Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 408 of 425
Found at i:124407529 original size:12 final size:12
Alignment explanation
Indices: 124407512--124407542 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
124407502 AGAAAGAAAA
124407512 AGACAGACAAAG
1 AGACAGACAAAG
*
124407524 AGACAGACAGAG
1 AGACAGACAAAG
124407536 AGACAGA
1 AGACAGA
124407543 AGATGAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.29, T:0.00
Consensus pattern (12 bp):
AGACAGACAAAG
Found at i:124408939 original size:46 final size:46
Alignment explanation
Indices: 124408872--124408969 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 46
124408862 AAATGATGAT
*
124408872 ACTTTGTCAAGAATGCAATAACATTGGAGAATTCTTTTGTGGCTTA
1 ACTTTGTCAAGAATACAATAACATTGGAGAATTCTTTTGTGGCTTA
*
124408918 ACTTTGTCAAGAATACAATAACATTGGAGTATTCTTTTGTGGCTTA
1 ACTTTGTCAAGAATACAATAACATTGGAGAATTCTTTTGTGGCTTA
124408964 ACTTTG
1 ACTTTG
124408970 CGGCAACATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (46 bp):
ACTTTGTCAAGAATACAATAACATTGGAGAATTCTTTTGTGGCTTA
Found at i:124409969 original size:16 final size:17
Alignment explanation
Indices: 124409945--124409993 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
124409935 TTTTAATTTA
124409945 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
124409961 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
124409977 TTCAATAAAATAATTAT
1 TTAAATAAAAT-ATTAT
124409994 ATTTCACATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:124410012 original size:21 final size:18
Alignment explanation
Indices: 124409967--124410016 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
124409957 TATCTTAATT
124409967 AAAATATTATTTCAATAAA
1 AAAAT-TTATTTCAATAAA
*
124409986 ATAATTATATTTCACATTAAA
1 AAAATT-TATTTCA-A-TAAA
124410007 AAAATTTATT
1 AAAATTTATT
124410017 AATCGTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 11 0.42
20 5 0.19
21 9 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTATTTCAATAAA
Found at i:124416860 original size:14 final size:14
Alignment explanation
Indices: 124416843--124416872 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
124416833 TCTTGAATTA
*
124416843 TTTTTATTAAATAT
1 TTTTTATAAAATAT
124416857 TTTTTATAAAATAT
1 TTTTTATAAAATAT
124416871 TT
1 TT
124416873 AAAATTACGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTATAAAATAT
Found at i:124419347 original size:425 final size:426
Alignment explanation
Indices: 124418556--124419405 Score: 1693
Period size: 425 Copynumber: 2.0 Consensus size: 426
124418546 AATGATAGAG
124418556 CACATTCTTTAAAAACTATAGAGGTTTGAATTCTATTTTTCTATATAAAATAATAAAATATTCTC
1 CACATTCTTTAAAAACTATAGAGGTTTGAATTCTATTTTTCTATATAAAATAATAAAATATTCTC
124418621 AAAATAATATAATTTATTTTATAAAATAACGATATTTTTATAGTTATTCAATTGAATTAATAACT
66 AAAATAATATAATTTATTTTATAAAATAACGATATTTTTATAGTTATTCAATTGAATTAATAACT
124418686 AACTAACTAGTGATATAAACTCAATAAAAAATTTAATACCCAACATCTTTTGCTGAGGACTATAT
131 AACTAACTAGTGATATAAACTCAATAAAAAATTTAATACCCAACATCTTTTGCTGAGGACTATAT
124418751 TATATATTATTTGATACCACTTGTCACGGGGCTAGACCTTTCGTCTCGCAATCCGTGCGGCCTTA
196 TATATATTATTTGATACCACTTGTCACGGGGCTAGACCTTTCGTCTCGCAATCCGTGCGGCCTTA
124418816 GGCGATTCGCTCGTCCAAACTCGCCCAAGTCAGCCTTTGCTCGAATGAGGATTCCTTAAGAACTC
261 GGCGATTCGCTCGTCCAAACTCGCCCAAGTCAGCCTTTGCTCGAATGAGGATTCCTTAAGAACTC
124418881 CTCCAAGGCACCGACTCGTACAGCGGAAGACTTACTTACGCCAAAAGAAGCTTATAAGAACAACA
326 CTCCAAGGCACCGACTCGTACAGCGGAAGACTTACTTACGCCAAAAGAAGCTTATAAGAACAACA
124418946 GAAAGGGACGCACACAAAGTGTTTGAGTAAATGCTA
391 GAAAGGGACGCACACAAAGTGTTTGAGTAAATGCTA
124418982 CACATTCTTTAAAAACTATAGAGGTTTGAATTCTATTTTTCTATATAAAATAATAAAATATTCTC
1 CACATTCTTTAAAAACTATAGAGGTTTGAATTCTATTTTTCTATATAAAATAATAAAATATTCTC
124419047 AAAATAATATAATTTATTTTATAAAATAACGATA-TTTTATAGTTATTCAATTGAATTAATAACT
66 AAAATAATATAATTTATTTTATAAAATAACGATATTTTTATAGTTATTCAATTGAATTAATAACT
124419111 AACTAACTAGTGATATAAACTCAATAAAAAATTTAATACCCAACATCTTTTGCTGAGGACTATAT
131 AACTAACTAGTGATATAAACTCAATAAAAAATTTAATACCCAACATCTTTTGCTGAGGACTATAT
124419176 TATATATTATTTGATACCACTTGTCACGGGGCTAGACCTTTCGTCTCGCAATCCGTGCGGCCTTA
196 TATATATTATTTGATACCACTTGTCACGGGGCTAGACCTTTCGTCTCGCAATCCGTGCGGCCTTA
124419241 GGCGATTCGCTCGTCCAAACTCGCCCAAGTCAGCCTTTGCTCGAATGAGGATTCCTTAAGAACTC
261 GGCGATTCGCTCGTCCAAACTCGCCCAAGTCAGCCTTTGCTCGAATGAGGATTCCTTAAGAACTC
124419306 CTCCAAGGCACCGACTCGTACAGCGGAAGACTTACTTACGCCAAAAGAAGCTTATAAGAACAACA
326 CTCCAAGGCACCGACTCGTACAGCGGAAGACTTACTTACGCCAAAAGAAGCTTATAAGAACAACA
124419371 GAAAGGGACGCACACAAAGTGTTTGAGTAAATGCT
391 GAAAGGGACGCACACAAAGTGTTTGAGTAAATGCT
124419406 CTCTATTCTC
Statistics
Matches: 424, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
425 325 0.77
426 99 0.23
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (426 bp):
CACATTCTTTAAAAACTATAGAGGTTTGAATTCTATTTTTCTATATAAAATAATAAAATATTCTC
AAAATAATATAATTTATTTTATAAAATAACGATATTTTTATAGTTATTCAATTGAATTAATAACT
AACTAACTAGTGATATAAACTCAATAAAAAATTTAATACCCAACATCTTTTGCTGAGGACTATAT
TATATATTATTTGATACCACTTGTCACGGGGCTAGACCTTTCGTCTCGCAATCCGTGCGGCCTTA
GGCGATTCGCTCGTCCAAACTCGCCCAAGTCAGCCTTTGCTCGAATGAGGATTCCTTAAGAACTC
CTCCAAGGCACCGACTCGTACAGCGGAAGACTTACTTACGCCAAAAGAAGCTTATAAGAACAACA
GAAAGGGACGCACACAAAGTGTTTGAGTAAATGCTA
Found at i:124432637 original size:99 final size:99
Alignment explanation
Indices: 124432466--124432661 Score: 320
Period size: 99 Copynumber: 2.0 Consensus size: 99
124432456 CCCCTCTTTC
* * * * *
124432466 TTCTCTTATTTCTAAATTATTGTCGTTATTTTGAGCCTCGAGGTCTAACTCGATGACTGTATTAT
1 TTCTCTTATTTCTAAATTATTATCGTTATTTTGAGCCTCAAAGTCTAACTCAATAACTGTATTAT
* *
124432531 CTAACTCAATGGGTTGGCTCACAGGATCACCAGA
66 CTAACTCAATGAGTTGACTCACAGGATCACCAGA
*
124432565 TTCTCTTATTTCTAAATTATTATCGTTATTTTGAGCCTCAAAGTTTAACTCAATAACTGTATTAT
1 TTCTCTTATTTCTAAATTATTATCGTTATTTTGAGCCTCAAAGTCTAACTCAATAACTGTATTAT
124432630 CTAACTCAATGAGTTGACTCACAGGATCACCA
66 CTAACTCAATGAGTTGACTCACAGGATCACCA
124432662 AGTTGAGTAG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (99 bp):
TTCTCTTATTTCTAAATTATTATCGTTATTTTGAGCCTCAAAGTCTAACTCAATAACTGTATTAT
CTAACTCAATGAGTTGACTCACAGGATCACCAGA
Found at i:124437228 original size:19 final size:20
Alignment explanation
Indices: 124437174--124437230 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
124437164 ATTTATATAT
* **
124437174 ATTTTTTTCATGTTGTTTAA
1 ATTTTTTTCATATTAATTAA
*
124437194 ATTTTTTT-ATTTTTAATT-A
1 ATTTTTTTCA-TATTAATTAA
124437213 ATTTTTTTCATATTAATT
1 ATTTTTTTCATATTAATT
124437231 TTTTTGCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (20 bp):
ATTTTTTTCATATTAATTAA
Found at i:124437849 original size:49 final size:48
Alignment explanation
Indices: 124437749--124437847 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 48
124437739 TTGATTTTAT
124437749 AAACAAAATAGTTATTAATTAAAAATATGAATTAAAAATAAAAACTTAA
1 AAACAAAATAGTTATTAATTAAAAATATGAATTAAAAAT-AAAACTTAA
* * *
124437798 AAACAACATATTTATTAATTATAAACAT-TG-ATTAAAAAT-AAATTTAA
1 AAACAAAATAGTTATTAATTA-AAA-ATATGAATTAAAAATAAAACTTAA
124437845 AAA
1 AAA
124437848 AAAGCTTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
47 10 0.22
49 28 0.62
50 5 0.11
51 2 0.04
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (48 bp):
AAACAAAATAGTTATTAATTAAAAATATGAATTAAAAATAAAACTTAA
Found at i:124441175 original size:33 final size:33
Alignment explanation
Indices: 124441138--124441204 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
124441128 ATGGATGTTC
124441138 AATTTCTATGCTTATATTTGAATAATGAAAACT
1 AATTTCTATGCTTATATTTGAATAATGAAAACT
124441171 AATTTCTATGCTTATATTTGAATAATGAAAACT
1 AATTTCTATGCTTATATTTGAATAATGAAAACT
124441204 A
1 A
124441205 TCTTTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (33 bp):
AATTTCTATGCTTATATTTGAATAATGAAAACT
Found at i:124446663 original size:25 final size:25
Alignment explanation
Indices: 124446634--124446681 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
124446624 TTATAATATG
* * *
124446634 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
124446659 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
124446682 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:124446750 original size:20 final size:20
Alignment explanation
Indices: 124446725--124446783 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
124446715 TAAATATGGT
124446725 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
124446745 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
124446765 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
124446784 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:124446765 original size:11 final size:11
Alignment explanation
Indices: 124446729--124446783 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
124446719 TATGGTATGT
124446729 ATGATATGCAC
1 ATGATATGCAC
* *
124446740 ATGAAATG--T
1 ATGATATGCAC
124446749 ATGATATGCAC
1 ATGATATGCAC
*
124446760 ATGATATG--T
1 ATGATATGCAC
124446769 ATGATATGCAC
1 ATGATATGCAC
124446780 ATGA
1 ATGA
124446784 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:124446861 original size:24 final size:24
Alignment explanation
Indices: 124446834--124446952 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
124446824 GAGGAAGTGA
*
124446834 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
124446858 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
124446881 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
124446905 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
124446929 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
124446953 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:124446903 original size:47 final size:48
Alignment explanation
Indices: 124446834--124446952 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
124446824 GAGGAAGTGA
124446834 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
124446881 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
124446929 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
124446953 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:124447178 original size:30 final size:31
Alignment explanation
Indices: 124447144--124447206 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
124447134 CGTTTACAGT
124447144 AAAGGCTTCGG-CCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
124447174 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
124447205 AA
1 AA
124447207 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:124448517 original size:48 final size:48
Alignment explanation
Indices: 124448446--124448544 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
124448436 GAGAAAACAA
124448446 CATTTTATAAGCCACCATCACATGTAAACAAAGAGAAAAGGAATCTAC
1 CATTTTATAAGCCACCATCACATGTAAACAAAGAGAAAAGGAATCTAC
*
124448494 CATTTTATAAGCCATCATCACATGTAAACAAAGAGAAAAGGAATCTAC
1 CATTTTATAAGCCACCATCACATGTAAACAAAGAGAAAAGGAATCTAC
124448542 CAT
1 CAT
124448545 ATGAAAAGAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.22
Consensus pattern (48 bp):
CATTTTATAAGCCACCATCACATGTAAACAAAGAGAAAAGGAATCTAC
Found at i:124449984 original size:46 final size:46
Alignment explanation
Indices: 124449934--124450235 Score: 392
Period size: 46 Copynumber: 6.7 Consensus size: 46
124449924 TGCCACAGTG
* * * *
124449934 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
*** **
124449980 TCTTTCAACCATGGTCTTGTTCA-TTTCATATCACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTA
*
124450026 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGATTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTA
*
124450072 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
*
124450118 TCTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
124450164 TCTTTCAACCATGGTCTT--ACA----C--TCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
124450202 TCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCAG
124450236 AGAGCACACT
Statistics
Matches: 233, Mismatches: 13, Indels: 20
0.88 0.05 0.08
Matches are distributed among these distances:
38 34 0.15
40 3 0.01
43 1 0.00
44 3 0.01
45 4 0.02
46 185 0.79
47 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTA
Found at i:124450199 original size:38 final size:38
Alignment explanation
Indices: 124450148--124450223 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
124450138 ACATTTTATA
124450148 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
124450186 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
124450224 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:124452385 original size:11 final size:11
Alignment explanation
Indices: 124452369--124452420 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
124452359 TATACTAAAT
124452369 AAATAATAATA
1 AAATAATAATA
*
124452380 AAATAAT-ATT
1 AAATAATAATA
* *
124452390 AAATATCTCATA
1 AAATA-ATAATA
*
124452402 AAATATTAATA
1 AAATAATAATA
124452413 AAATAATA
1 AAATAATA
124452421 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:124478598 original size:177 final size:177
Alignment explanation
Indices: 124478302--124478793 Score: 781
Period size: 177 Copynumber: 2.8 Consensus size: 177
124478292 GCGACATCGG
*
124478302 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGTGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATC
** *
124478367 TTTATGTATCGGCTATGGAGCAGATTTTAGCCACCAATCCTTATCTCTCTGAAGTTGCAGAGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAAGCCTTATCTCTCTGAAGTTGCAGAGAGC
124478432 AGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGAC
131 AGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGAC
124478479 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATC
* *
124478544 TCCATGGATCGGCTATGGAGCAGATTTTAGCCGCCAAGCCTTATCTCTCTGAAGTTGCAGAGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAAGCCTTATCTCTCTGAAGTTGCAGAGAGC
* * *
124478609 AGGTTAAAGATATAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
131 AGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGAC
* * *
124478656 TGAAAATTACAGATCTTATCTTCATGTATCGGCT-TGGAGCAGATAAAAAATGGCGAGTCTTATC
1 TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATC
* * * * * * *
124478720 TCCATGTATCAGCTATGGAGTAGATTTTAGCCACC-GGCCCTGTCTCTCTAAAGTTGCAGCGGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAAGCCTTATCTCTCTGAAGTTGCAG-AGAG
*
124478784 CAAGTTGAAG
130 CAGGTTGAAG
124478794 TCACAAACCT
Statistics
Matches: 291, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
175 20 0.07
176 70 0.24
177 201 0.69
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (177 bp):
TGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAAGCCTTATCTCTCTGAAGTTGCAGAGAGC
AGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGAC
Found at i:124479288 original size:22 final size:22
Alignment explanation
Indices: 124479248--124479289 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
124479238 CTATAAAGCC
*
124479248 TTTGATTTTTAATTGTAAAAGG
1 TTTGATTTTTAATTATAAAAGG
124479270 TTTGATTTTTGAA-TATAAAA
1 TTTGATTTTT-AATTATAAAA
124479290 TATACACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (22 bp):
TTTGATTTTTAATTATAAAAGG
Found at i:124482124 original size:21 final size:21
Alignment explanation
Indices: 124482098--124482142 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
124482088 TTAAGTATGG
124482098 TTGAAAAATTGAGTTTTCAAA
1 TTGAAAAATTGAGTTTTCAAA
124482119 TTGAAAAATTGAGTTTTCAAA
1 TTGAAAAATTGAGTTTTCAAA
124482140 TTG
1 TTG
124482143 GTAATGTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (21 bp):
TTGAAAAATTGAGTTTTCAAA
Found at i:124486072 original size:12 final size:12
Alignment explanation
Indices: 124486057--124486289 Score: 103
Period size: 12 Copynumber: 19.2 Consensus size: 12
124486047 TTATTTTAAA
124486057 TATTATATATTT
1 TATTATATATTT
124486069 TATT-TAT-TTT
1 TATTATATATTT
* * *
124486079 TACTATAAATAT
1 TATTATATATTT
* *
124486091 TATT-TATGAGTG
1 TATTATAT-ATTT
124486103 TA--A-ATATTAT
1 TATTATATATT-T
124486113 TA-TATATATTAT
1 TATTATATATT-T
*
124486125 T-TT-TATTTTT
1 TATTATATATTT
* *
124486135 ATATTATTTATTA
1 -TATTATATATTT
124486148 TATTATTTATATTT
1 TATTA--TATATTT
124486162 TATTATATATTT
1 TATTATATATTT
*
124486174 TGATTTATACATTT
1 T-A-TTATATATTT
124486188 TATTATATATCATTT
1 TA-T-TATAT-ATTT
* *
124486203 TATTTTATATAT
1 TATTATATATTT
124486215 TATTCATTATATTT
1 TATT-A-TATATTT
* *
124486229 TTTTATATTTTT
1 TATTATATATTT
*
124486241 TATTATATATTA
1 TATTATATATTT
*
124486253 TATAAT-TA-TT
1 TATTATATATTT
*
124486263 TATTATTTATTAT
1 TATTATATATT-T
124486276 TATGTATA-ATTT
1 TAT-TATATATTT
124486288 TA
1 TA
124486290 AAAATTTGTA
Statistics
Matches: 167, Mismatches: 31, Indels: 46
0.68 0.13 0.19
Matches are distributed among these distances:
9 2 0.01
10 17 0.10
11 18 0.11
12 67 0.40
13 20 0.12
14 37 0.22
15 6 0.04
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
TATTATATATTT
Found at i:124486139 original size:29 final size:29
Alignment explanation
Indices: 124486106--124486278 Score: 93
Period size: 29 Copynumber: 6.2 Consensus size: 29
124486096 ATGAGTGTAA
*
124486106 ATATTA-TTATATATATTATTTTTATTTTT
1 ATATTATTTAT-TATATTATTTATATTTTT
124486135 ATATTATTTATTATATTATTTATA--TTT
1 ATATTATTTATTATATTATTTATATTTTT
* * **
124486162 -TATTATATATT-T-TGATTTATACATTT
1 ATATTATTTATTATATTATTTATATTTTT
* * *
124486188 -TATTATATATCATTTTATTT-TA----T
1 ATATTATTTATTATATTATTTATATTTTT
* *
124486211 ATATTATTCATTATATTTTTTTATATTTTT
1 ATATTATTTATTATA-TTATTTATATTTTT
* * *
124486241 -TATTATATATTATATAATTATTTATTATTT
1 ATATTATTTATTATATTATT-TATATT-TTT
124486271 ATTATTAT
1 A-TATTAT
124486279 GTATAATTTT
Statistics
Matches: 113, Mismatches: 15, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
23 1 0.01
24 18 0.16
25 6 0.05
26 25 0.22
27 6 0.05
28 8 0.07
29 35 0.31
30 8 0.07
32 6 0.05
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.66
Consensus pattern (29 bp):
ATATTATTTATTATATTATTTATATTTTT
Found at i:124486146 original size:7 final size:7
Alignment explanation
Indices: 124486109--124486276 Score: 65
Period size: 7 Copynumber: 22.1 Consensus size: 7
124486099 AGTGTAAATA
124486109 TTATTAT
1 TTATTAT
124486116 ATATATTAT
1 -T-TATTAT
124486125 TT-TTAT
1 TTATTAT
124486131 TT-TTAT
1 TTATTAT
124486137 ATTATTTAT
1 -TTA-TTAT
124486146 TATATTAT
1 T-TATTAT
124486154 TTA-TATT
1 TTATTA-T
124486161 TTATTAT
1 TTATTAT
*
124486168 ATATTTTGAT
1 -T-TATT-AT
*
124486178 TTATACATT
1 TTAT-TA-T
124486187 TTATTAT
1 TTATTAT
* *
124486194 ATATCATT
1 TTATTA-T
124486202 TTATTTTAT
1 TTA--TTAT
*
124486211 ATATTAT
1 TTATTAT
*
124486218 TCATTAT
1 TTATTAT
*
124486225 ATT-TTTT
1 -TTATTAT
*
124486232 TATATTTT
1 T-TATTAT
124486240 TTATTAT
1 TTATTAT
*
124486247 ATATTAT
1 TTATTAT
*
124486254 ATAATTAT
1 -TTATTAT
124486262 TTATTAT
1 TTATTAT
124486269 TTATTAT
1 TTATTAT
124486276 T
1 T
124486277 ATGTATAATT
Statistics
Matches: 123, Mismatches: 18, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
6 13 0.11
7 53 0.43
8 29 0.24
9 24 0.20
10 4 0.03
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.67
Consensus pattern (7 bp):
TTATTAT
Found at i:124486676 original size:18 final size:18
Alignment explanation
Indices: 124486653--124486687 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
124486643 ATCTCATAAA
*
124486653 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
124486671 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
124486688 ATATTCGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:124490205 original size:16 final size:16
Alignment explanation
Indices: 124490181--124490213 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
124490171 AATTATAGAG
124490181 AGAGAGAGAGAAAGAA
1 AGAGAGAGAGAAAGAA
*
124490197 AGAGTGAGAGAAAGAA
1 AGAGAGAGAGAAAGAA
124490213 A
1 A
124490214 ACCTGGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (16 bp):
AGAGAGAGAGAAAGAA
Found at i:124493359 original size:53 final size:53
Alignment explanation
Indices: 124493278--124493428 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
124493268 CTTACACGGT
* * *
124493278 TCACATATCATACCGAAGGCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAACCCAG-CTATGGTCTTATACGGAATCACATTA
* *
124493333 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTA
** *
124493386 TCACATTGCACCGATGCCATAACCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGG
124493429 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:124501024 original size:90 final size:90
Alignment explanation
Indices: 124500857--124501542 Score: 667
Period size: 90 Copynumber: 7.6 Consensus size: 90
124500847 GGGGCAATAT
* * **
124500857 AGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGAC-GGTGAGCAGATCGAAGATAGCATTTC
1 AGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGG-GAGCAGATCGAAGATAGCAGATC
* * *
124500921 TGACATTTGTGTGTTTATATCGAAAC
65 TGACATTCGTGTGTTTACATCGAAGC
* * *
124500947 AGATTGAAGATGACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGTAGATCT
1 AGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCT
* *
124501012 GGCATTCATGTGTTTACATCGAAGC
66 GACATTCGTGTGTTTACATCGAAGC
* * * * * * * * *
124501037 AGGTCAAAGAT-AGCAGATCTGACAT-TCGTGTGTT-TACATCGAAGTAGATCGAAGAT-GACAG
1 AGATCGAAGATGA-CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATAG-CAG
* * * * * * *
124501098 ATTTGGCGTCCCTGT-ATTAGA-CGAGGAGC
62 ATCTGACATTCGTGTGTTTACATCGA--AGC
* * * * * * * *
124501127 AGATCAAAGAT-AGTAGATCTGACAT-TCATGTGTTTA-A-ATCGAAGCAGGTCGAAGATAGCAG
1 AGATCGAAGATGA-CAGATTTGGCATCTC-TGT-ATTAGACA-GGGAGCAGATCGAAGATAGCAG
*
124501188 ATCTGACATTCTTGTGTTTACATCGAAGC
62 ATCTGACATTCGTGTGTTTACATCGAAGC
* * *
124501217 AGATCGAAGATGACAGATTTGGCATCCCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCT
1 AGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCT
*
124501282 GACACTCGTGTGTTTACATCGAAGC
66 GACATTCGTGTGTTTACATCGAAGC
* * *
124501307 ACATCGAAGATGACAGATTTGGCATCTCTGTATTAGATAGGGAGCAGATCCAAGATAGCAGATCT
1 AGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCT
124501372 GACATTCGTGTGTTTACATCGAAGC
66 GACATTCGTGTGTTTACATCGAAGC
* *
124501397 ACATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGATAGCAGATCT
1 AGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCT
* * *
124501462 GACATTTGTGTGCTTACATCAAAGC
66 GACATTCGTGTGTTTACATCGAAGC
** * * * * * *
124501487 AGATAAAAAATGACAGATTTGACGTC-CTTGTATTAGGCGGGGAGCAGATCAAAGAT
1 AGATCGAAGATGACAGATTTGGCATCTC-TGTATTAGACAGGGAGCAGATCGAAGAT
124501543 TTCAGCATGG
Statistics
Matches: 506, Mismatches: 73, Indels: 34
0.83 0.12 0.06
Matches are distributed among these distances:
88 3 0.01
89 15 0.03
90 473 0.93
91 12 0.02
92 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (90 bp):
AGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCT
GACATTCGTGTGTTTACATCGAAGC
Found at i:124501271 original size:225 final size:225
Alignment explanation
Indices: 124500856--124501490 Score: 719
Period size: 225 Copynumber: 2.8 Consensus size: 225
124500846 GGGGGCAATA
* * **
124500856 TAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACG-GTGAGCAGATCGAAGATAGCATTT
1 TAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAG-GAGCAGATCAAAGATAGCAGAT
* * * * * *
124500920 CTGACATTTGTGTGTTTATATCGAAACAGATTGAAGATGACAGATTTGGCGTCTCTGTATTAGAC
65 CTGACATTCGTGTGTTTAAATCGAAGCAGATCGAAGATGACAGATCTGACGTCTCTGTATTAGAC
* * * * * *
124500985 AGGGAGCAGATCGAAGATAGTAGATCTGGCATTCATGTGTTTACATCGAAGCAGGTCAAAGATAG
130 ACGAAGCAGATCGAAGATAGCAGATCTGGCATCCATGTGATTACATCGAAGCAGATCAAAGATAG
*
124501050 CAGATCTGACATTCGTGTGTTTACATCGAAG
195 CAGATCTGACACTCGTGTGTTTACATCGAAG
* *
124501081 TAGATCGAAGATGACAGATTTGGCGTCCCTGTATTAGACGAGGAGCAGATCAAAGATAGTAGATC
1 TAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATC
* * * * *
124501146 TGACATTCATGTGTTTAAATCGAAGCAGGTCGAAGAT-AGCAGATCTGACAT-TCTTGTGTT-TA
66 TGACATTCGTGTGTTTAAATCGAAGCAGATCGAAGATGA-CAGATCTGACGTCTC-TGTATTAGA
* * * *
124501208 CATCGAAGCAGATCGAAGAT-GACAGATTTGGCATCCCTGT-ATTAGA-CGGGGAGCAGATCAAA
129 CA-CGAAGCAGATCGAAGATAG-CAGATCTGGCATCCATGTGATTACATC--GAAGCAGATCAAA
124501270 GATAGCAGATCTGACACTCGTGTGTTTACATCGAAG
190 GATAGCAGATCTGACACTCGTGTGTTTACATCGAAG
* * * * *
124501306 CACATCGAAGATGACAGATTTGGCATCTCTGTATTAGA-TAGGGAGCAGATCCAAGATAGCAGAT
1 TAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGA-GGAGCAGATCAAAGATAGCAGAT
* * * * *
124501370 CTGACATTCGTGTGTTTACATCGAAGCACATCGAAGATGACAGATTTGGCATCTCTGTATTAGAC
65 CTGACATTCGTGTGTTTAAATCGAAGCAGATCGAAGATGACAGATCTGACGTCTCTGTATTAGAC
* * * * *** * *
124501435 AGGGAGCAGATCAAAGATAGCAGATCTGACATTTGTGTGCTTACATCAAAGCAGAT
130 ACGAAGCAGATCGAAGATAGCAGATCTGGCATCCATGTGATTACATCGAAGCAGAT
124501491 AAAAAATGAC
Statistics
Matches: 341, Mismatches: 55, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
223 1 0.00
224 12 0.04
225 315 0.92
226 12 0.04
227 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (225 bp):
TAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATCAAAGATAGCAGATC
TGACATTCGTGTGTTTAAATCGAAGCAGATCGAAGATGACAGATCTGACGTCTCTGTATTAGACA
CGAAGCAGATCGAAGATAGCAGATCTGGCATCCATGTGATTACATCGAAGCAGATCAAAGATAGC
AGATCTGACACTCGTGTGTTTACATCGAAG
Found at i:124501369 original size:135 final size:135
Alignment explanation
Indices: 124500899--124501317 Score: 640
Period size: 135 Copynumber: 3.1 Consensus size: 135
124500889 TTAGACGGTG
* ** * * * *
124500899 AGCAGATCGAAGATAGCATTTCTGACATTTGTGTGTTTATATCGAAACAGATTGAAGATGACAGA
1 AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGA
* * * *
124500964 TTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGATAGTAGATCTGGCATTCATGTGTTTAC
66 TTTGGCGTCCCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAC
124501029 ATCGA
131 ATCGA
* *
124501034 AGCAGGTCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGTAGATCGAAGATGACAGA
1 AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGA
* *
124501099 TTTGGCGTCCCTGTATTAGACGAGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAA
66 TTTGGCGTCCCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAC
124501164 ATCGA
131 ATCGA
*
124501169 AGCAGGTCGAAGATAGCAGATCTGACATTCTTGTGTTTACATCGAAGCAGATCGAAGATGACAGA
1 AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGA
* * * *
124501234 TTTGGCATCCCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACACTCGTGTGTTTAC
66 TTTGGCGTCCCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAC
124501299 ATCGA
131 ATCGA
**
124501304 AGCACATCGAAGAT
1 AGCAGGTCGAAGAT
124501318 GACAGATTTG
Statistics
Matches: 258, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
135 258 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (135 bp):
AGCAGGTCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGA
TTTGGCGTCCCTGTATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAC
ATCGA
Found at i:124501488 original size:45 final size:45
Alignment explanation
Indices: 124500899--124501490 Score: 377
Period size: 45 Copynumber: 13.2 Consensus size: 45
124500889 TTAGACGGTG
** ** *
124500899 AGCAGATCGAAGATAGCATTTCTGACATTTGTGTGTTTATATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
* * * * * * * * *
124500944 AACAGATTGAAGAT-GACAGATTTGGC-GTCTCTGTATTAGACA-GGG
1 AGCAGATCGAAGATAG-CAGATCTGACATTC-CTGTGTT-TACATCGA
* * *
124500989 AGCAGATCGAAGATAGTAGATCTGGCATTCATGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
* * *
124501034 AGCAGGTCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
* * * * * * *
124501079 AGTAGATCGAAGAT-GACAGATTTGGCGTCCCTGT-ATTAGA-CGA
1 AGCAGATCGAAGATAG-CAGATCTGACATTCCTGTGTTTACATCGA
* * * *
124501122 GGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTAAATCGA
1 --AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
* *
124501169 AGCAGGTCGAAGATAGCAGATCTGACATTCTTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
* * * * * *
124501214 AGCAGATCGAAGAT-GACAGATTTGGCATCCCTGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAG-CAGATCTGACATTCCTGTGTTTACATC--GA
* * *
124501259 AGCAGATCAAAGATAGCAGATCTGACACTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
* * * * * * *
124501304 AGCACATCGAAGAT-GACAGATTTGGCA-TCTCTGT-ATTAGATAGGG
1 AGCAGATCGAAGATAG-CAGATCTGACATTC-CTGTGTTTACAT-CGA
* *
124501349 AGCAGATCCAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
* * * * * * *
124501394 AGCACATCGAAGAT-GACAGATTTGGCA-TCTCTGTATTAGACA-GGG
1 AGCAGATCGAAGATAG-CAGATCTGACATTC-CTGTGTT-TACATCGA
* ** * *
124501439 AGCAGATCAAAGATAGCAGATCTGACATTTGTGTGCTTACATCAA
1 AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
124501484 AGCAGAT
1 AGCAGAT
124501491 AAAAAATGAC
Statistics
Matches: 407, Mismatches: 110, Indels: 60
0.71 0.19 0.10
Matches are distributed among these distances:
43 4 0.01
44 29 0.07
45 342 0.84
46 28 0.07
47 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (45 bp):
AGCAGATCGAAGATAGCAGATCTGACATTCCTGTGTTTACATCGA
Found at i:124503039 original size:25 final size:25
Alignment explanation
Indices: 124503007--124503060 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
124502997 TTTTAATTCT
*
124503007 TTTTAAAT-TTGTCATAATTTATTTA
1 TTTTAAATATTAT-ATAATTTATTTA
*
124503032 TTTTAAATATTATATATTTTATTTA
1 TTTTAAATATTATATAATTTATTTA
124503057 TTTT
1 TTTT
124503061 TACTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTAAATATTATATAATTTATTTA
Found at i:124503107 original size:12 final size:12
Alignment explanation
Indices: 124503090--124503254 Score: 93
Period size: 12 Copynumber: 14.1 Consensus size: 12
124503080 GAATGTAAAA
124503090 ATTATTATATAT
1 ATTATTATATAT
124503102 ATTATT-T-T-T
1 ATTATTATATAT
*
124503111 ATTTTTATAT-T
1 ATTATTATATAT
124503122 A-T-TTAT-TAT
1 ATTATTATATAT
124503131 ATTATT-TATAT
1 ATTATTATATAT
*
124503142 TTTATTATATAT
1 ATTATTATATAT
* *
124503154 TTTGATTTATACAT
1 ATT-A-TTATATAT
*
124503168 TTTATTATATAT
1 ATTATTATATAT
124503180 CATTTTATTATATAT
1 -A--TTATTATATAT
124503195 ATTATTCAT-TAT
1 ATTATT-ATATAT
*
124503207 ATT-TTTTAT-T
1 ATTATTATATAT
124503217 ATATATTATATA-
1 AT-TATTATATAT
* *
124503229 ATTTTTATTATTT
1 ATTATTA-TATAT
*
124503242 ATTATTATGTAT
1 ATTATTATATAT
124503254 A
1 A
124503255 ATTTTAAAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 38
0.71 0.07 0.22
Matches are distributed among these distances:
8 1 0.01
9 12 0.10
10 9 0.07
11 22 0.18
12 46 0.38
13 10 0.08
14 11 0.09
15 11 0.09
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:124503119 original size:21 final size:21
Alignment explanation
Indices: 124503092--124503244 Score: 85
Period size: 21 Copynumber: 7.3 Consensus size: 21
124503082 ATGTAAAAAT
*
124503092 TATTATATATATTA-TT-TT-
1 TATTATTTATATTATTTATTA
124503110 TATT-TTTATATTATTTATTA
1 TATTATTTATATTATTTATTA
*
124503130 TATTATTTATATTTTATTATATA
1 TATTATTTATATTAT-TTAT-TA
* *
124503153 TTTTGATTTATA-CATTTTATTA
1 TATT-ATTTATATTA-TTTATTA
124503175 TATATCATTT-TATTATATATATTA
1 TAT-T-ATTTATATTAT-T-TATTA
* *
124503199 T-TCA-TTATATTTTTTATTA
1 TATTATTTATATTATTTATTA
124503218 TA-TATTATATAATT-TTTATTA
1 TATTATT-TAT-ATTATTTATTA
124503239 T-TTATT
1 TATTATT
124503245 ATTATGTATA
Statistics
Matches: 106, Mismatches: 11, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
17 8 0.08
18 6 0.06
19 9 0.08
20 8 0.08
21 30 0.28
22 14 0.13
23 17 0.16
24 14 0.13
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (21 bp):
TATTATTTATATTATTTATTA
Found at i:124503214 original size:43 final size:40
Alignment explanation
Indices: 124503091--124503222 Score: 114
Period size: 43 Copynumber: 3.3 Consensus size: 40
124503081 AATGTAAAAA
124503091 TTATTATATATATTATT-TT-TAT-TTTT-ATATTAT-TTATT
1 TTATTATATATATT-TTATTATATATTTTCAT-TTATATT-TT
* * * **
124503129 ATATTATTTATATTTTATTATATATTTTGATTTATACATT
1 TTATTATATATATTTTATTATATATTTTCATTTATATTTT
124503169 TTATTATATATCATTTTATTATATATATTATTCA-TTATATTTT
1 TTATTATATAT-ATTTTA-T-TATATATT-TTCATTTATATTTT
124503212 TTATTATATAT
1 TTATTATATAT
124503223 TATATAATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
37 2 0.03
38 14 0.18
39 3 0.04
40 19 0.25
41 8 0.11
42 1 0.01
43 26 0.34
44 3 0.04
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (40 bp):
TTATTATATATATTTTATTATATATTTTCATTTATATTTT
Found at i:124503237 original size:28 final size:28
Alignment explanation
Indices: 124503181--124503259 Score: 78
Period size: 26 Copynumber: 3.0 Consensus size: 28
124503171 ATTATATATC
* *
124503181 ATTTTATTA-TATATATTAT-TCA-TTAT
1 ATTTT-TTATTATATATTATATAATTTTT
124503207 ATTTTTTATTATATATTATATAATTTTT
1 ATTTTTTATTATATATTATATAATTTTT
* *
124503235 ATTATTTATTAT-TA-TGTATAATTTT
1 ATTTTTTATTATATATTATATAATTTT
124503260 AAAAATTTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.07
26 25 0.54
27 4 0.09
28 14 0.30
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (28 bp):
ATTTTTTATTATATATTATATAATTTTT
Found at i:124503649 original size:18 final size:18
Alignment explanation
Indices: 124503626--124503660 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
124503616 ATCTCATAAA
124503626 TTATTTATTATTTTTATG
1 TTATTTATTATTTTTATG
*
124503644 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
124503661 ATATTCGCAT
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:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:124522881 original size:16 final size:16
Alignment explanation
Indices: 124522860--124522900 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 16
124522850 AAATAAAAAC
124522860 AATAAAGAACAAGGGT
1 AATAAAGAACAAGGGT
124522876 AATAAAGAGAACAAGGGT
1 AAT-AA-AGAACAAGGGT
124522894 AATAAAG
1 AATAAAG
124522901 CAACTGACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
18 14 0.61
ACGTcount: A:0.59, C:0.05, G:0.24, T:0.12
Consensus pattern (16 bp):
AATAAAGAACAAGGGT
Found at i:124522888 original size:18 final size:18
Alignment explanation
Indices: 124522865--124522900 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
124522855 AAAACAATAA
124522865 AGAACAAGGGTAATAAAG
1 AGAACAAGGGTAATAAAG
124522883 AGAACAAGGGTAATAAAG
1 AGAACAAGGGTAATAAAG
124522901 CAACTGACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.28, T:0.11
Consensus pattern (18 bp):
AGAACAAGGGTAATAAAG
Found at i:124523595 original size:13 final size:13
Alignment explanation
Indices: 124523572--124523624 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
124523562 AGTTTGATAA
124523572 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
124523585 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
124523598 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
124523611 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
124523624 T
1 T
124523625 TTAGTTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:124533483 original size:16 final size:17
Alignment explanation
Indices: 124533459--124533492 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
124533449 TTTCATTTTT
124533459 TAATATATATT-TTAAA
1 TAATATATATTATTAAA
*
124533475 TAATTTATATTATTAAA
1 TAATATATATTATTAAA
124533492 T
1 T
124533493 TACATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATATATATTATTAAA
Found at i:124535029 original size:59 final size:59
Alignment explanation
Indices: 124534958--124535074 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 59
124534948 TTGAAATTAT
** * *
124534958 TTTTATCTAAGTTAGTCCTAAACTTGATAACTGCTCTCACATTAGGACTTAAATTTTTG
1 TTTTATCTAAGTTAACCCTAAACTTGACAACTACTCTCACATTAGGACTTAAATTTTTG
* * * * *
124535017 TTTTATCTAAGTTAACCCTAATCTTGACAATTATTCTCACATTTGGACTTAATTTTTT
1 TTTTATCTAAGTTAACCCTAAACTTGACAACTACTCTCACATTAGGACTTAAATTTTT
124535075 TTGTTTAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.45
Consensus pattern (59 bp):
TTTTATCTAAGTTAACCCTAAACTTGACAACTACTCTCACATTAGGACTTAAATTTTTG
Found at i:124543720 original size:18 final size:18
Alignment explanation
Indices: 124543697--124543738 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
124543687 AGATAGGGAA
124543697 AGAAAA-AAAAATTAAAAG
1 AGAAAACAAAAATT-AAAG
124543715 AGAAAACAAAAATTAAAG
1 AGAAAACAAAAATTAAAG
124543733 AGAAAA
1 AGAAAA
124543739 TATGGTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (18 bp):
AGAAAACAAAAATTAAAG
Found at i:124544803 original size:21 final size:21
Alignment explanation
Indices: 124544779--124544818 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
124544769 TTTTTTTAAA
*
124544779 TTAAATTGAATTAAATAAAAT
1 TTAAATCGAATTAAATAAAAT
*
124544800 TTAAGTCGAATTAAATAAA
1 TTAAATCGAATTAAATAAA
124544819 CTTTTTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (21 bp):
TTAAATCGAATTAAATAAAAT
Found at i:124549228 original size:105 final size:105
Alignment explanation
Indices: 124548993--124549306 Score: 317
Period size: 105 Copynumber: 3.0 Consensus size: 105
124548983 TGTGATATTG
* * * * * * * * *
124548993 TCACATATAATATATTGATCGATGCACATTGTAAGGAGGGGATGATTTATAAAGCTGTAGATATC
1 TCACGTATAATATACTGATTGATGCATATTGTAAAGAGGGAATGGTTTCTAAAGCTATAGATATC
* * * * * *
124549058 GTTGATACAATGGGGAAGCAAGGCATTGAACCTAATATTG
66 GTTGACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTA
* * * * *
124549098 TCACGTATAATATATTTATTGATGCATATTGCAAAGAGGGAATGGTTTCTAAAGCTATAGAAACC
1 TCACGTATAATATACTGATTGATGCATATTGTAAAGAGGGAATGGTTTCTAAAGCTATAGATATC
* *
124549163 ATTGACACAATGAGAAAGCAAGGTATTGAGCCTAATGTTA
66 GTTGACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTA
* * * * * *
124549203 TCACGTATAATATACTGGTTTATGCATATTTTAACA-AGGCAATGGTTACTGAAGCTGA-AGATA
1 TCACGTATAATATACTGATTGATGCATATTGTAA-AGAGGGAATGGTTTCTAAAGCT-ATAGATA
* * *
124549266 TTGTTGACACAATGATAAAGCAAGGCATTGAGCCTGATGTT
64 TCGTTGACACAATGAGAAAGCAAGGCATTGAGCCTAATGTT
124549307 GTTACCTATA
Statistics
Matches: 171, Mismatches: 36, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
105 169 0.99
106 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (105 bp):
TCACGTATAATATACTGATTGATGCATATTGTAAAGAGGGAATGGTTTCTAAAGCTATAGATATC
GTTGACACAATGAGAAAGCAAGGCATTGAGCCTAATGTTA
Found at i:124567073 original size:2 final size:2
Alignment explanation
Indices: 124567066--124567107 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
124567056 ATAAATATGA
124567066 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
124567108 GCAAGAAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124567821 original size:14 final size:14
Alignment explanation
Indices: 124567802--124567831 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
124567792 ATATCCAAAC
124567802 AATAACAATAAAAT
1 AATAACAATAAAAT
*
124567816 AATAACAATATAAT
1 AATAACAATAAAAT
124567830 AA
1 AA
124567832 CGAAATGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAACAATAAAAT
Found at i:124571820 original size:33 final size:33
Alignment explanation
Indices: 124571778--124571844 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
124571768 CCTTTGTGGG
124571778 CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
1 CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
124571811 CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
1 CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
124571844 C
1 C
124571845 TATCTATCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (33 bp):
CAATGGCTATTTTCCAAGGAACTCCCCTCAGCT
Found at i:124575753 original size:26 final size:26
Alignment explanation
Indices: 124575716--124575766 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
124575706 TAGTATAGAC
*
124575716 ATTATTATTATTGTAGGAGAACATAT
1 ATTATTAATATTGTAGGAGAACATAT
124575742 ATTATTAATATTGTAGGAGAACATA
1 ATTATTAATATTGTAGGAGAACATA
124575767 GGTTTGAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (26 bp):
ATTATTAATATTGTAGGAGAACATAT
Found at i:124575836 original size:2 final size:2
Alignment explanation
Indices: 124575829--124575854 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
124575819 ACTATGTAAA
124575829 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
124575855 CAAGACTTAT
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:124577441 original size:21 final size:19
Alignment explanation
Indices: 124577415--124577453 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
124577405 GGTTTATTTT
124577415 ATTATATTTACTATTAATATA
1 ATTATATTTA-T-TTAATATA
124577436 ATTATATTTATTTAATAT
1 ATTATATTTATTTAATAT
124577454 TAATAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATATTTATTTAATATA
Found at i:124580174 original size:23 final size:23
Alignment explanation
Indices: 124580125--124580174 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
124580115 ATTCGTATGG
* *
124580125 TATTAATTTTTTACAAATATTTA
1 TATTAATTTTATACAAATAGTTA
*
124580148 TATTAATTTTCATACCAATAGTT-
1 TATTAATTTT-ATACAAATAGTTA
124580171 TATT
1 TATT
124580175 GTATATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTAATTTTATACAAATAGTTA
Found at i:124584133 original size:21 final size:21
Alignment explanation
Indices: 124584109--124584150 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
124584099 CTCCACGACC
*
124584109 GCCTCCTCTACCACCACCTCT
1 GCCTCCTCCACCACCACCTCT
*
124584130 GCCTCCTCCACGACCACCTCT
1 GCCTCCTCCACCACCACCTCT
124584151 TCCACCACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.57, G:0.07, T:0.21
Consensus pattern (21 bp):
GCCTCCTCCACCACCACCTCT
Found at i:124586027 original size:28 final size:28
Alignment explanation
Indices: 124585996--124586051 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
124585986 TTTTATATTA
* * *
124585996 TATAATTAAATTTTAATTTATTTTAAAT
1 TATAATTAAAATTAAATTAATTTTAAAT
124586024 TATAATTAAAATTAAATTAATTTTAAAT
1 TATAATTAAAATTAAATTAATTTTAAAT
124586052 AGAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TATAATTAAAATTAAATTAATTTTAAAT
Found at i:124586038 original size:17 final size:17
Alignment explanation
Indices: 124585999--124586042 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
124585989 TATATTATAT
* *
124585999 AATTAAATTTTAATTTA
1 AATTAAATTATAATTAA
**
124586016 TTTTAAATTATAATTAA
1 AATTAAATTATAATTAA
124586033 AATTAAATTA
1 AATTAAATTA
124586043 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATTATAATTAA
Found at i:124593597 original size:23 final size:23
Alignment explanation
Indices: 124593538--124593597 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
124593528 ATATATAGAC
124593538 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
124593558 T-AATAAATATTTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
124593581 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
124593598 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:124593606 original size:31 final size:31
Alignment explanation
Indices: 124593537--124593607 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
124593527 CATATATAGA
*
124593537 CTAAATAAAATAATAAAATAATAATAAATAT
1 CTAATTAAAATAATAAAATAATAATAAATAT
* * * *
124593568 TTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAAATAT
124593599 CTAATTAAA
1 CTAATTAAA
124593608 TAACTATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAAATAT
Found at i:124601861 original size:4 final size:4
Alignment explanation
Indices: 124601852--124601893 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
124601842 ATCAAAGTCA
124601852 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
124601894 CAATGGGGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:124605153 original size:124 final size:125
Alignment explanation
Indices: 124604968--124605214 Score: 345
Period size: 124 Copynumber: 2.0 Consensus size: 125
124604958 GTAGAATGTA
* * *
124604968 TATTAATTATGTCATTTTAAATTTTAGTTTAATGTATTATAATAACGAGAATAACATAAGTTCAA
1 TATTAATTATGTCATTTTAAATTTTAGTTTAATCTATTATAATAACGAGAAGAACAAAAGTTCAA
* *
124605033 GTGTGCTTAATCATACATTTTTCTTTGATTTAAGAGTTTGAGAGAACTATAAGTAAAATG
66 GCGTGCTTAATCATACATTTTTCTTCGATTTAAGAGTTTGAGAGAACTATAAGTAAAATG
* * * *
124605093 TATTAATTATGTCA-TTTGAGTTTTAGTTTAATCTATTGTAATAATC-AGGAGAACAAAAGTTCA
1 TATTAATTATGTCATTTTAAATTTTAGTTTAATCTATTATAATAA-CGAGAAGAACAAAAGTTCA
** * * *
124605156 AGCGTGCTTAATCATGTATTTTTCTTCGATTTAAGAGTTTGAGAGGATTTTAAGTAAAA
65 AGCGTGCTTAATCATACATTTTTCTTCGATTTAAGAGTTTGAGAGAACTATAAGTAAAA
124605215 ATAGACATTG
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
124 92 0.86
125 15 0.14
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (125 bp):
TATTAATTATGTCATTTTAAATTTTAGTTTAATCTATTATAATAACGAGAAGAACAAAAGTTCAA
GCGTGCTTAATCATACATTTTTCTTCGATTTAAGAGTTTGAGAGAACTATAAGTAAAATG
Found at i:124607058 original size:2 final size:2
Alignment explanation
Indices: 124607051--124607078 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
124607041 TTATATTGTT
124607051 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
124607079 ATAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:124608354 original size:23 final size:24
Alignment explanation
Indices: 124608328--124608374 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
124608318 AAATATCTAA
124608328 TATGATGTATA-AAAAATTAAAAT
1 TATGATGTATATAAAAATTAAAAT
* * *
124608351 TATGGTTTATATAAAATTTAAAAT
1 TATGATGTATATAAAAATTAAAAT
124608375 GGAAACGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (24 bp):
TATGATGTATATAAAAATTAAAAT
Found at i:124614061 original size:2 final size:2
Alignment explanation
Indices: 124614054--124614087 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
124614044 ACCTTTCTAC
*
124614054 TA TA TA TA TA TA TA TA TA TA TA TA TT TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
124614088 TTTAGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:124615617 original size:11 final size:11
Alignment explanation
Indices: 124615603--124615628 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
124615593 TGAAATTTTC
124615603 TCAAAATTCTA
1 TCAAAATTCTA
124615614 TCAAAATTCTA
1 TCAAAATTCTA
124615625 TCAA
1 TCAA
124615629 TTTTATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:124615882 original size:48 final size:47
Alignment explanation
Indices: 124615764--124615898 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 47
124615754 AGTGATAATT
* * *
124615764 TTAAATTTTCAATACTATTCGATATTTTCTTAATTTATGCAAATTTAA
1 TTAAAATTTCAATACTATT-GATATTTTTTTCATTTATGCAAATTTAA
*
124615812 TT-AAATTTGCAATACTATTTGATATTTTTTTCATTTATGC-AGTTATAA
1 TTAAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAAATT-TAA
* *
124615860 TTAAAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TTAAAATTTCAATACT-ATTGATATTTTTTTCATTTATG
124615899 ATGTTTGCAT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
47 8 0.11
48 60 0.79
49 8 0.11
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (47 bp):
TTAAAATTTCAATACTATTGATATTTTTTTCATTTATGCAAATTTAA
Found at i:124617518 original size:18 final size:18
Alignment explanation
Indices: 124617495--124617537 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
124617485 CGCGAGGTGC
*
124617495 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
124617513 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
124617531 GTTTCCT
1 GTATCCT
124617538 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:124620522 original size:75 final size:75
Alignment explanation
Indices: 124620443--124620622 Score: 297
Period size: 75 Copynumber: 2.4 Consensus size: 75
124620433 GGTGCATATC
* *
124620443 CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATACTGCTACTAAACACGGGCGCTT
1 CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATAATGCTACTAAACACGGGCACTT
*
124620508 CCGTGTTTTT
66 CCGTGTTTTG
* *
124620518 CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATAATGCTATTAAACATGGGCACTT
1 CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATAATGCTACTAAACACGGGCACTT
*
124620583 CGGTGTTTTG
66 CCGTGTTTTG
*
124620593 CCATCCACTAACGGAGTGTCGGGCAGGGGT
1 CCATCCACTAACGGAGTGTCGTGCAGGGGT
124620623 CGTATACTCC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 98 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (75 bp):
CCATCCACTAACGGAGTGTCGTGCAGGGGTTGGGTATTCCATAATGCTACTAAACACGGGCACTT
CCGTGTTTTG
Found at i:124621328 original size:126 final size:126
Alignment explanation
Indices: 124621086--124621464 Score: 521
Period size: 126 Copynumber: 3.0 Consensus size: 126
124621076 GCTCATTTGT
*
124621086 AGGCTCATTTTTCTGTGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAACTT
1 AGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAC-T
* *
124621151 TTTGCTGACAGTGCATCTTGCTTGAAGCATTTTCGATACTATTTGTTCAGAAACGTCTACTC
65 TTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
* * * *
124621213 AGGCTCATTTTCCTGCAAATTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGAACTT
1 AGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAACTT
* * * * * *
124621278 TTGTTGACAGTGCATCCTACTTGAAGCGTTTTCAACACTATCTATTCAGAAACGTCTACTC
66 TTGCTGACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
* * * * *
124621339 -GGATTTATTTTTCTACGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAG-TTTTTTCCAGAAA
1 AGG-CTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTT-CAGAAC
* * *
124621402 TTTT-CTGACACTGCATCTTGCTTGAAGTGTTTTCGACACTATTTGTTCAGAAATGTCTACTC
64 TTTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
124621464 A
1 A
124621465 AAATTATTCT
Statistics
Matches: 218, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
125 57 0.26
126 103 0.47
127 58 0.27
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (126 bp):
AGGCTCATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAACTT
TTGCTGACAGTGCATCTTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC
Found at i:124622150 original size:24 final size:24
Alignment explanation
Indices: 124622117--124622193 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
124622107 ATTTTTTTAT
*
124622117 AAACCCTAAAAACCTTTAAACCCT-A
1 AAACCATAAAAACC-TT-AACCCTAA
124622142 AAA-CATAAAAAAACCTTAACCCTAA
1 AAACCAT--AAAAACCTTAACCCTAA
* *
124622167 AAACCATAAAAACCCTAA-CGTAA
1 AAACCATAAAAACCTTAACCCTAA
124622190 AAAC
1 AAAC
124622194 GGGCAAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
23 8 0.18
24 18 0.40
25 9 0.20
26 10 0.22
ACGTcount: A:0.56, C:0.27, G:0.01, T:0.16
Consensus pattern (24 bp):
AAACCATAAAAACCTTAACCCTAA
Found at i:124622174 original size:26 final size:26
Alignment explanation
Indices: 124622124--124622178 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 26
124622114 TATAAACCCT
124622124 AAAAACCTTTAAACCCTAAAACATAA
1 AAAAACCTTTAAACCCTAAAACATAA
124622150 AAAAACC-TT-AACCCTAAAAACCATAA
1 AAAAACCTTTAAACCCT-AAAA-CATAA
124622176 AAA
1 AAA
124622179 CCCTAACGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 6 0.22
25 6 0.22
26 15 0.56
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (26 bp):
AAAAACCTTTAAACCCTAAAACATAA
Found at i:124628629 original size:3 final size:3
Alignment explanation
Indices: 124628557--124628615 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
124628547 TATTGTATTT
*
124628557 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
124628605 ATA ATA ATA AT
1 ATA ATA ATA AT
124628616 TTCTTTAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:124629051 original size:23 final size:24
Alignment explanation
Indices: 124629007--124629052 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
124628997 TTATAATTGT
* *
124629007 AAAAGTTAAATTTTATTATTTTTA
1 AAAAATTAAATTTAATTATTTTTA
124629031 AAAAATTAAA-TTAATT-TTTTTA
1 AAAAATTAAATTTAATTATTTTTA
124629053 TTTTTAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 5 0.25
24 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
AAAAATTAAATTTAATTATTTTTA
Found at i:124629515 original size:89 final size:90
Alignment explanation
Indices: 124629381--124629562 Score: 357
Period size: 89 Copynumber: 2.0 Consensus size: 90
124629371 TTGTGTCTCC
124629381 ATTGTTTTGTTTTATTTTATTTTTTTTGAAAATATGAAGCATTTATATATTTTCTAAATTTAAAA
1 ATTGTTTTGTTTTATTTTATTTTTTTTGAAAATATGAAGCATTTATATATTTTCTAAATTTAAAA
124629446 TAAATTTAAGATTTTCTCATCAATT
66 TAAATTTAAGATTTTCTCATCAATT
124629471 ATTGTTTTGTTTTATTTTA-TTTTTTTGAAAATATGAAGCATTTATATATTTTCTAAATTTAAAA
1 ATTGTTTTGTTTTATTTTATTTTTTTTGAAAATATGAAGCATTTATATATTTTCTAAATTTAAAA
124629535 TAAATTTAAGATTTTCTCATCAATT
66 TAAATTTAAGATTTTCTCATCAATT
124629560 ATT
1 ATT
124629563 TTAAATTTAA
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 73 0.79
90 19 0.21
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (90 bp):
ATTGTTTTGTTTTATTTTATTTTTTTTGAAAATATGAAGCATTTATATATTTTCTAAATTTAAAA
TAAATTTAAGATTTTCTCATCAATT
Found at i:124629593 original size:89 final size:89
Alignment explanation
Indices: 124629408--124629586 Score: 263
Period size: 89 Copynumber: 2.0 Consensus size: 89
124629398 TATTTTTTTT
124629408 GAAAATATGAAGCATTTATATATTTTCTAAATTTAAAATAAATTTAAGATTTTCTCATCAATTAT
1 GAAAATATGAAGCATTTATATATTTTCTAAATTTAAAATAAATTTAAGATTTTCTCATCAATTAT
*** * ****
124629473 TGTTTTGTTTTATTTTATTTTTTT
66 TGTTAAATTTAATTTTATTTACAA
124629497 GAAAATATGAAGCATTTATATATTTTCTAAATTTAAAATAAATTTAAGATTTTCTCATCAATTAT
1 GAAAATATGAAGCATTTATATATTTTCTAAATTTAAAATAAATTTAAGATTTTCTCATCAATTAT
124629562 T-TTAAATTTAATTTT-TATTACAA
66 TGTTAAATTTAATTTTAT-TTACAA
124629585 GA
1 GA
124629587 TGAATATTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
87 1 0.01
88 14 0.17
89 66 0.81
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (89 bp):
GAAAATATGAAGCATTTATATATTTTCTAAATTTAAAATAAATTTAAGATTTTCTCATCAATTAT
TGTTAAATTTAATTTTATTTACAA
Found at i:124630263 original size:26 final size:27
Alignment explanation
Indices: 124630224--124630281 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 27
124630214 TATCAATATC
124630224 AGGGGCAAAACTAGGAAAAAAAATTT-
1 AGGGGCAAAACTAGGAAAAAAAATTTA
*
124630250 AGGGGCAAAGCTAGGAAAAAAAATTTA
1 AGGGGCAAAACTAGGAAAAAAAATTTA
124630277 AGGGG
1 AGGGG
124630282 AGTCGAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.50, C:0.07, G:0.29, T:0.14
Consensus pattern (27 bp):
AGGGGCAAAACTAGGAAAAAAAATTTA
Found at i:124630364 original size:47 final size:48
Alignment explanation
Indices: 124630295--124630391 Score: 187
Period size: 47 Copynumber: 2.0 Consensus size: 48
124630285 CGAAATTAAA
124630295 TTGTTCATCTTTTTATAATATTTAAAGGATTAAATTA-TTTTTTTTAC
1 TTGTTCATCTTTTTATAATATTTAAAGGATTAAATTATTTTTTTTTAC
124630342 TTGTTCATCTTTTTATAATATTTAAAGGATTAAATTATTTTTTTTTAC
1 TTGTTCATCTTTTTATAATATTTAAAGGATTAAATTATTTTTTTTTAC
124630390 TT
1 TT
124630392 TTAGAGGGCC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 37 0.76
48 12 0.24
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (48 bp):
TTGTTCATCTTTTTATAATATTTAAAGGATTAAATTATTTTTTTTTAC
Found at i:124645693 original size:33 final size:33
Alignment explanation
Indices: 124645656--124645779 Score: 203
Period size: 33 Copynumber: 3.8 Consensus size: 33
124645646 CTCTGTTTCA
124645656 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
124645689 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
124645722 GGCTGCTGGACAGGAGCTGGAATGCGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
124645755 GGTTGCTAGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
124645780 CAAGAAGAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.19, C:0.11, G:0.42, T:0.28
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:124650720 original size:41 final size:41
Alignment explanation
Indices: 124650663--124650745 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
124650653 TGTTAACAGT
124650663 AGCAGCATATCCCAATCTAAATCCCATTACCAAAACTCGAA
1 AGCAGCATATCCCAATCTAAATCCCATTACCAAAACTCGAA
*
124650704 AGCAGCATATCCCAATCTAAATCCCATTACCATAACTCGAA
1 AGCAGCATATCCCAATCTAAATCCCATTACCAAAACTCGAA
124650745 A
1 A
124650746 CCCCTAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.31, G:0.07, T:0.20
Consensus pattern (41 bp):
AGCAGCATATCCCAATCTAAATCCCATTACCAAAACTCGAA
Found at i:124654713 original size:17 final size:19
Alignment explanation
Indices: 124654691--124654726 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
124654681 AGACTTAAAA
124654691 AGAAGTCTA-AA-AGGAGT
1 AGAAGTCTACAAGAGGAGT
124654708 AGAAGTCTACAAGAGGAGT
1 AGAAGTCTACAAGAGGAGT
124654727 GGGACTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.44, C:0.08, G:0.31, T:0.17
Consensus pattern (19 bp):
AGAAGTCTACAAGAGGAGT
Found at i:124656465 original size:20 final size:21
Alignment explanation
Indices: 124656421--124656475 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
124656411 TAGATTTTAA
*
124656421 TAAAAAA-TATTAAAAATTAG
1 TAAAAAATTATAAAAAATTAG
*
124656441 AAAAAAATTATAAAAAATT-G
1 TAAAAAATTATAAAAAATTAG
**
124656461 TAAAATTTTATAAAA
1 TAAAAAATTATAAAA
124656476 TTCATAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (21 bp):
TAAAAAATTATAAAAAATTAG
Found at i:124657841 original size:32 final size:33
Alignment explanation
Indices: 124657783--124657848 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
124657773 AAAATTTGCA
*
124657783 ACATAAGCCCCTCTACTTTTTTTATATAAATTT
1 ACATAAACCCCTCTACTTTTTTTATATAAATTT
124657816 ACATAAACCCCTCTAC-TTTTTTATATAAATTT
1 ACATAAACCCCTCTACTTTTTTTATATAAATTT
124657848 A
1 A
124657849 AGTGGTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (33 bp):
ACATAAACCCCTCTACTTTTTTTATATAAATTT
Found at i:124659204 original size:24 final size:24
Alignment explanation
Indices: 124659177--124659225 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
124659167 AAATGTTCGT
* *
124659177 GGATTGATCAATCCTAGAATGAAG
1 GGATTGAGCAATCCTAGAACGAAG
124659201 GGATTGAGCAATCCTAGAACGAAG
1 GGATTGAGCAATCCTAGAACGAAG
124659225 G
1 G
124659226 AAGGAAGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (24 bp):
GGATTGAGCAATCCTAGAACGAAG
Found at i:124661983 original size:84 final size:86
Alignment explanation
Indices: 124661854--124662026 Score: 251
Period size: 84 Copynumber: 2.0 Consensus size: 86
124661844 CCAACTGATT
* * *
124661854 AGGGGTCACTCTATTAGATAATCCAGAGGAAATAACACCAGAATCAGCTCTTGGACCTGATAATG
1 AGGGGTCACTCTATTA-ATAATCCAGAAGAAATAACACCAGAATCACCACTTGGACCTGATAATG
*
124661919 AAGGTAACACTTCTGCAGTTCC
65 AAGGCAACACTTCTGCAGTTCC
* * **
124661941 AGGGGTCACTCTA-T-ATAATCCTGAAGAACTAACAGTAGAATCACCACTTGGACCTGATAATGA
1 AGGGGTCACTCTATTAATAATCCAGAAGAAATAACACCAGAATCACCACTTGGACCTGATAATGA
124662004 AGGCAACACTTCTGCAGTTCC
66 AGGCAACACTTCTGCAGTTCC
124662025 AG
1 AG
124662027 TACTTGACCC
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
84 64 0.82
86 1 0.01
87 13 0.17
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (86 bp):
AGGGGTCACTCTATTAATAATCCAGAAGAAATAACACCAGAATCACCACTTGGACCTGATAATGA
AGGCAACACTTCTGCAGTTCC
Found at i:124670036 original size:31 final size:31
Alignment explanation
Indices: 124669995--124670058 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
124669985 TTACAAAATG
* * *
124669995 ATCATTAAACTATTTGAAAGTTTTTATTTAA
1 ATCACTAAACTATTCGAAAGTTTTCATTTAA
*
124670026 ATCACTAAACTATTCGGAAGTTTTCATTTAA
1 ATCACTAAACTATTCGAAAGTTTTCATTTAA
124670057 AT
1 AT
124670059 TATAAGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
ATCACTAAACTATTCGAAAGTTTTCATTTAA
Found at i:124672447 original size:38 final size:38
Alignment explanation
Indices: 124672405--124672480 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
124672395 CTTGTGTTGG
124672405 AAAACATTGGCTCTAAGTTACAGCATCAACTTCACCTC
1 AAAACATTGGCTCTAAGTTACAGCATCAACTTCACCTC
124672443 AAAACATTGGCTCTAAGTTACAGCATCAACTTCACCTC
1 AAAACATTGGCTCTAAGTTACAGCATCAACTTCACCTC
124672481 TTCTTTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (38 bp):
AAAACATTGGCTCTAAGTTACAGCATCAACTTCACCTC
Found at i:124674739 original size:18 final size:19
Alignment explanation
Indices: 124674713--124674756 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
124674703 TATTAAATAA
124674713 ATATATTTTTT-AAT-TTTT
1 ATAT-TTTTTTGAATGTTTT
124674731 ATATTTTTTTGAATGTTTT
1 ATATTTTTTTGAATGTTTT
124674750 ATATTTT
1 ATATTTT
124674757 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 7 0.29
19 11 0.46
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
ATATTTTTTTGAATGTTTT
Found at i:124684643 original size:63 final size:63
Alignment explanation
Indices: 124684565--124684690 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
124684555 GCAAAGTCAA
124684565 TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGAATCCAGTTATACTTGAAGT
1 TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGAATCCAGTTATACTTGAAGT
* *
124684628 TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGGATTCAGTTATACTTGAAGT
1 TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGAATCCAGTTATACTTGAAGT
124684691 GAACTTCAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (63 bp):
TAATTAGATATTTAATTCAAATCAAAATCTCACTTTAAAAGTGAATCCAGTTATACTTGAAGT
Found at i:124685065 original size:2 final size:2
Alignment explanation
Indices: 124685058--124685090 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
124685048 GACAACATTA
124685058 AT 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 A
124685091 AAAACACAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:124686700 original size:51 final size:51
Alignment explanation
Indices: 124686641--124686742 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
124686631 TATTCAACAC
* *
124686641 TAGTTCGAGTCTGGATAATGATTGAAGATAGAGGAAGAAACCTGCAAAGGG
1 TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTGCAAAGGG
124686692 TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTGCAAAGGG
1 TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTGCAAAGGG
124686743 GAACTACTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (51 bp):
TAGTTCGAGTCTGGATAATGATTCAAGATAGAAGAAGAAACCTGCAAAGGG
Found at i:124689180 original size:150 final size:149
Alignment explanation
Indices: 124688781--124689558 Score: 525
Period size: 150 Copynumber: 5.1 Consensus size: 149
124688771 TACTAATGGA
* * * * * * *
124688781 AATGGAAAAGCAGG-TCTACCAACAAATCTTAGGCATGATGCTAACAGATTCATTTTGAAAATGC
1 AATGGAAAAGCAGGCACAACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTT-AAAA---
* * * **
124688845 CCTGTTATGTTATATGCTAT-TGGGTTCATATGGCTACTTTTAAGTTCAATGTTTCATCGCTTCT
62 --TGTT-TGTTATATGCTATAT-GGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCT
* * ** *
124688909 ATTTCAGTTATACAATGTTTGACGACT
123 ATTTCAGTTCTACAATGCTCAATGACT
* * * * * * ** * *
124688936 AATGAAAACAGAAAGACAAGCACTACGAAA-TAATCTTAGGCATGATGCTAATGGACTCACTCTG
1 AATG----GA-AAAG-CAGGCACAAC-AAAGAAATCTCAAGCATGATGCTAACAGATTCACT-TT
* * *
124689000 AAAATGTTATGTTATATGCTATTTGGTTCATATGGCTGCCTTCTGAGTTCAACGTTTCATTACTT
58 AAAATGTT-TGTTATATGCTATATGGTTCATATGGCTGCTTTC-AAGTTCAACGTTTCATTACTT
* *
124689065 CTGTTTCAGTTCTAGAAT-CTCAATGACT
121 CTATTTCAGTTCTACAATGCTCAATGACT
124689093 AATGGAAAAGCAGGC-CAAACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTTAAAATGT
1 AATGGAAAAGCAGGCAC-AACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTTAAAATGT
* * * * *
124689157 ATTGTTATATGCTATACGGTTCATGTAGCTGCTTTCAAGTTC-ACTCTTTCATTTCTTCTATTTC
65 -TTGTTATATGCTATATGGTTCATATGGCTGCTTTCAAGTTCAAC-GTTTCATTACTTCTATTTC
*
124689221 AGTTCTACAATGCTCAATGGCT
128 AGTTCTACAATGCTCAATGACT
* * * * * *
124689243 AATGGAAAGGCAGGCACTACCAATAAATCTCAGGCTTGATGCTAACAGATTCACTTTGAAAATGT
1 AATGGAAAAGCAGGCACAACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTT-AAAATGT
* * * *
124689308 CTTGTTATAATGCTA-ATGGCTTCATATGGATGCTTTCAAGTTCAATGCTTCATTGCTTCTATTT
65 -TTGTTAT-ATGCTATATGG-TTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCTATTT
* * *
124689372 CAGCTCTACAATGTTCGATGACT
127 CAGTTCTACAATGCTCAATGACT
* * * * * * * *
124689395 AATGGAAACCAAAAAGGCAGGCACTACAAA-ATAATCTTAGGCACGATGTTAA-GGATTTAATCT
1 AATGG------AAAA-GCAGGCACAACAAAGA-AATCTCAAGCATGATGCTAACAGATTCACT-T
* * * * * * * *
124689458 GAACATG-TCGTTTATAAGCTA-ATTGGTTCACATGGCTGGTTTCAAGTTCAATGTTTCTTTACT
57 TAAAATGTTTG-TTATATGCTATA-TGGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACT
* * *
124689521 TCTATTCCAGCTCTACAATGTTCAATGACT
120 TCTATTTCAGTTCTACAATGCTCAATGACT
124689551 AATGGAAA
1 AATGGAAA
124689559 GGCGGACAAT
Statistics
Matches: 506, Mismatches: 85, Indels: 69
0.77 0.13 0.10
Matches are distributed among these distances:
148 2 0.00
149 31 0.06
150 102 0.20
151 50 0.10
152 69 0.14
153 2 0.00
155 4 0.01
156 72 0.14
157 51 0.10
158 48 0.09
159 31 0.06
160 4 0.01
161 3 0.01
162 34 0.07
163 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (149 bp):
AATGGAAAAGCAGGCACAACAAAGAAATCTCAAGCATGATGCTAACAGATTCACTTTAAAATGTT
TGTTATATGCTATATGGTTCATATGGCTGCTTTCAAGTTCAACGTTTCATTACTTCTATTTCAGT
TCTACAATGCTCAATGACT
Found at i:124697662 original size:18 final size:18
Alignment explanation
Indices: 124697639--124697675 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
124697629 TTTGTTTTTC
124697639 TAATTTAAATCTTAGGAT
1 TAATTTAAATCTTAGGAT
*
124697657 TAATTTAGATCTTAGGAT
1 TAATTTAAATCTTAGGAT
124697675 T
1 T
124697676 TAAATAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (18 bp):
TAATTTAAATCTTAGGAT
Found at i:124702624 original size:27 final size:28
Alignment explanation
Indices: 124702594--124702646 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
124702584 TATTTTTTGA
* * *
124702594 AATTATG-AAAATATTTTTAAAAATTGT
1 AATTATGTAAAAAAATTATAAAAATTGT
124702621 AATTATGTAAAAAAATTATAAAAATT
1 AATTATGTAAAAAAATTATAAAAATT
124702647 TTATAACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (28 bp):
AATTATGTAAAAAAATTATAAAAATTGT
Found at i:124710109 original size:18 final size:17
Alignment explanation
Indices: 124710086--124710153 Score: 79
Period size: 18 Copynumber: 4.0 Consensus size: 17
124710076 AAATAGGAGA
124710086 TATTATTTTATGTTATTT
1 TATTATTTTAT-TTATTT
124710104 TATTATTTTA-TTATTT
1 TATTATTTTATTTATTT
124710120 TATTATTTATTATTTA-TT
1 TATTA-TT-TTATTTATTT
*
124710138 T-TTATTTTATTAATTT
1 TATTATTTTATTTATTT
124710154 AGTTTTAGCC
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
15 6 0.13
16 15 0.33
17 5 0.11
18 16 0.36
19 3 0.07
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.74
Consensus pattern (17 bp):
TATTATTTTATTTATTT
Found at i:124710111 original size:8 final size:8
Alignment explanation
Indices: 124710086--124710154 Score: 77
Period size: 8 Copynumber: 8.2 Consensus size: 8
124710076 AAATAGGAGA
124710086 TATTATTT
1 TATTATTT
124710094 TATGTTATTT
1 TA--TTATTT
124710104 TATTATTT
1 TATTATTT
124710112 TATTATTT
1 TATTATTT
124710120 TATTA-TT
1 TATTATTT
124710127 TATTATTTAT
1 TATTA-TT-T
*
124710137 TTTTATTT
1 TATTATTT
*
124710145 TATTAATT
1 TATTATTT
124710153 TA
1 TA
124710155 GTTTTAGCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
7 7 0.13
8 30 0.57
9 3 0.06
10 13 0.25
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (8 bp):
TATTATTT
Found at i:124710121 original size:26 final size:23
Alignment explanation
Indices: 124710098--124710143 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
124710088 TTATTTTATG
124710098 TTATTTTATTATTTTATTATTTTA
1 TTATTTTATTATTTTATTA-TTTA
124710122 TTA-TTTATTA-TTTATT-TTTA
1 TTATTTTATTATTTTATTATTTA
124710142 TT
1 TT
124710144 TTATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.27
22 6 0.27
23 7 0.32
24 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
TTATTTTATTATTTTATTATTTA
Found at i:124711002 original size:22 final size:23
Alignment explanation
Indices: 124710977--124711022 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
124710967 CAACCAAATC
124710977 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
124710999 AATTCATTCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
124711022 A
1 A
124711023 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:124711028 original size:23 final size:23
Alignment explanation
Indices: 124710984--124711028 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
124710974 ATCAATTCAA
*
124710984 CATATTTTCAAGATAAATTCATT
1 CATATTTTCAAGATAAAGTCATT
*
124711007 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
124711029 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATT
Found at i:124717208 original size:21 final size:21
Alignment explanation
Indices: 124717184--124717224 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
124717174 AGCTTAAATG
124717184 ATGGTTGAATAAGTA-GAATTC
1 ATGGTTGAA-AAGTATGAATTC
124717205 ATGGTTGAAAAGTATGAATT
1 ATGGTTGAAAAGTATGAATT
124717225 GAAATTGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
ATGGTTGAAAAGTATGAATTC
Found at i:124718562 original size:39 final size:39
Alignment explanation
Indices: 124718505--124718663 Score: 228
Period size: 39 Copynumber: 4.1 Consensus size: 39
124718495 CATGGTATTT
* *
124718505 GAAATATATCCGGGCATGAGGTCCGCAGGCTATATGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* * *
124718544 GGAATATATCCGGACATGAAGTCCGTAGGCTATGTGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* *
124718583 GAAATATATCCGGACATGAGGTCCGCAGGCTATCTGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
* **
124718622 GAAATATATCCGGACTTGAAGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
124718661 GAA
1 GAA
124718664 TCGTACCCTG
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GAAATATATCCGGACATGAAGTCCGCAGGCTATATGCTG
Found at i:124718634 original size:78 final size:78
Alignment explanation
Indices: 124718505--124718663 Score: 264
Period size: 78 Copynumber: 2.0 Consensus size: 78
124718495 CATGGTATTT
* * *
124718505 GAAATATATCCGGGCATGAGGTCCGCAGGCTATATGCTGGGAATATATCCGGACATGAAGTCCGT
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAATATATCCGGACATGAAGTCCGC
*
124718570 AGGCTATGTGCTG
66 AGGCTACGTGCTG
* *
124718583 GAAATATATCCGGACATGAGGTCCGCAGGCTATCTGCTGGAAATATATCCGGACTTGAAGTCCGC
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAATATATCCGGACATGAAGTCCGC
124718648 AGGCTACGTGCTG
66 AGGCTACGTGCTG
124718661 GAA
1 GAA
124718664 TCGTACCCTG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (78 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAATATATCCGGACATGAAGTCCGC
AGGCTACGTGCTG
Found at i:124728579 original size:39 final size:39
Alignment explanation
Indices: 124728523--124728681 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
124728513 CATGGTATTT
* * *
124728523 GAAATATATCCGGACATGAGGTCTGTAGGCTATATGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
* *
124728562 GGAATATATCCGGACATGAAGTCCGCAGGCTATGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
*
124728601 GAAATATATCCGGATATGAGGTCCGCAGGCTATGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
* * *
124728640 GAAATATATCCGGACTTGAAGTCCGCAGGCTACGTGCTG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
124728679 GAA
1 GAA
124728682 TGGTACCCGG
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (39 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTATGTGCTG
Found at i:124730912 original size:46 final size:45
Alignment explanation
Indices: 124730862--124731030 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
124730852 TGAGCATCCA
124730862 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* * * * *
124730908 AACTCGTTGTGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCCG
* *
124730955 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
*
124731001 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
124731031 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 56 0.55
47 28 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCCG
Found at i:124731015 original size:93 final size:93
Alignment explanation
Indices: 124730855--124731025 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
124730845 GGATGGTTGA
* * *
124730855 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGTGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
124730920 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
124730948 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
124731013 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
124731026 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:124732539 original size:18 final size:18
Alignment explanation
Indices: 124732518--124732578 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
124732508 GAACAATTAT
124732518 TTATTCAGTAACAGA-CAG
1 TTATTCAGTAACA-ACCAG
* * *
124732536 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAACCAG
* *
124732554 TTATTCAATAATAACCAG
1 TTATTCAGTAACAACCAG
124732572 TTATTCA
1 TTATTCA
124732579 ATATCGATCA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
17 1 0.03
18 34 0.97
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAACCAG
Found at i:124732558 original size:36 final size:36
Alignment explanation
Indices: 124732509--124732577 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
124732499 TAACACTCAG
* * *
124732509 AACAATTATTTATTCAGTAACAGA-CAGTTATTCGGT
1 AACAATCAATTATTCAATAACA-ACCAGTTATTCGGT
*
124732545 AACAATCAATTATTCAATAATAACCAGTTATTC
1 AACAATCAATTATTCAATAACAACCAGTTATTC
124732578 AATATCGATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.04
36 27 0.96
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.35
Consensus pattern (36 bp):
AACAATCAATTATTCAATAACAACCAGTTATTCGGT
Found at i:124732624 original size:18 final size:18
Alignment explanation
Indices: 124732598--124732771 Score: 113
Period size: 18 Copynumber: 9.6 Consensus size: 18
124732588 AATTGATCGG
*
124732598 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
124732616 TTATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
* * *
124732634 GGTATTTAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
124732652 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
* *
124732671 TTATTCAGTAA-TGATTAA
1 TTATTCAGTAACAG-TCAA
* * *
124732689 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
*
124732707 TTATTCAGTAATAGTCTAA
1 TTATTCAGTAACAGTC-AA
* *
124732726 -TATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAA
* *
124732743 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
124732761 TTATTCAGTAA
1 TTATTCAGTAA
124732772 TAATCAGTTA
Statistics
Matches: 119, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
17 3 0.03
18 102 0.86
19 14 0.12
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:124732705 original size:10 final size:10
Alignment explanation
Indices: 124732690--124732737 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
124732680 AATGATTAAT
124732690 TATTCAGTAA
1 TATTCAGTAA
124732700 TATTCAGT--
1 TATTCAGTAA
124732708 TATTCAGTAA
1 TATTCAGTAA
*
124732718 TAGTC--TAA
1 TATTCAGTAA
*
124732726 TATCCAGTAA
1 TATTCAGTAA
124732736 TA
1 TA
124732738 GTCAATTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
8 14 0.45
10 17 0.55
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (10 bp):
TATTCAGTAA
Found at i:124732734 original size:36 final size:37
Alignment explanation
Indices: 124732597--124732783 Score: 145
Period size: 36 Copynumber: 5.2 Consensus size: 37
124732587 CAATTGATCG
* * * *
124732597 GTTATCCAGTAACAGTC-AATTATTCAGTAACTATTAA
1 GTTATTCAGTAATAGTCTAATTATTCAGTAA-TAATCA
* * ** * *
124732634 GGTATTTAGTAGCAGTC--ATTCATTCAGTGACAATCA
1 GTTATTCAGTAATAGTCTAATT-ATTCAGTAATAATCA
*
124732670 GTTATTCAGTAAT-GAT-TAATTATTCAGTAATATTCA
1 GTTATTCAGTAATAG-TCTAATTATTCAGTAATAATCA
* *
124732706 GTTATTCAGTAATAGTCTAA-TATCCAGTAATAGTCA
1 GTTATTCAGTAATAGTCTAATTATTCAGTAATAATCA
* * * *
124732742 ATTATCCGGTAACAGTC-AATTATTCAGTAATAATCA
1 GTTATTCAGTAATAGTCTAATTATTCAGTAATAATCA
124732778 GTTATT
1 GTTATT
124732784 TTATACCTTT
Statistics
Matches: 118, Mismatches: 25, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
35 3 0.03
36 87 0.74
37 28 0.24
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.37
Consensus pattern (37 bp):
GTTATTCAGTAATAGTCTAATTATTCAGTAATAATCA
Found at i:124732958 original size:6 final size:6
Alignment explanation
Indices: 124732947--124732977 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
124732937 ACAAATCCGG
124732947 AACAGT AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT AACAGT A
124732978 TTCAACACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:124733104 original size:45 final size:45
Alignment explanation
Indices: 124732957--124733100 Score: 225
Period size: 45 Copynumber: 3.2 Consensus size: 45
124732947 AACAGTAACA
* *
124732957 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
*
124733002 GTAACGGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
* * * *
124733047 ATAACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATTG
1 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
124733092 GTAACAGTA
1 GTAACAGTA
124733101 GCAGCAGCGG
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
Found at i:124733526 original size:5 final size:5
Alignment explanation
Indices: 124733515--124733556 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
124733505 AATTAATCAT
* *
124733515 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
124733557 CTTATCCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:124735215 original size:2 final size:2
Alignment explanation
Indices: 124735208--124735245 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
124735198 TGTTTTACTT
124735208 TA TA 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 TA TA
124735246 ATAACAATAA
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):
TA
Found at i:124740613 original size:7 final size:7
Alignment explanation
Indices: 124740601--124740646 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
124740591 GAGATTTTAT
124740601 TTTATTA
1 TTTATTA
124740608 TTTATTA
1 TTTATTA
124740615 TTTATTA
1 TTTATTA
124740622 TTTATTA
1 TTTATTA
124740629 TTTATT-
1 TTTATTA
124740635 TTTATT-
1 TTTATTA
124740641 TTTATT
1 TTTATT
124740647 TTATTAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
6 12 0.31
7 27 0.69
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTATTA
Found at i:124740629 original size:17 final size:17
Alignment explanation
Indices: 124740602--124740652 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
124740592 AGATTTTATT
124740602 TTATTATTTATTA--T-
1 TTATTATTTATTATTTA
124740616 TTATTATTTATTATTTA
1 TTATTATTTATTATTTA
*
124740633 TTTTTATTT-TTATTTTA
1 TTATTATTTATTA-TTTA
124740650 TTA
1 TTA
124740653 ATTTAGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 13 0.42
16 4 0.13
17 14 0.45
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTATTTATTATTTA
Found at i:124740648 original size:11 final size:11
Alignment explanation
Indices: 124740595--124740651 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
124740585 AAATAGGAGA
124740595 TTTTATTTTAT
1 TTTTATTTTAT
124740606 TATTTA--TTAT
1 T-TTTATTTTAT
124740616 TTATTA-TTTAT
1 TT-TTATTTTAT
124740627 TATTTATTTTTAT
1 T-TTTA-TTTTAT
124740640 TTTTATTTTAT
1 TTTTATTTTAT
124740651 T
1 T
124740652 AATTTAGCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
9 1 0.03
10 8 0.20
11 16 0.40
12 9 0.22
13 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:124740650 original size:21 final size:22
Alignment explanation
Indices: 124740595--124740657 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 22
124740585 AAATAGGAGA
124740595 TTTTATTTTA-TTATTTATTAT
1 TTTTATTTTATTTATTTATTAT
124740616 TTATTATTTATTATTTATTT-TTAT
1 TT-TTA-TT-TTATTTATTTATTAT
*
124740640 TTTTATTTTATTAATTTA
1 TTTTATTTTATTTATTTA
124740658 GCTTTAGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
21 11 0.31
22 5 0.14
23 5 0.14
24 9 0.25
25 6 0.17
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTATTTTATTTATTTATTAT
Found at i:124743259 original size:66 final size:68
Alignment explanation
Indices: 124743181--124743367 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
124743171 TAGTACCACT
*
124743181 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
124743243 CACG
65 CACG
124743247 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
124743312 ATCACG
63 ATCACG
124743318 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
124743368 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:124743292 original size:71 final size:71
Alignment explanation
Indices: 124743204--124743367 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
124743194 CGATTTGTCT
124743204 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
124743269 CTTTCA
66 CTTTCA
124743275 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
124743340 CTTTCA
66 CTTTCA
124743346 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
124743368 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:124743405 original size:71 final size:70
Alignment explanation
Indices: 124743204--124743401 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
124743194 CGATTTGTCT
* * * *
124743204 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
124743269 CTTTCA
65 CTTTCA
* * * *
124743275 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
124743340 CTTTCA
65 CTTTCA
* *
124743346 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
124743402 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Done.