Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 269 of 318
Found at i:85216592 original size:43 final size:42
Alignment explanation
Indices: 85216566--85216718 Score: 182
Period size: 43 Copynumber: 3.5 Consensus size: 42
85216556 GTAACAAATG
* *
85216566 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCCACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTT-CTCTACAAA
* * *
85216609 CGCCACTAAAAGCCAAGACTTTTAACGGCGCTTCTCCTACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCT-CTACAAA
* *
85216652 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTCCA-ATGAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCTCTACA--AA
*
85216695 CGCCGCTAAAAGTCATGATCTTTT
1 CGCCGCTAAAAGCCATGA-CTTTT
85216719 GTGGCTTTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 86 0.91
44 5 0.05
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (42 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCTCTACAAA
Found at i:85218779 original size:41 final size:42
Alignment explanation
Indices: 85218688--85218833 Score: 160
Period size: 41 Copynumber: 3.6 Consensus size: 42
85218678 TATGTATATG
** *
85218688 TGTG-TGGCACTTAGTGTGCGATTCGGAG-TAGCTTCGGCTA
1 TGTGATGGCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTA
* *
85218728 TATG-TGGCACTTAGTGTGCGAGACTGAGATAGCTTTGGCTA
1 TGTGATGGCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTA
* * *
85218769 TGTGAT-GCACTTAGTGTGTGAG-GTTATGATAGCTTCGGCTA
1 TGTGATGGCACTTAGTGTGCGAGACTGA-GATAGCTTCGGCTA
85218810 TGAT-ATGGCACTTAGTGTGCGAGA
1 TG-TGATGGCACTTAGTGTGCGAGA
85218834 TATCGAATAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
40 26 0.29
41 46 0.52
42 17 0.19
ACGTcount: A:0.20, C:0.14, G:0.33, T:0.33
Consensus pattern (42 bp):
TGTGATGGCACTTAGTGTGCGAGACTGAGATAGCTTCGGCTA
Found at i:85220511 original size:21 final size:21
Alignment explanation
Indices: 85220487--85220529 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
85220477 TACATCTTTA
85220487 ATAATTTCATATCAACAATCC
1 ATAATTTCATATCAACAATCC
85220508 ATAATTTCATATCAACAATCC
1 ATAATTTCATATCAACAATCC
85220529 A
1 A
85220530 CTCTTATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATTTCATATCAACAATCC
Found at i:85221474 original size:64 final size:64
Alignment explanation
Indices: 85221395--85221521 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
85221385 TTGCACACTT
* * *
85221395 AGTGCTATTATTTAACTTGCAGTGCAATGAGATCGCACACTTAGTGCTTGATAGTTTTACTTCA
1 AGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTAGTGCTCGATAGTTTTACTTCA
85221459 AGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTAGTGCTCGATAGTTTTACTTC
1 AGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTAGTGCTCGATAGTTTTACTTC
85221522 GCACACTTAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (64 bp):
AGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTAGTGCTCGATAGTTTTACTTCA
Found at i:85221533 original size:29 final size:29
Alignment explanation
Indices: 85221491--85221572 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
85221481 TGCAATGAGA
* *
85221491 TCGCACACTTAGTGCTCGATAGTTTTACT
1 TCGCACACTTAGTGCTCAATAATTTTACT
85221520 TCGCACACTTAGTGCTCAATAATTTTACT
1 TCGCACACTTAGTGCTCAATAATTTTACT
85221549 TCGCACACTTAGTGCTCAATAATT
1 TCGCACACTTAGTGCTCAATAATT
85221573 CACATAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (29 bp):
TCGCACACTTAGTGCTCAATAATTTTACT
Found at i:85232189 original size:21 final size:20
Alignment explanation
Indices: 85232163--85232202 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
85232153 TGAAATGTGT
85232163 GAATAT-ATATAAGCTATGGCC
1 GAATATGAT-TAAGCT-TGGCC
85232184 GAATATGATTAAGCTTGGC
1 GAATATGATTAAGCTTGGC
85232203 TATTATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (20 bp):
GAATATGATTAAGCTTGGCC
Found at i:85234174 original size:2 final size:2
Alignment explanation
Indices: 85234167--85234192 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
85234157 ATGATTTTAA
85234167 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
85234193 TTTGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85242316 original size:44 final size:44
Alignment explanation
Indices: 85242225--85242339 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 44
85242215 CAACGCCATC
* ** *
85242225 GTCCCA-AATGTGGTCTTACATGT-AATCACGTATCGATGCGACT
1 GTCCCAGAA-GTGGTCTTACACGTAAATCACAAATCGATGCAACT
85242268 GTCCCAGACAG-GGTCTTACACGTAAATCACAAATCGATGCCAAC-
1 GTCCCAGA-AGTGGTCTTACACGTAAATCACAAATCGATG-CAACT
*
85242312 GTCCCAGATGTGGTCTTACACG-AAATCA
1 GTCCCAGAAGTGGTCTTACACGTAAATCA
85242340 GATATCGAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
43 24 0.39
44 34 0.55
45 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (44 bp):
GTCCCAGAAGTGGTCTTACACGTAAATCACAAATCGATGCAACT
Found at i:85253399 original size:44 final size:43
Alignment explanation
Indices: 85253291--85253402 Score: 109
Period size: 44 Copynumber: 2.6 Consensus size: 43
85253281 CTCGTACAAC
* * * *
85253291 GCCAACGTCCTAGA-TGTGGTCTTATATGTAATCACATATCGAT
1 GCCAATGTCCTAGACT-TGGTCTTACACGTAATCACAAATCGAT
* * * * **
85253334 ACCACTATCCCAGACAGGGTCTTACACGTAAATCACAAATCGAT
1 GCCAATGTCCTAGACTTGGTCTTACACGT-AATCACAAATCGAT
85253378 GCCAATGTCCTAGACTTGGTCTTAC
1 GCCAATGTCCTAGACTTGGTCTTAC
85253403 GCAAAATCAC
Statistics
Matches: 51, Mismatches: 16, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
43 19 0.37
44 32 0.63
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GCCAATGTCCTAGACTTGGTCTTACACGTAATCACAAATCGAT
Found at i:85262635 original size:8 final size:8
Alignment explanation
Indices: 85262622--85262679 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
85262612 ATTTCATGGA
85262622 AAAATGAT
1 AAAATGAT
85262630 AAAATGAT
1 AAAATGAT
85262638 AAAA--AT
1 AAAATGAT
*
85262644 AATAATAATT
1 AA-AATGA-T
*
85262654 TAAATGAT
1 AAAATGAT
85262662 AAAATGAT
1 AAAATGAT
*
85262670 AAAATAAT
1 AAAATGAT
85262678 AA
1 AA
85262680 TTTAAAGTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 29 0.69
9 5 0.12
10 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (8 bp):
AAAATGAT
Found at i:85269242 original size:39 final size:39
Alignment explanation
Indices: 85269188--85269266 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
85269178 TATCACTATG
* *
85269188 AGTAATGTTGTTACTATTATATAATAATCCAAGAAACAT
1 AGTAATATTGTTACTATTATATAAAAATCCAAGAAACAT
85269227 AGTAATATTGTTACTATTATATAAAAATCCAAGAAACAT
1 AGTAATATTGTTACTATTATATAAAAATCCAAGAAACAT
85269266 A
1 A
85269267 CTCATAGCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (39 bp):
AGTAATATTGTTACTATTATATAAAAATCCAAGAAACAT
Found at i:85271834 original size:25 final size:25
Alignment explanation
Indices: 85271806--85271854 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
85271796 TTCGTTTGCT
85271806 GGTGAAAGGCAATACTGAAGTTTAG
1 GGTGAAAGGCAATACTGAAGTTTAG
85271831 GGTGAAAGGCAATACTGAAGTTTA
1 GGTGAAAGGCAATACTGAAGTTTA
85271855 ATCTCGTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.31, T:0.24
Consensus pattern (25 bp):
GGTGAAAGGCAATACTGAAGTTTAG
Found at i:85275255 original size:75 final size:70
Alignment explanation
Indices: 85275163--85275337 Score: 235
Period size: 75 Copynumber: 2.4 Consensus size: 70
85275153 ACAAACTTTA
* * *
85275163 TTATTTAAATTGCAAAAAACCCCTAAAATTAATAATTGAAATGGTAAAAAAGTCATTACATAAAT
1 TTATTTAAATTG-AAAAAACCCCTAAAATTAATAACTAAAATGGAAAAAAAGTCATTACATAAAT
*
85275228 ATAAAG
65 ACAAAG
85275234 TTGACTATTTAAATTGAAAAAACCCGCTAAAATTAATAACTAAAATGGAAAAAAAGTCATTACAT
1 -T---TATTTAAATTGAAAAAACCC-CTAAAATTAATAACTAAAATGGAAAAAAAGTCATTACAT
85275299 AAATACAAAG
61 AAATACAAAG
*
85275309 TTATTTAAATT-ACAAAACCCCCTAAAATT
1 TTATTTAAATTGA-AAAAACCCCTAAAATT
85275338 GATGGTTTGA
Statistics
Matches: 93, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
70 9 0.10
71 17 0.18
72 1 0.01
74 10 0.11
75 56 0.60
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (70 bp):
TTATTTAAATTGAAAAAACCCCTAAAATTAATAACTAAAATGGAAAAAAAGTCATTACATAAATA
CAAAG
Found at i:85277592 original size:15 final size:16
Alignment explanation
Indices: 85277557--85277592 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
85277547 AAAGTCAAAT
85277557 AAAATTACATTATAAA
1 AAAATTACATTATAAA
85277573 AAAATTACATTA-AAA
1 AAAATTACATTATAAA
85277588 AAAAT
1 AAAAT
85277593 CACAAAACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATTACATTATAAA
Found at i:85277815 original size:102 final size:102
Alignment explanation
Indices: 85277555--85278157 Score: 609
Period size: 102 Copynumber: 6.1 Consensus size: 102
85277545 TAAAAGTCAA
* * * * * *
85277555 ATAAAATTACATTATAAAAAAATTACATTA-AAAAAAATCACAAAACGCTAAACTAAACACCAAC
1 ATAAAATTA-TTTTTAAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAA-
* *
85277619 AATTTATATAACCTAATAATAAATTACTAACAAAATAACT
64 AAATT-TATAACCTAATCATAAATTACTAACAAAATAACT
* *
85277659 ATAAAATTACTTTTTAAATAAA-TTACATTACTAAACACTCACAAAAC-CTTAAACTAAACACTA
1 ATAAAATTA-TTTTTAAA-AAATTTACATTACTAAAAAATCACAAAACAC-TAAACTAAACACTA
* *
85277722 AAAATTTATAACCTAATCATAAATAACTAGCAAAATAACT
63 AAAATTTATAACCTAATCATAAATTACTAACAAAATAACT
* *
85277762 ATAAAATTATTTTTAAAAAACTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAATA
1 ATAAAATTATTTTTAAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAAAA
* *
85277827 ATTTATAATCTAATCATAAATTACTAGCAAAATAACT
66 ATTTATAACCTAATCATAAATTACTAACAAAATAACT
** * * * *
85277864 ATAAAATTATTTTT-TTAAATTTACATTAATAAAAAATCAGAAAACACTAAACTAAACATTAACA
1 ATAAAATTATTTTTAAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAAAA
*
85277928 ATTTATAACCTAATCATAAATTACTAATAAAATAACT
66 ATTTATAACCTAATCATAAATTACTAACAAAATAACT
* ** * ** *
85277965 AT--AATTTTTTTTTCAAAATTTACATTATTAAAAACCCACAGAACAC---A--AAACACTAAAA
1 ATAAAATTATTTTTAAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAAAA
*
85278023 AATTATAACCTAATCATAAATTACTAACAAAATAA-T
66 ATTTATAACCTAATCATAAATTACTAACAAAATAACT
* * * * * * * * *
85278059 -TAACA--A-----AATAATTTTACAATAATAAAGAATCAAAAAATACTAAACTAAACAC-AACA
1 ATAAAATTATTTTTAAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAAAA
* * * *
85278115 ATTTATAACATAATCCTAAATTACAAACAAAATAATT
66 ATTTATAACCTAATCATAAATTACTAACAAAATAACT
85278152 ATAAAA
1 ATAAAA
85278158 GAAAACCAAA
Statistics
Matches: 427, Mismatches: 57, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
88 22 0.05
91 1 0.00
92 34 0.08
93 8 0.02
94 5 0.01
95 43 0.10
97 1 0.00
99 9 0.02
100 26 0.06
101 82 0.19
102 96 0.22
103 41 0.10
104 29 0.07
105 30 0.07
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (102 bp):
ATAAAATTATTTTTAAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAAAA
ATTTATAACCTAATCATAAATTACTAACAAAATAACT
Found at i:85277962 original size:203 final size:199
Alignment explanation
Indices: 85277555--85278157 Score: 624
Period size: 203 Copynumber: 3.0 Consensus size: 199
85277545 TAAAAGTCAA
* * * * *
85277555 ATAAAATTACATTATAAAAAAATTACATTAAAAAAAATCACAAAACGCTAAACTAAACACCAACA
1 ATAAAATTA-TTTTTAAAAAAATTACATTATAAAAAATCACAAAACACTAAACTAAACACTAA-A
* *
85277620 ATTTATATAACCTAATAATAAATTACTAACAAAATAACTATAAAATTACTTTTTAAATAAATTAC
64 AATT-TATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTA-TTTTTAAAT---TTAC
* * * * * *
85277685 ATTACTAAACACTCACAAAAC-CTTAAACTAAACACTAAAAATTTATAACCTAATCATAAATAAC
124 ATTAATAAAAAATCAAAAAACAC-TAAACTAAACA-TAACAATTTATAACCTAATCATAAATTAC
*
85277749 TAGCAAAATAACT
187 TAACAAAATAACT
* *
85277762 ATAAAATTATTTTTAAAAAACTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAATA
1 ATAAAATTATTTTTAAAAAAATTACATTA-TAAAAAATCACAAAACACTAAACTAAACACTAAAA
* *
85277827 ATTTATAATCTAATCATAAATTACTAGCAAAATAACTATAAAATTATTTTTTTAAATTTACATTA
65 ATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTA--TTTTTAAATTTACATTA
* *
85277892 ATAAAAAATCAGAAAACACTAAACTAAACATTAACAATTTATAACCTAATCATAAATTACTAATA
128 ATAAAAAATCAAAAAACACTAAACTAAACA-TAACAATTTATAACCTAATCATAAATTACTAACA
85277957 AAATAACT
192 AAATAACT
* ** * ** *
85277965 AT--AATTTTTTTTTCAAAATTTACATTATTAAAAACCCACAGAACAC---A--AAACACTAAAA
1 ATAAAATTATTTTTAAAAAAATTACATTA-TAAAAAATCACAAAACACTAAACTAAACACTAAAA
* * * *
85278023 AATTATAACCTAATCATAAATTACTAACAAAATAA-T-TAACAA--A---ATAATTTTACAATAA
65 ATTTATAACCTAATCATAAATTACTAACAAAATAACTATAA-AATTATTTTTAAATTTACATTAA
* * * * * *
85278081 TAAAGAATCAAAAAATACTAAACTAAACACAACAATTTATAACATAATCCTAAATTACAAACAAA
129 TAAAAAATCAAAAAACACTAAACTAAACATAACAATTTATAACCTAATCATAAATTACTAACAAA
*
85278146 ATAATT
194 ATAACT
85278152 ATAAAA
1 ATAAAA
85278158 GAAAACCAAA
Statistics
Matches: 345, Mismatches: 45, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
187 38 0.11
188 38 0.11
189 2 0.01
193 1 0.00
194 3 0.01
195 3 0.01
196 42 0.12
198 1 0.00
201 36 0.10
203 72 0.21
204 1 0.00
205 40 0.12
206 29 0.08
207 39 0.11
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (199 bp):
ATAAAATTATTTTTAAAAAAATTACATTATAAAAAATCACAAAACACTAAACTAAACACTAAAAA
TTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTAAATTTACATTAATA
AAAAATCAAAAAACACTAAACTAAACATAACAATTTATAACCTAATCATAAATTACTAACAAAAT
AACT
Found at i:85278062 original size:12 final size:12
Alignment explanation
Indices: 85278047--85278071 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85278037 CATAAATTAC
85278047 TAACAAAATAAT
1 TAACAAAATAAT
85278059 TAACAAAATAAT
1 TAACAAAATAAT
85278071 T
1 T
85278072 TTACAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAACAAAATAAT
Found at i:85280183 original size:25 final size:25
Alignment explanation
Indices: 85280155--85280205 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
85280145 TCCAGTTGCT
*
85280155 AGGAAAGGCCTTCCTATGATTATTG
1 AGGAAAGGCCTTCCTAGGATTATTG
85280180 AGGAAAGGCCTTCCTAGGATTATTG
1 AGGAAAGGCCTTCCTAGGATTATTG
85280205 A
1 A
85280206 CACCATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (25 bp):
AGGAAAGGCCTTCCTAGGATTATTG
Found at i:85283564 original size:28 final size:27
Alignment explanation
Indices: 85283510--85283583 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 27
85283500 TGGTGGCTAC
85283510 GCCACAATTATCTG-ATCTGGTAGCTCT
1 GCCAC-ATTATCTGTATCTGGTAGCTCT
*
85283537 GCCACGATTATTTGTATCTGGT-GACTCT
1 GCCAC-ATTATCTGTATCTGGTAG-CTCT
*
85283565 GTCACATTATCTGT-TCTGG
1 GCCACATTATCTGTATCTGG
85283584 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.12
27 21 0.51
28 15 0.37
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
GCCACATTATCTGTATCTGGTAGCTCT
Found at i:85287119 original size:27 final size:28
Alignment explanation
Indices: 85287059--85287112 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
85287049 TAAAATAATT
*
85287059 AAAATTAATTATGTTAATAATTTAAGTG
1 AAAATTAATTATGTTAATAATTAAAGTG
*
85287087 AAAATTAATTAT-TTTATAATTAAAGT
1 AAAATTAATTATGTTAATAATTAAAGT
85287113 ATGAATTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (28 bp):
AAAATTAATTATGTTAATAATTAAAGTG
Found at i:85289396 original size:29 final size:29
Alignment explanation
Indices: 85289363--85289455 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 29
85289353 TGACGAGATT
* *
85289363 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
*
85289392 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
* * * *
85289421 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATAA
85289450 GGCACT
1 GGCACT
85289456 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAA
Found at i:85289468 original size:29 final size:29
Alignment explanation
Indices: 85289363--85289468 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
85289353 TGACGAGATT
* *
85289363 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
*
85289392 GGCACTAAGTGTGC-ATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGA-GCTGGAAAAATAA
* * * *
85289421 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGAGCTGGAAAAATAA
**
85289450 GGCACTGGGTGTGCGAGCT
1 GGCACTAAGTGTGCGAGCT
85289469 CGGAGGGTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAA
Found at i:85293295 original size:24 final size:24
Alignment explanation
Indices: 85293268--85293320 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
85293258 CATAGAATCA
* **
85293268 AACATAACAA-TAGATGTAACTTCT
1 AACATAA-AAGTAGAAGTAACCACT
85293292 AACATAAAAGTAGAAGTAACCACT
1 AACATAAAAGTAGAAGTAACCACT
85293316 AACAT
1 AACAT
85293321 GGAGCTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (24 bp):
AACATAAAAGTAGAAGTAACCACT
Found at i:85294844 original size:41 final size:41
Alignment explanation
Indices: 85294751--85294888 Score: 122
Period size: 41 Copynumber: 3.4 Consensus size: 41
85294741 CAACTATATA
* *
85294751 TATGGCACTTAGTGTGC-A-ATTCG-GAATAGCTTCGGCTATA
1 TATGACACTTAGTGTGCGAGA-TCGAG-ATAGCTTCGGCTATG
* * *
85294791 TATGGCATTTAGTGTGCGAGATCGAGATAGCTTTGGCTATG
1 TATGACACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATG
* * * * *
85294832 TAAGACACTTAGTGTGGGAGAAT-AAAATAGCTTCAGCTATG
1 TATGACACTTAGTGTGCGAG-ATCGAGATAGCTTCGGCTATG
85294873 TATTGACACTTAGTGT
1 TA-TGACACTTAGTGT
85294889 TCGTGATATC
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
40 16 0.20
41 49 0.60
42 16 0.20
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (41 bp):
TATGACACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATG
Found at i:85295426 original size:12 final size:10
Alignment explanation
Indices: 85295394--85295427 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
85295384 TAGGTTTGAT
85295394 TATGTGCATA
1 TATGTGCATA
85295404 TATGTGCATA
1 TATGTGCATA
85295414 TATGTGCATA
1 TATGTGCATA
85295424 TATG
1 TATG
85295428 GTTGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (10 bp):
TATGTGCATA
Found at i:85296676 original size:18 final size:18
Alignment explanation
Indices: 85296637--85296676 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
85296627 TTGTTAGTTT
*
85296637 TTATTTTATTTTATTCAT
1 TTATTTTATTTTATTCAA
85296655 TTATTTTATTATTATT-AA
1 TTATTTTATT-TTATTCAA
85296673 TTAT
1 TTAT
85296677 AGTTGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTATTTTATTCAA
Found at i:85300596 original size:40 final size:40
Alignment explanation
Indices: 85300434--85300635 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
85300424 CGAATGATGT
*
85300434 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
85300474 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
85300513 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
85300551 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
85300592 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
85300632 CCGG
1 CCGG
85300636 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:85300598 original size:78 final size:79
Alignment explanation
Indices: 85300433--85300584 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
85300423 TCGAATGATG
* * *
85300433 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
85300498 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
85300513 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
85300576 GTGCAAGTC
65 GTGCAAGTC
85300585 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:85308559 original size:40 final size:37
Alignment explanation
Indices: 85308502--85308651 Score: 120
Period size: 40 Copynumber: 3.8 Consensus size: 37
85308492 TCGAATGATG
* * *
85308502 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGACTAA-TCCGAAGGCTTTGTGC-AAGTTACTAAA
* * *
85308541 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGACTA--ATCCGAAGGC-TTTGTGCAAGTTACTAAA
*
85308581 TCCGGGCTAATCCCGAAGGCTTTGTGCAAGTTACTAAA
1 TCCGGACTAAT-CCGAAGGCTTTGTGCAAGTTACTAAA
* ** *
85308619 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGT
1 TCCGGACTAA-T-CCGAAGGC-TTTGTGCAAGT
85308652 CGCTATAACC
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
38 25 0.27
39 26 0.28
40 34 0.37
41 7 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (37 bp):
TCCGGACTAATCCGAAGGCTTTGTGCAAGTTACTAAA
Found at i:85308664 original size:40 final size:40
Alignment explanation
Indices: 85308554--85308682 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 40
85308544 GGACTAGGAT
* * * * *
85308554 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAA-TC
1 CCGAAGGCATTCGTGCAAGTCACTAAACCCGGGTTAAGTC
* *
85308593 CCGAAGGC-TTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCAAGTCACTAAACCCGGGTTAAGTC
* *
85308632 CCGAAGGCATTCGTGCAAGTCGCTATAA-CCGGGCTT-CGTC
1 CCGAAGGCATTCGTGCAAGTCACTA-AACCCGGG-TTAAGTC
85308672 CCGAAGGCATT
1 CCGAAGGCATT
85308683 TGAGCGAGTC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 23 0.30
39 18 0.23
40 32 0.42
41 4 0.05
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCAAGTCACTAAACCCGGGTTAAGTC
Found at i:85318773 original size:33 final size:32
Alignment explanation
Indices: 85318712--85318824 Score: 122
Period size: 33 Copynumber: 3.3 Consensus size: 32
85318702 ATGAGAGATG
* *
85318712 CCGAAGGCAATTCTGGAGTTATATCCGGGTAAGC
1 CCGAAGGC-ATTGTGCAGTTATA-CCGGGTAAGC
85318746 CCGAAGGCATTGTGCAGTTACTACCGGGTAAGC
1 CCGAAGGCATTGTGCAGTTA-TACCGGGTAAGC
85318779 CCGAAGGCATTCGTGCAAGTCCTATA-CGGGCT-AGC
1 CCGAAGGCATT-GTGC-AGT--TATACCGGG-TAAGC
85318814 CCGAAGGCATT
1 CCGAAGGCATT
85318825 TGGCACGTGT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
33 31 0.44
34 14 0.20
35 21 0.30
36 3 0.04
37 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (32 bp):
CCGAAGGCATTGTGCAGTTATACCGGGTAAGC
Found at i:85324657 original size:40 final size:40
Alignment explanation
Indices: 85324612--85324778 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
85324602 CGGAATATAA
85324612 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
85324652 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
85324692 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
85324732 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
85324771 CCGGATAT
1 CCGGATAT
85324779 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:85332585 original size:40 final size:40
Alignment explanation
Indices: 85332540--85332706 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
85332530 CGGAATATAA
85332540 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
85332580 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
85332620 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTA-A
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
85332659 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
85332699 CCGGATAT
1 CCGGATAT
85332707 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 31 0.30
40 74 0.70
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:85340538 original size:34 final size:33
Alignment explanation
Indices: 85340496--85340590 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 33
85340486 TTGCTTGCAT
* * *
85340496 ATTGTACTGAAATGGGCTAAGTCCCAGACTGCC
1 ATTGTACTGAAACGGGCTAAGGCCCAAACTGCC
* *
85340529 ATTGTTACTGAAACGGGCTTAGGCCCAAACTGCT
1 ATTG-TACTGAAACGGGCTAAGGCCCAAACTGCC
* *
85340563 ACTGCTACTGAAAGAGGGGCTAAGGCCC
1 ATTG-TACTG-AA-ACGGGCTAAGGCCC
85340591 TGAACTGGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
33 4 0.08
34 32 0.64
35 2 0.04
36 12 0.24
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (33 bp):
ATTGTACTGAAACGGGCTAAGGCCCAAACTGCC
Found at i:85355047 original size:19 final size:18
Alignment explanation
Indices: 85355013--85355064 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
85355003 GGAACGGTAT
*
85355013 TGGGCCATTTTGGGCCGAA
1 TGGGCCA-TGTGGGCCGAA
*
85355032 CTGGGCCATGTGGGCCTAA
1 -TGGGCCATGTGGGCCGAA
*
85355051 TAGGCC-TGTGGGCC
1 TGGGCCATGTGGGCC
85355065 CTACACGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 8 0.28
18 5 0.17
19 9 0.31
20 7 0.24
ACGTcount: A:0.13, C:0.25, G:0.38, T:0.23
Consensus pattern (18 bp):
TGGGCCATGTGGGCCGAA
Found at i:85357856 original size:22 final size:22
Alignment explanation
Indices: 85357828--85357875 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
85357818 AAAAAGAGCG
85357828 ACAAGCAAATGATTTTTCTAAA
1 ACAAGCAAATGATTTTTCTAAA
*
85357850 ACAAGCAAATGATTTTTCTAGA
1 ACAAGCAAATGATTTTTCTAAA
85357872 ACAA
1 ACAA
85357876 CACTATCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (22 bp):
ACAAGCAAATGATTTTTCTAAA
Found at i:85365794 original size:41 final size:40
Alignment explanation
Indices: 85365731--85365872 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
85365721 TTATAATTTG
* * * * ***
85365731 GCACACTAAGTACCTTACATAGCCGAAGCTATCTCGGTCTC
1 GCACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGAAAC
* * *
85365772 GCATACTAAGTGCCATATATAGCCAAATCTATTCCGAAAC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATTCCGAAAC
* ** *
85365812 GCACACTAAGTGCCATATATAGCTGAAGCT-TTGTTGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATT-CCGAAAC
*
85365852 ACACACTAAGTGCCATATATA
1 GCACACTAAGTGCCATATATA
85365873 TATTTGAATT
Statistics
Matches: 82, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
39 2 0.02
40 54 0.66
41 26 0.32
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATTCCGAAAC
Found at i:85366939 original size:11 final size:11
Alignment explanation
Indices: 85366923--85366947 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85366913 CTTTAAACAG
85366923 TTAAAATAATA
1 TTAAAATAATA
85366934 TTAAAATAATA
1 TTAAAATAATA
85366945 TTA
1 TTA
85366948 CAACCTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAAATAATA
Found at i:85368989 original size:40 final size:40
Alignment explanation
Indices: 85368863--85368990 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
85368853 AAATTGAATA
* * * * ***
85368863 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
85368903 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
85368943 ACATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTGGTT
85368983 ATATCCGG
1 ATATCCGG
85368991 TTATATTCCG
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:85376895 original size:40 final size:40
Alignment explanation
Indices: 85376829--85376995 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
85376819 AAATTGAATG
* * *
85376829 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
85376868 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
85376908 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
85376948 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
85376988 ATATCCGG
1 ATATCCGG
85376996 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:85416540 original size:17 final size:17
Alignment explanation
Indices: 85416518--85416552 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
85416508 ATCACCTACC
85416518 ACTAACACCACCCAAGA
1 ACTAACACCACCCAAGA
85416535 ACTAACACCACCCAAGA
1 ACTAACACCACCCAAGA
85416552 A
1 A
85416553 TGAAAGCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.40, G:0.06, T:0.06
Consensus pattern (17 bp):
ACTAACACCACCCAAGA
Found at i:85417376 original size:2 final size:2
Alignment explanation
Indices: 85417364--85417399 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
85417354 AATAAGAGTG
85417364 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
85417400 GGACACTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:85420457 original size:29 final size:29
Alignment explanation
Indices: 85420425--85420483 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
85420415 AAAACAAAGA
85420425 ATAAACTAAAAGTAAATCTAAATCCTAAT
1 ATAAACTAAAAGTAAATCTAAATCCTAAT
* *
85420454 ATAAACTGAAAGTAAATCTCAATCCTAAT
1 ATAAACTAAAAGTAAATCTAAATCCTAAT
85420483 A
1 A
85420484 AAAGAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (29 bp):
ATAAACTAAAAGTAAATCTAAATCCTAAT
Found at i:85420895 original size:23 final size:23
Alignment explanation
Indices: 85420865--85420913 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
85420855 CATAGTGACC
85420865 AATATTGGTTTAGAACGCATTTT
1 AATATTGGTTTAGAACGCATTTT
*
85420888 AATATTGGTTTAGAATGCATTTT
1 AATATTGGTTTAGAACGCATTTT
85420911 AAT
1 AAT
85420914 GGTATCCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (23 bp):
AATATTGGTTTAGAACGCATTTT
Found at i:85443248 original size:48 final size:48
Alignment explanation
Indices: 85443185--85443414 Score: 193
Period size: 48 Copynumber: 4.8 Consensus size: 48
85443175 GCGATCCCGT
* *
85443185 ATAAGACCATATCTGGGATATGGCATCGGCATCGATGTGAGATCCTAA
1 ATAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCAA
* * * *
85443233 ATAAGACCATGTCTGGGACATGGCATCAGCATC-ATTATGAGA-CCCTGTA
1 ATAAGACCATATCTGGGATATGGCATCGGCATCGA-TATGAGATCCC--AA
* ** * * * **
85443282 A-AGGACCATATCTGGGACCTGGCATCGACGTCG-TATGAGGTCCCGT
1 ATAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCAA
* ** *
85443328 ATAAGACCACATCTGGGATATGGCATCGGCGCCGAGT-TGAGATCCCAT
1 ATAAGACCATATCTGGGATATGGCATCGGCATCGA-TATGAGATCCCAA
* * *
85443376 GTAAGAGCATATCTGGGATATGGCATTGGCATCG-TATGA
1 ATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
85443415 TATGTATGAG
Statistics
Matches: 144, Mismatches: 29, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
46 2 0.01
47 38 0.26
48 101 0.70
49 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (48 bp):
ATAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCCAA
Found at i:85443400 original size:95 final size:95
Alignment explanation
Indices: 85443177--85443414 Score: 223
Period size: 95 Copynumber: 2.5 Consensus size: 95
85443167 GGGTTATTGC
* * * *
85443177 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATGTGAGATCCTAAATAAGACCA
1 GATCCC-TGTAAGACCATATCTGGGATATGGCATCGACATCGATATGAGATCCCAAATAAGACCA
** * *
85443242 TGTCTGGGACATGGCATCAGCATCATTATGA
65 CATCTGGGACATGGCATCAGCACCAGTATGA
** * * **
85443273 GA-CCCTGTAAAGGACCATATCTGGGACCTGGCATCGACGTCG-TATGAGGTCCCGTATAAGACC
1 GATCCCTGT-AA-GACCATATCTGGGATATGGCATCGACATCGATATGAGATCCCAAATAAGACC
* * *
85443336 ACATCTGGGATATGGCATCGGCGCCGAGT-TGA
64 ACATCTGGGACATGGCATCAGCACC-AGTATGA
* * *
85443368 GATCCCATGTAAGAGCATATCTGGGATATGGCATTGGCATCG-TATGA
1 GATCCC-TGTAAGACCATATCTGGGATATGGCATCGACATCGATATGA
85443415 TATGTATGAG
Statistics
Matches: 114, Mismatches: 23, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
94 2 0.02
95 74 0.65
96 35 0.31
97 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (95 bp):
GATCCCTGTAAGACCATATCTGGGATATGGCATCGACATCGATATGAGATCCCAAATAAGACCAC
ATCTGGGACATGGCATCAGCACCAGTATGA
Found at i:85447142 original size:306 final size:306
Alignment explanation
Indices: 85446589--85447201 Score: 1136
Period size: 306 Copynumber: 2.0 Consensus size: 306
85446579 ACGTCCGTGT
*
85446589 CTCTGCCCGTGTGTTTACTATTGGGCATTCTATTTTGCATTTATTAGGGTGCAAAGGACACAAGG
1 CTCTGCCCGTGTGTTTACTACTGGGCATTCTATTTTGCATTTATTAGGGTGCAAAGGACACAAGG
* *
85446654 CCAGAGCACACACCCATAAGGTAGACCGTGTGTCTACCCATGTGGACAACTTTGAGGCTATCTTC
66 CCAGAGCACACACCCATAAGGCAGACCATGTGTCTACCCATGTGGACAACTTTGAGGCTATCTTC
*
85446719 CAAGCCTTTTGTCACTCGTAATAACACATACACACTTATACATCTCAATGACAACTTACATAGCA
131 CAAGCCTTTTGTCACCCGTAATAACACATACACACTTATACATCTCAATGACAACTTACATAGCA
* *
85446784 TAAATGTGGACTTACACATTCACAACCATGGCCCATGCACATCTACTTCTTATCAATTGGTACTT
196 TAAATGAGAACTTACACATTCACAACCATGGCCCATGCACATCTACTTCTTATCAATTGGTACTT
* *
85446849 GTTAAGACTCCATATTTTATTTAAGCTAAGCTTACCAAATCGCATG
261 GTTAAGACTCCATATGTTATTTAAGCTAAGCTTACCAAATCACATG
*
85446895 CTCTGCCCGTGTGTTTACTACTGGGCATTCTATTTTGCATTTATTAGGGTGCAAGGGACACAAGG
1 CTCTGCCCGTGTGTTTACTACTGGGCATTCTATTTTGCATTTATTAGGGTGCAAAGGACACAAGG
*
85446960 CCAGAGCACACACCCATAAGGCAGACCATGTGTCTACCCGTGTGGACAACTTTGAGGCTATCTTC
66 CCAGAGCACACACCCATAAGGCAGACCATGTGTCTACCCATGTGGACAACTTTGAGGCTATCTTC
85447025 CAAGCCTTTTGTCACCCGTAATAACACATACACACTTATACATCTCAATGACAACTTACATAGCA
131 CAAGCCTTTTGTCACCCGTAATAACACATACACACTTATACATCTCAATGACAACTTACATAGCA
85447090 TAAATGAGAACTTACACATTCACAACCATGGCCCATGCACATCTACTTCTTATCAATTGGTACTT
196 TAAATGAGAACTTACACATTCACAACCATGGCCCATGCACATCTACTTCTTATCAATTGGTACTT
85447155 GTTAAGACTCCATATGTTATTTAAGCTAAGCTTACCAAATCACATG
261 GTTAAGACTCCATATGTTATTTAAGCTAAGCTTACCAAATCACATG
85447201 C
1 C
85447202 AATATATAAC
Statistics
Matches: 297, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
306 297 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (306 bp):
CTCTGCCCGTGTGTTTACTACTGGGCATTCTATTTTGCATTTATTAGGGTGCAAAGGACACAAGG
CCAGAGCACACACCCATAAGGCAGACCATGTGTCTACCCATGTGGACAACTTTGAGGCTATCTTC
CAAGCCTTTTGTCACCCGTAATAACACATACACACTTATACATCTCAATGACAACTTACATAGCA
TAAATGAGAACTTACACATTCACAACCATGGCCCATGCACATCTACTTCTTATCAATTGGTACTT
GTTAAGACTCCATATGTTATTTAAGCTAAGCTTACCAAATCACATG
Found at i:85458305 original size:29 final size:29
Alignment explanation
Indices: 85458273--85458345 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
85458263 CTTCGAGCTC
*
85458273 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
85458302 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
85458331 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
85458346 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:85466439 original size:29 final size:29
Alignment explanation
Indices: 85466407--85466479 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
85466397 CTTCGAGCTC
*
85466407 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
85466436 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
85466465 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
85466480 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:85468386 original size:13 final size:13
Alignment explanation
Indices: 85468368--85468394 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
85468358 GAAAATAGCT
85468368 ATGTTGATGATGA
1 ATGTTGATGATGA
85468381 ATGTTGATGATGA
1 ATGTTGATGATGA
85468394 A
1 A
85468395 GTTATTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (13 bp):
ATGTTGATGATGA
Found at i:85474246 original size:14 final size:15
Alignment explanation
Indices: 85474217--85474246 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85474207 AAAAATTAAG
85474217 ACATGATACTTTCAC
1 ACATGATACTTTCAC
85474232 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
85474246 A
1 A
85474247 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:85476485 original size:29 final size:29
Alignment explanation
Indices: 85476451--85476582 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
85476441 TACTCGATTT
** * *
85476451 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
85476480 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
85476509 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
85476538 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
85476567 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
85476583 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:85483828 original size:29 final size:29
Alignment explanation
Indices: 85483794--85483925 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
85483784 TACTCGATTT
** * *
85483794 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
85483823 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
85483852 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
85483881 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
85483910 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
85483926 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:85493890 original size:40 final size:40
Alignment explanation
Indices: 85493835--85493998 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
85493825 TGAATGATAC
* * *
85493835 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
85493875 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
85493915 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
85493955 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
85493995 CCGG
1 CCGG
85493999 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:85493968 original size:80 final size:80
Alignment explanation
Indices: 85493835--85494012 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
85493825 TGAATGATAC
* * * * * *
85493835 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
85493899 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
85493915 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
85493980 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
85493995 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
85494013 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:85502001 original size:40 final size:40
Alignment explanation
Indices: 85501946--85502109 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
85501936 TGAATGATAC
* * *
85501946 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
85501986 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
85502026 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
85502066 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
85502106 CCGG
1 CCGG
85502110 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:85502079 original size:80 final size:80
Alignment explanation
Indices: 85501946--85502123 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
85501936 TGAATGATAC
* * * * * *
85501946 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
85502010 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
85502026 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
85502091 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
85502106 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
85502124 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:85509805 original size:34 final size:34
Alignment explanation
Indices: 85509741--85509805 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
85509731 TTACCATTGC
* * * *
85509741 TGTAATGGGTTAAGGCCCACACTGATACTGATAT
1 TGTAATGGGCTAAAGCCCACACTAAAACTGATAT
85509775 TGTAATGGGCTAAAGCCCTA-ACTAAAACTGA
1 TGTAATGGGCTAAAGCCC-ACACTAAAACTGA
85509806 ACTGTTACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 25 0.96
35 1 0.04
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (34 bp):
TGTAATGGGCTAAAGCCCACACTAAAACTGATAT
Found at i:85510176 original size:22 final size:22
Alignment explanation
Indices: 85510148--85510199 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
85510138 CACCACGTTC
85510148 ACGCAACATACTTTAAAAGCTT
1 ACGCAACATACTTTAAAAGCTT
*
85510170 ACGCAACATATTTTAAAAGCTT
1 ACGCAACATACTTTAAAAGCTT
*
85510192 CCGCAACA
1 ACGCAACA
85510200 AACAATGTTT
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:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (22 bp):
ACGCAACATACTTTAAAAGCTT
Found at i:85512114 original size:2 final size:2
Alignment explanation
Indices: 85512107--85512133 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
85512097 CTTATTTCTC
85512107 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
85512134 CATGTTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85514257 original size:15 final size:15
Alignment explanation
Indices: 85514234--85514269 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
85514224 ACGTGGTCTT
*
85514234 ACATGTATCGAAGTC
1 ACATATATCGAAGTC
85514249 ACATATATCGAAGTC
1 ACATATATCGAAGTC
85514264 ACATAT
1 ACATAT
85514270 CGATGCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (15 bp):
ACATATATCGAAGTC
Found at i:85514322 original size:56 final size:56
Alignment explanation
Indices: 85514248--85514593 Score: 479
Period size: 56 Copynumber: 6.2 Consensus size: 56
85514238 GTATCGAAGT
*
85514248 CACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGTGGTTTTACTCGCA
1 CACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
* * * *
85514304 CACATATATCGGAA-TCACAAATCGATGCC-AC-TTTCTCAGACAG-GTTCTTACTCGCA
1 CACATATATC-GAAGTCACATATCGATGCCAACGTAT-T-AAAC-GTGGTCTTACTCGCA
* *
85514360 CACATATATCGAAGTCACATATTGATGCCAACGTATTAAACGTGGTCTTACTAGCA
1 CACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
* * *
85514416 CACATATATCGGAA-TCACATATCGATGCCAATGTAGTAAACGTGGTCTTACTCACA
1 CACATATATC-GAAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
* * *
85514472 CACATATATCCAAGTCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCTCA
1 CACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
85514528 CACATATATCAGAA-TCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
1 CACATATATC-GAAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
85514584 CACATATATC
1 CACATATATC
85514594 AATGCCATGA
Statistics
Matches: 255, Mismatches: 24, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
54 2 0.01
55 9 0.04
56 230 0.90
57 12 0.05
58 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (56 bp):
CACATATATCGAAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCA
Found at i:85515750 original size:13 final size:13
Alignment explanation
Indices: 85515732--85515757 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85515722 ACAAACGATA
85515732 AAATTTTCACACG
1 AAATTTTCACACG
85515745 AAATTTTCACACG
1 AAATTTTCACACG
85515758 TATAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:85521466 original size:587 final size:588
Alignment explanation
Indices: 85520353--85521531 Score: 2288
Period size: 587 Copynumber: 2.0 Consensus size: 588
85520343 TGCTAGCCTA
*
85520353 TGTGACAACCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAA
1 TGTGACAACCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAAAAA
85520418 TAATTGTTTTATAATTATTTTGGGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
66 TAATTGTTTTATAATTATTTTGGGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
85520483 GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTTG
131 GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTTG
* *
85520548 CATCCCGGAAGTTTTTAGTATGAAATTGTTTTGGAATATTAATTAGGAGGTCTTAAATAGCAATT
196 CATCCCAGAAGTTTTTAGTATGAAATTGTTTTGGAATATTAATTAGGAGGTCTTAAATAGAAATT
85520613 TGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGAAAGTTTAGTAAGGA
261 TGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGAAAGTTTAGTAAGGA
85520678 GGGGCATTTTGGTCATTTGGATATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGATCAT
326 GGGGCATTTTGGTCATTTGGATATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGATCAT
*
85520743 CATCTTCCTTAGTTGCTGCCGAATTCTCCCTCTCTCCATAGCTAGGGTTTCTTCAATTTTCAAGC
391 CATCCTCCTTAGTTGCTGCCGAATTCTCCCTCTCTCCATAGCTAGGGTTTCTTCAATTTTCAAGC
85520808 TCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCTC
456 TCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCTC
*
85520873 GATTAAGCTTACGCTAGTAATAATTTAACCTAGGGTTCATATTTGGAAAAATACCCATAGGTGAA
521 GATTAAGCTTACGCTAGTAATAATTTAACCTAGGGTTCACATTTGGAAAAATACCCATAGGTGAA
85520938 ATT
586 ATT
*
85520941 TGTGACAACCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCTGAGATAAAAA
1 TGTGACAACCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAAAAA
85521006 TAATTGTTTTATAATTATTTT-GGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
66 TAATTGTTTTATAATTATTTTGGGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
85521070 GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTTG
131 GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTTG
85521135 CATCCCAGAAGTTTTTAGTATGAAATTGTTTTGGAATATTAATTAGGAGGTCTTAAATAGAAATT
196 CATCCCAGAAGTTTTTAGTATGAAATTGTTTTGGAATATTAATTAGGAGGTCTTAAATAGAAATT
85521200 TGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGAAAGTTTAGTAAGGA
261 TGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGAAAGTTTAGTAAGGA
85521265 GGGGCATTTTGGTCATTTGGATATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGATCAT
326 GGGGCATTTTGGTCATTTGGATATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGATCAT
85521330 CATCCTCCTTAGTTGCTGCCGAATTCTCCCTCTCTCCATAGCTAGGGTTTCTTCAATTTTCAAGC
391 CATCCTCCTTAGTTGCTGCCGAATTCTCCCTCTCTCCATAGCTAGGGTTTCTTCAATTTTCAAGC
85521395 TCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCTC
456 TCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCTC
*
85521460 GATTAAGCTTATGCTAGTAATAATTTAACCTAGGGTTCACATTTGGAAAAATACCCATAGGTGAA
521 GATTAAGCTTACGCTAGTAATAATTTAACCTAGGGTTCACATTTGGAAAAATACCCATAGGTGAA
85521525 ATT
586 ATT
85521528 TGTG
1 TGTG
85521532 TATTTTGATG
Statistics
Matches: 584, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
587 500 0.86
588 84 0.14
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (588 bp):
TGTGACAACCCGAATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAAAAA
TAATTGTTTTATAATTATTTTGGGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTTG
CATCCCAGAAGTTTTTAGTATGAAATTGTTTTGGAATATTAATTAGGAGGTCTTAAATAGAAATT
TGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGAAAGTTTAGTAAGGA
GGGGCATTTTGGTCATTTGGATATTAAATGAAATAAAATGGGAAAAATAACACAAAATTGATCAT
CATCCTCCTTAGTTGCTGCCGAATTCTCCCTCTCTCCATAGCTAGGGTTTCTTCAATTTTCAAGC
TCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCTC
GATTAAGCTTACGCTAGTAATAATTTAACCTAGGGTTCACATTTGGAAAAATACCCATAGGTGAA
ATT
Found at i:85529781 original size:41 final size:41
Alignment explanation
Indices: 85529736--85529853 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
85529726 TGAAAGATAA
85529736 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
85529777 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
85529807 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
85529848 ATGTAG
1 ATGTAG
85529854 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:85529792 original size:71 final size:71
Alignment explanation
Indices: 85529704--85529867 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
85529694 GAGATGTATC
85529704 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
85529769 AGGACA
66 AGGACA
85529775 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
85529840 AGGACA
66 AGGACA
85529846 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
85529868 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:85539313 original size:41 final size:41
Alignment explanation
Indices: 85539268--85539385 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
85539258 TGAAAGATAA
85539268 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
85539309 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
85539339 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
85539380 ATGTAG
1 ATGTAG
85539386 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:85539324 original size:71 final size:71
Alignment explanation
Indices: 85539236--85539399 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
85539226 GAGATGTATC
85539236 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
85539301 AGGACA
66 AGGACA
85539307 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
85539372 AGGACA
66 AGGACA
85539378 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
85539400 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:85541356 original size:56 final size:56
Alignment explanation
Indices: 85541265--85541654 Score: 517
Period size: 56 Copynumber: 7.0 Consensus size: 56
85541255 TCTTACATGT
***
85541265 AATCACATATCGATGCC-ACTGTCCCAAACAG-GGTCTTACTCGCACACATATATC-G
1 AATCACATATCGATGCCAAC-GTATTAAAC-GTGGTCTTACTCGCACACATATATCGG
85541320 AAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGG
1 AA-TCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGG
* * * *
85541377 AATCACAAATCGATGCC-AC-TTTCTCAGACAG-GTTCTTACTCGCACACATATATC-G
1 AATCACATATCGATGCCAACGTAT-T-AAAC-GTGGTCTTACTCGCACACATATATCGG
*
85541432 AAGTCACATATCGATGCCAACGTATTAAACGTGGTCTTACTAGCACACATATATCGG
1 AA-TCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGG
* * * *
85541489 AATCACATATCGATGCCAATGTAGTAAACGTGGTCTTACTCACACACATATATC-C
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGG
* * *
85541544 AAGTCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCTCACACATATATCAG
1 AA-TCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGG
85541601 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATC
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATC
85541655 AATGCCATGA
Statistics
Matches: 297, Mismatches: 24, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
54 2 0.01
55 12 0.04
56 267 0.90
57 14 0.05
58 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGG
Found at i:85546109 original size:12 final size:12
Alignment explanation
Indices: 85546092--85546117 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85546082 TTCCACGGAG
85546092 ACACTTTCAAAA
1 ACACTTTCAAAA
85546104 ACACTTTCAAAA
1 ACACTTTCAAAA
85546116 AC
1 AC
85546118 TTTGGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (12 bp):
ACACTTTCAAAA
Found at i:85547521 original size:43 final size:43
Alignment explanation
Indices: 85547453--85547665 Score: 200
Period size: 43 Copynumber: 5.0 Consensus size: 43
85547443 TAAAGCTCAT
* * *
85547453 ACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
* * * * * * *
85547495 TCGATGCCACTGTCCCAGACAGGGTCTTGCATGAAATTGA-ATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAA-TCACATA
* * * * * * *
85547538 ACGATGCCAATGTCTCATACATAGTCTTACACGAAACTGA-ATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAA-TCACATA
*
85547581 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-A
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
*
85547623 TACAATGTCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 -ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
85547666 CTCGGTAACC
Statistics
Matches: 139, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
42 9 0.06
43 128 0.92
44 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
Found at i:85549685 original size:35 final size:35
Alignment explanation
Indices: 85549640--85549711 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
85549630 GATCAACCTG
85549640 TATACATTCCACTGAAACAATGTGCCCAAAAAATC
1 TATACATTCCACTGAAACAATGTGCCCAAAAAATC
* *
85549675 TATACCTTCCACTGAAACAATGTGCCCCAAAAATC
1 TATACATTCCACTGAAACAATGTGCCCAAAAAATC
85549710 TA
1 TA
85549712 ACTTCTCAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (35 bp):
TATACATTCCACTGAAACAATGTGCCCAAAAAATC
Found at i:85562037 original size:12 final size:13
Alignment explanation
Indices: 85562014--85562074 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
85562004 TTTTAGGATG
85562014 ATTTTATTTTAAT
1 ATTTTATTTTAAT
85562027 ATTTT-TTTTAATT
1 ATTTTATTTTAA-T
*
85562040 ATTTTATTTAAAT
1 ATTTTATTTTAAT
*
85562053 ATTATT-TTTAAAT
1 ATT-TTATTTTAAT
85562066 ATATTTATT
1 AT-TTTATT
85562075 AAGAATTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
12 6 0.14
13 26 0.62
14 10 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTATTTTAAT
Found at i:85562076 original size:26 final size:26
Alignment explanation
Indices: 85562014--85562074 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
85562004 TTTTAGGATG
* * *
85562014 ATTTTATTTTAATATTTTTTTTAATT
1 ATTTTATTTAAATATTATTTTTAAAT
85562040 ATTTTATTTAAATATTATTTTTAAAT
1 ATTTTATTTAAATATTATTTTTAAAT
85562066 ATATTTATT
1 AT-TTTATT
85562075 AAGAATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
ATTTTATTTAAATATTATTTTTAAAT
Found at i:85563279 original size:22 final size:22
Alignment explanation
Indices: 85563251--85563295 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
85563241 TCAACAAAAG
85563251 TTAATTTATTATTAAAAACATA
1 TTAATTTATTATTAAAAACATA
85563273 TTAATTTATTATTAAAAACATA
1 TTAATTTATTATTAAAAACATA
85563295 T
1 T
85563296 ACTTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAATTTATTATTAAAAACATA
Found at i:85563804 original size:21 final size:23
Alignment explanation
Indices: 85563780--85563824 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
85563770 TAAACATTTT
*
85563780 AAAATTCA-ACAAA-TTTTAAAA
1 AAAATTCATAAAAACTTTTAAAA
85563801 AAAATTCATAAAAACTTTTAAAA
1 AAAATTCATAAAAACTTTTAAAA
85563824 A
1 A
85563825 CTTTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 4 0.19
23 9 0.43
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAATTCATAAAAACTTTTAAAA
Found at i:85564168 original size:16 final size:16
Alignment explanation
Indices: 85564132--85564170 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
85564122 AACGTTAAAT
* *
85564132 AAATTAAAATAATAGA
1 AAATAAAAATAAAAGA
85564148 AAATAAAAATAAAAGA
1 AAATAAAAATAAAAGA
*
85564164 TAATAAA
1 AAATAAA
85564171 TCATGAAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAATAAAAATAAAAGA
Found at i:85568893 original size:44 final size:44
Alignment explanation
Indices: 85568843--85568926 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
85568833 TAGATCTTGA
**
85568843 ATCTTCAGTCTGCT-TCTTTGCTACCTCAG-GAAGATAAGACTACC
1 ATCTTCAACCTGCTCTC-TTGCTACCTCAGAG-AGATAAGACTACC
85568887 ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGAC
1 ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGAC
85568927 CAATGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
44 33 0.92
45 3 0.08
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACTACC
Found at i:85569320 original size:177 final size:177
Alignment explanation
Indices: 85568753--85569937 Score: 1335
Period size: 177 Copynumber: 6.7 Consensus size: 177
85568743 AATAGGACTG
* * * * *
85568753 GTGGCTCAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCCTCGATGTACTCCTC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
* * * * *
85568818 CACTGCTTAAGGAAAT-AGATCTTGAATCTTCAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
*
85568882 CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGACCA
131 CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
* * * *
85568929 ATGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCGTCCTCGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
* * *
85568994 TACTTCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTA---C-----GATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
* ** * **
85569051 CTACAATCGCCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTG
131 CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
* * * *
85569098 GTAGCTCAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTTGATCTACTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
*
85569163 TACTGCTTAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
66 TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
* *
85569228 CTACCATCTTCAACCTACTCTCTTGTTACCTCAGAGAGATAAGGCCA
131 CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
* *
85569275 GTGGCTAAAATCTGCTCCATTGCCTG-TACATGGAGATACGATTCGCCATCTTCGATCTACTCCG
1 GTGGCTAAAATCTGCTCCATTGCC-GATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCA
*
85569339 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAG
65 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * * * * * * *
85569404 ACTA-TATCTTGAACCTGCTC-CACTACAACTTCAGGGAGATAAGGCTA
130 ACTACCATCTTCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCCA
* * * * * * *
85569451 GTGACTTAAATCTGCTCCATTGCCGGTACATAGAGATAAGATTTGTCGTCTTCGATCTACTCCAC
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
* ** * * *
85569516 TGCAACTTCAGGGAAATAAGATCTTTAATCTTCATTCTGCTTCCTTGCTACCTCAGGAAGATAAG
66 TACTGCTT-AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * * *
85569581 GCTATCATCTTCAACCTGCTCTCTTACTACCTCAGAGAGATAAGGTCA
130 ACTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
* * **
85569629 GTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGA-TCTG
1 GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCT-ACTCCA
* * ** *
85569693 CTACTGTTTAGGGAGATAAGATCTTTCAATCTTCAGTCTGCTTTCTTGCTATGTCAGAAAGATAA
65 CTACTGCTTAGGGAGATAAGATC-TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAA
* * * * * * * **
85569758 GACTA-TATCTTGAACCTGCTC-CACTGCAACTTTAGGGAGATAAGGCTG
129 GACTACCATCTTCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCCA
* * * * * * **
85569806 GTGACTTAAATCTGCTCCATTGCCTG-TACATGGAGATAAGATTCGTCGTCTTTGGTCTGTTCCA
1 GTGGCTAAAATCTGCTCCATTGCC-GATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCA
* * * * * * *
85569870 CTACTGTTTAGGGAAATAAGACCTGCAATCCTCAGTCT-ATTCCACTG-TAACCTCAGGAAGATA
65 CTACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTGCT-ACCTCAGGAAGATA
85569933 AGACT
128 AGACT
85569938 TGTCTATTGA
Statistics
Matches: 850, Mismatches: 137, Indels: 44
0.82 0.13 0.04
Matches are distributed among these distances:
169 149 0.18
172 1 0.00
174 1 0.00
175 6 0.01
176 194 0.23
177 367 0.43
178 130 0.15
179 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (177 bp):
GTGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTACTCCAC
TACTGCTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCA
Found at i:85570194 original size:64 final size:64
Alignment explanation
Indices: 85570092--85570474 Score: 631
Period size: 64 Copynumber: 6.0 Consensus size: 64
85570082 TCATGTATCT
* * * * *
85570092 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAAATATG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
85570156 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTTCTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* *
85570220 ATGCTTATGTCAAATAATTAAGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
85570284 ATGCTCATGTCAAATAATTAGGATGTTATGATAGAAATGAATCGAATGCTCCTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
85570348 ATGCTCATGTCAAATAATTAGAATGCTATGATGGAAATGAATCAAATGCTCTTAACTAGATGTG
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
85570412 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGT
85570475 ATTATGAATG
Statistics
Matches: 299, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 299 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (64 bp):
ATGCTCATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:85570528 original size:17 final size:18
Alignment explanation
Indices: 85570506--85570539 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
85570496 CAAAAAATGA
85570506 GAATGATCT-TTTTAAAT
1 GAATGATCTGTTTTAAAT
*
85570523 GAATGATTTGTTTTAAA
1 GAATGATCTGTTTTAAA
85570540 AAAAATGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (18 bp):
GAATGATCTGTTTTAAAT
Found at i:85571574 original size:6 final size:6
Alignment explanation
Indices: 85571565--85571630 Score: 87
Period size: 6 Copynumber: 10.5 Consensus size: 6
85571555 TGGCCTTTCT
*
85571565 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTAA TTTTTA TTTTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --TTTTTA
*
85571615 TTTTGA TTTTTTA TTT
1 TTTTTA -TTTTTA TTT
85571631 CAATCTCTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
6 42 0.79
7 5 0.09
8 6 0.11
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:85571644 original size:32 final size:32
Alignment explanation
Indices: 85571577--85571645 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
85571567 TTTATTTTTA
* * * * *
85571577 TTTTTATTTTTATTTTTATTTTAATTTTTATT
1 TTTTTATTTTGATTTTTATTTCAATCTCTACT
85571609 TTTTTATTTTGATTTTTTATTTCAATCTCT-CT
1 TTTTTATTTTGA-TTTTTATTTCAATCTCTACT
85571641 TTTTT
1 TTTTT
85571646 TTTAAGGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (32 bp):
TTTTTATTTTGATTTTTATTTCAATCTCTACT
Found at i:85571644 original size:33 final size:32
Alignment explanation
Indices: 85571577--85571646 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
85571567 TTTATTTTTA
* * * *
85571577 TTTTTATTTTTATTTTTATTTTAATTTTTATT
1 TTTTTATTTTGATTTTTATTTCAATCTCTATT
*
85571609 TTTTTATTTTGATTTTTTATTTCAATCTCTCTT
1 TTTTTATTTTGA-TTTTTATTTCAATCTCTATT
85571642 TTTTT
1 TTTTT
85571647 TTAAGGTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 11 0.34
33 21 0.66
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (32 bp):
TTTTTATTTTGATTTTTATTTCAATCTCTATT
Found at i:85573147 original size:25 final size:25
Alignment explanation
Indices: 85573089--85573148 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
85573079 GAAAGAATAT
*
85573089 AAAAAGAACGAAAGAATATTTACTC
1 AAAAAGAATGAAAGAATATTTACTC
85573114 AAAAAGAATGAAAGAATATTTACTC
1 AAAAAGAATGAAAGAATATTTACTC
85573139 AAAAAGAATG
1 AAAAAGAATG
85573149 CATTTCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.20
Consensus pattern (25 bp):
AAAAAGAATGAAAGAATATTTACTC
Found at i:85574965 original size:23 final size:23
Alignment explanation
Indices: 85574931--85574976 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
85574921 CGGAGGTGAA
* *
85574931 AACCTCATGAAAGTATAGTTTCT
1 AACCTCACGAAAGCATAGTTTCT
85574954 AACCTCACGAAAGCATAGTTTCT
1 AACCTCACGAAAGCATAGTTTCT
85574977 TACTCCCACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (23 bp):
AACCTCACGAAAGCATAGTTTCT
Found at i:85578650 original size:3 final size:3
Alignment explanation
Indices: 85578633--85578743 Score: 59
Period size: 3 Copynumber: 37.7 Consensus size: 3
85578623 TATATGTTTC
* * * * **
85578633 ATT ATT ATA ACT ATT ATT ATT TTT ATT ACT ATT ATT ATT ATT -TT CACC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * * *
85578681 ACT ATT ATT ATT -TCT ATT -TT ATT GTT ATT ATT ACT ATT -GT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
85578724 ACT ACT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
85578744 ATTGTTTTCT
Statistics
Matches: 82, Mismatches: 20, Indels: 12
0.72 0.18 0.11
Matches are distributed among these distances:
2 6 0.07
3 75 0.91
4 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:85578710 original size:20 final size:20
Alignment explanation
Indices: 85578685--85578723 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85578675 TTCACCACTA
* *
85578685 TTATTATTTCTATTTTATTG
1 TTATTATTACTATTGTATTG
85578705 TTATTATTACTATTGTATT
1 TTATTATTACTATTGTATT
85578724 ACTACTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (20 bp):
TTATTATTACTATTGTATTG
Found at i:85578799 original size:23 final size:24
Alignment explanation
Indices: 85578773--85578834 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 24
85578763 TTTACACATA
*
85578773 AGTTATTATTATTATATCAAAT-G
1 AGTTATTATTATTATATCAAATAC
* * *
85578796 AGTTAATATTATTATTTTAAATAC
1 AGTTATTATTATTATATCAAATAC
*
85578820 ATTTATTATTATTAT
1 AGTTATTATTATTAT
85578835 TATTATTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 19 0.59
24 13 0.41
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (24 bp):
AGTTATTATTATTATATCAAATAC
Found at i:85578818 original size:15 final size:15
Alignment explanation
Indices: 85578798--85578858 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
85578788 ATCAAATGAG
85578798 TTAATATTATTATT-
1 TTAATATTATTATTA
*
85578812 TTAA-ATACATTTATTA
1 TTAATAT-TA-TTATTA
*
85578828 TTATTATTATTATTA
1 TTAATATTATTATTA
*
85578843 TTATTATTATTATTA
1 TTAATATTATTATTA
85578858 T
1 T
85578859 CATTATTTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 2 0.05
14 5 0.12
15 27 0.68
16 4 0.10
17 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATATTATTATTA
Found at i:85578828 original size:3 final size:3
Alignment explanation
Indices: 85578822--85578865 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
85578812 TTAAATACAT
*
85578822 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
85578866 TTCATCTCGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:85581268 original size:19 final size:19
Alignment explanation
Indices: 85581246--85581291 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
85581236 CTTCCTTTCT
85581246 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
* *
85581265 TTTGCATTGCATTGCATTA
1 TTTGCATTGCATTCCATCA
85581284 TTTGCATT
1 TTTGCATT
85581292 AAACTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:85585224 original size:64 final size:64
Alignment explanation
Indices: 85585145--85585269 Score: 232
Period size: 64 Copynumber: 2.0 Consensus size: 64
85585135 ATAATAATAC
*
85585145 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCAT
1 ATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCAT
*
85585209 ATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 ATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
85585270 AGATACATGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (64 bp):
ATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCATCAT
Found at i:85585541 original size:45 final size:44
Alignment explanation
Indices: 85585485--85585806 Score: 174
Period size: 45 Copynumber: 7.3 Consensus size: 44
85585475 CTATCTTCCT
* *
85585485 AAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTG
1 AAGTTGCAGTGGAGTAGGCTGAAGA-TGCAGATCTTGTCTCCCTG
** * * ** *
85585530 AAGTTGCAGTGGACCA-GATCGAAGACAGTGGATCTTGTCTTCCTG
1 AAGTTGCAGTGGAGTAGGCT-GAAGA-TGCAGATCTTGTCTCCCTG
* * ** * * * *
85585575 AAGTTGCAGTGAAGCAGATTTAAG--CCACCATCTTATCTCCCT-
1 AAGTTGCAGTGGAGTAGGCTGAAGATGCA-GATCTTGTCTCCCTG
*
85585617 AAGTTGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTG
1 AAGTTGCAGTGGAGTAGGCTGAAGA-TGCAGATCTTGTCTCCCTG
* * * * *
85585662 AAGTTGCAGTGGAATA-GATCGAAGACGGC-GAATCATGTCTCTCTG
1 AAGTTGCAGTGGAGTAGGCT-GAAGA-TGCAG-ATCTTGTCTCCCTG
* * ** * * * * * *
85585707 AAGTTGCAATGGAGCAGATTTAAGCTAC-CATCCTATCTCCCTG
1 AAGTTGCAGTGGAGTAGGCTGAAGATGCAGATCTTGTCTCCCTG
** * *
85585750 -AGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTTTCCCTG
1 AAGTTGCAGTGGAGTAGGCTGAAGA-TGCAGATCTTGTCTCCCTG
85585794 AAGTTGCAGTGGA
1 AAGTTGCAGTGGA
85585807 ACAGATCGAA
Statistics
Matches: 199, Mismatches: 65, Indels: 26
0.69 0.22 0.09
Matches are distributed among these distances:
42 33 0.17
43 24 0.12
44 29 0.15
45 111 0.56
46 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
AAGTTGCAGTGGAGTAGGCTGAAGATGCAGATCTTGTCTCCCTG
Found at i:85585554 original size:132 final size:132
Alignment explanation
Indices: 85585344--85585893 Score: 755
Period size: 132 Copynumber: 4.2 Consensus size: 132
85585334 TCACAAACCT
** * *
85585344 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTATAG-GCATTGTCTCCCTGAAGTTACAGT
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATC-TTGTCTCCCTGAAGTTGCAGT
* * * * * * *
85585408 GGAGCAGATCGAAGATGGTGAATCTTATCT-TCCTAAAATTGCAGTGAAGCAGATTTAAGCAACC
65 GGAACAGATCGAAGACGGCGAATCTTGTCTCT-CTGAAATTGCAATGAAGCAGATTTAAGCCACC
85585472 ATCC
129 ATCC
* ** *
85585476 TATCTTCCTAAGTTGTAGTGGAGTAGGCTGAAGATTGTAGATCTTGTCTCCCTGAAGTTGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
* * * * * *
85585541 GACCAGATCGAAGACAGTGGATCTTGTCT-TCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCA
66 GAACAGATCGAAGACGGCGAATCTTGTCTCT-CTGAAATTGCAATGAAGCAGATTTAAGCCACCA
*
85585605 TCT
130 TCC
**
85585608 TATCTCCCTAAGTTGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
* * * * *
85585673 GAATAGATCGAAGACGGCGAATCATGTCTCTCTGAAGTTGCAATGGAGCAGATTTAAGCTACCAT
66 GAACAGATCGAAGACGGCGAATCTTGTCTCTCTGAAATTGCAATGAAGCAGATTTAAGCCACCAT
85585738 CC
131 CC
* *
85585740 TATCTCCCTGAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTTTCCCTGAAGTTGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
* *
85585805 GAACAGATCGAAGACGGCAAATCTTGTCTCTCTGAAATTGCAATGAAGTAGATTTAAGCCACCAT
66 GAACAGATCGAAGACGGCGAATCTTGTCTCTCTGAAATTGCAATGAAGCAGATTTAAGCCACCAT
85585870 CC
131 CC
85585872 TATCTCCCTAAGCAGTAGTGGA
1 TATCTCCCTAAGCAGTAGTGGA
85585894 ACAAGTTGAA
Statistics
Matches: 377, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
132 375 0.99
133 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (132 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTG
GAACAGATCGAAGACGGCGAATCTTGTCTCTCTGAAATTGCAATGAAGCAGATTTAAGCCACCAT
CC
Found at i:85587813 original size:3 final size:3
Alignment explanation
Indices: 85587796--85587909 Score: 83
Period size: 3 Copynumber: 38.7 Consensus size: 3
85587786 CATATGTGTC
* * * * *
85587796 ATT ATT ATA ACT ATT ATT ATT TTT ATT ACT ATT ATT ATT ATT -TT CATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
* * *
85587844 ACT ATT ATT ATT -TCT ATT -TT ATT ATT ATT ATT ATT ACT ATT -GT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
85587887 ATT ACT ACT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
85587910 ATTGTTTTCC
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
2 6 0.07
3 79 0.91
4 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:85587901 original size:23 final size:23
Alignment explanation
Indices: 85587852--85587912 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
85587842 TCACTATTAT
* * * * *
85587852 TATTTCTATTTTATTATTATTAT
1 TATTACTATTATATTACTACTAC
*
85587875 TATTACTATTGTATTACTACTAC
1 TATTACTATTATATTACTACTAC
*
85587898 TATTATTATTATATT
1 TATTACTATTATATT
85587913 GTTTTCCCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTACTATTATATTACTACTAC
Found at i:85594257 original size:23 final size:22
Alignment explanation
Indices: 85594214--85594259 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
85594204 TTTGTTTTTA
*
85594214 ACTTTAACTTTTATTTAAAAAC
1 ACTTTAACTTTTATATAAAAAC
* *
85594236 ACTTTAATTTGTTATATCAAAAC
1 ACTTTAACTT-TTATATAAAAAC
85594259 A
1 A
85594260 TAATATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.43
Consensus pattern (22 bp):
ACTTTAACTTTTATATAAAAAC
Found at i:85594583 original size:31 final size:30
Alignment explanation
Indices: 85594526--85594608 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
85594516 AGTTGTGGAA
* *
85594526 TTAATCTTTATA-TTTTAATTTGATCAATT
1 TTAATCCTTATACTTTTAAATTGATCAATT
85594555 TTAATCCTTATACTTTTGAAATTGATCAATT
1 TTAATCCTTATACTTTT-AAATTGATCAATT
*
85594586 TTAATCAC-TGTACTTTTTAAATT
1 TTAATC-CTTATAC-TTTTAAATT
85594609 TTTAAATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 11 0.23
30 4 0.09
31 27 0.57
32 5 0.11
ACGTcount: A:0.31, C:0.11, G:0.05, T:0.53
Consensus pattern (30 bp):
TTAATCCTTATACTTTTAAATTGATCAATT
Found at i:85594617 original size:31 final size:31
Alignment explanation
Indices: 85594526--85594619 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 31
85594516 AGTTGTGGAA
* * *
85594526 TTAATCTTTATA-TTTT-AATTTGATCAATT
1 TTAATCCTTATACTTTTGAAATTGATAAATT
*
85594555 TTAATCCTTATACTTTTGAAATTGATCAATT
1 TTAATCCTTATACTTTTGAAATTGATAAATT
* * **
85594586 TTAATCAC-TGTACTTTTTAAATTTTTAAATT
1 TTAATC-CTTATACTTTTGAAATTGATAAATT
85594617 TTA
1 TTA
85594620 GTCTTAGCCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 11 0.20
30 4 0.07
31 39 0.71
32 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (31 bp):
TTAATCCTTATACTTTTGAAATTGATAAATT
Found at i:85619989 original size:25 final size:25
Alignment explanation
Indices: 85619951--85619998 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
85619941 TCATATTCAT
85619951 GTATGCTCATACGAGCTATGAATTA
1 GTATGCTCATACGAGCTATGAATTA
*
85619976 GTATGCTC-TCACGAGCTGTGAAT
1 GTATGCTCAT-ACGAGCTATGAAT
85619999 CGGGAAGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATTA
Found at i:85621357 original size:46 final size:46
Alignment explanation
Indices: 85621307--85621479 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
85621297 TGGTTGAGCA
85621307 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
85621353 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
85621398 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85621446 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
85621480 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:85621463 original size:93 final size:93
Alignment explanation
Indices: 85621304--85621474 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
85621294 GGATGGTTGA
* *
85621304 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
85621369 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
85621397 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
85621462 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
85621475 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:85625159 original size:20 final size:21
Alignment explanation
Indices: 85625123--85625164 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
85625113 TTCAACAGTT
*
85625123 AAAACGATATAACTTACCTTA
1 AAAACGATATAACTTACATTA
85625144 AAAAC-ATAGTAA-TTACATTA
1 AAAACGATA-TAACTTACATTA
85625164 A
1 A
85625165 CAAGATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAACGATATAACTTACATTA
Found at i:85630327 original size:24 final size:24
Alignment explanation
Indices: 85630276--85630327 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
85630266 TAATAATTGA
85630276 AATATTTTATAATTAATTATTTTT
1 AATATTTTATAATTAATTATTTTT
85630300 -ATATTTT-TAATTGTAATT-TTTTT
1 AATATTTTATAA-T-TAATTATTTTT
85630323 AATAT
1 AATAT
85630328 AAAGATTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 3 0.12
23 13 0.52
24 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
AATATTTTATAATTAATTATTTTT
Found at i:85631059 original size:114 final size:114
Alignment explanation
Indices: 85630859--85631080 Score: 365
Period size: 114 Copynumber: 1.9 Consensus size: 114
85630849 TCATTGTTTA
* * *
85630859 ATAAGCCTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGATATGTTTTTTAGTCTTATTTATGCA
1 ATAAGACTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGCA
*
85630924 TGTAGTCTTATTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCC
66 TGTAGTCTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCC
*
85630973 ATAAGACTTCACTTTTAGAAG-TTTTGTTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGC
1 ATAAGACTTCAATTTTAGAAGTTTTTG-TCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGC
* *
85631037 ATGTAGTCTTGCTTTTGCAAGTGGTTTTAGAGATGGTTTTGTTG
65 ATGTAGTCTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTG
85631081 CTGCCATCTT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 5 0.05
114 95 0.95
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.49
Consensus pattern (114 bp):
ATAAGACTTCAATTTTAGAAGTTTTTGTCTGCTCTTGTGACATGTTTTTTAGTCTTACTTATGCA
TGTAGTCTTACTTTTGCAAGTGGTTTTAGAGATGGCTTTGTTGTTGTCC
Found at i:85631615 original size:31 final size:31
Alignment explanation
Indices: 85631580--85631638 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
85631570 AATTTTGATC
85631580 ACTAAACTATTCAAA-AGTTTTCATTTAAATA
1 ACTAAACTATT-AAAGAGTTTTCATTTAAATA
*
85631611 ACTAAACTATTAAAGAGTTTTTATTTAA
1 ACTAAACTATTAAAGAGTTTTCATTTAA
85631639 GTCACTTGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ACTAAACTATTAAAGAGTTTTCATTTAAATA
Found at i:85633313 original size:19 final size:18
Alignment explanation
Indices: 85633289--85633373 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 18
85633279 GATTTTCAAA
85633289 AATAATTTTATTAATTTTT
1 AATAATTTTA-TAATTTTT
85633308 AATAATTTTA-AATTCTTT
1 AATAATTTTATAATT-TTT
* * *
85633326 TATATCTTTTATAAATTTTA
1 AATA-ATTTTAT-AATTTTT
*
85633346 AATAATTTTGTATATTTTAT
1 AATAATTTTATA-ATTTT-T
*
85633366 AATTATTT
1 AATAATTT
85633374 AAAAAATATT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
17 4 0.08
18 7 0.13
19 25 0.48
20 12 0.23
21 4 0.08
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (18 bp):
AATAATTTTATAATTTTT
Found at i:85633354 original size:10 final size:10
Alignment explanation
Indices: 85633288--85633354 Score: 50
Period size: 10 Copynumber: 7.0 Consensus size: 10
85633278 AGATTTTCAA
85633288 AAATAATTTT
1 AAATAATTTT
*
85633298 -ATTAATTTT
1 AAATAATTTT
*
85633307 TAATAATTTT
1 AAATAATTTT
**
85633317 AAATTCTTTT
1 AAATAATTTT
* *
85633327 ATAT-CTTTT
1 AAATAATTTT
*
85633336 ATA-AATTTT
1 AAATAATTTT
85633345 AAATAATTTT
1 AAATAATTTT
85633355 GTATATTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
9 22 0.48
10 24 0.52
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (10 bp):
AAATAATTTT
Found at i:85634601 original size:32 final size:30
Alignment explanation
Indices: 85634565--85634625 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
85634555 ATATTTAGTA
85634565 ATATTATTTAATATAAAA-CATAAATTAAAATT
1 ATATT-TTT-ATATAAAATCAT-AATTAAAATT
* *
85634597 ATATTTTTTTATAAAATGATAATTAAAAT
1 ATATTTTTATATAAAATCATAATTAAAAT
85634626 ATTAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 16 0.62
31 5 0.19
32 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (30 bp):
ATATTTTTATATAAAATCATAATTAAAATT
Found at i:85634717 original size:35 final size:35
Alignment explanation
Indices: 85634651--85634726 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
85634641 AATAAAATTT
*
85634651 AAATATTTTTAAATTATATCCATAATAAAAT-ATCA
1 AAATATTTTCAAATTATATCCATAATAAAATAAT-A
** *
85634686 AAATATTTTACAAATTATATTTA-AATCAAATAATA
1 AAATATTTT-CAAATTATATCCATAATAAAATAATA
85634721 AAATAT
1 AAATAT
85634727 AAATTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (35 bp):
AAATATTTTCAAATTATATCCATAATAAAATAATA
Found at i:85650553 original size:20 final size:20
Alignment explanation
Indices: 85650528--85650578 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
85650518 GTATCGATCC
85650528 GGTATCAATACT-TTTCTTAA
1 GGTATCAATA-TATTTCTTAA
*
85650548 GGTATCGATATATTTCTTAA
1 GGTATCAATATATTTCTTAA
* *
85650568 TGTATCGATAT
1 GGTATCAATAT
85650579 TCCTACTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (20 bp):
GGTATCAATATATTTCTTAA
Found at i:85651978 original size:18 final size:19
Alignment explanation
Indices: 85651950--85651988 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
85651940 TAAAATATAA
*
85651950 AATTATTTTTTAAATTTTT
1 AATTATTTTTTAAAATTTT
85651969 AATT-TTTTTTAAAATTTT
1 AATTATTTTTTAAAATTTT
85651987 AA
1 AA
85651989 ATTAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTATTTTTTAAAATTTT
Found at i:85651991 original size:19 final size:20
Alignment explanation
Indices: 85651939--85651992 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
85651929 TCCCCGACCC
* *
85651939 TTAAAATATAAAATTATTTT
1 TTAAAATTTTAAATTATTTT
*
85651959 TT-AAATTTTTAATT-TTTT
1 TTAAAATTTTAAATTATTTT
85651977 TTAAAATTTTAAATTA
1 TTAAAATTTTAAATTA
85651993 ATAAAAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 6 0.21
19 20 0.71
20 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAAATTTTAAATTATTTT
Found at i:85657510 original size:3 final size:3
Alignment explanation
Indices: 85657504--85657737 Score: 117
Period size: 3 Copynumber: 78.3 Consensus size: 3
85657494 AAAATACAAC
* * * * *
85657504 AAT AAT AAT AGT AA- AAG ATAT AAT AA- CAT AAT AAT AGT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
85657548 AAT AGT AAC AAT -AT GAC GAT AAT AGT AGA- AAT AAT -AT ATT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT
85657592 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
85657640 AAT GAT GAT -CT ATT AAGT TAT AAT GAA- AAT AAT GAT AAT GAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT
* * * *
85657685 -AT ATT AGAT AAT AAT AGT AA- AAT AAT AAGT AAC AAT AAT AAAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT
85657731 AAT AAT A
1 AAT AAT A
85657738 GTGATGAGAA
Statistics
Matches: 177, Mismatches: 37, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
2 15 0.08
3 146 0.82
4 16 0.09
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85657510 original size:22 final size:22
Alignment explanation
Indices: 85657459--85657519 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
85657449 ATAAGTAAAT
* *
85657459 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
85657480 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
85657502 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
85657520 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:85657557 original size:26 final size:26
Alignment explanation
Indices: 85657475--85657543 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 26
85657465 ATAAAGGAAA
85657475 ATATAATAAC--AATAATAG-AAAA-
1 ATATAATAACATAATAATAGTAAAAG
* *
85657497 ATACAA-CA-ATAATAATAGTAAAAG
1 ATATAATAACATAATAATAGTAAAAG
85657521 ATATAATAACATAATAATAGTAA
1 ATATAATAACATAATAATAGTAA
85657544 TAGTAATAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 1 0.03
22 13 0.35
23 4 0.11
24 5 0.14
25 1 0.03
26 13 0.35
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (26 bp):
ATATAATAACATAATAATAGTAAAAG
Found at i:85657756 original size:16 final size:16
Alignment explanation
Indices: 85657737--85657768 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85657727 TTATAATAAT
85657737 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
85657753 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
85657769 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:85657902 original size:16 final size:15
Alignment explanation
Indices: 85657873--85657915 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
85657863 TATACGTATG
*
85657873 AAAAATAATGATAGT
1 AAAAATAATAATAGT
85657888 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
85657904 AATAATAATAAT
1 AAAAATAATAAT
85657916 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:85658018 original size:3 final size:3
Alignment explanation
Indices: 85658010--85658039 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
85658000 ACACTACCAT
85658010 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85658040 TAGAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.