Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 284 of 333
Found at i:94052069 original size:26 final size:26
Alignment explanation
Indices: 94052039--94052110 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
94052029 TATTTATAAT
94052039 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
94052065 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
94052091 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
94052111 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:94052137 original size:17 final size:17
Alignment explanation
Indices: 94052115--94052158 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
94052105 ATTTAAACAA
94052115 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
94052132 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
94052149 GTTTTAGTAA
1 ATTTTAGTAA
94052159 TAAATTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:94055008 original size:40 final size:40
Alignment explanation
Indices: 94054930--94055008 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
94054920 AAACACAAAA
* * * * * *
94054930 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
94054970 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
94055009 TACATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
Found at i:94055105 original size:114 final size:114
Alignment explanation
Indices: 94054865--94055180 Score: 560
Period size: 114 Copynumber: 2.8 Consensus size: 114
94054855 AATAAACACC
94054865 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* *
94054930 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGTAACATATTT
66 TAACA-TTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
* *
94054980 TGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACATAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* * *
94055045 TAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTT
66 TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
94055094 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
94055159 TAACATTTTTGCGGCGTTTTAA
66 TAACATTTTTGCGGCGTTTTAA
94055181 TAAAAACGCC
Statistics
Matches: 190, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
114 122 0.64
115 68 0.36
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (114 bp):
TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
Found at i:94055122 original size:40 final size:39
Alignment explanation
Indices: 94055045--94055122 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
94055035 AAACACATAA
* * *
94055045 TAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAG
1 TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
*
94055084 TAACATCTTTTGCGGCGTTTTAACAA-AAACGCCACTAAA
1 TAACAT-TTTTGCGGCATTTTAA-AAGAAACGCCACTAAA
94055123 TACATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 6 0.18
40 25 0.76
41 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
Found at i:94055271 original size:75 final size:74
Alignment explanation
Indices: 94055084--94055255 Score: 308
Period size: 75 Copynumber: 2.3 Consensus size: 74
94055074 GCCGCTAAAG
94055084 TAACATCTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACAT-TTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
94055149 AAACACAAAA
65 AAACACAAAA
*
94055159 TAACATTTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGT
1 TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGT
94055224 AAACACAAAA
65 AAACACAAAA
*
94055234 TAACATTCTTGCGGCGTTTTAA
1 TAACATTTTTGCGGCGTTTTAA
94055256 GATAAGCGCC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
74 36 0.38
75 58 0.62
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (74 bp):
TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
AACACAAAA
Found at i:94055296 original size:189 final size:188
Alignment explanation
Indices: 94054970--94055347 Score: 578
Period size: 189 Copynumber: 2.0 Consensus size: 188
94054960 GCCGCTAAAG
94054970 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
* * * * *
94055035 AAACACATAATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTTTGCGGC
66 AAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGGC
* * *
94055100 GTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
131 GTTTTAACAAAAACGCCACTAAAAACAT-AAAAACGATCACGTTTCGGTAAACACAAAA
* *
94055159 TAACAT-TTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGG
* * * *
94055223 TAAACACAAAATAACATTCTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGCAAGATCTTTTCCGG
65 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGG
** *
94055288 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATTTCGTTTCGGTCAACACAAAA
130 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
94055347 T
1 T
94055348 CCAACAAAAC
Statistics
Matches: 171, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
188 61 0.36
189 110 0.64
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (188 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
AAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGCAACATCTTTTCCGGC
GTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
Found at i:94055544 original size:113 final size:115
Alignment explanation
Indices: 94055344--94055628 Score: 315
Period size: 114 Copynumber: 2.5 Consensus size: 115
94055334 GGTCAACACA
* * * ** * * * * *** **
94055344 AAATCCAACAAAACGGCAACGTTTTTATTATAACCCATTGAAATTTTGTGGCGTTTCCAACGCAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
94055409 CGCCGCTAAAGGCTGACGTTTT-CGGCGTTTTACAAAAAACGCCACTAAT
66 CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * *
94055458 AAATCCTACACCACGGCAGCG-TTTTATTAAAACAGAATCACATTTTGCGGCGTTTTTGACATAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
94055522 CGCCGCTAAAGGATGATC-TTTTCCGGCGTTTTACCAAAAACGCCAGTAAG
66 CGCCGCTAAAGGATGA-CGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * * *
94055572 AAATCTTACAGAACGGCAACGTTTTTATTGAAACAAAATCACATTTTGCGGTGTTTT
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTT
94055629 ACCCAAAACG
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
113 50 0.35
114 59 0.42
115 32 0.23
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (115 bp):
AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
Found at i:94056145 original size:7 final size:7
Alignment explanation
Indices: 94056133--94056306 Score: 60
Period size: 7 Copynumber: 25.1 Consensus size: 7
94056123 ACTAATCAAT
94056133 CTAAACC
1 CTAAACC
*
94056140 CTAAACA
1 CTAAACC
94056147 C-ATAACC
1 CTA-AACC
94056154 CTTAAATCC
1 C-TAAA-CC
94056163 CTTAAACC
1 C-TAAACC
94056171 CTAAACC
1 CTAAACC
*
94056178 C-AAATC
1 CTAAACC
* *
94056184 ATAATCC
1 CTAAACC
94056191 CTAAA-C
1 CTAAACC
*
94056197 CT--AGC
1 CTAAACC
*
94056202 CTAGACC
1 CTAAACC
*
94056209 CTGAACC
1 CTAAACC
*
94056216 C-CAACC
1 CTAAACC
94056222 CGTAAACC
1 C-TAAACC
*
94056230 TTAAACC
1 CTAAACC
*
94056237 C-CAACC
1 CTAAACC
94056243 CT-AACC
1 CTAAACC
94056249 CGTAAACC
1 C-TAAACC
*
94056257 TTAAACC
1 CTAAACC
*
94056264 C-CAACTC
1 CTAAAC-C
*
94056271 GTAAACC
1 CTAAACC
*
94056278 CTAAACT
1 CTAAACC
*
94056285 GTAAACC
1 CTAAACC
* * *
94056292 ATAATCA
1 CTAAACC
94056299 CTAAACC
1 CTAAACC
94056306 C
1 C
94056307 ATAATTTGCA
Statistics
Matches: 121, Mismatches: 31, Indels: 30
0.66 0.17 0.16
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
6 26 0.21
7 66 0.55
8 16 0.13
9 9 0.07
ACGTcount: A:0.40, C:0.39, G:0.04, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:94056236 original size:21 final size:21
Alignment explanation
Indices: 94056212--94056283 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 21
94056202 CTAGACCCTG
94056212 AACCCCAACCCGTAAACCTTA
1 AACCCCAACCCGTAAACCTTA
94056233 AACCCCAACCCTAACCCGTAAACCTTA
1 AA---C--CCC-AACCCGTAAACCTTA
* *
94056260 AACCCCAACTCGTAAACCCTA
1 AACCCCAACCCGTAAACCTTA
94056281 AAC
1 AAC
94056284 TGTAAACCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
21 18 0.42
22 3 0.07
24 2 0.05
26 3 0.07
27 17 0.40
ACGTcount: A:0.39, C:0.43, G:0.04, T:0.14
Consensus pattern (21 bp):
AACCCCAACCCGTAAACCTTA
Found at i:94056242 original size:27 final size:27
Alignment explanation
Indices: 94056212--94056268 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
94056202 CTAGACCCTG
94056212 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
*
94056239 AACCCTAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
94056266 AAC
1 AAC
94056269 TCGTAAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.46, G:0.04, T:0.12
Consensus pattern (27 bp):
AACCCCAACCCGTAAACCTTAAACCCC
Found at i:94056256 original size:20 final size:21
Alignment explanation
Indices: 94056212--94056256 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
94056202 CTAGACCCTG
*
94056212 AACCCCAACCCGTAAACCTTA
1 AACCCCAACCCGTAAACCGTA
*
94056233 AACCCCAACCC-TAACCCGTA
1 AACCCCAACCCGTAAACCGTA
94056253 AACC
1 AACC
94056257 TTAAACCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.38, C:0.47, G:0.04, T:0.11
Consensus pattern (21 bp):
AACCCCAACCCGTAAACCGTA
Found at i:94056833 original size:73 final size:72
Alignment explanation
Indices: 94056738--94056875 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
94056728 AAAGACTCGA
94056738 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
94056802 AGCCTCCC
65 AGCCTCCC
* * * * * *
94056810 AAACTAAGAAAAACGATGTCGTTGGGCTTCGGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAA
1 AAACTAAG-AAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAA
94056875 A
65 A
94056876 ACATTGAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.14
73 45 0.78
74 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:94056929 original size:114 final size:114
Alignment explanation
Indices: 94056775--94057101 Score: 399
Period size: 113 Copynumber: 2.9 Consensus size: 114
94056765 TAGGCTTTTT
** * ** *
94056775 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * * *
94056840 GGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAAAACATTGAGCATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * *
94056889 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGACGTTGGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * *
94056953 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * * *
94057002 -CTTGCGC-TTCTCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTT
1 GC-GGCGCTTTC-CCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCT
*
94057065 TAGGTTTTTAGCGGCGCTTTTTAAGAAACGCCGCTAA
64 TAGGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAA
94057102 TGCTCATTAT
Statistics
Matches: 181, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
112 4 0.02
113 92 0.51
114 85 0.47
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
Found at i:94057115 original size:39 final size:38
Alignment explanation
Indices: 94057072--94057201 Score: 127
Period size: 39 Copynumber: 3.3 Consensus size: 38
94057062 GTTTAGGTTT
* *
94057072 TTAGCGGCGCTTTTTAAGAAACGCCGCTAATGCTCATTA
1 TTAGCGGCGTTTTTTAA-AAACGCCGCTAATGCTAATTA
* * * *
94057111 TTAGCGGCGTTTTTGTAAAAGCGCCGGTAATACTGA-TA
1 TTAGCGGCGTTTTT-TAAAAACGCCGCTAATGCTAATTA
* * *
94057149 TTTAGCGGCGTTTTTTTTAAATCGCCGCTAATGCTTAATTT
1 -TTAGCGGCG-TTTTTTAAAAACGCCGCTAATGC-TAATTA
94057190 TTAGCGGCGTTT
1 TTAGCGGCGTTT
94057202 GTTGTCCAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
38 2 0.03
39 53 0.71
40 19 0.25
41 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (38 bp):
TTAGCGGCGTTTTTTAAAAACGCCGCTAATGCTAATTA
Found at i:94058659 original size:3 final size:3
Alignment explanation
Indices: 94058651--94058681 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
94058641 AAATCTATTG
94058651 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
94058682 TAGTATGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:94061127 original size:13 final size:12
Alignment explanation
Indices: 94061097--94061129 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
94061087 ATTTTGACAC
94061097 AAATAATAATAG
1 AAATAATAATAG
94061109 -AATAATATATAG
1 AAATAATA-ATAG
94061121 AAATAATAA
1 AAATAATAA
94061130 ACTATTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.37
12 5 0.26
13 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (12 bp):
AAATAATAATAG
Found at i:94061598 original size:15 final size:15
Alignment explanation
Indices: 94061554--94061624 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
94061544 AAGTTATGGA
*
94061554 TTTAATTTTTATA-T
1 TTTAGTTTTTATATT
** *
94061568 TTTAGTTTGAACATT
1 TTTAGTTTTTATATT
94061583 TTTAGTTTTTATATTT
1 TTTAGTTTTTATA-TT
** * *
94061599 TTTAAATTTTAAAAT
1 TTTAGTTTTTATATT
94061614 TTTAGTTTTTA
1 TTTAGTTTTTA
94061625 ATAAACGATA
Statistics
Matches: 42, Mismatches: 13, Indels: 3
0.72 0.22 0.05
Matches are distributed among these distances:
14 9 0.21
15 21 0.50
16 12 0.29
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTAGTTTTTATATT
Found at i:94062192 original size:17 final size:17
Alignment explanation
Indices: 94062143--94062192 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
94062133 TTATTGGTAA
94062143 AAATTGACATGATTAAT
1 AAATTGACATGATTAAT
* *
94062160 AAAAT-A-AT--TAAAT
1 AAATTGACATGATTAAT
94062173 AAATTGACATGATTAAT
1 AAATTGACATGATTAAT
94062190 AAA
1 AAA
94062193 ATAATTAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
13 8 0.32
14 1 0.04
15 4 0.16
16 1 0.04
17 11 0.44
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (17 bp):
AAATTGACATGATTAAT
Found at i:94062194 original size:18 final size:18
Alignment explanation
Indices: 94062142--94062194 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
94062132 TTTATTGGTA
94062142 AAAATTGACATGATTAAT
1 AAAATTGACATGATTAAT
*
94062160 AAAA-T-A-AT--TAAAT
1 AAAATTGACATGATTAAT
94062173 -AAATTGACATGATTAAT
1 AAAATTGACATGATTAAT
94062190 AAAAT
1 AAAAT
94062195 AATTAGATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 5 0.19
14 1 0.04
15 4 0.15
16 1 0.04
17 5 0.19
18 8 0.30
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (18 bp):
AAAATTGACATGATTAAT
Found at i:94062214 original size:30 final size:30
Alignment explanation
Indices: 94062143--94062199 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
94062133 TTATTGGTAA
94062143 AAATTGACATGATTAATAAAATAATTAAAT
1 AAATTGACATGATTAATAAAATAATTAAAT
94062173 AAATTGACATGATTAATAAAATAATTA
1 AAATTGACATGATTAATAAAATAATTA
94062200 GATAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (30 bp):
AAATTGACATGATTAATAAAATAATTAAAT
Found at i:94064683 original size:27 final size:27
Alignment explanation
Indices: 94064650--94064732 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
94064640 TAGAATACTT
* *
94064650 TAGTTTACCAAATTACCAAAATACCCT
1 TAGTTTACAAAATTACCAAAATACCCC
*
94064677 TGGTTTACAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
**
94064704 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
94064731 TA
1 TA
94064733 ATTTGTGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Found at i:94064737 original size:27 final size:27
Alignment explanation
Indices: 94064659--94064756 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
94064649 TTAGTTTACC
* * **
94064659 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
94064686 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
94064713 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTA
**
94064740 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
94064757 TCGACCTGTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:94064809 original size:27 final size:27
Alignment explanation
Indices: 94064659--94064811 Score: 121
Period size: 27 Copynumber: 5.7 Consensus size: 27
94064649 TTAGTTTACC
* **
94064659 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
94064686 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
** *
94064713 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GGTTTGTA
** ***
94064740 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*** *
94064767 AAATTATTGAAATACCCTCGGCTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
94064794 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
94064812 TAATTTATAG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 104 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:94064836 original size:27 final size:27
Alignment explanation
Indices: 94064830--94064945 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
94064820 AGAATTATCG
* * *
94064830 TTTTACCCTCGATTGACAGAATTACTA
1 TTTTACCCTCGATTTACAAAATTACCA
* **
94064857 TTTTACCCTCGATTTAGAAAATTATTA
1 TTTTACCCTCGATTTACAAAATTACCA
*
94064884 TTTTACCATCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTACAAAATTACCA
* *
94064911 TTTTACCCTTGATTTATAAAATTACCA
1 TTTTACCCTCGATTTACAAAATTACCA
94064938 TTTTACCC
1 TTTTACCC
94064946 CTAGGGTGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAAAATTACCA
Found at i:94064853 original size:54 final size:54
Alignment explanation
Indices: 94064806--94064945 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
94064796 ATTACCAAAG
* * * * *
94064806 TACCCTTAATTTATAGAATTATCGTTTTACCCTCGATTGACAGAATTACTATTT
1 TACCCTTGATTTATAAAATTATCATTTTACCCTCGATTGACAAAATTACCATTT
* * * * *
94064860 TACCCTCGATTTAGAAAATTATTATTTTACCATCGATTTACAAAATTACCATTT
1 TACCCTTGATTTATAAAATTATCATTTTACCCTCGATTGACAAAATTACCATTT
*
94064914 TACCCTTGATTTATAAAATTACCATTTTACCC
1 TACCCTTGATTTATAAAATTATCATTTTACCC
94064946 CTAGGGTGTT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.41
Consensus pattern (54 bp):
TACCCTTGATTTATAAAATTATCATTTTACCCTCGATTGACAAAATTACCATTT
Found at i:94065478 original size:25 final size:25
Alignment explanation
Indices: 94065450--94065514 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
94065440 CATTCACATC
* *
94065450 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTCATA
*
94065475 CTGATTCTGATTCTGTTACCTCATT
1 CTGATTCTGATTCTGTTACCTCATA
*
94065500 CTGATTCTGGTTCTG
1 CTGATTCTGATTCTG
94065515 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTCATA
Found at i:94065486 original size:6 final size:6
Alignment explanation
Indices: 94065450--94065627 Score: 107
Period size: 6 Copynumber: 28.8 Consensus size: 6
94065440 CATTCACATC
* * *
94065450 CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT CTG-TT ACCTCATT
1 CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT --CTGATT
* * *
94065500 CTGATT CTGGTT CTGATT CTGATT CTG-TT ACCTAATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * * *
94065549 CTG-TT ACCTAATT CTGATT CTAATT TTGATT TTGATT CTG-TCAC CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT
*
94065599 CTGATT TTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGA-TT CTGAT
94065628 AATGTTTCTT
Statistics
Matches: 133, Mismatches: 22, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
5 10 0.08
6 103 0.77
7 13 0.10
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:94065517 original size:37 final size:37
Alignment explanation
Indices: 94065469--94065551 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
94065459 ATTCTGTTAC
* * *
94065469 CTGATACTGATTCTGATTCTGTTACCTCATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
*
94065506 CTGGTTCTGATTCTGATTCTGTTACCTAATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
94065543 CTGATTCTG
1 CTGATTCTG
94065552 TTACCTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:94065542 original size:25 final size:25
Alignment explanation
Indices: 94065512--94065569 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
94065502 GATTCTGGTT
94065512 CTGATTCTGATTCTGTTACCTAATA
1 CTGATTCTGATTCTGTTACCTAATA
*
94065537 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
94065562 CTGATTCT
1 CTGATTCT
94065570 AATTTTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:94065547 original size:62 final size:62
Alignment explanation
Indices: 94065450--94065613 Score: 247
Period size: 62 Copynumber: 2.6 Consensus size: 62
94065440 CATTCACATC
* **
94065450 CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTCATTCTGATTCTGGTT
1 CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAATT
* *
94065512 CTGATTCTGATTCTGTTACCTAATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAATT
1 CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAATT
* * * *
94065574 TTGATTTTGATTCTGTCACCTGATTCTGATTTTGATTCTG
1 CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
94065614 ATTCTAGTTC
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 91 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (62 bp):
CTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTAATT
Found at i:94065579 original size:31 final size:29
Alignment explanation
Indices: 94065503--94065579 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 29
94065493 CCTCATTCTG
*
94065503 ATTCTGGTTCTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCT-ATT-TGATTCTGTTACCTA
*
94065534 ATACTGATTC----TGATTCTGTTACCTA
1 ATTCTGATTCTATTTGATTCTGTTACCTA
94065559 ATTCTGATTCTAATTTTGATT
1 ATTCTGATTCT-A-TTTGATT
94065580 TTGATTCTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
25 24 0.65
31 13 0.35
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (29 bp):
ATTCTGATTCTATTTGATTCTGTTACCTA
Found at i:94065625 original size:37 final size:37
Alignment explanation
Indices: 94065531--94065618 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
94065521 ATTCTGTTAC
* *
94065531 CTAATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTAATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* * *
94065568 CTAATTTTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTAATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* *
94065605 TTGATTCTGATTCT
1 CTAATTCTGATTCT
94065619 AGTTCTGATA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.50
Consensus pattern (37 bp):
CTAATTCTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:94072715 original size:6 final size:6
Alignment explanation
Indices: 94072704--94072730 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
94072694 AGATCTTCAT
94072704 CAGCAC CAGCAC CAGCAC CAGCAC CAG
1 CAGCAC CAGCAC CAGCAC CAGCAC CAG
94072731 AAATATCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.48, G:0.19, T:0.00
Consensus pattern (6 bp):
CAGCAC
Found at i:94075000 original size:7 final size:7
Alignment explanation
Indices: 94074988--94075018 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
94074978 ACAACCTTTC
94074988 CCATTCT
1 CCATTCT
94074995 CCATTCT
1 CCATTCT
94075002 CCATTCT
1 CCATTCT
94075009 CCATTCT
1 CCATTCT
94075016 CCA
1 CCA
94075019 ACTACTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.45, G:0.00, T:0.39
Consensus pattern (7 bp):
CCATTCT
Found at i:94076731 original size:11 final size:10
Alignment explanation
Indices: 94076705--94076734 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
94076695 TTGATTTTTT
94076705 AATTTTTAAA
1 AATTTTTAAA
*
94076715 AATTTTTAAT
1 AATTTTTAAA
94076725 AATTTTTAAA
1 AATTTTTAAA
94076735 TCAGATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:94077514 original size:7 final size:7
Alignment explanation
Indices: 94077483--94077536 Score: 65
Period size: 7 Copynumber: 7.4 Consensus size: 7
94077473 TCATTTAGTC
94077483 AAAATT-
1 AAAATTA
*
94077489 AAAATCTC
1 AAAAT-TA
94077497 AAAATTA
1 AAAATTA
94077504 AAAATATAA
1 AAAAT-T-A
94077513 AAAATTA
1 AAAATTA
94077520 AAAATTA
1 AAAATTA
94077527 AAAATTA
1 AAAATTA
94077534 AAA
1 AAA
94077537 CCATAACTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
6 5 0.12
7 25 0.58
8 7 0.16
9 6 0.14
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:94097188 original size:44 final size:44
Alignment explanation
Indices: 94097062--94097597 Score: 220
Period size: 44 Copynumber: 11.7 Consensus size: 44
94097052 GTCATCATGG
* * * * * * *
94097062 CAAATCTTGTCTTTATGAATTTGCAGTGGAGCAAATTAAAGCCA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTGAAGCTA
* * * * * * *
94097106 TAAATCTTATCTCCCTAAAGTTTCAGTTGAGGAGATTGAAGCTA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTGAAGCTA
* *
94097150 CAAATCTTATCTCCCTGAAGTTGCAATGGAGTAAATTGAAAAATAGCTA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTG----A-AGCTA
* * ** *
94097199 CAAATCTTATTTCTCTGAAGTTACAGTGGAACAAATTAAAGCTATACGTTA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATT---G--A-A-GCTA
* * ** *
94097250 CAAATCTTATCTCCCT-AGATTTGTGGTGGAGTAGATTGAAGCTA
1 CAAATCTTATCTCTCTGA-AGTTGCAGTGGAGTAAATTGAAGCTA
* * ** *
94097294 CAAATCTTATTTCTCTGAAGTTGCAGTGAAATAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCTCTGAAGTTGCAGTG-----GAGTAAA--TTGAAGCTA
* * * * *
94097345 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTGAAGCTA
* * * * * * *
94097389 TAAGTCTAATCTCCCAGAAGTTGCAGTGGAGCAAATTAAAG-TGA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTGAAGCT-A
* * * * *
94097433 TAAATCCTATAC-CTCTGAAGTTACAGTGG-GTCGGATTAAATCAAG-TCA
1 CAAATCTTAT-CTCTCTGAAGTTGCAGTGGAGT---A--AATTGAAGCT-A
* * * * *
94097481 CAAATCTTGTTTCTCTGAAGTTGCAGTGGAATAGATTGAAGCTG
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTGAAGCTA
* * * * ** *
94097525 TAAGTCTTATCTCTCTGAAGTTGCAATGGAATGGATTGAAGCAA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTGAAGCTA
*
94097569 CAAATCTTATAC-CTCTGAAGTTGTAGTGG
1 CAAATCTTAT-CTCTCTGAAGTTGCAGTGG
94097598 GTTAGAATAA
Statistics
Matches: 367, Mismatches: 96, Indels: 58
0.70 0.18 0.11
Matches are distributed among these distances:
43 2 0.01
44 213 0.58
45 5 0.01
46 7 0.02
48 33 0.09
49 42 0.11
50 4 0.01
51 60 0.16
52 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (44 bp):
CAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTGAAGCTA
Found at i:94097321 original size:95 final size:95
Alignment explanation
Indices: 94097148--94097429 Score: 314
Period size: 95 Copynumber: 2.9 Consensus size: 95
94097138 AGATTGAAGC
* * * *
94097148 TACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAAATTGAAAAATAGCTACAAATCTTATTTCT
1 TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT----AA-AGCTACAAATCTTATTTCT
* * *
94097213 CTGAAGTTACAGTGGAACAAATTAAAGCTATACGT
61 CTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGT
* * * *
94097248 TACAAATCTTATCTCCCT-AGATTTGTGGTGGAGTAGATTGAAGCTACAAATCTTATTTCTCTGA
1 TACAAATCTTATCTCCCTGA-AGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATTTCTCTGA
* * *
94097312 AGTTGCAGTGAAATAGATTAAAGCTACAAGT
65 AGTTGCAGTGGAACAAATTAAAGCTACAAGT
* * * * * *
94097343 TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATAAGTCTAATCTCCCAGAA
1 TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATTTCTCTGAA
*
94097408 GTTGCAGTGGAGCAAATTAAAG
66 GTTGCAGTGGAACAAATTAAAG
94097430 TGATAAATCC
Statistics
Matches: 154, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
95 119 0.77
96 2 0.01
99 1 0.01
100 32 0.21
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAATCTTATTTCTCTGAA
GTTGCAGTGGAACAAATTAAAGCTACAAGT
Found at i:94097381 original size:51 final size:51
Alignment explanation
Indices: 94097292--94097393 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
94097282 AGATTGAAGC
* * *
94097292 TACAAATCTTATTTCTCTGAAGTTGCAGTGAAATAGATTAAAGCTACAAGT
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGT
* * * *
94097343 TACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATAAGT
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGT
94097394 CTAATCTCCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (51 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAGT
Found at i:94097574 original size:136 final size:136
Alignment explanation
Indices: 94097338--94097599 Score: 308
Period size: 136 Copynumber: 1.9 Consensus size: 136
94097328 ATTAAAGCTA
* * *
94097338 CAAGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATAAGTCTAATCTCC
1 CAAGTCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAGTCTAATCTCC
* * ** *
94097403 CAGAAGTTGCAGTGGAGCAAATTAAAGTGATAAATCCTATACCTCTGAAGTTACAGTGGGTCGGA
66 CAGAAGTTGCAATGGAACAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTGGGTCGGA
94097468 TTAAAT
131 TTAAAT
* * * * * * * *
94097474 CAAGTCACAAATCTTGTTTCTCTGAAGTTGCAGTGGAATAGATTGAAGCTGTAAGTCTTATCTCT
1 CAAGTCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAGTCTAATCTCC
* *** * * **
94097539 CTGAAGTTGCAATGGAATGGATTGAAGCAACAAATCTTATACCTCTGAAGTTGTAGTGGGT
66 CAGAAGTTGCAATGGAACAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTGGGT
94097600 TAGAATAAAG
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
136 102 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (136 bp):
CAAGTCACAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAGTCTAATCTCC
CAGAAGTTGCAATGGAACAAATTAAAGCAACAAATCCTATACCTCTGAAGTTACAGTGGGTCGGA
TTAAAT
Found at i:94099331 original size:18 final size:19
Alignment explanation
Indices: 94099305--94099354 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
94099295 CCTGTATAGA
94099305 TTTTATATATATATATTATT
1 TTTTATATAT-TATATTATT
*
94099325 TTTTATATATTATTTTATT
1 TTTTATATATTATATTATT
94099344 TATTTAT-TATT
1 T-TTTATATATT
94099355 TCCTTTACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATATATTATATTATT
Found at i:94099333 original size:16 final size:15
Alignment explanation
Indices: 94099314--94099355 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
94099304 ATTTTATATA
94099314 TATATATTA-TTTTT
1 TATATATTATTTTTT
94099328 TATATATTATTTTATT
1 TATATATTATTTT-TT
*
94099344 TATTTATTATTT
1 TATATATTATTT
94099356 CCTTTACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 9 0.36
15 3 0.12
16 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATATATTATTTTTT
Found at i:94099489 original size:29 final size:29
Alignment explanation
Indices: 94099452--94099508 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
94099442 ATTATTTCAT
94099452 TATTATTTATTTATTTAGTACCTTTTTTA
1 TATTATTTATTTATTTAGTACCTTTTTTA
*
94099481 TATTATTTATTTATTTATTACCTTTTTT
1 TATTATTTATTTATTTAGTACCTTTTTT
94099509 TATACTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (29 bp):
TATTATTTATTTATTTAGTACCTTTTTTA
Found at i:94100487 original size:14 final size:15
Alignment explanation
Indices: 94100463--94100491 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94100453 AAATTTATTC
94100463 ATTTAAAAATTTAAA
1 ATTTAAAAATTTAAA
94100478 ATTT-AAAATTTAAA
1 ATTTAAAAATTTAAA
94100492 TATAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTAAAAATTTAAA
Found at i:94100796 original size:90 final size:89
Alignment explanation
Indices: 94100605--94100819 Score: 249
Period size: 90 Copynumber: 2.4 Consensus size: 89
94100595 AAGGGTGCCT
** * *
94100605 TCAATTTTTTTCAATAAAAACAATTAAGCCCCTACTTTTTTTTTGCACTCAGTTGAGTACTTGAA
1 TCAATTTTTTTCAA-AAAAACAATTAAGCCCCTACCATTTTTTTGCACTCAATTGAGTACTTCAA
*
94100670 CTTTCAAAATGCATCAAAAAAGTCC
65 CTTTCAAAATGCATCAAAAAAGCCC
** *
94100695 TCGAA-CCTTTTCAAAAAAAGCAATTAAGCCCCTACCATTTTTTTGCACTCAATT-AGATATTTC
1 TC-AATTTTTTTCAAAAAAA-CAATTAAGCCCCTACCATTTTTTTGCACTCAATTGAG-TACTTC
*
94100758 AACTTTCAAAATGTAT-AAAAAAGACCC
63 AACTTTCAAAATGCATCAAAAAAG-CCC
*
94100785 TCAATTTTTTTCAAAAAGGAA-AATTAATCCCCTAC
1 TCAATTTTTTTCAAAAA--AACAATTAAGCCCCTAC
94100820 TTTTATTAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
89 16 0.15
90 86 0.81
91 2 0.02
92 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (89 bp):
TCAATTTTTTTCAAAAAAACAATTAAGCCCCTACCATTTTTTTGCACTCAATTGAGTACTTCAAC
TTTCAAAATGCATCAAAAAAGCCC
Found at i:94100867 original size:17 final size:18
Alignment explanation
Indices: 94100838--94100874 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
94100828 AAAATTAGAA
94100838 AAAAAATATAAAAATCGT
1 AAAAAATATAAAAATCGT
*
94100856 AAAAAATA-AAAAATTGT
1 AAAAAATATAAAAATCGT
94100873 AA
1 AA
94100875 CATTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAAATATAAAAATCGT
Found at i:94100885 original size:27 final size:26
Alignment explanation
Indices: 94100855--94100959 Score: 93
Period size: 27 Copynumber: 3.8 Consensus size: 26
94100845 ATAAAAATCG
*
94100855 TAAAAAATAAAAAATTGTAACATTTTA
1 TAAAAAATAAAAAATTATAA-ATTTTA
* * *
94100882 TAAAAATCATAAAATATTATAAAATATA
1 TAAAAA--ATAAAAAATTATAAATTTTA
*
94100910 TAGAAATATAAAAAATTATAAATTTTA
1 TA-AAAAATAAAAAATTATAAATTTTA
**
94100937 TAAATTCATAAGAAAATTATAAA
1 TAAA-AAATAA-AAAATTATAAA
94100960 AAAATGTAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
26 2 0.03
27 29 0.46
28 17 0.27
29 15 0.24
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (26 bp):
TAAAAAATAAAAAATTATAAATTTTA
Found at i:94100905 original size:10 final size:10
Alignment explanation
Indices: 94100879--94100940 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
94100869 TTGTAACATT
94100879 TTATAAAA-A
1 TTATAAAATA
*
94100888 TCATAAAATA
1 TTATAAAATA
94100898 TTATAAAATA
1 TTATAAAATA
94100908 -TATAGAAATA
1 TTATA-AAATA
94100918 -TA-AAAA-A
1 TTATAAAATA
*
94100925 TTAT-AAATT
1 TTATAAAATA
94100934 TTATAAA
1 TTATAAA
94100941 TTCATAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
7 1 0.02
8 8 0.18
9 16 0.36
10 19 0.43
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (10 bp):
TTATAAAATA
Found at i:94100905 original size:55 final size:54
Alignment explanation
Indices: 94100839--94100961 Score: 142
Period size: 55 Copynumber: 2.2 Consensus size: 54
94100829 AAATTAGAAA
* * *
94100839 AAAAATATAAAAATCGTA-AAAAATAAAAAATTGTAACATTTTATAAAAATCATAA-
1 AAAATTATAAAAAT-ATAGAAAAATAAAAAATTATAA-ATTTTAT-AAAATCATAAG
* * *
94100894 AATATTATAAAATATATAGAAATATAAAAAATTATAAATTTTATAAATTCATAAG
1 AAAATTATAAAA-ATATAGAAAAATAAAAAATTATAAATTTTATAAAATCATAAG
94100949 AAAATTATAAAAA
1 AAAATTATAAAAA
94100962 AATGTAAAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
54 10 0.17
55 30 0.52
56 18 0.31
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (54 bp):
AAAATTATAAAAATATAGAAAAATAAAAAATTATAAATTTTATAAAATCATAAG
Found at i:94100951 original size:36 final size:39
Alignment explanation
Indices: 94100879--94100962 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 39
94100869 TTGTAACATT
94100879 TTAT-AAAAATCATAAAATATTATAAAATATATAG-AAA
1 TTATAAAAAATCATAAAATATTATAAAATATATAGAAAA
* * *
94100916 -TATAAAAAATTAT-AAATTTTATAAATTCATA-AGAAAA
1 TTATAAAAAATCATAAAATATTATAAAAT-ATATAGAAAA
94100953 TTATAAAAAA
1 TTATAAAAAA
94100963 ATGTAAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
36 17 0.43
37 14 0.35
38 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (39 bp):
TTATAAAAAATCATAAAATATTATAAAATATATAGAAAA
Found at i:94101388 original size:88 final size:88
Alignment explanation
Indices: 94101296--94101498 Score: 250
Period size: 89 Copynumber: 2.3 Consensus size: 88
94101286 TAATTAGAGC
* * *
94101296 AGGGGCTTAAAT-ATTTTTTTGAAAAATTTTGAGGGGCTTTTTAATGTATTTTGAAAGTTCAAGT
1 AGGGGCTTAATTAATTTTTTTGAAAAAGTTTGAGGGGCTTTTTAATGCATTTTGAAAGTTCAAGT
94101360 ACCCAATTGAGAGGAAAAAAAA-G
66 ACCCAATTGAG-GGAAAAAAAATG
** * *
94101383 TAGGGGCTTAATTGCTTTTTTT-AAAGAAGTTTGAGGGTCTTTTTTATGCATTTTGAAAGTTCAA
1 -AGGGGCTTAATTAATTTTTTTGAAA-AAGTTTGAGGGGCTTTTTAATGCATTTTGAAAGTTCAA
* * *
94101447 GTGCTCAATTGAGTGAAAAAAAATG
64 GTACCCAATTGAGGGAAAAAAAATG
* *
94101472 AAGAGCTTAATTAATTTTTTTGAAAAA
1 AGGGGCTTAATTAATTTTTTTGAAAAA
94101499 AATTAAGGAC
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
88 42 0.43
89 56 0.57
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (88 bp):
AGGGGCTTAATTAATTTTTTTGAAAAAGTTTGAGGGGCTTTTTAATGCATTTTGAAAGTTCAAGT
ACCCAATTGAGGGAAAAAAAATG
Found at i:94102713 original size:41 final size:41
Alignment explanation
Indices: 94102579--94102857 Score: 177
Period size: 41 Copynumber: 6.6 Consensus size: 41
94102569 AACGGCGTTT
* * * * *
94102579 TTAGTGGCGTTTTTGGTAAAAACGCCGCAAATATTAT-A-CA
1 TTAGCGGCGTTTTTAG-AAAAACGCCGCAAAAAGTCTGAGCA
** ** * * * *
94102619 TTAGCGGCGTTTGAACCAAAACGCCACTATAAGTC-GAGAA
1 TTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAGTCTGAGCA
* * *
94102659 ATAGCGGCGTTTTTATAAAAACGCCGTAAAAAGTCTGAGCA
1 TTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAGTCTGAGCA
* *
94102700 TTAGCGGCGTTTTTATAAAAACGCCGCCAAAAGTCCGCCAAAAGTCTGAGTA
1 TTAGCGGCGTTTTTAGAAAAACGCCG-C---A-------AAAAGTCTGAGCA
* * * * *
94102752 TTAGCTGCGTTTTTGGAAAAACACCGCCAAAAGTCTGAGTA
1 TTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAGTCTGAGCA
* *
94102793 TTAGCGGCGTTTTTGGGAAAACGCCGCAAAAAGTCTGAGCA
1 TTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAGTCTGAGCA
* * *
94102834 TTAGCGGTGTTTTTGGAGAAACGC
1 TTAGCGGCGTTTTTAGAAAAACGC
94102858 TGCTAAACGT
Statistics
Matches: 186, Mismatches: 39, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
39 13 0.07
40 38 0.20
41 99 0.53
45 1 0.01
51 1 0.01
52 34 0.18
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGTTTTTAGAAAAACGCCGCAAAAAGTCTGAGCA
Found at i:94102765 original size:52 final size:52
Alignment explanation
Indices: 94102687--94102786 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
94102677 AAACGCCGTA
* *
94102687 AAAAGTCTGAGCATTAGCGGCGTTTTTATAAAAACGCCGCCAAAAGTCCGCC
1 AAAAGTCTGAGCATTAGCGGCGTTTTTAGAAAAACACCGCCAAAAGTCCGCC
* * *
94102739 AAAAGTCTGAGTATTAGCTGCGTTTTTGGAAAAACACCGCCAAAAGTC
1 AAAAGTCTGAGCATTAGCGGCGTTTTTAGAAAAACACCGCCAAAAGTC
94102787 TGAGTATTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (52 bp):
AAAAGTCTGAGCATTAGCGGCGTTTTTAGAAAAACACCGCCAAAAGTCCGCC
Found at i:94103036 original size:7 final size:7
Alignment explanation
Indices: 94103024--94103048 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
94103014 GGGTTTGAGA
94103024 TTTAGTG
1 TTTAGTG
94103031 TTTAGTG
1 TTTAGTG
94103038 TTTAGTG
1 TTTAGTG
94103045 TTTA
1 TTTA
94103049 TGATCTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (7 bp):
TTTAGTG
Found at i:94104212 original size:22 final size:22
Alignment explanation
Indices: 94104181--94104258 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
94104171 ATTTAGTATC
94104181 TAGAATTTAGGGTTTAATG-TT
1 TAGAATTTAGGGTTTAATGCTT
* *
94104202 TATAATGTTAGGGTTTTATGCTT
1 TAGAAT-TTAGGGTTTAATGCTT
* *
94104225 TAGAGTTTAGGGTTTAA-GATT
1 TAGAATTTAGGGTTTAATGCTT
**
94104246 TAGGGTTTAGGGT
1 TAGAATTTAGGGT
94104259 CTGATTTTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 20 0.42
22 22 0.46
23 6 0.12
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.46
Consensus pattern (22 bp):
TAGAATTTAGGGTTTAATGCTT
Found at i:94104240 original size:14 final size:15
Alignment explanation
Indices: 94104223--94104255 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
94104213 GGTTTTATGC
94104223 TTTAGAG-TTTAGGG
1 TTTAGAGATTTAGGG
94104237 TTTA-AGATTTAGGG
1 TTTAGAGATTTAGGG
94104251 TTTAG
1 TTTAG
94104256 GGTCTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.12
14 15 0.88
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (15 bp):
TTTAGAGATTTAGGG
Found at i:94104247 original size:21 final size:20
Alignment explanation
Indices: 94104181--94104258 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 20
94104171 ATTTAGTATC
94104181 TAGAATTTAGGGTTTAATGTT
1 TAGAATTTAGGGTTTAA-GTT
* *
94104202 TATAATGTTAGGGTTTTATGCTT
1 TAGAAT-TTAGGG-TTTAAG-TT
*
94104225 TAGAGTTTAGGGTTTAAGATT
1 TAGAATTTAGGGTTTAAG-TT
**
94104246 TAGGGTTTAGGGT
1 TAGAATTTAGGGT
94104259 CTGATTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 24 0.51
22 13 0.28
23 10 0.21
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.46
Consensus pattern (20 bp):
TAGAATTTAGGGTTTAAGTT
Found at i:94110048 original size:43 final size:43
Alignment explanation
Indices: 94109985--94110098 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 43
94109975 TGTAAATTTA
* * *
94109985 GCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGACTCTACTTTTG
1 GCGGCATTTTTGGTGAAAGCGCCGCTAAAGGACTCTACTTTTG
* *
94110028 GCGGCATTTTTGGAT-AAAGCGCCGCTAAAAGGTCTGTACTTTTG
1 GCGGCATTTTTGG-TGAAAGCGCCGCT-AAAGGACTCTACTTTTG
* *
94110072 GCGGCGTTTTTGGTGTAAGCGCCGCTA
1 GCGGCATTTTTGGTGAAAGCGCCGCTA
94110099 TAGGTCTGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
43 24 0.39
44 37 0.61
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.29
Consensus pattern (43 bp):
GCGGCATTTTTGGTGAAAGCGCCGCTAAAGGACTCTACTTTTG
Found at i:94110158 original size:43 final size:43
Alignment explanation
Indices: 94109981--94110424 Score: 303
Period size: 43 Copynumber: 10.3 Consensus size: 43
94109971 AATCTGTAAA
* * * * *
94109981 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGACTCTACT
1 TTTAGCGGCATTTTTGGGTAAAGCGCCGCTAAAGGTCTGTACT
* *
94110024 TTTGGCGGCATTTTTGGATAAAGCGCCGCTAAAAGGTCTGTACT
1 TTTAGCGGCATTTTTGGGTAAAGCGCCGCT-AAAGGTCTGTACT
* * * **
94110068 TTTGGCGGCGTTTTTGGTGT-AAGCGCCGCTATAGGTCTGTAAA
1 TTTAGCGGCATTTTTGG-GTAAAGCGCCGCTAAAGGTCTGTACT
* * *
94110111 TTTAGCAG-TTTTTTGGGCTAAAGCTCCGCTAAAGGTCTGTACT
1 TTTAGCGGCATTTTTGGG-TAAAGCGCCGCTAAAGGTCTGTACT
** *** * * *
94110154 TTTAGCGGC-GCTTTGCAAACAAACGCCGCTAAAGGTCCGCACT
1 TTTAGCGGCATTTTTGGGTA-AAGCGCCGCTAAAGGTCTGTACT
* * *** ** *
94110197 TTTAACGGCGCTTTCCCCGG-AAA-CGCCGCTAAAGGTCTACACC
1 TTTAGCGGC-ATTT-TTGGGTAAAGCGCCGCTAAAGGTCTGTACT
* * * * * * *
94110240 TTTAGTGGCATTTGTGGATAAAACGCCGCTAAAGGTTTGCACC
1 TTTAGCGGCATTTTTGGGTAAAGCGCCGCTAAAGGTCTGTACT
* *
94110283 TTTAGCGGCGTTTTTTGGGT-AAGCGCCGCTAAAGGTATGTGA-T
1 TTTAGCGGC-ATTTTTGGGTAAAGCGCCGCTAAAGGTCTGT-ACT
* * * *
94110326 TTTAGCGGCGTTTGTTTGCT-AAGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGCATTT-TTGGGTAAAGCGCCGCTAAAGGTCTGTACT
* * * *
94110369 ATTAGCGGCATTTAT-GGTAAAGCGCCGCTAAAGGTATCTACT
1 TTTAGCGGCATTTTTGGGTAAAGCGCCGCTAAAGGTCTGTACT
*
94110411 TTTAGCGGCGTTTT
1 TTTAGCGGCATTTT
94110425 CCGTTCAAAC
Statistics
Matches: 314, Mismatches: 71, Indels: 33
0.75 0.17 0.08
Matches are distributed among these distances:
41 4 0.01
42 52 0.17
43 208 0.66
44 47 0.15
45 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCATTTTTGGGTAAAGCGCCGCTAAAGGTCTGTACT
Found at i:94110457 original size:128 final size:128
Alignment explanation
Indices: 94110220--94110466 Score: 297
Period size: 128 Copynumber: 1.9 Consensus size: 128
94110210 TCCCCGGAAA
* * *
94110220 CGCCGCTAAAGGTCTACACCTTTAGTGGCATTTGTGGATAAAACGCCGCTAAAGGTTTGCACCTT
1 CGCCGCTAAAGGTCTACACCTTTAGCGGCATTTATGGATAAAACGCCGCTAAAGGTATGCACCTT
** * *
94110285 TAGCGGCGTTTTTTGGGTAAGCGCCGCTAAAGGTATGTGATTTTAGCGGCGTTTGTTTGCTAAG
66 TAGCGGCGTTTTTCCGGTAAACGCCGCTAAAAGTA-GTGATTTTAGCGGCGTTTGTTTGCTAAG
* * *
94110349 CGCCGCTAAAGGTCTATA-CTATTAGCGGCATTTATGG-TAAAGCGCCGCTAAAGGTAT-CTACT
1 CGCCGCTAAAGGTCTACACCT-TTAGCGGCATTTATGGATAAAACGCCGCTAAAGGTATGC-ACC
* *
94110411 TTTAGCGGCG-TTTTCCGTTCAAACGCCGCTAAAAGT-GATGACTTTTAGTGGCGTTT
64 TTTAGCGGCGTTTTTCCGGT-AAACGCCGCTAAAAGTAG-TGA-TTTTAGCGGCGTTT
94110467 TTTCACATAA
Statistics
Matches: 101, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
126 1 0.01
127 10 0.10
128 59 0.58
129 31 0.31
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (128 bp):
CGCCGCTAAAGGTCTACACCTTTAGCGGCATTTATGGATAAAACGCCGCTAAAGGTATGCACCTT
TAGCGGCGTTTTTCCGGTAAACGCCGCTAAAAGTAGTGATTTTAGCGGCGTTTGTTTGCTAAG
Found at i:94110598 original size:8 final size:8
Alignment explanation
Indices: 94110585--94110613 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
94110575 CCATAATTAG
94110585 AGTTATCA
1 AGTTATCA
94110593 AGTTATCA
1 AGTTATCA
94110601 AGTTATCA
1 AGTTATCA
94110609 AGTTA
1 AGTTA
94110614 GAGTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (8 bp):
AGTTATCA
Found at i:94112143 original size:14 final size:14
Alignment explanation
Indices: 94112126--94112177 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
94112116 TTAAACATAC
94112126 ATATTTAATTATTA
1 ATATTTAATTATTA
*
94112140 ATATTTAATCATATA
1 ATATTTAATTAT-TA
**
94112155 ATAAATAATTTATTA
1 ATATTTAA-TTATTA
94112170 A-ATTTAAT
1 ATATTTAAT
94112178 ATTTCAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.03
14 15 0.50
15 11 0.37
16 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTTAATTATTA
Found at i:94112205 original size:13 final size:14
Alignment explanation
Indices: 94112189--94112230 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
94112179 TTTCAATTTC
94112189 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
94112202 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
94112217 ATTTTAAATAATAT
1 ATTTT-AATAATAT
94112231 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:94112215 original size:16 final size:16
Alignment explanation
Indices: 94112193--94112229 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
94112183 AATTTCATTT
94112193 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
94112210 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
94112225 TAATA
1 TAATA
94112230 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:94112282 original size:15 final size:15
Alignment explanation
Indices: 94112262--94112315 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
94112252 ATGCAATATT
94112262 AATATTTTAATAATA
1 AATATTTTAATAATA
*
94112277 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
94112296 AATATATTAATAATA
1 AATATTTTAATAATA
94112311 AATAT
1 AATAT
94112316 GTTGTAGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 15 0.47
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.31
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:94116079 original size:21 final size:21
Alignment explanation
Indices: 94116053--94116093 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94116043 AGACGAGCAA
* *
94116053 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
94116074 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
94116094 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:94121348 original size:2 final size:2
Alignment explanation
Indices: 94121341--94121373 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94121331 TGAGTAACCA
94121341 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
94121374 GTGTTTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:94123956 original size:18 final size:17
Alignment explanation
Indices: 94123929--94123962 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
94123919 TGTCCAAATT
*
94123929 TATTATCTTCATCTAAC
1 TATTATCTTCAACTAAC
94123946 TATTAATCTTCAACTAA
1 TATT-ATCTTCAACTAA
94123963 TATATATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
TATTATCTTCAACTAAC
Found at i:94126914 original size:11 final size:11
Alignment explanation
Indices: 94126898--94126924 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
94126888 AGAAAGCGAA
94126898 AATAAATAAAT
1 AATAAATAAAT
94126909 AATAAATAAAT
1 AATAAATAAAT
94126920 AATAA
1 AATAA
94126925 TAATTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:94127107 original size:23 final size:23
Alignment explanation
Indices: 94127079--94127123 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
94127069 CGGTAGGAAA
94127079 AAAATA-AATAAAATATAATAAAT
1 AAAATATAAT-AAATATAATAAAT
*
94127102 AAAATATAATAAGTATAATAAA
1 AAAATATAATAAATATAATAAA
94127124 CTATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATATAATAAATATAATAAAT
Found at i:94127121 original size:14 final size:14
Alignment explanation
Indices: 94127081--94127113 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
94127071 GTAGGAAAAA
94127081 AATAAATAAAATAT
1 AATAAATAAAATAT
94127095 AATAAATAAAATAT
1 AATAAATAAAATAT
94127109 AATAA
1 AATAA
94127114 GTATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:94144895 original size:23 final size:22
Alignment explanation
Indices: 94144844--94144895 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
94144834 CCTCGTCTTT
*
94144844 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
94144866 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
94144889 TTCTTTT
1 TTCTTTT
94144896 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:94147285 original size:6 final size:6
Alignment explanation
Indices: 94147274--94147299 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
94147264 GTAAATAAAT
94147274 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
94147300 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:94155922 original size:23 final size:23
Alignment explanation
Indices: 94155883--94155927 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
94155873 ACGGTAGGAA
94155883 AAAATAAATAAAATATAATAAAT
1 AAAATAAATAAAATATAATAAAT
*
94155906 AAAATATAAT-AAGTATAATAAA
1 AAAATA-AATAAAATATAATAAA
94155928 CTATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAATAAAATATAATAAAT
Found at i:94155925 original size:14 final size:14
Alignment explanation
Indices: 94155885--94155917 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
94155875 GGTAGGAAAA
94155885 AATAAATAAAATAT
1 AATAAATAAAATAT
94155899 AATAAATAAAATAT
1 AATAAATAAAATAT
94155913 AATAA
1 AATAA
94155918 GTATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:94157198 original size:28 final size:29
Alignment explanation
Indices: 94157149--94157203 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
94157139 TCTCGAAATC
*
94157149 GAGAGGCGTGGCGGAGTGGGAC-GCTGGT
1 GAGAGGCGTGGCGGAGCGGGACTGCTGGT
*
94157177 GAGAGGCGT-GCGGCGCGAGGACTGCTG
1 GAGAGGCGTGGCGGAGCG-GGACTGCTG
94157204 TTGTTTGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 6 0.26
28 13 0.57
29 4 0.17
ACGTcount: A:0.15, C:0.18, G:0.55, T:0.13
Consensus pattern (29 bp):
GAGAGGCGTGGCGGAGCGGGACTGCTGGT
Found at i:94157434 original size:16 final size:16
Alignment explanation
Indices: 94157415--94157445 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94157405 ATTAAAAGTT
94157415 AATTAAACTAATAAAA
1 AATTAAACTAATAAAA
*
94157431 AATTATACTAATAAA
1 AATTAAACTAATAAA
94157446 TATTAAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAAACTAATAAAA
Found at i:94157728 original size:6 final size:7
Alignment explanation
Indices: 94157711--94157735 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
94157701 AAAAAGATAA
94157711 AAAAAAC
1 AAAAAAC
94157718 AAAAAAC
1 AAAAAAC
94157725 AAAAAAC
1 AAAAAAC
94157732 AAAA
1 AAAA
94157736 TGTTCTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:94157884 original size:82 final size:82
Alignment explanation
Indices: 94157736--94157895 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 82
94157726 AAAAACAAAA
*
94157736 TGTTCTATACAAAATTTAGATGGTGGTGAAACTTATAGCTGGCCATTTTGATTCTCGATATCTAA
1 TGTTCTATACAAAATTTAGATGGTGGTGAAACTTAGAGCTGGCCATTTTGATTCTCGATATCTAA
94157801 AAATATAAAATTTATTT
66 AAATATAAAATTTATTT
* * * *
94157818 TGTTC-ATACAAAATTTAGATGGTGGTGAAA-TTGAGAGTTGATCGATTTTGATTCTCGGTATCT
1 TGTTCTATACAAAATTTAGATGGTGGTGAAACTT-AGAGCTG-GCCATTTTGATTCTCGATATCT
94157881 AAAAATATAAAATTT
64 AAAAATATAAAATTT
94157896 TGTTTAAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
80 2 0.03
81 30 0.42
82 39 0.55
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (82 bp):
TGTTCTATACAAAATTTAGATGGTGGTGAAACTTAGAGCTGGCCATTTTGATTCTCGATATCTAA
AAATATAAAATTTATTT
Found at i:94159026 original size:20 final size:21
Alignment explanation
Indices: 94158961--94159023 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 21
94158951 TATTTACAAG
94158961 AAATAATAATATATAAATTTTAA
1 AAAT-ATAATA-ATAAATTTTAA
94158984 AAATAT-ATAATACATATTTTAA
1 AAATATAATAATA-A-ATTTTAA
94159006 AAATATAATAATAAATTT
1 AAATATAATAATAAATTT
94159024 AAATAACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
20 3 0.08
21 8 0.22
22 16 0.43
23 10 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATATAATAATAAATTTTAA
Found at i:94159065 original size:25 final size:26
Alignment explanation
Indices: 94159015--94159076 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
94159005 AAAATATAAT
*
94159015 AATAAATTTAAATAACATTAATATTA
1 AATAAATATAAATAACATTAATATTA
*
94159041 AATAAATATAAAT-ATATTAATATTA
1 AATAAATATAAATAACATTAATATTA
*
94159066 GATAAA-ATAAA
1 AATAAATATAAA
94159077 AATCCCCTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 5 0.15
25 16 0.48
26 12 0.36
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
AATAAATATAAATAACATTAATATTA
Found at i:94159255 original size:25 final size:25
Alignment explanation
Indices: 94159202--94159256 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
94159192 AATTTTAATT
* * *
94159202 TATTATTATATTTTTTGAAAATATT
1 TATTTTTATATATTTTGAAAATATA
* *
94159227 TATTTTTATATATTTTTAAATTATA
1 TATTTTTATATATTTTGAAAATATA
94159252 TATTT
1 TATTT
94159257 GAAAATATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TATTTTTATATATTTTGAAAATATA
Found at i:94160123 original size:136 final size:136
Alignment explanation
Indices: 94159978--94160222 Score: 337
Period size: 136 Copynumber: 1.8 Consensus size: 136
94159968 ATATTTGTGT
* * *
94159978 ATCTATACTATTATTTAAGCCCCAGACTAAGTTAGTATCATGAGTCAACCGAGTACCAACTCGAT
1 ATCTATACTATTATTTAAGCCCCAGACCAAGTTAGTATCATGAATCAACCGAGCACCAACTCGAT
94160043 TAGGAAAATTACGAAAATATATTCCCATAATTAAAATAAGTTATATTATTCGAGAGTGTTTTAGT
66 TAGGAAAATTACGAAAATATATTCCCATAATTAAAATAAGTTATATTATTCGAGAGTGTTTTAGT
94160108 TTTTTC
131 TTTTTC
*** * * * * * *
94160114 ATCTATACTATTATTTAAGCCTTTGACCAAGTTGGTGTCATGAATCAATCGGGCATCAACTCGGT
1 ATCTATACTATTATTTAAGCCCCAGACCAAGTTAGTATCATGAATCAACCGAGCACCAACTCGAT
* * * * *
94160179 TATGAAAATTATGAAAATGTCTTTCCATAATTAAAATAAGTTAT
66 TAGGAAAATTACGAAAATATATTCCCATAATTAAAATAAGTTAT
94160223 TCGAGAGTAT
Statistics
Matches: 92, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
136 92 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (136 bp):
ATCTATACTATTATTTAAGCCCCAGACCAAGTTAGTATCATGAATCAACCGAGCACCAACTCGAT
TAGGAAAATTACGAAAATATATTCCCATAATTAAAATAAGTTATATTATTCGAGAGTGTTTTAGT
TTTTTC
Found at i:94162025 original size:24 final size:24
Alignment explanation
Indices: 94161988--94162066 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
94161978 CTCATAAAAG
*
94161988 CCATAATCTGGAAGTTCACAAAGAA
1 CCAT-ATCAGGAAGTTCACAAAGAA
* *
94162013 CCTTATC-GAGAAGTTCACGAAGAA
1 CCATATCAG-GAAGTTCACAAAGAA
* *
94162037 CCATATCAGGAAGTTCATAATGAA
1 CCATATCAGGAAGTTCACAAAGAA
94162061 CCATAT
1 CCATAT
94162067 TGGAAAGCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
23 1 0.02
24 41 0.89
25 4 0.09
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (24 bp):
CCATATCAGGAAGTTCACAAAGAA
Found at i:94165073 original size:26 final size:26
Alignment explanation
Indices: 94165042--94165149 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
94165032 TGTAATGCCC
*
94165042 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
94165068 ATCATGGAACATTTACCTGACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
94165094 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
94165120 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94165146 ATCA
1 ATCA
94165150 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:94165706 original size:21 final size:20
Alignment explanation
Indices: 94165674--94165720 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
94165664 ATATAAATGA
*
94165674 ATTTAATATCAATTTAATTC
1 ATTTCATATCAATTTAATTC
94165694 ATTTCATACTCAATTTAATTC
1 ATTTCATA-TCAATTTAATTC
*
94165715 AATTCA
1 ATTTCA
94165721 CATCCTAGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTCATATCAATTTAATTC
Found at i:94180303 original size:49 final size:48
Alignment explanation
Indices: 94180245--94180342 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 48
94180235 ATTATAAAGG
94180245 TGTTTATATCTTTTTATATTTTTATATATAATTTTAAAAAAATACACAA
1 TGTTTATATCTTTTTATATTTTTATATATAATTTT-AAAAAATACACAA
94180294 TGTTTATATCTTTTTATATTTTTATATATAATTTTAAAAAATACACAA
1 TGTTTATATCTTTTTATATTTTTATATATAATTTTAAAAAATACACAA
94180342 T
1 T
94180343 AATAAAATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 14 0.29
49 35 0.71
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (48 bp):
TGTTTATATCTTTTTATATTTTTATATATAATTTTAAAAAATACACAA
Found at i:94180734 original size:16 final size:16
Alignment explanation
Indices: 94180713--94180767 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
94180703 GTTTGGTTCA
94180713 CTGTAATTGAATAGGG
1 CTGTAATTGAATAGGG
94180729 CTGTAATTGAATAGGG
1 CTGTAATTGAATAGGG
* **
94180745 TTGTAATTGAATAAAG
1 CTGTAATTGAATAGGG
94180761 CTGTAAT
1 CTGTAAT
94180768 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (16 bp):
CTGTAATTGAATAGGG
Found at i:94181040 original size:17 final size:17
Alignment explanation
Indices: 94181018--94181050 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
94181008 AATTATTATT
94181018 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
94181035 AAATATAATTTAATAA
1 AAATATAATTTAATAA
94181051 CATTCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:94181556 original size:40 final size:40
Alignment explanation
Indices: 94181492--94181568 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
94181482 AGTATATCTG
* *
94181492 TTAATACATACTTTATCCAGCTAAATTATACAGTTTTCTA
1 TTAATACATACTTCATCCAGCTAAATTATACAATTTTCTA
94181532 TTAATACATACTTCATCC-GACTAAATTATACAATTTT
1 TTAATACATACTTCATCCAG-CTAAATTATACAATTTT
94181569 TACTCAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (40 bp):
TTAATACATACTTCATCCAGCTAAATTATACAATTTTCTA
Found at i:94183355 original size:30 final size:29
Alignment explanation
Indices: 94183293--94183355 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
94183283 ATACAAGATC
* ***
94183293 AAATTAGTATTTCTATTATTAAATGGATT
1 AAATTAGTATTTATATTATTAAAAAAATT
*
94183322 AAATTAGTCTTTATATTATTAAAAAAAATT
1 AAATTAGTATTTATATTATT-AAAAAAATT
94183352 AAAT
1 AAAT
94183356 AAGTTTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 18 0.64
30 10 0.36
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.44
Consensus pattern (29 bp):
AAATTAGTATTTATATTATTAAAAAAATT
Found at i:94190244 original size:30 final size:30
Alignment explanation
Indices: 94190208--94190270 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
94190198 ATTTATTTTA
94190208 TTGTTAACTTTGTTATTATTTTA-AAGACAT
1 TTGTTAACTTTGTTATTATTTTAGAA-ACAT
*
94190238 TTGTTAATTTTGTTATTATTTTAGAAACAT
1 TTGTTAACTTTGTTATTATTTTAGAAACAT
94190268 TTG
1 TTG
94190271 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.56
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAGAAACAT
Found at i:94192661 original size:6 final size:6
Alignment explanation
Indices: 94192646--94192694 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
94192636 TGTGTACCGA
* *
94192646 TACTGC TACTGT TACTGT TACTGT TATTGT TACTGT TACTGT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT
94192694 T
1 T
94192695 GTGGTGTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (6 bp):
TACTGT
Found at i:94193501 original size:41 final size:42
Alignment explanation
Indices: 94193441--94193520 Score: 128
Period size: 41 Copynumber: 1.9 Consensus size: 42
94193431 ATTTTGAGTC
94193441 CACACGGCATGTCACACGGGCATG-TGATTAGACCGTGTGAGA
1 CACACGGCATGTCACACGGGCATGTTG-TTAGACCGTGTGAGA
*
94193483 CACACGGCTTG-CACACGGGCATGTTGTTAGACCGTGTG
1 CACACGGCATGTCACACGGGCATGTTGTTAGACCGTGTG
94193521 TCCCCTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 24 0.67
42 12 0.33
ACGTcount: A:0.23, C:0.25, G:0.31, T:0.21
Consensus pattern (42 bp):
CACACGGCATGTCACACGGGCATGTTGTTAGACCGTGTGAGA
Found at i:94195872 original size:55 final size:51
Alignment explanation
Indices: 94195807--94195941 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 51
94195797 TAGGGTGTCG
*
94195807 GCCATTAGTGTCTCAACACCCTAATTTTTTTTTTAAATTTGGTACAAT-GGTG-CA
1 GCCATCAGTGTCTCAACA-CC-AATTTTTTTTTT-AATTTGGT--AATGGGTGCCA
94195861 GACCATCAGTGT-TCCAACACC--TTTTTTTTTTAATTTGGTAATGGGGTGCCA
1 G-CCATCAGTGTCT-CAACACCAATTTTTTTTTTAATTTGGTAAT-GGGTGCCA
*
94195912 GCCATCAGTGTCCCAACACCAATTTTTTTT
1 GCCATCAGTGTCTCAACACCAATTTTTTTT
94195942 AAACCTGTGC
Statistics
Matches: 71, Mismatches: 2, Indels: 18
0.78 0.02 0.20
Matches are distributed among these distances:
48 3 0.04
50 29 0.41
51 13 0.18
52 8 0.11
54 4 0.06
55 14 0.20
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (51 bp):
GCCATCAGTGTCTCAACACCAATTTTTTTTTTAATTTGGTAATGGGTGCCA
Found at i:94195976 original size:49 final size:51
Alignment explanation
Indices: 94195902--94196031 Score: 156
Period size: 49 Copynumber: 2.6 Consensus size: 51
94195892 AATTTGGTAA
* * *
94195902 TGGGGTGCCAGCCATCAGTGTCCCAACACCAATTTTTTTTAAACCT-GTGC
1 TGGGGTGCCAGCCATCAATGCCCCAACACCAATTTTTTTTAAACCTAGTAC
* ** *
94195952 TGGGGTGCC-GACATCAATGCCCCAACACCTTTTTTTTTTAAATCTAGTAC
1 TGGGGTGCCAGCCATCAATGCCCCAACACCAATTTTTTTTAAACCTAGTAC
** *
94196002 AAGGGTGCCGGCCATCAATGCCCCAACACC
1 TGGGGTGCCAGCCATCAATGCCCCAACACC
94196032 CAAAAAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 30 0.44
50 19 0.28
51 19 0.28
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (51 bp):
TGGGGTGCCAGCCATCAATGCCCCAACACCAATTTTTTTTAAACCTAGTAC
Found at i:94196022 original size:51 final size:51
Alignment explanation
Indices: 94195831--94196031 Score: 185
Period size: 50 Copynumber: 4.0 Consensus size: 51
94195821 AACACCCTAA
* * * * * **
94195831 TTTTTTTTTTAAATTTGGTACAATGGTGCAGACCATCAGTGTTCCAACACC
1 TTTTTTTTTTAAATCTGGTACAAGGGTGCCGGCCATCAATGCCCCAACACC
* * * * *
94195882 TTTTTTTTTT-AATTTGGTA-ATGGGGTGCCAGCCATCAGTGTCCCAACACC
1 TTTTTTTTTTAAATCTGGTACA-AGGGTGCCGGCCATCAATGCCCCAACACC
** * * ** *
94195932 AATTTTTTTTAAACCT-GTGCTGGGGTGCC-GACATCAATGCCCCAACACC
1 TTTTTTTTTTAAATCTGGTACAAGGGTGCCGGCCATCAATGCCCCAACACC
*
94195981 TTTTTTTTTTAAATCTAGTACAAGGGTGCCGGCCATCAATGCCCCAACACC
1 TTTTTTTTTTAAATCTGGTACAAGGGTGCCGGCCATCAATGCCCCAACACC
94196032 CAAAAAATAT
Statistics
Matches: 123, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
49 31 0.25
50 60 0.49
51 32 0.26
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (51 bp):
TTTTTTTTTTAAATCTGGTACAAGGGTGCCGGCCATCAATGCCCCAACACC
Found at i:94197597 original size:18 final size:18
Alignment explanation
Indices: 94197571--94197605 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94197561 AAAATATTTT
*
94197571 ATATTTTATAAAATAAAA
1 ATATATTATAAAATAAAA
*
94197589 ATATATTATTAAATAAA
1 ATATATTATAAAATAAA
94197606 TGAAAGTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATATTATAAAATAAAA
Found at i:94208546 original size:41 final size:40
Alignment explanation
Indices: 94208447--94208593 Score: 127
Period size: 40 Copynumber: 3.6 Consensus size: 40
94208437 CTTTTATCAA
*
94208447 ATCACCGGCATTTAGCCTGCTAGATTTTAAACCCGAATTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAATTC
*** ** *
94208487 ATCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTT-
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAA-TTC
* * * *
94208527 ATTCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCG-ATATC
1 A-TCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAAT-TC
94208568 ATTTCACCGGCATTATAGCCTGCTAG
1 A--TCACCGGCATT-TAGCCTGCTAG
94208594 GCCCGAAGCT
Statistics
Matches: 85, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
39 1 0.01
40 33 0.39
41 29 0.34
42 12 0.14
43 10 0.12
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (40 bp):
ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAATTC
Found at i:94208602 original size:43 final size:45
Alignment explanation
Indices: 94208525--94208656 Score: 139
Period size: 44 Copynumber: 3.0 Consensus size: 45
94208515 AAGTCTGAAC
* *
94208525 TTATTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCA
1 TTATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCA
* *
94208569 -T-TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCTCGATAAT-A
1 TTATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAT-ATCA
* * * *
94208612 TTATTCACCAGC-TTAAAGCTTGCTAGGCTCAAAGCCCGAATATCA
1 TTATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCG-ATATCA
94208657 CCATTATAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
42 12 0.17
43 23 0.32
44 26 0.36
45 11 0.15
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (45 bp):
TTATTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATATCA
Found at i:94208856 original size:28 final size:28
Alignment explanation
Indices: 94208768--94208874 Score: 133
Period size: 28 Copynumber: 3.8 Consensus size: 28
94208758 GAATCATTCG
* * *
94208768 ATATTTTGCACACGAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
94208796 ATATCTCACACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
94208824 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
94208852 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
94208875 ATTTGATTGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:94212185 original size:47 final size:47
Alignment explanation
Indices: 94212132--94212552 Score: 626
Period size: 47 Copynumber: 9.0 Consensus size: 47
94212122 TTAGGATTTT
** *
94212132 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
94212179 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
94212226 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
94212273 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
94212320 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
94212367 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
94212414 ATGTGATGAATGTGAGCATGCATATATATGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
94212461 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
94212508 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
94212553 TAGTGTGAAA
Statistics
Matches: 335, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 335 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:94212328 original size:25 final size:25
Alignment explanation
Indices: 94212253--94212328 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
94212243 ATGTATATAT
94212253 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
94212278 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
94212300 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
94212325 GTGA
1 GTGA
94212329 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:94212765 original size:37 final size:37
Alignment explanation
Indices: 94212715--94212866 Score: 223
Period size: 37 Copynumber: 4.1 Consensus size: 37
94212705 GGAAATATAT
* * *
94212715 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
94212752 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
94212789 CCCGGGTAAGACCCGATGACTACCTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
94212826 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
94212863 TCCG
1 TCCG
94212867 AGCTAAAGGT
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:94214353 original size:43 final size:43
Alignment explanation
Indices: 94214305--94214455 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 43
94214295 GATTAACGAG
* *
94214305 ATGTGATTATGTTTAAGACCATGTCTGGGACATTGGCATCATT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* *
94214348 ATGTGATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTT
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
* * * * *
94214391 ATTTGATTTCATGTAAGATCATAG-CTGGG-CTATCGGCATCGA-T
1 ATGTGATTACGTGTAAGACCAT-GTCTGGGAC-ATTGGCATC-ATT
* *
94214434 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACGTGTAAGACCAT
94214456 ATCCGAGATT
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 89 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCATT
Found at i:94217626 original size:17 final size:18
Alignment explanation
Indices: 94217595--94217628 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94217585 AATTTAACTT
94217595 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
94217613 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
94217629 TTGTAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:94218772 original size:30 final size:30
Alignment explanation
Indices: 94218738--94218806 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
94218728 TAAATTCTAA
94218738 GTAAAATTCTAG-TATTAGTACTTATACTTT
1 GTAAAATTCTAGAT-TTAGTACTTATACTTT
* **
94218768 GTAAATATTGTAGATTTAGTTTTTATACTTT
1 GTAAA-ATTCTAGATTTAGTACTTATACTTT
94218799 -TCAAAATT
1 GT-AAAATT
94218807 TAAATTTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 9 0.27
31 23 0.70
32 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.49
Consensus pattern (30 bp):
GTAAAATTCTAGATTTAGTACTTATACTTT
Found at i:94222576 original size:19 final size:21
Alignment explanation
Indices: 94222552--94222594 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
94222542 AGTTAAAGAT
*
94222552 TTTAAGGTTTA-AGGTT-GGA
1 TTTAAGATTTAGAGGTTAGGA
94222571 TTTAAGATTTAGAGGTTAGGA
1 TTTAAGATTTAGAGGTTAGGA
94222592 TTT
1 TTT
94222595 GGATTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (21 bp):
TTTAAGATTTAGAGGTTAGGA
Found at i:94222599 original size:20 final size:21
Alignment explanation
Indices: 94222559--94222614 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
94222549 GATTTTAAGG
94222559 TTTAAGGTT-GGATTTAAGA-
1 TTTAAGGTTAGGATTTAAGAT
*
94222578 TTTAGAGGTTAGGATTT-GGAT
1 TTTA-AGGTTAGGATTTAAGAT
94222599 TTTAAGGTTTAGGATT
1 TTTAAGG-TTAGGATT
94222615 AAGGTCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 4 0.12
20 10 0.31
21 18 0.56
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.45
Consensus pattern (21 bp):
TTTAAGGTTAGGATTTAAGAT
Found at i:94224918 original size:16 final size:17
Alignment explanation
Indices: 94224897--94224930 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
94224887 ATTGAATTAG
*
94224897 ATTTTTA-ATAATTTTT
1 ATTTTTATAAAATTTTT
94224913 ATTTTTATAAAATTTTT
1 ATTTTTATAAAATTTTT
94224930 A
1 A
94224931 ATGATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTATAAAATTTTT
Found at i:94226053 original size:4 final size:4
Alignment explanation
Indices: 94226044--94226075 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
94226034 CACGTAAACT
94226044 CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC
94226076 ACCTTCCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:94227664 original size:23 final size:23
Alignment explanation
Indices: 94227620--94227664 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
94227610 TCAAAATTCT
* *
94227620 TTTTAATTTCTTCCTCTGAATTA
1 TTTTAATTTCTCCCTCTAAATTA
94227643 TTTT-ATTTCTCCCTCTTAAATT
1 TTTTAATTTCTCCCTC-TAAATT
94227665 GAAAACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTAATTTCTCCCTCTAAATTA
Found at i:94229227 original size:340 final size:331
Alignment explanation
Indices: 94228609--94229283 Score: 1116
Period size: 340 Copynumber: 2.0 Consensus size: 331
94228599 GTACTATCTT
*
94228609 AGATTATTTTTATTTTTATTTTATAATAAAAATTAATTGATTTAATTTATTATTATTATTATTTC
1 AGATTATTTTTATTTTTATTTTATAAAAAAAATTAATTGATTTAATTTATTATTATTATTATTTC
**
94228674 GATAAGTATTTGTATTTTATCCAAGAAACTAAAAATTTACTACAAAGAACTAAGAATAACAATGT
66 GATAAGTATTTGTATTTTATCCAAGAAACTAAAAACCTACTACAAAGAACTAAGAATAACAATGT
* **
94228739 TCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTTAGTAAATTCTAGTTCAAACA
131 TCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAACAAATTCTAGTTCAAACA
* * * * *
94228804 AAGCTGCTTATTACAATGATCTAAAGAATTAATAAGCCTTCTAGAAAGATGGCATCGGACCACTT
196 AAGCTACCTATTACAATGATCTAAAGAATTAATAAGCCTTCTAGAAAGACGACATCGAACCACTT
*
94228869 CCTGAATTTTACTAACAAATGATCCGCAGAAGTTACAGGTCTACCAATTAATCTACCATTTCTTT
261 CCTGAATTTTACTAACAAATGATCCGCAGAAGTTACAGGTCTACCAAATAATCTACCATTTCTTT
94228934 CACACC
326 CACACC
94228940 AGATTATTTTTATTTTTATTTTATAAAAAAAATTAATTGATTTAATTTATTATTATTATTCTTAT
1 AGATTATTTTTATTTTTATTTTATAAAAAAAATTAATTGATTTAATTTATTATTATTA---TTA-
*
94229005 TTTTTTTTGGATAAGTATTTGTATTTTATCCAAGAAACTAAAAACCTACTACAAAGAACTAAGAA
62 -----TTTCGATAAGTATTTGTATTTTATCCAAGAAACTAAAAACCTACTACAAAGAACTAAGAA
94229070 TAACAATGTTCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAACAAATTCTA
122 TAACAATGTTCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAACAAATTCTA
*
94229135 GTTCAAACAAAGCTACCTATTACAATGATCTAAAGAATTAATAAGCTTTCTAGAAAGACGACATC
187 GTTCAAACAAAGCTACCTATTACAATGATCTAAAGAATTAATAAGCCTTCTAGAAAGACGACATC
* *
94229200 GAACCACTTCCTGAATTTTATTAACAAATGATCTGCAGAAGTTACAGGTCTACCAAATAATCTAC
252 GAACCACTTCCTGAATTTTACTAACAAATGATCCGCAGAAGTTACAGGTCTACCAAATAATCTAC
*
94229265 CATTTCTTTCACACT
317 CATTTCTTTCACACC
94229280 AGAT
1 AGAT
94229284 GGAACACACA
Statistics
Matches: 318, Mismatches: 17, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
331 57 0.18
334 3 0.01
340 258 0.81
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (331 bp):
AGATTATTTTTATTTTTATTTTATAAAAAAAATTAATTGATTTAATTTATTATTATTATTATTTC
GATAAGTATTTGTATTTTATCCAAGAAACTAAAAACCTACTACAAAGAACTAAGAATAACAATGT
TCTGTACAACAAATCAAAGAATCAAAGAAAAACAAAAATCAATTCAACAAATTCTAGTTCAAACA
AAGCTACCTATTACAATGATCTAAAGAATTAATAAGCCTTCTAGAAAGACGACATCGAACCACTT
CCTGAATTTTACTAACAAATGATCCGCAGAAGTTACAGGTCTACCAAATAATCTACCATTTCTTT
CACACC
Found at i:94231333 original size:36 final size:36
Alignment explanation
Indices: 94231286--94231398 Score: 122
Period size: 36 Copynumber: 3.2 Consensus size: 36
94231276 ATATGATATT
*
94231286 GGTTTATCCGACTAGCGCTGAGCGCAAAACATCGTC
1 GGTTTATCCGACTAGCGCTGAGCGCAAAACATTGTC
* * * *
94231322 GGTTTATCCGACCAGTGC--AGGGCACAACTATTGTC
1 GGTTTATCCGACTAGCGCTGAGCGCAAAAC-ATTGTC
* * * *
94231357 AGTTTATCTGACTAGCGCTGGGCGCAAAACATTATC
1 GGTTTATCCGACTAGCGCTGAGCGCAAAACATTGTC
94231393 GGTTTA
1 GGTTTA
94231399 ATTGACCAGT
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
34 8 0.13
35 19 0.32
36 26 0.43
37 7 0.12
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (36 bp):
GGTTTATCCGACTAGCGCTGAGCGCAAAACATTGTC
Found at i:94231382 original size:71 final size:71
Alignment explanation
Indices: 94231287--94231457 Score: 229
Period size: 71 Copynumber: 2.4 Consensus size: 71
94231277 TATGATATTG
* * * *
94231287 GTTTATCCGACTAGCGCTGAGCGCAAAACATCGTCGGTTT-ATCCGACCAGTGCAGGGCACAACT
1 GTTTATCTGACTAGCGCTGGGCGCAAAACATCATCGGTTTAAT-CGACCAGTGCAGGACACAACT
94231351 ATTGTCA
65 ATTGTCA
* *
94231358 GTTTATCTGACTAGCGCTGGGCGCAAAACATTATCGGTTTAATTGACCAGTGCAGGACACAACTA
1 GTTTATCTGACTAGCGCTGGGCGCAAAACATCATCGGTTTAATCGACCAGTGCAGGACACAACTA
*
94231423 TTGTCG
66 TTGTCA
* *
94231429 GTATA-CTCGACTAGCGCTAGGCGCAAAAC
1 GTTTATCT-GACTAGCGCTGGGCGCAAAAC
94231458 TTAACTACGG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
70 2 0.02
71 85 0.96
72 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (71 bp):
GTTTATCTGACTAGCGCTGGGCGCAAAACATCATCGGTTTAATCGACCAGTGCAGGACACAACTA
TTGTCA
Found at i:94231430 original size:35 final size:35
Alignment explanation
Indices: 94231319--94231430 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
94231309 GCAAAACATC
*
94231319 GTCGGTTTATCCGACCAGTGCAGGGCACAACTATT
1 GTCGGTTTATCTGACCAGTGCAGGGCACAACTATT
* * * * *
94231354 GTCAGTTTATCTGACTAGCGCTGGGCGCAAAAC-ATT
1 GTCGGTTTATCTGACCAGTGC-AGG-GCACAACTATT
* *
94231390 ATCGGTTTAAT-TGACCAGTGCAGGACACAACTATT
1 GTCGGTTT-ATCTGACCAGTGCAGGGCACAACTATT
94231425 GTCGGT
1 GTCGGT
94231431 ATACTCGACT
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
34 5 0.08
35 27 0.46
36 19 0.32
37 8 0.14
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (35 bp):
GTCGGTTTATCTGACCAGTGCAGGGCACAACTATT
Found at i:94235775 original size:48 final size:48
Alignment explanation
Indices: 94235552--94236082 Score: 876
Period size: 48 Copynumber: 11.1 Consensus size: 48
94235542 GCGGAAATTG
94235552 ATGTATGAGATATGTATATGT-GTAAAGCCGAATGGCTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
94235601 ATATATGAGATATGTATATGTGGTAAAG-CGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
94235648 ATGTATGAGATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
94235696 ATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTAT--GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
94235746 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
94235794 ATGTATGAGATATGTATATGT-GTAAAGCCTAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
94235841 ATGTAT-AG--ATGTATATGTGGTAAAGCCGAGTGGCTAATATGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
94235886 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
**
94235934 ATGTATGAGATAAATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
94235982 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
94236030 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGACTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
94236078 ATGTA
1 ATGTA
94236083 GGCGATGTGT
Statistics
Matches: 456, Mismatches: 18, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
44 10 0.02
45 29 0.06
46 4 0.01
47 60 0.13
48 266 0.58
49 35 0.08
50 52 0.11
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:94236010 original size:236 final size:238
Alignment explanation
Indices: 94235552--94236082 Score: 879
Period size: 236 Copynumber: 2.2 Consensus size: 238
94235542 GCGGAAATTG
*
94235552 ATGTATGAGATATGTATATGTGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTA
1 ATGTATGAGATATGTATATGTGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGA-ATGTA
* *
94235617 TATGTGGTAAAGCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAC
63 TATGTGGTAAAGCGAATGGCTAATATGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAAC
**
94235682 GGCTAATGTGAAATATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
128 GGCTAATGTGAAATATATAT-AGAGATAAATATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
*
94235747 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
192 TGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
94235794 ATGTATGAGATATGTATATGTGTAAAGCCTAATGGCTAATGTGAAATATGTAT-AG-ATGTATAT
1 ATGTATGAGATATGTATATGTGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATAT
* *
94235857 GTGGTAAAGCCGAGTGGCTAATATGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGG
66 GTGGTAAAG-CGAATGGCTAATATGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAACGG
*
94235922 CTAATGTGAAATATGTAT-GAGATAAATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
130 CTAATGTGAAATATATATAGAGATAAATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT
94235986 ATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
195 ATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
94236030 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGACTAGTGTGAAATATGTA
1 ATGTATGAGATATGTATATGT-GTAAAGCCGAATGGCTAATGTGAAATATGTA
94236083 GGCGATGTGT
Statistics
Matches: 274, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
236 108 0.39
237 45 0.16
238 68 0.25
239 2 0.01
240 7 0.03
241 2 0.01
242 42 0.15
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (238 bp):
ATGTATGAGATATGTATATGTGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATAT
GTGGTAAAGCGAATGGCTAATATGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAACGGC
TAATGTGAAATATATATAGAGATAAATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
TGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:94236366 original size:37 final size:37
Alignment explanation
Indices: 94236229--94236373 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
94236219 GGAAATATAT
*
94236229 TCCGGGTAAGACCCGATGACTACGTGTGGAAATATAT-
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGAT-TATG
94236266 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
94236303 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * **
94236340 TCCGCGTAAGACCCGATAACTTTGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
94236374 CATCTGAGCT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
36 3 0.03
37 98 0.97
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Done.