45
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:43794451 original size:78 final size:79
Alignment explanation
Indices: 43794309--43794487 Score: 283
Period size: 78 Copynumber: 2.3 Consensus size: 79
43794299 AACCCAAGTA
* * * *
43794309 CCTTC-GGATTTAGCCGGATATAGCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTACCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
43794373 CA-TAGCACAAATG
66 CACTAGCACAAATG
43794386 CCTTCGGGACTTACCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTACCCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
43794450 TCACTAGCACAAATG
65 TCACTAGCACAAATG
43794465 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTA-CCCGGATAT
43794488 CATTCGAATA
Statistics
Matches: 94, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
77 5 0.05
78 55 0.59
79 25 0.27
80 9 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTACCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATG
Found at i:43802379 original size:40 final size:40
Alignment explanation
Indices: 43802297--43802477 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
43802287 AACCCAAGTA
* *
43802297 CCTTCGGGATTTAG-CCGGATATAG-AAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
43802335 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
43802375 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
43802415 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
43802455 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
43802478 CATTCGAATA
Statistics
Matches: 133, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 12 0.09
39 11 0.08
40 110 0.83
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:43811945 original size:15 final size:17
Alignment explanation
Indices: 43811915--43811946 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
43811905 TTGATACTTG
43811915 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
43811932 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
43811947 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:43814064 original size:20 final size:20
Alignment explanation
Indices: 43814039--43814076 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43814029 TGTTATTTTA
*
43814039 TTAATAAAATAAATAAAAGG
1 TTAATAAAATAAAGAAAAGG
43814059 TTAATAAAATAAAGAAAA
1 TTAATAAAATAAAGAAAA
43814077 CATGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
TTAATAAAATAAAGAAAAGG
Found at i:43815063 original size:38 final size:39
Alignment explanation
Indices: 43814992--43815076 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 39
43814982 GTGTTATACT
* * * * *
43814992 TTCTGTTTGGCATGATTCGAGTGGACTATCTCTTTTGAGC
1 TTCTG-TTAGCATGATTCGAGAGGACCAACTCTTATGAGC
43815032 TTCTGTTAGCATG-TTCGAGAGGACCAACTCTTATGAGC
1 TTCTGTTAGCATGATTCGAGAGGACCAACTCTTATGAGC
*
43815070 TTTTGTT
1 TTCTGTT
43815077 GACGATGTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 27 0.69
39 7 0.18
40 5 0.13
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (39 bp):
TTCTGTTAGCATGATTCGAGAGGACCAACTCTTATGAGC
Found at i:43816225 original size:53 final size:53
Alignment explanation
Indices: 43816166--43816269 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
43816156 TTTGATGCCT
43816166 TATTGATGTATGTTATTTTGACAACATGTTAATGCATGTTAAATAGCTAAATG
1 TATTGATGTATGTTATTTTGACAACATGTTAATGCATGTTAAATAGCTAAATG
* ** *
43816219 TATTGATGTGTGTTATTTTGACAATGTGTTAATGCATGTTAAATGGCTAAA
1 TATTGATGTATGTTATTTTGACAACATGTTAATGCATGTTAAATAGCTAAA
43816270 ATGGTTAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (53 bp):
TATTGATGTATGTTATTTTGACAACATGTTAATGCATGTTAAATAGCTAAATG
Found at i:43816258 original size:26 final size:26
Alignment explanation
Indices: 43816175--43816259 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
43816165 TTATTGATGT
**
43816175 ATGTTATTTTGACAACATGTTAATGC
1 ATGTTATTTTGACAATGTGTTAATGC
** * * * *
43816201 ATGTTAAATAG-CTAAATGTATTGATGT
1 ATGTTATTTTGAC--AATGTGTTAATGC
*
43816228 GTGTTATTTTGACAATGTGTTAATGC
1 ATGTTATTTTGACAATGTGTTAATGC
43816254 ATGTTA
1 ATGTTA
43816260 AATGGCTAAA
Statistics
Matches: 40, Mismatches: 16, Indels: 6
0.65 0.26 0.10
Matches are distributed among these distances:
25 1 0.03
26 23 0.57
27 15 0.38
28 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.44
Consensus pattern (26 bp):
ATGTTATTTTGACAATGTGTTAATGC
Found at i:43818464 original size:13 final size:13
Alignment explanation
Indices: 43818446--43818489 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
43818436 AGTAGATATC
43818446 ATACAACATAATG
1 ATACAACATAATG
* *
43818459 ATACAAGCAGATATC
1 ATACAA-CATA-ATG
43818474 ATACAACATAATG
1 ATACAACATAATG
43818487 ATA
1 ATA
43818490 GCATAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 11 0.44
14 6 0.24
15 8 0.32
ACGTcount: A:0.52, C:0.16, G:0.09, T:0.23
Consensus pattern (13 bp):
ATACAACATAATG
Found at i:43818470 original size:28 final size:28
Alignment explanation
Indices: 43818433--43818489 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
43818423 TGCAATGAGA
*
43818433 ACAAGTAGATATCATACAACATAATGAT
1 ACAAGCAGATATCATACAACATAATGAT
43818461 ACAAGCAGATATCATACAACATAATGAT
1 ACAAGCAGATATCATACAACATAATGAT
43818489 A
1 A
43818490 GCATAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.23
Consensus pattern (28 bp):
ACAAGCAGATATCATACAACATAATGAT
Found at i:43818479 original size:15 final size:15
Alignment explanation
Indices: 43818433--43818479 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
43818423 TGCAATGAGA
*
43818433 ACAAGTAGATATCAT
1 ACAAGCAGATATCAT
* *
43818448 ACAA-CATA-ATGAT
1 ACAAGCAGATATCAT
43818461 ACAAGCAGATATCAT
1 ACAAGCAGATATCAT
43818476 ACAA
1 ACAA
43818480 CATAATGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.21
Consensus pattern (15 bp):
ACAAGCAGATATCAT
Found at i:43819641 original size:21 final size:21
Alignment explanation
Indices: 43819617--43819665 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
43819607 ATTTTGGGTC
* *
43819617 AATTTGAATAATGTGAGTCAT
1 AATTAGAATAACGTGAGTCAT
* *
43819638 AATTAGGATAACGTGAGTCCT
1 AATTAGAATAACGTGAGTCAT
43819659 AATTAGA
1 AATTAGA
43819666 CTATATTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (21 bp):
AATTAGAATAACGTGAGTCAT
Found at i:43819961 original size:27 final size:27
Alignment explanation
Indices: 43819920--43819973 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
43819910 TGTCATGTGA
* *
43819920 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
43819947 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
43819974 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:43822065 original size:27 final size:28
Alignment explanation
Indices: 43822009--43822078 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
43821999 AAACTTGTAC
43822009 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
43822037 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
43822064 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43822079 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:43822089 original size:27 final size:27
Alignment explanation
Indices: 43822009--43822090 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
43821999 AAACTTGTAC
* *
43822009 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
43822037 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
43822064 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
43822091 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:43830094 original size:27 final size:28
Alignment explanation
Indices: 43830038--43830107 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
43830028 AAACTTGTAC
43830038 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
43830066 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
43830093 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43830108 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:43830118 original size:27 final size:27
Alignment explanation
Indices: 43830038--43830119 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
43830028 AAACTTGTAC
* *
43830038 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
43830066 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
43830093 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
43830120 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:43833088 original size:27 final size:28
Alignment explanation
Indices: 43833032--43833101 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
43833022 AAACTTGTAC
43833032 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
43833060 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
43833087 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
43833102 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:43833112 original size:27 final size:27
Alignment explanation
Indices: 43833032--43833113 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
43833022 AAACTTGTAC
* *
43833032 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
43833060 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
43833087 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
43833114 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:43845797 original size:48 final size:46
Alignment explanation
Indices: 43845720--43845941 Score: 193
Period size: 48 Copynumber: 4.8 Consensus size: 46
43845710 TCACATATCC
43845720 GTGCCGATGCCATGTCCCAGACATAGTCTTACACTAACACCTCTATGT
1 GTGCCGATGCCATGTCCCAGACAT-GTCTTACACTAACACCTCT-TGT
* * *
43845768 GTGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACATCTCGT
1 GTGCCGATGCCATGTCCCAGACAT-GTCTTACACTAACACCTCTTGT
* * * *
43845815 -AGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATCTT-A
1 GTGCCGATGCCATGTCCCAGACATGTCTTACACTAACAC-C-TCTTGT
* * * ** * * *
43845860 ATGCCGATGCTATGTCCTAGACATGGTCTTACACTCGCTCTTATAATGT
1 GTGCCGATGCCATGTCCCAGACAT-GTCTTACACTAACACCTCT--TGT
*
43845909 G-GCCGATG-CATGTCCTAGACATGTCTTACACTA
1 GTGCCGATGCCATGTCCCAGACATGTCTTACACTA
43845942 GTACACAAAT
Statistics
Matches: 145, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 13 0.09
45 13 0.09
46 29 0.20
47 27 0.19
48 63 0.43
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GTGCCGATGCCATGTCCCAGACATGTCTTACACTAACACCTCTTGT
Found at i:43845875 original size:92 final size:93
Alignment explanation
Indices: 43845722--43845942 Score: 243
Period size: 92 Copynumber: 2.4 Consensus size: 93
43845712 ACATATCCGT
* **
43845722 GCCGATGCCATGTCCCAGACATAGTCTTACACTAACACCTCTATGTGTGCCGATGCCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACCTCTATGAATGCCGATGCCATGTCCCA
*
43845787 AACATGGTCTTACACTAACAC-AT-CTCGTA
64 AACATGGTCTTACACTAACACTATAAT-GTA
* * *
43845816 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-T-AATGCCGATGCTATGTCCTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-C-TCTATGAATGCCGATGCCATGTCCCA
* ** * *
43845879 GACATGGTCTTACACTCGCTCTTATAATGTG
64 AACATGGTCTTACACTAACAC-TATAATGTA
*
43845910 GCCGATGCATGTCCTAGACATGTCTTACACTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG
43845943 TACACAAATA
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
92 46 0.42
93 16 0.15
94 46 0.42
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACCTCTATGAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAACACTATAATGTA
Found at i:43845948 original size:140 final size:143
Alignment explanation
Indices: 43845626--43845941 Score: 333
Period size: 140 Copynumber: 2.2 Consensus size: 143
43845616 GTATGATGCT
* * ** * *
43845626 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCG-AGTCAGACTCCATGTCCCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTAAC-A-C-ATCTCGTAG-CCGA-TGCATGTCCCAG
* **
43845690 ACATGGTCTAACACTAGCTTTCACATATCCGTGCCGATGCCATGTCCCAGACATAGTCTTACACT
61 ACATGGTCTAACACTAGCTCTCACATATCAATGCCGATGCCATGTCCCAGACATAGTCTTACACT
*
43845755 AACACCTCTATGTGTGCC
126 AACACCTATATGTGTGCC
43845773 GATGCCATGTCCCAAACATGGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACAT-
1 GATGCCATGTCCCAAACATGGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACATG
* * * * ** *
43845837 GTCTTACACTAGCTCTCATC-T-T-AATGCCGATGCTATGTCCTAGACATGGTCTTACACTCGCT
66 GTCTAACACTAGCTCTCA-CATATCAATGCCGATGCCATGTCCCAGACATAGTCTTACACTAACA
*
43845899 CTTATAATGTG-GCC
130 CCTAT-ATGTGTGCC
* *
43845913 GATG-CATGTCCTAGACAT-GTCTTACACTA
1 GATGCCATGTCCCAAACATGGTCTTACACTA
43845942 GTACACAAAT
Statistics
Matches: 146, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
138 11 0.08
139 12 0.08
140 42 0.29
141 6 0.04
142 17 0.12
143 16 0.11
144 7 0.05
145 3 0.02
146 1 0.01
147 31 0.21
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (143 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACATG
GTCTAACACTAGCTCTCACATATCAATGCCGATGCCATGTCCCAGACATAGTCTTACACTAACAC
CTATATGTGTGCC
Found at i:43846800 original size:31 final size:31
Alignment explanation
Indices: 43846757--43846835 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
43846747 TTTAACGGTT
43846757 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
43846788 ACTGGGCTGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
43846819 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
43846836 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:43846906 original size:42 final size:42
Alignment explanation
Indices: 43846859--43846950 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
43846849 TGGCCCATAG
* ** *
43846859 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
43846901 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
43846943 GCCCATTT
1 GCCCATTT
43846951 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:43847167 original size:26 final size:26
Alignment explanation
Indices: 43847083--43847218 Score: 188
Period size: 26 Copynumber: 5.3 Consensus size: 26
43847073 CTGGAGGCCT
* * *
43847083 AGCCTTTTTTAAT-AACTAGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
**
43847107 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
43847132 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
43847158 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
43847184 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
43847210 AGCCCTTTT
1 AGCCCTTTT
43847219 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
24 9 0.09
25 32 0.32
26 58 0.59
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:43847207 original size:52 final size:51
Alignment explanation
Indices: 43847083--43847218 Score: 222
Period size: 52 Copynumber: 2.7 Consensus size: 51
43847073 CTGGAGGCCT
* * *
43847083 AGCCTTTTTTAAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
43847132 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
43847184 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
43847219 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
49 11 0.14
50 9 0.11
51 25 0.31
52 36 0.44
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:43847296 original size:20 final size:20
Alignment explanation
Indices: 43847268--43847334 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
43847258 TTATGAATAC
43847268 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
43847288 ATTATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
43847308 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
43847328 ATCATGT
1 ATCATGT
43847335 ATATCATATC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.42
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:43847398 original size:25 final size:25
Alignment explanation
Indices: 43847370--43847417 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
43847360 ATAATTAAAC
* * *
43847370 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
*
43847395 CCTATGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
43847418 CATACGATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:43848108 original size:26 final size:26
Alignment explanation
Indices: 43848042--43848143 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
43848032 GGGCATATTC
43848042 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
43848069 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* * * ***
43848096 GTCTTTTTACCTATTAGGGGTATTTTA
1 GTCATTTTACCTA-CAAGGGTATTACG
43848123 GTCATTTTATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
43848144 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
26 5 0.08
27 47 0.80
28 7 0.12
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:43848190 original size:27 final size:26
Alignment explanation
Indices: 43848157--43848323 Score: 88
Period size: 27 Copynumber: 6.2 Consensus size: 26
43848147 TTGGTAAATC
43848157 TACAAATCAAGGGTATTTCTGTAATTT
1 TACAAAT-AAGGGTATTTCTGTAATTT
** *
43848184 TGTAAATTAGTGGTATTT-TGGTAATTT
1 TACAAATAAG-GGTATTTCT-GTAATTT
* *
43848211 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAA-TAAGGGTATTTCTGTAATTT
* **
43848238 CACAAACCAGTGGTATTT-TGGTAATTT
1 TACAAATAAG-GGTATTTCT-GTAATTT
* * *
43848265 TACAAACTAGGGGTGTTT-TGGTAATTC
1 TACAAA-TAAGGGTATTTCT-GTAATTT
** * *
43848292 TACCCTATAGGGGTATTTCAGTAATTT
1 TA-CAAATAAGGGTATTTCTGTAATTT
*
43848319 CACAA
1 TACAA
43848324 TCGAGGGTAA
Statistics
Matches: 106, Mismatches: 25, Indels: 19
0.71 0.17 0.13
Matches are distributed among these distances:
26 6 0.06
27 94 0.89
28 6 0.06
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (26 bp):
TACAAATAAGGGTATTTCTGTAATTT
Found at i:43848203 original size:54 final size:54
Alignment explanation
Indices: 43848145--43848270 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
43848135 TACAAGGGTG
* * * *** **
43848145 TTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTGTAAATTAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
**
43848199 TTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
43848253 TTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAA
43848271 CTAGGGGTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
Found at i:43848224 original size:81 final size:81
Alignment explanation
Indices: 43848139--43848290 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
43848129 TTATCCTACA
* * ** * *
43848139 AGGGTGTTTTGGTAAATCT-ACAAATCAAG-GGTATTTCT-GTAATTTTGTAAATTAGTGGTATT
1 AGGGTATTTCGGT-AATCTCACAAA-CAAGTGGTATTT-TGGTAATTTTACAAACTAGGGGTATT
43848201 TTGGTAATTTTACAAATTG
63 TTGGTAATTTTACAAATTG
* * *
43848220 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTGTTTTG
1 AGGGTATTTCGGTAATCTCACAAACAAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
43848285 GTAATT
66 GTAATT
43848291 CTACCCTATA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
80 8 0.14
81 51 0.86
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGTATTTCGGTAATCTCACAAACAAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
GTAATTTTACAAATTG
Found at i:43848330 original size:27 final size:27
Alignment explanation
Indices: 43848195--43848330 Score: 98
Period size: 27 Copynumber: 5.0 Consensus size: 27
43848185 GTAAATTAGT
* *
43848195 GGTATTTTGGTAATTTTACAAATTGA-G
1 GGTATTTTGGTAATTTCAC-AATCGAGG
* * * *
43848222 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTCACAATCGAGG
* * *
43848249 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTCACAATCGAGG
* * *
43848276 GGTGTTTTGGTAATTCTACCCTAT--AGG
1 GGTATTTTGGTAATT-T-CACAATCGAGG
**
43848303 GGTATTTCAGTAATTTCACAATCGAGG
1 GGTATTTTGGTAATTTCACAATCGAGG
43848330 G
1 G
43848331 TAAAATGGTA
Statistics
Matches: 84, Mismatches: 20, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
25 4 0.05
26 4 0.05
27 73 0.87
28 1 0.01
29 2 0.02
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (27 bp):
GGTATTTTGGTAATTTCACAATCGAGG
Found at i:43848352 original size:27 final size:27
Alignment explanation
Indices: 43848322--43848577 Score: 167
Period size: 27 Copynumber: 9.4 Consensus size: 27
43848312 GTAATTTCAC
* *
43848322 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* * * *
43848349 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
** *
43848376 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
*** *
43848403 AATCGAGGGTACTTTGGTAATTTT-TAA
1 AATCGAGGGTAAAATAGTAATTTTAT-A
* ** *
43848430 AAGTTGAGGGT-ATTTCAGTAATTTTACA
1 AA-TCGAGGGTAAAAT-AGTAATTTTATA
* * *** *
43848458 AATTAGGGGGTATTTTAGTAATTTTACA
1 AA-TCGAGGGTAAAATAGTAATTTTATA
* *** *
43848486 AA-CCAGGGGTATTTTAGTAATTTTGTA
1 AATCGA-GGGTAAAATAGTAATTTTATA
*
43848513 AATCGAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *
43848540 AATCAAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
43848567 AATCGAGGGTA
1 AATCGAGGGTA
43848578 GAACGGTAAT
Statistics
Matches: 187, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 143 0.76
28 40 0.21
29 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTATA
Found at i:43848468 original size:28 final size:27
Alignment explanation
Indices: 43848437--43848509 Score: 110
Period size: 28 Copynumber: 2.7 Consensus size: 27
43848427 TAAAAGTTGA
* **
43848437 GGGTATTTCAGTAATTTTACAAATTAGG
1 GGGTATTTTAGTAATTTTACAAACCA-G
43848465 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAACCAG
43848492 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
43848510 GTAAATCGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 19 0.45
28 23 0.55
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACCAG
Found at i:43848604 original size:27 final size:27
Alignment explanation
Indices: 43848502--43848596 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
43848492 GGGTATTTTA
* * *
43848502 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
43848529 GTAATTTTATAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
43848556 GTAATTTTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
43848583 GTAATTCTGTAAAT
1 GTAATTCTATAAAT
43848597 TGGGGGTACT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:43848612 original size:54 final size:54
Alignment explanation
Indices: 43848474--43848616 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 54
43848464 GGGGTATTTT
* * * * * *
43848474 AGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAAC
* * ** *
43848528 AGTAATTTTATAAATCAAGGGTAAAATGGTAATTTTATAAATCGAGGGTAGAAC
1 AGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAAC
* * ** *
43848582 GGTAATTCTGTAAATTGGGGGTACTTTGGTAATTT
1 AGTAATTCTATAAATCAGGGGTAATTTGGTAATTT
43848617 GGTAAACTAA
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (54 bp):
AGTAATTCTATAAATCAGGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAAC
Found at i:43855188 original size:46 final size:45
Alignment explanation
Indices: 43855121--43855295 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
43855111 TGTAACCTGC
*
43855121 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* * *
43855167 CCATAAGTGATCTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGTAT
* *** * * *
43855213 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGTAT
* *
43855260 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
43855296 ATGCCCAAAC
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 34 0.32
48 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGTAT
Found at i:43855242 original size:93 final size:93
Alignment explanation
Indices: 43855129--43855300 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
43855119 GCCCATAAGT
* * * * *
43855129 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGATCTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
43855194 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
43855222 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
43855287 TGAGTTCGGATGCC
66 CGAGCTCGGATGCC
43855301 CAAACATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:43855315 original size:46 final size:46
Alignment explanation
Indices: 43855172--43855315 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
43855162 CGTATCCATA
* * *
43855172 AGTGATCTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
43855221 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
* *
43855265 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
43855311 AGTGA
1 AGTGA
43855316 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
44 8 0.11
46 32 0.43
47 30 0.41
49 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:43857095 original size:6 final size:6
Alignment explanation
Indices: 43857084--43857119 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
43857074 CCTATGCTGT
43857084 TTGCTC TTGCTC TTGCTC TTGCTC TTGCTC TTGCTC
1 TTGCTC TTGCTC TTGCTC TTGCTC TTGCTC TTGCTC
43857120 GAGAACCCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
TTGCTC
Found at i:43860533 original size:40 final size:40
Alignment explanation
Indices: 43860488--43860654 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
43860478 CGGAATATAA
43860488 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43860528 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
43860568 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43860608 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43860647 CCGGATAT
1 CCGGATAT
43860655 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43860638 original size:80 final size:79
Alignment explanation
Indices: 43860488--43860654 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
43860478 CGGAATATAA
* *
43860488 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
43860553 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
43860568 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
43860630 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
43860647 CCGGATAT
1 CCGGATAT
43860655 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:43861502 original size:17 final size:19
Alignment explanation
Indices: 43861479--43861524 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43861469 AAGAAGCATG
43861479 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43861497 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43861515 AATCATGCTC
1 AATCATGCTC
43861525 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43868537 original size:40 final size:40
Alignment explanation
Indices: 43868492--43868658 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
43868482 CGGAATATAA
43868492 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43868532 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
43868572 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43868612 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43868651 CCGGATAT
1 CCGGATAT
43868659 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43868642 original size:80 final size:79
Alignment explanation
Indices: 43868492--43868658 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
43868482 CGGAATATAA
* *
43868492 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
43868557 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
43868572 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
43868634 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
43868651 CCGGATAT
1 CCGGATAT
43868659 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:43869506 original size:17 final size:19
Alignment explanation
Indices: 43869483--43869528 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43869473 AAGAAGCATG
43869483 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43869501 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43869519 AATCATGCTC
1 AATCATGCTC
43869529 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43871104 original size:94 final size:92
Alignment explanation
Indices: 43870979--43871149 Score: 213
Period size: 94 Copynumber: 1.8 Consensus size: 92
43870969 TCTCGTAACA
* * *
43870979 GATGCATGTTCCAGACATGTCTTACATTGGCT-TACAT-ATCGAGGTCGATACATGTCCCAGACA
1 GATGCATGTTCCAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCAATACATGTCCCAGACA
*
43871042 TGTCTTACATTAGCTCTTGTTTCTATGCC
64 TGTCTTACACTAGCTCTTGTTTCTATGCC
* * *
43871071 GATGCCATG-TCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCTAGAC
1 GATG-CATGTTCC-AGACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATACATGTCCCAGAC
43871135 ATGTCTTACACTAGC
63 ATGTCTTACACTAGC
43871150 AAACAAATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
92 7 0.10
93 10 0.15
94 47 0.70
95 3 0.04
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.32
Consensus pattern (92 bp):
GATGCATGTTCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCAATACATGTCCCAGACATG
TCTTACACTAGCTCTTGTTTCTATGCC
Found at i:43872371 original size:6 final size:6
Alignment explanation
Indices: 43872341--43872453 Score: 83
Period size: 6 Copynumber: 18.3 Consensus size: 6
43872331 AAGAAACATT
* *
43872341 ATCAGA A-CTAGA ATCA-A GATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA -ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
43872390 ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
43872440 ATCAGA ATCAGA AT
1 ATCAGA ATCAGA AT
43872454 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 26
0.72 0.07 0.22
Matches are distributed among these distances:
5 6 0.07
6 66 0.77
7 11 0.13
8 3 0.03
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:43872395 original size:25 final size:25
Alignment explanation
Indices: 43872362--43872453 Score: 166
Period size: 25 Copynumber: 3.7 Consensus size: 25
43872352 AATCAAGATG
43872362 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
43872387 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
43872412 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
43872437 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
43872454 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:43872660 original size:54 final size:53
Alignment explanation
Indices: 43872574--43872677 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 53
43872564 TGACTGCCAT
* * * * * *
43872574 AACAGATATTGTGACAGAGTCACTAGATACAGATATTGTGGTAGAGCCACCAG
1 AACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGAAAAGCCACCAG
* *
43872627 AACAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGAAAAGCCAC
1 AACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGAAAAGCCAC
43872678 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.19
54 34 0.81
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.20
Consensus pattern (53 bp):
AACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGAAAAGCCACCAG
Found at i:43872668 original size:27 final size:27
Alignment explanation
Indices: 43872574--43872677 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
43872564 TGACTGCCAT
* * *
43872574 AACAGATATTGTGACAGAGTCACTAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
* *
43872601 TACAGATATTGTGGTAGAGCCACCAG-
1 AACAGATATTGTGGCAGAGCCACCAGA
*
43872627 AACAGATATTTGTGGCATAGCCACCAGA
1 AACAGATA-TTGTGGCAGAGCCACCAGA
* * *
43872655 AACAGATAATGTGGAAAAGCCAC
1 AACAGATATTGTGGCAGAGCCAC
43872678 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.77
28 8 0.12
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.20
Consensus pattern (27 bp):
AACAGATATTGTGGCAGAGCCACCAGA
Found at i:43873278 original size:27 final size:27
Alignment explanation
Indices: 43873244--43873477 Score: 274
Period size: 27 Copynumber: 8.7 Consensus size: 27
43873234 GGGTATCCCG
*
43873244 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
43873271 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
43873298 GTAATTCTA-CCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
43873324 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
43873351 GTAATTCTACCTTACAGGTGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
43873378 GTAATTCTACCCTATAGGGGAATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
43873404 GATAATTCTACCTTATAAGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* **
43873432 GTAATTCTACCCTAAAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
43873459 GTAATTCTACCTTACAGGG
1 GTAATTCTACCCTACAGGG
43873478 TTTAGGGTTT
Statistics
Matches: 177, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 24 0.14
27 152 0.86
28 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:43873300 original size:54 final size:54
Alignment explanation
Indices: 43873233--43873477 Score: 341
Period size: 54 Copynumber: 4.6 Consensus size: 54
43873223 ATTTTACCCG
** * *
43873233 AGGGTATCCCGGTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACA
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATA
*
43873287 AGGGTATTTCGGTAATTCTACC-TATAGGGGTATTTCAGTAATTCTACCCTATA
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATA
* *
43873340 GGGGTATTTCGGTAATTCTACCTTACAGGTGTATTTCAGTAATTCTACCCTATA
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATA
* * * * * *
43873394 GGGGAATTTCGATAATTCTACCTTATAAGGGTATTTTAGTAATTCTACCCTA-A
1 AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATA
*
43873447 AGGGGTATTTTGGTAATTCTACCTTACAGGG
1 A-GGGTATTTCGGTAATTCTACCTTACAGGG
43873478 TTTAGGGTTT
Statistics
Matches: 169, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 50 0.30
54 119 0.70
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATA
Found at i:43873429 original size:81 final size:80
Alignment explanation
Indices: 43873244--43873469 Score: 303
Period size: 81 Copynumber: 2.8 Consensus size: 80
43873234 GGGTATCCCG
* *
43873244 GTAATTCTACCTTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTA-C
1 GTAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTAC-AGGGTATTTCGGTAATTCTACC
*
43873308 CTATAGGGGTATTTCA
65 CTATAGGGGAATTTCA
* * * *
43873324 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGGTGTATTTCAGTAATTCTACC
1 GTAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTACAGG-GTATTTCGGTAATTCTACC
43873389 CTATAGGGGAATTTC-
65 CTATAGGGGAATTTCA
* * * *
43873404 GATAATTCTACCTTATAAGGGTATTTTAGTAATTCTACCCTAAAGGGGTATTTTGGTAATTCTAC
1 G-TAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTACA-GGGTATTTCGGTAATTCTAC
43873469 C
64 C
43873470 TTACAGGGTT
Statistics
Matches: 127, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.02
80 54 0.43
81 68 0.54
82 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (80 bp):
GTAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCC
TATAGGGGAATTTCA
Found at i:43873486 original size:7 final size:7
Alignment explanation
Indices: 43873474--43873534 Score: 104
Period size: 7 Copynumber: 8.6 Consensus size: 7
43873464 TCTACCTTAC
43873474 AGGGTTT
1 AGGGTTT
43873481 AGGGTTT
1 AGGGTTT
43873488 AGGGTTT
1 AGGGTTT
43873495 AGGGTTT
1 AGGGTTT
43873502 AGGGTTT
1 AGGGTTT
43873509 AGGGTTTT
1 AGGG-TTT
43873517 AGGGTTT
1 AGGGTTT
*
43873524 TGGGTTT
1 AGGGTTT
43873531 AGGG
1 AGGG
43873535 AATATTATGG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
7 44 0.86
8 7 0.14
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:43873500 original size:21 final size:22
Alignment explanation
Indices: 43873474--43873534 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
43873464 TCTACCTTAC
43873474 AGGGTTTAGGGTTTAGGG-TTT
1 AGGGTTTAGGGTTTAGGGTTTT
43873495 AGGGTTTAGGGTTTAGGGTTTT
1 AGGGTTTAGGGTTTAGGGTTTT
*
43873517 AGGGTTTTGGGTTTAGGG
1 AGGGTTTAGGGTTTAGGG
43873535 AATATTATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 18 0.47
22 20 0.53
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.43
Consensus pattern (22 bp):
AGGGTTTAGGGTTTAGGGTTTT
Found at i:43874064 original size:15 final size:15
Alignment explanation
Indices: 43874044--43874090 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
43874034 GTTGTAAATG
43874044 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
43874059 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
43874074 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
43874089 GG
1 GG
43874091 GCTTCTCCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:43876911 original size:48 final size:48
Alignment explanation
Indices: 43876829--43877052 Score: 177
Period size: 47 Copynumber: 4.8 Consensus size: 48
43876819 TACCACAGTT
* * * *
43876829 ATACGTGTAACGTGGTGCTAAGTGGAAATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTG
* * *
43876877 CTACATGTAACATGGTGCTAAGTCGATATGCCACGCCATGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACG--A---TTACATATATTG
* *
43876930 ATTCAT-TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTG
* * * * *
43876977 ATTCGT-TAAGGTGATGCTAAGTGGATAT------ATCACAGT-TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACA-TATATTG
43877015 A-ACATGTAACGTGGTGCTAAGTGGATATGCCACGATTA
1 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTA
43877053 TACATGTTAA
Statistics
Matches: 141, Mismatches: 22, Indels: 30
0.73 0.11 0.16
Matches are distributed among these distances:
37 2 0.01
38 21 0.15
41 6 0.04
42 1 0.01
44 3 0.02
47 37 0.26
48 29 0.21
50 1 0.01
52 26 0.18
53 15 0.11
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTG
Found at i:43876969 original size:47 final size:47
Alignment explanation
Indices: 43876836--43877004 Score: 185
Period size: 47 Copynumber: 3.5 Consensus size: 47
43876826 GTTATACGTG
* * * * * *
43876836 TAACGTGGTGCTAAGTGGAAATACCACGATTACACATATTGCTACAT
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
* *
43876883 GTAACATGGTGCTAAGTCGATATGCCACGCCATGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATGCCA---C--GGTTACATATATTGATTCAT
*
43876936 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCGT
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
* *
43876983 TAAGGTGATGCTAAGTGGATAT
1 TAACGTGGTGCTAAGTGGATAT
43877005 ATCACAGTTA
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
47 39 0.38
48 22 0.21
49 1 0.01
51 1 0.01
52 24 0.23
53 16 0.16
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
Found at i:43879393 original size:14 final size:13
Alignment explanation
Indices: 43879370--43879401 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
43879360 GGAATATCAA
43879370 AACAATAATTAAG
1 AACAATAATTAAG
43879383 AACACATAATTAAG
1 AACA-ATAATTAAG
43879397 AACAA
1 AACAA
43879402 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:43886233 original size:8 final size:8
Alignment explanation
Indices: 43886220--43886244 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
43886210 ATTAGGGACT
43886220 AAAATGTG
1 AAAATGTG
43886228 AAAATGTG
1 AAAATGTG
43886236 AAAATGTG
1 AAAATGTG
43886244 A
1 A
43886245 GGGCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:43889362 original size:32 final size:32
Alignment explanation
Indices: 43889325--43889390 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
43889315 TGCGATTGGA
43889325 ATTCTTGAGCGAATTCCTAAAAATGATTATCG
1 ATTCTTGAGCGAATTCCTAAAAATGATTATCG
43889357 ATTCTTGAGCGAATTCCTAAAAATGATTATCG
1 ATTCTTGAGCGAATTCCTAAAAATGATTATCG
43889389 AT
1 AT
43889391 ACCCTATCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
ATTCTTGAGCGAATTCCTAAAAATGATTATCG
Found at i:43892080 original size:49 final size:49
Alignment explanation
Indices: 43892003--43892216 Score: 347
Period size: 49 Copynumber: 4.4 Consensus size: 49
43891993 ATCAAGATTC
* * * *
43892003 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
43892052 GCGAAAATGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
43892101 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
43892150 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
43892199 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATGTATAT
43892217 ATGTGGTAAA
Statistics
Matches: 154, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 154 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:43895522 original size:29 final size:29
Alignment explanation
Indices: 43895489--43895620 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
43895479 GTGACGAGAT
43895489 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
43895518 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
43895547 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
43895576 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
43895605 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
43895621 GGCTTAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:43903535 original size:29 final size:29
Alignment explanation
Indices: 43903502--43903633 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
43903492 GTGACGAGAT
43903502 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
43903531 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
43903560 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
43903589 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
43903618 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
43903634 GGCTTAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:43907114 original size:42 final size:42
Alignment explanation
Indices: 43907008--43907119 Score: 143
Period size: 42 Copynumber: 2.7 Consensus size: 42
43906998 GGTTATCATG
* * * * *
43907008 TAAGACCATATCTGGGATATGACGTTGATATGAGATTTCGTG
1 TAAGACCATATCTGGGATATGGCGTCGAAATGAGAATTCGTA
* * *
43907050 TAAGACCACATGTGGGACATGGCGTCGAAATGAGAATTCGTA
1 TAAGACCATATCTGGGATATGGCGTCGAAATGAGAATTCGTA
*
43907092 TAAGACCATATCTGGGATATGGCATCGA
1 TAAGACCATATCTGGGATATGGCGTCGA
43907120 TGTGATATCC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCGTCGAAATGAGAATTCGTA
Found at i:43912715 original size:40 final size:40
Alignment explanation
Indices: 43912670--43912837 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
43912660 CGGAATATAA
43912670 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
43912710 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
43912750 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43912790 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
43912830 CCGGATAT
1 CCGGATAT
43912838 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43912820 original size:80 final size:80
Alignment explanation
Indices: 43912686--43912835 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
43912676 ATAATCACGT
*
43912686 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
43912750 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
43912766 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
43912829 CCCGGAT
64 CCCGGAT
43912836 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:43920455 original size:40 final size:40
Alignment explanation
Indices: 43920410--43920577 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
43920400 CGGAATATAA
43920410 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
43920450 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
43920490 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43920530 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
43920570 CCGGATAT
1 CCGGATAT
43920578 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43920560 original size:80 final size:80
Alignment explanation
Indices: 43920426--43920575 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
43920416 ATAATCACGT
*
43920426 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
43920490 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
43920506 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
43920569 CCCGGAT
64 CCCGGAT
43920576 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:43925647 original size:42 final size:42
Alignment explanation
Indices: 43925538--43925691 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 42
43925528 GTATGGGTTA
* *
43925538 TCATGTAAGACCATATCTGGGATATGGCGTTGATATGAGAAT
1 TCATGTAAGACCATATCTGGGATATGGCGTCGAAATGAGAAT
** * * *
43925580 TTGTGTAAGACTACAACTGGGATATGGCGTCGAAATGAGAAT
1 TCATGTAAGACCATATCTGGGATATGGCGTCGAAATGAGAAT
* * * **
43925622 TCATATAAGACCATATCTGGAATATGGCATCGATGTGAG-AT
1 TCATGTAAGACCATATCTGGGATATGGCGTCGAAATGAGAAT
* * *
43925663 CCCATGTAAGACCATGTCTGGGACATGGC
1 -TCATGTAAGACCATATCTGGGATATGGC
43925692 ATTGGCATCT
Statistics
Matches: 89, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
41 2 0.02
42 87 0.98
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (42 bp):
TCATGTAAGACCATATCTGGGATATGGCGTCGAAATGAGAAT
Found at i:43934064 original size:55 final size:56
Alignment explanation
Indices: 43933999--43934103 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
43933989 AGCATGGCTG
* *
43933999 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCAGTGCCA
* * *
43934055 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
43934104 TATCCACCAG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
55 21 0.49
56 22 0.51
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCAGTGCCA
Done.