Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 132 of 187
Found at i:39269124 original size:40 final size:39
Alignment explanation
Indices: 39269080--39269156 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
39269070 CGTTTGGATA
* * *
39269080 AAAAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTCTG
1 AAAAACACCACTAAAAAT-GAGCATTAGCGGCGCTTTCTG
* *
39269120 AAAAACACCGCTAAAAATGAGCATTAGCGGCGTTTTC
1 AAAAACACCACTAAAAATGAGCATTAGCGGCGCTTTC
39269157 CAAAAAGAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 17 0.53
40 15 0.47
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (39 bp):
AAAAACACCACTAAAAATGAGCATTAGCGGCGCTTTCTG
Found at i:39269284 original size:41 final size:41
Alignment explanation
Indices: 39269210--39269493 Score: 306
Period size: 41 Copynumber: 7.0 Consensus size: 41
39269200 TGAGTTTTCG
* * * * *
39269210 GGGCATTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
39269251 GGGCTTTAGCGGCGTTTTTGAAGAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
39269292 GGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
** * * *
39269334 --TTTTTAGCGGCATTTTT-ATAAAAGCGCCACTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGA-AGAAGCGCCGCTAATGCTCA
* * * * *
39269373 GGGTTTTAGTGGCATTTTTTAAGAAGCGCCGCTGATGCTC-
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * * * *
39269413 GAGTCTTTAGCGGCGTTTCTGAAAAAGCGCCTCTAATGCTTA
1 G-GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
39269455 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCT
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT
39269494 TTATTTTAGC
Statistics
Matches: 202, Mismatches: 34, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
39 2 0.01
40 31 0.15
41 166 0.82
42 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:39269367 original size:81 final size:81
Alignment explanation
Indices: 39269210--39269523 Score: 346
Period size: 82 Copynumber: 3.9 Consensus size: 81
39269200 TGAGTTTTCG
* * * * * ** * *
39269210 GGGCATTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTC-AGGGCTTTAGCGGCGTTTTTGAAG
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA--TTTTTAGCGGCGTTTCTGAAA
* *
39269274 AAGTGCCGCTAATGCTCA
64 AAGCGCCACTAATGCTCA
* * *
39269292 GGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCATTT-TTATAAA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTCTGA-AAA
39269356 AGCGCCACTAATGCTCA
65 AGCGCCACTAATGCTCA
* * * * * * *
39269373 GGGTTTTAGTGGCATTTTTTAAGAAGCGCCGCTGATGCTCGAGTCTTTAGCGGCGTTTCTGAAAA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTA-TTTTTAGCGGCGTTTCTGAAAA
* *
39269438 AGCGCCTCTAATGCTTA
65 AGCGCCACTAATGCTCA
* *
39269455 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTTTA-TTTTAGCGGCGTTTCTGAAAAA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTCTGAAAAA
39269519 GCGCC
66 GCGCC
39269524 GCAAAAAATT
Statistics
Matches: 194, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
80 28 0.14
81 64 0.33
82 99 0.51
83 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (81 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCGTTTCTGAAAAA
GCGCCACTAATGCTCA
Found at i:39269427 original size:163 final size:162
Alignment explanation
Indices: 39269215--39269523 Score: 442
Period size: 163 Copynumber: 1.9 Consensus size: 162
39269205 TTTCGGGGCA
* * * * *
39269215 TTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGTGC
1 TTAGTGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTCTGAAAAAGCGC
*
39269280 CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGC
66 CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTA-TTTTAGCGGC
*
39269345 ATTT-TTATAAAAGCGCCACTAATGCTCAGGGTT
130 ATTTCTGA-AAAAGCGCCACTAATGCTCAGGGTT
* * *
39269378 TTAGTGGCATTTTTTAAGAAGCGCCGCTGATGCTC-GAGTCTTTAGCGGCGTTTCTGAAAAAGCG
1 TTAGTGGCATTTTTTAAAAAGCGCCGCTAATGCTCAG-GGCTTTAGCGGCGTTTCTGAAAAAGCG
* * * *
39269442 CCTCTAATGCTTAGGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTTTATTTTAGCGGC
65 CCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGC
*
39269507 GTTTCTGAAAAAGCGCC
130 ATTTCTGAAAAAGCGCC
39269524 GCAAAAAATT
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
162 23 0.18
163 106 0.82
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (162 bp):
TTAGTGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTCTGAAAAAGCGC
CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGCA
TTTCTGAAAAAGCGCCACTAATGCTCAGGGTT
Found at i:39269441 original size:122 final size:121
Alignment explanation
Indices: 39269225--39269452 Score: 314
Period size: 122 Copynumber: 1.9 Consensus size: 121
39269215 TTAGTGGCGT
* * * *
39269225 TTTTTAAAAAGCGTCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGTGCCGCTAATGCT
1 TTTTTAAAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCT
* *
39269290 CAGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
66 CAGGGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
* * * *
39269346 TTTTTATAAAAGCGCCACTAATGCTCAGGGTTTTAGTGGCATTTTTTAAGAAGCGCCGCTGATGC
1 TTTTTA-AAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGC
* * *
39269411 TC-GAGTCTTTAGCGGCGTTTCTGAAAAAGCGCCTCTAATGCT
65 TCAG-GGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCT
39269453 TAGGGCTTTA
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
121 7 0.08
122 85 0.92
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (121 bp):
TTTTTAAAAAGCGCCACTAATGCTCAGGGCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCT
CAGGGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCTCTATTTTTAGCGGCA
Found at i:39269494 original size:41 final size:41
Alignment explanation
Indices: 39269210--39269525 Score: 286
Period size: 41 Copynumber: 7.8 Consensus size: 41
39269200 TGAGTTTTCG
* * * * * *
39269210 GGGCATTAGTGGCGTTTTTTAAAAAGCGTCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
* *
39269251 GGGCTTTAGCGGCGTTTTTGAAGAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
*
39269292 GGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT-TA
** * * * *
39269334 --TTTTTAGCGGCATTTTT-ATAAAAGCGCCACTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGA-AGAAGCGCCGCTAATGCTTA
* * * * * *
39269373 GGGTTTTAGTGGCATTTTTTAAGAAGCGCCGCTGATGC-TC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
* * * *
39269413 GAGTCTTTAGCGGCGTTTCTGAAAAAGCGCCTCTAATGCTTA
1 G-GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
*
39269455 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTTTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC-TTA
* * *
39269497 ---TTTTAGCGGCGTTTCTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
39269526 AAAAAATTCA
Statistics
Matches: 225, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
39 27 0.12
40 30 0.13
41 161 0.72
42 7 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTA
Found at i:39270716 original size:13 final size:15
Alignment explanation
Indices: 39270688--39270719 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
39270678 CTCATATTAT
39270688 TATTAATTTAATATA
1 TATTAATTTAATATA
39270703 TATTAA-TT-ATATA
1 TATTAATTTAATATA
39270716 TATT
1 TATT
39270720 TTTCATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATTTAATATA
Found at i:39272576 original size:21 final size:21
Alignment explanation
Indices: 39272531--39272576 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
39272521 ATATATATAT
*
39272531 GTTTAGCTTAGTGTTGATCTA
1 GTTTAGCTTAGTATTGATCTA
* *
39272552 GTTTAGCTTAGTATTGGTCTG
1 GTTTAGCTTAGTATTGATCTA
39272573 GTTT
1 GTTT
39272577 TTTTACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.09, G:0.26, T:0.50
Consensus pattern (21 bp):
GTTTAGCTTAGTATTGATCTA
Found at i:39274531 original size:14 final size:14
Alignment explanation
Indices: 39274512--39274539 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39274502 TCATTACAAG
39274512 ATTTCCTTGATTAA
1 ATTTCCTTGATTAA
39274526 ATTTCCTTGATTAA
1 ATTTCCTTGATTAA
39274540 GTTAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
ATTTCCTTGATTAA
Found at i:39274603 original size:43 final size:43
Alignment explanation
Indices: 39274526--39274608 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
39274516 CCTTGATTAA
* ** *
39274526 ATTTCCTTGATTAAGTTAATGTATTATATCTTTTATTACCAAG
1 ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACCAAG
* *
39274569 ATTTACTTGATTAAGAAAATGCATTGTATTTTTTATTACC
1 ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACC
39274609 TTGCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (43 bp):
ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACCAAG
Found at i:39275102 original size:43 final size:43
Alignment explanation
Indices: 39275055--39275173 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 43
39275045 GGTTATATTT
* **
39275055 TTTAGCGGCGTTGGTGACAAAAGCGTCGCTAAAGAACATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGAACATGACC
* * ** **
39275098 TTTAGTGGCATTTGTGACAAAAGTATTC-CTAAAGCTCATGACC
1 TTTAGCGGCGTTTGTGACAAAAG-CGTCGCTAAAGAACATGACC
* * *
39275141 TTTAGCGGCGTTTATGATAAAAGCGCCGCTAAA
1 TTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAA
39275174 TTTAGCGGCG
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
42 1 0.02
43 55 0.95
44 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGAACATGACC
Found at i:39283064 original size:146 final size:147
Alignment explanation
Indices: 39282790--39283154 Score: 540
Period size: 147 Copynumber: 2.5 Consensus size: 147
39282780 TTTTTTAAAA
* *
39282790 AAAAGAGAAAGTTTAGATTTAAAAAAATAAAAATATGGTTTTTTAGTCATTTTAAAGGAAAG-TT
1 AAAAGAGAAAATTTAGATTTTAAAAAATAAAAATAT-GTTTTTTAGTCATTTTAAAGGAAAGTTT
* *
39282854 AAAATTTTAAAACAAAGCTTTGATTTTCTTTTCAACTATTTCAAAATAAAAGTTTTGATCTTTAA
65 AAAATTTTAAAACAAAGCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAA
*
39282919 GAAAAATAGTATTTTTTT
130 GAAAAATAGCATTTTTTT
39282937 AAAAGAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTA
1 AAAAGAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTA
** *
39283002 AAATTTTAAAACAAATTTTTAATTTT-TTTTCAACTATTTCAAAATTAAAGCTTTGATCTTTAAG
66 AAATTTTAAAACAAAGCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAAG
*
39283066 AAAAATAGCGTTTTTTT
131 AAAAATAGCATTTTTTT
* ** *
39283083 AAAA-AAAAGAGAGTTTAGATTTT-TTAAATAAAAATATGTTTTTTATTCATTTTAAAGGAAAAG
1 AAAAGAGAA-A-A-TTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG-AAAG
39283146 TTTAAAATT
62 TTTAAAATT
39283155 AAAAAAAAAT
Statistics
Matches: 200, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
145 3 0.01
146 81 0.41
147 93 0.47
148 23 0.12
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (147 bp):
AAAAGAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAGTTTA
AAATTTTAAAACAAAGCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTTGATCTTTAAG
AAAAATAGCATTTTTTT
Found at i:39283098 original size:20 final size:20
Alignment explanation
Indices: 39283060--39283098 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
39283050 AGCTTTGATC
* * *
39283060 TTTAAGAAAAATAGCGTTTT
1 TTTAAAAAAAAGAGAGTTTT
39283080 TTTAAAAAAAAGAGAGTTT
1 TTTAAAAAAAAGAGAGTTT
39283099 AGATTTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (20 bp):
TTTAAAAAAAAGAGAGTTTT
Found at i:39283174 original size:146 final size:145
Alignment explanation
Indices: 39282779--39283211 Score: 504
Period size: 146 Copynumber: 3.0 Consensus size: 145
39282769 AAGTTTTGAT
*
39282779 TTTTTTTAAAAAAAAGAGAAAGTTTAGATTTAAAAAAATAAAAATATGGTTTTTTAGTCATTTTA
1 TTTTTTTAAAAAAAAGAG--AGTTTAGATTT-TAAAAATAAAAATAT-GTTTTTTAGTCATTTTA
** * * *
39282844 AAGGAAAG-TTAAAATTTTAAAACAAAGCTTTGATTTTCTTTTCAACTATTTCAAAATAAAAGTT
62 AAGGAAAGTTTAAAA-TTTAAAA-AAA-AATTCATTTTTTTTTCAACTATTTCAAAATTAAAGTT
*
39282908 TTGATCTTTAAGAAAAATAGTA
124 TTGATCTTTAAGAAAAATAGCA
*
39282930 TTTTTTTAAAAGAGAA-A-A-TTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAA
1 TTTTTTTAAAA-AAAAGAGAGTTTAGATTTT-AAAAATAAAAATATGTTTTTTAGTCATTTTAAA
** * * *
39282992 GGAAAGTTTAAAATTTTAAAACAAATTTTTAATTTTTTTTCAACTATTTCAAAATTAAAGCTTTG
64 GGAAAGTTTAAAA-TTTAAAA-AAAAATTCATTTTTTTTTCAACTATTTCAAAATTAAAGTTTTG
*
39283057 ATCTTTAAGAAAAATAGCG
127 ATCTTTAAGAAAAATAGCA
** *
39283076 TTTTTTTAAAAAAAAGAGAGTTTAGATTTTTTAAATAAAAATATGTTTTTTATTCATTTTAAAGG
1 TTTTTTTAAAAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG
* * * * *
39283141 AAAAGTTTAAAA-TTAAAAAAAAATTCA--TCTTTTTCATCTCTTTCGAAA-TAAAGTTTTGATT
66 -AAAGTTTAAAATTTAAAAAAAAATTCATTTTTTTTTCAACTATTTCAAAATTAAAGTTTTGATC
39283202 TTTAAGAAAA
130 TTTAAGAAAA
39283212 GTAATGATTG
Statistics
Matches: 252, Mismatches: 23, Indels: 23
0.85 0.08 0.08
Matches are distributed among these distances:
142 21 0.08
143 17 0.07
145 9 0.04
146 94 0.37
147 74 0.29
148 22 0.09
151 12 0.05
152 3 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (145 bp):
TTTTTTTAAAAAAAAGAGAGTTTAGATTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG
AAAGTTTAAAATTTAAAAAAAAATTCATTTTTTTTTCAACTATTTCAAAATTAAAGTTTTGATCT
TTAAGAAAAATAGCA
Found at i:39283773 original size:25 final size:25
Alignment explanation
Indices: 39283745--39283792 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
39283735 TATGCACTTT
**
39283745 ATTTTAATGTTTTATATTTATTCAC
1 ATTTTAATAATTTATATTTATTCAC
* *
39283770 ATTTTTATAATTTCTATTTATTC
1 ATTTTAATAATTTATATTTATTC
39283793 TTATTTTGTT
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:0.08, G:0.02, T:0.62
Consensus pattern (25 bp):
ATTTTAATAATTTATATTTATTCAC
Found at i:39285559 original size:14 final size:14
Alignment explanation
Indices: 39285540--39285568 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39285530 GGGCTTATTC
39285540 ATAAAAAGTAAAAA
1 ATAAAAAGTAAAAA
39285554 ATAAAAAGTAAAAA
1 ATAAAAAGTAAAAA
39285568 A
1 A
39285569 AAAGATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
ATAAAAAGTAAAAA
Found at i:39285582 original size:16 final size:16
Alignment explanation
Indices: 39285563--39285598 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
39285553 AATAAAAAGT
39285563 AAAAAAAAAGATGAAC
1 AAAAAAAAAGATGAAC
39285579 AAAAAAAAAGATGAAC
1 AAAAAAAAAGATGAAC
39285595 AAAA
1 AAAA
39285599 TATTTGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.78, C:0.06, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAAAAAAAGATGAAC
Found at i:39291818 original size:37 final size:37
Alignment explanation
Indices: 39291771--39291846 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
39291761 TATTTTGTGT
* *
39291771 AAAATTAACATTTATACCTAGAGTTATTTTGTAAAAA
1 AAAATGAACATTTATACCTAAAGTTATTTTGTAAAAA
39291808 AAAATGAACATTTATACCTAAAGTTATTTTGTAAAAA
1 AAAATGAACATTTATACCTAAAGTTATTTTGTAAAAA
39291845 AA
1 AA
39291847 TTAACATGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (37 bp):
AAAATGAACATTTATACCTAAAGTTATTTTGTAAAAA
Found at i:39292370 original size:33 final size:34
Alignment explanation
Indices: 39292301--39292370 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 34
39292291 TACTTTCAAA
* * *
39292301 ATTAAACTTATTTAAAACTCATTTTCAAAAATTG
1 ATTAAACTTATTTAAAACTCATGTTAAAAAAATG
*
39292335 ATTAAA-TTTTTTAAAAC-CATGTTAAAAAACATG
1 ATTAAACTTATTTAAAACTCATGTTAAAAAA-ATG
39292368 ATT
1 ATT
39292371 GATCTACCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 10 0.32
33 15 0.48
34 6 0.19
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (34 bp):
ATTAAACTTATTTAAAACTCATGTTAAAAAAATG
Found at i:39303282 original size:79 final size:79
Alignment explanation
Indices: 39303151--39303310 Score: 320
Period size: 79 Copynumber: 2.0 Consensus size: 79
39303141 GGCAATCGTG
39303151 TCCAATAGGAGTGCACTTGTAACGCAGATATTCGACAAGCTTGGGTGATCGTTTTCAACCAATGA
1 TCCAATAGGAGTGCACTTGTAACGCAGATATTCGACAAGCTTGGGTGATCGTTTTCAACCAATGA
39303216 TCTAAGGGGATTAA
66 TCTAAGGGGATTAA
39303230 TCCAATAGGAGTGCACTTGTAACGCAGATATTCGACAAGCTTGGGTGATCGTTTTCAACCAATGA
1 TCCAATAGGAGTGCACTTGTAACGCAGATATTCGACAAGCTTGGGTGATCGTTTTCAACCAATGA
39303295 TCTAAGGGGATTAA
66 TCTAAGGGGATTAA
39303309 TC
1 TC
39303311 AGATAACTTT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (79 bp):
TCCAATAGGAGTGCACTTGTAACGCAGATATTCGACAAGCTTGGGTGATCGTTTTCAACCAATGA
TCTAAGGGGATTAA
Found at i:39303790 original size:19 final size:19
Alignment explanation
Indices: 39303754--39303793 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39303744 CGTTTCTCGT
**
39303754 CCTCTTGGGCCGTTATGGG
1 CCTCTTGGGCCGAAATGGG
*
39303773 CCTCTTGGGCTGAAATGGG
1 CCTCTTGGGCCGAAATGGG
39303792 CC
1 CC
39303794 GTGTGGGCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.28, G:0.35, T:0.28
Consensus pattern (19 bp):
CCTCTTGGGCCGAAATGGG
Found at i:39304226 original size:24 final size:25
Alignment explanation
Indices: 39304125--39304225 Score: 150
Period size: 25 Copynumber: 4.1 Consensus size: 25
39304115 TTTGCCCCTC
* *
39304125 GAGGTTAAATGATTGATTTGTTTGT
1 GAGGTTAAATGACTGATTTGTCTGT
*
39304150 GAGGTTAAATGATTGATTTGTCTGT
1 GAGGTTAAATGACTGATTTGTCTGT
*
39304175 GAGGTTAAATGACTGACTTGTCTGT
1 GAGGTTAAATGACTGATTTGTCTGT
*
39304200 GATG-TAAATGACTGATTTGTCTGT
1 GAGGTTAAATGACTGATTTGTCTGT
39304224 GA
1 GA
39304226 TTTGTATGAC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
24 21 0.30
25 50 0.70
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.42
Consensus pattern (25 bp):
GAGGTTAAATGACTGATTTGTCTGT
Found at i:39304373 original size:27 final size:27
Alignment explanation
Indices: 39304323--39304374 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
39304313 GGTGGCTCTA
*
39304323 CCACAATCACTGTTACTCGTGGCTTGG
1 CCACAATCACTGTTACTCGCGGCTTGG
*
39304350 CCACATAT-ACTGTTACTGGCGGCTT
1 CCACA-ATCACTGTTACTCGCGGCTT
39304375 TGCTGCGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (27 bp):
CCACAATCACTGTTACTCGCGGCTTGG
Found at i:39304394 original size:26 final size:26
Alignment explanation
Indices: 39304356--39304409 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
39304346 TTGGCCACAT
*
39304356 ATACTGTTACTGGCGGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
39304382 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
39304408 AT
1 AT
39304410 GCTACTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.13, C:0.22, G:0.30, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:39304421 original size:26 final size:26
Alignment explanation
Indices: 39304366--39304421 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
39304356 ATACTGTTAC
* ** *
39304366 TGGCGGCTTTGCTGCGATACTGTTGC
1 TGGCAGCTTTGCTGCGATACTACTGA
*
39304392 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCGATACTACTGA
39304418 TGGC
1 TGGC
39304422 TTCGTACCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTACTGA
Found at i:39304484 original size:32 final size:32
Alignment explanation
Indices: 39304412--39304600 Score: 168
Period size: 32 Copynumber: 6.0 Consensus size: 32
39304402 GCTGCGATGC
* * * **
39304412 TACTGATGGCTTCGTACCGATCATAGTACTAC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
39304444 TACTGATGGCTTTGTGCCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * * * **
39304476 TACCGATGGCTGTATGCCGATCATATCACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* ** * *
39304508 TACTGATGG--GTGTGTTGATCATATGACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
39304538 CACTGATGGCTTTGTGCCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
39304570 TACTGATGG-TTGTGTGCCGATCATATCACTG
1 TACTGATGGCTT-TGTGCCGATCATATTACTG
39304601 CTATCACATT
Statistics
Matches: 123, Mismatches: 31, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
30 22 0.18
31 2 0.02
32 99 0.80
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:39304556 original size:62 final size:61
Alignment explanation
Indices: 39304413--39304601 Score: 171
Period size: 62 Copynumber: 3.0 Consensus size: 61
39304403 CTGCGATGCT
* * * * * * **
39304413 ACTGATGGCTTCGTACCGATCATAGTACTACTACTGATGGCTTTGTGCCGATCATATTACTGTT
1 ACTGATGGCTTTGTGCCGATCATA-TACCATTACTGATGG--TTGTGTCGATCATATGACTGCC
* * * * *
39304477 ACCGATGGCTGTATGCCGATCATATCACCATTACTGATGGGTGTGTTGATCATATGACTGCC
1 ACTGATGGCTTTGTGCCGATCATAT-ACCATTACTGATGGTTGTGTCGATCATATGACTGCC
* * *
39304539 ACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGATGGTTGTGTGCCGATCATATCACTGC
1 ACTGATGGCTTTGTGCCGATCAT-ATACCATTACTGATGGTTGTGT--CGATCATATGACTGC
39304602 TATCACATTA
Statistics
Matches: 100, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
62 54 0.54
63 2 0.02
64 44 0.44
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (61 bp):
ACTGATGGCTTTGTGCCGATCATATACCATTACTGATGGTTGTGTCGATCATATGACTGCC
Found at i:39304653 original size:22 final size:22
Alignment explanation
Indices: 39304628--39304682 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
39304618 TCATGACTTG
*
39304628 TAGCCATTCTGTTTATAGCT-T
1 TAGCCATTCTGTTTACAGCTCT
* * *
39304649 ATAGCTATCCTGTTTACGGCTCT
1 -TAGCCATTCTGTTTACAGCTCT
39304672 TAGCCATTCTG
1 TAGCCATTCTG
39304683 ACAACTAGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (22 bp):
TAGCCATTCTGTTTACAGCTCT
Found at i:39304938 original size:33 final size:34
Alignment explanation
Indices: 39304896--39304973 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
39304886 AGGCTGATAG
* * *
39304896 GGGCTAAGGCCCA-ATTGCTACCGTTACTG-TAAT
1 GGGCTAAGGCCCACACTG-TACCATTACTGTTAAA
39304929 GGGCTAAGGCCCACACTGTACCATTACTGTTAAA
1 GGGCTAAGGCCCACACTGTACCATTACTGTTAAA
*
39304963 GGGCTCAGGCC
1 GGGCTAAGGCC
39304974 TAGATTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
33 23 0.59
34 16 0.41
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTGTACCATTACTGTTAAA
Found at i:39317899 original size:40 final size:40
Alignment explanation
Indices: 39317855--39318158 Score: 459
Period size: 40 Copynumber: 7.6 Consensus size: 40
39317845 AAGTGAATAT
* * * * **
39317855 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
*
39317895 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
39317935 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
39317975 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
39318015 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
39318055 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
39318095 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
39318134 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
39318159 TGAACGAGGA
Statistics
Matches: 251, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 35 0.14
40 216 0.86
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:39317953 original size:80 final size:80
Alignment explanation
Indices: 39317816--39318158 Score: 458
Period size: 80 Copynumber: 4.3 Consensus size: 80
39317806 TTGAATGCTG
* * * * * * * *
39317816 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* *
39317879 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTACTAAA
39317896 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
39317961 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
*
39317976 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
39318041 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* *
39318056 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
39318120 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
39318135 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
39318159 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 20, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
79 34 0.14
80 201 0.83
81 6 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:39318029 original size:120 final size:119
Alignment explanation
Indices: 39317816--39318158 Score: 476
Period size: 120 Copynumber: 2.9 Consensus size: 119
39317806 TTGAATGCTG
* * * * * *
39317816 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGG-C
* *
39317878 TTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
62 ATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
39317936 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT-
** *
39318001 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
39318056 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
39318121 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
66 TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
39318159 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
119 37 0.18
120 156 0.78
121 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:39331833 original size:50 final size:49
Alignment explanation
Indices: 39331764--39331958 Score: 214
Period size: 50 Copynumber: 3.9 Consensus size: 49
39331754 TGAAAGTGAT
* *
39331764 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGAAA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAT-AAA
* * * * *
39331814 GGTCGCATGTGCAGTACTATGTGCAGGCTACTACGTGTATCGGATATTAAT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-AATAAA
* *
39331865 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACC-AAA-AAA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATAAA
* * *
39331912 TTTGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA
1 ---GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
39331959 TGATAATAGT
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 1 0.01
50 72 0.60
51 42 0.35
52 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATAAA
Found at i:39331895 original size:101 final size:99
Alignment explanation
Indices: 39331762--39331956 Score: 284
Period size: 101 Copynumber: 1.9 Consensus size: 99
39331752 AGTGAAAGTG
* * * *
39331762 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGAAA-GGTCGCATGTGC
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACC-AAA--AAATGATCACATGTGC
*
39331826 AGTACTATGTGCAGGCTACTACGTGTATCGGATATTA
63 AGTACTATGTGAAGGCTACTACGTGTATCGGATATTA
*
39331863 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAAAAAATTTGATCACATGTGTA
1 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAAAAAA--TGATCACATGTGCA
39331928 GTACTATGTGAAGGCTACTACGTGTATCG
64 GTACTATGTGAAGGCTACTACGTGTATCG
39331957 AATGATAATA
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
98 3 0.04
100 3 0.04
101 79 0.93
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (99 bp):
ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAAAAAATGATCACATGTGCAGT
ACTATGTGAAGGCTACTACGTGTATCGGATATTA
Found at i:39331983 original size:101 final size:100
Alignment explanation
Indices: 39331774--39331990 Score: 251
Period size: 101 Copynumber: 2.1 Consensus size: 100
39331764 GGTCACGTGT
* * * * *
39331774 GTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGAAAGGTCGCATGTGCAGTACTATGTGCA
1 GTAGTACTATGTGCAGGCTACTACGTGAACCGAAA-GAAAGATCACATGTGCAGTACTATGTGAA
* * ** *
39331839 GGCTACTACGTGTATCGGATATTAATGGTCACGTGT
65 GGCTACTACGTGTATCGAATATTAATAGTCAAATGA
*
39331875 GTAGTACTATGTGCAGGCTACTACGTGAACC-AAA-AAATTTGATCACATGTGTAGTACTATGTG
1 GTAGTACTATGTGCAGGCTACTACGTGAACCGAAAGAAA---GATCACATGTGCAGTACTATGTG
*
39331938 AAGGCTACTACGTGTATCGAATGA-TAATAGTTAAATGA
63 AAGGCTACTACGTGTATCGAAT-ATTAATAGTCAAATGA
*
39331976 GTGGTACTATGTGCA
1 GTAGTACTATGTGCA
39331991 AACCACCGAA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
98 3 0.03
100 3 0.03
101 92 0.93
102 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (100 bp):
GTAGTACTATGTGCAGGCTACTACGTGAACCGAAAGAAAGATCACATGTGCAGTACTATGTGAAG
GCTACTACGTGTATCGAATATTAATAGTCAAATGA
Found at i:39338417 original size:79 final size:81
Alignment explanation
Indices: 39338315--39338498 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
39338305 GCTCCTCGTT
* *
39338315 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
39338377 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
39338395 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
39338459 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
39338475 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39338499 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:39338432 original size:39 final size:41
Alignment explanation
Indices: 39338315--39338498 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
39338305 GCTCCTCGTT
* *
39338315 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
39338355 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
39338395 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
39338434 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
39338475 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39338499 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:39340723 original size:27 final size:27
Alignment explanation
Indices: 39340693--39340793 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
39340683 ATTCTGTTAA
* *
39340693 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
39340720 GTGGCTACGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
39340747 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
39340774 GTGACTCTGTCACAATATCT
1 GTGGCTATGCCACAATATCT
39340794 AATAACTGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.12
27 49 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:39341011 original size:31 final size:31
Alignment explanation
Indices: 39340931--39341004 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
39340921 TTGTATTCAC
* *
39340931 ATTTTGATTTTTGATTCTGTTACCTGATACTG
1 ATTTTGA-TTCTGATTCTGTCACCTGATACTG
* **
39340963 ATTCTGATTCTGATTCTGTCACCTGATTTTG
1 ATTTTGATTCTGATTCTGTCACCTGATACTG
39340994 ATTTTGATTCT
1 ATTTTGATTCT
39341005 AGTTCTGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 30 0.83
32 6 0.17
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (31 bp):
ATTTTGATTCTGATTCTGTCACCTGATACTG
Found at i:39346114 original size:16 final size:16
Alignment explanation
Indices: 39346095--39346125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39346085 CTTCTTCACT
39346095 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
39346111 TACTTACTTACTTAA
1 TACTCACTTACTTAA
39346126 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:39346131 original size:20 final size:20
Alignment explanation
Indices: 39346092--39346131 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39346082 CAACTTCTTC
* *
39346092 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
39346112 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
39346132 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:39346503 original size:55 final size:53
Alignment explanation
Indices: 39346364--39346571 Score: 240
Period size: 55 Copynumber: 3.8 Consensus size: 53
39346354 ATCCTTTTGA
* * *
39346364 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * *
39346417 AACTCATCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G
39346471 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-G
1 -AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* ** * * *
39346524 AAACCTTACCAATTATCATGCCTTGGCATGGTCTTAAATGGTATCCTT
1 -AA-CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
39346572 AAACCCTAAT
Statistics
Matches: 133, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.02
53 46 0.35
54 8 0.06
55 75 0.56
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:39350913 original size:45 final size:45
Alignment explanation
Indices: 39350848--39350937 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
39350838 AATTCTAGTG
39350848 TAAGTGTTTGCCCTCCCAATCAGTTTTTGCTAAGTATCGAATATC
1 TAAGTGTTTGCCCTCCCAATCAGTTTTTGCTAAGTATCGAATATC
* *
39350893 TAAGTGTTTGCCCTCTCAATCAGTTTTTTCTAAGTATCGAATATC
1 TAAGTGTTTGCCCTCCCAATCAGTTTTTGCTAAGTATCGAATATC
39350938 CAGTTTCTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.40
Consensus pattern (45 bp):
TAAGTGTTTGCCCTCCCAATCAGTTTTTGCTAAGTATCGAATATC
Found at i:39352457 original size:68 final size:67
Alignment explanation
Indices: 39352385--39352561 Score: 184
Period size: 67 Copynumber: 2.6 Consensus size: 67
39352375 CATCATGTGT
* * * *
39352385 ACAAGAGAGCTACGAGATACTATGTGGTAGCTAGGTCACATGTGT-GATAC-GG-GATGTATACA
1 ACAAGAGAGCTACGAGATA--A-AT-GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACA
39352447 ATGTAG
62 ATGTAG
* * * * *
39352453 ACAAGAGAGCTACGGGATAAATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACGATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACAATGT
39352518 AG
66 AG
*
39352520 ACAAGAGAGCTACGAGATAAAATG--GCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGAGAT-AAATGTAGCTAGGTCACATGTGTGG
39352562 TACTTAGTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
64 18 0.19
65 4 0.04
66 19 0.20
67 29 0.31
68 23 0.25
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACAATGT
AG
Found at i:39354295 original size:40 final size:40
Alignment explanation
Indices: 39354195--39354459 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
39354185 GCTCCTCGTT
* * * *
39354195 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
39354235 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39354274 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
39354314 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
39354354 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
39354394 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
39354435 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
39354460 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:39354419 original size:80 final size:80
Alignment explanation
Indices: 39354162--39354459 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
39354152 AAATCATGTA
* ** * * *
39354162 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
39354224 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
39354240 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
39354303 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
39354320 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
39354384 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
39354400 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
39354460 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:39354468 original size:41 final size:41
Alignment explanation
Indices: 39354391--39354468 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
39354381 TTTGTATCTC
* * *
39354391 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
39354432 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
39354469 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:39364851 original size:29 final size:29
Alignment explanation
Indices: 39364809--39364910 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
39364799 TGAAAGTGAC
*
39364809 TGGGCCTAAGGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
39364838 TAGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
** *
39364867 TGGGCCTAATGGGCCATACGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
39364895 TGGGCCTATTGGGCCA
1 TGGGCCTAATGGGCCA
39364911 GATACAGGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 16 0.26
29 46 0.74
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:39364881 original size:58 final size:57
Alignment explanation
Indices: 39364809--39364919 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
39364799 TGAAAGTGAC
* * * *
39364809 TGGGCCTAAGGGGCCATATAAATGTGATTTAGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAAGGGGCCATACAAATATGA-TTAGGCCTAATGGGCCAGATACAGGTGATT
* * * *
39364867 TGGGCCTAATGGGCCATACGAATATGATTGGGCCTATTGGGCCAGATACAGGT
1 TGGGCCTAAGGGGCCATACAAATATGATTAGGCCTAATGGGCCAGATACAGGT
39364920 ATGTGAATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 22 0.49
58 23 0.51
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (57 bp):
TGGGCCTAAGGGGCCATACAAATATGATTAGGCCTAATGGGCCAGATACAGGTGATT
Found at i:39377225 original size:40 final size:40
Alignment explanation
Indices: 39377181--39377404 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
39377171 AAGTGAATAT
* * * * **
39377181 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
39377221 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
39377261 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
39377301 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
39377341 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
39377380 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
39377405 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:39377279 original size:80 final size:80
Alignment explanation
Indices: 39377142--39377404 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
39377132 TTGAATGCTG
* * * * *
39377142 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
39377204 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
39377222 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
39377287 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
39377302 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
39377366 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
39377381 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39377405 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:39377356 original size:120 final size:120
Alignment explanation
Indices: 39377142--39377404 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
39377132 TTGAATGCTG
* * *
39377142 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
39377206 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
39377262 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
39377324 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
39377381 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39377405 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39380928 original size:28 final size:29
Alignment explanation
Indices: 39380865--39380963 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 29
39380855 TGAATGAGAC
**
39380865 TGGGCCTAACAGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
39380894 TGGGCCTAATGGGCCATATCAA-GTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
39380922 TGGGCCTAATTGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
39380950 TGGGCTTAATGGGC
1 TGGGCCTAATGGGC
39380964 TAGATATAGG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 39 0.64
29 22 0.36
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:39385540 original size:55 final size:55
Alignment explanation
Indices: 39385467--39385577 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
39385457 ATGATTTCCA
* *
39385467 TGGAATAACTAGCATTTAGGCATACATAATACCAAACATGTCCTTGATTAGCCAT
1 TGGAATAACTAGCATTTAGCCATACATAACACCAAACATGTCCTTGATTAGCCAT
39385522 TGGAATAACTAGCATTTAGCCATACATAACACCAAACATGTCCTTGATTAGCCAT
1 TGGAATAACTAGCATTTAGCCATACATAACACCAAACATGTCCTTGATTAGCCAT
39385577 T
1 T
39385578 CCAATAGCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.29
Consensus pattern (55 bp):
TGGAATAACTAGCATTTAGCCATACATAACACCAAACATGTCCTTGATTAGCCAT
Found at i:39388734 original size:46 final size:44
Alignment explanation
Indices: 39388641--39388851 Score: 158
Period size: 46 Copynumber: 4.5 Consensus size: 44
39388631 GTGCCGAAGC
* * * *
39388641 CATGTCCCAGACATTGTCTTACATTGACTATCATCTCGTA-GCTGATG
1 CATGTCCCAGACA-TGTCTTACACTG-GT-TTA-CTCTTAGGCTGATG
*
39388688 CATGTCCCAGACATGTCTTACACTGGTTTACGTCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGTTTAC-TCTT-AGGCTGATG
* * * * *
39388734 CATGTCCCAAACATGTCTTACACTAG-ATATCATCTTAATGTTGATG
1 CATGTCCCAGACATGTCTTACACTGGTTTA-C-TCTT-AGGCTGATG
* **
39388780 CTATGTCCCAGACATGGTCATACACTGGCTCTTA-TAATATGGCTGATG
1 C-ATGTCCCAGACAT-GTCTTACACTGG-T-TTACTCTTA-GGCTGATG
39388828 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
39388852 ACCTCACACT
Statistics
Matches: 132, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 5 0.04
45 4 0.03
46 62 0.47
47 39 0.30
48 19 0.14
51 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGGTTTACTCTTAGGCTGATG
Found at i:39388842 original size:94 final size:91
Alignment explanation
Indices: 39388641--39388852 Score: 236
Period size: 94 Copynumber: 2.3 Consensus size: 91
39388631 GTGCCGAAGC
*
39388641 CATGTCCCAGACATTGTCTTACA-TTGACTATCATCTCGTAGCTGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACA-TGTCTTACACTAGACTATCATCTC-TAGCTGATGCATGTCCCAGACATGTC
* **
39388705 TTACACTGGTTTACGTCTTGAGGCCGATG
64 ATACACTGGTTTAC-TAATGAGGCCGATG
* *
39388734 CATGTCCCAAACATGTCTTACACTAGA-TATCATCT-TAATGTTGATGCTATGTCCCAGACATGG
1 CATGTCCCAGACATGTCTTACACTAGACTATCATCTCT-A-GCTGATGC-ATGTCCCAGACAT-G
*
39388797 TCATACACTGGCTCTTA-TAAT-ATGGCTGATG
62 TCATACACTGG-T-TTACTAATGA-GGCCGATG
39388828 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
39388853 CCTCACACTC
Statistics
Matches: 103, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
90 1 0.01
91 1 0.01
92 24 0.23
93 29 0.28
94 44 0.43
95 1 0.01
96 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (91 bp):
CATGTCCCAGACATGTCTTACACTAGACTATCATCTCTAGCTGATGCATGTCCCAGACATGTCAT
ACACTGGTTTACTAATGAGGCCGATG
Found at i:39390038 original size:26 final size:27
Alignment explanation
Indices: 39389994--39390053 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 27
39389984 GGCTATTACA
*
39389994 ACGGTCATTTTACTCTACAGGGGTATT
1 ACGGTCATTTTACCCTACAGGGGTATT
*
39390021 ACGGTCA-TTTACCCTACAGTGGTATT
1 ACGGTCATTTTACCCTACAGGGGTATT
39390047 ACGGTCA
1 ACGGTCA
39390054 AATAATGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
ACGGTCATTTTACCCTACAGGGGTATT
Found at i:39394325 original size:15 final size:15
Alignment explanation
Indices: 39394305--39394382 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
39394295 AGAAAGCTGA
39394305 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
39394320 ATAAAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
39394334 AATAAAGATATCC-AG
1 -ATAAAGAAATCCAAG
* *
39394349 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
39394365 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
39394380 ATA
1 ATA
39394383 TGATATTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.08
15 46 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:39394339 original size:30 final size:30
Alignment explanation
Indices: 39394303--39394382 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
39394293 TAAGAAAGCT
39394303 GAATAAAGAAATCCAAGATAAAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* * *
39394333 GAATAAAGATATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
39394363 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
39394383 TGATATTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 38 0.90
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.16, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:39397241 original size:93 final size:93
Alignment explanation
Indices: 39397134--39397305 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
39397124 GCCTATAAGT
* *
39397134 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39397199 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
39397227 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
39397292 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
39397306 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:39397301 original size:46 final size:46
Alignment explanation
Indices: 39397128--39397301 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
39397118 TAACCCGCCT
* *
39397128 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
* *
39397174 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCC
*** *
39397220 ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
*
39397267 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
39397302 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
Found at i:39401244 original size:28 final size:27
Alignment explanation
Indices: 39401181--39401332 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
39401171 ATATTAAGTC
* * *
39401181 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
39401208 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
39401236 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
39401263 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
39401291 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
39401318 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39401333 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:39401265 original size:55 final size:55
Alignment explanation
Indices: 39401181--39401332 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
39401171 ATATTAAGTC
* * *
39401181 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
39401236 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
39401291 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
39401333 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:39405165 original size:26 final size:26
Alignment explanation
Indices: 39405135--39405185 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
39405125 CACTTATATC
* * *
39405135 GCAGCAAAGCTGCCAGTAATAATAAT
1 GCAGCAAAGCTACCAGAAACAATAAT
*
39405161 GCAGCATAGCTACCAGAAACAATAA
1 GCAGCAAAGCTACCAGAAACAATAA
39405186 ATGTGACAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGAAACAATAAT
Found at i:39405475 original size:41 final size:41
Alignment explanation
Indices: 39405414--39405493 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
39405404 TTTTACCATA
* *
39405414 CAGGGTTATTACGGTTATTTTACCCTACAAGGGAATTACTT
1 CAGGGGTATTACGGTCATTTTACCCTACAAGGGAATTACTT
* * *
39405455 CAGGGGTATTGCGGTCATTTTACCCTACAGGGGTATTAC
1 CAGGGGTATTACGGTCATTTTACCCTACAAGGGAATTAC
39405494 GGTCATTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (41 bp):
CAGGGGTATTACGGTCATTTTACCCTACAAGGGAATTACTT
Found at i:39405485 original size:27 final size:27
Alignment explanation
Indices: 39405455--39405577 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
39405445 GGAATTACTT
*
39405455 CAGGGGTATTGCGGTCATTTTACCCTA
1 CAGGGGTATTACGGTCATTTTACCCTA
*
39405482 CAGGGGTATTACGGTCATTTTACCCCA
1 CAGGGGTATTACGGTCATTTTACCCTA
* * *
39405509 CAAGGGCATTACAGTCATTTTACCCTA
1 CAGGGGTATTACGGTCATTTTACCCTA
* **
39405536 CAGGAG-ATTACTCTCA-TTTACCCTA
1 CAGGGGTATTACGGTCATTTTACCCTA
* *
39405561 TAGGGGTATTACAGTCA
1 CAGGGGTATTACGGTCA
39405578 AATGATGACC
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
25 13 0.16
26 16 0.20
27 52 0.64
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (27 bp):
CAGGGGTATTACGGTCATTTTACCCTA
Found at i:39407827 original size:27 final size:27
Alignment explanation
Indices: 39407786--39407854 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
39407776 AAACATACAT
* *
39407786 CACATAGGGGTAAAACAATCATCCTAC
1 CACATAAGGGCAAAACAATCATCCTAC
* * **
39407813 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATCCTAC
*
39407840 CTCATAAGGGCAAAA
1 CACATAAGGGCAAAA
39407855 TCGTAATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATCCTAC
Found at i:39407855 original size:27 final size:27
Alignment explanation
Indices: 39407810--39408023 Score: 219
Period size: 27 Copynumber: 8.1 Consensus size: 27
39407800 ACAATCATCC
39407810 TACCACATAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* * *
39407837 TACCTCATAAGGGCAAAATCGTAATTT
1 TACCACATAAGGGCAAAATAGTCATTT
*
39407864 TACCACATAA-GGCAAAATCGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* *
39407890 TAACACATAAGGGC-AAA-A--CAGTT
1 TACCACATAAGGGCAAAATAGTCATTT
* * *
39407913 T-CCATATAATGG-AAAATCTGTCATTT
1 TACCACATAAGGGCAAAAT-AGTCATTT
* *
39407939 TATCACATAAGGGCAAAATCGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
* *
39407966 TAACACATAAGGGAAAAATCA-TCATTT
1 TACCACATAAGGGCAAAAT-AGTCATTT
* *
39407993 TAACACATAAGGGCAAAACAGTCATTT
1 TACCACATAAGGGCAAAATAGTCATTT
39408020 TACC
1 TACC
39408024 TTACAGTGGT
Statistics
Matches: 154, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
22 11 0.07
23 5 0.03
26 33 0.21
27 100 0.65
28 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
TACCACATAAGGGCAAAATAGTCATTT
Found at i:39407869 original size:54 final size:54
Alignment explanation
Indices: 39407810--39408023 Score: 248
Period size: 54 Copynumber: 4.1 Consensus size: 54
39407800 ACAATCATCC
* * *
39407810 TACCACATAAGGGCAAAAT-AGTCATTTTACCTCATAAGGGCAAAATCGTAATTT
1 TACCACATAAGGGCAAAATCAGTCATTTTAACACATAAGGGCAAAA-CGTCATTT
*
39407864 TACCACATAA-GGCAAAATC-GTCATTTTAACACATAAGGGCAAAA---CAGTT
1 TACCACATAAGGGCAAAATCAGTCATTTTAACACATAAGGGCAAAACGTCATTT
* * * *
39407913 T-CCATATAATGG-AAAATCTGTCATTTTATCACATAAGGGCAAAATCGTCATTT
1 TACCACATAAGGGCAAAATCAGTCATTTTAACACATAAGGGCAAAA-CGTCATTT
* *
39407966 TAACACATAAGGGAAAAATCA-TCATTTTAACACATAAGGGCAAAACAGTCATTT
1 TACCACATAAGGGCAAAATCAGTCATTTTAACACATAAGGGCAAAAC-GTCATTT
39408020 TACC
1 TACC
39408024 TTACAGTGGT
Statistics
Matches: 137, Mismatches: 13, Indels: 20
0.81 0.08 0.12
Matches are distributed among these distances:
48 13 0.09
49 30 0.22
53 37 0.27
54 51 0.37
55 6 0.04
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (54 bp):
TACCACATAAGGGCAAAATCAGTCATTTTAACACATAAGGGCAAAACGTCATTT
Found at i:39407967 original size:102 final size:103
Alignment explanation
Indices: 39407830--39408014 Score: 309
Period size: 102 Copynumber: 1.8 Consensus size: 103
39407820 GGGCAAAATA
* * * *
39407830 GTCATTTTACCTCATAAGGGCAAAATCGTAATTTTACCACATAA-GGCAAAATCGTCATTTTAAC
1 GTCATTTTACCACATAAGGGCAAAATCGTAATTTTAACACATAAGGGAAAAATCATCATTTTAAC
39407894 ACATAAGGGCAAAACAGTTTCCATATAATGGAAAATCT
66 ACATAAGGGCAAAACAGTTTCCATATAATGGAAAATCT
* *
39407932 GTCATTTTATCACATAAGGGCAAAATCGTCATTTTAACACATAAGGGAAAAATCATCATTTTAAC
1 GTCATTTTACCACATAAGGGCAAAATCGTAATTTTAACACATAAGGGAAAAATCATCATTTTAAC
39407997 ACATAAGGGCAAAACAGT
66 ACATAAGGGCAAAACAGT
39408015 CATTTTACCT
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 40 0.53
103 36 0.47
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.28
Consensus pattern (103 bp):
GTCATTTTACCACATAAGGGCAAAATCGTAATTTTAACACATAAGGGAAAAATCATCATTTTAAC
ACATAAGGGCAAAACAGTTTCCATATAATGGAAAATCT
Found at i:39410575 original size:24 final size:24
Alignment explanation
Indices: 39410547--39410608 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
39410537 TCCTTGTCAT
*
39410547 ACATGTGACGCCACCT-TGGGCCCC
1 ACATGTGACGCCACATCT-GGCCCC
*
39410571 ACATGTGATGCCACATCTGGCCCC
1 ACATGTGACGCCACATCTGGCCCC
39410595 ACATGTGACGCCAC
1 ACATGTGACGCCAC
39410609 TAGCCACTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.21, C:0.39, G:0.23, T:0.18
Consensus pattern (24 bp):
ACATGTGACGCCACATCTGGCCCC
Found at i:39410875 original size:27 final size:27
Alignment explanation
Indices: 39410843--39410899 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
39410833 GGGCGTTACA
39410843 ATTACAGTCATTTTACCCTA-GAGGGGT
1 ATTACAGTCATTTTACCCTATG-GGGGT
39410870 ATTACAGTCATTTTACCCTATGGGGGT
1 ATTACAGTCATTTTACCCTATGGGGGT
39410897 ATT
1 ATT
39410900 TTGATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTACAGTCATTTTACCCTATGGGGGT
Found at i:39414374 original size:22 final size:22
Alignment explanation
Indices: 39414349--39414400 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
39414339 GACATTGAGT
*
39414349 CGTCCTGTCTACGGTGTTAAGC
1 CGTCCTGTCTACGGCGTTAAGC
*
39414371 CGTCCTGTCTACGGCGTTGAGC
1 CGTCCTGTCTACGGCGTTAAGC
39414393 CGTCCTGT
1 CGTCCTGT
39414401 TGACTTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.10, C:0.31, G:0.29, T:0.31
Consensus pattern (22 bp):
CGTCCTGTCTACGGCGTTAAGC
Found at i:39417006 original size:13 final size:13
Alignment explanation
Indices: 39416988--39417016 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39416978 AAAAATGGTT
39416988 ATATGTGAGTTTA
1 ATATGTGAGTTTA
39417001 ATATGTGAGTTTA
1 ATATGTGAGTTTA
39417014 ATA
1 ATA
39417017 AAATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (13 bp):
ATATGTGAGTTTA
Found at i:39421981 original size:56 final size:56
Alignment explanation
Indices: 39421918--39422085 Score: 225
Period size: 56 Copynumber: 3.0 Consensus size: 56
39421908 GACCATGGCA
* *
39421918 TCGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
39421974 TCGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGA-T
1 TCGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* * * **
39422029 TCTGATATATTTGTACGAGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATGTGATT
1 TC-GATATATATGTGCGAGTAAGACCAC-GTTTAATAC-GTTGGCATCGATATGTGATT
39422086 ACATGTAAGA
Statistics
Matches: 101, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
55 4 0.04
56 95 0.94
57 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (56 bp):
TCGATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Found at i:39436678 original size:40 final size:39
Alignment explanation
Indices: 39436590--39436685 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
39436580 CTATCTCGGT
39436590 ATCGCACACTTAGTGCCTCATATAGCCAAAGTTATTCCAA
1 ATCGCACACTTAGTG-CTCATATAGCCAAAGTTATTCCAA
* * **
39436630 TTCGCACACTTAGTGCT-ATTTATAGCCGAAGTTATTTTAA
1 ATCGCACACTTAGTGCTCA--TATAGCCAAAGTTATTCCAA
* *
39436670 ATCTCACACTGAGTGC
1 ATCGCACACTTAGTGC
39436686 CGAACATAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 44 0.94
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (39 bp):
ATCGCACACTTAGTGCTCATATAGCCAAAGTTATTCCAA
Found at i:39445358 original size:28 final size:29
Alignment explanation
Indices: 39445326--39445440 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
39445316 GACCTGCATC
* * *
39445326 TGGCCCATTAAGCCC-ATTCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
39445354 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
39445383 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
39445412 TGGCCCGTTAGGACC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
39445440 T
1 T
39445441 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 28 0.37
29 47 0.62
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:39445387 original size:57 final size:57
Alignment explanation
Indices: 39445317--39445432 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 57
39445307 AAATTCACAG
* * * *
39445317 ACCTGCATCTGGCCCATTAAGCCC-ATTCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGCATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGACC-AATC
* * * *
39445374 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGACCAATC
1 ACCTGCATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGACCAATC
39445431 AC
1 AC
39445433 ATTCATATTC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
57 27 0.54
58 23 0.46
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.26
Consensus pattern (57 bp):
ACCTGCATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGACCAATC
Found at i:39445520 original size:17 final size:18
Alignment explanation
Indices: 39445498--39445533 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
39445488 TTCCCTATTA
39445498 TGGGCCCA-ATAGCCCAT
1 TGGGCCCATATAGCCCAT
*
39445515 TGGGCCCATTTAGCCCAT
1 TGGGCCCATATAGCCCAT
39445533 T
1 T
39445534 CTGGCCTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.25
Consensus pattern (18 bp):
TGGGCCCATATAGCCCAT
Found at i:39448817 original size:17 final size:18
Alignment explanation
Indices: 39448795--39448828 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39448785 TCACATTGAA
39448795 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
39448812 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
39448829 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:39449972 original size:29 final size:29
Alignment explanation
Indices: 39449932--39450015 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
39449922 ATTCATATTC
* *
39449932 ATATGGCCCATTAGACCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* * *
39449961 ATGTGGCCCATTAGGCCCAAGTCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
39449990 ATATGGCCCGTTAGGCCC-AATCACAT
1 ATATGGCCCATTAGGCCCAAATCACAT
39450016 TCATATTCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 7 0.15
29 40 0.85
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:39453039 original size:49 final size:49
Alignment explanation
Indices: 39452967--39453141 Score: 242
Period size: 49 Copynumber: 3.5 Consensus size: 49
39452957 TGAGGTCACG
39452967 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
39453016 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* *
39453067 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
39453116 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
39453142 TGCATACCAG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 66 0.62
50 2 0.02
51 39 0.36
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:39453090 original size:51 final size:49
Alignment explanation
Indices: 39452960--39453154 Score: 237
Period size: 49 Copynumber: 3.9 Consensus size: 49
39452950 ACTATTGTGA
* *
39452960 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * *
39453009 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-T
* * ** *
39453060 GATCACTTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * *
39453109 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
39453155 GCTTCGGCTA
Statistics
Matches: 120, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 79 0.66
50 2 0.02
51 39 0.32
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:39453140 original size:100 final size:100
Alignment explanation
Indices: 39452962--39453149 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
39452952 TATTGTGAGG
*
39452962 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
*
39453027 AAGTGCAGGCTACTATGCGTACCCGAAAACTATGA
66 AAGTGCAGGCTACTATGCATACCCGAAAACTATGA
* *
39453062 TCACTTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
*
39453127 AAGTGTAGGCTACTATGCATACC
66 AAGTGCAGGCTACTATGCATACC
39453150 AGATAGCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCCGAAAACTATGA
Found at i:39457216 original size:40 final size:40
Alignment explanation
Indices: 39456984--39457209 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
39456974 TTGAATGATG
* * * *
39456984 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
39457024 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39457064 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39457104 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39457144 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
39457185 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39457210 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 155 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39457216 original size:120 final size:120
Alignment explanation
Indices: 39456984--39457242 Score: 287
Period size: 120 Copynumber: 2.2 Consensus size: 120
39456974 TTGAATGATG
* * *
39456984 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
39457049 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * **
39457104 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
39457167 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCTCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGATC-CGAAGGCATTTGAACGAGTAGCTAAA
* *
39457224 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39457243 TACATGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
119 19 0.16
120 90 0.76
121 9 0.08
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:39463360 original size:40 final size:40
Alignment explanation
Indices: 39463275--39463498 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
39463265 TATTCGGATG
*
39463275 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
39463316 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
39463356 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
39463397 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
39463437 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
*
39463477 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
39463499 TACGTGAGTT
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 91 0.54
41 61 0.37
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:39463411 original size:81 final size:79
Alignment explanation
Indices: 39463274--39463498 Score: 326
Period size: 81 Copynumber: 2.8 Consensus size: 79
39463264 TTATTCGGAT
*
39463274 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCC-GGCTAAGTCCCGAAGG
*
39463339 CATTTGTGCTAGTGAC
64 CATTTGTGCGAGTGAC
39463355 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGAGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCG-GCTAAGTCCCGAAGG
*
39463420 CATTTGTGCGAGTTAC
64 CATTTGTGCGAGTGAC
* * * * *
39463436 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTTG-CTATATCCGGCTAAATCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTATATCCGGCTAAGTCCCGAAGG
39463499 TACGTGAGTT
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
79 14 0.11
80 18 0.14
81 101 0.76
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTGAC
Found at i:39470540 original size:79 final size:80
Alignment explanation
Indices: 39470409--39470567 Score: 293
Period size: 79 Copynumber: 2.0 Consensus size: 80
39470399 TTAGGTAACC
39470409 CATGTTAGAAATTTCGGTATTGAGATGTCTAGAACTTTCGGCCATAGTAGCTATGGAGAAATAA-
1 CATGTTAGAAATTTCGGTATTGAGATGTCTAGAACTTTCGGCCATAGTAGCTATGGAGAAATAAT
39470473 GGTTTTTGTTTCTTG
66 GGTTTTTGTTTCTTG
*
39470488 CATGTTAGAAATTTTGGTATTGAGATGTCTAGAACTTTCGGCCATAGTAGCTATGGAGAAATAAT
1 CATGTTAGAAATTTCGGTATTGAGATGTCTAGAACTTTCGGCCATAGTAGCTATGGAGAAATAAT
*
39470553 GTTTTTTGTTTCTTG
66 GGTTTTTGTTTCTTG
39470568 TTAAATTGGA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
79 63 0.82
80 14 0.18
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (80 bp):
CATGTTAGAAATTTCGGTATTGAGATGTCTAGAACTTTCGGCCATAGTAGCTATGGAGAAATAAT
GGTTTTTGTTTCTTG
Found at i:39473025 original size:13 final size:13
Alignment explanation
Indices: 39473007--39473041 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
39472997 GAAGAATGAA
39473007 ATGGCCGTGCAAC
1 ATGGCCGTGCAAC
39473020 ATGGCCGTGCAAC
1 ATGGCCGTGCAAC
39473033 ATGGCCGTG
1 ATGGCCGTG
39473042 TGCACCAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (13 bp):
ATGGCCGTGCAAC
Found at i:39480563 original size:48 final size:48
Alignment explanation
Indices: 39480494--39480674 Score: 281
Period size: 48 Copynumber: 3.8 Consensus size: 48
39480484 TAGGGTTATG
39480494 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
* *
39480542 TGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGCCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
*
39480590 TGTGATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
**** * *
39480638 TGTGATTTTGTGTAAGACCATGTCTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCAT
39480675 CGATATGAGA
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 121 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
Found at i:39480707 original size:42 final size:42
Alignment explanation
Indices: 39480627--39480707 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
39480617 GATATGGCAT
* ** ***
39480627 TGGCATCGATATGTGATTTTGTGTAAGACCATGTCTGGGACA
1 TGGCATCGATATGAGACATTGTGTAAGACCACAACTGGGACA
*
39480669 TGGCATCGATATGAGACATTGTGTAAGATCACAACTGGG
1 TGGCATCGATATGAGACATTGTGTAAGACCACAACTGGG
39480708 TTATCAACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (42 bp):
TGGCATCGATATGAGACATTGTGTAAGACCACAACTGGGACA
Found at i:39482272 original size:40 final size:40
Alignment explanation
Indices: 39482228--39482303 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
39482218 ATAGCTGAAG
*
39482228 CTATTCTAATTCGCACACTAAGTGCTATTTAGAGCCAAAC
1 CTATTCTAATACGCACACTAAGTGCTATTTAGAGCCAAAC
*
39482268 CTATTCTAATACGCACACTAAGTGCTATTTATAGCC
1 CTATTCTAATACGCACACTAAGTGCTATTTAGAGCC
39482304 GAAGCAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (40 bp):
CTATTCTAATACGCACACTAAGTGCTATTTAGAGCCAAAC
Found at i:39482322 original size:40 final size:40
Alignment explanation
Indices: 39482234--39482332 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
39482224 GAAGCTATTC
* * **
39482234 TAATTCGCACACTAAGTGCTATTTAGAGCCAAACCTATTC
1 TAATACGCACACTAAGTGCTATTTAGAGCCAAACCAATAA
* * *
39482274 TAATACGCACACTAAGTGCTATTTATAGCCGAAGCAATAA
1 TAATACGCACACTAAGTGCTATTTAGAGCCAAACCAATAA
*
39482314 TGAA-ACGCACACCAAGTGC
1 T-AATACGCACACTAAGTGC
39482333 CAACATAGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (40 bp):
TAATACGCACACTAAGTGCTATTTAGAGCCAAACCAATAA
Found at i:39486182 original size:47 final size:46
Alignment explanation
Indices: 39486082--39486220 Score: 151
Period size: 47 Copynumber: 3.0 Consensus size: 46
39486072 ATGCATTAGC
*
39486082 CTTGAGATG-TAAGCCAGTGTAAGA-CATGTCTACGACAT-GCATCG
1 CTTGAGATGATAA-CCAGTGTAAGACCATGTCTAGGACATGGCATCG
* * *
39486126 GTTACGAGATGATAATCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CTT--GAGATGATAACCAGTGTAAGACCATGTCTAGGACATGGCATCG
* *
39486174 ACTTGAGAT-ATGAGCCAGTGTAAGACCGTGTCTAGGACATGGCATCG
1 -CTTGAGATGAT-AACCAGTGTAAGACCATGTCTAGGACATGGCATCG
39486221 GCACCTTACC
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
44 2 0.03
46 18 0.23
47 51 0.65
48 6 0.08
49 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
CTTGAGATGATAACCAGTGTAAGACCATGTCTAGGACATGGCATCG
Found at i:39491166 original size:49 final size:47
Alignment explanation
Indices: 39491073--39491562 Score: 664
Period size: 47 Copynumber: 10.3 Consensus size: 47
39491063 TTAGGATTCT
* * * * *
39491073 ATGTGATGGATGTGAACATGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
39491120 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCA
* *
39491169 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCA
* *
39491218 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCA
39491265 ATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCA
* * *
39491314 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
39491361 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
39491408 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
39491455 ATGTGATGAATATGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
39491502 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
39491549 ATGTGATGAATGTG
1 ATGTGATGAATGTG
39491563 NTTATTGAGA
Statistics
Matches: 408, Mismatches: 29, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 275 0.67
49 131 0.32
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:39492992 original size:38 final size:38
Alignment explanation
Indices: 39492928--39493002 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
39492918 AATCCGAGTT
*
39492928 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
39492966 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
39493003 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:39493115 original size:40 final size:40
Alignment explanation
Indices: 39493056--39493182 Score: 238
Period size: 40 Copynumber: 3.2 Consensus size: 40
39493046 AGGTCTCGAC
*
39493056 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
39493095 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
39493135 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
39493175 GATGTATC
1 GATGTATC
39493183 AAGTCCCGAA
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
39 4 0.05
40 82 0.95
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:39493269 original size:97 final size:97
Alignment explanation
Indices: 39493103--39493279 Score: 318
Period size: 97 Copynumber: 1.8 Consensus size: 97
39493093 GTGATGTATC
39493103 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
39493168 TGCTAGTGATGTATCAAGTCCCGAAGAGCATT
66 TGCTAGTGATGTATCAAGTCCCGAAGAGCATT
* * * *
39493200 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
39493265 TGCTAGTGATGTATC
66 TGCTAGTGATGTATC
39493280 CGGGCTAAGT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 76 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (97 bp):
CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
TGCTAGTGATGTATCAAGTCCCGAAGAGCATT
Found at i:39493309 original size:137 final size:137
Alignment explanation
Indices: 39493063--39493319 Score: 469
Period size: 137 Copynumber: 1.9 Consensus size: 137
39493053 GACGATGATC
39493063 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
39493128 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCAAGTCCCGAA
66 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCAAGTCCCGAA
39493193 GAGCATT
131 GAGCATT
* * *
39493200 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCG
1 CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
* *
39493265 TGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
66 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
39493320 CGGGCTAAGT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 115 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (137 bp):
CGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCAAGTCCCGAA
GAGCATT
Found at i:39493592 original size:40 final size:40
Alignment explanation
Indices: 39493200--39493580 Score: 647
Period size: 40 Copynumber: 9.5 Consensus size: 40
39493190 GAAGAGCATT
39493200 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
39493240 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
39493280 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
39493320 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
39493360 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
39493400 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
39493440 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
* *
39493480 CGGACTAAGT-TCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTCT-CGAAGAGCATTCGTGCTAGTGATGTATC
* ** * * * *
39493520 CGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
* *
39493560 CGGGCTAGGTCCCGAAGAGCA
1 CGGGCTAAGTCTCGAAGAGCA
39493581 ATCATGCTGG
Statistics
Matches: 326, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.00
40 325 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
Found at i:39518821 original size:40 final size:40
Alignment explanation
Indices: 39518750--39518932 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
39518740 GCTCCTCGTT
* *
39518750 CAAATG-CTTCGGGACATAGCCCTG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAATTCGCA
* *
39518789 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
*
39518829 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAT-TCGCA
* * *
39518868 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-AATTCGCA
39518909 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39518933 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
38 3 0.02
39 53 0.43
40 57 0.46
41 9 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
Found at i:39518893 original size:79 final size:79
Alignment explanation
Indices: 39518784--39518932 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 79
39518774 TTATAGTAAT
*
39518784 TCGCACAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAAC-TCGCACAAATGCCTTCGGG-CTT
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATATT-GTAACTTAGCAC-AA-GCCTTCGGGACTT
39518846 AGCCCGGAATTAGTATC
63 AGCCCGGAATTAGTATC
** *
39518863 TCGCACAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAG
1 TCGCACAAATGCCTTCGGGA-CTTAACCCGGATATTGTAACTTAGCACAAGCCTTCGGGACTTAG
39518927 CCCGGA
65 CCCGGA
39518933 CAGCATTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
78 12 0.19
79 43 0.69
80 7 0.11
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGATATTGTAACTTAGCACAAGCCTTCGGGACTTAGC
CCGGAATTAGTATC
Found at i:39520660 original size:37 final size:37
Alignment explanation
Indices: 39520610--39520688 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39520600 TTATTACGAA
* ** *
39520610 GTCTTACCCGGACATAATCTTCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
39520647 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
39520684 GTCTT
1 GTCTT
39520689 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:39520881 original size:49 final size:49
Alignment explanation
Indices: 39520809--39522018 Score: 2124
Period size: 49 Copynumber: 25.0 Consensus size: 49
39520799 CTTCGGGACT
* * * * *
39520809 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * * * *
39520856 TGTCACATATATATACACTTCCACATTCATCACATTGGCCATTGGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
39520905 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
39520952 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39520999 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
39521048 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
39521097 TATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521146 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521195 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521244 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521293 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
39521342 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
39521391 TATCAC--ATATATACACTTTCACATTCATCACATCGACCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
39521438 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521485 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521534 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521583 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521632 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521681 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521730 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521779 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
39521828 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
39521877 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCG
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
39521926 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCG
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
39521973 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
39522019 TTACTATCAT
Statistics
Matches: 1131, Mismatches: 26, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
47 273 0.24
48 1 0.00
49 857 0.76
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:39524574 original size:6 final size:6
Alignment explanation
Indices: 39524563--39524672 Score: 84
Period size: 6 Copynumber: 17.8 Consensus size: 6
39524553 TATCATAACT
* *
39524563 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
39524612 AGTATC AGGTAA-C AGAATC AAAATC AGAATC A-ATATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGA-ATC A-G-AATC AGAATC
*
39524662 AAAATC AGAAT
1 AGAATC AGAAT
39524673 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
5 6 0.07
6 65 0.78
7 8 0.10
8 3 0.04
9 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:39524575 original size:18 final size:18
Alignment explanation
Indices: 39524563--39524672 Score: 84
Period size: 19 Copynumber: 5.9 Consensus size: 18
39524553 TATCATAACT
39524563 AGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATC
*
39524581 AGAATCAG-GTGACAGAATC
1 AGAATCAGAAT--CAGAATC
* *
39524600 AGAATCAGAATTAGTATC
1 AGAATCAGAATCAGAATC
*
39524618 AGGTAA-CAGAATCAAAATC
1 A-G-AATCAGAATCAGAATC
39524637 AGAATCA-ATATCAGGTAA-C
1 AGAATCAGA-ATCA-G-AATC
*
39524656 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
39524673 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.08
18 22 0.30
19 39 0.53
20 6 0.08
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (18 bp):
AGAATCAGAATCAGAATC
Found at i:39524599 original size:31 final size:31
Alignment explanation
Indices: 39524558--39524672 Score: 160
Period size: 31 Copynumber: 3.7 Consensus size: 31
39524548 AACATTATCA
*
39524558 TAACTAGAATCAGAATCAGAATCAGAATCAGG
1 TAAC-AGAATCAAAATCAGAATCAGAATCAGG
* * * *
39524590 TGACAGAATCAGAATCAGAATTAGTATCAGG
1 TAACAGAATCAAAATCAGAATCAGAATCAGG
39524621 TAACAGAATCAAAATCAGAATCA-ATATCAGG
1 TAACAGAATCAAAATCAGAATCAGA-ATCAGG
39524652 TAACAGAATCAAAATCAGAAT
1 TAACAGAATCAAAATCAGAAT
39524673 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
31 72 0.96
32 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
TAACAGAATCAAAATCAGAATCAGAATCAGG
Found at i:39524852 original size:26 final size:26
Alignment explanation
Indices: 39524817--39524895 Score: 133
Period size: 26 Copynumber: 3.0 Consensus size: 26
39524807 GTCACCAAAT
39524817 ACAGATATTGTGGCTAGGCCACCAGA
1 ACAGATATTGTGGCTAGGCCACCAGA
39524843 ACAGATATTGTGGCTAGGCCACCAGA
1 ACAGATATTGTGGCTAGGCCACCAGA
39524869 ACAGATATATGTGG-TGAGGCCACCAGA
1 ACAGATAT-TGTGGCT-AGGCCACCAGA
39524896 TTGCAGCGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
26 35 0.69
27 16 0.31
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (26 bp):
ACAGATATTGTGGCTAGGCCACCAGA
Found at i:39525228 original size:26 final size:27
Alignment explanation
Indices: 39525142--39525253 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 27
39525132 GGTAAAATGC
* * *
39525142 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* **
39525169 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGG
39525196 TAATTCTACCCTACAA-GGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGG
* *
39525222 TATTTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGG
39525249 TAATT
1 TAATT
39525254 TTGTAAATCG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 23 0.32
27 49 0.68
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGG
Found at i:39525236 original size:53 final size:54
Alignment explanation
Indices: 39525142--39525253 Score: 163
Period size: 53 Copynumber: 2.1 Consensus size: 54
39525132 GGTAAAATGC
* *
39525142 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAA
* * * *
39525196 TAATTCTACCCTACAA-GGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAA
39525249 TAATT
1 TAATT
39525254 TTGTAAATCG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 38 0.73
54 14 0.27
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAA
Found at i:39525434 original size:26 final size:27
Alignment explanation
Indices: 39525293--39525462 Score: 168
Period size: 27 Copynumber: 6.3 Consensus size: 27
39525283 GTAAATCAAT
* *
39525293 GGTACTTTGGTAATTTTACAAGTC-GAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
* ** ** *
39525320 GGTCTTTTAATAATTTTACAGGT-TGAG
1 GGTATTTTGGTAATTTTACAAATCAG-G
** *
39525347 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
39525374 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATC-AGG
*
39525401 GGTATTTTGATAATTTTACAAA-CAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
*
39525427 GGTATTTTGGTAATTTTACAAATTAGG
1 GGTATTTTGGTAATTTTACAAATCAGG
39525454 GGTATTTTG
1 GGTATTTTG
39525463 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
26 25 0.21
27 95 0.79
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCAGG
Found at i:39525447 original size:53 final size:54
Alignment explanation
Indices: 39525357--39525462 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 54
39525347 GGTATTTCAG
39525357 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA
1 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA
* *
39525411 TAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTG
1 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
39525463 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 39 0.78
54 11 0.22
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA
Found at i:39539079 original size:46 final size:46
Alignment explanation
Indices: 39538978--39539065 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
39538968 TGTAACCCGC
* * *
39538978 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
39539024 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
39539066 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:39545520 original size:46 final size:46
Alignment explanation
Indices: 39545453--39545673 Score: 415
Period size: 46 Copynumber: 4.8 Consensus size: 46
39545443 TGTAACCCGC
* * *
39545453 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39545499 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39545545 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39545591 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39545637 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39545674 TGCTCAACCA
Statistics
Matches: 172, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 172 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:39553715 original size:24 final size:24
Alignment explanation
Indices: 39553683--39553733 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
39553673 ATTTAGTATG
39553683 CTAAAATTCAGTATGAATAAAGTT
1 CTAAAATTCAGTATGAATAAAGTT
39553707 CTAAAATTCAGTATGAATAAAGTT
1 CTAAAATTCAGTATGAATAAAGTT
39553731 CTA
1 CTA
39553734 TTATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (24 bp):
CTAAAATTCAGTATGAATAAAGTT
Found at i:39554199 original size:5 final size:5
Alignment explanation
Indices: 39554189--39554217 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
39554179 AAATGCTCGT
39554189 GAAAA GAAAA G-AAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
39554218 AAAGAGAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:39554208 original size:14 final size:14
Alignment explanation
Indices: 39554189--39554222 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
39554179 AAATGCTCGT
39554189 GAAAAGAAAAGAAA
1 GAAAAGAAAAGAAA
39554203 GAAAAGAAAAGAAA
1 GAAAAGAAAAGAAA
39554217 -AAAAGA
1 GAAAAGA
39554223 GAGCATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
GAAAAGAAAAGAAA
Found at i:39557865 original size:6 final size:6
Alignment explanation
Indices: 39557847--39557909 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
39557837 CTTCTATCTT
* *
39557847 TTTTTA TTCTTA TTTTTA -TTTTA TTTTATT TTATTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TT-TTTA TTTTTA TTTTTA
*
39557896 -TTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTT
39557910 CAATTTTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
5 10 0.21
6 30 0.62
7 6 0.12
8 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:39557885 original size:4 final size:5
Alignment explanation
Indices: 39557848--39557929 Score: 80
Period size: 5 Copynumber: 15.8 Consensus size: 5
39557838 TTCTATCTTT
39557848 TTTTA TTCTTA TTTTTA TTTTA TTTTA TTTTA -TTTA TTTTTA TTTTTA
1 TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA
*
39557896 TTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
39557930 GAAAGACATA
Statistics
Matches: 67, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 34 0.51
6 24 0.36
7 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Done.