Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 271 of 276
Found at i:89734088 original size:20 final size:20
Alignment explanation
Indices: 89734063--89734112 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
89734053 CTGGGAAAAA
89734063 TTACGAAACTGATTTTCGAG
1 TTACGAAACTGATTTTCGAG
89734083 TTACGAAACTGATTTTCGAG
1 TTACGAAACTGATTTTCGAG
89734103 TTACGAAACT
1 TTACGAAACT
89734113 CAAGATATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (20 bp):
TTACGAAACTGATTTTCGAG
Found at i:89735480 original size:48 final size:48
Alignment explanation
Indices: 89735420--89735563 Score: 200
Period size: 50 Copynumber: 3.0 Consensus size: 48
89735410 TTGATGCATA
* *
89735420 AGATATGTATATGTGGTAAATCTGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
89735468 AGATATGCATATGTGGTAAAGCCAAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
*
89735518 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
89735564 GGCGATGTGT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 37 0.45
49 4 0.05
50 40 0.48
51 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:89735579 original size:50 final size:49
Alignment explanation
Indices: 89735423--89735563 Score: 180
Period size: 48 Copynumber: 2.9 Consensus size: 49
89735413 ATGCATAAGA
* *
89735423 TATGTATATGTGGTAAATCTGAATGGCTAATGTGAAATATGTATGAGA-
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAG
* * *
89735471 TATGCATATGTGGTAAAGCCAAATGG-TCAATGTGAAATATATAT-ATGAG
1 TATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATGA-GAG
*
89735520 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 -TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
89735564 GGCGATGTGT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
47 2 0.03
48 39 0.49
50 37 0.47
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (49 bp):
TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAG
Found at i:89735760 original size:37 final size:37
Alignment explanation
Indices: 89735710--89735817 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
89735700 GGAAATATAT
89735710 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
89735747 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
89735784 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
89735818 TCATCTGAGC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:89740597 original size:29 final size:28
Alignment explanation
Indices: 89740531--89740626 Score: 147
Period size: 29 Copynumber: 3.4 Consensus size: 28
89740521 AAGTCTACAT
* *
89740531 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
89740559 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
89740588 ACATTCATATGGCCCATTAGGCTCCAATC
1 ACATTCATATGGCCCATTAGGC-CCAATC
89740617 ACATTCATAT
1 ACATTCATAT
89740627 TCATGCTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
28 21 0.34
29 39 0.63
30 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:89744862 original size:29 final size:29
Alignment explanation
Indices: 89744780--89744962 Score: 253
Period size: 29 Copynumber: 6.3 Consensus size: 29
89744770 AAGTCTACAT
* *
89744780 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
89744808 TCATTCATATGGCCCATTAGCCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
89744837 ACATTCGTAAGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
89744866 ACATTCATATGGCCCATTAGGCCAAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
89744895 ACATTCATATTGCCCATTAGGCACAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
89744924 ACATTCATATGCCCCATTAGGCCCAAAAT-
1 ACATTCATATGGCCCATTAGGCCC-AAATC
89744953 ACATTCATAT
1 ACATTCATAT
89744963 TCATGCTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
28 20 0.15
29 112 0.82
30 4 0.03
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:89749184 original size:23 final size:22
Alignment explanation
Indices: 89749157--89749258 Score: 98
Period size: 24 Copynumber: 4.5 Consensus size: 22
89749147 ATAGCTCCTA
*
89749157 AGAGCTTACTATTTCAGCTCACT
1 AGAGCTTACTA-TTCAGCTCAAT
* * *
89749180 GGAGCCTACCGATTCAGCTCCAA-
1 AGAGCTTA-CTATTCAGCT-CAAT
*
89749203 AGAGCTTACTATTAAGCTCAAT
1 AGAGCTTACTATTCAGCTCAAT
*
89749225 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTA-C-TATTCAGCTCAAT
89749249 AGAGCTTACT
1 AGAGCTTACT
89749259 GCTAATAATC
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
21 3 0.05
22 17 0.27
23 21 0.33
24 23 0.36
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (22 bp):
AGAGCTTACTATTCAGCTCAAT
Found at i:89749242 original size:46 final size:46
Alignment explanation
Indices: 89749149--89749258 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
89749139 GACTCACCAT
* * * *
89749149 AGCTCCTAAGAGCTTACTATTTCAGCTCACTGGAGCCTACCGATTC
1 AGCTCCAAAGAGCTTACTATTTAAGCTCAATAGAGCCTACCGATTC
* *
89749195 AGCTCCAAAGAGCTTACTA-TTAAGCTCAATAGAGCTTACCGTTTTC
1 AGCTCCAAAGAGCTTACTATTTAAGCTCAATAGAGCCTACCG-ATTC
89749241 AGCT-CAATAGAGCTTACT
1 AGCTCCAA-AGAGCTTACT
89749259 GCTAATAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
45 21 0.38
46 35 0.62
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (46 bp):
AGCTCCAAAGAGCTTACTATTTAAGCTCAATAGAGCCTACCGATTC
Found at i:89761139 original size:40 final size:40
Alignment explanation
Indices: 89760987--89761132 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
89760977 TTGAATGATG
* * * *
89760987 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
89761027 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
89761067 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
89761108 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89761133 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89761139 original size:80 final size:80
Alignment explanation
Indices: 89760987--89761155 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
89760977 TTGAATGATG
* *
89760987 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
89761052 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
89761067 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
89761130 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
89761147 TCC-GGTTAA
1 TCCGGGTTAA
89761156 ATTCTGAAGG
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
79 9 0.12
80 60 0.79
81 7 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:89762575 original size:40 final size:40
Alignment explanation
Indices: 89762531--89762715 Score: 300
Period size: 40 Copynumber: 4.6 Consensus size: 40
89762521 CATACTCACT
* *
89762531 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
89762571 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
89762611 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
89762651 CAAATGCCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
89762691 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
89762716 TTATCATCCG
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 135 0.99
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:89770499 original size:46 final size:45
Alignment explanation
Indices: 89770441--89770614 Score: 152
Period size: 46 Copynumber: 3.8 Consensus size: 45
89770431 CCACTTGTGT
*
89770441 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCACAATAATA
* * * * * ** **
89770487 GAGCCAGTGTAAGACCATGTCTGGGAAATGGAACTGGCATTGATACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATC-GCCA-CAATAATA
* * * * *
89770535 GTGCTAGTGTAAGACATGTTTGGAACATGCATCGACCTCAAAACATA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG-CCACAATA-ATA
89770582 -AGCTAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCG
89770615 GCTACGAGAT
Statistics
Matches: 97, Mismatches: 27, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
46 46 0.47
47 35 0.36
48 16 0.16
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGCCACAATAATA
Found at i:89777356 original size:46 final size:44
Alignment explanation
Indices: 89777246--89777417 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 44
89777236 CATTATAAGA
* * *
89777246 GCCAGTGTAAGACCATGTCTAGGACATGGCAACGGC-ATTGAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGA-G-GT
* * * * *
89777294 GCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCT-TGATATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAGGT
89777338 AAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAGGT
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAGGT
*
89777384 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
89777418 ACACAGATAT
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
44 13 0.12
45 16 0.15
46 51 0.49
47 14 0.13
48 11 0.10
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAGGT
Found at i:89780651 original size:56 final size:56
Alignment explanation
Indices: 89780565--89780676 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
89780555 TTGATGTAAT
*
89780565 CCTTGGGATGGATTGTCTGACTTCTCATAGTGTTGTAGTGGATTGTAGGAGAAAAG
1 CCTTGGGATGGATTGTCTGACTTCTCATAGTGTTGTAGTGGATGGTAGGAGAAAAG
89780621 CCTTGGGATGGATTGTCTGACTTCTCATAGTGTTGTAGTGGATGGTAGGAGAAAAG
1 CCTTGGGATGGATTGTCTGACTTCTCATAGTGTTGTAGTGGATGGTAGGAGAAAAG
89780677 TGATTGAGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.33
Consensus pattern (56 bp):
CCTTGGGATGGATTGTCTGACTTCTCATAGTGTTGTAGTGGATGGTAGGAGAAAAG
Found at i:89781619 original size:30 final size:30
Alignment explanation
Indices: 89781561--89781620 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
89781551 TTCCCGAGCC
* *
89781561 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
* *
89781591 TAGGGGCAAAAATGTAATTTTACCAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
89781621 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATACAAAAGTT
Found at i:89793190 original size:39 final size:40
Alignment explanation
Indices: 89793067--89793196 Score: 147
Period size: 39 Copynumber: 3.3 Consensus size: 40
89793057 GACAAGGTTG
* ** * *
89793067 GATCTCATTATATTAT-CTGAGAATCAACAATAGAGGCTA
1 GATCTCATTATATTATCCCGAGAATCTGCAATAAAAGCTA
* * *
89793106 GATCTCATTATATTACCCCGAGAATTTGCAACAAAAGCTA
1 GATCTCATTATATTATCCCGAGAATCTGCAATAAAAGCTA
* * *
89793146 AATCTCATTATATT-TCCCGAGAATCTGGAATAAATGCTA
1 GATCTCATTATATTATCCCGAGAATCTGCAATAAAAGCTA
89793185 GATCTCATTATA
1 GATCTCATTATA
89793197 ATCTATAATA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 46 0.61
40 29 0.39
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (40 bp):
GATCTCATTATATTATCCCGAGAATCTGCAATAAAAGCTA
Found at i:89793209 original size:10 final size:10
Alignment explanation
Indices: 89793194--89793222 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
89793184 AGATCTCATT
89793194 ATAATCTATA
1 ATAATCTATA
89793204 ATAATCTATA
1 ATAATCTATA
89793214 ATAATCTAT
1 ATAATCTAT
89793223 GTACAAGCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATCTATA
Found at i:89794980 original size:20 final size:20
Alignment explanation
Indices: 89794955--89794992 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89794945 GATGCATGGT
*
89794955 TTGTTGGTCGGTTTTGTTGA
1 TTGTTGATCGGTTTTGTTGA
*
89794975 TTGTTGATTGGTTTTGTT
1 TTGTTGATCGGTTTTGTT
89794993 AATGTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.03, G:0.32, T:0.61
Consensus pattern (20 bp):
TTGTTGATCGGTTTTGTTGA
Found at i:89830803 original size:53 final size:53
Alignment explanation
Indices: 89830705--89830809 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
89830695 ATAAACTACG
* * * * *
89830705 ATAAGGCAAGGATCCGATGTAAGACCATGCCAAGGCATGGAAATGGTGAGTTC
1 ATAAGGCAAGGATCCGACGTAAGACCAAGCCAAGACACGGAAATGGTAAGTTC
* * *
89830758 ATAAGGCAATGATACC-ACGTAAGACCAAGTCAAGACACGGTAATGGTAAGTT
1 ATAAGGCAAGGAT-CCGACGTAAGACCAAGCCAAGACACGGAAATGGTAAGTT
89830810 TAAAAAGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 41 0.95
54 2 0.05
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAGGATCCGACGTAAGACCAAGCCAAGACACGGAAATGGTAAGTTC
Found at i:89838200 original size:55 final size:53
Alignment explanation
Indices: 89838133--89838269 Score: 157
Period size: 53 Copynumber: 2.5 Consensus size: 53
89838123 CCATGGAAAT
* * *
89838133 CATGTTAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAGGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGGCAAGGATAC
* * * * *
89838188 CATGTAAGACCATGCCAAGGCATGGCAATGATGATTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAGGATAC
** *
89838241 CACATAAGACCATGTCAAGACATGACAAT
1 CATGTAAGACCATGTCAAGACATGGCAAT
89838270 TGTAAGTTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
53 38 0.55
54 3 0.04
55 28 0.41
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAGGATAC
Found at i:89846935 original size:36 final size:36
Alignment explanation
Indices: 89846858--89846927 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
89846848 GTAATTATTA
** * *
89846858 TCACATGGCATGAATGACATACCCACATATTTACCG
1 TCACATGGCATGAACAACACACCCACATATTCACCG
* *
89846894 TCACATGTCATGAACAACACACCCTCATATTCAC
1 TCACATGGCATGAACAACACACCCACATATTCAC
89846928 TTTCACATCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.24
Consensus pattern (36 bp):
TCACATGGCATGAACAACACACCCACATATTCACCG
Found at i:89855948 original size:37 final size:37
Alignment explanation
Indices: 89855895--89856034 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
89855885 CGAATAGTCC
* *
89855895 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
89855932 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
89855969 CCACACGTAGTTATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
89856006 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
89856035 ATATATTTCC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:89856235 original size:48 final size:48
Alignment explanation
Indices: 89856175--89856409 Score: 389
Period size: 48 Copynumber: 4.9 Consensus size: 48
89856165 ATATACACAC
* *
89856175 ATCTCCTACATATTTCACACTAGCCATTCGCCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
89856223 ATCTCATTCATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
89856271 ATCTCATATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
89856321 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
89856369 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
89856410 CACATATATT
Statistics
Matches: 174, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
48 130 0.75
50 44 0.25
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:89856334 original size:98 final size:96
Alignment explanation
Indices: 89856175--89856409 Score: 389
Period size: 98 Copynumber: 2.4 Consensus size: 96
89856165 ATATACACAC
* * *
89856175 ATCTCCTACATATTTCACACTAGCCATTCGCCTTTACCACATATACATATCTCATTCATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
89856240 CACTAGCCATTCAGCTTTACCACATATACAT
66 CACTAGCCATTCAGCTTTACCACATATACAT
* *
89856271 ATCTCATATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
*
89856336 CACACTAGCCATTCGGCTTTACCACATATACAT
64 CACACTAGCCATTCAGCTTTACCACATATACAT
*
89856369 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
89856410 CACATATATT
Statistics
Matches: 129, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
96 39 0.30
98 90 0.70
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (96 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCAGCTTTACCACATATACAT
Found at i:89859687 original size:28 final size:27
Alignment explanation
Indices: 89859655--89859751 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 27
89859645 CTGACTGATT
89859655 TCGCACACATAGCACTCGATTAAAGAAC
1 TCGCACACATAGC-CTCGATTAAAGAAC
* * *
89859683 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATA--GCCTCGATTA-AAGAAC
* *
89859712 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAG-CCTCGATTAAAGAAC
*
89859740 TCACACACATAG
1 TCGCACACATAG
89859752 TGCCTCAGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
27 2 0.04
28 30 0.55
29 20 0.36
30 3 0.05
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.21
Consensus pattern (27 bp):
TCGCACACATAGCCTCGATTAAAGAAC
Found at i:89859715 original size:29 final size:29
Alignment explanation
Indices: 89859682--89859782 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
89859672 GATTAAAGAA
89859682 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
89859711 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
* ** **
89859739 CTCACACACATAGTGCCTCAGCTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
89859768 CTGGCACACATAGTG
1 CTCGCACACATAGTG
89859783 TGTGACAACC
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 22 0.39
29 35 0.61
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:89859775 original size:57 final size:57
Alignment explanation
Indices: 89859648--89859782 Score: 180
Period size: 57 Copynumber: 2.4 Consensus size: 57
89859638 GTGCCCACTG
* ** * *
89859648 ACTGATTTCGCACACATAGCACTCGATTAAAGAACTCGCACACATAGTGCCTCAATT
1 ACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCACACACATAGTGCCTCAACT
** * *
89859705 ACCAATCTCGCACACATAGTGCTCGATTGAAGAACTCACACACATAGTGCCTCAGCT
1 ACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCACACACATAGTGCCTCAACT
*
89859762 ACTGATCTGGCACACATAGTG
1 ACTGATCTCGCACACATAGTG
89859783 TGTGACAACC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (57 bp):
ACTGATCTCGCACACATAGTGCTCGATTAAAGAACTCACACACATAGTGCCTCAACT
Found at i:89860967 original size:97 final size:97
Alignment explanation
Indices: 89860854--89861045 Score: 366
Period size: 97 Copynumber: 2.0 Consensus size: 97
89860844 GAGAGGATGG
* *
89860854 TTTACTAGTGTGTATATGTGTGTATTAGCCAAGTTTTGAACTTGAAACAAAAGGGTGTTTAGTCA
1 TTTACTAGTGTATATATGTGTGTATTAGCCAAGTTTTAAACTTGAAACAAAAGGGTGTTTAGTCA
89860919 ATACAAGTGACCATACTTGTAGAATGTATTGC
66 ATACAAGTGACCATACTTGTAGAATGTATTGC
89860951 TTTACTAGTGTATATATGTGTGTATTAGCCAAGTTTTAAACTTGAAACAAAAGGGTGTTTAGTCA
1 TTTACTAGTGTATATATGTGTGTATTAGCCAAGTTTTAAACTTGAAACAAAAGGGTGTTTAGTCA
89861016 ATACAAGTGACCATACTTGTAGAATGTATT
66 ATACAAGTGACCATACTTGTAGAATGTATT
89861046 AAGTGTTGAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.36
Consensus pattern (97 bp):
TTTACTAGTGTATATATGTGTGTATTAGCCAAGTTTTAAACTTGAAACAAAAGGGTGTTTAGTCA
ATACAAGTGACCATACTTGTAGAATGTATTGC
Found at i:89861376 original size:69 final size:69
Alignment explanation
Indices: 89861265--89861402 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
89861255 AACTAAATCC
89861265 GATAAAGGGAAGGAAAAAGTGGTCGAATAGCTATCGGAATCGTTCGACAACACCCGAGGTAAGTT
1 GATAAAGGGAAGGAAAAAGTGGTCGAATAGCTATCGGAATCGTTCGACAACACCCGAGGTAAGTT
89861330 CTTG
66 CTTG
* *
89861334 GATAAAGGGACGGAAAAAGTGGTCGAATAGTTATCGGAATCGTTCGACAACACCCGAGGTAAGTT
1 GATAAAGGGAAGGAAAAAGTGGTCGAATAGCTATCGGAATCGTTCGACAACACCCGAGGTAAGTT
89861399 CTTG
66 CTTG
89861403 AGTAAGAGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (69 bp):
GATAAAGGGAAGGAAAAAGTGGTCGAATAGCTATCGGAATCGTTCGACAACACCCGAGGTAAGTT
CTTG
Found at i:89861693 original size:39 final size:39
Alignment explanation
Indices: 89861592--89861859 Score: 443
Period size: 39 Copynumber: 6.8 Consensus size: 39
89861582 TTGAATGATG
*
89861592 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
89861631 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
89861672 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
89861711 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
89861750 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
89861789 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
89861828 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA
89861860 CGAGGAGCTA
Statistics
Matches: 219, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
39 176 0.80
40 30 0.14
41 12 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:89862583 original size:89 final size:89
Alignment explanation
Indices: 89862432--89862609 Score: 338
Period size: 89 Copynumber: 2.0 Consensus size: 89
89862422 TGAGTATAAT
89862432 ATTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTTTCA
1 ATTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTTTCA
*
89862497 TAAATTGTGCTATTTCTGCAAAAA
66 TAAATTGTGCTATTTATGCAAAAA
89862521 ATTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTTTCA
1 ATTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTTTCA
*
89862586 TAAATTGTGTTATTTATGCAAAAA
66 TAAATTGTGCTATTTATGCAAAAA
89862610 GGGCTAGTTG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (89 bp):
ATTATAATCATTTGGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTTTCA
TAAATTGTGCTATTTATGCAAAAA
Found at i:89864164 original size:39 final size:40
Alignment explanation
Indices: 89864069--89864410 Score: 443
Period size: 40 Copynumber: 8.7 Consensus size: 40
89864059 TTGAATGATG
*
89864069 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
89864107 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
89864148 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
89864187 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
89864226 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
89864265 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
89864305 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
89864345 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
89864384 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
89864411 AACGAGGAGC
Statistics
Matches: 283, Mismatches: 11, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
39 132 0.47
40 139 0.49
41 11 0.04
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:89872131 original size:40 final size:40
Alignment explanation
Indices: 89871986--89872209 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
89871976 TTGAATGATG
* * *
89871986 TCCGGGCTAAGTCCCGAAGGC--TTGTACTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
89872025 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
89872065 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
89872104 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
89872144 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
89872185 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89872210 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 52 0.32
40 100 0.62
41 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89872227 original size:80 final size:80
Alignment explanation
Indices: 89872038--89872242 Score: 222
Period size: 80 Copynumber: 2.6 Consensus size: 80
89872028 GAACTAAGAT
** * * *
89872038 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT
*
89872101 AAATCCGGGTTAAGTC
65 AAATCCGGGCTAAGTC
*** *
89872117 CCGAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
*
89872182 TAA-CCGGGCTATGTC
66 -AATCCGGGCTAAGTC
* * *
89872197 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
89872243 TACGTGATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 48 0.44
80 58 0.53
81 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
AATCCGGGCTAAGTC
Found at i:89873660 original size:40 final size:40
Alignment explanation
Indices: 89873615--89873869 Score: 386
Period size: 40 Copynumber: 6.4 Consensus size: 40
89873605 CCTTTGAGGT
89873615 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
89873655 TTAGCCCGGATACATCACTAGCACGAATGCTTTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
89873695 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* * *
89873735 TTAGCCCGGATACATCACTAACACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
* *
89873775 TTAGCCCGGATATAACA-TCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACT-AGCACGAATGCTCTTCGGAAC
* * *
89873815 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
89873855 TTAGCCCGGCTATAT
1 TTAGCCCGGATATAT
89873870 AACTCTCAAT
Statistics
Matches: 202, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.00
40 201 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:89874711 original size:37 final size:37
Alignment explanation
Indices: 89874658--89874760 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
89874648 CGAATAGTCC
* *
89874658 CCACACGTAGTTATCGGGTCTCACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
89874695 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
89874732 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
89874761 ATATATTTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:89874942 original size:48 final size:48
Alignment explanation
Indices: 89874882--89875498 Score: 1004
Period size: 48 Copynumber: 12.9 Consensus size: 48
89874872 ATATAAACAC
* * *
89874882 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
* * *
89874930 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
* * * *
89874978 ATCTCATATATATATTTCACAGTCG-C-TTTGGCTTTACCACATATACAT
1 ATCTC--ATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
89875026 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
89875074 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
89875122 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
*
89875170 ATCTCATACATGTTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
* * * *
89875218 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
89875266 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
89875314 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
89875362 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
* * *
89875410 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
* * * *
89875458 ATCTCATAAATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACA
89875499 CACATATATT
Statistics
Matches: 542, Mismatches: 23, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
46 14 0.03
47 1 0.00
48 512 0.94
49 1 0.00
50 14 0.03
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (48 bp):
ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
Found at i:89879052 original size:41 final size:41
Alignment explanation
Indices: 89878994--89879161 Score: 117
Period size: 42 Copynumber: 4.0 Consensus size: 41
89878984 AGCTCGTACA
* * * *
89878994 ATGCCAACGTCCCAGACA-TTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCAAGACAGGTCTTACACGAAATCAAATA-CG
89879035 ATGCC-ACTGTCCAAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCAAGACA-GGTCTTACACGAAATCAAATACG
** * *
89879077 ATGCTGATGTCCTAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAACGTCCAAGACA-GGTCTTACACG-AAA--TCAAATACG
* * * * * *
89879121 ATCCCAACGTCCTACACGTGGTCTTACACAAAATCACATAC
1 ATGCCAACGTCCAAGAC-AGGTCTTACACGAAATCAAATAC
89879162 CGGAATCCTA
Statistics
Matches: 102, Mismatches: 16, Indels: 17
0.76 0.12 0.13
Matches are distributed among these distances:
40 2 0.02
41 19 0.19
42 27 0.26
43 24 0.24
44 24 0.24
45 6 0.06
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (41 bp):
ATGCCAACGTCCAAGACAGGTCTTACACGAAATCAAATACG
Found at i:89879094 original size:42 final size:43
Alignment explanation
Indices: 89879013--89879112 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
89879003 TCCCAGACAT
* *
89879013 TCTTACATGTAATCAAATATCGATGCCACTGTCCAAGACAGGG
1 TCTTACACGAAATCAAATATCGATGCCACTGTCCAAGACAGGG
* * *
89879056 TCTTACACGAAATCAAATA-CGATGCTGA-TGTCCTAGACATGG
1 TCTTACACGAAATCAAATATCGATGC-CACTGTCCAAGACAGGG
89879098 TCTTACACGTAAATC
1 TCTTACACG-AAATC
89879113 TCAAATCGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 27 0.54
43 23 0.46
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
TCTTACACGAAATCAAATATCGATGCCACTGTCCAAGACAGGG
Found at i:89884139 original size:39 final size:38
Alignment explanation
Indices: 89884085--89884162 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 38
89884075 GCAAGAAAAA
89884085 TATTCGACTAGGCTTGGGTAACTTAGAAATTTCATGCAT
1 TATTCGACTAGGCTTGGGTAACTTAGAAA-TTCATGCAT
89884124 TATTCGACTAGGCTTGGGTAACTTAGAAATTCATGCAT
1 TATTCGACTAGGCTTGGGTAACTTAGAAATTCATGCAT
89884162 T
1 T
89884163 TCATTATACG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 10 0.26
39 29 0.74
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (38 bp):
TATTCGACTAGGCTTGGGTAACTTAGAAATTCATGCAT
Found at i:89892536 original size:50 final size:50
Alignment explanation
Indices: 89892466--89892588 Score: 174
Period size: 50 Copynumber: 2.5 Consensus size: 50
89892456 TGCGAAATTT
* * *
89892466 TTCCAAAGAATTCGCCACAAAGGTGTTCCAGAGTATTCACCACAAAGGCT
1 TTCCAGAGAATTCGCCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
* * *
89892516 TTTCAGAGAATTAGCCACAAAGGTGTTCCAGAGAATTCGCCACAAAGGCG
1 TTCCAGAGAATTCGCCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
* *
89892566 TTCCAGAGTATTCTCCACAAAGG
1 TTCCAGAGAATTCGCCACAAAGG
89892589 CTTTTCAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (50 bp):
TTCCAGAGAATTCGCCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
Found at i:89892555 original size:75 final size:75
Alignment explanation
Indices: 89892466--89892613 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 75
89892456 TGCGAAATTT
* *
89892466 TTCCAAAGAATTCGCCACAAAGGTGTTCCAGAGTATTCACCACAAAGGCTTTTCAGAGAAT-TAG
1 TTCCAAAGAATTCGCCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGT-G
89892530 CCACAAAGGTG
65 CCACAAAGGTG
* * *
89892541 TTCCAGAGAATTCGCCACAAAGGCGTTCCAGAGTATTCTCCACAAAGGCTTTTCAAATAATGTGC
1 TTCCAAAGAATTCGCCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGTGC
89892606 CACAAAGG
66 CACAAAGG
89892614 CATTTCAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
75 66 0.99
76 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (75 bp):
TTCCAAAGAATTCGCCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGTGC
CACAAAGGTG
Found at i:89892589 original size:25 final size:25
Alignment explanation
Indices: 89892466--89892589 Score: 158
Period size: 25 Copynumber: 5.0 Consensus size: 25
89892456 TGCGAAATTT
* *
89892466 TTCCAAAGAATTCGCCACAAAGGTG
1 TTCCAGAGAATTCGCCACAAAGGCG
* * *
89892491 TTCCAGAGTATTCACCACAAAGGCT
1 TTCCAGAGAATTCGCCACAAAGGCG
* * *
89892516 TTTCAGAGAATTAGCCACAAAGGTG
1 TTCCAGAGAATTCGCCACAAAGGCG
89892541 TTCCAGAGAATTCGCCACAAAGGCG
1 TTCCAGAGAATTCGCCACAAAGGCG
* *
89892566 TTCCAGAGTATTCTCCACAAAGGC
1 TTCCAGAGAATTCGCCACAAAGGC
89892590 TTTTCAAATA
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 83 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (25 bp):
TTCCAGAGAATTCGCCACAAAGGCG
Found at i:89898010 original size:6 final size:6
Alignment explanation
Indices: 89897999--89898028 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
89897989 TTTGTTGCTC
*
89897999 TTTTTG TTTTTG TTTTTG TTTTTT TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
89898029 GCTTATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:89901304 original size:15 final size:15
Alignment explanation
Indices: 89901284--89901314 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89901274 TTGGGTGAAA
*
89901284 ATTTGATTAAAATTT
1 ATTTGAATAAAATTT
89901299 ATTTGAATAAAATTT
1 ATTTGAATAAAATTT
89901314 A
1 A
89901315 AGTTAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
ATTTGAATAAAATTT
Found at i:89907394 original size:39 final size:39
Alignment explanation
Indices: 89907220--89907378 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
89907210 TGTGAATATA
**
89907220 TATATGCGAGAATTATATCCGGACTTCAGGTCCATAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
89907259 TATAAGCGAGAATTATATCCAGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
89907298 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
89907337 TATATGCGAGAATTATATCCGGACTTTAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
89907376 TAT
1 TAT
89907379 GTGCTGGACA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:89912395 original size:47 final size:47
Alignment explanation
Indices: 89912327--89912546 Score: 440
Period size: 47 Copynumber: 4.7 Consensus size: 47
89912317 ATCCATAAGT
89912327 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89912374 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89912421 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89912468 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89912515 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
89912547 TCAACCATCC
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 173 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
Found at i:89915057 original size:15 final size:15
Alignment explanation
Indices: 89915031--89915086 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
89915021 CAAGGAAATC
89915031 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
89915046 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
89915061 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
89915076 GAATAAAGAAA
1 GAATAAAGAAA
89915087 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:89918172 original size:47 final size:47
Alignment explanation
Indices: 89918104--89918699 Score: 1085
Period size: 47 Copynumber: 12.7 Consensus size: 47
89918094 ATCCATAAGT
89918104 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918151 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918198 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918245 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918292 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918339 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918386 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918433 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
* * * *
89918480 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGC-A--TCCATAAT-T-
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACAT-TTCTC
89918526 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918573 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918620 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
89918667 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
89918700 CAAATATCCT
Statistics
Matches: 532, Mismatches: 8, Indels: 18
0.95 0.01 0.03
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 1 0.00
46 32 0.06
47 488 0.92
48 1 0.00
49 4 0.01
50 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCTC
Found at i:89919530 original size:280 final size:280
Alignment explanation
Indices: 89919028--89919560 Score: 1030
Period size: 280 Copynumber: 1.9 Consensus size: 280
89919018 TGTTATCAAC
*
89919028 ATTTACATATGAACTTACCTCGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGT
1 ATTTACACATGAACTTACCTCGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGT
89919093 ATTTTCCCCATTTTAGCCCGAATTTTAGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTA
66 ATTTTCCCCATTTTAGCCCGAATTTTAGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTA
89919158 GGACTCACATTATTCAAATTGACCCAAAATCATATTTTGGCAAAATTACAGTTTTGCCCCTAAAC
131 GGACTCACATTATTCAAATTGACCCAAAATCATATTTTGGCAAAATTACAGTTTTGCCCCTAAAC
*
89919223 TTTTGCATATTTACACTTTTGCCCCAAAGCTCGTAAATTAAACTTTAGCCTATTTTCTACTTAAA
196 TTTTGCATATTTACACTTTTGCCCCAAAGCTCGTAAATTAAACTTCAGCCTATTTTCTACTTAAA
89919288 AATAACAATTATGCTACATT
261 AATAACAATTATGCTACATT
89919308 ATTTACACATGAACTTACCTCGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGT
1 ATTTACACATGAACTTACCTCGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGT
89919373 ATTTTCCCCATTTTAGCCCGAATTTTAGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTA
66 ATTTTCCCCATTTTAGCCCGAATTTTAGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTA
*
89919438 GGACTCACATTATTCCAATTGACCCAAAATCATATTTTGGCAAAATTACAGTTTTGCCCCTAAAC
131 GGACTCACATTATTCAAATTGACCCAAAATCATATTTTGGCAAAATTACAGTTTTGCCCCTAAAC
*
89919503 TTTTGCATATTTACACTTTTTCCCCAAAGCTCGTAAATTAAACTTCAGCCTATTTTCT
196 TTTTGCATATTTACACTTTTGCCCCAAAGCTCGTAAATTAAACTTCAGCCTATTTTCT
89919561 TATGTTTTAT
Statistics
Matches: 249, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
280 249 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (280 bp):
ATTTACACATGAACTTACCTCGTATGCGAAAATGGCTACTTTTACCATTTCGTCCACAACTTGGT
ATTTTCCCCATTTTAGCCCGAATTTTAGTTTTCCTTGCTCTATCATTTAAAATATAGTCTAATTA
GGACTCACATTATTCAAATTGACCCAAAATCATATTTTGGCAAAATTACAGTTTTGCCCCTAAAC
TTTTGCATATTTACACTTTTGCCCCAAAGCTCGTAAATTAAACTTCAGCCTATTTTCTACTTAAA
AATAACAATTATGCTACATT
Found at i:89921736 original size:26 final size:25
Alignment explanation
Indices: 89921705--89921756 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
89921695 ATTTATTATT
*
89921705 ATTTTAATAAAATATATTTAACAATA
1 ATTTTAATAAAATATA-ATAACAATA
* *
89921731 ATTTTATTAAAATTTAATAACAATA
1 ATTTTAATAAAATATAATAACAATA
89921756 A
1 A
89921757 CACTAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTTAATAAAATATAATAACAATA
Found at i:89924017 original size:28 final size:28
Alignment explanation
Indices: 89923986--89924046 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
89923976 AGAAAAGTTG
* *
89923986 TTTTTACAGATATTTATATTTTAAATTAT
1 TTTTTA-AGAAATTTATACTTTAAATTAT
* *
89924015 TTTTTAATAAATTTATACTTTAAATTGT
1 TTTTTAAGAAATTTATACTTTAAATTAT
89924043 TTTT
1 TTTT
89924047 ATATATATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTTAAGAAATTTATACTTTAAATTAT
Found at i:89925338 original size:21 final size:21
Alignment explanation
Indices: 89925314--89925378 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 21
89925304 ATCCAACCAT
89925314 ATAAATTCAATATCTAACATA
1 ATAAATTCAATATCTAACATA
* *
89925335 ATAAATTCAACAAGCTTAAAACATA
1 ATAAATTCAA-TATC-T--AACATA
89925360 ATAAATTCAATATCTAACA
1 ATAAATTCAATATCTAACA
89925379 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
21 14 0.39
22 2 0.06
23 2 0.06
24 2 0.06
25 16 0.44
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAAATTCAATATCTAACATA
Found at i:89925379 original size:32 final size:32
Alignment explanation
Indices: 89925352--89925412 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
89925342 CAACAAGCTT
* *
89925352 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
89925384 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
89925413 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:89927734 original size:13 final size:13
Alignment explanation
Indices: 89927716--89927740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89927706 AGATTATCCC
89927716 ATCCTAATAATAT
1 ATCCTAATAATAT
89927729 ATCCTAATAATA
1 ATCCTAATAATA
89927741 AATTTGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
ATCCTAATAATAT
Found at i:89930060 original size:17 final size:17
Alignment explanation
Indices: 89930034--89930069 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
89930024 TTATTAATAG
*
89930034 AATTGTAGCAAACAACA
1 AATTGCAGCAAACAACA
89930051 AATTGCAGCAAACAACA
1 AATTGCAGCAAACAACA
89930068 AA
1 AA
89930070 CAAAGGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.19, G:0.11, T:0.14
Consensus pattern (17 bp):
AATTGCAGCAAACAACA
Found at i:89942110 original size:20 final size:21
Alignment explanation
Indices: 89942057--89942099 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
89942047 TTTGTAATGT
89942057 AAAAAATTATCAAGAAAAAGA
1 AAAAAATTATCAAGAAAAAGA
89942078 AAAAAATTATCAAGAAAAAGA
1 AAAAAATTATCAAGAAAAAGA
89942099 A
1 A
89942100 TAAACATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAAATTATCAAGAAAAAGA
Found at i:89942247 original size:3 final size:3
Alignment explanation
Indices: 89942239--89942274 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
89942229 TTTTGCCCCA
89942239 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89942275 CATCTAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:89944521 original size:161 final size:162
Alignment explanation
Indices: 89944254--89944594 Score: 477
Period size: 161 Copynumber: 2.1 Consensus size: 162
89944244 TCACTAGGAG
* *
89944254 ATCAAAATCTTTCTTTCTTCTCAACGATGTTTATTCTTTACCATGAGGCATCTGCATTCAATTCA
1 ATCAAAATCTTTCTTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
** * * *
89944319 AAATCAAACCAAGCGAATATTAAACCTTACAATGTTCCCTTTTAATCAGACTCTTTATTTTATAT
66 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
* **
89944384 AAAGAA-ATAAATCCAACAAATCATTGTAAAC
131 AAAGAAGATAAATCCAACAAACCACAGTAAAC
* * *
89944415 ATCAAAATCTTTATTTCTTCTCAACAATGTTTATTCTTTACCTTGAGGTATCTACATTCAATTCA
1 ATCAAAATCTTTCTTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
* * * *
89944480 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTATTCATATTCTTTATTTTCTAT
66 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
* * *
89944545 AATGAAGGATGAATCCAACAAACCACAGTAAGC
131 AAAGAA-GATAAATCCAACAAACCACAGTAAAC
*
89944578 ATCAAAACCTTTCTTTC
1 ATCAAAATCTTTCTTTC
89944595 ACGTAAATTG
Statistics
Matches: 156, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
161 121 0.78
163 35 0.22
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.36
Consensus pattern (162 bp):
ATCAAAATCTTTCTTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
AAAGAAGATAAATCCAACAAACCACAGTAAAC
Found at i:89945889 original size:18 final size:17
Alignment explanation
Indices: 89945860--89945895 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
89945850 TCAAAAATTA
89945860 TATAAAATATAAATAAT
1 TATAAAATATAAATAAT
89945877 TATAAACATATAAATAAT
1 TATAAA-ATATAAATAAT
89945895 T
1 T
89945896 CAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATATAAATAAT
Found at i:89946395 original size:15 final size:16
Alignment explanation
Indices: 89946375--89946407 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
89946365 GTTTAGTGCC
89946375 TAGGG-TTTATGGGTT
1 TAGGGTTTTATGGGTT
*
89946390 TAGGGTTTTATGGTTT
1 TAGGGTTTTATGGGTT
89946406 TA
1 TA
89946408 AGATTTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (16 bp):
TAGGGTTTTATGGGTT
Found at i:89946883 original size:126 final size:126
Alignment explanation
Indices: 89946653--89946885 Score: 315
Period size: 126 Copynumber: 1.8 Consensus size: 126
89946643 TTTTGTTTTT
* ** * *
89946653 TTTTTCTACAGTAGTTTCTGAAAAATTAATTTTGAGAAGACGGTTCTAAAAAAATAGTGACAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACAATTCCAAAAAAATAATGACAAAA
* *
89946718 ACACTTCAAGTAGGATGCATTGTCAGCAAAAGTACTGAAAAAATCTCCCATGTGGACGCTC
66 ACACTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAATCTCCCATGTGGACGCTC
* * * *
89946779 TTTTTCTATAGTAGTTT-TCGAAAAAATAATTTTGAGAAGACAATTCCGAAAAGATAATGTCAAA
1 TTTTTCTACAGTAGTTTCT-GAAAAAATAATTTTGAGAAGACAATTCCAAAAAAATAATGACAAA
** * *
89946843 AATGCTTCAAGCAGTATGCACTGTCAGCAAAAGTATTGAAAAA
65 AACACTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAA
89946886 TGCAGTTTGT
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
125 1 0.01
126 90 0.99
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACAATTCCAAAAAAATAATGACAAAA
ACACTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAATCTCCCATGTGGACGCTC
Found at i:89946900 original size:27 final size:25
Alignment explanation
Indices: 89946876--89946937 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
89946866 TCAGCAAAAG
89946876 TATTGAAAAATGCAGTTTGTACAAATA
1 TATTGAAAAAT--AGTTTGTACAAATA
*
89946903 TATTTAAAAATAGTTTGTACAAATA
1 TATTGAAAAATAGTTTGTACAAATA
*
89946928 TATTAAAAAA
1 TATTGAAAAA
89946938 ATAAATACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 23 0.70
27 10 0.30
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (25 bp):
TATTGAAAAATAGTTTGTACAAATA
Found at i:89946923 original size:25 final size:25
Alignment explanation
Indices: 89946889--89946937 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
89946879 TGAAAAATGC
*
89946889 AGTTTGTACAAATATATTTAAAAAT
1 AGTTTGTACAAATATATTAAAAAAT
89946914 AGTTTGTACAAATATATTAAAAAA
1 AGTTTGTACAAATATATTAAAAAA
89946938 ATAAATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (25 bp):
AGTTTGTACAAATATATTAAAAAAT
Found at i:89950802 original size:46 final size:44
Alignment explanation
Indices: 89950750--89950909 Score: 133
Period size: 46 Copynumber: 3.5 Consensus size: 44
89950740 ACCGAACTTG
89950750 GACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC
1 GACTCAACTCAACGAGCTCGGGC-TTCGCATCCATAAGTGAACTC
* * * * * ***
89950795 AGACTCAACTCAACGAGCTCGAATGCCTAG-TTACATCTCTCGAACTC
1 -GACTCAACTCAACGAGCTCG--GGCTTCGCATCCATAAGT-GAACTC
* * *
89950842 GAACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTC
1 G-ACTCAACTCAACGAGCTCGGGC-TTCGCATCCATAAGTGAACTC
*
89950888 GGACTCAACTCAACGAGTTCGG
1 -GACTCAACTCAACGAGCTCGG
89950910 ATGCCCAAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 14
0.72 0.17 0.12
Matches are distributed among these distances:
45 1 0.01
46 53 0.61
47 31 0.36
48 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (44 bp):
GACTCAACTCAACGAGCTCGGGCTTCGCATCCATAAGTGAACTC
Found at i:89950856 original size:93 final size:93
Alignment explanation
Indices: 89950742--89950914 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
89950732 CGCCCATAAC
* * * * *
89950742 CGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
89950807 ACGAGCTCGAATGCCTAGTTACATCTCT
66 ACGAGCTCGAATGCCTAGTTACATCTCT
* *
89950835 CGAACTCGAACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
* *
89950900 ACGAGTTCGGATGCC
66 ACGAGCTCGAATGCC
89950915 CAAATATCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGAATGCCTAGTTACATCTCT
Found at i:89951775 original size:79 final size:80
Alignment explanation
Indices: 89951644--89951799 Score: 242
Period size: 79 Copynumber: 2.0 Consensus size: 80
89951634 TCCAAATATG
* * * *
89951644 AACCCTAGGTTGAATTATTGCTAGCATAAGCTTAATCGAGCTACCGGGACTCCAAAAACGT-AAA
1 AACCCTAGGTTAAATTATTGCTAGCATAAGCTAAATCAAGCTACCAGGACTCCAAAAACGTAAAA
*
89951708 AATCATTAAAAATGA
66 AAACATTAAAAATGA
* *
89951723 AACCCTAGGTTAAATTATTGTTAGCATAAGCTAAATCAAGTTACCAGGACTCCAAAAACGTAAAA
1 AACCCTAGGTTAAATTATTGCTAGCATAAGCTAAATCAAGCTACCAGGACTCCAAAAACGTAAAA
89951788 AAACATTAAAAA
66 AAACATTAAAAA
89951800 CGAGGCTAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 55 0.80
80 14 0.20
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (80 bp):
AACCCTAGGTTAAATTATTGCTAGCATAAGCTAAATCAAGCTACCAGGACTCCAAAAACGTAAAA
AAACATTAAAAATGA
Found at i:89957435 original size:27 final size:27
Alignment explanation
Indices: 89957405--89957582 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
89957395 ATATTGAGTC
* * *
89957405 CGCATACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
89957432 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
89957459 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
89957487 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
89957514 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
89957541 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
89957568 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89957583 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:89957551 original size:82 final size:81
Alignment explanation
Indices: 89957426--89957581 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89957416 TGCTATATAA
* *
89957426 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89957491 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
89957508 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89957572 CACTTAGTGC
65 CACTTAGTGC
89957582 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89968311 original size:152 final size:150
Alignment explanation
Indices: 89968037--89968339 Score: 579
Period size: 152 Copynumber: 2.0 Consensus size: 150
89968027 GTGGACAGCC
89968037 ATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATTAGAAAACTAAAATAAAAAAACTCCT
1 ATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATTAGAAAACTAAAATAAAAAAACTCCT
*
89968102 AATTATTTTAATATGGAAATTCGGTCAAAGGTCATTTTATCTGGGACTCTTGGACTGAATATTGA
66 AATTATTTTAATATGGAAATTCGGTCAAAGGTCATTTTATCTAGGACTCTTGGACTGAATATTGA
89968167 CATAAAAATTTAAACTAAGT
131 CATAAAAATTTAAACTAAGT
89968187 ATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATTAGAAAACTAAAATAAAAAAAAACTC
1 ATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATTAGAAAACTAAAAT--AAAAAAACTC
89968252 CTAATTATTTTAATATGGAAATTCGGTCAAAGGTCATTTTATCTAGGACTCTTGGACTGAATATT
64 CTAATTATTTTAATATGGAAATTCGGTCAAAGGTCATTTTATCTAGGACTCTTGGACTGAATATT
89968317 GACATAAAAATTTAAACTAAGT
129 GACATAAAAATTTAAACTAAGT
89968339 A
1 A
89968340 AATAAATAAA
Statistics
Matches: 150, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
150 53 0.35
152 97 0.65
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (150 bp):
ATGCCTTTAAATAGGCCTTATAACTAGTCCTAATCTAATTAGAAAACTAAAATAAAAAAACTCCT
AATTATTTTAATATGGAAATTCGGTCAAAGGTCATTTTATCTAGGACTCTTGGACTGAATATTGA
CATAAAAATTTAAACTAAGT
Found at i:89970511 original size:18 final size:20
Alignment explanation
Indices: 89970490--89970527 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
89970480 TTCACTTTCA
89970490 TTTT-TTTATTT-TTCTCTC
1 TTTTCTTTATTTCTTCTCTC
*
89970508 TTTTCTTTGTTTCTTCTCTC
1 TTTTCTTTATTTCTTCTCTC
89970528 GATTTCACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTCTTTATTTCTTCTCTC
Found at i:89971569 original size:16 final size:15
Alignment explanation
Indices: 89971536--89971569 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
89971526 TTTTTTTTCT
*
89971536 CTTCGATTTTTTTAA
1 CTTCGATTTTTTAAA
89971551 CTTCGATTTTTTAACA
1 CTTCGATTTTTTAA-A
89971567 CTT
1 CTT
89971570 TTTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (15 bp):
CTTCGATTTTTTAAA
Found at i:89971610 original size:23 final size:22
Alignment explanation
Indices: 89971567--89971622 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
89971557 TTTTTTAACA
* *
89971567 CTTTTTTTTGCTTTTTTTTCT-
1 CTTTTTTTTTCTTTTTCTTCTC
*
89971588 TTTTTTTTTTCTTTTATACTTCTC
1 CTTTTTTTTTCTTTT-T-CTTCTC
89971612 CTTTTTTTTTC
1 CTTTTTTTTTC
89971623 AATTACAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 13 0.46
22 1 0.04
23 4 0.14
24 10 0.36
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.79
Consensus pattern (22 bp):
CTTTTTTTTTCTTTTTCTTCTC
Found at i:89971674 original size:9 final size:9
Alignment explanation
Indices: 89971660--89971694 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
89971650 TTTGTTACAA
89971660 AAAAATAAT
1 AAAAATAAT
89971669 AAAAATAAT
1 AAAAATAAT
89971678 -AAAATAAT
1 AAAAATAAT
89971686 AAAAATAAT
1 AAAAATAAT
89971695 TTTTTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATAAT
Found at i:89971683 original size:17 final size:17
Alignment explanation
Indices: 89971661--89971694 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89971651 TTGTTACAAA
89971661 AAAATAATAAAAATAAT
1 AAAATAATAAAAATAAT
89971678 AAAATAATAAAAATAAT
1 AAAATAATAAAAATAAT
89971695 TTTTTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAATAAAAATAAT
Found at i:89973684 original size:12 final size:11
Alignment explanation
Indices: 89973652--89973681 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
89973642 ATTGTAGATT
89973652 AAAAAAAATTG
1 AAAAAAAATTG
89973663 AAAAAAAATTG
1 AAAAAAAATTG
89973674 AAAAAAAA
1 AAAAAAAA
89973682 ATTTGCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:89990183 original size:27 final size:26
Alignment explanation
Indices: 89990135--89990186 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
89990125 GCGAGGCTGC
*
89990135 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
89990161 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
89990187 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:89999466 original size:46 final size:48
Alignment explanation
Indices: 89999363--89999481 Score: 136
Period size: 46 Copynumber: 2.5 Consensus size: 48
89999353 CTTCGACATT
** * *
89999363 GACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAATATAG
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAATATAG
*
89999414 G-CTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGATAT-G
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAATATAG
*
89999459 GACTTACATGGCTCATTTCTGTC
1 GACTTACATGGCTCATTCCTGTC
89999482 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
45 2 0.03
46 32 0.52
50 26 0.43
51 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (48 bp):
GACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAATATAG
Found at i:90010333 original size:48 final size:47
Alignment explanation
Indices: 90010251--90010475 Score: 191
Period size: 48 Copynumber: 4.9 Consensus size: 47
90010241 TAGGGTTATG
* * * * *
90010251 TGTGATCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCGATA
1 TGTGATCCCATGTAAGACCATATTTGGGATAT-GCATTGGCATCGATA
* * *
90010299 TGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGAATCTATA
1 TGTGATCCCATGTAAGACCATATTTGGGATAT-GCATTGGCATCGATA
** * *
90010347 TGTGATTTCTTGTAAGACCATGTTTGGG--A--CA-TGGCATCGATA
1 TGTGATCCCATGTAAGACCATATTTGGGATATGCATTGGCATCGATA
* * * * *
90010389 TGAGA-CATCGTGTAAGACCATAGTTGGGCTAT-C---GGCATCGATA
1 TGTGATC-CCATGTAAGACCATATTTGGGATATGCATTGGCATCGATA
90010432 TGTGATCCCATGTAAGACCATATTTGGGATATGACATTGGCATC
1 TGTGATCCCATGTAAGACCATATTTGGGATATG-CATTGGCATC
90010476 TTACTATGTG
Statistics
Matches: 143, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
42 31 0.22
43 37 0.26
44 2 0.01
45 2 0.01
46 1 0.01
48 70 0.49
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (47 bp):
TGTGATCCCATGTAAGACCATATTTGGGATATGCATTGGCATCGATA
Found at i:90010446 original size:43 final size:43
Alignment explanation
Indices: 90010289--90010459 Score: 127
Period size: 43 Copynumber: 3.9 Consensus size: 43
90010279 ACATGGCATT
* *
90010289 GGCACCGATATGTGATCCCATGTAAGACCATA-TATGGGATATGGC
1 GGCATCGATATGTGATCCCATGTAAGACCATAGT-TGGGCTAT--C
* * ** *
90010334 ATTGGAATCTATATGTGATTTCTTGTAAGACCAT-GTTTGGGAC-AT-
1 ---GGCATCGATATGTGATCCCATGTAAGACCATAG-TTGGG-CTATC
* * *
90010379 GGCATCGATATGAGA-CATCGTGTAAGACCATAGTTGGGCTATC
1 GGCATCGATATGTGATC-CCATGTAAGACCATAGTTGGGCTATC
*
90010422 GGCATCGATATGTGATCCCATGTAAGACCATATTTGGG
1 GGCATCGATATGTGATCCCATGTAAGACCATAGTTGGG
90010460 ATATGACATT
Statistics
Matches: 99, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 32 0.32
43 33 0.33
44 1 0.01
48 31 0.31
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
GGCATCGATATGTGATCCCATGTAAGACCATAGTTGGGCTATC
Found at i:90011532 original size:292 final size:291
Alignment explanation
Indices: 90010986--90011537 Score: 1032
Period size: 292 Copynumber: 1.9 Consensus size: 291
90010976 TTTATGTGTC
90010986 ATTAATTTAGCAAGCGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGAT
1 ATTAATTTAGCAAGCGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGAT
*
90011051 ATGGTTCATATTGATTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTGA
66 ATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTGA
*
90011116 TGATGATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGCT
131 TGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGCT
* *
90011181 ATGATCATGGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGCTATGAAATTGGT
196 ATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGATATGAAATTGGT
90011246 AAGTAAGCTTGTTAATTTGAGTATGTGTTAT
261 AAGTAAGCTTGTTAATTTGAGTATGTGTTAT
* *
90011277 ATTAATTTGGCCAAGTGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGA
1 ATTAATTTAG-CAAGCGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGA
*
90011342 TATGGTTCATATTGACTATTGGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTG
65 TATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTG
90011407 ATGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGC
130 ATGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGC
90011472 TATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGATATGAAATTGG
195 TATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGATATGAAATTGG
90011537 T
260 T
90011538 GTGGAGTGCC
Statistics
Matches: 253, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
291 9 0.04
292 244 0.96
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (291 bp):
ATTAATTTAGCAAGCGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGAT
ATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTGA
TGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGCT
ATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGATATGAAATTGGT
AAGTAAGCTTGTTAATTTGAGTATGTGTTAT
Found at i:90011790 original size:29 final size:29
Alignment explanation
Indices: 90011756--90011848 Score: 177
Period size: 29 Copynumber: 3.2 Consensus size: 29
90011746 GTGTGTAGGC
*
90011756 CGTGTGTGACACATGGTCAGCCCCATGGG
1 CGTGTGTGACACACGGTCAGCCCCATGGG
90011785 CGTGTGTGACACACGGTCAGCCCCATGGG
1 CGTGTGTGACACACGGTCAGCCCCATGGG
90011814 CGTGTGTGACACACGGTCAGCCCCATGGG
1 CGTGTGTGACACACGGTCAGCCCCATGGG
90011843 CGTGTG
1 CGTGTG
90011849 ACCTGACCGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.16, C:0.29, G:0.35, T:0.19
Consensus pattern (29 bp):
CGTGTGTGACACACGGTCAGCCCCATGGG
Found at i:90012851 original size:30 final size:31
Alignment explanation
Indices: 90012797--90012857 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
90012787 TTAGTTATTC
*
90012797 TTTAAAAGAGTTTTAGATTAAATAATAATTA
1 TTTAAAAGAGTTTTAGAGTAAATAATAATTA
90012828 TTTAAAAGAGTTTTAG-GTAAATAATAATTA
1 TTTAAAAGAGTTTTAGAGTAAATAATAATTA
90012858 AAACAGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (31 bp):
TTTAAAAGAGTTTTAGAGTAAATAATAATTA
Found at i:90033868 original size:81 final size:81
Alignment explanation
Indices: 90033657--90034077 Score: 494
Period size: 81 Copynumber: 5.2 Consensus size: 81
90033647 TGATAAAGAG
* * *
90033657 AAATTACTAAAACACCCTCAATTTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTATCGAA
1 AAATTACCAAAACACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
** *
90033722 ATACCCTCGA-TTGTG
66 ATACCCTTAATTTGTA
* * * * * * *
90033737 AAATTACTAAAATATCCTTGATTTGTAAAATTACCTAAATACCC-CTGATTTGTAAAATTACCAA
1 AAATTACCAAAACACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTATCGA
*
90033801 AACACCCTTAATTTGTA
65 AATACCCTTAATTTGTA
*
90033818 AAATTACCAAAACACCCTCGATTTGTAAAATTGA-CGAAATACTCTCGATTTGTAAAATTATCGA
1 AAATTACCAAAACACCCTCGATTTGTAAAATT-ACCGAAATACCCTCGATTTGTAAAATTATCGA
90033882 AATA-CCTCTAATTTGTA
65 AATACCCT-TAATTTGTA
* * * * * * *
90033899 GAATTATCGAAATACCCTCGATTGGTAAAATTACCAAAATACCCAT-GATTTGTGAAATTATCGA
1 AAATTACCAAAACACCCTCGATTTGTAAAATTACCGAAATACCC-TCGATTTGTAAAATTATCGA
*
90033963 AACACCCTTAATTTGTA
65 AATACCCTTAATTTGTA
* * * *
90033980 AAATTACCGAAACACCCTCGATTTATAAAATTATCGAAATACCCTCAATTT-TAAAATTATCGAA
1 AAATTACCAAAACACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
*
90034044 ATATCCTTAATTTGTA
66 ATACCCTTAATTTGTA
* *
90034060 AAATTATCAAAATACCCT
1 AAATTACCAAAACACCCT
90034078 TGTAGTGTAA
Statistics
Matches: 289, Mismatches: 43, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.00
80 109 0.38
81 173 0.60
82 6 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAACACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAA
ATACCCTTAATTTGTA
Found at i:90034072 original size:27 final size:27
Alignment explanation
Indices: 90033677--90034079 Score: 393
Period size: 27 Copynumber: 15.0 Consensus size: 27
90033667 AACACCCTCA
* **
90033677 ATTTGTAAAATTACCGAAATACCCCCG
1 ATTTGTAAAATTATCGAAATACCCTTG
*
90033704 ATTTGTAAAATTATCGAAATACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTTG
* * *
90033731 A-TTGTGAAATTA-CTAAAATATCCTTG
1 ATTTGTAAAATTATC-GAAATACCCTTG
* * *
90033757 ATTTGTAAAATTACCTAAATACCCCTG
1 ATTTGTAAAATTATCGAAATACCCTTG
* * * *
90033784 ATTTGTAAAATTACCAAAACACCCTTA
1 ATTTGTAAAATTATCGAAATACCCTTG
* * * *
90033811 ATTTGTAAAATTACCAAAACACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTTG
* *
90033838 ATTTGTAAAATTGA-CGAAATACTCTCG
1 ATTTGTAAAATT-ATCGAAATACCCTTG
*
90033865 ATTTGTAAAATTATCGAAATA-CCTCTA
1 ATTTGTAAAATTATCGAAATACCCT-TG
* *
90033892 ATTTGTAGAATTATCGAAATACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTTG
* * * *
90033919 ATTGGTAAAATTACCAAAATACCCATG
1 ATTTGTAAAATTATCGAAATACCCTTG
* * *
90033946 ATTTGTGAAATTATCGAAACACCCTTA
1 ATTTGTAAAATTATCGAAATACCCTTG
* * *
90033973 ATTTGTAAAATTACCGAAACACCCTCG
1 ATTTGTAAAATTATCGAAATACCCTTG
* **
90034000 ATTTATAAAATTATCGAAATACCCTCA
1 ATTTGTAAAATTATCGAAATACCCTTG
* *
90034027 ATTT-TAAAATTATCGAAATATCCTTA
1 ATTTGTAAAATTATCGAAATACCCTTG
*
90034053 ATTTGTAAAATTATCAAAATACCCTTG
1 ATTTGTAAAATTATCGAAATACCCTTG
90034080 TAGTGTAAAA
Statistics
Matches: 317, Mismatches: 51, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.00
26 47 0.15
27 264 0.83
28 5 0.02
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
ATTTGTAAAATTATCGAAATACCCTTG
Found at i:90034086 original size:27 final size:27
Alignment explanation
Indices: 90034056--90034120 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
90034046 ATCCTTAATT
* *
90034056 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATGACCAAAATACCCTTGTAG
*
90034083 TGTAAAATGACCAACATACCCTTGTAG
1 TGTAAAATGACCAAAATACCCTTGTAG
*
90034110 GGTAAAATGAC
1 TGTAAAATGAC
90034121 TGTTTTGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCAAAATACCCTTGTAG
Found at i:90034594 original size:11 final size:11
Alignment explanation
Indices: 90034578--90034603 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
90034568 ATTGCATGTA
90034578 TGATATTATTG
1 TGATATTATTG
90034589 TGATATTATTG
1 TGATATTATTG
90034600 TGAT
1 TGAT
90034604 GTGGGCTTCG
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:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:90044602 original size:28 final size:26
Alignment explanation
Indices: 90044547--90044602 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
90044537 AGCATGGCTG
* *
90044547 CCAGAACAGATAATTTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
90044573 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
90044601 CC
1 CC
90044603 CTTCCTCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.20
27 9 0.36
28 11 0.44
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:90049071 original size:22 final size:22
Alignment explanation
Indices: 90049046--90049091 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
90049036 CGTGGTCCTT
*
90049046 AACACCATTCGTTTTGCAGCAC
1 AACACCATTCATTTTGCAGCAC
90049068 AACACCATTCATTTTGCAGCAC
1 AACACCATTCATTTTGCAGCAC
90049090 AA
1 AA
90049092 TCCAAAGTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (22 bp):
AACACCATTCATTTTGCAGCAC
Found at i:90050913 original size:28 final size:28
Alignment explanation
Indices: 90050868--90050975 Score: 134
Period size: 27 Copynumber: 3.9 Consensus size: 28
90050858 GGAAACCGGA
* *
90050868 ACAGA-AATATGTGACAGAGTCACCAGAT
1 ACAGATAAT-TGTGGCAGAGCCACCAGAT
*
90050896 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAATTGTGGCAGAGCCACCAGAT
90050923 ACAGA-AATATGTGGCAGAGCCACCAGAT
1 ACAGATAAT-TGTGGCAGAGCCACCAGAT
*
90050951 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAATTGTGGCAGAGCCACCAG
90050976 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
26 3 0.04
27 42 0.59
28 23 0.32
29 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (28 bp):
ACAGATAATTGTGGCAGAGCCACCAGAT
Found at i:90050948 original size:55 final size:54
Alignment explanation
Indices: 90050866--90050975 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 54
90050856 TAGGAAACCG
*
90050866 GAACAGAAATATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCA
1 GAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCACCA
* * *
90050921 GAACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
1 GAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACCA
90050975 G
1 G
90050976 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 23 0.45
55 28 0.55
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (54 bp):
GAACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACCA
Found at i:90052417 original size:24 final size:24
Alignment explanation
Indices: 90052390--90052436 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
90052380 CTAGATTTCC
**
90052390 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
90052414 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
90052437 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:90062244 original size:27 final size:26
Alignment explanation
Indices: 90062196--90062247 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90062186 NNNNNNCTGC
*
90062196 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
90062222 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
90062248 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:90063105 original size:27 final size:26
Alignment explanation
Indices: 90063075--90063139 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
90063065 GGGCATATTC
90063075 GTCATTTTACCATACAAGGGTA-TTACG
1 GTCATTTTACCATAC-AGGG-ACTTACG
* *
90063102 GTCACTTTACCCTACAGGGACTTTACG
1 GTCATTTTACCATACAGGGAC-TTACG
*
90063129 GTCTTTTTACC
1 GTCATTTTACC
90063140 TATTACGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.12
27 27 0.84
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCATACAGGGACTTACG
Found at i:90063226 original size:27 final size:27
Alignment explanation
Indices: 90063170--90063233 Score: 56
Period size: 27 Copynumber: 2.4 Consensus size: 27
90063160 TTTCTTCCTA
* * * *
90063170 CAAGGGTGTTTTGGTAAATCTACAATC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
90063197 CAAGGGTATTTTAGTAATTTTTTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
90063224 CAATGGTATT
1 CAAGGGTATT
90063234 CCTATAATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:90063289 original size:28 final size:28
Alignment explanation
Indices: 90063197--90063330 Score: 98
Period size: 27 Copynumber: 4.7 Consensus size: 28
90063187 ATCTACAATC
*
90063197 CAAGGGTATTTTAGTAATTTTTT-AAAC
1 CAAGGGTATTTTAGTAATTTTTTAAAAT
* *
90063224 CAATGGTATTCCTA-TAATTTTTTAAAAAAAGT
1 CAAGGGTATT-TTAGTAATTTTTT---AAAA-T
*
90063256 TAAGGGTATTTCT-GTAATTTTTTAAAAT
1 CAAGGGTATTT-TAGTAATTTTTTAAAAT
*
90063284 CAAGGGTATTTTGGTAA--TTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTTTA-AAAT
** *
90063311 TGAGGGTATTTTGGTAATTT
1 CAAGGGTATTTTAGTAATTT
90063331 CACAAACCAG
Statistics
Matches: 86, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
26 5 0.06
27 38 0.44
28 17 0.20
29 5 0.06
31 3 0.03
32 18 0.21
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (28 bp):
CAAGGGTATTTTAGTAATTTTTTAAAAT
Found at i:90063316 original size:27 final size:26
Alignment explanation
Indices: 90063286--90063410 Score: 162
Period size: 27 Copynumber: 4.7 Consensus size: 26
90063276 TTTAAAATCA
*
90063286 AGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTTGGTAATTTTACAAACT
* *
90063312 GAGGGTATTTTGGTAATTTCACAAACC
1 -AGGGTATTTTGGTAATTTTACAAACT
*
90063339 AGTGGTATTTCGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACT
90063366 AGGGGTATTTAT-GTAATTTTACAAACT
1 A-GGGTATTT-TGGTAATTTTACAAACT
90063393 AGGGGTATTTTGGTAATT
1 A-GGGTATTTTGGTAATT
90063411 CTATCCTACA
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
26 3 0.03
27 83 0.95
28 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:90063358 original size:54 final size:54
Alignment explanation
Indices: 90063287--90063443 Score: 178
Period size: 54 Copynumber: 2.9 Consensus size: 54
90063277 TTAAAATCAA
*
90063287 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTT-TGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTAT-GTAATTTCACAAACCAG
* * * *
90063341 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTATGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTATGTAATTTCACAAACCAG
* **
90063395 GGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCA-GTAATTTCACAA
1 GGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTT-ATGTAATTTCACAA
90063444 TCGAGGGTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
54 81 0.92
55 7 0.08
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTATGTAATTTCACAAACCAG
Found at i:90063389 original size:81 final size:82
Alignment explanation
Indices: 90063260--90063410 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 82
90063250 AAAAGTTAAG
* ** *
90063260 GGTATTTCTGTAATTTTTTAAAATCAAGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTTG
1 GGTATTTCGGTAATTTTACAAAATCAAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
90063324 GTAATTTCACAAACCAGT
65 GTAATTTCACAAACCAGT
* *
90063342 GGTATTTCGGTAATTTTACAAACT-AGGGGTATTTAT-GTAATTTTACAAACTAGGGGTATTTTG
1 GGTATTTCGGTAATTTTACAAAATCAAGGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTG
90063405 GTAATT
65 GTAATT
90063411 CTATCCTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
81 38 0.62
82 23 0.38
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (82 bp):
GGTATTTCGGTAATTTTACAAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
TAATTTCACAAACCAGT
Found at i:90063427 original size:81 final size:82
Alignment explanation
Indices: 90063259--90063443 Score: 200
Period size: 81 Copynumber: 2.3 Consensus size: 82
90063249 AAAAAGTTAA
* ** *
90063259 GGGTATTTCTGTAATTTTTTAAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAAATCAAGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTG
90063324 GTAATTTCACAAACCAG
66 GTAATTTCACAAACCAG
* * * *
90063341 TGGTATTTCGGTAATTTTACAAACT-AGGGGTATTTAT-GTAATTTTACAAACTAG-GGGTATTT
1 GGGTATTTCAGTAATTTTACAAAATCAAGGGTATTT-TGGTAATTTTACAAA-TAGAGGGTATTT
**
90063403 TGGTAA-TTCTATCCTA-CAG
64 TGGTAATTTC-A-CAAACCAG
*
90063422 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
90063444 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
80 3 0.03
81 59 0.68
82 25 0.29
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (82 bp):
GGGTATTTCAGTAATTTTACAAAATCAAGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTG
GTAATTTCACAAACCAG
Found at i:90063450 original size:27 final size:27
Alignment explanation
Indices: 90063287--90063450 Score: 138
Period size: 27 Copynumber: 6.1 Consensus size: 27
90063277 TTAAAATCAA
* *
90063287 GGGTATTTTGGTAATTTTACAAATTGA-
1 GGGTATTTTGGTAATTTCACAAA-CGAG
*
90063314 GGGTATTTTGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTCACAAACGAG
* * * *
90063341 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACGAG
* *
90063368 GGGTATTTAT-GTAATTTTACAAACTAG
1 GGGTATTT-TGGTAATTTCACAAACGAG
**
90063395 GGGTATTTTGGTAA-TTCTATCCTAC-AG
1 GGGTATTTTGGTAATTTC-A-CAAACGAG
** *
90063422 GGGTATTTCAGTAATTTCACAATCGAG
1 GGGTATTTTGGTAATTTCACAAACGAG
90063449 GG
1 GG
90063451 TAAAACGGTA
Statistics
Matches: 113, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
26 6 0.05
27 101 0.89
28 6 0.05
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACGAG
Found at i:90063476 original size:27 final size:27
Alignment explanation
Indices: 90063442--90063639 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
90063432 GTAATTTCAC
*
90063442 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
90063469 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
90063496 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
90063523 AATCAATGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
90063550 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
90063577 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
90063604 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
90063631 AATCGAGGG
1 AATCGAGGG
90063640 CATTTCAGTA
Statistics
Matches: 151, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 149 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:90063559 original size:81 final size:81
Alignment explanation
Indices: 90063442--90063639 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
90063432 GTAATTTCAC
* * * * *
90063442 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCAAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGGTAATTTTGTAAATCGAGGGT
*
90063506 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTATA
* *
90063523 AATCAATGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
90063588 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
* *
90063604 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGG
90063640 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 104 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (81 bp):
AATCAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTATA
Found at i:90063651 original size:81 final size:81
Alignment explanation
Indices: 90063485--90063659 Score: 251
Period size: 81 Copynumber: 2.2 Consensus size: 81
90063475 GGGTAAAATG
* * *
90063485 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAATGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
* *
90063550 AATCGAGGGTAAAACG
66 AATCGAGGGCAAAACA
* *
90063566 GTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
***
90063631 AATCGAGGGCATTTCA
66 AATCGAGGGCAAAACA
*
90063647 GTAATTTGGTAAA
1 GTAATTTTGTAAA
90063660 CTAAAGTATT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
AATCGAGGGCAAAACA
Found at i:90065850 original size:10 final size:9
Alignment explanation
Indices: 90065829--90065864 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
90065819 TTGTTTTAGT
90065829 TAATTATTA
1 TAATTATTA
90065838 TAATTATTTA
1 TAATTA-TTA
90065848 TAATTATTA
1 TAATTATTA
90065857 -AATTATTA
1 TAATTATTA
90065865 GTTTTATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATTATTA
Found at i:90067187 original size:18 final size:18
Alignment explanation
Indices: 90067155--90067192 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
90067145 TACAATATAG
90067155 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
90067174 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
90067191 TA
1 TA
90067193 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:90075304 original size:48 final size:48
Alignment explanation
Indices: 90075228--90075360 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
90075218 TAGGGTTATG
*
90075228 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATA
1 TGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGATA
* * * *
90075276 TGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATCTATA
1 TGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGATA
** * *
90075324 TGTGATTTCTTGTAAGACCATGTTTGGGACATGGCAT
1 TGTGATCCCATGTAAGACCATGTATGGGACATGGCAT
90075361 CGATATTAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGATA
Found at i:90076508 original size:292 final size:289
Alignment explanation
Indices: 90075954--90076510 Score: 1015
Period size: 292 Copynumber: 1.9 Consensus size: 289
90075944 TCTTTTTGTT
90075954 TATGTGTCATTAATTTAGCAAGCGTGTTGACTTATAATGATTTGATGATTCATTTTGTATATGGC
1 TATGTGTCATTAATTTAGCAAGCGTGTTGACTTATAATGATTTGATGATTCATTTTGTATATGGC
*
90076019 CATGAGATATGGTTCATATTGATTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAA
66 CATGAGATATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAA
*
90076084 AGTCTTGATGATGATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTG
131 AGTCTTGATGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTG
*
90076149 GTATGGCTATGATCATGGTTTAAATGTGTAAATTGAGAGTAGATTAATAATGTTGATTGGATATG
196 GTATGGCTATGATCATAGTTTAAATGTGTAAATTGAGAGTAGATTAATAATGTTGATTGGATATG
90076214 AAATTAGTAAGTAAGCTTTTTAATTTGAG
261 AAATTAGTAAGTAAGCTTTTTAATTTGAG
* * *
90076243 TATGTGTCATATTAATTTGGCCAAGTGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATAT
1 TATGTGTC--ATTAATTTAG-CAAGCGTGTTGACTTATAATGATTTGATGATTCATTTTGTATAT
*
90076308 GGCCATGAGATATGGTTCATATTGACTATTGGGTTGTAAACCTAATTATTTATGCATGCATGTGT
63 GGCCATGAGATATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGT
90076373 CAAAGTCTTGATGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAA
128 CAAAGTCTTGATGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAA
*
90076438 TTGGTATGGCTATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGAT
193 TTGGTATGGCTATGATCATAGTTTAAATGTGTAAATTGAGAGTAGATTAATAATGTTGATTGGAT
90076503 ATGAAATT
258 ATGAAATT
90076511 GGTGTGGAGT
Statistics
Matches: 257, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
289 8 0.03
291 9 0.04
292 240 0.93
ACGTcount: A:0.31, C:0.07, G:0.23, T:0.39
Consensus pattern (289 bp):
TATGTGTCATTAATTTAGCAAGCGTGTTGACTTATAATGATTTGATGATTCATTTTGTATATGGC
CATGAGATATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAA
AGTCTTGATGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTG
GTATGGCTATGATCATAGTTTAAATGTGTAAATTGAGAGTAGATTAATAATGTTGATTGGATATG
AAATTAGTAAGTAAGCTTTTTAATTTGAG
Found at i:90076766 original size:29 final size:29
Alignment explanation
Indices: 90076732--90076795 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
90076722 GTGTGTAGGC
*
90076732 CGTGTGTGACACATGGTCAGCCCCATGGG
1 CGTGTGTGACACACGGTCAGCCCCATGGG
90076761 CGTGTGTGACACACGGTCAGCCCCATGGG
1 CGTGTGTGACACACGGTCAGCCCCATGGG
90076790 CGTGTG
1 CGTGTG
90076796 ACCTGACCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.20
Consensus pattern (29 bp):
CGTGTGTGACACACGGTCAGCCCCATGGG
Found at i:90091866 original size:60 final size:60
Alignment explanation
Indices: 90091763--90091883 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 60
90091753 CCATCATAAC
90091763 TCTTTCCCATTTCCACTCTAGTATCATCACTAGCTGCAATAATCCTGAAGGCACTTGATG
1 TCTTTCCCATTTCCACTCTAGTATCATCACTAGCTGCAATAATCCTGAAGGCACTTGATG
* * * *
90091823 TCTTTCCCATTTCCACTCTGGTATCATCACT-GACTGTAGTAATCTTGAAGGCACTTGATG
1 TCTTTCCCATTTCCACTCTAGTATCATCACTAG-CTGCAATAATCCTGAAGGCACTTGATG
90091883 T
1 T
90091884 TTGGCTTTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
59 1 0.02
60 55 0.98
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (60 bp):
TCTTTCCCATTTCCACTCTAGTATCATCACTAGCTGCAATAATCCTGAAGGCACTTGATG
Found at i:90099371 original size:161 final size:160
Alignment explanation
Indices: 90099105--90099550 Score: 567
Period size: 161 Copynumber: 2.8 Consensus size: 160
90099095 TGATAAAGAG
** * **
90099105 AAATTACTAAAACACCCTCAATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAA
1 AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATA-CCCTAATTTGTAAAATTATCGAA
* * * *
90099170 ATACCCTCGATTGTGAAATTACTAAAATATCCTTGATTTGTAAAATTACCTAAATACCCCTGATT
65 ATACCCTCGATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCATGATT
*
90099235 TGTAAAATTACCAAAACACCCTCGATTTGTA
130 TGTAAAATTACCAAAACACCCTCAATTTGTA
* *
90099266 AAATTACCGAAATACTCC-CGATTTGTAAAATTATCGAAATACCTCTAATTTGTAGAATTATCGA
1 AAATTACCGAAACAC-CCTCGATTTGTAAAATTATCGAAATACC-CTAATTTGTAAAATTATCGA
* *
90099330 AATACCCTCGATTGTGAAATTATTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCATGAT
64 AATACCCTCGATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCATGAT
* * *
90099395 TTGTGAAATTATCGAAACACCCTCAATTTGTA
129 TTGTAAAATTACCAAAACACCCTCAATTTGTA
*
90099427 AAATTACCGAAACACCCTCGATTTATAAAATTATCGAAATACCCTCAATTT-TAAAATTATCGAA
1 AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCT-AATTTGTAAAATTATCGAA
* ** * * * * *
90099491 ATATCCTTAATTTGTAAAATTA-TCAAAATACCCTTG-TAGTGTAAAATGACCAACATACCC
65 ATACCCTCGA-TTGTGAAATTACT-AAAATACCCTCGAT-TTGTAAAATTACCAAAATACCC
90099551 TTGTAAGGTA
Statistics
Matches: 249, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
160 27 0.11
161 220 0.88
162 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (160 bp):
AAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAATACCCTAATTTGTAAAATTATCGAAA
TACCCTCGATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAAATACCCATGATTT
GTAAAATTACCAAAACACCCTCAATTTGTA
Found at i:90099525 original size:27 final size:27
Alignment explanation
Indices: 90099118--90099524 Score: 452
Period size: 27 Copynumber: 15.2 Consensus size: 27
90099108 TTACTAAAAC
*
90099118 ACCCTCAATTTGTAAAATTATCGAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
*
90099145 ACCCCCGATTTGTAAAATTATCGAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
* *
90099172 ACCCTCGA-TTGTGAAATTA-CTAAAAT
1 ACCCTCGATTTGTAAAATTATC-GAAAT
* * * *
90099198 ATCCTTGATTTGTAAAATTACCTAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
* * *
90099225 ACCC-CTGATTTGTAAAATTACCAAAAC
1 ACCCTC-GATTTGTAAAATTATCGAAAT
*
90099252 ACCCTCGATTTGTAAAATTACCGAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
90099279 ACTCC-CGATTTGTAAAATTATCGAAAT
1 AC-CCTCGATTTGTAAAATTATCGAAAT
* *
90099306 A-CCTCTAATTTGTAGAATTATCGAAAT
1 ACCCTC-GATTTGTAAAATTATCGAAAT
* *
90099333 ACCCTCGA-TTGTGAAATTATTGAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
* *
90099359 ACCCTCGATTTGTAAAATTACCAAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
* *
90099386 ACCCAT-GATTTGTGAAATTATCGAAAC
1 ACCC-TCGATTTGTAAAATTATCGAAAT
* * *
90099413 ACCCTCAATTTGTAAAATTACCGAAAC
1 ACCCTCGATTTGTAAAATTATCGAAAT
*
90099440 ACCCTCGATTTATAAAATTATCGAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
*
90099467 ACCCTCAATTT-TAAAATTATCGAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
* ** *
90099493 ATCCTTAATTTGTAAAATTATCAAAAT
1 ACCCTCGATTTGTAAAATTATCGAAAT
90099520 ACCCT
1 ACCCT
90099525 TGTAGTGTAA
Statistics
Matches: 325, Mismatches: 42, Indels: 26
0.83 0.11 0.07
Matches are distributed among these distances:
25 3 0.01
26 69 0.21
27 244 0.75
28 9 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
ACCCTCGATTTGTAAAATTATCGAAAT
Found at i:90099533 original size:27 final size:28
Alignment explanation
Indices: 90099503--90099567 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
90099493 ATCCTTAATT
* *
90099503 TGTAAAATTATCAAAATACCCTTGT-AG
1 TGTAAAATGACCAAAATACCCTTGTAAG
*
90099530 TGTAAAATGACCAACATACCCTTGTAAG
1 TGTAAAATGACCAAAATACCCTTGTAAG
90099558 -GTAAAATGAC
1 TGTAAAATGAC
90099568 TGTTTTGCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.94
28 2 0.06
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (28 bp):
TGTAAAATGACCAAAATACCCTTGTAAG
Found at i:90099549 original size:80 final size:80
Alignment explanation
Indices: 90099118--90099551 Score: 400
Period size: 80 Copynumber: 5.4 Consensus size: 80
90099108 TTACTAAAAC
* * * * *
90099118 ACCCTCAATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAATACCCTCGA-TT
1 ACCCTCGATTTGTAAAATTA-CCAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCAATTT
* *
90099182 GTGAAATTA-CTAAAAT
65 GTAAAATTATC-GAAAT
* * * * * * *
90099198 ATCCTTGATTTGTAAAATTACCTAAATACCC-CTGATTTGTAAAATTACCAAAACACCCTCGATT
1 ACCCTCGATTTGTAAAATTACC-AAATACCCTC-AATTTGTAAAATTATCGAAATACCCTCAATT
*
90099262 TGTAAAATTACCGAAAT
64 TGTAAAATTATCGAAAT
* * *
90099279 ACTCC-CGATTTGTAAAATTATCGAAATA-CCTCTAATTTGTAGAATTATCGAAATACCCTCGA-
1 AC-CCTCGATTTGTAAAATTA-CCAAATACCCTC-AATTTGTAAAATTATCGAAATACCCTCAAT
* *
90099341 TTGTGAAATTATTGAAAT
63 TTGTAAAATTATCGAAAT
* * *
90099359 ACCCTCGATTTGTAAAATTACCAAAATACCCAT-GATTTGTGAAATTATCGAAACACCCTCAATT
1 ACCCTCGATTTGTAAAATTACC-AAATACCC-TCAATTTGTAAAATTATCGAAATACCCTCAATT
* *
90099423 TGTAAAATTACCGAAAC
64 TGTAAAATTATCGAAAT
* * * *
90099440 ACCCTCGATTTATAAAATTATCGAAATACCCTCAATTT-TAAAATTATCGAAATATCCTTAATTT
1 ACCCTCGATTTGTAAAATTA-CCAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCAATTT
*
90099504 GTAAAATTATCAAAAT
65 GTAAAATTATCGAAAT
* * *
90099520 ACCCTTG-TAGTGTAAAATGACCAACATACCCT
1 ACCCTCGAT-TTGTAAAATTACCAA-ATACCCT
90099552 TGTAAGGTAA
Statistics
Matches: 293, Mismatches: 45, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
79 9 0.03
80 171 0.58
81 107 0.37
82 6 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (80 bp):
ACCCTCGATTTGTAAAATTACCAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCAATTTG
TAAAATTATCGAAAT
Found at i:90099551 original size:134 final size:133
Alignment explanation
Indices: 90099105--90099551 Score: 463
Period size: 134 Copynumber: 3.3 Consensus size: 133
90099095 TGATAAAGAG
* * ** * *
90099105 AAATTACTAAAACACCCTCAATTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTA-CCAAATACCCTCGATTTGTAAAATTATCGAA
* * * * * * *
90099170 ATACCCTCGA-TTGTGAAATTA-CTAAAATATCCTTGATTTGTAAAATTACCTAAATACCCCTGA
65 ATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTT-TAAAATTATCGAAATACCCTTGA
90099233 TTTGTA
128 TTTGTA
* *
90099239 AAATTACCAAAACACCCTCGATTTGTAAAATTACCGAAATACTCC-CGATTTGTAAAATTATCGA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTACC-AAATAC-CCTCGATTTGTAAAATTATCGA
* * * * * *
90099303 AATA-CCTCTAATTTGTAGAATTATCGAAATACCCTCGATTGTGAAATTATTGAAATACCCTCGA
64 AATACCCTC-GATTTGTAAAATTATCGAAATACCCTCGATTTTAAAATTATCGAAATACCCTTGA
90099367 TTTGTA
128 TTTGTA
* * * * * *
90099373 AAATTACCAAAATACCCATGATTTGTGAAATTATCGAAACACCCTCAATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTTGATTTGTAAAATTA-CCAAATACCCTCGATTTGTAAAATTATCGAA
* * * * *
90099438 ACACCCTCGATTTATAAAATTATCGAAATACCCTCAATTTTAAAATTATCGAAATATCCTTAATT
65 ATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTTAAAATTATCGAAATACCCTTGATT
90099503 TGTA
130 TGTA
* * *
90099507 AAATTATCAAAATACCCTTG-TAGTGTAAAATGACCAACATACCCT
1 AAATTACCAAAATACCCTTGAT-TTGTAAAATTACCAA-ATACCCT
90099552 TGTAAGGTAA
Statistics
Matches: 261, Mismatches: 42, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
133 11 0.04
134 221 0.85
135 28 0.11
136 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (133 bp):
AAATTACCAAAATACCCTTGATTTGTAAAATTACCAAATACCCTCGATTTGTAAAATTATCGAAA
TACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTTAAAATTATCGAAATACCCTTGATTT
GTA
Found at i:90100452 original size:31 final size:31
Alignment explanation
Indices: 90100416--90100477 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
90100406 CCTCTTTATT
90100416 TTCTTAACCTTTTATTTGGGAAATATATTTA
1 TTCTTAACCTTTTATTTGGGAAATATATTTA
90100447 TTCTTAACCTTTTATTTGGGAAATATATTTA
1 TTCTTAACCTTTTATTTGGGAAATATATTTA
90100478 GTATGCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (31 bp):
TTCTTAACCTTTTATTTGGGAAATATATTTA
Found at i:90110359 original size:56 final size:56
Alignment explanation
Indices: 90110273--90110389 Score: 216
Period size: 56 Copynumber: 2.1 Consensus size: 56
90110263 AGGGATGATG
90110273 GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATA
1 GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATA
* *
90110329 GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATG
1 GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATA
90110385 GGCAA
1 GGCAA
90110390 TAAACTAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.22
Consensus pattern (56 bp):
GGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATA
Found at i:90111656 original size:80 final size:80
Alignment explanation
Indices: 90111519--90111737 Score: 250
Period size: 80 Copynumber: 2.7 Consensus size: 80
90111509 TCGAATGATG
* * * ** *
90111519 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGAATT
90111583 TGTGCGAGATACTA-AA
64 TGTGCGAGATACTATAA
*
90111599 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGAATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGAATTT
*
90111664 GTGCGAGTTACTATAA
65 GTGCGAGATACTATAA
* * **
90111680 -CCGGGCTATGTGCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAGTTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAG-TCCGAAGG
90111738 TACGTGATTT
Statistics
Matches: 121, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
79 17 0.14
80 95 0.79
81 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGAATTTG
TGCGAGATACTATAA
Found at i:90111718 original size:40 final size:40
Alignment explanation
Indices: 90111519--90111704 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
90111509 TCGAATGATG
* * * *
90111519 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
90111559 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
90111599 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
90111639 TCCGGGTTAAGTCCCGAAGGAATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
90111680 -CCGGGCTATGTGCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
90111705 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90113321 original size:27 final size:27
Alignment explanation
Indices: 90113236--90113321 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
90113226 CAGCATGACT
* *
90113236 ACCAGAAT-AGATAA-TGTGACAGAGTC
1 ACCAG-ATCAGATAATTGTGGCAGAGCC
* * *
90113262 ACCACATACAGATAATCGTGGTAGAGCC
1 ACCAGAT-CAGATAATTGTGGCAGAGCC
*
90113290 ACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGATCAGATAATTGTGGCAGAGCC
90113317 ACCAG
1 ACCAG
90113322 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.04
26 4 0.08
27 28 0.58
28 14 0.29
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
ACCAGATCAGATAATTGTGGCAGAGCC
Done.