Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 275 of 328
Found at i:82321277 original size:40 final size:40
Alignment explanation
Indices: 82321232--82321419 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 40
82321222 ATAACCACAA
* * **
82321232 GCACAATTGCCTTCGGGTCTTAACCCGGGTATCGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCAGGTATAACAACTC
82321272 GCACAAATGCCCTTCGGGTCTTAACCCAGGTATAACAACTC
1 GCACAAATG-CCTTCGGGTCTTAACCCAGGTATAACAACTC
* *
82321313 GCACAAATGCC-T----TCTTAGCCCAGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCAGGTATAACAACTC
* * * ** *
82321348 ACACAAATGCCTTCGGGTCTTAGCTC-GGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAACCCAGG-TATAACAACTC
* * * *
82321388 GCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 GCACAAATGCCTTCGGGTCTTAACCCAGGTAT
82321420 CATTCAAATG
Statistics
Matches: 124, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
35 31 0.25
36 1 0.01
39 2 0.02
40 51 0.41
41 39 0.31
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGGTATAACAACTC
Found at i:82321288 original size:41 final size:41
Alignment explanation
Indices: 82321232--82321369 Score: 157
Period size: 41 Copynumber: 3.6 Consensus size: 41
82321222 ATAACCACAA
* * **
82321232 GCACAATTG-CCTTCGGGTCTTAACCCGGGTATCGCAACTC
1 GCACAAATGCCCTTCGGGTCTTAACCCAGGTATAACAACTC
82321272 GCACAAATGCCCTTCGGGTCTTAACCCAGGTATAACAACTC
1 GCACAAATGCCCTTCGGGTCTTAACCCAGGTATAACAACTC
* *
82321313 GCACAAATG-CC-T----TCTTAGCCCAGATATAACAACTC
1 GCACAAATGCCCTTCGGGTCTTAACCCAGGTATAACAACTC
*
82321348 ACACAAATG-CCTTCGGGTCTTA
1 GCACAAATGCCCTTCGGGTCTTA
82321370 GCTCGGATAT
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
35 31 0.36
36 1 0.01
39 1 0.01
40 15 0.18
41 37 0.44
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCCTTCGGGTCTTAACCCAGGTATAACAACTC
Found at i:82321341 original size:35 final size:35
Alignment explanation
Indices: 82321290--82321361 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
82321280 GCCCTTCGGG
* *
82321290 TCTTAACCCAGGTATAACAACTCGCACAAATGCCT
1 TCTTAACCCAGATATAACAACTCACACAAATGCCT
*
82321325 TCTTAGCCCAGATATAACAACTCACACAAATGCCT
1 TCTTAACCCAGATATAACAACTCACACAAATGCCT
82321360 TC
1 TC
82321362 GGGTCTTAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.10, T:0.24
Consensus pattern (35 bp):
TCTTAACCCAGATATAACAACTCACACAAATGCCT
Found at i:82325895 original size:2 final size:2
Alignment explanation
Indices: 82325888--82325935 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
82325878 CTAAGATATC
82325888 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
82325930 CA CA CA
1 CA CA CA
82325936 TATATATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:82325940 original size:2 final size:2
Alignment explanation
Indices: 82325935--82325972 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
82325925 ACACACACAC
82325935 AT AT AT AT AT AT 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 AT AT AT AT AT AT
82325973 TTCTCTACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82329865 original size:30 final size:30
Alignment explanation
Indices: 82329829--82329901 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
82329819 TCTAGAATTA
*
82329829 TGGCCCACATGCTTGTGTGGTTTGCCCGTG
1 TGGCCCACATGCCTGTGTGGTTTGCCCGTG
82329859 TGGCCCACATGCCTGTGTGGTTTGCCCGTG
1 TGGCCCACATGCCTGTGTGGTTTGCCCGTG
82329889 TGGCCCACATGCC
1 TGGCCCACATGCC
82329902 CAAATTGGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.08, C:0.32, G:0.32, T:0.29
Consensus pattern (30 bp):
TGGCCCACATGCCTGTGTGGTTTGCCCGTG
Found at i:82332550 original size:2 final size:2
Alignment explanation
Indices: 82332543--82332571 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
82332533 AAATAATGTT
82332543 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82332572 TTGGTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82336316 original size:13 final size:13
Alignment explanation
Indices: 82336298--82336323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82336288 TTGAAACAAC
82336298 CTATTTAAATAAT
1 CTATTTAAATAAT
82336311 CTATTTAAATAAT
1 CTATTTAAATAAT
82336324 TGTCTAGGCA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
CTATTTAAATAAT
Found at i:82343321 original size:71 final size:71
Alignment explanation
Indices: 82343205--82343351 Score: 267
Period size: 71 Copynumber: 2.1 Consensus size: 71
82343195 AGTACATTAA
* *
82343205 TAATGTGAGGGTTGGTGAACTCAATGGCTTATTGGAAACCTTTAAAATGAACCTTGAAAAACCAA
1 TAATGTAAGGGTTGGTGAACTCAATGGCTCATTGGAAACCTTTAAAATGAACCTTGAAAAACCAA
82343270 GAAAAG
66 GAAAAG
*
82343276 TAATGTAAGGGTTGGTGAACTCATTGGCTCATTGGAAACCTTTAAAATGAACCTTGAAAAACCAA
1 TAATGTAAGGGTTGGTGAACTCAATGGCTCATTGGAAACCTTTAAAATGAACCTTGAAAAACCAA
82343341 GAAAAG
66 GAAAAG
82343347 TAATG
1 TAATG
82343352 ACAAAGTAGA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (71 bp):
TAATGTAAGGGTTGGTGAACTCAATGGCTCATTGGAAACCTTTAAAATGAACCTTGAAAAACCAA
GAAAAG
Found at i:82349009 original size:42 final size:40
Alignment explanation
Indices: 82348963--82349044 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
82348953 CTTGTTCACC
*
82348963 ATAAATGA-ACTTAACAATCTTTATTCATGTTCAGTTTGTTTA
1 ATAAATGAGACTTAA-AATC-TTATTCATGTTCA-TTTATTTA
*
82349005 ATAAATGAGCCTTAAAATCTTATTCATGTTCATTTATTTA
1 ATAAATGAGACTTAAAATCTTATTCATGTTCATTTATTTA
82349045 GCTTGATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 7 0.19
41 13 0.35
42 12 0.32
43 5 0.14
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (40 bp):
ATAAATGAGACTTAAAATCTTATTCATGTTCATTTATTTA
Found at i:82350450 original size:147 final size:147
Alignment explanation
Indices: 82350183--82350477 Score: 563
Period size: 147 Copynumber: 2.0 Consensus size: 147
82350173 TAAGATCTGC
82350183 TAATTTTCCCTGAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
1 TAATTTTCCCTGAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
82350248 GCAATAAGTATAGTTTATTCTTTAAAGTTACCTCTATTCTGCTATCTGACAGTTTCGACCCTTCT
66 GCAATAAGTATAGTTTATTCTTTAAAGTTACCTCTATTCTGCTATCTGACAGTTTCGACCCTTCT
82350313 TCACTAAGAATTAATTA
131 TCACTAAGAATTAATTA
*
82350330 TAATTTTCCCTGAAACTATACTCATATATCTTCTTGCCATAAAATTTTCAGAATTTTTGGTTTAG
1 TAATTTTCCCTGAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
* *
82350395 GCAATAAGTATAGTTTATTCTTTAAATTTACCTCTATTCTGCTATTTGACAGTTTCGACCCTTCT
66 GCAATAAGTATAGTTTATTCTTTAAAGTTACCTCTATTCTGCTATCTGACAGTTTCGACCCTTCT
82350460 TCACTAAGAATTAATTA
131 TCACTAAGAATTAATTA
82350477 T
1 T
82350478 CTCATAGTAC
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 145 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.43
Consensus pattern (147 bp):
TAATTTTCCCTGAAACTATACTCATATATCTTCTTACCATAAAATTTTCAGAATTTTTGGTTTAG
GCAATAAGTATAGTTTATTCTTTAAAGTTACCTCTATTCTGCTATCTGACAGTTTCGACCCTTCT
TCACTAAGAATTAATTA
Found at i:82350839 original size:43 final size:43
Alignment explanation
Indices: 82350778--82350863 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
82350768 TCCTAATTGG
82350778 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* *
82350821 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
82350864 TATTTCTAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:82350909 original size:19 final size:18
Alignment explanation
Indices: 82350887--82350926 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
82350877 TGAATAAAAC
82350887 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
82350906 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
82350924 TTA
1 TTA
82350927 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:82354691 original size:43 final size:43
Alignment explanation
Indices: 82354630--82354715 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
82354620 TCCTAATTGG
82354630 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* *
82354673 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
82354716 TATTTCTAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:82354761 original size:19 final size:18
Alignment explanation
Indices: 82354739--82354778 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
82354729 TGAATAAAAC
82354739 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
82354758 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
82354776 TTA
1 TTA
82354779 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:82359624 original size:47 final size:49
Alignment explanation
Indices: 82359504--82359633 Score: 169
Period size: 48 Copynumber: 2.7 Consensus size: 49
82359494 CTCACAGACT
* * * *
82359504 AAGTGCCAATATCATGGCCCGAAGCCAACTCAAT-ATGTCTCGCACCCG
1 AAGTGCCAATATCATGGCCCTAAGCCAAATCAATGAAGTCTCGCACCCA
* *
82359552 AAGTGCTAATATCATGG-CCTAAAGCCAAATCAATGAAG-CTCGCA-CTA
1 AAGTGCCAATATCATGGCCCT-AAGCCAAATCAATGAAGTCTCGCACCCA
82359599 AAGTGCCAATATCATGGCCCTAAGCCAAATCAATG
1 AAGTGCCAATATCATGGCCCTAAGCCAAATCAATG
82359634 TATTCCCTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
47 33 0.46
48 37 0.51
49 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (49 bp):
AAGTGCCAATATCATGGCCCTAAGCCAAATCAATGAAGTCTCGCACCCA
Found at i:82360342 original size:18 final size:18
Alignment explanation
Indices: 82360319--82360363 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
82360309 TGCAACGATC
82360319 TCAAAAAC-ATAGAAATTA
1 TCAAAAACGAT-GAAATTA
* *
82360337 TCAAAAACGGTGAAATTG
1 TCAAAAACGATGAAATTA
82360355 TCAAAAACG
1 TCAAAAACG
82360364 GGACTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (18 bp):
TCAAAAACGATGAAATTA
Found at i:82360364 original size:18 final size:18
Alignment explanation
Indices: 82360330--82360364 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
82360320 CAAAAACATA
82360330 GAAATTATCAAAAACGGT
1 GAAATTATCAAAAACGGT
*
82360348 GAAATTGTCAAAAACGG
1 GAAATTATCAAAAACGG
82360365 GACTTAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (18 bp):
GAAATTATCAAAAACGGT
Found at i:82362078 original size:15 final size:16
Alignment explanation
Indices: 82362058--82362087 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
82362048 TTAATATCTG
82362058 AAAATAATAA-ATAAT
1 AAAATAATAAGATAAT
82362073 AAAATAATAAGATAA
1 AAAATAATAAGATAA
82362088 AATAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATAATAAGATAAT
Found at i:82362092 original size:21 final size:22
Alignment explanation
Indices: 82362066--82362127 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
82362056 TGAAAATAAT
*
82362066 AAATAATAAAATAAT-AAGATA
1 AAATAATAAAATAATAAAAATA
82362087 AAATAA-AGAAA-AATAAAAATA
1 AAATAATA-AAATAATAAAAATA
82362108 AAATAA-AATAA-AATAAAAAT
1 AAATAATAA-AATAATAAAAAT
82362128 TGGGTTGCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (22 bp):
AAATAATAAAATAATAAAAATA
Found at i:82362126 original size:11 final size:11
Alignment explanation
Indices: 82362063--82362127 Score: 80
Period size: 10 Copynumber: 5.8 Consensus size: 11
82362053 ATCTGAAAAT
82362063 AATAAATAATAA
1 AATAAA-AATAA
82362075 AATAATAAGATAA
1 AATAA-AA-ATAA
*
82362088 AATAAAGA-AA
1 AATAAAAATAA
82362098 AATAAAAATAA
1 AATAAAAATAA
82362109 AAT-AAAATAA
1 AATAAAAATAA
82362119 AATAAAAAT
1 AATAAAAAT
82362128 TGGGTTGCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
10 19 0.40
11 11 0.23
12 7 0.15
13 10 0.21
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:82362127 original size:6 final size:5
Alignment explanation
Indices: 82362070--82362125 Score: 64
Period size: 5 Copynumber: 11.4 Consensus size: 5
82362060 AATAATAAAT
*
82362070 AATAA AAT-- AATAA GATAA AATAA AGA-AA AATAAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA A-ATAA AAT-AA AATAA AATAA AATAA
82362119 AATAA AA
1 AATAA AA
82362126 ATTGGGTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
3 3 0.07
4 1 0.02
5 34 0.77
6 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:82365896 original size:15 final size:15
Alignment explanation
Indices: 82365876--82365905 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82365866 ATAATCCTAA
*
82365876 TAATTATCTTAATAT
1 TAATTATCCTAATAT
82365891 TAATTATCCTAATAT
1 TAATTATCCTAATAT
82365906 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:82366776 original size:5 final size:5
Alignment explanation
Indices: 82366766--82366804 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
82366756 ATAGAAGATA
* *
82366766 TTATT TTATT TTGTT TTATT GT-TT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
82366805 ATTTTAGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:82366793 original size:19 final size:19
Alignment explanation
Indices: 82366764--82366809 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
82366754 AAATAGAAGA
*
82366764 TATTA-TTTTATTTTGTTT
1 TATTATTTTTATTTTATTT
*
82366782 TATTGTTTTTATTTTATTT
1 TATTATTTTTATTTTATTT
82366801 TATTATTTT
1 TATTATTTT
82366810 AGGATTAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (19 bp):
TATTATTTTTATTTTATTT
Found at i:82371897 original size:5 final size:5
Alignment explanation
Indices: 82371887--82371925 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
82371877 ATAGAAGATA
* *
82371887 TTATT TTATT TTGTT TTATT AT-TT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
82371926 ATTTTAGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:82371914 original size:19 final size:19
Alignment explanation
Indices: 82371885--82371930 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
82371875 AAATAGAAGA
*
82371885 TATTA-TTTTATTTTGTTT
1 TATTATTTTTATTTTATTT
82371903 TATTATTTTTATTTTATTT
1 TATTATTTTTATTTTATTT
82371922 TATTATTTT
1 TATTATTTT
82371931 AGGATTAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (19 bp):
TATTATTTTTATTTTATTT
Found at i:82377126 original size:13 final size:13
Alignment explanation
Indices: 82377108--82377137 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
82377098 AGTATGTCAG
82377108 ACTTAATAGCTTT
1 ACTTAATAGCTTT
82377121 ACTTAATAGCTTT
1 ACTTAATAGCTTT
82377134 ACTT
1 ACTT
82377138 GTTAAAGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (13 bp):
ACTTAATAGCTTT
Found at i:82377556 original size:17 final size:17
Alignment explanation
Indices: 82377524--82377558 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
82377514 TTACAAAATT
*
82377524 AAAAATTGTTAATTACA
1 AAAAATTGTGAATTACA
*
82377541 AAAAATTGTGATTTACA
1 AAAAATTGTGAATTACA
82377558 A
1 A
82377559 TCCTAATAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (17 bp):
AAAAATTGTGAATTACA
Found at i:82380699 original size:35 final size:35
Alignment explanation
Indices: 82380653--82380722 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
82380643 TTTTGATCTG
82380653 ATTTGTAATGTTCAAAAGATTCTAACATTCCCCTT
1 ATTTGTAATGTTCAAAAGATTCTAACATTCCCCTT
82380688 ATTTGTAATGTTCAAAAGATTCTAACATTCCCCTT
1 ATTTGTAATGTTCAAAAGATTCTAACATTCCCCTT
82380723 CCTTATATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (35 bp):
ATTTGTAATGTTCAAAAGATTCTAACATTCCCCTT
Found at i:82387165 original size:25 final size:23
Alignment explanation
Indices: 82387137--82387197 Score: 59
Period size: 27 Copynumber: 2.4 Consensus size: 23
82387127 TTGATATTGT
82387137 ATTAAAAAAATAGTTATAATAAAAA
1 ATTAAAAAAAT-GTTATAA-AAAAA
*
82387162 ATTATAATAATTAATGTTTTAAAAAAA
1 ATTA-AA-AA--AATGTTATAAAAAAA
82387189 ATTAAAAAA
1 ATTAAAAAA
82387198 CTATATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
23 1 0.03
25 6 0.19
26 4 0.13
27 11 0.35
28 6 0.19
29 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (23 bp):
ATTAAAAAAATGTTATAAAAAAA
Found at i:82387472 original size:20 final size:22
Alignment explanation
Indices: 82387447--82387492 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
82387437 TCACATTAAT
*
82387447 AAATAATT-TAAAAATT-ATAA
1 AAATAATTCCAAAAATTCATAA
82387467 AAATAATTCCAAAAATTCATAA
1 AAATAATTCCAAAAATTCATAA
82387489 AAAT
1 AAAT
82387493 TAAATGTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 8 0.35
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATAATTCCAAAAATTCATAA
Found at i:82387700 original size:26 final size:24
Alignment explanation
Indices: 82387665--82387725 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 24
82387655 AATAATTTTT
*
82387665 AATT-TAAAAAATAGAAACTTCCAAA
1 AATTATAAAAAA-A-AAGCTTCCAAA
*
82387690 ATTTATGAAAAAAAAAGGCTTCCAAA
1 AATTAT-AAAAAAAAA-GCTTCCAAA
82387716 AATTATAAAA
1 AATTATAAAA
82387726 GAACTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 9 0.30
26 15 0.50
27 6 0.20
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.25
Consensus pattern (24 bp):
AATTATAAAAAAAAAGCTTCCAAA
Found at i:82388552 original size:18 final size:19
Alignment explanation
Indices: 82388526--82388563 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
82388516 AAAGTTGTTT
*
82388526 TTTAATTTTATAT-AATTA
1 TTTAATTTTAGATCAATTA
*
82388544 TTTACTTTTAGATCAATTA
1 TTTAATTTTAGATCAATTA
82388563 T
1 T
82388564 ATATAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTAATTTTAGATCAATTA
Found at i:82391355 original size:8 final size:8
Alignment explanation
Indices: 82391329--82391373 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
82391319 CAAAAGTGTA
*
82391329 CTTGAATT
1 CTTGAAAT
*
82391337 CATTGATAT
1 C-TTGAAAT
*
82391346 CTTGAGAT
1 CTTGAAAT
82391354 CTTGAAAT
1 CTTGAAAT
82391362 CTTGAAAT
1 CTTGAAAT
82391370 CTTG
1 CTTG
82391374 TGGTTTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 26 0.81
9 6 0.19
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (8 bp):
CTTGAAAT
Found at i:82404405 original size:33 final size:33
Alignment explanation
Indices: 82404360--82404427 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
82404350 CATGGCTTGG
*
82404360 GATAGTGTGTCGTCCCCCGCCGATCGACCCTGA
1 GATAGTGCGTCGTCCCCCGCCGATCGACCCTGA
82404393 GATAGTGCGTCGTCCCCCGCCGATCGACCCTGA
1 GATAGTGCGTCGTCCCCCGCCGATCGACCCTGA
82404426 GA
1 GA
82404428 CCTAGTCTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.16, C:0.37, G:0.28, T:0.19
Consensus pattern (33 bp):
GATAGTGCGTCGTCCCCCGCCGATCGACCCTGA
Found at i:82413063 original size:12 final size:12
Alignment explanation
Indices: 82413046--82413465 Score: 120
Period size: 12 Copynumber: 35.2 Consensus size: 12
82413036 TTGTTTTTTA
82413046 TATTATTACTAT
1 TATTATTACTAT
82413058 TATTATTA-TACT
1 TATTATTACTA-T
82413070 TATATATTTA-TAT
1 TAT-TA-TTACTAT
82413083 ATATTTATT--TAT
1 -TA-TTATTACTAT
82413095 T-TTATT-CTAT
1 TATTATTACTAT
*
82413105 TATCATTACTAT
1 TATTATTACTAT
*
82413117 TACTACTT-CTAT
1 TATTA-TTACTAT
*
82413129 TATTATTATTAT
1 TATTATTACTAT
*
82413141 T-TTGTTACTAT
1 TATTATTACTAT
82413152 TATTATT--T-T
1 TATTATTACTAT
*
82413161 TCA-TA-CAC-AT
1 T-ATTATTACTAT
*
82413171 ATATTATTA-TTT
1 -TATTATTACTAT
82413183 ATATTATTACTAT
1 -TATTATTACTAT
* *** **
82413196 TACTAACGCCCT
1 TATTATTACTAT
*
82413208 TATTATTGCTAT
1 TATTATTACTAT
* * *
82413220 CATTATTCCTTT
1 TATTATTACTAT
*
82413232 TACTATTACTAT
1 TATTATTACTAT
82413244 TATTATTACTAT
1 TATTATTACTAT
*
82413256 TATTACTATCT-T
1 TATTATTA-CTAT
82413268 T-TTATT-CTTAT
1 TATTATTAC-TAT
* *
82413279 TTTTATTAATAT
1 TATTATTACTAT
82413291 TATTATTA-TAATCT
1 TATTATTACT-A--T
*
82413305 TACTTTGTTACTAT
1 TA--TTATTACTAT
* * *
82413319 TATCCTTTTTCAAAT
1 TAT--TATTAC-TAT
*
82413334 TATTGTTACTAT
1 TATTATTACTAT
* *
82413346 TATTCTTTTACCA-
1 TA-T-TATTACTAT
*
82413359 T-TTAATAC-AT
1 TATTATTACTAT
*
82413369 TATTATTAATAT
1 TATTATTACTAT
* *
82413381 T-TTCGTTATTAT
1 TATT-ATTACTAT
*
82413393 TATTATCACTATT
1 TATTATTACTA-T
82413406 GTATTATT--TAT
1 -TATTATTACTAT
82413417 TATTATTA-T-T
1 TATTATTACTAT
*
82413427 TATTATTATTAT
1 TATTATTACTAT
*
82413439 TATTATTATTAT
1 TATTATTACTAT
*
82413451 TATTATTATTAT
1 TATTATTACTAT
82413463 TAT
1 TAT
82413466 ATTTTCTTTT
Statistics
Matches: 308, Mismatches: 54, Indels: 92
0.68 0.12 0.20
Matches are distributed among these distances:
9 11 0.04
10 30 0.10
11 39 0.13
12 164 0.53
13 20 0.06
14 31 0.10
15 6 0.02
16 6 0.02
17 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:82413135 original size:44 final size:44
Alignment explanation
Indices: 82413042--82413197 Score: 109
Period size: 46 Copynumber: 3.4 Consensus size: 44
82413032 TTTGTTGTTT
* * * * **
82413042 TTTATATTATTACTATTATTATTATACTTATATATTTATATATATTTA
1 TTTATTTTATTACTATTATCA-T-TACTCATACACATATAT-TA-TTA
* *
82413090 TTTATTTTATT-CTATTATCATTACT-ATTACTACTTCTATTATTA
1 TTTATTTTATTACTATTATCATTACTCA-TAC-ACATATATTATTA
* * **
82413134 TTATTATTTTGTTACTATTATTATTTTTCATACACATATATTATTA
1 -T-TTATTTTATTACTATTATCATTACTCATACACATATATTATTA
*
82413180 TTTATATTATTACTATTA
1 TTTATTTTATTACTATTA
82413198 CTAACGCCCT
Statistics
Matches: 89, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
44 19 0.21
45 10 0.11
46 27 0.30
47 22 0.25
48 11 0.12
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (44 bp):
TTTATTTTATTACTATTATCATTACTCATACACATATATTATTA
Found at i:82413256 original size:9 final size:9
Alignment explanation
Indices: 82413231--82413264 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
82413221 ATTATTCCTT
82413231 TTACTATTA
1 TTACTATTA
* *
82413240 CTATTATTA
1 TTACTATTA
82413249 TTACTATTA
1 TTACTATTA
82413258 TTACTAT
1 TTACTAT
82413265 CTTTTTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (9 bp):
TTACTATTA
Found at i:82413299 original size:6 final size:6
Alignment explanation
Indices: 82413235--82413299 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
82413225 TTCCTTTTAC
* * * * *
82413235 TATTAC TATTAT TATTAC TATTAT TACTAT CT-TT-T TATTCT TATTTT
1 TATTAT TATTAT TATTAT TATTAT TATTAT -TATTAT TATTAT TATTAT
*
82413282 TATTAA TATTAT TATTAT
1 TATTAT TATTAT TATTAT
82413300 AATCTTACTT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
4 1 0.02
5 3 0.06
6 42 0.89
7 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (6 bp):
TATTAT
Found at i:82413375 original size:3 final size:3
Alignment explanation
Indices: 82413367--82413465 Score: 112
Period size: 3 Copynumber: 32.7 Consensus size: 3
82413357 CATTTAATAC
* * * * *
82413367 ATT ATT ATT AAT ATT -TT CGTT ATT ATT ATT ATC ACT ATT -GT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
82413411 ATTT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
82413458 ATT ATT AT
1 ATT ATT AT
82413466 ATTTTCTTTT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
2 3 0.04
3 71 0.87
4 8 0.10
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:82413652 original size:3 final size:3
Alignment explanation
Indices: 82413631--82413860 Score: 103
Period size: 3 Copynumber: 76.0 Consensus size: 3
82413621 TAAACTTTAG
* * **
82413631 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ACT ATT -TGT ATTT ACC ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT AT-T A-TT ATT ATT
* * * * *
82413678 ATT ATT ACT ATT ATT TTT ACTT -TT ATT ACT ATT ACT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
82413723 -TT TTT ATT TTCT ATT ACT ATT ATC ATT ATT ATT GA-T ACT AAT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * * *
82413768 AAT ATT CTT ATT ATT ACTT -TT ATT ATT ATC ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * * **
82413813 TTT ACT ACC ACT ATT ATT ATT ATC AAC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
82413861 TTCATCATCA
Statistics
Matches: 168, Mismatches: 45, Indels: 28
0.70 0.19 0.12
Matches are distributed among these distances:
2 9 0.05
3 145 0.86
4 13 0.08
5 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:82415367 original size:20 final size:20
Alignment explanation
Indices: 82415336--82415376 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
82415326 TTTTGAACAT
*
82415336 AAATAGTAAAATGAATATAAA
1 AAATAGTAAAAT-AAAATAAA
82415357 AAATA-TAAAATAAAATAAA
1 AAATAGTAAAATAAAATAAA
82415376 A
1 A
82415377 TATTTTTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (20 bp):
AAATAGTAAAATAAAATAAA
Found at i:82415376 original size:10 final size:10
Alignment explanation
Indices: 82415337--82415378 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
82415327 TTTGAACATA
82415337 AATAGTAAAAT
1 AATA-TAAAAT
82415348 GAATATAAAA-
1 -AATATAAAAT
82415358 AATATAAAAT
1 AATATAAAAT
*
82415368 AAAATAAAAT
1 AATATAAAAT
82415378 A
1 A
82415379 TTTTTACGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 9 0.32
10 10 0.36
11 5 0.18
12 4 0.14
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (10 bp):
AATATAAAAT
Found at i:82415432 original size:2 final size:2
Alignment explanation
Indices: 82415425--82415458 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
82415415 GGTACTCTTT
82415425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82415459 ACATTTGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82425174 original size:13 final size:13
Alignment explanation
Indices: 82425158--82425207 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
82425148 AGAAATTAAT
82425158 TTAGTTAATTTGA
1 TTAGTTAATTTGA
* *
82425171 TTAGTTAAATTAA
1 TTAGTTAATTTGA
82425184 TTTAGTTAATTTGA
1 -TTAGTTAATTTGA
*
82425198 TTAATTAATT
1 TTAGTTAATT
82425208 AAATTAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 20 0.65
14 11 0.35
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (13 bp):
TTAGTTAATTTGA
Found at i:82425181 original size:27 final size:27
Alignment explanation
Indices: 82425150--82425220 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
82425140 TTTAATTGAG
*
82425150 AAATTAATTTAGTTAATTTGATTAGTT
1 AAATTAATTTAGTTAATTTGATTAATT
82425177 AAATTAATTTAGTTAATTTGATTAATT
1 AAATTAATTTAGTTAATTTGATTAATT
* *
82425204 -AATTAAATTAATTAATT
1 AAATTAATTTAGTTAATT
82425221 AATATTTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 15 0.37
27 26 0.63
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (27 bp):
AAATTAATTTAGTTAATTTGATTAATT
Found at i:82425188 original size:14 final size:14
Alignment explanation
Indices: 82425150--82425192 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
82425140 TTTAATTGAG
82425150 AAATTAATTTAGTT
1 AAATTAATTTAGTT
* *
82425164 AATTTGA-TTAGTT
1 AAATTAATTTAGTT
82425177 AAATTAATTTAGTT
1 AAATTAATTTAGTT
82425191 AA
1 AA
82425193 TTTGATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (14 bp):
AAATTAATTTAGTT
Found at i:82425213 original size:13 final size:13
Alignment explanation
Indices: 82425178--82425222 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
82425168 TGATTAGTTA
* *
82425178 AATTAATTTAGTT
1 AATTAAATTAATT
**
82425191 AATTTGATTAATT
1 AATTAAATTAATT
82425204 AATTAAATTAATT
1 AATTAAATTAATT
82425217 AATTAA
1 AATTAA
82425223 TATTTATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (13 bp):
AATTAAATTAATT
Found at i:82427303 original size:18 final size:18
Alignment explanation
Indices: 82427280--82427321 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
82427270 AATAAATATA
82427280 TTTTTTCGATTTTCTTCTT
1 TTTTTTCG-TTTTCTTCTT
* *
82427299 TTTTTTTGTTTTTTTCTT
1 TTTTTTCGTTTTCTTCTT
82427317 TTTTT
1 TTTTT
82427322 ATCACAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (18 bp):
TTTTTTCGTTTTCTTCTT
Found at i:82428295 original size:31 final size:29
Alignment explanation
Indices: 82428247--82428315 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
82428237 TGAAGAAAAT
* *
82428247 AAATAATAAAAAAATAAAGCATCTAAACCA
1 AAATAA-AAAAAAATAAAGAAACTAAACCA
*
82428277 AAATTAAAAAAAAGATAAATAAACTAAACCA
1 AAA-TAAAAAAAA-ATAAAGAAACTAAACCA
82428308 AAATAAAA
1 AAATAAAA
82428316 TAATAAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.71, C:0.10, G:0.03, T:0.16
Consensus pattern (29 bp):
AAATAAAAAAAAATAAAGAAACTAAACCA
Found at i:82428327 original size:18 final size:19
Alignment explanation
Indices: 82428301--82428341 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
82428291 ATAAATAAAC
*
82428301 TAAACCAAAATAA-AATAA
1 TAAAACAAAATAATAATAA
82428319 TAAAACAAAATAATAATAA
1 TAAAACAAAATAATAATAA
82428338 TAAA
1 TAAA
82428342 CTCAATGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAAACAAAATAATAATAA
Found at i:82428438 original size:26 final size:26
Alignment explanation
Indices: 82428409--82428458 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
82428399 AAAAATAGAA
*
82428409 ATAGCAAAAAAAAATTAAATATAAGT
1 ATAGCAAAAAAAAATTAAAAATAAGT
* * *
82428435 ATAGGAATAATAAATTAAAAATAA
1 ATAGCAAAAAAAAATTAAAAATAA
82428459 AATAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (26 bp):
ATAGCAAAAAAAAATTAAAAATAAGT
Found at i:82428467 original size:10 final size:10
Alignment explanation
Indices: 82428452--82428529 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 10
82428442 TAATAAATTA
82428452 AAAATAAAAT
1 AAAATAAAAT
*
82428462 AAAATAATTAGT
1 AAAATAA--AAT
82428474 AAAATAATAAT
1 AAAATAA-AAT
*
82428485 -AAATAATAT
1 AAAATAAAAT
82428494 AATAAATAATAAT
1 -A-AAATAA-AAT
* *
82428507 -AATTAGAAT
1 AAAATAAAAT
82428516 AAAATAAAAT
1 AAAATAAAAT
82428526 AAAA
1 AAAA
82428530 ATGGGGTGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
9 5 0.09
10 28 0.53
11 3 0.06
12 15 0.28
13 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:82428479 original size:22 final size:22
Alignment explanation
Indices: 82428452--82428529 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
82428442 TAATAAATTA
82428452 AAAATAAAATAAAATAATTAGT
1 AAAATAAAATAAAATAATTAGT
82428474 AAAATAATAAT-AAATAA-TA-T
1 AAAATAA-AATAAAATAATTAGT
82428494 --AAT-AAATAATAATAATTAGAAT
1 AAAATAAAATAA-AATAATTAG--T
82428516 AAAATAAAATAAAA
1 AAAATAAAATAAAA
82428530 ATGGGGTGGC
Statistics
Matches: 46, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
16 3 0.07
17 2 0.04
18 8 0.17
19 2 0.04
20 1 0.02
21 2 0.04
22 14 0.30
23 3 0.07
24 5 0.11
25 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.27
Consensus pattern (22 bp):
AAAATAAAATAAAATAATTAGT
Found at i:82428484 original size:3 final size:3
Alignment explanation
Indices: 82428440--82428527 Score: 55
Period size: 3 Copynumber: 30.7 Consensus size: 3
82428430 TAAGTATAGG
* * *
82428440 AAT AAT AA- ATT AAA AAT AA- AAT AA- AAT AATT AGT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* *
82428482 AAT AAAT AAT -AT AAT AAAT AAT AAT AAT TAG AAT AA- AAT AA- AAT
1 AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
82428526 AA
1 AA
82428528 AAATGGGGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
2 13 0.20
3 44 0.68
4 8 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:82428495 original size:12 final size:13
Alignment explanation
Indices: 82428476--82428522 Score: 62
Period size: 12 Copynumber: 3.6 Consensus size: 13
82428466 TAATTAGTAA
82428476 AATAATAATAAAT
1 AATAATAATAAAT
82428489 AAT-ATAATAAAT
1 AATAATAATAAAT
82428501 AATAATAATTAGAAT
1 AATAATAA-TA-AAT
82428516 AA-AATAA
1 AATAATAA
82428523 AATAAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.39
13 7 0.23
14 7 0.23
15 5 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:82434806 original size:5 final size:6
Alignment explanation
Indices: 82434767--82434805 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
82434757 AAAAAAGTAG
* * *
82434767 AAAATA AGAATT AAACTA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
82434806 TGCAATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:82437710 original size:18 final size:18
Alignment explanation
Indices: 82437687--82437721 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
82437677 AGAAATAGTT
*
82437687 GCAAAATAATACATAAAA
1 GCAAAACAATACATAAAA
82437705 GCAAAACAATACATAAA
1 GCAAAACAATACATAAA
82437722 TGCTCAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (18 bp):
GCAAAACAATACATAAAA
Found at i:82438633 original size:12 final size:13
Alignment explanation
Indices: 82438616--82438644 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
82438606 CTATTCTTTT
82438616 TTTGTTTGTTTG-
1 TTTGTTTGTTTGA
82438628 TTTGTTTGTTTGA
1 TTTGTTTGTTTGA
82438641 TTTG
1 TTTG
82438645 ATACTTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.03, C:0.00, G:0.24, T:0.72
Consensus pattern (13 bp):
TTTGTTTGTTTGA
Found at i:82442345 original size:22 final size:23
Alignment explanation
Indices: 82442321--82442364 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
82442311 TAAAATTAAA
82442321 AAAAAT-ATTTTTATA-ATTTTT
1 AAAAATAATTTTTATATATTTTT
82442342 AAAAATAATTTTTATATATTTTT
1 AAAAATAATTTTTATATATTTTT
82442365 TAAATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AAAAATAATTTTTATATATTTTT
Found at i:82442359 original size:24 final size:24
Alignment explanation
Indices: 82442316--82442368 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
82442306 ATTTTTAAAA
82442316 TTAAAAAAAATATTTTTATAATTT
1 TTAAAAAAAATATTTTTATAATTT
* *
82442340 TTAAAAATAAT-TTTTATATATTTT
1 TTAAAAAAAATATTTT-TATAATTT
82442364 TTAAA
1 TTAAA
82442369 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAAAAAAATATTTTTATAATTT
Found at i:82445545 original size:2 final size:2
Alignment explanation
Indices: 82445538--82445581 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
82445528 CACTTTTTAA
82445538 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
82445580 AT
1 AT
82445582 TTGATGCCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82448318 original size:25 final size:24
Alignment explanation
Indices: 82448280--82448330 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
82448270 CTAGGCAGGA
*
82448280 TACCCATAGACAACCGACAATCTC
1 TACCCAGAGACAACCGACAATCTC
*
82448304 TACCCAGACGACAACCGACAGTCTC
1 TACCCAGA-GACAACCGACAATCTC
82448329 TA
1 TA
82448331 TCACCCGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.35, C:0.37, G:0.12, T:0.16
Consensus pattern (24 bp):
TACCCAGAGACAACCGACAATCTC
Found at i:82449939 original size:22 final size:19
Alignment explanation
Indices: 82449913--82449956 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
82449903 GACGTTAATT
82449913 TAATCTAAAATCAATTAAACAA
1 TAATCTAAAA--AATTAAA-AA
82449935 TAATCTAAAAAATTAAAAA
1 TAATCTAAAAAATTAAAAA
82449954 TAA
1 TAA
82449957 ATAAATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
22 10 0.45
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (19 bp):
TAATCTAAAAAATTAAAAA
Found at i:82450550 original size:30 final size:30
Alignment explanation
Indices: 82450516--82450577 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
82450506 ACTTATTTTA
82450516 TTGTTAATTTTGTTATTATTTTAAAAACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
* *
82450546 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
82450576 TT
1 TT
82450578 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAACAT
Found at i:82454138 original size:28 final size:28
Alignment explanation
Indices: 82454093--82454161 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
82454083 CTTAAAACCC
*
82454093 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
82454120 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
82454148 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
82454162 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:82455989 original size:19 final size:18
Alignment explanation
Indices: 82455952--82455995 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
82455942 ATACATACAG
82455952 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
82455969 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
82455988 TACTAATT
1 TAATAATT
82455996 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:82457145 original size:17 final size:18
Alignment explanation
Indices: 82457113--82457153 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
82457103 TTAACAAATA
82457113 GAAAAACTTGAACATTTC
1 GAAAAACTTGAACATTTC
*
82457131 GAAAAACTT-ACCATTTC
1 GAAAAACTTGAACATTTC
*
82457148 CAAAAA
1 GAAAAA
82457154 TACCCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (18 bp):
GAAAAACTTGAACATTTC
Found at i:82458418 original size:28 final size:28
Alignment explanation
Indices: 82458373--82458441 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
82458363 CTTAAAACCC
*
82458373 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
82458400 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
82458428 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
82458442 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:82460272 original size:19 final size:18
Alignment explanation
Indices: 82460235--82460278 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
82460225 ATACATACAG
82460235 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
82460252 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
82460271 TACTAATT
1 TAATAATT
82460279 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:82469621 original size:59 final size:60
Alignment explanation
Indices: 82469550--82469666 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 60
82469540 ATCACTTTAA
* * * * *
82469550 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGATTATATTTAATATTAAATGT
1 TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATGT
* *
82469609 TATTAAAATAATAGAATGTTTATCTTGTAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC-T-AAGATAAACATTAAATTAAATTTAATATTAA
82469667 GATAATTACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.44
62 27 0.56
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATGT
Found at i:82471504 original size:29 final size:28
Alignment explanation
Indices: 82471470--82471571 Score: 134
Period size: 29 Copynumber: 3.5 Consensus size: 28
82471460 AATCGATCAT
*
82471470 GCACACTTAGTGCCATGTGATTTAAGCTC
1 GCACACTTAGTGCCAT-TAATTTAAGCTC
*
82471499 GCACACATAGTGCCATATAATTTAAGCTC
1 GCACACTTAGTGCCAT-TAATTTAAGCTC
*
82471528 GCACACTTAGTGCCA-TACATTTCAAGCTT
1 GCACACTTAGTGCCATTA-ATTT-AAGCTC
82471557 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
82471572 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 60 0.91
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (28 bp):
GCACACTTAGTGCCATTAATTTAAGCTC
Found at i:82477502 original size:2 final size:2
Alignment explanation
Indices: 82477495--82477526 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
82477485 CAATTTTATG
82477495 AT AT AT 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 AT AT AT
82477527 GTGTGTGTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82480448 original size:5 final size:5
Alignment explanation
Indices: 82480433--82480490 Score: 70
Period size: 5 Copynumber: 12.2 Consensus size: 5
82480423 TGCTAAAATA
*
82480433 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT TGAA- T-AAT T--AT TGATT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
82480480 TGAAT TGAAT T
1 TGAAT TGAAT T
82480491 TATTCATTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
3 5 0.11
4 2 0.04
5 36 0.77
6 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (5 bp):
TGAAT
Found at i:82480462 original size:26 final size:26
Alignment explanation
Indices: 82480433--82480491 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
82480423 TGCTAAAATA
82480433 TGAATTTGAAT-TGAATTGAATTGAAT
1 TGAATTTGAATAT-AATTGAATTGAAT
* *
82480459 TGAA-TTGAATAATTATTGATTTGAAT
1 TGAATTTGAAT-ATAATTGAATTGAAT
82480485 TGAATTT
1 TGAATTT
82480492 ATTCATTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.68
27 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (26 bp):
TGAATTTGAATATAATTGAATTGAAT
Found at i:82487841 original size:29 final size:30
Alignment explanation
Indices: 82487804--82487872 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
82487794 TAGATACACA
*
82487804 AACCTTATATGTGCGAACCC-GTAGATGCG
1 AACCCTATATGTGCGAACCCTGTAGATGCG
* * *
82487833 AACCCTATATGTGTGAACCCTTTATATGCG
1 AACCCTATATGTGCGAACCCTGTAGATGCG
82487863 AACCCTATAT
1 AACCCTATAT
82487873 ACGTGAGCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (30 bp):
AACCCTATATGTGCGAACCCTGTAGATGCG
Found at i:82487852 original size:15 final size:15
Alignment explanation
Indices: 82487804--82487974 Score: 87
Period size: 15 Copynumber: 11.3 Consensus size: 15
82487794 TAGATACACA
*
82487804 AACCTTATATGTGCG
1 AACCCTATATGTGCG
*
82487819 AACCC-GTA-GATGCG
1 AACCCTATATG-TGCG
*
82487833 AACCCTATATGTGTG
1 AACCCTATATGTGCG
* *
82487848 AACCCTTTATATGCG
1 AACCCTATATGTGCG
*
82487863 AACCCTATATACGTGAG
1 AACCCTATAT--GTGCG
* * **
82487880 CAGATCCTACATGTATG
1 -A-ACCCTATATGTGCG
* *
82487897 AGCCCTAGATGTGCG
1 AACCCTATATGTGCG
* *
82487912 AACCCTTTATGTGCA
1 AACCCTATATGTGCG
* * *
82487927 AACTC-ATATATACG
1 AACCCTATATGTGCG
* *
82487941 AACCCTATGTGTGTG
1 AACCCTATATGTGCG
* *
82487956 AACCTTATATGTGCA
1 AACCCTATATGTGCG
82487971 AACC
1 AACC
82487975 TTAAATATGA
Statistics
Matches: 111, Mismatches: 37, Indels: 16
0.68 0.23 0.10
Matches are distributed among these distances:
13 1 0.01
14 20 0.18
15 74 0.67
16 2 0.02
17 6 0.05
18 1 0.01
19 7 0.06
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (15 bp):
AACCCTATATGTGCG
Found at i:82490386 original size:13 final size:13
Alignment explanation
Indices: 82490368--82490393 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82490358 ATGTCTCTGA
82490368 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
82490381 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
82490394 CAATGGAGGA
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:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:82492078 original size:41 final size:41
Alignment explanation
Indices: 82492005--82492086 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
82491995 AAACATAAAA
* * * * **
82492005 CAAAGATAAATTTATTTAATTAAAGTTGAAAAG-TACAAATC
1 CAAAAATAAATTTATCTAAGTAAAATCCAAAAGCTA-AAATC
82492046 CAAAAATAAATTTATCTAAGTAAAATCCAAAAGCTAAAATC
1 CAAAAATAAATTTATCTAAGTAAAATCCAAAAGCTAAAATC
82492087 TGAAAAACAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (41 bp):
CAAAAATAAATTTATCTAAGTAAAATCCAAAAGCTAAAATC
Found at i:82492568 original size:7 final size:7
Alignment explanation
Indices: 82492558--82492589 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
82492548 GGATTTTGGG
82492558 TTTTGAT
1 TTTTGAT
82492565 TTTTGAT
1 TTTTGAT
82492572 TTTTGAT
1 TTTTGAT
82492579 TTTTGAT
1 TTTTGAT
82492586 TTTT
1 TTTT
82492590 CTTTGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (7 bp):
TTTTGAT
Found at i:82501469 original size:3 final size:3
Alignment explanation
Indices: 82501461--82501485 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
82501451 AATATTTAGG
82501461 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
82501486 GTATTCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:82507795 original size:15 final size:15
Alignment explanation
Indices: 82507775--82507805 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
82507765 TCTTGTGTTT
*
82507775 AGTTGAATGGAATAG
1 AGTTGAATAGAATAG
82507790 AGTTGAATAGAATAG
1 AGTTGAATAGAATAG
82507805 A
1 A
82507806 TATTGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (15 bp):
AGTTGAATAGAATAG
Found at i:82508060 original size:58 final size:58
Alignment explanation
Indices: 82507894--82508072 Score: 152
Period size: 58 Copynumber: 3.1 Consensus size: 58
82507884 TGTTGTTATT
* * * * * * * *
82507894 AAATTTTAATAAAATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATC
1 AAATTTTAATATAATCATTATTAAATACAATTT-A-AAAAAT-ATAATATATAATTTAATA
* *
82507955 ATATTTTAATATAATTATTATTAAATACAATTTAATAAAATAT--TATATAATTTAATA
1 AAATTTTAATATAATCATTATTAAATACAATTTAA-AAAATATAATATATAATTTAATA
* *
82508012 AAATTCTTAATATAATCATTATTATAT-GAA-TTAAAAAATCATAATATATAATATT-ATA
1 AAATT-TTAATATAATCATTATTAAATACAATTTAAAAAAT-ATAATATATAAT-TTAATA
82508070 AAA
1 AAA
82508073 ATAATATATA
Statistics
Matches: 100, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
55 5 0.05
56 6 0.06
57 18 0.18
58 33 0.33
59 4 0.04
60 6 0.06
61 28 0.28
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (58 bp):
AAATTTTAATATAATCATTATTAAATACAATTTAAAAAATATAATATATAATTTAATA
Found at i:82508067 original size:23 final size:21
Alignment explanation
Indices: 82508041--82508084 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
82508031 TATTATATGA
82508041 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
82508064 ATTATAAAAATAATATATAAT
1 ATTAAAAAAATAATATATAAT
82508085 CTACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:82510484 original size:22 final size:23
Alignment explanation
Indices: 82510457--82510499 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
82510447 AGCTGGTCAT
82510457 AAAACAA-CCAAAACCCAAATAA
1 AAAACAATCCAAAACCCAAATAA
* *
82510479 AAAACAATCCGAACCCCAAAT
1 AAAACAATCCAAAACCCAAAT
82510500 TGGCAAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.60, C:0.30, G:0.02, T:0.07
Consensus pattern (23 bp):
AAAACAATCCAAAACCCAAATAA
Found at i:82518124 original size:16 final size:17
Alignment explanation
Indices: 82518090--82518129 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
82518080 ACTTAGCATG
*
82518090 TCTAATAACCATTATAA
1 TCTAATAACCATTACAA
82518107 TCTAATAA-CATTACAA
1 TCTAATAACCATTACAA
*
82518123 TCCAATA
1 TCTAATA
82518130 CAACTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (17 bp):
TCTAATAACCATTACAA
Found at i:82518702 original size:22 final size:22
Alignment explanation
Indices: 82518653--82518716 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
82518643 AAAAGTCAAA
**
82518653 TTACAGGGAGAAGAAAATTTGAC
1 TTACAGGGAGAA-AAAATTAAAC
82518676 TTACAGGGAGGAAAAAATTAAAC
1 TTACAGGGA-GAAAAAATTAAAC
* *
82518699 -TACATGGACAAAAAATTA
1 TTACAGGGAGAAAAAATTA
82518717 GAATTATAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.25
22 7 0.19
23 17 0.47
24 3 0.08
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (22 bp):
TTACAGGGAGAAAAAATTAAAC
Found at i:82518728 original size:44 final size:43
Alignment explanation
Indices: 82518617--82518757 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 43
82518607 TACATAAACT
* * *
82518617 AAAAATATTGAATTATAGGGACAAAAAAAAGTCAAATTACAGGGAG
1 AAAAA-ATTGAATTATAGGGA-AAAAAAAA-TTAAATTACATGGAC
* * ** *
82518663 AAGAAAATTTGACTTACAGGGAGGAAAAAATTAAACTACATGGAC
1 AA-AAAA-TTGAATTATAGGGAAAAAAAAATTAAATTACATGGAC
** * *
82518708 AAAAAATTAGAATTATAGGGACCAAAAATTTAAATTATATGGAC
1 AAAAAATT-GAATTATAGGGAAAAAAAAATTAAATTACATGGAC
82518752 AAAAAA
1 AAAAAA
82518758 AAAGACGAAA
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
43 2 0.03
44 38 0.49
45 13 0.17
46 9 0.12
47 15 0.19
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (43 bp):
AAAAAATTGAATTATAGGGAAAAAAAAATTAAATTACATGGAC
Found at i:82518733 original size:23 final size:22
Alignment explanation
Indices: 82518617--82518758 Score: 88
Period size: 22 Copynumber: 6.3 Consensus size: 22
82518607 TACATAAACT
* * *
82518617 AAAAATATTGAATTATAGGGAC
1 AAAAAAATTAAATTACAGGGAC
* *
82518639 AAAAAAAAGTCAAATTACAGGGAG
1 -AAAAAAA-TTAAATTACAGGGAC
* * * *
82518663 AAGAAAATTTGACTTACAGGGAG
1 AA-AAAAATTAAATTACAGGGAC
* * *
82518686 GAAAAAATTAAACTACATGGAC
1 AAAAAAATTAAATTACAGGGAC
*
82518708 -AAAAAATTAGAATTATAGGGAC
1 AAAAAAATTA-AATTACAGGGAC
* * * *
82518730 CAAAAATTTAAATTATATGGAC
1 AAAAAAATTAAATTACAGGGAC
82518752 AAAAAAA
1 AAAAAAA
82518759 AAGACGAAAT
Statistics
Matches: 92, Mismatches: 23, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
21 9 0.10
22 39 0.42
23 29 0.32
24 15 0.16
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (22 bp):
AAAAAAATTAAATTACAGGGAC
Found at i:82522092 original size:40 final size:41
Alignment explanation
Indices: 82522070--82522206 Score: 240
Period size: 41 Copynumber: 3.4 Consensus size: 41
82522060 CGTTTTACAA
*
82522070 AAAACGCCGCTAAAAACC-GAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGACCATTAGCGGCGCTTTTGGT
82522110 AAAACGCCGCTAAAAACCAGACCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGACCATTAGCGGCGCTTTTGGT
82522151 AAAACGCCGCTAAAAACCAGACCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGACCATTAGCGGCGCTTTTGGT
* *
82522192 AAAACACCGTTAAAA
1 AAAACGCCGCTAAAA
82522207 GTCATATAAC
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 18 0.19
41 75 0.81
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGACCATTAGCGGCGCTTTTGGT
Found at i:82522386 original size:14 final size:14
Alignment explanation
Indices: 82522364--82522408 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
82522354 TTAATTATCA
*
82522364 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
82522378 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
82522392 ATATGGTTTACGGT
1 TTATGGTTTAAGGT
82522406 TTA
1 TTA
82522409 AGCAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:82522399 original size:21 final size:21
Alignment explanation
Indices: 82522375--82522459 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
82522365 TATAGTTTAA
82522375 GGTTTATGGTTTAAGATATAT
1 GGTTTATGGTTTAAGATATAT
* *
82522396 GGTTTACGGTTTAAGCAGGTTTAT
1 GGTTTATGGTTTAAG-A--TATAT
82522420 GAGTTAACTATGGTTTAAGATATAT
1 G-GTT---TATGGTTTAAGATATAT
* *
82522445 AGTTTAGGGTTTAAG
1 GGTTTATGGTTTAAG
82522460 GTTTAAGAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 24 0.47
22 1 0.02
24 8 0.16
25 7 0.14
27 1 0.02
28 10 0.20
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (21 bp):
GGTTTATGGTTTAAGATATAT
Found at i:82522437 original size:49 final size:46
Alignment explanation
Indices: 82522379--82522474 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 46
82522369 GTTTAAGGTT
* *
82522379 TATGGTTTAAGATATATGGTTTACGGTTTAAGCAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATAGTTTACGGTTT-A--AGGTTTAAGAGTTAAC
*
82522428 TATGGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAAGAGTTAAC
1 TATGGTTTAAGATATATAGTTTACGGTTTAAGGTTTAAGAGTTAAC
82522474 T
1 T
82522475 TGTATTTGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 16 0.36
48 1 0.02
49 27 0.61
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.42
Consensus pattern (46 bp):
TATGGTTTAAGATATATAGTTTACGGTTTAAGGTTTAAGAGTTAAC
Found at i:82522524 original size:14 final size:15
Alignment explanation
Indices: 82522497--82522525 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
82522487 TTTGTGATGA
82522497 ATTATGATTTTAGGG
1 ATTATGATTTTAGGG
82522512 ATTATGA-TTTAGGG
1 ATTATGATTTTAGGG
82522526 TTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (15 bp):
ATTATGATTTTAGGG
Found at i:82523392 original size:16 final size:16
Alignment explanation
Indices: 82523371--82523414 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
82523361 TTCTTTTTTT
82523371 TATAAATTTAAAAAAA
1 TATAAATTTAAAAAAA
* *
82523387 TATAAATTTAAAATAT
1 TATAAATTTAAAAAAA
*
82523403 TATAAATATAAA
1 TATAAATTTAAA
82523415 TTTAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATAAATTTAAAAAAA
Found at i:82527956 original size:43 final size:43
Alignment explanation
Indices: 82527887--82527989 Score: 111
Period size: 43 Copynumber: 2.4 Consensus size: 43
82527877 AATAATTTTT
* * *
82527887 TAAAAGGTCAT-ATCTTTAGCGGCGTTTTTAGG-AAAAGCGCCGC
1 TAAAA-GTCATGACCTTTAGCGACGTTTGT-GGTAAAAGCGCCGC
* *
82527930 TAAAAGTCATGACCTTTGGCGACGTTTGTGGTAAAAGCGCTGC
1 TAAAAGTCATGACCTTTAGCGACGTTTGTGGTAAAAGCGCCGC
* *
82527973 TACAGGTCATGACCTTT
1 TAAAAGTCATGACCTTT
82527990 TGGGGGAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
42 7 0.14
43 44 0.86
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
TAAAAGTCATGACCTTTAGCGACGTTTGTGGTAAAAGCGCCGC
Found at i:82528092 original size:43 final size:42
Alignment explanation
Indices: 82527996--82528114 Score: 166
Period size: 43 Copynumber: 2.8 Consensus size: 42
82527986 CTTTTGGGGG
* * *
82527996 AAAAGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCATTTTTAT
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCATTTTTAA
* **
82528038 AAAAGCACCGCTAAAGGTCCTGGTCTTTAGCGGTGTTTTTTAA
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGG-CATTTTTAA
*
82528081 AAAAGCGCCGCTAAAGGTCCTGATCTTTAGCGGC
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGC
82528115 GGTGTATATA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 30 0.45
43 37 0.55
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCATTTTTAA
Found at i:82531321 original size:21 final size:20
Alignment explanation
Indices: 82531296--82531334 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
82531286 AAATCTACTA
*
82531296 TTTTCTCTAATTTTCACTCGT
1 TTTTCGCTAATTTT-ACTCGT
*
82531317 TTTTCGCTCATTTTACTC
1 TTTTCGCTAATTTTACTC
82531335 TCAAATATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.26, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTCGCTAATTTTACTCGT
Found at i:82541826 original size:46 final size:46
Alignment explanation
Indices: 82541759--82541973 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
82541749 GGCAACCTGA
82541759 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
82541805 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
82541851 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
** * * *
82541897 G-ACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
82541942 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
82541974 TCATGTCAAA
Statistics
Matches: 155, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 39 0.25
46 116 0.75
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:82541953 original size:91 final size:92
Alignment explanation
Indices: 82541761--82541973 Score: 313
Period size: 91 Copynumber: 2.3 Consensus size: 92
82541751 CAACCTGAGT
**
82541761 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTACAAGACCATGGTTGAAAG
* * *
82541826 ATACCATGGCAACCTGATATGAAATGT
66 ATACCATGGCAACATGACATGAAATGA
* *
82541853 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATG-ACAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTACAAGACCATGGTTGAAAG
82541917 ATACCATGGCAACATGACA-GAAAATGA
66 ATACCATGGCAACATGACATG-AAATGA
* * *
82541944 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
82541974 TCATGTCAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
90 1 0.01
91 66 0.60
92 43 0.39
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (92 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAATGTACAAGACCATGGTTGAAAG
ATACCATGGCAACATGACATGAAATGA
Found at i:82541953 original size:137 final size:130
Alignment explanation
Indices: 82541709--82541973 Score: 386
Period size: 137 Copynumber: 2.0 Consensus size: 130
82541699 AGTGTGCTCT
*
82541709 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
82541774 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
82541839 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGACAAGA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG-CAAGA
*
82541904 CCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTA
59 CCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCA
82541969 TGGCA
124 TGGCA
82541974 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
137 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:82543315 original size:24 final size:25
Alignment explanation
Indices: 82543259--82543317 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
82543249 AACTCTTTTC
* *
82543259 ATTTATTTTAAATTGTTCTACTATT
1 ATTTATTTTAAATTCTTCTACTAAT
82543284 ATTTATTTTAATATTCTT-TA-TAAT
1 ATTTATTTTAA-ATTCTTCTACTAAT
82543308 ATTTATTTTA
1 ATTTATTTTA
82543318 CACTTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 13 0.42
25 13 0.42
26 5 0.16
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (25 bp):
ATTTATTTTAAATTCTTCTACTAAT
Found at i:82550789 original size:17 final size:17
Alignment explanation
Indices: 82550767--82550803 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
82550757 TTTTGGTGAT
82550767 CTCGTAGTCTTAATGAG
1 CTCGTAGTCTTAATGAG
82550784 CTCGTAGTCTTAATGAG
1 CTCGTAGTCTTAATGAG
82550801 CTC
1 CTC
82550804 CCAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (17 bp):
CTCGTAGTCTTAATGAG
Found at i:82553528 original size:20 final size:18
Alignment explanation
Indices: 82553486--82553535 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
82553476 AAAAAATATG
* *
82553486 ATAATTATAAATTTAACA
1 ATAATTATAATTTTAAAA
82553504 ATAATTATAATTTAATAAAA
1 ATAATTATAATTT--TAAAA
*
82553524 ATAATGATAATT
1 ATAATTATAATT
82553536 GCACATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 12 0.44
20 15 0.56
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATTATAATTTTAAAA
Found at i:82553531 original size:44 final size:43
Alignment explanation
Indices: 82553477--82553559 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 43
82553467 ATTATACATA
* * *
82553477 AAAAATATGATAATTATAAATTTAACAATAATTATAATTTAAT
1 AAAAATATGATAATTACAAATTTAAAAATAATTAAAATTTAAT
* *
82553520 AAAAATAATGATAATTGCACATTTAAAAATAATTAAAATT
1 AAAAAT-ATGATAATTACAAATTTAAAAATAATTAAAATT
82553560 AAAATTACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 6 0.18
44 28 0.82
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (43 bp):
AAAAATATGATAATTACAAATTTAAAAATAATTAAAATTTAAT
Found at i:82555704 original size:6 final size:6
Alignment explanation
Indices: 82555693--82555728 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
82555683 AAATATTGTG
82555693 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
82555729 TAAAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:82558109 original size:6 final size:6
Alignment explanation
Indices: 82558089--82558120 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
82558079 TTAAAAATTG
82558089 ATTTTA ATATTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA AT-TTTA ATTTTA ATTTTA ATTTTA A
82558121 ATAACTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATTTTA
Found at i:82563795 original size:18 final size:18
Alignment explanation
Indices: 82563768--82563809 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
82563758 CTTGGTTTTC
* *
82563768 ATATAATTGATGTGGAGG
1 ATATATTTGAGGTGGAGG
82563786 ATATATTTGAGGTGGAGG
1 ATATATTTGAGGTGGAGG
82563804 ATATAT
1 ATATAT
82563810 GAAAGGTGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (18 bp):
ATATATTTGAGGTGGAGG
Found at i:82563816 original size:18 final size:18
Alignment explanation
Indices: 82563779--82563821 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
82563769 TATAATTGAT
***
82563779 GTGGAGGATATATTTGAG
1 GTGGAGGATATATGAAAG
82563797 GTGGAGGATATATGAAAG
1 GTGGAGGATATATGAAAG
82563815 GTGGAGG
1 GTGGAGG
82563822 TGGGTGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.44, T:0.26
Consensus pattern (18 bp):
GTGGAGGATATATGAAAG
Found at i:82567855 original size:23 final size:22
Alignment explanation
Indices: 82567818--82567877 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
82567808 ACACATAAAT
*
82567818 TGCCT-AAAACGACACACGAGG
1 TGCCTGAATACGACACACGAGG
82567839 TGCCTG-ATACGACACACGAGG
1 TGCCTGAATACGACACACGAGG
82567860 TGCCTGAAATACGACACA
1 TGCCTG-AATACGACACA
82567878 TAAAGTGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 25 0.71
23 10 0.29
ACGTcount: A:0.35, C:0.28, G:0.23, T:0.13
Consensus pattern (22 bp):
TGCCTGAATACGACACACGAGG
Found at i:82567885 original size:23 final size:23
Alignment explanation
Indices: 82567803--82567889 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
82567793 CCTGATCAGT
* *
82567803 ATACGACACATAAATTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
82567825 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
82567845 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
82567868 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
82567890 TCAGTAAAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.61
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:82569405 original size:29 final size:28
Alignment explanation
Indices: 82569373--82569427 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
82569363 GCTCGAATGC
82569373 TTTCTGTTCTCTT-TTCTCTATTCTTTTTG
1 TTTCTGTTCT-TTATTCTCT-TTCTTTTTG
* *
82569402 TTTCTTTTCTTTATTCTGTTTCTTTT
1 TTTCTGTTCTTTATTCTCTTTCTTTT
82569428 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTCTGTTCTTTATTCTCTTTCTTTTTG
Found at i:82569410 original size:22 final size:23
Alignment explanation
Indices: 82569372--82569418 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
82569362 TGCTCGAATG
82569372 CTTTCTGTTCTCTTTTCTCTATT
1 CTTTCTGTTCTCTTTTCTCTATT
* *
82569395 CTTTTTGTT-TCTTTTCTTTATT
1 CTTTCTGTTCTCTTTTCTCTATT
82569417 CT
1 CT
82569419 GTTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.70
Consensus pattern (23 bp):
CTTTCTGTTCTCTTTTCTCTATT
Found at i:82569430 original size:14 final size:12
Alignment explanation
Indices: 82569382--82569431 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
82569372 CTTTCTGTTC
*
82569382 TCTTTTCTCTAT
1 TCTTTTCTTTAT
*
82569394 TCTTTT-TGT-T
1 TCTTTTCTTTAT
82569404 TCTTTTCTTTAT
1 TCTTTTCTTTAT
82569416 TCTGTTTCTTTTAT
1 TCT-TTTC-TTTAT
82569430 TC
1 TC
82569432 ACTTTAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.22
11 4 0.12
12 10 0.31
13 4 0.12
14 7 0.22
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (12 bp):
TCTTTTCTTTAT
Found at i:82575736 original size:23 final size:23
Alignment explanation
Indices: 82575654--82575740 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
82575644 CCTGATCAGT
*
82575654 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
82575676 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
82575696 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
82575719 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
82575741 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:82577158 original size:42 final size:43
Alignment explanation
Indices: 82577052--82577168 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
82577042 TATTTGATTT
* * *
82577052 TCAACCTGTTACCCTACTGCTTAGGGAGTTAAGGCTTGTCATCA
1 TCAACCTGTTACCCTACTGCTTAGGG-GTTTAGGCTTGTAAACA
** * * *
82577096 TTGATCTGTTTCCCTACTGCTTAGGGGTTTA-GATCTGTAAAC-
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAGGCT-TGTAAACA
82577138 TCAACCTGTTACCCTACTGCTTAGGGGTTTA
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTA
82577169 AGGTTTGAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.48
43 9 0.15
44 22 0.37
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (43 bp):
TCAACCTGTTACCCTACTGCTTAGGGGTTTAGGCTTGTAAACA
Found at i:82589547 original size:19 final size:21
Alignment explanation
Indices: 82589498--82589548 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
82589488 TAATAAGTAA
82589498 ATAAAATA-ATATTACTATAT
1 ATAAAATATATATTACTATAT
*
82589518 ATAAAGGATATATA-TAC-ATGT
1 ATAAA--ATATATATTACTATAT
82589539 ATAAAATATA
1 ATAAAATATA
82589549 ATAGGGGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 8 0.30
22 6 0.22
23 3 0.11
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (21 bp):
ATAAAATATATATTACTATAT
Found at i:82590062 original size:2 final size:2
Alignment explanation
Indices: 82590051--82590084 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
82590041 TTAATAATAC
82590051 TA TA TA -A TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82590085 AGTATTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82590245 original size:15 final size:16
Alignment explanation
Indices: 82590225--82590257 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
82590215 ATGAATTAAT
*
82590225 AATAAACA-ATAAATA
1 AATAAACACAAAAATA
82590240 AATAAACACAAAAATA
1 AATAAACACAAAAATA
82590256 AA
1 AA
82590258 ATATAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AATAAACACAAAAATA
Done.