Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 173 of 349
Found at i:56107099 original size:51 final size:51
Alignment explanation
Indices: 56107020--56107148 Score: 129
Period size: 51 Copynumber: 2.5 Consensus size: 51
56107010 GATTAGGTCG
* * **
56107020 CATGTGTAGTACTAAGTGCAAGCTACTATATGTACCCA-ATAGCTTCGATCA
1 CATGTGTGGTACTAAGTGCAAGCCACTATATGTA-AAAGATAGCTTCGATCA
* * *
56107071 CATGTGTGGTACTAAGTGC-AGACCACTATGTGTAAAAGATAGCTTTGGTCA
1 CATGTGTGGTACTAAGTGCAAG-CCACTATATGTAAAAGATAGCTTCGATCA
* *
56107122 CAAGTGTGGTACTATGTG-AAGGCCACT
1 CATGTGTGGTACTAAGTGCAA-GCCACT
56107149 TTGTGAAGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
50 3 0.05
51 61 0.94
52 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTGCAAGCCACTATATGTAAAAGATAGCTTCGATCA
Found at i:56107165 original size:51 final size:51
Alignment explanation
Indices: 56107058--56107186 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 51
56107048 TATGTACCCA
* * *
56107058 ATAGCTTCGATCACATGTGTGGTACTAAGTGCAGACCACTATGTGTAAAAG
1 ATAGCTTTGATCACAAGTGTGGTACTAAGTGAAGACCACTATGTGTAAAAG
* * * *
56107109 ATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAG
1 ATAGCTTTGATCACAAGTGTGGTACTAAGTGAAGACCACTATGTGTAA-AAG
* * *
56107160 GTAGCTTTGA-CTACAAGGGTTGTACTA
1 ATAGCTTTGATC-ACAAGTGTGGTACTA
56107187 TGTACAGGTC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 3 0.05
51 62 0.95
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
ATAGCTTTGATCACAAGTGTGGTACTAAGTGAAGACCACTATGTGTAAAAG
Found at i:56113779 original size:51 final size:50
Alignment explanation
Indices: 56113724--56113863 Score: 124
Period size: 50 Copynumber: 2.8 Consensus size: 50
56113714 TGCATACCCA
*
56113724 ATAGCTTTGATCACATA-TGTGATACTAAGTGCAGGCCACTATGTGTAA-AAG
1 ATAGCTTTGATCACA-AGTGTG-TACTAAGTGAAGGCCACTATGTG-AAGAAG
* * * *
56113775 ATAGCTTTGGTCGCAAGTGTGTACTATGTGAAGGCCACTTTGTGAAGAAG
1 ATAGCTTTGATCACAAGTGTGTACTAAGTGAAGGCCACTATGTGAAGAAG
* * * * *
56113825 GTAGCTTTTA-CTACAAGGGTGGTACTATGTGCAGGCCAC
1 ATAGCTTTGATC-ACAAGTGT-GTACTAAGTGAAGGCCAC
56113864 CGGGCATCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
49 3 0.04
50 37 0.50
51 34 0.46
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
ATAGCTTTGATCACAAGTGTGTACTAAGTGAAGGCCACTATGTGAAGAAG
Found at i:56118175 original size:56 final size:55
Alignment explanation
Indices: 56118114--56118260 Score: 170
Period size: 56 Copynumber: 2.6 Consensus size: 55
56118104 TCCCAGACAG
* ** *
56118114 GGTCTTACTCGTAAACACATATCGGAATCACATATTGATGCCAACGTATAAAACGT
1 GGTCTTACTCGTAAACATATATC-GAATCACATATCAATGCCAACGTATAAAAAGT
* * * *
56118170 TGTCTTACTCG-AACATATATATCAAAGTCATATATCAATGCCAACGTATAAAAAGT
1 GGTCTTACTCGTAA-ACATATATCGAA-TCACATATCAATGCCAACGTATAAAAAGT
*
56118226 GGTCTTACTCGTACACATATATCAGAATCACATAT
1 GGTCTTACTCGTAAACATATATC-GAATCACATAT
56118261 ACTTCCAAGT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
55 4 0.05
56 67 0.91
57 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (55 bp):
GGTCTTACTCGTAAACATATATCGAATCACATATCAATGCCAACGTATAAAAAGT
Found at i:56120151 original size:41 final size:40
Alignment explanation
Indices: 56120085--56120217 Score: 167
Period size: 41 Copynumber: 3.2 Consensus size: 40
56120075 CAGAATAGGC
** *
56120085 CTTAGTGTGCAATTCGAGATAGCTTCGGCTATATATGGCA
1 CTTAGTGTGCAAGACGAGATAGCTTCGGCTATGTATGGCA
*
56120125 CTTAGTGTGCAAGACCGAGATAGCTTCGGCTATGTAAGGCA
1 CTTAGTGTGCAAGA-CGAGATAGCTTCGGCTATGTATGGCA
** * *
56120166 CTTAGTGTGCAAGATTATAATAGCTTCCGCTATGTATTGGCA
1 CTTAGTGTGCAAGACGA-GATAGCTTCGGCTATGTA-TGGCA
56120208 CTTAGTGTGC
1 CTTAGTGTGC
56120218 GTGATATCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 13 0.16
41 54 0.67
42 14 0.17
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (40 bp):
CTTAGTGTGCAAGACGAGATAGCTTCGGCTATGTATGGCA
Found at i:56124332 original size:40 final size:40
Alignment explanation
Indices: 56124286--56124468 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
56124276 CTTGCACAAG
* * *
56124286 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
56124326 GCCTTCGGGACTTAGCCCGGATATAATCGCTA-CACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
56124365 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
56124405 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAA-
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
56124445 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56124469 CATTCGAATA
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.27
40 77 0.65
41 9 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:56124380 original size:79 final size:80
Alignment explanation
Indices: 56124250--56124468 Score: 229
Period size: 79 Copynumber: 2.8 Consensus size: 80
56124240 CTCAAGAAAT
* * * *
56124250 CTTCGGGAT-TTAG-CCGGATATAA-CTA-CTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTG
1 CTTC-GGATCTTAGCCCGGATATAATC-ACCTAGCACAAAGCCTTCGGGTCTTAGCCCGGATATA
*
56124311 GTC-ACTAGCATAAATGC
64 G-CAACTAGCACAAATGC
*
56124328 CTTCGGGA-CTTAGCCCGGATATAATC-GCTA-CACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CTTC-GGATCTTAGCCCGGATATAATCACCTAGCACAAA-GCCTTCGGGTCTTAGCCCGGATATA
* *
56124390 GCAACTCGCACGAATGC
64 GCAACTAGCACAAATGC
* * * *
56124407 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAAGCCTTCGGGTCTTAGCCCGGATAT
56124469 CATTCGAATA
Statistics
Matches: 120, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
78 21 0.17
79 66 0.55
80 27 0.22
81 6 0.05
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATATAATCACCTAGCACAAAGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:56124459 original size:119 final size:117
Alignment explanation
Indices: 56124250--56124468 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 117
56124240 CTCAAGAAAT
* * * * *
56124250 CTTCGGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
*
56124315 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAATCGCTACACAAATGC
66 CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCGCTACACAAATGC
* * * *
56124367 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAG
1 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAG
56124431 TCACCTAGCACAAA-GCCTTCGGGACTTAGCCCGGATAT
63 TCA-CTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
56124469 CATTCGAATA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
116 1 0.01
117 11 0.12
118 17 0.19
119 50 0.57
120 9 0.10
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (117 bp):
CTTCGGGATTTAGCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCGCTACACAAATGC
Found at i:56132451 original size:40 final size:40
Alignment explanation
Indices: 56132405--56132587 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
56132395 CTTGCACAAG
* * *
56132405 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
56132445 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
56132485 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCAC-AAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
56132524 GCCTTCGGATCTTAGTCCGGTTATAGTCACTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
56132564 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56132588 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 34 0.28
40 87 0.72
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:56132526 original size:79 final size:79
Alignment explanation
Indices: 56132369--56132587 Score: 250
Period size: 79 Copynumber: 2.8 Consensus size: 79
56132359 CTCAAGAAAT
* * * * *
56132369 CTTCGGGATTTAGCCGGATATAA-CTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCGGATATAATC-ACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
56132432 CACTAGCATAAATGC
65 CACTAGCATAAATGC
* *
56132447 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
* *
56132511 CAACTCGCA-CAATGC
65 C-ACTAGCATAAATGC
* * *
56132526 CTTC-GGATCTTAGTCCGGTTATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
56132588 CATTCGAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
78 15 0.12
79 74 0.61
80 33 0.27
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTC
ACTAGCATAAATGC
Found at i:56140603 original size:40 final size:40
Alignment explanation
Indices: 56140557--56140741 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
56140547 CTTGCACAAG
* * *
56140557 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
56140597 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
** * *
56140637 GCCTTCGGGTCTTAGCCCAAATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
56140677 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
56140718 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56140742 CATTCGAATA
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 87 0.74
41 29 0.25
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:56140652 original size:80 final size:80
Alignment explanation
Indices: 56140521--56140741 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 80
56140511 CTCAAGAAAT
* * * * * *
56140521 CTTCGGGATTTAGCCGGATATAA-CTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-
*
56140584 C-ACTAGCATAAATGC
65 CAACTAGCACAAATGC
* * **
56140599 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCAAATATAG
1 CTTCGGGACTTAG-CCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
* *
56140663 CAACTCGCACGAATGC
65 CAACTAGCACAAATGC
* * * *
56140679 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
56140742 CATTCGAATA
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
78 12 0.10
79 20 0.17
80 55 0.47
81 31 0.26
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCGGATATAATCAACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:56146094 original size:21 final size:20
Alignment explanation
Indices: 56146060--56146099 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
56146050 ATGTTCAAGT
* *
56146060 TCCACACGGGCGTGTTGCCCA
1 TCCACACAGACGTG-TGCCCA
56146081 TCCACACAGACGTGTGCCC
1 TCCACACAGACGTGTGCCC
56146100 TGTTTCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.40, G:0.25, T:0.17
Consensus pattern (20 bp):
TCCACACAGACGTGTGCCCA
Found at i:56148921 original size:51 final size:51
Alignment explanation
Indices: 56148861--56148963 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 51
56148851 TTGACGTCGA
* * **
56148861 ATTTGTGGTCTCAAAACCACTA-TTCTAATTTGACTAAAAATGGGCTATTAC
1 ATTTGTGGTCCCAAAACCACTATTTC-AATTTCACTAAAAACAGGCTATTAC
* * *
56148912 ATTTGTGGTCCCAGAACCACTGTTTCAATTTCACTGAAAACAGGCTATTAC
1 ATTTGTGGTCCCAAAACCACTATTTCAATTTCACTAAAAACAGGCTATTAC
56148963 A
1 A
56148964 AGATGTCAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 41 0.93
52 3 0.07
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (51 bp):
ATTTGTGGTCCCAAAACCACTATTTCAATTTCACTAAAAACAGGCTATTAC
Found at i:56153046 original size:37 final size:37
Alignment explanation
Indices: 56152996--56153071 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
56152986 TCTTTAAGTT
56152996 TACCAGATAAAAAGAAGTTGTTGTAAGATTTGTTCTA
1 TACCAGATAAAAAGAAGTTGTTGTAAGATTTGTTCTA
56153033 TACCAGATAAAAAGAAGTTGTTGTAAGATTTGTTCTA
1 TACCAGATAAAAAGAAGTTGTTGTAAGATTTGTTCTA
56153070 TA
1 TA
56153072 AGGCTTTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (37 bp):
TACCAGATAAAAAGAAGTTGTTGTAAGATTTGTTCTA
Found at i:56155425 original size:29 final size:29
Alignment explanation
Indices: 56155388--56155579 Score: 251
Period size: 29 Copynumber: 6.6 Consensus size: 29
56155378 GACGCCAATC
*
56155388 AATATGAAAAGGGATGGTGACGACTATCA
1 AATATGAAAAGGGATGGTGACGACCATCA
*
56155417 AATATGAAAAGGGATGGTGATGACCATCA
1 AATATGAAAAGGGATGGTGACGACCATCA
* ** *
56155446 AATATGAAAAGGGATGGTGACAACTGTCG
1 AATATGAAAAGGGATGGTGACGACCATCA
**
56155475 AATATGAAAAGGGAT-GTTTCGACCATCA
1 AATATGAAAAGGGATGGTGACGACCATCA
* *
56155503 AATATGAAAATGGATGGTGAAGACCATCA
1 AATATGAAAAGGGATGGTGACGACCATCA
* * *
56155532 AATATGAAAAGGGATGGTGACAACTATCG
1 AATATGAAAAGGGATGGTGACGACCATCA
56155561 AATATGAAAAAGGGATGGT
1 AATATG-AAAAGGGATGGT
56155580 TTTGACTATC
Statistics
Matches: 139, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
28 21 0.15
29 106 0.76
30 12 0.09
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (29 bp):
AATATGAAAAGGGATGGTGACGACCATCA
Found at i:56155534 original size:86 final size:86
Alignment explanation
Indices: 56155388--56155577 Score: 308
Period size: 86 Copynumber: 2.2 Consensus size: 86
56155378 GACGCCAATC
* *
56155388 AATATGAAAAGGGATGGTGACGACTATCAAATATGAAAAGGGATGGTGATGACCATCAAATATGA
1 AATATGAAAAGGGAT-GTGACGACCATCAAATATGAAAAGGGATGGTGAAGACCATCAAATATGA
*
56155453 AAAGGGATGGTGACAACTGTCG
65 AAAGGGATGGTGACAACTATCG
** *
56155475 AATATGAAAAGGGATGTTTCGACCATCAAATATGAAAATGGATGGTGAAGACCATCAAATATGAA
1 AATATGAAAAGGGATGTGACGACCATCAAATATGAAAAGGGATGGTGAAGACCATCAAATATGAA
56155540 AAGGGATGGTGACAACTATCG
66 AAGGGATGGTGACAACTATCG
56155561 AATATGAAAAAGGGATG
1 AATATG-AAAAGGGATG
56155578 GTTTTGACTA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
86 71 0.74
87 25 0.26
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (86 bp):
AATATGAAAAGGGATGTGACGACCATCAAATATGAAAAGGGATGGTGAAGACCATCAAATATGAA
AAGGGATGGTGACAACTATCG
Found at i:56161478 original size:19 final size:19
Alignment explanation
Indices: 56161420--56161480 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
56161410 AGTTTATCTA
56161420 TTTTATCTTTTTCTTTAAT
1 TTTTATCTTTTTCTTTAAT
* * *
56161439 TTTAATATTTGTT-TTTCAT
1 TTTTATCTTT-TTCTTTAAT
56161458 TTTTATCTTTTTCTTTAAT
1 TTTTATCTTTTTCTTTAAT
56161477 TTTT
1 TTTT
56161481 CTTTAATCTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 2 0.06
19 30 0.88
20 2 0.06
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATCTTTTTCTTTAAT
Found at i:56161604 original size:196 final size:196
Alignment explanation
Indices: 56161250--56161600 Score: 652
Period size: 196 Copynumber: 1.8 Consensus size: 196
56161240 TTTTTCTAGT
56161250 TTTGTTTTTCATTTTTATCTTTTTCTTTAATTTTAATTTAATCTTAATTTTAATATTTGTTTTTA
1 TTTGTTTTTCATTTTTATCTTTTTCTTTAATTTTAATTTAATCTTAATTTTAATATTTGTTTTTA
**
56161315 AGTTTGATGTTAATTTTATTTATTTTAATAACGGGGGTCAAATTGGCCCAAATACTAATAAGTTT
66 AGTTTGATGTTAATTTTATTTATTTTAATAACGAAGGTCAAATTGGCCCAAATACTAATAAGTTT
56161380 ATTTATTTTTAAGCAGTCCAATTTTTTAAAAGTTTATCTATTTTATCTTTTTCTTTAATTTTAAT
131 ATTTATTTTTAAGCAGTCCAATTTTTTAAAAGTTTATCTATTTTATCTTTTTCTTTAATTTTAAT
56161445 A
196 A
**
56161446 TTTGTTTTTCATTTTTATCTTTTTCTTTAATTTTTCTTTAATCTTAATTTTAATATTTGTTTTTA
1 TTTGTTTTTCATTTTTATCTTTTTCTTTAATTTTAATTTAATCTTAATTTTAATATTTGTTTTTA
56161511 AGTTTGATGTTAATTTTATTTATTTTAATAAC-AAGGTCAAATTGGCCCAAATACTAATAAGTTT
66 AGTTTGATGTTAATTTTATTTATTTTAATAACGAAGGTCAAATTGGCCCAAATACTAATAAGTTT
56161575 ATTT-TTTTTAAGCAGTCCAATTTTTT
131 ATTTATTTTTAAGCAGTCCAATTTTTT
56161601 TTAAGTTTGG
Statistics
Matches: 151, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
194 22 0.15
195 34 0.23
196 95 0.63
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (196 bp):
TTTGTTTTTCATTTTTATCTTTTTCTTTAATTTTAATTTAATCTTAATTTTAATATTTGTTTTTA
AGTTTGATGTTAATTTTATTTATTTTAATAACGAAGGTCAAATTGGCCCAAATACTAATAAGTTT
ATTTATTTTTAAGCAGTCCAATTTTTTAAAAGTTTATCTATTTTATCTTTTTCTTTAATTTTAAT
A
Found at i:56163802 original size:19 final size:20
Alignment explanation
Indices: 56163778--56163815 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56163768 GGTACCACCA
56163778 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56163797 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56163816 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56166246 original size:18 final size:17
Alignment explanation
Indices: 56166206--56166249 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
56166196 AAGGGGGGAA
*
56166206 TTTATTTTTCTTTAGTT
1 TTTATTTTTCTTTAGTG
56166223 TTTATTTCTT-TTTAGGTG
1 TTTATTT-TTCTTTA-GTG
56166241 TTTATTTTT
1 TTTATTTTT
56166250 ATGTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.11, C:0.05, G:0.09, T:0.75
Consensus pattern (17 bp):
TTTATTTTTCTTTAGTG
Found at i:56167488 original size:56 final size:56
Alignment explanation
Indices: 56167422--56167597 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
56167412 ACAAGGGATG
56167422 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
56167478 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
56167534 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
56167590 ATGGGCAA
1 ATGGGCAA
56167598 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:56168887 original size:40 final size:40
Alignment explanation
Indices: 56168692--56168873 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
56168682 AATGATGTCT
* * * * *
56168692 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* *
56168732 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
*
56168772 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
56168811 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
56168851 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
56168874 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:56168895 original size:79 final size:79
Alignment explanation
Indices: 56168742--56168896 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
56168732 GGACTAAGAT
* **
56168742 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
56168807 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
56168821 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
56168884 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
56168897 ATTCTGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:56171943 original size:28 final size:30
Alignment explanation
Indices: 56171883--56171948 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
56171873 TTTTCATTTA
* *
56171883 TTTCACAATTTAACCCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCCTCAATTGACACT
* *
56171913 TTTCTCAATTTAA-TCCCT-AATTGACATT
1 TTTCTCAATTTAACCCCCTCAATTGACACT
*
56171941 TTTGTCAA
1 TTTCTCAA
56171949 AAATCACTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 15 0.48
29 4 0.13
30 12 0.39
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTCTCAATTTAACCCCCTCAATTGACACT
Found at i:56175465 original size:28 final size:28
Alignment explanation
Indices: 56175423--56175479 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
56175413 ATCTTCGATG
* * *
56175423 TCTCGTACACTAAGTGCCATACTCAATA
1 TCTCGCACACCAAGTACCATACTCAATA
* *
56175451 TCTCGCACACCAAGTACCATTCTTAATA
1 TCTCGCACACCAAGTACCATACTCAATA
56175479 T
1 T
56175480 TTTTCACATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (28 bp):
TCTCGCACACCAAGTACCATACTCAATA
Found at i:56175669 original size:44 final size:44
Alignment explanation
Indices: 56175601--56175690 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
56175591 AGTCGATATG
*
56175601 TCGTTAAACATAACAATAGTCACGTATATACAATTTATATAATA
1 TCGTCAAACATAACAATAGTCACGTATATACAATTTATATAATA
56175645 TCGTCAAACATAACAATAGTCACGTATATACAATTTATATAATA
1 TCGTCAAACATAACAATAGTCACGTATATACAATTTATATAATA
56175689 TC
1 TC
56175691 CAAGCATTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (44 bp):
TCGTCAAACATAACAATAGTCACGTATATACAATTTATATAATA
Found at i:56176911 original size:40 final size:39
Alignment explanation
Indices: 56176835--56176911 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
56176825 GGTTTTTGCT
* * *
56176835 CATGGGCTATGACACGGGTGTGTTGTGGCCGTGTGAGGGA
1 CATGGGCCATGACACGGGCGTGTTCTGGCCG-GTGAGGGA
56176875 CATGGGCCATTGACACGGGCGTGTGTCTGGCC-GTGAG
1 CATGGGCCA-TGACACGGGCGTGT-TCTGGCCGGTGAG
56176912 AAAACTCCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 13 0.41
41 13 0.41
42 6 0.19
ACGTcount: A:0.14, C:0.19, G:0.43, T:0.23
Consensus pattern (39 bp):
CATGGGCCATGACACGGGCGTGTTCTGGCCGGTGAGGGA
Found at i:56177007 original size:21 final size:21
Alignment explanation
Indices: 56176960--56177013 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
56176950 TGGATGTGGG
* *
56176960 ACACGAGCATGTTACCCTTCA
1 ACACGGGCGTGTTACCCTTCA
*
56176981 ACACGGGCGTGTTACCCTTCC
1 ACACGGGCGTGTTACCCTTCA
56177002 ACACGGGCGTGT
1 ACACGGGCGTGT
56177014 GCCCTGTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.33, G:0.24, T:0.22
Consensus pattern (21 bp):
ACACGGGCGTGTTACCCTTCA
Found at i:56185018 original size:30 final size:30
Alignment explanation
Indices: 56184943--56185027 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
56184933 TCCTTTTGTT
*
56184943 TCAATTTCTTTTTCA-TCTTCTTTTTCACTC
1 TCAATTTCTTTTTCATTC-TCTTTTTCAATC
** *
56184973 TCAAACTCTTCTTCATTCTCTTTTTCAATC
1 TCAATTTCTTTTTCATTCTCTTTTTCAATC
*
56185003 TCATTTTCTTTTTCATT-TCCTTTTT
1 TCAATTTCTTTTTCATTCT-CTTTTT
56185028 TGTTTTCCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 1 0.02
30 42 0.93
31 2 0.04
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (30 bp):
TCAATTTCTTTTTCATTCTCTTTTTCAATC
Found at i:56185132 original size:16 final size:16
Alignment explanation
Indices: 56185109--56185150 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
56185099 CTCTTGCCGC
56185109 TCTTTTCTTTTTATTT
1 TCTTTTCTTTTTATTT
* *
56185125 TGTTTTCTTTTTCTTT
1 TCTTTTCTTTTTATTT
56185141 TCTTTTCTTT
1 TCTTTTCTTT
56185151 GTTTTCTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (16 bp):
TCTTTTCTTTTTATTT
Found at i:56185160 original size:16 final size:16
Alignment explanation
Indices: 56185108--56185161 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
56185098 CCTCTTGCCG
56185108 CTCTTTTCTTTTTATT
1 CTCTTTTCTTTTTATT
* * *
56185124 TTGTTTTCTTTTTCTT
1 CTCTTTTCTTTTTATT
*
56185140 TTCTTTTCTTTGTT-TT
1 CTCTTTTCTTT-TTATT
56185156 CTCTTT
1 CTCTTT
56185162 ACAAGAATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.78
Consensus pattern (16 bp):
CTCTTTTCTTTTTATT
Found at i:56187559 original size:30 final size:30
Alignment explanation
Indices: 56187525--56187603 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
56187515 TAAACTAAAA
* *
56187525 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTAAGCTAAAGT
* * * * * *
56187555 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTAAGCTAAAGT
56187585 TGAGCTAAGGTTTAGCTCG
1 TGAGCTAAGGTTTAGCTCG
56187604 CGAGTTGAAA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTAAGCTAAAGT
Found at i:56197351 original size:14 final size:14
Alignment explanation
Indices: 56197332--56197364 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
56197322 TTAGTGTCCG
56197332 ATTAAATAAAAGGA
1 ATTAAATAAAAGGA
56197346 ATTAAATAAAAGGA
1 ATTAAATAAAAGGA
56197360 ATTAA
1 ATTAA
56197365 TCGCATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (14 bp):
ATTAAATAAAAGGA
Found at i:56200175 original size:16 final size:16
Alignment explanation
Indices: 56200154--56200190 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
56200144 TTTTAAAAAT
*
56200154 ATAATCATCTGGATTG
1 ATAATCATCTGCATTG
*
56200170 ATAATCATGTGCATTG
1 ATAATCATCTGCATTG
56200186 ATAAT
1 ATAAT
56200191 GGAGATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (16 bp):
ATAATCATCTGCATTG
Found at i:56203415 original size:46 final size:45
Alignment explanation
Indices: 56203348--56203470 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 45
56203338 CTGTTACGTG
56203348 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTTA-AGATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACC-TACAGATGT
* * *
56203393 AAGCCAGTGTAAGACATGTCTGGGAAATACATC-AGCTACGAGATGT
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTAC-AGATGT
*
56203439 -GCTAGTGTAAGACATGTCTGGGACATGCATCG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCG
56203471 GTACGAATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
44 30 0.44
45 2 0.03
46 36 0.53
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTACAGATGT
Found at i:56203483 original size:44 final size:44
Alignment explanation
Indices: 56203349--56203521 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 44
56203339 TGTTACGTGA
*
56203349 GCCAGTGTAAGACATGTCTGGGACATGCATC-G-ACCTTAAGATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTA-C-GAAGATGT
* * *
56203393 AAGCCAGTGTAAGACATGTCTGGGAAATACATCAGCTACG-AGATGT
1 --GCCAGTGTAAGACATGTCTGGGACATGCATC-GGTACGAAGATGT
* *
56203439 GCTAGTGTAAGACATGTCTGGGACATGCATCGGTACGAATATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTACGAAGATGT
* *
56203483 GAGAGCCAGTGTAAGACCATATCTGGGATATGGCATCGG
1 ----GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
56203522 CATCGATATG
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 5 0.05
44 33 0.31
46 35 0.33
48 12 0.11
49 13 0.12
50 7 0.07
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGTACGAAGATGT
Found at i:56205422 original size:18 final size:19
Alignment explanation
Indices: 56205383--56205425 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
56205373 CGGGCTGAAG
*
56205383 ACACGGGCATGTCCATCCC
1 ACACGGGCATGTCCAACCC
*
56205402 ACACGGGCATGT-GAACCC
1 ACACGGGCATGTCCAACCC
56205420 ACACGG
1 ACACGG
56205426 CCAACTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.12
Consensus pattern (19 bp):
ACACGGGCATGTCCAACCC
Found at i:56209308 original size:57 final size:57
Alignment explanation
Indices: 56209235--56209380 Score: 151
Period size: 57 Copynumber: 2.6 Consensus size: 57
56209225 ACATACCTGC
* *
56209235 ATATGGCCCA-CTAGGCCCAA-TCTCATTTATATGGCCCATTCAGG-CCAAT-TCACGTTT
1 ATATGGCCCATC-AGGCCCAATTCACATTCATATGGCCCATT-AGGCCCAATCTCA--TTT
* **
56209292 CTATGGCCCATCAGGCCCAATTCACATTCATATGGCTTATTAGGCCCAATCTCATTT
1 ATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATTT
*
56209349 ATATGGCCCATCCA-GCCCAAATCACA-TCATAT
1 ATATGGCCCAT-CAGGCCCAATTCACATTCATAT
56209381 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
56 6 0.08
57 44 0.57
58 24 0.31
59 3 0.04
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (57 bp):
ATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATTT
Found at i:56209325 original size:29 final size:28
Alignment explanation
Indices: 56209234--56209380 Score: 124
Period size: 29 Copynumber: 5.2 Consensus size: 28
56209224 TACATACCTG
*
56209234 CATATGGCCCA-CTAGGCCCAATCTCATT
1 CATATGGCCCATC-AGGCCCAATCACATT
* *
56209262 TATATGGCCCATTCAGG-CCAATTCACGTTT
1 CATATGGCCCA-TCAGGCCCAA-TCAC-ATT
56209292 C-TATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCATCAGGCCCAA-TCACATT
** * *
56209320 CATATGGCTTATTAGGCCCAATCTCATT
1 CATATGGCCCATCAGGCCCAATCACATT
*
56209348 TATATGGCCCATCCA-GCCCAAATCACA-T
1 CATATGGCCCAT-CAGGCCC-AATCACATT
56209376 CATAT
1 CATAT
56209381 TCATGCTCAC
Statistics
Matches: 96, Mismatches: 15, Indels: 16
0.76 0.12 0.13
Matches are distributed among these distances:
28 46 0.48
29 47 0.49
30 3 0.03
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (28 bp):
CATATGGCCCATCAGGCCCAATCACATT
Found at i:56216933 original size:28 final size:27
Alignment explanation
Indices: 56216902--56217035 Score: 126
Period size: 28 Copynumber: 4.7 Consensus size: 27
56216892 ACATACATGC
56216902 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCA-TAGGCCCAATCTCATTT
* * *
56216930 ATATGGCCCATCCGGGCCAAT-TCACGTTC
1 ATATGGCCCAT-AGGCCCAATCTCA--TTT
* *
56216959 ATTTGGCCCATCAGGCCCAATTCACATTT
1 ATATGGCCCAT-AGGCCCAA-TCTCATTT
*
56216988 ATATGGCCCATTAGACCCAATCTCATTT
1 ATATGGCCCA-TAGGCCCAATCTCATTT
*
56217016 ATATGGCCCATCTGGCCCAA
1 ATATGGCCCAT-AGGCCCAA
56217036 ATCACATTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
27 5 0.06
28 40 0.47
29 37 0.43
30 2 0.02
31 2 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.28
Consensus pattern (27 bp):
ATATGGCCCATAGGCCCAATCTCATTT
Found at i:56216966 original size:29 final size:29
Alignment explanation
Indices: 56216896--56217047 Score: 141
Period size: 29 Copynumber: 5.3 Consensus size: 29
56216886 ACCCCTACAT
*
56216896 ACATGCATATGGCCCA-CTAGGCCCAA-TC
1 ACATTCATATGGCCCATC-AGGCCCAATTC
* * * *
56216924 TCATTTATATGGCCCATCCGGGCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* *
56216953 ACGTTCATTTGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * *
56216982 ACATTTATATGGCCCATTAGACCCAA-TC
1 ACATTCATATGGCCCATCAGGCCCAATTC
* * * *
56217010 TCATTTATATGGCCCATCTGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAATTC
56217039 ACATT-ATAT
1 ACATTCATAT
56217048 TCATGCTCAC
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
28 47 0.47
29 53 0.53
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAATTC
Found at i:56218807 original size:43 final size:42
Alignment explanation
Indices: 56218760--56218869 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
56218750 ACATGTAATT
* *
56218760 AAATATCGATGCC-ACTATCCTAGACAAGGCCTAACACGAAATC
1 AAATA-CGATGCCGA-TATCCCAGACAAAGCCTAACACGAAATC
* * *
56218803 AAATACGATGCCGATCTCCCAGACAAAGCCTTACACGTAATC
1 AAATACGATGCCGATATCCCAGACAAAGCCTAACACGAAATC
* * *
56218845 AAATACAATGCCGATGTCCCGGACA
1 AAATACGATGCCGATATCCCAGACA
56218870 TAGTCTTACA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 52 0.90
43 6 0.10
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.18
Consensus pattern (42 bp):
AAATACGATGCCGATATCCCAGACAAAGCCTAACACGAAATC
Found at i:56218827 original size:42 final size:42
Alignment explanation
Indices: 56218781--56218869 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
56218771 CCACTATCCT
* *
56218781 AGACAAGGCCTAACACGAAATCAAATACGATGCCGATCTCCC
1 AGACAAAGCCTAACACGAAATCAAATACAATGCCGATCTCCC
* * *
56218823 AGACAAAGCCTTACACGTAATCAAATACAATGCCGATGTCCC
1 AGACAAAGCCTAACACGAAATCAAATACAATGCCGATCTCCC
*
56218865 GGACA
1 AGACA
56218870 TAGTCTTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (42 bp):
AGACAAAGCCTAACACGAAATCAAATACAATGCCGATCTCCC
Found at i:56218878 original size:42 final size:42
Alignment explanation
Indices: 56218793--56218934 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 42
56218783 ACAAGGCCTA
* * *
56218793 ACACGAAATCAAATACGATGCCGATCTCCCAGACAAAGCCTT
1 ACACGAAATCAAATACGATGCCGATGTCCCAGACATAGTCTT
* * *
56218835 ACACGTAATCAAATACAATGCCGATGTCCCGGACATAGTCTT
1 ACACGAAATCAAATACGATGCCGATGTCCCAGACATAGTCTT
* * *
56218877 ACAC-ATAATCTCAAAT-TGATGCCAACGTCCCAGACATAGTCTT
1 ACACGA-AA--TCAAATACGATGCCGATGTCCCAGACATAGTCTT
*
56218920 ACATGAAATCAAATA
1 ACACGAAATCAAATA
56218935 TCAGAAATCA
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
41 6 0.07
42 42 0.51
43 27 0.33
44 7 0.09
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (42 bp):
ACACGAAATCAAATACGATGCCGATGTCCCAGACATAGTCTT
Found at i:56222184 original size:41 final size:42
Alignment explanation
Indices: 56222130--56222261 Score: 122
Period size: 53 Copynumber: 2.9 Consensus size: 42
56222120 TGAGACTGAG
*
56222130 ATAGCTTCGGCTATG-AAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCAGCTATGCAAAGGCACTTAGTGTGCGAGATTATA
56222171 ATAGCTTCAGCTATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCAGC--TA---T--GC----AAAGGCACTTAGTGTGCGAGATTATA
***
56222224 ATAGCTTCAGCTATGCTTCGGCACTTAGTGTGCGAGAT
1 ATAGCTTCAGCTATGCAAAGGCACTTAGTGTGCGAGAT
56222262 ATTGAGTATT
Statistics
Matches: 75, Mismatches: 4, Indels: 23
0.74 0.04 0.23
Matches are distributed among these distances:
41 10 0.13
42 19 0.25
43 2 0.03
46 3 0.04
48 2 0.03
51 2 0.03
53 37 0.49
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (42 bp):
ATAGCTTCAGCTATGCAAAGGCACTTAGTGTGCGAGATTATA
Found at i:56222210 original size:53 final size:53
Alignment explanation
Indices: 56222130--56222245 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
56222120 TGAGACTGAG
56222130 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCT
1 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCT
56222183 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCT
1 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCT
56222236 AT-GCTTCGGC
1 ATAGCTTCGGC
56222246 ACTTAGTGTG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 8 0.13
53 55 0.87
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (53 bp):
ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGATTATAATAGCTTCAGCT
Found at i:56234712 original size:68 final size:66
Alignment explanation
Indices: 56234640--56234789 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
56234630 CATCATGTGT
* * * *
56234640 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
56234703 TGTAG
62 TGTAG
** * *
56234708 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
56234773 AG
65 AG
56234775 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
56234790 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:56234745 original size:64 final size:64
Alignment explanation
Indices: 56234664--56234847 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
56234654 AGACATTATG
* * *
56234664 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
56234728 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
56234793 AA
63 AA
* * *
56234795 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
56234848 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:56239225 original size:21 final size:22
Alignment explanation
Indices: 56239192--56239232 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
56239182 TTCATTTATG
*
56239192 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
56239213 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
56239233 CAACACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:56239566 original size:28 final size:27
Alignment explanation
Indices: 56239520--56239586 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
56239510 TGGAGGAAGC
* *
56239520 GTTCTAGTGGCTATGCCACAAACATCT
1 GTTCTGGTGGCTACGCCACAAACATCT
* *
56239547 GTTTTTGGTGGCTACGCCACAAATATCT
1 G-TTCTGGTGGCTACGCCACAAACATCT
56239575 GTTCTGGTGGCT
1 GTTCTGGTGGCT
56239587 CTGCTACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (27 bp):
GTTCTGGTGGCTACGCCACAAACATCT
Found at i:56239595 original size:27 final size:27
Alignment explanation
Indices: 56239520--56239634 Score: 101
Period size: 27 Copynumber: 4.3 Consensus size: 27
56239510 TGGAGGAAGC
* * *
56239520 GTTCTAGTGGCTATGCCACAAACATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
56239547 GTTTTTGGTGGCTAC-GCCACAAATATCT
1 G-TTCTGGTGGCT-CTGCCACAAATATCT
*
56239575 GTTCTGGTGGCTCTGCTAC-AATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
* * **
56239601 ATATCTGGTGACTCTATCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
56239628 GTTCTGG
1 GTTCTGG
56239635 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
26 14 0.19
27 36 0.50
28 22 0.31
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:56250514 original size:26 final size:26
Alignment explanation
Indices: 56250485--56250535 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
56250475 AAATTACAAG
*
56250485 TTATTAGCAATTAATATTAATTAATA
1 TTATTAGCAATTAATATTAAGTAATA
* **
56250511 TTATTTGTTATTAATATTAAGTAAT
1 TTATTAGCAATTAATATTAAGTAAT
56250536 TAATAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (26 bp):
TTATTAGCAATTAATATTAAGTAATA
Found at i:56250556 original size:8 final size:8
Alignment explanation
Indices: 56250545--56250681 Score: 62
Period size: 8 Copynumber: 17.2 Consensus size: 8
56250535 TTAATAATAT
56250545 TTATATTA
1 TTATATTA
56250553 TTATA-T-
1 TTATATTA
56250559 TTATATTA
1 TTATATTA
*
56250567 ATATATTTCGA
1 TTATA-TT--A
*
56250578 TT-TATAAA
1 TTATAT-TA
56250586 TCTATATT-
1 T-TATATTA
56250594 TCTATATTA
1 T-TATATTA
*
56250603 TTTATTTTA
1 -TTATATTA
56250612 TTAT-TCTA
1 TTATAT-TA
*
56250620 TCA-ATTA
1 TTATATTA
*
56250627 TTCTATTA
1 TTATATTA
56250635 TT-TATTA
1 TTATATTA
56250642 TTATATTA
1 TTATATTA
56250650 TCTAT-TT-
1 T-TATATTA
56250657 TTATATTA
1 TTATATTA
56250665 TCTAT-TTA
1 T-TATATTA
56250673 -TATATTA
1 TTATATTA
56250680 TT
1 TT
56250682 TTTCAATCTA
Statistics
Matches: 101, Mismatches: 8, Indels: 40
0.68 0.05 0.27
Matches are distributed among these distances:
6 11 0.11
7 19 0.19
8 47 0.47
9 16 0.16
10 6 0.06
11 2 0.02
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:56250558 original size:14 final size:14
Alignment explanation
Indices: 56250534--56250574 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
56250524 ATATTAAGTA
56250534 ATTAATAATATTTAT
1 ATTAAT-ATATTTAT
*
56250549 ATTATTATATTTAT
1 ATTAATATATTTAT
56250563 ATTAATATATTT
1 ATTAATATATTT
56250575 CGATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTAATATATTTAT
Found at i:56250648 original size:20 final size:19
Alignment explanation
Indices: 56250598--56250682 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 19
56250588 TATATTTCTA
*
56250598 TATTATTTATTTTATTATT
1 TATTATTTATTCTATTATT
* *
56250617 CTATCAATTATTCTATTATT
1 -TATTATTTATTCTATTATT
56250637 TATTA-TTATAT-TATCTATT
1 TATTATTTAT-TCTAT-TATT
*
56250656 T-TTATATTA-TCTATTTATA
1 TATTAT-TTATTCTA-TTATT
56250675 TATTATTT
1 TATTATTT
56250683 TTCAATCTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
18 11 0.21
19 18 0.34
20 24 0.45
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTTATTCTATTATT
Found at i:56253496 original size:28 final size:28
Alignment explanation
Indices: 56253452--56253505 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
56253442 GGAGGAAGCG
* *
56253452 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTAGTGGCTACGCCACAAATATCTGT
56253480 TTCTAGTGGCTACGCCACAAATATCT
1 TTCTAGTGGCTACGCCACAAATATCT
56253506 ATTCTGGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (28 bp):
TTCTAGTGGCTACGCCACAAATATCTGT
Found at i:56253523 original size:27 final size:26
Alignment explanation
Indices: 56253451--56253565 Score: 115
Period size: 27 Copynumber: 4.3 Consensus size: 26
56253441 TGGAGGAAGC
*
56253451 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
56253478 GTTTCTAGTGGCTAC-GCCACAAATATCT
1 G-TTCTGGTGGCT-CTGCCAC-AATATCT
* *
56253506 ATTCTGGTGGCTCTGCCACATTATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* **
56253532 GTATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
56253559 GTTCTGG
1 GTTCTGG
56253566 CAGTCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
26 13 0.18
27 38 0.51
28 23 0.31
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:56260663 original size:14 final size:14
Alignment explanation
Indices: 56260644--56260674 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56260634 AGGAGTTGAG
56260644 GAAGAAAGAAAATC
1 GAAGAAAGAAAATC
*
56260658 GAAGAAAGAAAGTC
1 GAAGAAAGAAAATC
56260672 GAA
1 GAA
56260675 ACAACAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.26, T:0.06
Consensus pattern (14 bp):
GAAGAAAGAAAATC
Found at i:56289142 original size:33 final size:31
Alignment explanation
Indices: 56289100--56289187 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 31
56289090 AGTATAGGCT
56289100 TTAGCCCTATACAGTATCAGTACAGTCAGGGCC
1 TTAGCCCTATACAGTATCAGTACAGT--GGGCC
*
56289133 TTAGCCCTATACAGTAACAGT---GTGGGCC
1 TTAGCCCTATACAGTATCAGTACAGTGGGCC
* * *
56289161 TAAGCCCAATACAGTATTAGTACAGTG
1 TTAGCCCTATACAGTATCAGTACAGTG
56289188 TAATGCAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
28 22 0.47
30 2 0.04
31 3 0.06
33 20 0.43
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (31 bp):
TTAGCCCTATACAGTATCAGTACAGTGGGCC
Found at i:56289159 original size:28 final size:30
Alignment explanation
Indices: 56289100--56289176 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 30
56289090 AGTATAGGCT
*
56289100 TTAGCCCTATACAGTATCAGTACAGTCAGGGCC
1 TTAGCCCTATACAGTAACAGT--AGT-AGGGCC
56289133 TTAGCCCTATACAGTAACAGT-GT-GGGCC
1 TTAGCCCTATACAGTAACAGTAGTAGGGCC
* *
56289161 TAAGCCCAATACAGTA
1 TTAGCCCTATACAGTA
56289177 TTAGTACAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 19 0.46
30 2 0.05
33 20 0.49
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (30 bp):
TTAGCCCTATACAGTAACAGTAGTAGGGCC
Found at i:56294953 original size:27 final size:26
Alignment explanation
Indices: 56294907--56294966 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
56294897 GCGAGGCTGC
56294907 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGTCACCAGA-A
* * *
56294934 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
*
56294960 TAGATAT
1 CAGATAT
56294967 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:56295053 original size:27 final size:26
Alignment explanation
Indices: 56295005--56295056 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
56294995 GTGAGGCTGC
*
56295005 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
56295031 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
56295057 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:56307497 original size:40 final size:40
Alignment explanation
Indices: 56307440--56307719 Score: 384
Period size: 40 Copynumber: 7.0 Consensus size: 40
56307430 CGAATACACG
* * * *
56307440 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
56307480 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
56307520 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
56307560 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
56307600 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
56307639 TCACTAGCATGAATGCTTTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
56307679 TCACTAGCATGAATGCTCTTCGGGACTTAGCTCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
56307718 TC
1 TC
56307720 GTCGAGACCT
Statistics
Matches: 213, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
39 40 0.19
40 173 0.81
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:56307682 original size:119 final size:120
Alignment explanation
Indices: 56307440--56307719 Score: 393
Period size: 119 Copynumber: 2.4 Consensus size: 120
56307430 CGAATACACG
* * * * *
56307440 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
* * *
56307505 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
* * *
56307560 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
* * * * *
56307624 CTTAGCCCGGATACATCACTAGCATGAATGCTTTTCGGGACTTAGCCCGGGTACA
66 CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
*
56307679 TCACTAGCATGAATGCTCTTCGGGACTTAGCTCGGAT-CATC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC
56307720 GTCGAGACCT
Statistics
Matches: 141, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
118 4 0.03
119 83 0.59
120 54 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
CTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:56307815 original size:38 final size:38
Alignment explanation
Indices: 56307773--56307847 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
56307763 GAATTTTAAT
*
56307773 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
56307811 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
56307848 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:56310330 original size:47 final size:47
Alignment explanation
Indices: 56310267--56310523 Score: 347
Period size: 47 Copynumber: 5.4 Consensus size: 47
56310257 CCCTTCGGGA
* * * *
56310267 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
56310314 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
56310361 CTTATCTCACATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
56310408 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
56310455 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
56310504 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
56310524 GTACATCAAT
Statistics
Matches: 191, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 149 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56310416 original size:22 final size:22
Alignment explanation
Indices: 56310342--56310416 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 22
56310332 TTTCACATTC
56310342 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
56310364 ATCTCACATAT-G-CATGTTC-ACATT
1 A--TCACAT-TGGCCA--TTCGGCCTT
56310388 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56310411 ATCACA
1 ATCACA
56310417 CATACACATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 11 0.28
23 12 0.30
24 12 0.30
25 5 0.12
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56318627 original size:55 final size:54
Alignment explanation
Indices: 56318498--56318704 Score: 256
Period size: 53 Copynumber: 3.8 Consensus size: 54
56318488 ATTAGGGTTT
* * *
56318498 AAGGATACCAAGTAAGACCATG-CTAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGGCATGGCAATGGTAAGTTCTATAAGGC
* * * * *
56318552 AAGGAAATCATGTAAGACCATGTCAAGGCATGGCACTGGTAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGT-AAGTTCTATAAGGC
* * * *
56318607 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGTAAGTTCTATAAGGC
* *
56318660 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGTAAGTT
56318705 TAAAAAGGAA
Statistics
Matches: 129, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
53 46 0.36
54 37 0.29
55 46 0.36
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATGGTAAGTTCTATAAGGC
Found at i:56324224 original size:664 final size:664
Alignment explanation
Indices: 56322949--56325630 Score: 2850
Period size: 696 Copynumber: 3.9 Consensus size: 664
56322939 TTGCACCCAC
* * * * * * *
56322949 AAACTTGTTGACCCCCGATAAATTATCAG-TACAAAATAATTCTGTCATGCCATCGTTTTGTC-T
1 AAACTTGTTGACCCGCGATAAATTGT-TGCTGCAAAATAATTCTATCATGCCATTGTTTGGTCTT
* * * * *
56323012 TTCCTTGTAAATTGTAGCATTTTCATAGGCATTTCACCTAATCTTCTCTAGTTTAGTGATATCTA
65 TTCCTTGTAAATTGCAGCATTTTCATAGGCATTTCGCCTAATCTCCTCTAGTTCAGTGATATCCA
* * *
56323077 ATAGCCTTTTCTTTCCAGTAGCGGAAGAAGATGGAAAGGCGTGACTTTTGTGAAGGGATATATAA
130 ACAACCTTTTCTTTCCAGTAACGGAAGAAGATGGAAAGGCGTGACTTTTGTGAAGGG--ATATAA
* ** ** *
56323142 AGCTGGTGGGAATAAATATGTTGAATGAGAATTGCGCCCGCTCAGACAGATCAGACAGCTAGGTC
193 AGTTGGCAGGAATAAATATGTCCAATGAGAATTGCGCCCGCTCAGACAGATCAGACGGCTAGGTC
* * * * ** *
56323207 ACTTTTGATCAAAC-GGTGGGATCTGAAATTTCTAAT-TGCCCTCATTCTCAATGAGTCATAAGG
258 ACTTTTGATCAAACTGATGGGATCTAAAATTTTTTATATGCCCTCATTCTTGATGAGTCATAAGT
*
56323270 GA-AGTACAATAGTACGAATTGCGTTGACAATAAAGCCCAAGTGAGTCGACAATGGTTCCTAATT
323 GACAGTACAATAGTACGAA--------AC-AT---G--C-----A-TCGACAATGGTACCTAATT
* * * ** * * *
56323334 ATTCAGCAAAAATAAA-AA-TAAAA-AGAA-GTGAAACAATTTGAATAAAA-AAAACAAAA-AAC
368 ATTCTG-AAAAAAAAAGAAGTAAAACA-AACTTG-AACAA--AAAACAAAATAAAATAAAATAAA
** * * * * *
56323393 ATCACATAATGGTAATTTC--T---AATT-----TTTTGACCAATTTAATGGTCTCTTCTTTCTT
428 ATCACATAATCATAAATTCAATAAAAATTAAAAATTTTAACAAATTTAATGGTCTCTTCCTGCTT
** *
56323448 TTGATTAATATTCCCAAAATAGTGTTTCATTCGCTT-TCCATTCACTTTGAACTGATGTCCATCA
493 TTGATTAATATTCCCAAAATAGTGTTTCAACCG-TTGTCCATTCACTTTGAACTGGTGTCCATCA
* * * * *
56323512 TGTAAATCTCTGATTGTGACTACACCATGAGAAAATACTTTGACAACTTCGAAAGGTCCAAACCG
557 TGTAAATCTCTGATTGTGACTGCACCATAAGGAAATACTTCGACAACTTCGAAAGGTCCAAACCA
*
56323577 ATGTGACTGCCTGGATGCAATTTTAGTCTAGAATTGAATAATA
622 ATGTGACTGCCTGGATGCAATTTCAGTCTAGAATTGAATAATA
* * * * * **
56323620 AAACTTGTTGACCCACGATAAATTGTCGCTGGAAAATAATTCTGTCATGCTATCATTTGGTCTTT
1 AAACTTGTTGACCCGCGATAAATTGTTGCTGCAAAATAATTCTATCATGCCATTGTTTGGTCTTT
* * *
56323685 TCCTTGTAAATTGCAGCATTTTTATATGCATTTCGCCTAATCTCCTCTAGTTTAGTGATATCCAA
66 TCCTTGTAAATTGCAGCATTTTCATAGGCATTTCGCCTAATCTCCTCTAGTTCAGTGATATCCAA
*
56323750 CAACCTTTTCTTTCCAGTAAC-GAAGAAGATGGAAAGGCATGACTTTTGTGAAGGGATATAAAGT
131 CAACCTTTTCTTTCCAGTAACGGAAGAAGATGGAAAGGCGTGACTTTTGTGAAGGGATATAAAGT
* *
56323814 TGGCAGGAATAAATATGTCCAATGAGAATTGTGTCCGCTCAGACAGATCAGACGGCTAGGTCACT
196 TGGCAGGAATAAATATGTCCAATGAGAATTGCGCCCGCTCAGACAGATCAGACGGCTAGGTCACT
* * **
56323879 TTTGATCAAACTG-TGGGATCTAAAATTTTTTATATGCCCTAATTCTTGACGAGTCATAAGTGGT
261 TTTGATCAAACTGATGGGATCTAAAATTTTTTATATGCCCTCATTCTTGATGAGTCATAAGTGAC
* * *
56323943 AGTACAATAGTACG-AAC-TGCATCGACAATGGTACCTACTTATTCTGAAAAAAAAACAAGTTAA
326 AGTACAATAGTACGAAACATGCATCGACAATGGTACCTAATTATTCTGAAAAAAAAAGAAGTAAA
* * *
56324006 ACAAACTTGAACGAAAACAAAACAAAATAAAATAAAATAAAATCACATAATTAAAAATTTAATAA
391 ACAAACTTGAAC---AA-AAAACAAAATAAAATAAAATAAAATCACATAATCATAAATTCAATAA
* * *
56324071 AAATTAAAAATTTCAACAAATTTAATGGTCTCTACCTGCTTTTGATTAATATTCCCAAAATAATG
452 AAATTAAAAATTTTAACAAATTTAATGGTCTCTTCCTGCTTTTGATTAATATTCCCAAAATAGTG
*
56324136 TTTCAACCGTTGTCCATTCACTTTGAACTGGTGTCCATCACGTAAATCTCTGATTGTGACTGCAC
517 TTTCAACCGTTGTCCATTCACTTTGAACTGGTGTCCATCATGTAAATCTCTGATTGTGACTGCAC
*
56324201 CATAAGGAAATACTTCGACAACTTCGAAAGGTCCAAACCAATGTGACTGCAATTTACCTGGGTGC
582 CATAAGGAAATACTTCGACAACTTCGAAAGGTCCAAACCAATGTGACTG-------CCTGGATGC
*
56324266 AATTTCAGT-TGTGAATTGAATAATA
640 AATTTCAGTCT-AGAATTGAATAATA
* *
56324291 AAACTTGTTGACCTGTGATAAATTGTTGCTGCAAAATAATTCTATCATGCCATTGTTTGGTCTTT
1 AAACTTGTTGACCCGCGATAAATTGTTGCTGCAAAATAATTCTATCATGCCATTGTTTGGTCTTT
* *
56324356 TCCTTGTAAATTGCATCATTTTCATAGGCATTTCGCCTAATCTTCTCTAGTTCAGTGATATCCAA
66 TCCTTGTAAATTGCAGCATTTTCATAGGCATTTCGCCTAATCTCCTCTAGTTCAGTGATATCCAA
* * *
56324421 CAGCCTTTTCTTTCCAGTAGCGGAAGAAGATGGAAAGGCGTGACTTTTGTGAAGGGATATAAAAT
131 CAACCTTTTCTTTCCAGTAACGGAAGAAGATGGAAAGGCGTGACTTTTGTGAAGGGATATAAAGT
* * * * * * * *
56324486 TGAC-GAGAATAAATATGTCGAATGACAATTACGCCCGCTCAGACAAATCAGATGGATAGGTCAA
196 TGGCAG-GAATAAATATGTCCAATGAGAATTGCGCCCGCTCAGACAGATCAGACGGCTAGGTCAC
* * * *
56324550 TTTTGATCAAAC-GATGGGATCTAAAATTTCTAATATGCCCTCATTCTTGATGATTCATAAGTTA
260 TTTTGATCAAACTGATGGGATCTAAAATTTTTTATATGCCCTCATTCTTGATGAGTCATAAGTGA
56324614 CAGTACAATAGTACGAACTGCGTTGACAATAAAGCCCAAGTGCGTCGACAATGGTACCTAATTAT
325 CAGTACAATAGTACGAA--------AC-AT---G--C-A-----TCGACAATGGTACCTAATTAT
* * *
56324679 TCTAAAAAAAAAGAAAGAAGAAGAAAAACAAACTTGAACAAAAAACAAAACAAAATAAAATAAAA
370 TCT----GAAAA-AAA-AAGAAGTAAAACAAACTTGAACAAAAAACAAAATAAAATAAAATAAAA
* * *
56324744 TCACATAATCATAAATTCAATAAAAATTAAAAAATTTTGACCAATTTAATTGTCT-TTGCCTGCT
429 TCACATAATCATAAATTCAATAAAAATT-AAAAATTTTAACAAATTTAATGGTCTCTT-CCTGCT
* * *
56324808 TTTGATTAATATTCCCAAAATGGTGTTTCAACCGTTATCCATTCACTTTGAACTGGTGTCAATCA
492 TTTGATTAATATTCCCAAAATAGTGTTTCAACCGTTGTCCATTCACTTTGAACTGGTGTCCATCA
* * *
56324873 TGTAAATCTCTAATTCTAACT-CACCATGAA-GAAATATCTT-GACAACTTCGAAAGGTCCAAAC
557 TGTAAATCTCTGATTGTGACTGCACCAT-AAGGAAATA-CTTCGACAACTTCGAAAGGTCCAAAC
** * * *
56324935 CAATGTGAGTACAATTTACTTGAGTACAAATTCAGTCTAGAATTGAATAATA
620 CAATGT--G-AC---TGCCTGGA-TGCAATTTCAGTCTAGAATTGAATAATA
* * * * *
56324987 AAACTTGTTGACCCGCGATAAATTTTTGCTACAAAATACTTCTATCCTGCCATTGTCTGGTCTTT
1 AAACTTGTTGACCCGCGATAAATTGTTGCTGCAAAATAATTCTATCATGCCATTGTTTGGTCTTT
* * *
56325052 TCCTTGTAAATTGTAG-AGTTTACATAGGCATTTCGTCTAATCTCCTCTAGTTCAGTGATATCCA
66 TCCTTGTAAATTGCAGCA-TTTTCATAGGCATTTCGCCTAATCTCCTCTAGTTCAGTGATATCCA
*
56325116 ACAACCTTTTCTTTCCAGTAACGGAAGAAGATGGAAAGGCGTGAGTTTTGTGAAGGGATATAAAG
130 ACAACCTTTTCTTTCCAGTAACGGAAGAAGATGGAAAGGCGTGACTTTTGTGAAGGGATATAAAG
* * *
56325181 CTGGCAGGAATAAATATGTCCAATGAGAATTGCGCCCGCTGAGACAGATCAGACGGCTAGGTAAC
195 TTGGCAGGAATAAATATGTCCAATGAGAATTGCGCCCGCTCAGACAGATCAGACGGCTAGGTCAC
* * *
56325246 TTTTGATCAAA-TGATGAGATCTGAAATTTTTTATATGCCCTCTTTCTTGATGAGTCATAAGTGA
260 TTTTGATCAAACTGATGGGATCTAAAATTTTTTATATGCCCTCATTCTTGATGAGTCATAAGTGA
* *
56325310 CAATACAATAGTAGGAACTGCGTTGACAATAAAGCCCAAGTGCATCGACAATGGTACCAAATTAT
325 CAGTACAATAGT----A---C---G-----AAA---C-A-TGCATCGACAATGGTACCTAATTAT
*
56325375 TCTGGAAAAAAAAGAAGTAAAACAAACTTGAAC-AAAAAC--AATAAAATAAAATAAAATCACAT
370 TCTGAAAAAAAAAGAAGTAAAACAAACTTGAACAAAAAACAAAATAAAATAAAATAAAATCACAT
* * * * *
56325437 GATGATAAATTCAATAAAAATTAAAATTTTTAGACTAATTTAATGGTCTCTTCTTGCTTTTGATT
435 AATCATAAATTCAATAAAAATTAAAAATTTTA-ACAAATTTAATGGTCTCTTCCTGCTTTTGATT
* * *
56325502 AATATTCCCAATAA-AGTGCTTCAACCATTGTCCATTCACTTTGAACTAGTGTCCATCATGTAAA
499 AATATTCCCAA-AATAGTGTTTCAACCGTTGTCCATTCACTTTGAACTGGTGTCCATCATGTAAA
* * *
56325566 TCTCTGATTGTGACTGCACCATGAGGAAATACTTCGACAACTTTGAAAGGTCCAGACCAATGTGA
563 TCTCTGATTGTGACTGCACCATAAGGAAATACTTCGACAACTTCGAAAGGTCCAAACCAATGTGA
56325631 GCGCAATTTT
Statistics
Matches: 1712, Mismatches: 195, Indels: 194
0.81 0.09 0.09
Matches are distributed among these distances:
648 8 0.00
649 24 0.01
650 10 0.01
651 3 0.00
652 6 0.00
653 10 0.01
654 16 0.01
655 1 0.00
656 1 0.00
657 1 0.00
659 4 0.00
660 1 0.00
662 2 0.00
663 2 0.00
664 150 0.09
669 94 0.05
670 27 0.02
671 265 0.15
672 241 0.14
673 1 0.00
681 2 0.00
683 1 0.00
685 1 0.00
686 10 0.01
687 139 0.08
688 43 0.03
689 7 0.00
690 21 0.01
691 3 0.00
692 3 0.00
694 23 0.01
695 4 0.00
696 430 0.25
697 115 0.07
698 5 0.00
699 5 0.00
700 20 0.01
701 1 0.00
702 2 0.00
703 2 0.00
704 1 0.00
706 4 0.00
707 1 0.00
711 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (664 bp):
AAACTTGTTGACCCGCGATAAATTGTTGCTGCAAAATAATTCTATCATGCCATTGTTTGGTCTTT
TCCTTGTAAATTGCAGCATTTTCATAGGCATTTCGCCTAATCTCCTCTAGTTCAGTGATATCCAA
CAACCTTTTCTTTCCAGTAACGGAAGAAGATGGAAAGGCGTGACTTTTGTGAAGGGATATAAAGT
TGGCAGGAATAAATATGTCCAATGAGAATTGCGCCCGCTCAGACAGATCAGACGGCTAGGTCACT
TTTGATCAAACTGATGGGATCTAAAATTTTTTATATGCCCTCATTCTTGATGAGTCATAAGTGAC
AGTACAATAGTACGAAACATGCATCGACAATGGTACCTAATTATTCTGAAAAAAAAAGAAGTAAA
ACAAACTTGAACAAAAAACAAAATAAAATAAAATAAAATCACATAATCATAAATTCAATAAAAAT
TAAAAATTTTAACAAATTTAATGGTCTCTTCCTGCTTTTGATTAATATTCCCAAAATAGTGTTTC
AACCGTTGTCCATTCACTTTGAACTGGTGTCCATCATGTAAATCTCTGATTGTGACTGCACCATA
AGGAAATACTTCGACAACTTCGAAAGGTCCAAACCAATGTGACTGCCTGGATGCAATTTCAGTCT
AGAATTGAATAATA
Found at i:56328211 original size:47 final size:44
Alignment explanation
Indices: 56328064--56328235 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 44
56328054 ACATTTCGTA
** * * *
56328064 ATGCATGTCTGAGACATGTCTTACACTGGCTTACGTC-TCAAGGTCG
1 ATGCATGTCCCAGACATGTCTTACACTAGC-T-C-TCATCAATGCCG
* *
56328110 ATGCATGTGCCAGACATGTCTTACACTAGCACTCATCCCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT--CAATGCCG
*
56328156 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AATGTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCAA--T-GCCG
56328204 ATGCATGTCCCAGACATGTCTTACACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTC
56328236 ACAATAATCC
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 2 0.02
46 49 0.46
47 28 0.26
48 24 0.22
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (44 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCAATGCCG
Found at i:56328243 original size:47 final size:44
Alignment explanation
Indices: 56328108--56328243 Score: 148
Period size: 47 Copynumber: 2.9 Consensus size: 44
56328098 GTCTCAAGGT
* **
56328108 CGATGCATGTGCCAGACATGTCTTACACTAGCACTCATCCCAA-TGC
1 CGATGCATGTCCCAGACATGTCTTACACTAG--CTCA-CATAATTGC
* *
56328154 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACATAAT-T-GC
56328202 CGATGCATGTCCCAGACATGTCTTACACTAGCTCACAATAAT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCAC-ATAAT
56328244 CCATATGTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
45 3 0.04
46 23 0.30
47 33 0.43
48 18 0.23
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAATTGC
Found at i:56336385 original size:27 final size:27
Alignment explanation
Indices: 56336347--56336491 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 27
56336337 TGTTACACAA
* * *
56336347 TCATCTTACCATATACGGGAAAAATAG
1 TCATTTTACCATATAAGGGAAAAACAG
* * *
56336374 TCTTTTTACCATATAGGGGCAAAACAG
1 TCATTTTACCATATAAGGGAAAAACAG
*
56336401 TCATTTTACCATATAAGGGCAAAACAG
1 TCATTTTACCATATAAGGGAAAAACAG
* *
56336428 TCATTTTACCACATAAGGGAAAAATAG
1 TCATTTTACCATATAAGGGAAAAACAG
* * *
56336455 TTATTTTACCACATAGGGGAAAAA-AG
1 TCATTTTACCATATAAGGGAAAAACAG
* *
56336481 TAACTTTACCA
1 TCATTTTACCA
56336492 CACATGGGGT
Statistics
Matches: 104, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 11 0.11
27 93 0.89
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGAAAAACAG
Found at i:56340234 original size:54 final size:54
Alignment explanation
Indices: 56340153--56340324 Score: 231
Period size: 54 Copynumber: 3.2 Consensus size: 54
56340143 ATATATATAT
* * *
56340153 CACATA-GGGCAAAGCAGTCATCTTACCATATAAGGGCAAAATAGTCATTTCAC
1 CACATAGGGGCAAAACAGTCATTTTACCATATAAGGGCAAAATAGTCATTTTAC
* *
56340206 CACATAGGGGCAAAATAGTCATTTTACCACATAAGGGCAAAATCA-TCATTTTAC
1 CACATAGGGGCAAAACAGTCATTTTACCATATAAGGGCAAAAT-AGTCATTTTAC
* * *
56340260 AACATAGGGGCAAAACAGTCATTTTACCATATAGGGGCAAAAGAGTCATTTTAC
1 CACATAGGGGCAAAACAGTCATTTTACCATATAAGGGCAAAATAGTCATTTTAC
*
56340314 CATATATGGGG
1 CACATA-GGGG
56340325 TCTAGGTACA
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 7 0.07
54 91 0.88
55 5 0.05
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (54 bp):
CACATAGGGGCAAAACAGTCATTTTACCATATAAGGGCAAAATAGTCATTTTAC
Found at i:56340316 original size:27 final size:27
Alignment explanation
Indices: 56340153--56340324 Score: 204
Period size: 27 Copynumber: 6.4 Consensus size: 27
56340143 ATATATATAT
* *
56340153 CACATA-GGGCAAAGCAGTCATCTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
* * * *
56340179 CATATAAGGGCAAAATAGTCATTTCAC
1 CACATAGGGGCAAAACAGTCATTTTAC
*
56340206 CACATAGGGGCAAAATAGTCATTTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
*
56340233 CACATAAGGGCAAAATCA-TCATTTTAC
1 CACATAGGGGCAAAA-CAGTCATTTTAC
*
56340260 AACATAGGGGCAAAACAGTCATTTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
* *
56340287 CATATAGGGGCAAAAGAGTCATTTTAC
1 CACATAGGGGCAAAACAGTCATTTTAC
*
56340314 CATATATGGGG
1 CACATA-GGGG
56340325 TCTAGGTACA
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 7 0.06
27 115 0.91
28 5 0.04
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
CACATAGGGGCAAAACAGTCATTTTAC
Found at i:56350848 original size:27 final size:27
Alignment explanation
Indices: 56350809--56351032 Score: 288
Period size: 27 Copynumber: 8.3 Consensus size: 27
56350799 TGTTGGGCCC
* *
56350809 AAATACCCTCATAGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
56350836 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
*
56350863 AAAT-CCCCCTATAGGGTAAAATAACTG
1 AAATACCCCC-ATAGGGTAAAATGACTG
*
56350890 AAATACCCCCAAAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
* * **
56350917 AAATATCTCCATAGGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACTG
* *
56350944 AAATGCCCCCATAAGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
56350971 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
* *** *
56350998 TAATACCCTTGTATGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
*
56351025 TAATACCC
1 AAATACCC
56351033 TTGTAAGGTA
Statistics
Matches: 172, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.03
27 162 0.94
28 5 0.03
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:56351060 original size:27 final size:27
Alignment explanation
Indices: 56350955--56351051 Score: 131
Period size: 27 Copynumber: 3.6 Consensus size: 27
56350945 AATGCCCCCA
* ***
56350955 TAAGGTAAAATGACTGAAATACCCCCA
1 TAAGGTAAAATGACTGTAATACCCTTG
*
56350982 TAGGGTAAAATGACTGTAATACCCTTG
1 TAAGGTAAAATGACTGTAATACCCTTG
*
56351009 TATGGTAAAATGACTGTAATACCCTTG
1 TAAGGTAAAATGACTGTAATACCCTTG
*
56351036 TAAGGTAATATGACTG
1 TAAGGTAAAATGACTG
56351052 ATTTGCCCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (27 bp):
TAAGGTAAAATGACTGTAATACCCTTG
Found at i:56360115 original size:130 final size:129
Alignment explanation
Indices: 56359687--56360213 Score: 393
Period size: 131 Copynumber: 4.0 Consensus size: 129
56359677 TCACAATTAT
* * * *
56359687 TAAAAATCCTTT-AAACGAAGGCGATA-TGCGATATTTGGTAATTCACGGAATCGTGCCCTAACG
1 TAAAAATCCTTTAAAATGAAGGCAATACT-CGATGTTTGATAATT--CGGAATCGTGCCCTAAC-
* ** * * *
56359750 TGCTGGGTTGCAATTTCTCGTTTGCTT-AAAATAATCAAATATCCCTTCAAAATTTCACTCATGT
62 AGCTGGGTTGTGATTTCTCGTTT-CTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGT
*
56359814 CTTC
126 TTTC
* * * * * **
56359818 TAAAAATCCTTTGAACTGAAGGCAATACTCGGTGTTTGATAATTCGAGAACCATGCCCTATTGAG
1 TAAAAATCCTTTAAAATGAAGGCAATACTCGATGTTTGATAATTCG-GAATCGTGCCCTA-ACAG
* * * *** *
56359883 CTGGGTTGTGATTTCTCGTTTGTTCAAAACAATTGAATATTCCTTTAGGTTTTCACTCGTGTTTA
64 CTGGGTTGTGATTTCTCGTTTCTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTTT-
56359948 T-
128 TC
* * * *
56359949 TAAAAA-CCTTCCAAAAAGAAGACAATACTCGGTGTTTGATAATTCGGAATCGTGCCCTAACACG
1 TAAAAATCCTT-TAAAATGAAGGCAATACTCGATGTTTGATAATTCGGAATCGTGCCCTAACA-G
* * * * *
56360013 TTAGGTTGTGATTTCTCGTTTTTTCAAAACAATCGAAGATTCCTTCAAAATTTCACTCACGTTTT
64 CTGGGTTGTGATTTCTCGTTTCTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTTTT
56360078 C
129 C
* ** * * ** * * * *
56360079 TAAAAACCCTTTAAAATGAAGGTGATATTTGATGTTTGGCAATTCAGGGAATAGTACCCTATCGT
1 TAAAAATCCTTTAAAATGAAGGCAATACTCGATGTTTGATAATTC--GGAATCGTGCCCTAAC-A
** * * ** * *
56360144 GCTGGGTTGCAATTTC-CTGTTTGTTCAAAATAATCGAATA-TCTCTTCGGAATTTCACTCGTAT
63 GCTGGGTTGTGATTTCTC-GTTTCTTCAAAACAATCGAATATTC-CTTCAAAATTTCACTCATGT
56360207 TTTC
126 TTTC
56360211 TAA
1 TAA
56360214 GGTGAGGCAA
Statistics
Matches: 311, Mismatches: 70, Indels: 29
0.76 0.17 0.07
Matches are distributed among these distances:
129 2 0.01
130 103 0.33
131 115 0.37
132 90 0.29
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (129 bp):
TAAAAATCCTTTAAAATGAAGGCAATACTCGATGTTTGATAATTCGGAATCGTGCCCTAACAGCT
GGGTTGTGATTTCTCGTTTCTTCAAAACAATCGAATATTCCTTCAAAATTTCACTCATGTTTTC
Found at i:56363696 original size:23 final size:23
Alignment explanation
Indices: 56363666--56363713 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
56363656 CCATGCATGC
56363666 ATATGTTAGTGCCTTGATG-ATGT
1 ATATGTTAGTG-CTTGATGAATGT
* *
56363689 ATATGTTATTGCTTGGTGAATGT
1 ATATGTTAGTGCTTGATGAATGT
56363712 AT
1 AT
56363714 GATAAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (23 bp):
ATATGTTAGTGCTTGATGAATGT
Found at i:56369328 original size:6 final size:6
Alignment explanation
Indices: 56369318--56369347 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
56369308 CACCGTAAGG
*
56369318 GTAACA CTAACA GTAACA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA
56369348 ATACTGGTAC
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:0.50, C:0.20, G:0.13, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:56370307 original size:16 final size:17
Alignment explanation
Indices: 56370254--56370307 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
56370244 ATTAATATAT
* *
56370254 TATAATTATATAATTTA
1 TATAATTATTTACTTTA
* *
56370271 -AT-ATAATTTACTTTT
1 TATAATTATTTACTTTA
56370286 TATAATTATTTAC-TTA
1 TATAATTATTTACTTTA
56370302 TATAAT
1 TATAAT
56370308 AAGTAAAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 9 0.31
16 12 0.41
17 8 0.28
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TATAATTATTTACTTTA
Found at i:56377584 original size:16 final size:16
Alignment explanation
Indices: 56377560--56377593 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56377550 TAATTTTCCC
*
56377560 TTTTCTTTTTCTTTCT
1 TTTTCTTTTTCCTTCT
*
56377576 TTTTTTTTTTCCTTCT
1 TTTTCTTTTTCCTTCT
56377592 TT
1 TT
56377594 CTTTCCTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTCCTTCT
Found at i:56384135 original size:34 final size:32
Alignment explanation
Indices: 56384090--56384178 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 32
56384080 GTTTCGGTTA
*
56384090 GGGCCTTAGCCCATTTCAGAATCAAAAACAGTG
1 GGGCCTAAGCCCATTTCAGAAT-AAAAACAGTG
* ** *
56384123 TGGGCCTGAGCCCATTTCAGAAATAGTATCAGTG
1 -GGGCCTAAGCCCATTTCAG-AATAAAAACAGTG
*
56384157 GGGCCTAAGCCCATTACAGAAT
1 GGGCCTAAGCCCATTTCAGAAT
56384179 TAGTACAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
32 3 0.06
33 17 0.35
34 25 0.52
35 3 0.06
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (32 bp):
GGGCCTAAGCCCATTTCAGAATAAAAACAGTG
Found at i:56384168 original size:33 final size:33
Alignment explanation
Indices: 56384090--56384187 Score: 101
Period size: 33 Copynumber: 2.9 Consensus size: 33
56384080 GTTTCGGTTA
* **
56384090 GGGCCTTAGCCCATTTCAG-AATCAAAAACAGTGT
1 GGGCCTAAGCCCATTTCAGAAAT--AGTACAGTGT
*
56384124 GGGCCTGAGCCCATTTCAGAAATAGTATCAGTG-
1 GGGCCTAAGCCCATTTCAGAAATAGTA-CAGTGT
* *
56384157 GGGCCTAAGCCCATTACAGAATTAGTACAGT
1 GGGCCTAAGCCCATTTCAGAAATAGTACAGT
56384188 ATGCAGTCAG
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
32 4 0.07
33 26 0.46
34 23 0.41
35 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (33 bp):
GGGCCTAAGCCCATTTCAGAAATAGTACAGTGT
Found at i:56388248 original size:40 final size:40
Alignment explanation
Indices: 56388171--56388388 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
56388161 AAACCGAGTA
* *
56388171 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
56388210 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56388250 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56388290 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56388330 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56388370 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56388389 TTATCATCCG
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56393197 original size:49 final size:51
Alignment explanation
Indices: 56393123--56393377 Score: 178
Period size: 55 Copynumber: 4.8 Consensus size: 51
56393113 ACATGGGTAC
* * ** *
56393123 CTTACCATTGCTATGACTTTTCATGGTCTGACGTGGTATCCTTT-TGA-AA
1 CTTACCATTGCCATGTCTTGACATGGTCTGACATGGTATCCTTTCTGAGAA
* *
56393172 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTATGAA
1 CTTACCATTGCCATGTCTTGACATGGTCTGACATGGTATCCTTT-CTGA-GAA
* * * * *
56393225 CTCACCAATGCCATGTCTTGACATGGTCTTACATGGGA-CCTTTTCCTTATAGTAA
1 CTTACCATTGCCATGTCTTGACATGGTCTGACATGGTATCC-TTT-C-T-GAG-AA
* * * *
56393280 CTTAACAATT-CCATGTCTTGACACT-GTCTTACATGGTATCCTTTCCTTACAAA
1 CTT-ACCATTGCCATGTCTTGACA-TGGTCTGACATGGTATCCTTT-CTGA-GAA
* * * *
56393333 CCTTACCAATTGCCATGCCTCGGCATGGTCTTACATGGTATCCTT
1 -CTTACC-ATTGCCATGTCTTGACATGGTCTGACATGGTATCCTT
56393378 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 19, Indels: 26
0.79 0.09 0.12
Matches are distributed among these distances:
49 38 0.22
51 2 0.01
52 2 0.01
53 48 0.28
54 10 0.06
55 64 0.37
56 7 0.04
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.37
Consensus pattern (51 bp):
CTTACCATTGCCATGTCTTGACATGGTCTGACATGGTATCCTTTCTGAGAA
Found at i:56393249 original size:53 final size:54
Alignment explanation
Indices: 56393161--56393377 Score: 262
Period size: 55 Copynumber: 4.0 Consensus size: 54
56393151 TGACGTGGTA
* *
56393161 TCCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TCCTTATGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
* *
56393215 TCCTTATG-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGA-CCTTT
1 TCCTTATGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TT
* * *
56393268 TCCTTATAGTAACTTAACAATTCCATGTCTTGACACT-GTCTTACATGGTATCCTT
1 TCCTTAT-GAAACTTACCAATGCCATGTCTTGACA-TGGTCTTACATGGTATCCTT
* * * *
56393323 TCCTTA-CAAACCTTACCAATTGCCATGCCTCGGCATGGTCTTACATGGTATCCTT
1 TCCTTATGAAA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
56393378 AAACCCTAAT
Statistics
Matches: 140, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
52 2 0.01
53 48 0.34
54 16 0.11
55 71 0.51
56 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (54 bp):
TCCTTATGAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
Found at i:56403276 original size:40 final size:40
Alignment explanation
Indices: 56403221--56403436 Score: 272
Period size: 40 Copynumber: 5.3 Consensus size: 40
56403211 TGATATTCGA
56403221 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
* *
56403261 GCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGG
1 GCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACTATATCCGG
* * * *
56403304 GCTAAGTCTCGAAGGCATTTGTGCTAGTGACTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
** * *
56403344 GCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
* * *
56403384 GCTAAGGCCCGAAGGCATTTGTGCGAGTTGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
*
56403423 GCTAAATCCCGAAG
1 GCTAAGTCCCGAAG
56403437 ATACTTGGGT
Statistics
Matches: 153, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 103 0.67
41 1 0.01
43 36 0.24
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGG
Found at i:56403360 original size:83 final size:79
Alignment explanation
Indices: 56403221--56403436 Score: 265
Period size: 83 Copynumber: 2.7 Consensus size: 79
56403211 TGATATTCGA
* **
56403221 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAT-CGGGCTAAGTCCCGAAGGCATTCATGC-
56403286 AGTAGTTG-CTATACCCGG
64 --TAG-TGACTATACCCGG
* *
56403304 GCTAAGTCTCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTCATGCT
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATC-GGGCTAAGTCCCGAAGGCATTCATGCT
*
56403369 AGTGACTATATCCGG
65 AGTGACTATACCCGG
* * * *
56403384 GCTAAGGCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGCTAAATCCCGAAG
1 GCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCGGGCTAAGTCCCGAAG
56403437 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 16 0.13
80 43 0.36
81 2 0.02
82 1 0.01
83 57 0.48
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCGGGCTAAGTCCCGAAGGCATTCATGCTA
GTGACTATACCCGG
Found at i:56409077 original size:39 final size:39
Alignment explanation
Indices: 56409033--56409340 Score: 544
Period size: 39 Copynumber: 7.9 Consensus size: 39
56409023 TACCAATACA
* *
56409033 AAGCCTGCGGGACTTTAACCCGGATACATTTCCCGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
56409072 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
56409111 AAGCCTACGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
56409150 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
56409189 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
56409228 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
* *
56409267 AAGCCTGCGGGACTTTGGCCCGGATATATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
56409306 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
56409341 TGTCTTGCAT
Statistics
Matches: 257, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 257 1.00
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.21
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:56411689 original size:37 final size:37
Alignment explanation
Indices: 56411648--56411721 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
56411638 AACTCACAAT
56411648 TAACTCATAAATATTAAATATAATATTTACAAACCTA
1 TAACTCATAAATATTAAATATAATATTTACAAACCTA
56411685 TAACTCATAAATATTAAATATAATATTTACAAACCTA
1 TAACTCATAAATATTAAATATAATATTTACAAACCTA
56411722 CTTATCAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (37 bp):
TAACTCATAAATATTAAATATAATATTTACAAACCTA
Found at i:56415948 original size:40 final size:40
Alignment explanation
Indices: 56415900--56416112 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
56415890 GGATGATATC
*
56415900 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
56415940 GGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTGCTATACCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT-ATAT-CC-G
* * *
56415983 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
** * *
56416023 GGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
56416063 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
56416102 GGCTAAATCCC
1 GGCTAAGTCCC
56416113 AAAGATACTT
Statistics
Matches: 151, Mismatches: 17, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
39 11 0.07
40 99 0.66
41 5 0.03
42 5 0.03
43 30 0.20
44 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:56416039 original size:83 final size:79
Alignment explanation
Indices: 56415900--56416112 Score: 270
Period size: 83 Copynumber: 2.6 Consensus size: 79
56415890 GGATGATATC
* **
56415900 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCC-GGCTAAGTCCCGAAGGCATTCATGC
56415965 GAGTAGCTG-CTATA-CCTG
65 ---TAG-TGACTATATCC-G
*
56415983 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCTGGCTAAGTCCCGAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCC-GGCTAAGTCCCGAAGGCATTCATGC
56416048 TAGTGACTATATCCG
65 TAGTGACTATATCCG
* * *
56416063 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGCTAAATCCC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGCTAAGTCCC
56416113 AAAGATACTT
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
79 12 0.10
80 43 0.36
81 4 0.03
83 60 0.50
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGCTAAGTCCCGAAGGCATTCATGCT
AGTGACTATATCCG
Found at i:56423331 original size:46 final size:46
Alignment explanation
Indices: 56423281--56423453 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
56423271 TGGTTGAGCA
56423281 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
56423327 TCCGAACTCGTTGAGTTGAGTCAGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
56423372 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56423420 CCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56423454 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56423439 original size:93 final size:93
Alignment explanation
Indices: 56423278--56423448 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
56423268 GGATGGTTGA
* * * *
56423278 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAAT
56423343 TGAGTCAGAGTTCGTGAAATGTAACTAG
66 TGAGTCAGAGTTCGTGAAATGTAACTAG
*
56423371 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAAT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAAT
*
56423436 TGAGTCCGAGTTC
66 TGAGTCAGAGTTC
56423449 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAAT
TGAGTCAGAGTTCGTGAAATGTAACTAG
Found at i:56426706 original size:55 final size:54
Alignment explanation
Indices: 56426452--56426706 Score: 253
Period size: 55 Copynumber: 4.8 Consensus size: 54
56426442 ACACAGGTGC
* * *
56426452 CTTACC-ATTTCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
56426501 CTTACC-ATTGCCATGTCTCGACATGGTCTTACATGGTATCCTCGCCTTATG-AA
1 CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* ** *
56426554 CTCACCAA-TGCCACATCTTGACATGGTCTTACATAGG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGTCTTGACATGGTCTTACAT-GGTATCC-TTGCC-T-TAGAAA
*
56426609 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
56426662 CCATACCAATTACCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
56426707 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
49 38 0.22
52 4 0.02
53 40 0.23
54 15 0.09
55 72 0.42
56 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:56431179 original size:43 final size:43
Alignment explanation
Indices: 56431131--56431301 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
56431121 GTTATCGAGA
*
56431131 TGTGATTACATGTAAAACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
56431174 TGTGATTACATGTAAGATCATGTCTGGGACATTGGCATTGTGT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
56431217 TGTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA-T
* * * *
56431260 TGTGGTAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
56431302 GAGCTTTATG
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 8 0.07
43 100 0.93
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:56459679 original size:28 final size:28
Alignment explanation
Indices: 56459636--56459725 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 28
56459626 CACATACCTG
* *
56459636 TATATGGCCTACTAGGCCCAATCACATT
1 TATATGGCCCATTAGGCCCAATCACATT
*
56459664 TATATGGCCCATTAGGCCCAAATTACATT
1 TATATGGCCCATTAGGCCC-AATCACATT
** **
56459693 TATATGGATCATCCGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAA-TCACATT
56459722 TATA
1 TATA
56459726 GTCATGCTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
28 19 0.37
29 33 0.63
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAATCACATT
Found at i:56463656 original size:29 final size:29
Alignment explanation
Indices: 56463595--56463684 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
56463585 CATATACCTG
56463595 TATATGGCCCATTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
56463623 TATATGACCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
56463652 TATATGGCCCATCAGGCCCAATTCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
56463681 TATA
1 TATA
56463685 GTCATGCTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:56474624 original size:53 final size:53
Alignment explanation
Indices: 56474556--56474762 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
56474546 TTCCTTTTTA
* * *
56474556 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * * *
56474609 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
** * * * *
56474663 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAT-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCC-T-TATG
* * *
56474718 AACTTACCAATGCCATGCCTTGGCATTGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56474763 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
53 45 0.37
54 37 0.30
55 36 0.30
56 1 0.01
57 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:56484224 original size:29 final size:29
Alignment explanation
Indices: 56484192--56484380 Score: 247
Period size: 29 Copynumber: 6.5 Consensus size: 29
56484182 GATAGTCGAA
56484192 ACCATCCCTTTTCATAGTTGATGGTCGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* *
56484221 ACCATCCCTTTTCACA-TTCGATGGTGGTC
1 ACCATCCCTTTTCATAGTT-GATGGTCGTC
* *
56484250 ACCATCCCTTTTCAAAGTTGATGGTCATC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
*
56484279 ACCATCCCTTTTCTTA-TGTGATGGTCGTC
1 ACCATCCCTTTTCATAGT-TGATGGTCGTC
*
56484308 ACCATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* * **
56484337 ACCATCCCTTTTCATAGTCGATAGTCGAA
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
*
56484366 ACTATCCCTTTTCAT
1 ACCATCCCTTTTCAT
56484381 TAATCGATGC
Statistics
Matches: 141, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.02
29 135 0.96
30 3 0.02
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATAGTTGATGGTCGTC
Found at i:56484373 original size:87 final size:87
Alignment explanation
Indices: 56484182--56484380 Score: 285
Period size: 87 Copynumber: 2.3 Consensus size: 87
56484172 TGTGCCAAAT
*
56484182 GATAGTCGAAACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCACATTCGATGGTG
1 GATAGTCGAAACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCACATTCGATGGTC
*
56484247 GTCACCATCCCTTTTCAAAGTT
66 GTCACCATCCCTTTTCAAAGTC
* * * * *
56484269 GATGGTC-ATCACCATCCCTTTTCTTA-TGTGATGGTCGTCACCATCCCTTTTCATATTTGATGG
1 GATAGTCGA-AACCATCCCTTTTCATAGT-TGATGGTCGTCACCATCCCTTTTCACATTCGATGG
*
56484332 TCGTCACCATCCCTTTTCATAGTC
64 TCGTCACCATCCCTTTTCAAAGTC
*
56484356 GATAGTCGAAACTATCCCTTTTCAT
1 GATAGTCGAAACCATCCCTTTTCAT
56484381 TAATCGATGC
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
86 2 0.02
87 94 0.97
88 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.37
Consensus pattern (87 bp):
GATAGTCGAAACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCACATTCGATGGTC
GTCACCATCCCTTTTCAAAGTC
Found at i:56485506 original size:25 final size:25
Alignment explanation
Indices: 56485472--56485522 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
56485462 GCTCAGTTTA
56485472 TAGAAACGAGGTCCCGATATCTCAT
1 TAGAAACGAGGTCCCGATATCTCAT
56485497 TAGAAACGAGGTCCCGATATCTCAT
1 TAGAAACGAGGTCCCGATATCTCAT
56485522 T
1 T
56485523 TTCTAAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
TAGAAACGAGGTCCCGATATCTCAT
Found at i:56490820 original size:44 final size:43
Alignment explanation
Indices: 56490670--56490832 Score: 147
Period size: 42 Copynumber: 3.8 Consensus size: 43
56490660 AGCTTGTACA
* * *
56490670 ATGCCAACGTCCCAGACA-AGTCTTACATGTAA-TCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATTCAAATA-CG
* * * *
56490712 ATGCC-ACTATCCCAAACAAGGTCTTACACGAAA-TCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATTCAAATACG
* *
56490754 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAAT-TCAAATACG
** *
56490798 ATGCCAACGTCCCAGATGTGGTCTCACACGAAATT
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATT
56490833 ACATATCGGA
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 39 0.40
43 25 0.26
44 27 0.28
45 5 0.05
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATTCAAATACG
Found at i:56491965 original size:13 final size:13
Alignment explanation
Indices: 56491947--56491971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56491937 ACAAACGATA
56491947 AAATTTTCACACG
1 AAATTTTCACACG
56491960 AAATTTTCACAC
1 AAATTTTCACAC
56491972 ATATCACATA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:56492627 original size:138 final size:137
Alignment explanation
Indices: 56492380--56492654 Score: 327
Period size: 138 Copynumber: 2.0 Consensus size: 137
56492370 GAGCCATAAA
* * * * * * *
56492380 TGGGTCTGCTTACACAAGTTGATGGTCGGAATGTAATTACACGATGCCACTCACACAAGCTGACG
1 TGGGTCTGCTCACACAAGCTGACGGTCAGAATGTAACTACACGATGCCACTCAAACAAGCTAACG
* * * * * **
56492445 AGTATCCGCAACAAATGTCGAAACTCATCCATCAGTTGGACATTTAGGACTAGCACCCTGAACAT
66 AGTATCCACAACAAATGTCGAAACTCAACCATCAGTAGGACATTTAAGACCAGCACCCAAAACAT
56492510 AGTAACC
131 AGTAACC
* ** *
56492517 TGGGTCTGCTCACATAAGCTGACGGTCAGAATGTAAGCTACACGATGCTGCTCAAACAAGCTAAT
1 TGGGTCTGCTCACACAAGCTGACGGTCAGAATGTAA-CTACACGATGCCACTCAAACAAGCTAAC
* * *
56492582 GAGTATCTACAACAAATGTCTAACCTCAACCATC-GATAGGACATTTAAGACCAGCACCCAAAAC
65 GAGTATCCACAACAAATGTCGAAACTCAACCATCAG-TAGGACATTTAAGACCAGCACCCAAAAC
*
56492646 ATGGTAACC
129 ATAGTAACC
56492655 CTAATGACAT
Statistics
Matches: 114, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
137 32 0.28
138 82 0.72
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (137 bp):
TGGGTCTGCTCACACAAGCTGACGGTCAGAATGTAACTACACGATGCCACTCAAACAAGCTAACG
AGTATCCACAACAAATGTCGAAACTCAACCATCAGTAGGACATTTAAGACCAGCACCCAAAACAT
AGTAACC
Found at i:56495333 original size:5 final size:5
Alignment explanation
Indices: 56495323--56495350 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
56495313 AAACACTGTG
56495323 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
56495351 GAACACGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:56499777 original size:12 final size:12
Alignment explanation
Indices: 56499760--56499785 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
56499750 CCAATTTGTG
56499760 AAAATAAAATAA
1 AAAATAAAATAA
56499772 AAAATAAAATAA
1 AAAATAAAATAA
56499784 AA
1 AA
56499786 TAAAGAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:56501421 original size:29 final size:28
Alignment explanation
Indices: 56501388--56501443 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
56501378 TGCGAGTTAT
*
56501388 ACTGATTTGGCATTGGGCCATGCATATCG
1 ACTGATTTGACATTGGGCCATG-ATATCG
*
56501417 ACTGATTTGACTTTGGGCCATGATATC
1 ACTGATTTGACATTGGGCCATGATATC
56501444 AGTACTTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (28 bp):
ACTGATTTGACATTGGGCCATGATATCG
Found at i:56503614 original size:249 final size:246
Alignment explanation
Indices: 56503178--56503699 Score: 614
Period size: 249 Copynumber: 2.1 Consensus size: 246
56503168 TGATGCATGT
* * *
56503178 ATATATATAAACTATTAATAAATTATATGATATGATATATCATTATATAATATAGTAAGAGGACT
1 ATATATATAAACTATTAATATATTATATGATATGATATAGCATTATATAATATAATAAGAGGACT
* * * *
56503243 AACTTTCAAATTTACGAAAATAATAAGGACTTAGAGCATATTTCAACTAGTAGGATAATAAAAAA
66 AACTTTCAAATGTACAAAAATAATAAGGACTTAGAGCATATTTCAACCAGTAGAATAATAAAAAA
* *
56503308 AATATATGTAATAATATGTAATATATAATGCACTACTATTTATATAAATATTATTATATTATAGA
131 AATATATGTAATAATATGTAATATATAATGAACTAATATTTATAT-AA-A-TATTATATTATAGA
*
56503373 TTATAATTAAAAAATATAACATTACATGATATTATAATGTTTAATCATTGATGC-
193 ATATAA-TAAAAAATATAACATTACATGATATTATAATGTTTAATCATTGATGCG
* * * * *
56503427 ATATTTATAAACTATTAACATATTATATGATATGATATAGCATTATGTAATATAATAGGAGGATT
1 ATATATATAAACTATTAATATATTATATGATATGATATAGCATTATATAATATAATAAGAGGACT
* * * *
56503492 AACTTTCAAATGTACAAAAATTATAGGGACTT-GAGTATATTTCAACCCA-TATAATAATAAAAA
66 AACTTTCAAATGTACAAAAATAATAAGGACTTAGAGCATATTTCAA-CCAGTAGAATAATAAAAA
* * * *
56503555 ATAATATAT-T-AT-AT-T-T-TTTTATAAT-AACTAATATATATAATGTACTACTATTATATTA
130 A-AATATATGTAATAATATGTAATATATAATGAACTAATAT-T-T-ATATA--AATATTATATTA
* * * * *
56503613 TAGAATGTAATAAAAGATGTAATATTACATTATATTATAATGTTTAATCATTGATGCG
189 TAGAATATAATAAAAAATATAACATTACATGATATTATAATGTTTAATCATTGATGCG
56503671 TATATATATAAACTATTAATATATTATAT
1 -ATATATATAAACTATTAATATATTATAT
56503700 ACTATATGAA
Statistics
Matches: 234, Mismatches: 30, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
242 7 0.03
243 51 0.22
244 21 0.09
245 30 0.13
246 3 0.01
247 2 0.01
248 26 0.11
249 94 0.40
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.39
Consensus pattern (246 bp):
ATATATATAAACTATTAATATATTATATGATATGATATAGCATTATATAATATAATAAGAGGACT
AACTTTCAAATGTACAAAAATAATAAGGACTTAGAGCATATTTCAACCAGTAGAATAATAAAAAA
AATATATGTAATAATATGTAATATATAATGAACTAATATTTATATAAATATTATATTATAGAATA
TAATAAAAAATATAACATTACATGATATTATAATGTTTAATCATTGATGCG
Found at i:56503852 original size:243 final size:242
Alignment explanation
Indices: 56503178--56503813 Score: 590
Period size: 249 Copynumber: 2.6 Consensus size: 242
56503168 TGATGCATGT
* * ** * * *
56503178 ATATATATAAACTATTAATAAATTATATGATATGATATATCATTATATAATATAGTAAGAGGACT
1 ATATATATAAACTATTAACATATTATATGATATGATATAGAATTATATAATATAATAGGAGGATT
* * * * **
56503243 AACTTTCAAATTTACGAAAATAATAAGGACTTAGAGCATATTTCAACTA-GTAGGATAATAAAAA
66 AACTTTCAAATGTACAAAAAT-ATAGGGACTTA-AGCATATTTCAAC-ACATATAATAATAAAAA
* * * * *
56503307 A-AATATATGTAATAATAT-GTAATATATAA-TGCACTACTATTTATAT-AAATATTATTATATT
128 ATAATATAT-T-AT-AT-TGGTAATA-ATAACT--AATA-TATATA-ATCTACTACTATTATATT
*
56503368 ATAGATTATAATTAAAAAATATAACATTACATGATATTATAATGTTTAATCATTGATGC
184 ATAGAATATAATTAAAAAATATAACATTACATGATATTATAATGTTTAATCATTGATGC
* * *
56503427 ATATTTATAAACTATTAACATATTATATGATATGATATAGCATTATGTAATATAATAGGAGGATT
1 ATATATATAAACTATTAACATATTATATGATATGATATAGAATTATATAATATAATAGGAGGATT
* * *
56503492 AACTTTCAAATGTACAAAAATTATAGGGACTTGAGTATATTTCAACCCATATAATAATAAAAAAT
66 AACTTTCAAATGTACAAAAA-TATAGGGACTTAAGCATATTTCAACACATATAATAATAAAAAAT
** * * *
56503557 AATATATTATATTTTTTTATAATAACTAATATATATAATGTACTACTATTATATTATAGAATGTA
130 AATATATTATA-TTGGTAATAATAACTAATATATATAATCTACTACTATTATATTATAGAATATA
* * * *
56503622 A-TAAAAGATGTAATATTACATTATATTATAATGTTTAATCATTGATGC
194 ATTAAAAAATATAACATTACATGATATTATAATGTTTAATCATTGATGC
* *
56503670 GTATATATATAAACTATTAATATATTATATACTATATGAAATAATATAGAATTATATAATA-AAG
1 --ATATATATAAACTATTAACATATTATAT--GATATG-----ATATAGAATTATATAATATAA-
* * **
56503734 TAGGTGGGTTAACTTTCAAATGTA-GGAAA-ATAGGGACTTAAAGCATATTTCAA-ACATTATAA
56 TAGGAGGATTAACTTTCAAATGTACAAAAATATAGGGACTT-AAGCATATTTCAACACA-TATAA
* *
56503796 TCATAAATAATAATATAT
119 TAATAAAAAATAATATAT
56503814 GGTAATAATG
Statistics
Matches: 324, Mismatches: 44, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
243 45 0.14
244 26 0.08
245 29 0.09
246 6 0.02
247 13 0.04
248 26 0.08
249 103 0.32
250 33 0.10
251 5 0.02
252 38 0.12
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (242 bp):
ATATATATAAACTATTAACATATTATATGATATGATATAGAATTATATAATATAATAGGAGGATT
AACTTTCAAATGTACAAAAATATAGGGACTTAAGCATATTTCAACACATATAATAATAAAAAATA
ATATATTATATTGGTAATAATAACTAATATATATAATCTACTACTATTATATTATAGAATATAAT
TAAAAAATATAACATTACATGATATTATAATGTTTAATCATTGATGC
Found at i:56504218 original size:29 final size:26
Alignment explanation
Indices: 56504166--56504237 Score: 67
Period size: 29 Copynumber: 2.7 Consensus size: 26
56504156 ATTAGTTTAT
56504166 TTTGAGTTTGGGTAATAATGATTATATTA
1 TTTGAGTTTGGGTAATAATGATTA-A--A
* *
56504195 TTTGAGTTTGGGCTTATTAT-ATTAAA
1 TTTGAGTTTGGG-TAATAATGATTAAA
*
56504221 TTTGAGTTTTGG-AATAA
1 TTTGAGTTTGGGTAATAA
56504238 ATATTTTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 3 0.08
26 12 0.32
28 1 0.03
29 16 0.43
30 5 0.14
ACGTcount: A:0.29, C:0.01, G:0.21, T:0.49
Consensus pattern (26 bp):
TTTGAGTTTGGGTAATAATGATTAAA
Found at i:56504327 original size:20 final size:20
Alignment explanation
Indices: 56504298--56504340 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
56504288 AAAGTTATTC
*
56504298 AATAATCAAT-ATAATATAAT
1 AATAAACAATAAT-ATATAAT
56504318 AATAAACAATAATATATAAT
1 AATAAACAATAATATATAAT
56504338 AAT
1 AAT
56504341 TAATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAACAATAATATATAAT
Found at i:56504375 original size:16 final size:17
Alignment explanation
Indices: 56504354--56504387 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
56504344 TATATAATGT
56504354 ACTATTATCATA-TATA
1 ACTATTATCATATTATA
*
56504370 ACTATTATTATATTATA
1 ACTATTATCATATTATA
56504387 A
1 A
56504388 ATTATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
ACTATTATCATATTATA
Found at i:56504624 original size:254 final size:257
Alignment explanation
Indices: 56504303--56504862 Score: 753
Period size: 254 Copynumber: 2.2 Consensus size: 257
56504293 TATTCAATAA
*
56504303 TCAATATAATATAATAATAAACAATAAT-ATATAATAATTAATATATAATGTACTATTATCATAT
1 TCAA-ATAGTATAATAATAAACAATAATAATATAATAATTAATATATAATGTACTATTATCATAT
* * *
56504367 ATAACTATTATTATATTATAAATTATAATAAAAAATATAGGAGTACATGATATTATAATGTTTAA
65 ATAACTATTATTATATTATAAATTACAATAAAAAATATAGAAGTACATGATATTATAATATTTAA
*
56504432 TAATTAATGCATATATATATATAAACTATTAATATA-T-TATA-TA-AT-ATATGATATGATATA
130 TAATTAATGC--ATATATA-A-AAACTATCAATATATTATATACTATATGATATGATATGATATA
* *
56504492 ACATTATATAATAGTA-AG-AGGGCTAACTTTCAAATCTATGAAAAGTATAGGAACTTAGAGCAT
191 ACATTATATAAT-GTAGAGTAGGGATAACTTTCAAATCTATAAAAAGTATAGGAACTTAGAGCAT
56504555 ATT
255 ATT
* * *
56504558 TCAAATAGTATAATAATAAACATTAATAAT-TAATAATTAATATATAATTTACT-TCTATTATAT
1 TCAAATAGTATAATAATAAACAATAATAATATAATAATTAATATATAATGTACTAT-TATCATAT
* * *
56504621 ATAACTATTATTATATTATAGATTACAATAAAAGATATAGAATTACATGATATTATAATATTTAA
65 ATAACTATTATTATATTATAAATTACAATAAAAAATATAGAAGTACATGATATTATAATATTTAA
* * *
56504686 TCATTGATGCATATATAAAAACTATCAATATATTATATACTATATGATATGATATGATATAATAT
130 TAATTAATGCATATATAAAAACTATCAATATATTATATACTATATGATATGATATGATATAACAT
* * * * *
56504751 TATATAATGTAGTAGTAGGGATAATTTTCAAATGTCTAAAAAGTATAGGGACTTAGAGCCTATT
195 TATATAATGTAG-AGTAGGGATAACTTTCAAATCTATAAAAAGTATAGGAACTTAGAGCATATT
**
56504815 TCAACGAGTATAATAATAAACAATAATATATGATAATAATTAATATAT
1 TCAAATAGTATAATAATAAACAATAATA-AT-ATAATAATTAATATAT
56504863 TATATTCTAC
Statistics
Matches: 268, Mismatches: 24, Indels: 21
0.86 0.08 0.07
Matches are distributed among these distances:
250 13 0.05
251 2 0.01
252 11 0.04
253 3 0.01
254 122 0.46
255 32 0.12
256 2 0.01
257 66 0.25
258 2 0.01
260 15 0.06
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.38
Consensus pattern (257 bp):
TCAAATAGTATAATAATAAACAATAATAATATAATAATTAATATATAATGTACTATTATCATATA
TAACTATTATTATATTATAAATTACAATAAAAAATATAGAAGTACATGATATTATAATATTTAAT
AATTAATGCATATATAAAAACTATCAATATATTATATACTATATGATATGATATGATATAACATT
ATATAATGTAGAGTAGGGATAACTTTCAAATCTATAAAAAGTATAGGAACTTAGAGCATATT
Found at i:56504942 original size:16 final size:16
Alignment explanation
Indices: 56504921--56504959 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
56504911 GATAATATAT
56504921 TTTATAAGTATTAGTA
1 TTTATAAGTATTAGTA
*
56504937 TTTATAAGTATTATTA
1 TTTATAAGTATTAGTA
56504953 TATTATA
1 T-TTATA
56504960 GATTATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (16 bp):
TTTATAAGTATTAGTA
Found at i:56509913 original size:30 final size:30
Alignment explanation
Indices: 56509877--56509933 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
56509867 CGATCCAATG
56509877 GATCTTAAAAATAAACCAGAATCATTATTA
1 GATCTTAAAAATAAACCAGAATCATTATTA
* *
56509907 GATCTTAAAAATAAATCTGAATCATTA
1 GATCTTAAAAATAAACCAGAATCATTA
56509934 AAGCACGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (30 bp):
GATCTTAAAAATAAACCAGAATCATTATTA
Found at i:56516392 original size:40 final size:40
Alignment explanation
Indices: 56516343--56516591 Score: 187
Period size: 40 Copynumber: 5.9 Consensus size: 40
56516333 TATATATATG
* * *
56516343 TGGCACTTAGTGTGCGATTCAACAAAGCTTCGATTATACA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATACA
* * * *
56516383 TGGCTCTTAGTGTGCGATTCGACATACCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATACA
*
56516423 TGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATATGACACTTATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTC-G--A-CTAT---AC----A
* * *
56516474 TGGCACTTAATGTGAGATTCGACATAGCTTC-AGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGA-CTATACA
* * * *
56516514 TGACACTTAGTGTGCGAGATCGAGATAGCTTC-AGCTATATA
1 TGGCACTTAGTGTGCGA-TTCGACATAGCTTCGA-CTATACA
* * * *
56516555 TGACACTTAGTGTGCGATTTGAGATAGCTTCGGCTAT
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTAT
56516592 GAACGAAACT
Statistics
Matches: 171, Mismatches: 25, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
40 93 0.54
41 39 0.23
44 4 0.02
47 5 0.03
51 30 0.18
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGACTATACA
Found at i:56516495 original size:51 final size:51
Alignment explanation
Indices: 56516419--56516522 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
56516409 CCTTCGGCTA
* *
56516419 TATATGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATATGACACT
1 TATATGGCACTTAATGTGAGATTCGACATAGCTTCAGCTATATATGACACT
56516470 TATATGGCACTTAATGTGAGATTCGACATAGCTTCAGCTATATATGACACT
1 TATATGGCACTTAATGTGAGATTCGACATAGCTTCAGCTATATATGACACT
56516521 TA
1 TA
56516523 GTGTGCGAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
TATATGGCACTTAATGTGAGATTCGACATAGCTTCAGCTATATATGACACT
Found at i:56516542 original size:41 final size:41
Alignment explanation
Indices: 56516470--56516614 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 41
56516460 ATATGACACT
* * *
56516470 TATATGGCACTTAATGT--GAGATTCGACATAGCTTCAGCTA
1 TATATGACACTTAGTGTGCGAGA-TCGAGATAGCTTCAGCTA
56516510 TATATGACACTTAGTGTGCGAGATCGAGATAGCTTCAGCTA
1 TATATGACACTTAGTGTGCGAGATCGAGATAGCTTCAGCTA
* * *
56516551 TATATGACACTTAGTGTGCGA-TTTGAGATAGCTTCGGCTA
1 TATATGACACTTAGTGTGCGAGATCGAGATAGCTTCAGCTA
* * *
56516591 TGA-ACGAAACTTTGTGTGCGAGAT
1 T-ATATGACACTTAGTGTGCGAGAT
56516615 ATTGAGTATT
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
40 47 0.52
41 40 0.44
42 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (41 bp):
TATATGACACTTAGTGTGCGAGATCGAGATAGCTTCAGCTA
Done.