Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 161 of 335
Found at i:47379726 original size:29 final size:29
Alignment explanation
Indices: 47379583--47379714 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
47379573 AAAATTGTAC
*
47379583 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
47379612 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
47379641 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
47379671 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
47379700 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47379715 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:47385953 original size:18 final size:19
Alignment explanation
Indices: 47385932--47385967 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
47385922 AATAAAGAAA
*
47385932 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
47385950 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
47385968 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:47392968 original size:39 final size:38
Alignment explanation
Indices: 47392876--47392984 Score: 146
Period size: 39 Copynumber: 2.8 Consensus size: 38
47392866 TGCTGAAAAT
* *
47392876 TCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATA
1 TCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGTAGCTAAA
* *
47392916 TCCGGGCTAAGACCCGAAGGCATTCGTGCAGTTGTTAAA
1 TCCGGGCTAAGACCCGAAGGCATT-GTGCAGTAGCTAAA
47392955 TCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TCCGGGCTAAGACCCGAAGGCA-TTGTGCA
47392985 AATCGTGATA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
39 37 0.59
40 26 0.41
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (38 bp):
TCCGGGCTAAGACCCGAAGGCATTGTGCAGTAGCTAAA
Found at i:47397636 original size:27 final size:27
Alignment explanation
Indices: 47397588--47397746 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
47397578 GCGAGGCTGC
* *
47397588 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
47397615 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
47397641 CAGATATATGTGGCAGAGTCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
47397668 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
47397695 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
47397722 CGGATAATTTTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
47397747 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 9 0.08
27 97 0.87
28 5 0.05
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:47397681 original size:54 final size:54
Alignment explanation
Indices: 47397603--47397746 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
47397593 ATTGTGACGA
* *
47397603 AGTCACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAG
1 AGTCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
*
47397657 AGTCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAG
1 AGTCACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
* * *
47397711 AGCCACCAGATCGGATAATTTTGGCATAGCCACCAG
1 AGTCACCAGATCAGATAATTGTGGCATAGCCACCAG
47397747 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.05
54 78 0.95
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
AGTCACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAG
Found at i:47399399 original size:26 final size:26
Alignment explanation
Indices: 47399368--47399475 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
47399358 TGAACTGCCC
*
47399368 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
47399394 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
47399420 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
47399446 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
47399472 ATCA
1 ATCA
47399476 ATTTGTAACA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:47409521 original size:24 final size:25
Alignment explanation
Indices: 47409494--47409540 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47409484 AATTTACCCC
*
47409494 TTTTTATTTT-ATTTTATTTTTATA
1 TTTTTATTTTAATTTAATTTTTATA
*
47409518 TTTTTGTTTTAATTTAATTTTTA
1 TTTTTATTTTAATTTAATTTTTA
47409541 CATGTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTAATTTAATTTTTATA
Found at i:47412176 original size:40 final size:39
Alignment explanation
Indices: 47412127--47412334 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 39
47412117 TCTTCGGAAT
* *
47412127 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
47412166 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
47412206 TTAGCCCGGATATAACAACTCA-CACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACT-AGCAC-AATGCCTTCGGGTC
*
47412246 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* *
47412286 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
47412326 TTAGCCCGG
1 TTAGCCCGG
47412335 GTATCATTCA
Statistics
Matches: 144, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.02
40 138 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:47412254 original size:80 final size:80
Alignment explanation
Indices: 47412127--47412334 Score: 260
Period size: 80 Copynumber: 2.6 Consensus size: 80
47412117 TCTTCGGAAT
* * * * * *** *
47412127 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
47412191 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
47412206 TTAGCCCGGATATAA-CAACTCA-CACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGC
1 TTAGCCCGGATATAATC-ACT-AGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGC
*
47412269 ACGAATGCCTTCGGGTC
64 ACAAATGCCTTCGGGTC
* *
47412286 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
47412335 GTATCATTCA
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
79 6 0.05
80 103 0.93
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCAC
AAATGCCTTCGGGTC
Found at i:47416710 original size:41 final size:43
Alignment explanation
Indices: 47416623--47416734 Score: 133
Period size: 41 Copynumber: 2.7 Consensus size: 43
47416613 CAATGCCAAC
* * *
47416623 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATACCACT
1 GTCCTAGACGTGGTCTTACACGAAATCAAATATCGATACCACT
*
47416666 GTCCTAGACAG-GGTCTT-CACGAAATCAAAT-TCGATGCCGA-T
1 GTCCTAGAC-GTGGTCTTACACGAAATCAAATATCGATACC-ACT
*
47416707 GTCCTAGACGTGGTCTTACATGAAATCA
1 GTCCTAGACGTGGTCTTACACGAAATCA
47416735 CAGATCGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
40 1 0.02
41 23 0.38
42 21 0.35
43 14 0.23
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
GTCCTAGACGTGGTCTTACACGAAATCAAATATCGATACCACT
Found at i:47424198 original size:2 final size:2
Alignment explanation
Indices: 47424191--47424222 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47424181 TTCAGTTATG
47424191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47424223 CATAAGTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47426040 original size:40 final size:39
Alignment explanation
Indices: 47425985--47426186 Score: 235
Period size: 40 Copynumber: 5.1 Consensus size: 39
47425975 TGAATGATAC
* * *
47425985 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
47426025 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
47426065 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
47426105 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * **
47426145 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
47426185 CC
1 CC
47426187 AGCTAAATTC
Statistics
Matches: 143, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 138 0.97
41 2 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:47426182 original size:80 final size:80
Alignment explanation
Indices: 47425985--47426186 Score: 262
Period size: 80 Copynumber: 2.5 Consensus size: 80
47425975 TGAATGATAC
* * * *
47425985 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** *
47426050 TGCGAGTTGTTATAT
66 TGCAAGTTACCAAAT
* * *
47426065 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTC
47426129 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* *
47426145 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCC
47426187 AGCTAAATTC
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 99 0.95
81 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:47433005 original size:40 final size:40
Alignment explanation
Indices: 47432897--47433106 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
47432887 CGGGATTTAA
* * * * *
47432897 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
47432937 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47432977 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47433017 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47433057 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47433097 CCGGATATAT
1 CCGGATATAT
47433107 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:47437483 original size:39 final size:39
Alignment explanation
Indices: 47437423--47437628 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 39
47437413 TGAATGATAC
* *
47437423 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
* *
47437463 CCGGGCTAAGA-CCGAAGGCATTCGTGTTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* *
47437502 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
47437542 CCGGGCTAAGACCCGAA-GCATTTGTGCAAGT-TCCCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGT--TATAT
* * *
47437581 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
47437621 CC-GGCTAA
1 CCGGGCTAA
47437629 ATTCCGAAGA
Statistics
Matches: 142, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 68 0.48
40 71 0.50
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:47437535 original size:40 final size:40
Alignment explanation
Indices: 47437423--47437628 Score: 233
Period size: 39 Copynumber: 5.2 Consensus size: 40
47437413 TGAATGATAC
* **
47437423 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTG-TTATAT
*
47437463 CCGGGCTAAGA-CCGAAGGCATTCGTGTTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
*
47437502 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * *** *
47437542 CCGGGCTAAGACCCGAA-GCATTTGTGCAAGTTCCCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
* * *
47437581 CCGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGTTGTTATAT
47437621 CC-GGCTAA
1 CCGGGCTAA
47437629 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 21, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
39 70 0.50
40 68 0.48
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
Found at i:47437554 original size:79 final size:78
Alignment explanation
Indices: 47437423--47437628 Score: 229
Period size: 79 Copynumber: 2.6 Consensus size: 78
47437413 TGAATGATAC
* *
47437423 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGA-CCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAA-GCATTC
** *** *
47437486 GTGTTAGTTGTTATAT
63 GTGCAAGTTCCCAAAT
* *
47437502 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGCATTTGT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGCATTCGT
47437567 GCAAGTTCCCAAAT
65 GCAAGTTCCCAAAT
* * *
47437581 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCTAGTTGTTATATCCGGGCTAA
47437629 ATTCCGAAGA
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
78 8 0.07
79 91 0.83
80 10 0.09
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGCATTCGTG
CAAGTTCCCAAAT
Found at i:47438193 original size:21 final size:21
Alignment explanation
Indices: 47438167--47438209 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47438157 AAGTGGAGTA
47438167 TGGCATTAGACCATTTGTGTT
1 TGGCATTAGACCATTTGTGTT
47438188 TGGCATTAGACCATTTGTGTT
1 TGGCATTAGACCATTTGTGTT
47438209 T
1 T
47438210 ATGTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.44
Consensus pattern (21 bp):
TGGCATTAGACCATTTGTGTT
Found at i:47440130 original size:80 final size:80
Alignment explanation
Indices: 47440046--47440194 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
47440036 TATGGTAACC
* * * *
47440046 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
47440110 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
47440126 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
47440191 CCGG
66 CCGG
47440195 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:47440136 original size:40 final size:38
Alignment explanation
Indices: 47440087--47440194 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
47440077 ATCACGATTT
*
47440087 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
47440127 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
47440167 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
47440195 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:47448922 original size:53 final size:53
Alignment explanation
Indices: 47448740--47448946 Score: 225
Period size: 53 Copynumber: 3.8 Consensus size: 53
47448730 ATTAGGGTTT
* * * * *
47448740 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
47448794 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
47448849 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
47448902 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
47448947 TAAAAAGGAA
Statistics
Matches: 124, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
53 46 0.37
54 38 0.31
55 40 0.32
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:47456360 original size:53 final size:53
Alignment explanation
Indices: 47456178--47456384 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 53
47456168 ATTAGAGTTT
* * * *
47456178 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * * *
47456232 AAGGA-ATTCATGTAAGACCATGTCACGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATA-CCAAGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * * *
47456287 AAAGATCCCATGTAAAACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
*
47456340 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
47456385 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 29, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
53 46 0.38
54 36 0.30
55 38 0.32
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCAAGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:47460512 original size:24 final size:24
Alignment explanation
Indices: 47460488--47460748 Score: 468
Period size: 24 Copynumber: 10.9 Consensus size: 24
47460478 GACTATAGCA
* **
47460488 AATCGCACACATAGTGCTATAGCA
1 AATCGCACACATAGTGCCATAGTG
*
47460512 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
*
47460536 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
47460560 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47460584 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
*
47460608 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
47460632 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47460656 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47460680 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47460704 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47460728 AATCGCACACATAGTGCCATA
1 AATCGCACACATAGTGCCATA
47460749 TGGTCTTTGC
Statistics
Matches: 232, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 232 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
AATCGCACACATAGTGCCATAGTG
Found at i:47468539 original size:24 final size:24
Alignment explanation
Indices: 47468515--47468775 Score: 468
Period size: 24 Copynumber: 10.9 Consensus size: 24
47468505 GACTATAGCA
* **
47468515 AATCGCACACATAGTGCTATAGCA
1 AATCGCACACATAGTGCCATAGTG
*
47468539 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
*
47468563 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
47468587 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47468611 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
*
47468635 AATCGCACACATAGTGCCATAGTA
1 AATCGCACACATAGTGCCATAGTG
47468659 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47468683 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47468707 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47468731 AATCGCACACATAGTGCCATAGTG
1 AATCGCACACATAGTGCCATAGTG
47468755 AATCGCACACATAGTGCCATA
1 AATCGCACACATAGTGCCATA
47468776 TGGTCTTTGC
Statistics
Matches: 232, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 232 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
AATCGCACACATAGTGCCATAGTG
Found at i:47480548 original size:38 final size:39
Alignment explanation
Indices: 47480435--47480577 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
47480425 CCGCACAAAG
*
47480435 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
47480475 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
47480514 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
47480552 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
47480578 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:47480556 original size:77 final size:79
Alignment explanation
Indices: 47480395--47480576 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
47480385 TCGTTCAAAC
* * **
47480395 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
47480460 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
47480475 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
47480538 CAATTTGCACAATT
66 CAATTTGCACAATT
47480552 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
47480577 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:47488402 original size:39 final size:40
Alignment explanation
Indices: 47488287--47488430 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
47488277 TCGTTCAAAC
* * ** * **
47488287 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
47488327 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
47488367 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
47488406 GCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
47488431 CTCGAACATT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:47490599 original size:54 final size:54
Alignment explanation
Indices: 47490423--47490599 Score: 194
Period size: 55 Copynumber: 3.3 Consensus size: 54
47490413 ACAATTTCCA
* * * *
47490423 TTACGTGGTATCCTTGCCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTC
1 TTACATGGTATCCTTGCCTTATAGAGCTTACCAATGCCATGCCTTGGCATGGTC
* * * * * *
47490476 TTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTC
1 TTACATGGTATCCTTGCCTTATAG-AGCTTACCAATGCCATGCCTTGGCATGGTC
* * * * *
47490531 TTACATGATTTCCTTGCCTTGTAGAGCTTGCCAATGACATGCCTTGGCATGGTC
1 TTACATGGTATCCTTGCCTTATAGAGCTTACCAATGCCATGCCTTGGCATGGTC
*
47490585 TTACTTGGTATCCTT
1 TTACATGGTATCCTT
47490600 AAACCCTAAT
Statistics
Matches: 98, Mismatches: 24, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
53 19 0.19
54 37 0.38
55 42 0.43
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (54 bp):
TTACATGGTATCCTTGCCTTATAGAGCTTACCAATGCCATGCCTTGGCATGGTC
Found at i:47495828 original size:40 final size:40
Alignment explanation
Indices: 47495719--47495937 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
47495709 CGGATGATAA
* *
47495719 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*** **
47495759 TTTGGCTAAGTCCAAAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
**
47495800 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATCC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
47495840 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
47495880 TCGGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
47495920 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
47495938 TACTTGGTTG
Statistics
Matches: 151, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
39 16 0.11
40 103 0.68
41 31 0.21
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:47503243 original size:21 final size:20
Alignment explanation
Indices: 47503211--47503251 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
47503201 ATAAGCATGT
47503211 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
47503231 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
47503252 TTATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:47506852 original size:28 final size:28
Alignment explanation
Indices: 47506806--47506873 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
47506796 TTTAAAACCC
*
47506806 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
47506833 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
47506861 TAGGGGTAATTTC
1 TAGGGGTAATTTC
47506874 ATGATCTACG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:47508724 original size:19 final size:18
Alignment explanation
Indices: 47508687--47508730 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
47508677 ATACATACAG
*
47508687 TAAT-ATTTTTCTGATAA
1 TAATAATTTTTCTCATAA
47508704 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTCATAA
*
47508723 TACTAATT
1 TAATAATT
47508731 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTCATAA
Found at i:47511160 original size:28 final size:28
Alignment explanation
Indices: 47511114--47511182 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
47511104 TTTAAAACCC
*
47511114 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
47511141 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
47511169 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
47511183 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:47513025 original size:19 final size:18
Alignment explanation
Indices: 47512988--47513031 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
47512978 ATACATACAG
*
47512988 TAAT-ATTTTTCTGATAA
1 TAATAATTTTTCTCATAA
47513005 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTCATAA
*
47513024 TACTAATT
1 TAATAATT
47513032 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTCATAA
Found at i:47515457 original size:28 final size:28
Alignment explanation
Indices: 47515422--47515480 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
47515412 CTAGGGTATA
47515422 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
47515450 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
47515478 TCG
1 TCG
47515481 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:47517323 original size:19 final size:18
Alignment explanation
Indices: 47517286--47517329 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
47517276 ATACATACAG
*
47517286 TAAT-ATTTTTCTGATAA
1 TAATAATTTTTCTCATAA
47517303 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTCATAA
*
47517322 TACTAATT
1 TAATAATT
47517330 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTCATAA
Found at i:47517727 original size:39 final size:39
Alignment explanation
Indices: 47517673--47517832 Score: 275
Period size: 39 Copynumber: 4.1 Consensus size: 39
47517663 AAGCAAGACA
* * *
47517673 CTGGAAAGGTATCCGGGCTAAAGACCCGCAGGCCTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47517712 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47517751 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
47517790 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47517829 CTGG
1 CTGG
47517833 TAACATAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.21, C:0.25, G:0.32, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:47519828 original size:12 final size:11
Alignment explanation
Indices: 47519797--47519835 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
47519787 ACTTGTATTG
*
47519797 TTGGTAATGAA
1 TTGGTATTGAA
47519808 TTGGTATTGAA
1 TTGGTATTGAA
47519819 TTGAGTATTGAA
1 TTG-GTATTGAA
*
47519831 ATGGT
1 TTGGT
47519836 TGAAATAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (11 bp):
TTGGTATTGAA
Found at i:47524003 original size:40 final size:39
Alignment explanation
Indices: 47523933--47524062 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 39
47523923 GACTAGCTCA
*
47523933 AATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAA-CCCGGTT-TAGTAACTCGCACG
*
47523973 AATGCCTTCGGGACTTAACCCGAGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCG-GTTTAGTAACTCGCACG
* *
47524013 AATGCCTTCGGG-CTTAACCCGGATTTATTAACTTGCACG
1 AATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCACG
*
47524052 AACGCCTTCGG
1 AATGCCTTCGG
47524063 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.40
40 43 0.53
41 5 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCACG
Found at i:47529392 original size:41 final size:42
Alignment explanation
Indices: 47529341--47529421 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 42
47529331 AAAATTTCGT
*
47529341 AAAATCCCAAAAATATTTTT-TGTTTTTGTTTTTAATTTTTCA
1 AAAATCCCAAAAATATTTTTCT-TCTTTGTTTTTAATTTTTCA
47529383 AAAAT-CCAAAAATATTTTTCTTCTTTGTTTTTAATTTTT
1 AAAATCCCAAAAATATTTTTCTTCTTTGTTTTTAATTTTT
47529422 GTTATTGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 31 0.84
42 6 0.16
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.56
Consensus pattern (42 bp):
AAAATCCCAAAAATATTTTTCTTCTTTGTTTTTAATTTTTCA
Found at i:47531470 original size:38 final size:36
Alignment explanation
Indices: 47531426--47531504 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 36
47531416 TTTTTCTCTT
47531426 CTTCTGCCTTAGATTAGAGTTTATTTTTATGCATTTAA
1 CTTCTGCCTTAGATTAGAGTTTA-TTTTATGCATTT-A
47531464 CTTCTGCCTTAGATTAGAGTTTATTTTATGCATTTA
1 CTTCTGCCTTAGATTAGAGTTTATTTTATGCATTTA
47531500 CTTCT
1 CTTCT
47531505 TGTTCTTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 6 0.15
37 12 0.29
38 23 0.56
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.51
Consensus pattern (36 bp):
CTTCTGCCTTAGATTAGAGTTTATTTTATGCATTTA
Found at i:47534165 original size:40 final size:40
Alignment explanation
Indices: 47534110--47534277 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
47534100 TGAATGATAC
* * *
47534110 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
47534150 CCGGGCAAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
47534190 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
47534230 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
47534270 CC-GGCTAA
1 CCGGGCTAA
47534278 ATTCCAAAGA
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 5 0.04
40 105 0.94
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:47538966 original size:27 final size:28
Alignment explanation
Indices: 47538936--47539005 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
47538926 ATAATAAGTC
*
47538936 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
47538963 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
47538991 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47539006 GTACCAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47541354 original size:18 final size:17
Alignment explanation
Indices: 47541325--47541387 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
47541315 AAGAGAATGA
47541325 GAAAAAGAAAAATAAAATT
1 GAAAAAG-AAAA-AAAATT
47541344 GAAAAAGAAAAAGAAATT
1 GAAAAAGAAAAA-AAATT
**
47541362 GATTAAGAAAAGAAAATT
1 GAAAAAGAAAA-AAAATT
47541380 GAAAAAGA
1 GAAAAAGA
47541388 GAGTGAGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 1 0.03
18 29 0.76
19 8 0.21
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (17 bp):
GAAAAAGAAAAAAAATT
Found at i:47547375 original size:28 final size:27
Alignment explanation
Indices: 47547312--47547381 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47547302 ATAGTGAGTC
47547312 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47547339 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47547367 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47547382 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47553044 original size:11 final size:12
Alignment explanation
Indices: 47553017--47553045 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47553007 ACAATAAGAA
47553017 CATTCAAATATT
1 CATTCAAATATT
47553029 CATTCAAATA-T
1 CATTCAAATATT
47553040 CATTCA
1 CATTCA
47553046 TTATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (12 bp):
CATTCAAATATT
Found at i:47556479 original size:70 final size:70
Alignment explanation
Indices: 47556399--47556551 Score: 288
Period size: 70 Copynumber: 2.2 Consensus size: 70
47556389 AACGTAGGTC
* *
47556399 TGGGTACTGACTTTGTGTATAGACCCGTGAGTGGCTCAATGAGCATACTTTACATGATAGCTACG
1 TGGGTCCTGACTTTGTGTATAGACCCGTGAGTGGCTCAATGACCATACTTTACATGATAGCTACG
47556464 GGGTG
66 GGGTG
47556469 TGGGTCCTGACTTTGTGTATAGACCCGTGAGTGGCTCAATGACCATACTTTACATGATAGCTACG
1 TGGGTCCTGACTTTGTGTATAGACCCGTGAGTGGCTCAATGACCATACTTTACATGATAGCTACG
47556534 GGGTG
66 GGGTG
47556539 TGGGTCCTGACTT
1 TGGGTCCTGACTT
47556552 GATAAAAAAG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 81 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (70 bp):
TGGGTCCTGACTTTGTGTATAGACCCGTGAGTGGCTCAATGACCATACTTTACATGATAGCTACG
GGGTG
Found at i:47559675 original size:62 final size:64
Alignment explanation
Indices: 47559495--47559744 Score: 188
Period size: 66 Copynumber: 3.9 Consensus size: 64
47559485 CATAATTTTG
* * * * * *
47559495 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTA
1 GCTCTCTTGTATACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATCTCCTA
* * * * * *
47559558 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATC-CC
1 GCTCTCTTGTATACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCTCC
47559622 TA
63 TA
*
47559624 GCTCTCTTGT-TACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTATACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-A--TCTC
*
47559688 GTA
62 CTA
* * * * ** *
47559691 GCT-TCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTATACATGGTGTACACAT-AGTACCACCCATGCGACCTAGCTACATA
47559745 CCATATGTAT
Statistics
Matches: 149, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
62 28 0.19
63 20 0.13
64 1 0.01
65 9 0.06
66 45 0.30
67 44 0.30
68 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (64 bp):
GCTCTCTTGTATACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCTCCTA
Found at i:47568092 original size:34 final size:34
Alignment explanation
Indices: 47568013--47568099 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 34
47568003 CTGGTACTGT
* **
47568013 ACTGAAATGGGCTAAGACCCACACTAATACTGTT
1 ACTGAAATGGGCTAAGGCCCACACTAATACTGCA
* * * * *
47568047 ATTGTATTGGGCTAAGGCCCACACTGATATTGCA
1 ACTGAAATGGGCTAAGGCCCACACTAATACTGCA
*
47568081 ACTGAAATGGGCTTAGGCC
1 ACTGAAATGGGCTAAGGCC
47568100 TAGACTATTC
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (34 bp):
ACTGAAATGGGCTAAGGCCCACACTAATACTGCA
Found at i:47573834 original size:21 final size:23
Alignment explanation
Indices: 47573794--47573835 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
47573784 TAGAAAAATT
*
47573794 TTGGTTTCTTATTGAATAAACCC
1 TTGGTTTCTTACTGAATAAACCC
47573817 TTGGTTTC-TACT-AATAAAC
1 TTGGTTTCTTACTGAATAAAC
47573836 TCTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (23 bp):
TTGGTTTCTTACTGAATAAACCC
Found at i:47576566 original size:40 final size:40
Alignment explanation
Indices: 47576500--47576650 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
47576490 AAATTGAATG
* * *
47576500 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47576539 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
47576579 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
47576619 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
47576651 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47576664 original size:40 final size:40
Alignment explanation
Indices: 47576537--47576666 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
47576527 ATGCTGGAAA
* * *
47576537 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
47576577 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
47576617 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
47576657 TTATATCCGG
1 TTATATCCGG
47576667 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:47584564 original size:40 final size:40
Alignment explanation
Indices: 47584498--47584653 Score: 156
Period size: 40 Copynumber: 3.9 Consensus size: 40
47584488 AAATTGAATG
* * *
47584498 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47584537 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
47584577 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
47584617 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCATGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-TGGT
47584654 TATATCCGGT
Statistics
Matches: 94, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 16 0.17
40 73 0.78
41 4 0.04
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47608752 original size:19 final size:19
Alignment explanation
Indices: 47608724--47608762 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
47608714 AGAGCGAAAG
47608724 AAACGAG-AAATGGGCCAA
1 AAACGAGAAAATGGGCCAA
47608742 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAATGGGCCAA
47608762 A
1 A
47608763 GTACGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 3 0.16
20 12 0.63
ACGTcount: A:0.51, C:0.15, G:0.28, T:0.05
Consensus pattern (19 bp):
AAACGAGAAAATGGGCCAA
Found at i:47614177 original size:31 final size:31
Alignment explanation
Indices: 47614134--47614212 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
47614124 TTTAACGATT
*
47614134 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
47614165 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
47614196 AGTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
47614213 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:47614502 original size:26 final size:26
Alignment explanation
Indices: 47614418--47614605 Score: 231
Period size: 26 Copynumber: 7.3 Consensus size: 26
47614408 CTAGAGGCCT
*
47614418 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
47614442 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
47614467 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
47614493 AGCCCTTTTCGGTAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
47614519 AACCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* * * *
47614545 GGCCCTTCTCAGTAAAGTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
47614571 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
47614597 AGCCCTTTT
1 AGCCCTTTT
47614606 GCACTTCCTC
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
23 5 0.04
24 5 0.04
25 31 0.22
26 97 0.70
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:47614542 original size:52 final size:52
Alignment explanation
Indices: 47614418--47614605 Score: 267
Period size: 52 Copynumber: 3.7 Consensus size: 52
47614408 CTAGAGGCCT
47614418 AGCCTCTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
*
47614467 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
* * * * * *
47614519 AACCCTTTTCAATAAACTGGGGCATAGGCCCTTCTCAGTAAAGTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
*
47614571 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTT
47614606 GCACTTCCTC
Statistics
Matches: 124, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
48 5 0.04
49 7 0.06
50 10 0.08
51 24 0.19
52 78 0.63
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:47615503 original size:27 final size:26
Alignment explanation
Indices: 47615408--47615494 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 26
47615398 TATTCGACAT
* * *
47615408 TTTACCATATAGGGGTATTACGGTCAC
1 TTTACCCTACAGGGGT-TTACGGTCTC
47615435 TTTACCCTACAGGGGATTTACGGTCTC
1 TTTACCCTACAGGGG-TTTACGGTCTC
*
47615462 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGG-TTTACGGTCTC
47615489 TTTACC
1 TTTACC
47615495 TAATAGGGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
TTTACCCTACAGGGGTTTACGGTCTC
Found at i:47615597 original size:27 final size:27
Alignment explanation
Indices: 47615548--47615599 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
47615538 GTAAATCTAC
*
47615548 AAACCAAGGGTATTTCATTAATTTTGT
1 AAACCAAGGGTATTTCATCAATTTTGT
*
47615575 AAACCAATGGTATTTCCA-CAATTTT
1 AAACCAAGGGTATTT-CATCAATTTT
47615600 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCATCAATTTTGT
Found at i:47615661 original size:27 final size:26
Alignment explanation
Indices: 47615635--47615841 Score: 184
Period size: 27 Copynumber: 7.8 Consensus size: 26
47615625 CTTTGTAAAT
47615635 CAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
** * *
47615661 TTGAGGGTATTTCGGTAATTTCACAAA
1 CAG-GGGTATTTTGGTAATTTTACAAA
*
47615688 CCAGTGGTATTTTGGTAATTTTACAAA
1 -CAGGGGTATTTTGGTAATTTTACAAA
47615715 CTAGGGGT-TTTTGGTAATTTTACAAA
1 C-AGGGGTATTTTGGTAATTTTACAAA
** * *
47615741 TTGAAGGTATTTCGGTAATTTTACAAA
1 CAG-GGGTATTTTGGTAATTTTACAAA
* * * *
47615768 CCAAGGGTATTTTAGCAATTTTACAGA
1 -CAGGGGTATTTTGGTAATTTTACAAA
* **
47615795 CTA-GGGCATTTTGGTAATTTTGTAAA
1 C-AGGGGTATTTTGGTAATTTTACAAA
* *
47615821 CCGGGGTATTTTAGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
47615842 GTAAATCGCG
Statistics
Matches: 142, Mismatches: 31, Indels: 16
0.75 0.16 0.08
Matches are distributed among these distances:
25 1 0.01
26 58 0.41
27 82 0.58
28 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (26 bp):
CAGGGGTATTTTGGTAATTTTACAAA
Found at i:47615738 original size:80 final size:80
Alignment explanation
Indices: 47615636--47615815 Score: 272
Period size: 80 Copynumber: 2.2 Consensus size: 80
47615626 TTTGTAAATC
*
47615636 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGT-TTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
* *
47615700 TGGTAATTTTACAAACT
64 TAGCAATTTTACAAACT
*
47615717 AGGGGTTTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTA
1 AGGGGTTTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTA
*
47615782 GCAATTTTACAGACT
66 GCAATTTTACAAACT
**
47615797 AGGGCATTTTGGTAATTTT
1 AGGGGTTTTTGGTAATTTT
47615816 GTAAACCGGG
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
80 83 0.91
81 8 0.09
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGGGTTTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTA
GCAATTTTACAAACT
Found at i:47615758 original size:53 final size:54
Alignment explanation
Indices: 47615639--47615841 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 54
47615629 GTAAATCAGG
* * * *
47615639 GGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTACAAACCAGA
**
47615693 GGTATTTTGGTAATTTTACAAACTAGGGGT-TTTTGGTAATTTTACAAA-TTGAA
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAG-A
* * * * * * *
47615746 GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACTAG-
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGA
* ** * *
47615799 GGCATTTTGGTAATTTTGTAAAC-CGGGGTATTTTAGTAATTTT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTT
47615842 GTAAATCGCG
Statistics
Matches: 125, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 18 0.14
53 62 0.50
54 41 0.33
55 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGA
Found at i:47615842 original size:26 final size:27
Alignment explanation
Indices: 47615802--47615873 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
47615792 AGACTAGGGC
*
47615802 ATTTTGGTAATTTTGTAAACCG-GGGT
1 ATTTTAGTAATTTTGTAAACCGCGGGT
*
47615828 ATTTTAGTAATTTTGTAAATCGCGGGT
1 ATTTTAGTAATTTTGTAAACCGCGGGT
*** *
47615855 AAAATAGTAATTCTGTAAA
1 ATTTTAGTAATTTTGTAAA
47615874 TCAAGGGTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 20 0.51
27 19 0.49
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTTTAGTAATTTTGTAAACCGCGGGT
Found at i:47615862 original size:27 final size:27
Alignment explanation
Indices: 47615833--47615963 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
47615823 GGGGTATTTT
* * *
47615833 AGTAATTTTGTAAATCGCGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
47615860 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
47615887 AGTAATTCTATAAATCTAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
47615914 GGTAATTCTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* ** *
47615941 GGTAATTCCATAAATCAAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
47615964 CTTTGGTAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:47619232 original size:39 final size:39
Alignment explanation
Indices: 47619148--47619300 Score: 207
Period size: 39 Copynumber: 3.9 Consensus size: 39
47619138 TATGGTAACC
** * *
47619148 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47619188 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
47619227 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
47619266 TGCACAATTACCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
47619301 TCGAACATTC
Statistics
Matches: 100, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 85 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:47619274 original size:78 final size:79
Alignment explanation
Indices: 47619117--47619299 Score: 260
Period size: 78 Copynumber: 2.3 Consensus size: 79
47619107 TCGTTCAAAC
* * **
47619117 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
47619182 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** * *
47619197 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
47619261 CAATTTGCACAATT
66 CAATTTGCACAATT
*
47619275 ACCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
47619300 CTCGAACATT
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
78 52 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:47621476 original size:31 final size:31
Alignment explanation
Indices: 47621404--47621515 Score: 124
Period size: 31 Copynumber: 3.7 Consensus size: 31
47621394 TTAGTCTTGA
*
47621404 CATAT-ACTGGGCTGAAGCCTT-TCATTTAAT
1 CATATCACTGGGCTGAAGCCTTCTCA-TAAAT
** * *
47621434 GGT-T-ACTGGGCTGAAGCTTTTTCATAAAT
1 CATATCACTGGGCTGAAGCCTTCTCATAAAT
47621463 CATATCACTGGGCTGAAGCCTTCTCATAAAT
1 CATATCACTGGGCTGAAGCCTTCTCATAAAT
* *
47621494 CATATCATTGGGCCGAAGCCTT
1 CATATCACTGGGCTGAAGCCTT
47621516 TACAGTAAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
29 21 0.30
30 5 0.07
31 43 0.62
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCTGAAGCCTTCTCATAAAT
Found at i:47621805 original size:26 final size:26
Alignment explanation
Indices: 47621735--47621882 Score: 246
Period size: 26 Copynumber: 5.8 Consensus size: 26
47621725 CTTTTTAATT
47621735 ACTGGGGCA-AAGCCCTTTTCGGTAA
1 ACTGGGGCATAAGCCCTTTTCGGTAA
47621760 ACTGGGGCA-AAGCCCTTTTCGGTAA
1 ACTGGGGCATAAGCCCTTTTCGGTAA
**
47621785 ACTGGGGCATAAGCCCTTTTCAATAA
1 ACTGGGGCATAAGCCCTTTTCGGTAA
47621811 ACTGGGGCATAAGCCCTTTTCGGTAA
1 ACTGGGGCATAAGCCCTTTTCGGTAA
**
47621837 ACTGGGGCATAAGCCCTTTTCAATAA
1 ACTGGGGCATAAGCCCTTTTCGGTAA
47621863 ACTGGGGCATAAGCCCTTTT
1 ACTGGGGCATAAGCCCTTTT
47621883 GCACTTCCTC
Statistics
Matches: 116, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 34 0.29
26 82 0.71
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
ACTGGGGCATAAGCCCTTTTCGGTAA
Found at i:47622771 original size:27 final size:27
Alignment explanation
Indices: 47622687--47622773 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
47622677 TATTCGACAT
* * *
47622687 TTTACCATACAGGGG-TATTACAGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
*
47622714 TTTACCCTACAGGGGCTTTACGATCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
47622741 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
47622768 TTTACC
1 TTTACC
47622774 TAATAGGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:47622857 original size:27 final size:27
Alignment explanation
Indices: 47622804--47623152 Score: 201
Period size: 27 Copynumber: 13.0 Consensus size: 27
47622794 TTTCATCCTA
* * * * *
47622804 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** *
47622831 CAAGGGTATTTCAGTAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *** *
47622857 CTAATGGTATTTCCATAATTTTTAGAAAGT
1 C-AAGGGTATTTTGGTAA-TTTTATAAA-T
* *
47622887 CAAGGGTATTTT-GTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
47622913 CAGGGGTATTTT-GTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * * *
47622939 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
47622965 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* *
47622992 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTATAAAT
** * * *
47623020 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
47623047 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
47623073 CTA-GGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAT
* * *
47623099 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
47623126 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
47623153 TGAGGGTAAA
Statistics
Matches: 256, Mismatches: 54, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
25 18 0.07
26 39 0.15
27 178 0.70
28 11 0.04
29 9 0.04
30 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:47622947 original size:81 final size:80
Alignment explanation
Indices: 47622803--47623146 Score: 313
Period size: 81 Copynumber: 4.3 Consensus size: 80
47622793 ATTTCATCCT
* * * * * ** ** * * *
47622803 ACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATT
1 ACAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
** *
47622868 TCCATAATTTTTAGAA
66 TCGGTAA-TTTTACAA
*
47622884 AGTCAAGGGTATTTT-GTAACTTTGTA-AATC-AGGGGTATTTT-GTAATTTTACAAATTGAGGG
1 A--CAAGGGTATTTTGGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGG
*
47622945 TATTTCGGTAATTTCACAA
62 TATTTCGGTAATTTTACAA
*
47622964 ACCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 ACAAG-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
47623029 TTCGGTAATTTTACAA
65 TTCGGTAATTTTACAA
* * * ** *
47623045 ACCAAGGGTATTTTAGCAATTTTACAGACTA--GGTATTTTGGTAATTTTACTGATCGAGGGTAT
1 A-CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
* **
47623108 TTTGGTAATTTTGTAA
65 TTCGGTAATTTTACAA
* *
47623124 ACCGAGGGTATTTTAGTAATTTT
1 A-CAAGGGTATTTTGGTAATTTT
47623147 GTAAATTGAG
Statistics
Matches: 223, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
78 5 0.02
79 77 0.35
80 22 0.10
81 86 0.39
82 16 0.07
83 15 0.07
84 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
ACAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
TCGGTAATTTTACAA
Found at i:47623157 original size:27 final size:27
Alignment explanation
Indices: 47622916--47623160 Score: 241
Period size: 27 Copynumber: 9.2 Consensus size: 27
47622906 TGTAAATCAG
*
47622916 GGGTATTTT-GTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACTGA
* * *
47622942 GGGTATTTCGGTAATTTCACAAAC-CA
1 GGGTATTTTGGTAATTTTACAAACTGA
47622968 GTGGTATTTTGGTAATTTTACAAACT-A
1 G-GGTATTTTGGTAATTTTACAAACTGA
*
47622995 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAACTGA
* **
47623023 GGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTGA
* * *
47623050 GGGTATTTTAGCAATTTTACAGACT-A
1 GGGTATTTTGGTAATTTTACAAACTGA
**
47623076 -GGTATTTTGGTAATTTTACTGA-TCGA
1 GGGTATTTTGGTAATTTTACAAACT-GA
** *
47623102 GGGTATTTTGGTAATTTTGTAAACCGA
1 GGGTATTTTGGTAATTTTACAAACTGA
* ** *
47623129 GGGTATTTTAGTAATTTTGTAAATTGA
1 GGGTATTTTGGTAATTTTACAAACTGA
47623156 GGGTA
1 GGGTA
47623161 AAACAGTAAT
Statistics
Matches: 183, Mismatches: 27, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.01
25 19 0.10
26 12 0.07
27 149 0.81
28 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTGA
Found at i:47623184 original size:26 final size:27
Alignment explanation
Indices: 47623138--47623267 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
47623128 AGGGTATTTT
* *
47623138 AGTAATTTTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
47623165 AGTAATT-TGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
47623191 AATAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
47623218 GGTAATTCTGTAAATCGAGAGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
47623245 GGTAATTCTATAAATTGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
47623268 CTTTGGTAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 23 0.26
27 66 0.74
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:47623197 original size:53 final size:54
Alignment explanation
Indices: 47623148--47623267 Score: 170
Period size: 54 Copynumber: 2.2 Consensus size: 54
47623138 AGTAATTTTG
*
47623148 TAAATTGAGGGTAAAACAGTAATT-TGTAAATCAAGGGTAAAACAATAATTCTA
1 TAAATTGAGGGTAAAACAGTAATTCTGTAAATCAAGAGTAAAACAATAATTCTA
* * * ***
47623201 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGAGTAAAATGGTAATTCTA
1 TAAATTGAGGGTAAAACAGTAATTCTGTAAATCAAGAGTAAAACAATAATTCTA
47623255 TAAATTGAGGGTA
1 TAAATTGAGGGTA
47623268 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 22 0.38
54 36 0.62
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.28
Consensus pattern (54 bp):
TAAATTGAGGGTAAAACAGTAATTCTGTAAATCAAGAGTAAAACAATAATTCTA
Found at i:47625588 original size:31 final size:31
Alignment explanation
Indices: 47625545--47625620 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
47625535 TTTAACGATT
*
47625545 ACTGGGCTGAAGCCTTTCCATAAATCATATC
1 ACTGGGCCGAAGCCTTTCCATAAATCATATC
* *
47625576 ACTGGGCCGAAGCCTTTTCGTAAATCATATC
1 ACTGGGCCGAAGCCTTTCCATAAATCATATC
*
47625607 ATTGGGCCGAAGCC
1 ACTGGGCCGAAGCC
47625621 CTTACTGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTCCATAAATCATATC
Found at i:47625912 original size:26 final size:26
Alignment explanation
Indices: 47625828--47625963 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
47625818 CGGGAGGCCT
47625828 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
47625852 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
47625877 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
47625903 AGCCCTTTTCGATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
47625929 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
47625955 AGCCCTTTT
1 AGCCCTTTT
47625964 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 33 0.33
26 57 0.56
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:47626575 original size:27 final size:27
Alignment explanation
Indices: 47626537--47626793 Score: 261
Period size: 27 Copynumber: 9.6 Consensus size: 27
47626527 AAACGCAACA
* *
47626537 TTACAAGTTGAGGGTATTTTGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATT
* *
47626564 TTACAAATTGAGGGTATTTCGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATT
* *
47626591 TCACAAA-CCAGTGGTATTTTGGTAATT
1 TTACAAATCGAG-GGTATTTTGGTAATT
* *
47626618 TTAGAAA-CTAGGGGTATTTTGGTAATT
1 TTACAAATCGA-GGGTATTTTGGTAATT
* *
47626645 TTACAAATTGAGGGTATTTCGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATT
* * ***
47626672 TTACAAACCAAGGGTATTTTACCAATT
1 TTACAAATCGAGGGTATTTTGGTAATT
*
47626699 TTACAAA-CTA-GGTATTTTGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATT
**
47626724 TTACTGATCGAGGGTATTTTGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATT
** *
47626751 TTGTAAATCGAGGGTATTTTAGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATT
**
47626778 TTGTAAATCGAGGGTA
1 TTACAAATCGAGGGTA
47626794 AAATAGTAAT
Statistics
Matches: 193, Mismatches: 32, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
25 17 0.09
26 6 0.03
27 168 0.87
28 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
TTACAAATCGAGGGTATTTTGGTAATT
Found at i:47626688 original size:81 final size:79
Alignment explanation
Indices: 47626547--47626779 Score: 315
Period size: 81 Copynumber: 2.9 Consensus size: 79
47626537 TTACAAGTTG
* *
47626547 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG-GGTATTTTA
*
47626612 GTAATTTTAGAAACT
65 GTAATTTTACAAACT
47626627 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 A-GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACC-AGGGTATTTT
**
47626692 ACCAATTTTACAAACT
64 AGTAATTTTACAAACT
** * * ** *
47626708 A-GGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAATCGAGGGTATTTTA
1 AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAA-CCAGGGTATTTTA
47626772 GTAATTTT
65 GTAATTTT
47626780 GTAAATCGAG
Statistics
Matches: 136, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 60 0.44
80 2 0.01
81 72 0.53
82 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (79 bp):
AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGTATTTTAG
TAATTTTACAAACT
Found at i:47626788 original size:54 final size:54
Alignment explanation
Indices: 47626537--47626918 Score: 252
Period size: 54 Copynumber: 7.1 Consensus size: 54
47626527 AAACGCAACA
* * * * *
47626537 TTACAAGTTGAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATT
* * * *
47626591 TCACAAA-CCAGTGGTATTTTGGTAATTTTAGAAA-CTAGGGGTATTTTGGTAATT
1 TTACAAATCGAG-GGTATTTTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATT
* * * * * ***
47626645 TTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTACCAATT
1 TTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATT
* *
47626699 TTACAAA-CTA-GGTATTTTGGTAATTTTACT-GATCGAGGGTATTTTGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATTTTA-TAAATCGAGGGTATTTTGGTAATT
** * * *** *
47626751 TTGTAAATCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATT
* ** * *** * * * ****
47626805 CTGTAAATCAAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATT
* * *** ** * *
47626859 CTATAAATCGAGGGTAAAATGGTAATTCCATAAATCAAGGGTACTTTGGTAATT
1 TTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATT
47626913 TTACAA
1 TTACAA
47626919 TTTGAGAGTA
Statistics
Matches: 261, Mismatches: 59, Indels: 16
0.78 0.18 0.05
Matches are distributed among these distances:
52 38 0.15
53 7 0.03
54 212 0.81
55 4 0.02
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (54 bp):
TTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATT
Found at i:47626800 original size:27 final size:27
Alignment explanation
Indices: 47626745--47626901 Score: 179
Period size: 27 Copynumber: 5.8 Consensus size: 27
47626735 GGGTATTTTG
* ***
47626745 GTAATTTTGTAAATCGAGGGTATTTTA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
47626772 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
*
47626799 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATA
* * **
47626826 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATA
* *
47626853 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATA
** *
47626880 GTAATTCCATAAATCAAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
47626902 CTTTGGTAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.32
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATA
Found at i:47626938 original size:81 final size:81
Alignment explanation
Indices: 47626734--47626939 Score: 223
Period size: 81 Copynumber: 2.5 Consensus size: 81
47626724 TTACTGATCG
* * * * * *
47626734 AGGGTATTTTGGTAATTTTGTAAATCGAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 AGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTCTATAAATCGAGGGTAAAATA
**
47626799 GTAATTCTGTAAATCA
66 GTAATTCCATAAATCA
** * * *** * *
47626815 AGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 AGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTCTATAAATCGAGGGTAAAATA
47626880 GTAATTCCATAAATCA
66 GTAATTCCATAAATCA
* * * *
47626896 AGGGTACTTTGGTAATTTTACAATTTGAGAGTATTTCAGTAATT
1 AGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATT
47626940 TGGTAAACTA
Statistics
Matches: 96, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (81 bp):
AGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTCTATAAATCGAGGGTAAAATA
GTAATTCCATAAATCA
Found at i:47633610 original size:119 final size:120
Alignment explanation
Indices: 47633428--47633651 Score: 312
Period size: 119 Copynumber: 1.9 Consensus size: 120
47633418 TACTCGTTCA
*
47633428 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * * *
47633493 TTAGTGAC-TCGTACAAATGCCTTCGGGACTTAACCCGGACTTAGTAACTCGCACC
66 ATAGTCACTTAGCACAAA-GCCTTCGGGACTTAACCCGGACTTAGTAACTCGCACC
* **
47633548 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
47633610 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAC
64 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGAC
47633652 ATCATTCGAA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
118 4 0.04
119 69 0.75
120 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGACTTAGTAACTCGCACC
Found at i:47633650 original size:40 final size:40
Alignment explanation
Indices: 47633407--47633650 Score: 284
Period size: 40 Copynumber: 6.1 Consensus size: 40
47633397 CGGAATTTAA
** *
47633407 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47633447 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
47633487 CCGGATTTAGTGACTCGTACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
47633527 CCGGACT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGA-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
47633566 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
47633606 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
47633646 CCGGA
1 CCGGA
47633651 CATCATTCGA
Statistics
Matches: 177, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.19
40 129 0.73
41 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47653508 original size:27 final size:27
Alignment explanation
Indices: 47653470--47653841 Score: 404
Period size: 27 Copynumber: 13.8 Consensus size: 27
47653460 GGATAAGTTG
47653470 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
*
47653497 TAAAATTACCAAAATACCCTTAGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
* *
47653524 TAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
* *
47653551 TAAAAGTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
*
47653578 TAAAATTAGCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
*
47653605 TAAAATTACCAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
* * *
47653632 TAAAATTACC-AAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
* * *
47653658 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
* * *
47653685 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
* ***
47653712 TAAAATTACCAAAATACCCTCGACCTA
1 TAAAATTACCAAAATACCCTTGGTTTA
** * ** *
47653739 TAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
* * *
47653766 TAAAATTACCAAAGTACCCCTGATTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
* **** * *
47653793 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
*
47653820 TAAAATTACCGAAATACCCTTG
1 TAAAATTACCAAAATACCCTTG
47653842 TAGGGTAGAA
Statistics
Matches: 299, Mismatches: 45, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.08
27 275 0.92
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGGTTTA
Found at i:47653604 original size:81 final size:81
Alignment explanation
Indices: 47653467--47653840 Score: 446
Period size: 81 Copynumber: 4.6 Consensus size: 81
47653457 AGTGGATAAG
47653467 TTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTA
1 TTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTA
47653532 CCAAAATACCCCTGGT
66 CCAAAATACCCCTGGT
* * * *
47653548 TTGTAAAAGTACTAAAATACCCTTGGTTTATAAAATTAGCAAAATACCCTTGGTTTATAAAATTA
1 TTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTA
*
47653613 CCAAAATACCCTTGGT
66 CCAAAATACCCCTGGT
* * * * *
47653629 TTGTAAAATTACC-AAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTA
*
47653693 CCAAAATACCCCTAGT
66 CCAAAATACCCCTGGT
* *** ** * * *
47653709 TTGTAAAATTACCAAAATACCCTCGACCTATAAAATTACTGAAATACCC-TCGACTTGTAAAATT
1 TTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAG-TTTATAAAATT
* *
47653773 ACCAAAGTACCCCTGAT
65 ACCAAAATACCCCTGGT
* * **** * * *
47653790 TTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGAAATACCCTT
1 TTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTT
47653841 GTAGGGTAGA
Statistics
Matches: 251, Mismatches: 39, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
80 73 0.29
81 177 0.71
82 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTTAGTTTATAAAATTA
CCAAAATACCCCTGGT
Found at i:47653856 original size:27 final size:27
Alignment explanation
Indices: 47653826--47653903 Score: 138
Period size: 27 Copynumber: 2.9 Consensus size: 27
47653816 TTTATAAAAT
47653826 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
47653853 TACCGAAATACACTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
47653880 TACCGAAATACCCCTGTAGGGTAG
1 TACCGAAATACCCTTGTAGGGTAG
47653904 GACTACTGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:47653928 original size:54 final size:53
Alignment explanation
Indices: 47653820--47653933 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 53
47653810 CCTCGATTTA
* *
47653820 TAAAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACACTTGTAGGG
1 TAAAA-TACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACACTTGGAGGG
* * * ** *
47653874 TAGAAATACCGAAATACCCCTGTAGGGTAGGACTACTGATTTACCCTTGGAGGG
1 TA-AAATACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACACTTGGAGGG
47653928 TAAAAT
1 TAAAAT
47653934 GACTATTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
53 4 0.08
54 44 0.86
55 3 0.06
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (53 bp):
TAAAATACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACACTTGGAGGG
Found at i:47654606 original size:27 final size:26
Alignment explanation
Indices: 47654562--47654613 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47654552 CTCGCTGCAA
*
47654562 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
47654589 TCTGGTGACTTCGTCACAATATCTA
1 TCTGGTGACCTCGCCACAATATCTA
47654614 GCAACCTCGC
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:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:47660680 original size:24 final size:24
Alignment explanation
Indices: 47660653--47660698 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
47660643 CTATACACAC
47660653 TTAA-ATGTTGATTATATTGTATGT
1 TTAATATGTTG-TTATATTGTATGT
* *
47660677 TTAATGTGTTGTTCTATTGTAT
1 TTAATATGTTGTTATATTGTAT
47660699 ATGAATCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (24 bp):
TTAATATGTTGTTATATTGTATGT
Found at i:47665610 original size:41 final size:41
Alignment explanation
Indices: 47665551--47665774 Score: 209
Period size: 41 Copynumber: 5.5 Consensus size: 41
47665541 TGTAAACAGA
47665551 GGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAATAGG
1 GGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAATAGG
* * ***
47665592 GACACGTATGTGAAATTTAGGGGTAATGAAGTACAAATAGG
1 GGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAATAGG
* * * * *
47665633 GGCATGTATGTGCAATTCAGGGGGTATCAAAGTAGAAACAGG
1 GGCACGTATGTGCAATTTA-GGGGTACCAAAGTACAAATAGG
* * * * * * ** *
47665675 GTCACGTTTGTGCAATTCA-GGGTATCGAAGCAGGAACAGG
1 GGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAATAGG
* *
47665715 GGCACATATGTGCAATTTAGGGGTACCGAAA-TACAAATAGA
1 GGCACGTATGTGCAATTTAGGGGTACC-AAAGTACAAATAGG
* *
47665756 GGCATGTATGTACAATTTA
1 GGCACGTATGTGCAATTTA
47665775 AGAAATAATT
Statistics
Matches: 146, Mismatches: 34, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
40 33 0.23
41 78 0.53
42 35 0.24
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (41 bp):
GGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAATAGG
Found at i:47667373 original size:41 final size:41
Alignment explanation
Indices: 47667296--47667429 Score: 146
Period size: 41 Copynumber: 3.2 Consensus size: 41
47667286 ACGCCGCCAT
* * *
47667296 GACCTTTA-ACGGCGCTTTTTCCACAAATGCCGCTATAGAATA
1 GACCTTTAGA-GGCGC-TTTTCCACAAACGCCACTATAGAACA
* *
47667338 GACCTTTAGTA-GCGCTTTGCCACAAACGCCACTATAGAACC
1 GACCTTTAG-AGGCGCTTTTCCACAAACGCCACTATAGAACA
* *
47667379 GACCTTTAGAGGCGCTTTTCTCACAAACGTCACTAAAGAACA
1 GACCTTTAGAGGCGCTTTTC-CACAAACGCCACTATAGAACA
47667421 TGACCTTTA
1 -GACCTTTA
47667430 AAAATATATT
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
40 1 0.01
41 38 0.49
42 30 0.38
43 8 0.10
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (41 bp):
GACCTTTAGAGGCGCTTTTCCACAAACGCCACTATAGAACA
Found at i:47668794 original size:26 final size:26
Alignment explanation
Indices: 47668764--47668822 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
47668754 GCCGATGTGG
47668764 GCCCACACACTCGTGTGGCCCAATAA
1 GCCCACACACTCGTGTGGCCCAATAA
47668790 GCCCACACACTCGTGTGGCCCAATAA
1 GCCCACACACTCGTGTGGCCCAATAA
47668816 GCCCACA
1 GCCCACA
47668823 TACTGACCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.41, G:0.19, T:0.14
Consensus pattern (26 bp):
GCCCACACACTCGTGTGGCCCAATAA
Found at i:47672806 original size:40 final size:40
Alignment explanation
Indices: 47672761--47672928 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
47672751 CGGAATATAA
47672761 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
47672801 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47672841 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
47672881 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
47672921 CCGGATAT
1 CCGGATAT
47672929 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47672911 original size:80 final size:80
Alignment explanation
Indices: 47672777--47672926 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
47672767 ATAACCACGT
* *
47672777 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
47672842 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
47672857 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
47672920 CCCGGAT
64 CCCGGAT
47672927 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:47682013 original size:11 final size:12
Alignment explanation
Indices: 47681986--47682010 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47681976 ATAATAAGCC
47681986 TTAATTTTTATA
1 TTAATTTTTATA
47681998 TTAATTTTTATA
1 TTAATTTTTATA
47682010 T
1 T
47682011 AATAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTAATTTTTATA
Found at i:47682629 original size:27 final size:28
Alignment explanation
Indices: 47682579--47682636 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
47682569 GGATTTCGGG
*
47682579 GGGGAAAAAAGAGTACGGAGAAAAGGTT
1 GGGGAAAAAAGAGTACGGAAAAAAGGTT
47682607 GGGGAAAAAAGCAG-A-GGAAAAAAGGTT
1 GGGGAAAAAAG-AGTACGGAAAAAAGGTT
47682634 GGG
1 GGG
47682637 CTACAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 14 0.50
28 12 0.43
29 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.41, T:0.09
Consensus pattern (28 bp):
GGGGAAAAAAGAGTACGGAAAAAAGGTT
Found at i:47684376 original size:40 final size:39
Alignment explanation
Indices: 47684265--47684414 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 39
47684255 TTAATCACGT
* * *
47684265 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
47684305 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
47684345 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
47684385 GCATATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATGCCTTCGGGTCTTAGCCCGGATAT
47684415 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
38 13 0.14
39 11 0.12
40 67 0.74
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:47686963 original size:39 final size:38
Alignment explanation
Indices: 47686860--47686967 Score: 95
Period size: 39 Copynumber: 2.9 Consensus size: 38
47686850 TAGGCAAATA
* * *
47686860 CAGTCTGGGCCTAAGCCCATATCAGTAACAGT-TCAGTTT
1 CAGT-TGGGCCTTAGCCCAT-TCAGTAACAGTAACAGTAT
47686899 CAGTTAGGGCCTTAGCCCA---A-T-ACAGTAACA-TAT
1 CAGTT-GGGCCTTAGCCCATTCAGTAACAGTAACAGTAT
47686932 CAGTGTGGGCCTTAGCCCATTTCAGTAACAGTAACA
1 CAGT-TGGGCCTTAGCCCA-TTCAGTAACAGTAACA
47686968 ATATAGATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
33 24 0.42
34 4 0.07
35 1 0.02
37 1 0.02
38 2 0.04
39 25 0.44
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (38 bp):
CAGTTGGGCCTTAGCCCATTCAGTAACAGTAACAGTAT
Found at i:47688754 original size:79 final size:81
Alignment explanation
Indices: 47688653--47688837 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
47688643 ACGACTCGCT
** * *
47688653 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
47688716 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
47688733 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
47688797 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
47688813 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47688838 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:47688837 original size:40 final size:39
Alignment explanation
Indices: 47688646--47688837 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
47688636 GGATATAACG
* ** * *
47688646 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
47688686 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
47688726 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
47688765 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
47688805 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
47688838 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:47695620 original size:28 final size:29
Alignment explanation
Indices: 47695566--47695723 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
47695556 GTGACGAGAT
47695566 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47695595 TGGCACTAAGTGT-CATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47695623 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * **
47695652 CGGCACTGGGTGTGCGA-GCTCG-AAGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
47695680 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
47695709 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47695724 GAAATCGAGT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
28 49 0.45
29 59 0.54
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47695682 original size:57 final size:57
Alignment explanation
Indices: 47695562--47695694 Score: 164
Period size: 57 Copynumber: 2.4 Consensus size: 57
47695552 TACGGTGACG
* *
47695562 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTCATGCTCGAA
* **
47695618 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCG-A
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGT-C-ATGCTCGAA
* *
47695675 AGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
47695695 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
56 3 0.05
57 57 0.86
58 5 0.08
59 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (57 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTCATGCTCGAA
Found at i:47700057 original size:79 final size:81
Alignment explanation
Indices: 47699956--47700140 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
47699946 ACGACTCGCT
** * *
47699956 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
47700019 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
47700036 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
47700100 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
47700116 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47700141 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:47700140 original size:40 final size:39
Alignment explanation
Indices: 47699949--47700140 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
47699939 GGATATAACG
* ** * *
47699949 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
47699989 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
47700029 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
47700068 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
47700108 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
47700141 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:47701963 original size:18 final size:17
Alignment explanation
Indices: 47701937--47701970 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47701927 CCATAATGTA
47701937 GCCCATATGGGCCCACAC
1 GCCCATAT-GGCCCACAC
*
47701955 GCCCGTATGGCCCACA
1 GCCCATATGGCCCACA
47701971 AAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (17 bp):
GCCCATATGGCCCACAC
Found at i:47701976 original size:18 final size:18
Alignment explanation
Indices: 47701936--47701977 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
47701926 TCCATAATGT
47701936 AGCCCATATGGGCCCACA
1 AGCCCATATGGGCCCACA
* *
47701954 CGCCCGTAT-GGCCCACAA
1 AGCCCATATGGGCCCAC-A
47701972 AGCCCA
1 AGCCCA
47701978 AAAAATGCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.43, G:0.21, T:0.10
Consensus pattern (18 bp):
AGCCCATATGGGCCCACA
Found at i:47704908 original size:40 final size:40
Alignment explanation
Indices: 47704801--47704950 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 40
47704791 ATCACGATTT
* * *
47704801 GCACAAATGCCTTCGGGTCTTAGCCCGAATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATTTAACAACTA
* * *
47704841 GCAC-GTATGCCTTCGGGTCTTAGCCCGGATTTAGCTACTA
1 GCACAAT-TGCCTTCGGGTCTTAGCCCGGATTTAACAACTA
* *** *
47704881 GCACAATTGCCTTCGGGTCTTAACCCGG-TTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATT-TAACAACTA
* * *
47704921 GCATAATTGTCTTCGGGGCTTAGCCCGGAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGAT
47704951 ATCATTCAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 86 0.96
41 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATTTAACAACTA
Found at i:47707420 original size:41 final size:41
Alignment explanation
Indices: 47707363--47707444 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
47707353 TAAATGGTTG
47707363 TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
1 TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
47707404 TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
1 TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
47707445 ATCTCTCACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (41 bp):
TAATTAATTATTAAGTTAGAATTATCCAATCTAAGCAATCA
Found at i:47707835 original size:2 final size:2
Alignment explanation
Indices: 47707828--47707853 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47707818 AACCATTTAG
47707828 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
47707854 AAGTTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47708022 original size:7 final size:7
Alignment explanation
Indices: 47708012--47708193 Score: 61
Period size: 7 Copynumber: 25.7 Consensus size: 7
47708002 ACTTATCCCT
47708012 TAAACCC
1 TAAACCC
* *
47708019 TAAATCA
1 TAAACCC
*
47708026 TAAACCA
1 TAAACCC
47708033 TAAACCC
1 TAAACCC
47708040 TAAACCCC
1 TAAA-CCC
47708048 T-AACCC
1 TAAACCC
*
47708054 TTAACCC
1 TAAACCC
*
47708061 TTAACCCC
1 -TAAACCC
47708069 T-AACCAC
1 TAAACC-C
*
47708076 TAAACCT
1 TAAACCC
47708083 TAAACCGC
1 TAAACC-C
*
47708091 --AACACT
1 TAAAC-CC
*
47708097 TAAACCA
1 TAAACCC
*
47708104 TAAACCA
1 TAAACCC
* *
47708111 TAATCCA
1 TAAACCC
* *
47708118 TAATCCA
1 TAAACCC
*
47708125 TAAACCT
1 TAAACCC
*
47708132 TAAA--A
1 TAAACCC
47708137 TAGTAACTCC
1 TA--AAC-CC
*
47708147 TAAACCT
1 TAAACCC
*
47708154 TAAAACC
1 TAAACCC
*
47708161 TAAACCA
1 TAAACCC
*
47708168 TATACCC
1 TAAACCC
*
47708175 TAAACCA
1 TAAACCC
47708182 TAAACCC
1 TAAACCC
*
47708189 AAAAC
1 TAAAC
47708194 TATAATGATA
Statistics
Matches: 134, Mismatches: 27, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
5 2 0.01
6 10 0.07
7 101 0.75
8 19 0.14
10 2 0.01
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:47708029 original size:14 final size:14
Alignment explanation
Indices: 47708012--47708198 Score: 89
Period size: 14 Copynumber: 13.2 Consensus size: 14
47708002 ACTTATCCCT
*
47708012 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* *
47708026 TAAACCATAAACCC
1 TAAACCCTAAACCA
*
47708040 TAAACCCCT-AACCC
1 TAAA-CCCTAAACCA
* * *
47708054 TTAACCCTTAACCCC
1 TAAACCC-TAAACCA
*
47708069 T-AACCACTAAACCT
1 TAAACC-CTAAACCA
*
47708083 TAAACCGC--AACACT
1 TAAACC-CTAAAC-CA
*
47708097 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * *
47708111 TAATCCATAATCCA
1 TAAACCCTAAACCA
*
47708125 TAAACCTTAAA--A
1 TAAACCCTAAACCA
*
47708137 TAGTAACTCCTAAACCT
1 TA--AAC-CCTAAACCA
*
47708154 TAAAACCTAAACCA
1 TAAACCCTAAACCA
*
47708168 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
47708182 TAAACCCAAAACTA
1 TAAACCCTAAACCA
47708196 TAA
1 TAA
47708199 TGATAATTAA
Statistics
Matches: 135, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
12 3 0.02
13 6 0.04
14 100 0.74
15 24 0.18
17 2 0.01
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:47708100 original size:21 final size:22
Alignment explanation
Indices: 47708033--47708109 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 22
47708023 TCATAAACCA
* *
47708033 TAAACCCTAAACCCCTAACCCT
1 TAAACCTTAAACCCCTAACACT
*
47708055 TAACCCTT-AACCCCTAACCAC-
1 TAAACCTTAAACCCCTAA-CACT
*
47708076 TAAACCTTAAACCGC-AACACT
1 TAAACCTTAAACCCCTAACACT
*
47708097 TAAACCATAAACC
1 TAAACCTTAAACC
47708110 ATAATCCATA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.07
21 30 0.65
22 13 0.28
ACGTcount: A:0.40, C:0.40, G:0.01, T:0.18
Consensus pattern (22 bp):
TAAACCTTAAACCCCTAACACT
Found at i:47708428 original size:21 final size:21
Alignment explanation
Indices: 47708412--47708457 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
47708402 TCTAAAGAAT
47708412 TAAA-ATA-TTTAATTAAAAA
1 TAAATATATTTTAATTAAAAA
*
47708431 TAAATTATATTTTAATT-AATA
1 TAAA-TATATTTTAATTAAAAA
47708452 TAAATA
1 TAAATA
47708458 AACCAGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 2 0.09
21 10 0.43
22 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATATATTTTAATTAAAAA
Found at i:47711405 original size:3 final size:3
Alignment explanation
Indices: 47711397--47711445 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
47711387 TATCAAATCC
47711397 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
47711443 ATT
1 ATT
47711446 CAAATTTAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47711452 original size:22 final size:22
Alignment explanation
Indices: 47711397--47711453 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
47711387 TATCAAATCC
*
47711397 ATTATTATTA-TTATTATTATT
1 ATTATTATAATTTATTATTATT
*
47711418 ATTATTATTATTTATTATTATT
1 ATTATTATAATTTATTATTATT
47711440 ATTATTCA-AATTTA
1 ATTATT-ATAATTTA
47711454 GATATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 10 0.30
22 22 0.67
23 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTATTATAATTTATTATTATT
Found at i:47716626 original size:17 final size:17
Alignment explanation
Indices: 47716606--47716639 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47716596 TGTTATTAAA
*
47716606 GGTTAAAATGGTAAAAT
1 GGTTAAAATGATAAAAT
47716623 GGTTAAAATGATAAAAT
1 GGTTAAAATGATAAAAT
47716640 AATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:47716645 original size:17 final size:17
Alignment explanation
Indices: 47716608--47716648 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
47716598 TTATTAAAGG
* **
47716608 TTAAAATGGTAAAATGG
1 TTAAAATGATAAAATAA
47716625 TTAAAATGATAAAATAA
1 TTAAAATGATAAAATAA
47716642 TTAAAAT
1 TTAAAAT
47716649 AAAGTCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:47724721 original size:46 final size:45
Alignment explanation
Indices: 47724625--47724797 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 45
47724615 ACTCGAAGTT
** * * *
47724625 GATGCATGTCTGAGACATGTTTTACACTAGCTTACATCTTAA--GGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGC-T-C-TCGTAAGTGGCC
*
47724671 GATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTTTCAA-T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCG--T-AAGTGGCC
* *
47724717 GATGCCATGCCCCAAACATGGTCTTACACTAGCTCTCGTAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAA-GTGGCC
*
47724765 GATGCTTGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
47724798 ACAATAACCC
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 4 0.04
46 52 0.49
47 24 0.23
48 24 0.23
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAAGTGGCC
Found at i:47725502 original size:393 final size:394
Alignment explanation
Indices: 47724981--47725725 Score: 1314
Period size: 393 Copynumber: 1.9 Consensus size: 394
47724971 TGACAACCCG
* *
47724981 AATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAATTGTTTTAT
1 AATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTAC
* *
47725046 AATTATTTTGGGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGATGAAATTCTATGC
66 AATGATTTTGAGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGATGAAATTCTATGC
*
47725111 CTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTTGCATCCCAGAAGT
131 CTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTGCATCCCAGAAGT
*
47725176 TTTTAGTATGAAATTGTTTTGGAATATTAATTAGGAGGTCTTAAATAGCAATTTGACCAATTTTA
196 TTTTAGTATGAAATTGTTTTGGAATATTAATGAGGAGGTCTTAAATAGCAATTTGACCAATTTTA
*
47725241 AGTTCATGGACAAAATTAGGACATGGAAGGAATTTTT-GAAAGTTTAGTAAGGAGGGGCATTTTG
261 AGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGGAAAGTTTAGT-AGGAAGGGCATTTTG
*
47725305 GTCATTTGGATATT-AAATGAAATAAAATGGGAAAAATAACACAAAATTGATCATCATTGTAATA
325 GTCATTTAGATATTAAAATGAAATAAAATGGGAAAAATAACACAAAATTGATCATCATTGTAATA
47725369 TCCTA
390 TCCTA
*
47725374 AATTAGGGCTTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTAC
1 AATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTAC
*
47725439 AATGATTTTGATGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGATGAAATTCTATGC
66 AATGATTTTGAGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGATGAAATTCTATGC
* *
47725504 CTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTGCATTCTAGAAGT
131 CTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTGCATCCCAGAAGT
*
47725569 TTTTAGTATGAAATTGTTTTGGAATATTAATGAGGAGGTCTTAAATAGCAATTTTACCAATTTTA
196 TTTTAGTATGAAATTGTTTTGGAATATTAATGAGGAGGTCTTAAATAGCAATTTGACCAATTTTA
* *
47725634 AGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGGAAAGTTTAGTAGTAAGGGTATTTTGG
261 AGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGGAAAGTTTAGTAGGAAGGGCATTTTGG
* *
47725699 TCATTTAGTTATTAAAATGAATTAAAA
326 TCATTTAGATATTAAAATGAAATAAAA
47725726 ACAAAATTAA
Statistics
Matches: 333, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
393 310 0.93
394 23 0.07
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.35
Consensus pattern (394 bp):
AATTAGGGCCTAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAATTATTTTAC
AATGATTTTGAGGTTTATGATATGATTGCATGATTGTGTGAAAATTTCGTGATGAAATTCTATGC
CTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTGCATCCCAGAAGT
TTTTAGTATGAAATTGTTTTGGAATATTAATGAGGAGGTCTTAAATAGCAATTTGACCAATTTTA
AGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGGAAAGTTTAGTAGGAAGGGCATTTTGG
TCATTTAGATATTAAAATGAAATAAAATGGGAAAAATAACACAAAATTGATCATCATTGTAATAT
CCTA
Found at i:47726700 original size:46 final size:46
Alignment explanation
Indices: 47726650--47726825 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
47726640 TGGTTGAGCA
*
47726650 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47726696 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47726741 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47726789 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47726826 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Done.