Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 184 of 316
Found at i:59313313 original size:27 final size:27
Alignment explanation
Indices: 59313283--59313437 Score: 202
Period size: 27 Copynumber: 5.7 Consensus size: 27
59313273 TACTAAAATG
*
59313283 CCCTCAATTTAGAAAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCGTTTTA
* * *
59313310 CCCTCGATTTACAAAATTATCGTTTTA
1 CCCTCAATTTATAAAATTACCGTTTTA
* * *
59313337 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCAATTTATAAAATTACCGTTTTA
* * *
59313364 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCAATTTATAAAATTACCGTTTTA
*
59313391 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCAATTTATAAAATTACCGTTTTA
*
59313418 CCCTCACTTTATAAAATTAC
1 CCCTCAATTTATAAAATTAC
59313438 TAAAATACCC
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.39
Consensus pattern (27 bp):
CCCTCAATTTATAAAATTACCGTTTTA
Found at i:59313446 original size:27 final size:27
Alignment explanation
Indices: 59313335--59313623 Score: 178
Period size: 27 Copynumber: 10.7 Consensus size: 27
59313325 ATTATCGTTT
* * ***
59313335 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCTATTTATAAAATTACCAAAA
* * ***
59313362 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCTATTTATAAAATTACCAAAA
* * ****
59313389 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCTATTTATAAAATTACCAAAA
*
59313416 TACCCTC-ACTTTATAAAATTACTAAAA
1 TACCCTCTA-TTTATAAAATTACCAAAA
*
59313443 TACCCT-TGATTTACAAAATTACCAAAA
1 TACCCTCT-ATTTATAAAATTACCAAAA
* *
59313470 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCTATTTA-TAAAATTACCAAAA
* * *
59313497 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTCT-ATTTATAAAATTACCAAAA
*
59313524 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCTA-TTTATAAAATTACCAAAA
* *
59313551 TA-CCTCTAGCTTGTAAAATTACCAAAA
1 TACCCTCTA-TTTATAAAATTACCAAAA
* * * *
59313578 TACCC-CTGATTTGTGAAATTATCGAAA
1 TACCCTCT-ATTTATAAAATTACCAAAA
* *
59313605 TACTCTCAATTTATAAAAT
1 TACCCTCTATTTATAAAAT
59313624 ATCGAAATAC
Statistics
Matches: 221, Mismatches: 29, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
26 6 0.03
27 209 0.95
28 6 0.03
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (27 bp):
TACCCTCTATTTATAAAATTACCAAAA
Found at i:59313447 original size:54 final size:54
Alignment explanation
Indices: 59313269--59313501 Score: 195
Period size: 54 Copynumber: 4.3 Consensus size: 54
59313259 TTAGTTTACC
* * * *
59313269 AAATTACTAAAATGCCCTCAATTTAGAAAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATA
** * *
59313323 AAATTATCGT--TTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATA
1 AAATTA-C-TAAAATACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATA
* * ***
59313377 GAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTC-ACTTTATA
1 AAATTACTAAAATACCCTCAATTTATAGAATTACCGTTTTACCCTCGA-TTTATA
** * * **** *
59313431 AAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACTAAAATACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTA-TA
*
59313485 AAATTACCAAAATACCC
1 AAATTACTAAAATACCC
59313502 CTGGTTTGTA
Statistics
Matches: 145, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
53 4 0.03
54 138 0.95
55 2 0.01
56 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATA
Found at i:59313476 original size:81 final size:81
Alignment explanation
Indices: 59313269--59313466 Score: 236
Period size: 81 Copynumber: 2.4 Consensus size: 81
59313259 TTAGTTTACC
* * * * * *
59313269 AAATTACTAAAATGCCCTCAATTTAGAAAATTACCGTTTTACCCTCGATTTACAAAATTATCGTT
1 AAATTACTAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTT
59313334 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
* * *** * * * *
59313350 GAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTT
1 AAATTACTAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTT
59313415 TTACCCTC-ACTTTATA
66 TTACCCTCGA-TTTATA
*
59313431 AAATTACTAAAATACCCTTGATTTACAAAATTACCA
1 AAATTACTAAAATACCCTCGATTTACAAAATTACCA
59313467 AAATACCCTC
Statistics
Matches: 94, Mismatches: 22, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
80 1 0.01
81 93 0.99
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (81 bp):
AAATTACTAAAATACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTACAAAATTACCGTT
TTACCCTCGATTTATA
Found at i:59313607 original size:81 final size:81
Alignment explanation
Indices: 59313429--59313598 Score: 236
Period size: 81 Copynumber: 2.1 Consensus size: 81
59313419 CCTCACTTTA
* ** *
59313429 TAAAATTACTAAAATA-CCCTTGATTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACC
1 TAAAATTACTAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCTAGATCAGTAAAATTACC
*
59313493 AAAATACCCCTGGTTTG
65 AAAATACCCCTGATTTG
* *
59313510 TAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGCT-TGTAAAATTACC
1 TAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACC-CTAGATCAGTAAAATTACC
59313574 AAAATACCCCTGATTTG
65 AAAATACCCCTGATTTG
*
59313591 TGAAATTA
1 TAAAATTA
59313599 TCGAAATACT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 70 0.89
82 9 0.11
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
TAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTAGATCAGTAAAATTACCA
AAATACCCCTGATTTG
Found at i:59313622 original size:81 final size:81
Alignment explanation
Indices: 59313429--59313623 Score: 234
Period size: 81 Copynumber: 2.4 Consensus size: 81
59313419 CCTCACTTTA
* * * *
59313429 TAAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 TAAAATTACTAAAATACCCCTAATTTATAAAATTACCAAAATACCCTAGATCAGTAAAATTACCA
*
59313494 AAATACCCCTGGTTTG
66 AAATACCCCTGATTTG
* * * *
59313510 TAAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGCT-TGTAAAATTACC
1 TAAAATTACTAAAATACCCCTAATTTATAAAATTACCAAAATACC-CTAGATCAGTAAAATTACC
59313574 AAAATACCCCTGATTTG
65 AAAATACCCCTGATTTG
* * *
59313591 TGAAATTA-TCGAAATA-CTCTCAATTTATAAAAT
1 TAAAATTACT-AAAATACCCCT-AATTTATAAAAT
59313624 ATCGAAATAC
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
80 4 0.04
81 89 0.92
82 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (81 bp):
TAAAATTACTAAAATACCCCTAATTTATAAAATTACCAAAATACCCTAGATCAGTAAAATTACCA
AAATACCCCTGATTTG
Found at i:59313669 original size:27 final size:27
Alignment explanation
Indices: 59313627--59313760 Score: 135
Period size: 27 Copynumber: 5.0 Consensus size: 27
59313617 ATAAAATATC
*
59313627 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
59313654 GAAATACCCCTCTAGGGTAGAGTTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
59313681 AAAATACCCTTGTAGGGTAAAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
59313708 GAAACACCCCTGTAGGGTAGAATTAC-
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
59313734 CAAGATACCCTTGTGGGGTAAAATTAC
1 GAA-ATACCCCTGTAGGGTAGAATTAC
59313761 CATTTTGCCC
Statistics
Matches: 85, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
26 2 0.02
27 83 0.98
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:59313695 original size:54 final size:54
Alignment explanation
Indices: 59313628--59313760 Score: 185
Period size: 54 Copynumber: 2.5 Consensus size: 54
59313618 TAAAATATCG
* * * * *
59313628 AAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTCTAGGGTAGAGTTACCA
1 AAATACCCTTGTAGGGTAAAATTACTGAAACACCCCTCTAGGGTAGAATTACCA
* *
59313682 AAATACCCTTGTAGGGTAAAAATACTGAAACACCCCTGTAGGGTAGAATTACCA
1 AAATACCCTTGTAGGGTAAAATTACTGAAACACCCCTCTAGGGTAGAATTACCA
* *
59313736 AGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAAAATTAC
59313761 CATTTTGCCC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAAAATTACTGAAACACCCCTCTAGGGTAGAATTACCA
Found at i:59314008 original size:25 final size:25
Alignment explanation
Indices: 59313964--59314055 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 25
59313954 AGGAAGTGCT
*
59313964 AAAAGGGCTATGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
* * *
59313989 AAAAGGGCTTTGTCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTG
*
59314014 AAAAGGGCTTTGCCCCAGTTTA-TCA
1 AAAAGGGCTTTGCCCCAGTTTACT-G
59314039 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
59314056 ATTATTAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:59314071 original size:24 final size:25
Alignment explanation
Indices: 59313964--59314071 Score: 73
Period size: 25 Copynumber: 4.4 Consensus size: 25
59313954 AGGAAGTGCT
* * *
59313964 AAAAG-GGCTATGCCCCAGTTTACTG
1 AAAAGAGGCTTTGCCCCAGATTA-TC
* * * *
59313989 AAAAG-GGCTTTGTCCTAGTTTACC
1 AAAAGAGGCTTTGCCCCAGATTATC
*
59314013 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGATTATC
*
59314038 AAAA-AGGGCTTTGCCCCA-ATTATT
1 AAAAGA-GGCTTTGCCCCAGATTATC
59314062 AAAAGAGGCT
1 AAAAGAGGCT
59314072 AGGCCTCCAG
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
24 16 0.23
25 53 0.77
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGATTATC
Found at i:59316610 original size:25 final size:25
Alignment explanation
Indices: 59316578--59316647 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
59316568 GATTACCGAC
* * *
59316578 TGTAGCTCGTTAGAGCTTACTGATT
1 TGTAGCTCGTGAGAGCATACCGATT
59316603 TGTAGCTCGTGAGAGCATACCGATT
1 TGTAGCTCGTGAGAGCATACCGATT
**
59316628 CATAGCTCGT-ATGAGCATAC
1 TGTAGCTCGTGA-GAGCATAC
59316648 ATGTACAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
TGTAGCTCGTGAGAGCATACCGATT
Found at i:59321054 original size:27 final size:27
Alignment explanation
Indices: 59321012--59321199 Score: 189
Period size: 27 Copynumber: 7.0 Consensus size: 27
59321002 ACATAGGGGT
* * *
59321012 AAAACAATCATCTTACCATAAAAGGGA
1 AAAACAATCATTTTACCATATAAGGGC
* * *
59321039 AAAATAATTATTTTACCACATAAGGGC
1 AAAACAATCATTTTACCATATAAGGGC
* *
59321066 AAAATAGTCATTTTACC-TCATAAGGGC
1 AAAACAATCATTTTACCAT-ATAAGGGC
* * *
59321093 AAAACGATCATTTTACCTTATAAGAGC
1 AAAACAATCATTTTACCATATAAGGGC
* *
59321120 AAAACAATCATTTTACCTTATAAAGGC
1 AAAACAATCATTTTACCATATAAGGGC
* * * *
59321147 AAAACAGTCATTTTACCTTATAAGAGA
1 AAAACAATCATTTTACCATATAAGGGC
* *
59321174 AAAATAATCATTTTACCACATAAGGG
1 AAAACAATCATTTTACCATATAAGGG
59321200 GTCTAAGTAA
Statistics
Matches: 134, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
27 133 0.99
28 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAACAATCATTTTACCATATAAGGGC
Found at i:59321197 original size:81 final size:81
Alignment explanation
Indices: 59321012--59321197 Score: 219
Period size: 81 Copynumber: 2.3 Consensus size: 81
59321002 ACATAGGGGT
* * * * * * *
59321012 AAAACAATCATCTTACCATAAAAGGGAAAAATAATTATTTTACCACATAAGGGCAAAATAGTCAT
1 AAAACAATCATTTTACCATATAAGAGAAAAACAATCATTTTACCACATAAAGGCAAAACAGTCAT
* *
59321077 TTTACCTCATAAGGGC
66 TTTACCTCATAAGAGA
* * * **
59321093 AAAACGATCATTTTACCTTATAAGAGCAAAACAATCATTTTACCTTATAAAGGCAAAACAGTCAT
1 AAAACAATCATTTTACCATATAAGAGAAAAACAATCATTTTACCACATAAAGGCAAAACAGTCAT
*
59321158 TTTACCTTATAAGAGA
66 TTTACCTCATAAGAGA
* *
59321174 AAAATAATCATTTTACCACATAAG
1 AAAACAATCATTTTACCATATAAG
59321198 GGGTCTAAGT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (81 bp):
AAAACAATCATTTTACCATATAAGAGAAAAACAATCATTTTACCACATAAAGGCAAAACAGTCAT
TTTACCTCATAAGAGA
Found at i:59325150 original size:43 final size:43
Alignment explanation
Indices: 59325089--59325255 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 43
59325079 GTAGGATTTC
*
59325089 CGATATGTG-TTATCATGTAAGACCACATTTGGGACATTGGCAT
1 CGATATGTGATTA-CATGTAAGACCACGTTTGGGACATTGGCAT
* * * * *
59325132 CGATATGTGATTACATGTAAGACCATGTCTGAGATATTGGAAT
1 CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
* * * *
59325175 TG-TATTTGATT-CGTGTAAGACC-CTGTTTGGGACAGTGGCAT
1 CGATATGTGATTACATGTAAGACCAC-GTTTGGGACATTGGCAT
*
59325216 CGATATGTGATTGCATGTAAGACCACGTTTGGGACATTGG
1 CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGG
59325256 AATTGTAAAA
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
41 23 0.23
42 16 0.16
43 57 0.57
44 4 0.04
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
Found at i:59326795 original size:40 final size:39
Alignment explanation
Indices: 59326697--59326866 Score: 180
Period size: 40 Copynumber: 4.3 Consensus size: 39
59326687 TCCTCGTTCA
* * * *
59326697 AATGCATTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
**
59326736 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* *
59326775 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* * * *
59326815 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCAC
*
59326855 AAAAGCCTTCGG
1 -AATGCCTTCGG
59326867 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
Found at i:59326879 original size:80 final size:79
Alignment explanation
Indices: 59326703--59326919 Score: 197
Period size: 80 Copynumber: 2.7 Consensus size: 79
59326693 TTCAAATGCA
* * * * * *
59326703 TTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-ATTTAACA
1 TTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAACA
* *
59326767 ACTCGCACGAATGCC
65 ACTCGCACAAAAGCC
* **
59326782 TTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT-GT
1 TTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTTAAC
*
59326846 ATCTCGCACAAAAGCC
64 AACTCGCACAAAAGCC
** * * * *
59326862 TTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
59326920 CAGCATTCAA
Statistics
Matches: 113, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
78 1 0.01
79 32 0.28
80 67 0.59
81 13 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
TTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAACAA
CTCGCACAAAAGCC
Found at i:59326928 original size:41 final size:41
Alignment explanation
Indices: 59326851--59326928 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59326841 TTTGTATCTC
* * *
59326851 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59326892 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59326929 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59334082 original size:39 final size:40
Alignment explanation
Indices: 59334037--59334208 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
59334027 GCTCCTCGTT
* * *
59334037 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
59334077 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
59334116 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
59334156 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
*
59334196 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
59334209 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:59334221 original size:80 final size:79
Alignment explanation
Indices: 59334037--59334261 Score: 204
Period size: 80 Copynumber: 2.8 Consensus size: 79
59334027 GCTCCTCGTT
* * * * * * *
59334037 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAAAGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
59334101 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * *
59334116 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAAAGCCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** *
59334181 AATTT-GTATCTCGCA
64 AATTTAACAACTCGCA
** * * * *
59334196 CAAAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAAGCCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
59334260 GA
63 GA
59334262 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 67 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAAAGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAACAACTCGCA
Found at i:59334270 original size:41 final size:41
Alignment explanation
Indices: 59334193--59334270 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
59334183 TTTGTATCTC
* * *
59334193 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
59334234 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
59334271 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:59336979 original size:46 final size:47
Alignment explanation
Indices: 59336921--59337096 Score: 159
Period size: 46 Copynumber: 3.8 Consensus size: 47
59336911 TTACTTGTGT
*
59336921 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAA
*
59336967 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT-TG--ACATTGA-GACAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATG--AA
* * * * ** * *
59337015 GTGCTAGTATAAGACATGTCTGGGACATGCTTCGGCCTTGA-GATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATTATGAA
59337062 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
59337097 TACGAGAGGT
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
45 6 0.06
46 48 0.46
47 31 0.30
48 17 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAA
Found at i:59345303 original size:27 final size:26
Alignment explanation
Indices: 59345272--59345449 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
59345262 TAAATTGTAC
*
59345272 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
59345299 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
59345325 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
59345353 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
59345381 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
59345408 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
59345435 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59345450 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:59345387 original size:82 final size:81
Alignment explanation
Indices: 59345273--59345428 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
59345263 AAATTGTACA
* *
59345273 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
59345337 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
59345354 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
59345419 TGCGAGTTGA
65 TGCGAATTGA
59345429 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59345440 original size:82 final size:81
Alignment explanation
Indices: 59345269--59345449 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
59345259 GATTAAATTG
* * *
59345269 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59345334 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
59345350 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59345414 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59345432 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59345450 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59345460 original size:27 final size:27
Alignment explanation
Indices: 59345354--59345460 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
59345344 TGACCATGCG
* * * *
59345354 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
59345382 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
59345409 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
59345436 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
59345461 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:59348518 original size:25 final size:25
Alignment explanation
Indices: 59348484--59348537 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
59348474 GGGTTACGGG
59348484 TATGGGATGTTACAGTGCAAACATA
1 TATGGGATGTTACAGTGCAAACATA
59348509 TATGGGATGTTACAGTGCAAACATA
1 TATGGGATGTTACAGTGCAAACATA
59348534 TATG
1 TATG
59348538 AATGATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (25 bp):
TATGGGATGTTACAGTGCAAACATA
Found at i:59351648 original size:47 final size:49
Alignment explanation
Indices: 59351567--59351687 Score: 155
Period size: 47 Copynumber: 2.6 Consensus size: 49
59351557 GTGAGCTAGC
**
59351567 GTAAGA-CATGTCTAGGACAT-GCATC-AGCTATGAGAAGAT-AGTTAGT
1 GTAAGACCATGTCTAGGACATGGCATCGAGCTATGAG-AGATAAGCCAGT
*
59351613 GTAAGACCATGTCTGGGACATGGCATCGA-CT-TGAGAGATAAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGAGCTATGAGAGATAAGCCAGT
*
59351660 GTAAGACCGTGTCTAGGACATGGCATCG
1 GTAAGACCATGTCTAGGACATGGCATCG
59351688 GCACCTTACC
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 10 0.15
47 48 0.73
48 7 0.11
49 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTAGGACATGGCATCGAGCTATGAGAGATAAGCCAGT
Found at i:59363958 original size:22 final size:22
Alignment explanation
Indices: 59363932--59363976 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
59363922 ATCACATTTA
59363932 TACACTTTCACATCCATCACGT
1 TACACTTTCACATCCATCACGT
59363954 TACACTTTCACATCCATCACGT
1 TACACTTTCACATCCATCACGT
59363976 T
1 T
59363977 GGCCACTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.36, G:0.04, T:0.33
Consensus pattern (22 bp):
TACACTTTCACATCCATCACGT
Found at i:59364057 original size:47 final size:47
Alignment explanation
Indices: 59363954--59364672 Score: 1205
Period size: 47 Copynumber: 15.3 Consensus size: 47
59363944 TCCATCACGT
* * * * *
59363954 TACACTTTCACATCCATCACGTTGGCCACTCGGCCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGG-CCTTATCACATATA
59364002 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364049 TACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364096 TACACTTTCACATTCATCACAT-TGCCATTA-GCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364141 TACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364188 TACACTTTCACATTCATCACATC-GCCATT-CGCC-TATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
59364232 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364279 TACACTTTCACATTCATCGCATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364326 TACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
59364373 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
*
59364422 TACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364469 TACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364516 TACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATA
* *
59364565 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
59364612 TACACTTTTACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
59364659 TACACTTTCACATT
1 TACACTTTCACATT
59364673 TATTCAAATA
Statistics
Matches: 636, Mismatches: 26, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
44 34 0.05
45 46 0.07
46 22 0.03
47 416 0.65
48 28 0.04
49 90 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:59364478 original size:143 final size:141
Alignment explanation
Indices: 59363954--59364672 Score: 1205
Period size: 143 Copynumber: 5.1 Consensus size: 141
59363944 TCCATCACGT
* * * * *
59363954 TACACTTTCACATCCATCACGTTGGCCACTCGGCCCTTATCACATATATACACTTTCACATTCAT
1 TACACTTTCACATTCATCACATCGGCCATTAGG-CCTTATCACATATATACACTTTCACATTCAT
*
59364019 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGCC
65 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
59364084 TTATCACATATA
130 TTATCACATATA
*
59364096 TACACTTTCACATTCATCACAT-TGCCATTA-GCCTTATCACATATATACACTTTCACATTCATC
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
* *
59364159 ACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC-GCCATT-CGCC-
66 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
59364221 TATCACATATA
131 TATCACATATA
59364232 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
* *
59364297 GCATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
66 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
59364362 TATCACATATA
131 TATCACATATA
59364373 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCA
* *
59364438 TCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
64 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59364503 CTTATCACATATA
129 CTTATCACATATA
*
59364516 TACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCA
* * *
59364581 TCACATTGGCCATTCGGCCTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
64 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59364646 CTTATCACATATA
129 CTTATCACATATA
59364659 TACACTTTCACATT
1 TACACTTTCACATT
59364673 TATTCAAATA
Statistics
Matches: 548, Mismatches: 22, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
136 33 0.06
137 10 0.02
138 89 0.16
139 87 0.16
140 4 0.01
141 58 0.11
142 20 0.04
143 247 0.45
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATATA
Found at i:59375157 original size:50 final size:50
Alignment explanation
Indices: 59375055--59375239 Score: 210
Period size: 50 Copynumber: 3.7 Consensus size: 50
59375045 CTGGTACGCA
* * * *
59375055 TAGTATCCTGCACTTAGTACTACACATGCGACC-AATTATTCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAATTATTAGGTACACG
* * *
59375104 TAGTAGCCTACACTTAGTACTACACACGTGACCTAATTATTTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAATTATTAGGTACACG
** * * * * * *
59375154 TAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTAA-TTATTAGGTACACG
*
59375205 TAGTAGCCTACACTTAGTACTACACATGCGACCTA
1 TAGTAGCCTACACTTAGTACTACACACGCGACCTA
59375240 GCTACATATA
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
49 29 0.26
50 46 0.41
51 38 0.34
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGCGACCTAATTATTAGGTACACG
Found at i:59375228 original size:101 final size:99
Alignment explanation
Indices: 59375055--59375239 Score: 255
Period size: 101 Copynumber: 1.8 Consensus size: 99
59375045 CTGGTACGCA
* * *
59375055 TAGTATCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTCGGTACACATAGTAGCCTACACTTA
*
59375120 GTACTACACACGTGACCTAATTATTTGATACACG
66 GTACTACACACGCGACCTAATTATTTGATACACG
* * * *
59375154 TAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTA-TCAGGTACGCATAGTAGCCTACAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATTC-GGTACACATAGTAGCCTACAC
*
59375218 TTAGTACTACACATGCGACCTA
63 TTAGTACTACACACGCGACCTA
59375240 GCTACATATA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
99 27 0.36
100 5 0.07
101 42 0.57
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATTCGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAATTATTTGATACACG
Found at i:59376079 original size:30 final size:30
Alignment explanation
Indices: 59376045--59376102 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
59376035 CCTTAACTCA
59376045 AACTTTTGCAAAATTACAATTTTGCCCCCG
1 AACTTTTGCAAAATTACAATTTTGCCCCCG
* * *
59376075 AACTTTTGCATATTTACACTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
59376103 TAGGCTCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.38
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCCG
Found at i:59382145 original size:46 final size:46
Alignment explanation
Indices: 59382054--59382166 Score: 133
Period size: 46 Copynumber: 2.4 Consensus size: 46
59382044 TAAGCTAGCC
*
59382054 TAAGACATGTCTGGGACATGCATCGACTACGAGATGATAGTCAGTG
1 TAAGACATGTCTGGGACATGCATCGACTACGAGATGATAGCCAGTG
*
59382100 TAAGACAATGTCTGGG-CATGGCATCGACT-TGAGAT-ATGAGCCAGTG
1 TAAGAC-ATGTCTGGGACAT-GCATCGACTACGAGATGAT-AGCCAGTG
* *
59382146 TAAGATCGTGTCTAGGACATG
1 TAAGA-CATGTCTGGGACATG
59382167 GTATTAGCAC
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
45 2 0.03
46 34 0.59
47 22 0.38
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGACTACGAGATGATAGCCAGTG
Found at i:59389503 original size:43 final size:42
Alignment explanation
Indices: 59389453--59389589 Score: 152
Period size: 43 Copynumber: 3.2 Consensus size: 42
59389443 AAATGTGTTC
59389453 TCATGTAAGAATACATCTGGGACATTGGCATCGATATGTGAT
1 TCATGTAAGAATACATCTGGGACATTGGCATCGATATGTGAT
* * ** *
59389495 TACGTGTAAGACTATGTCTGGGACATTGGCATCG-TATTTGAT
1 T-CATGTAAGAATACATCTGGGACATTGGCATCGATATGTGAT
** * *
59389537 TCATGTAAG-ACCCTATCCGGGACAGTGGCATCGATATGTGAT
1 TCATGTAAGAATAC-ATCTGGGACATTGGCATCGATATGTGAT
59389579 TGCATGTAAGA
1 T-CATGTAAGA
59389590 CCATGTCTGA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
41 23 0.30
42 17 0.22
43 36 0.47
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TCATGTAAGAATACATCTGGGACATTGGCATCGATATGTGAT
Found at i:59389559 original size:41 final size:43
Alignment explanation
Indices: 59389471--59389593 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
59389461 GAATACATCT
* * * *
59389471 GGGACATTGGCATCGATATGTGATTACGTGTAAGACTATGTCT
1 GGGACATTGGCATCGATATGTGATTACATGTAAGACCATATCC
* *
59389514 GGGACATTGGCATCG-TATTTGATT-CATGTAAGACCCTATCC
1 GGGACATTGGCATCGATATGTGATTACATGTAAGACCATATCC
* *
59389555 GGGACAGTGGCATCGATATGTGATTGCATGTAAGACCAT
1 GGGACATTGGCATCGATATGTGATTACATGTAAGACCAT
59389594 GTCTGAAATG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 26 0.38
42 16 0.23
43 27 0.39
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
GGGACATTGGCATCGATATGTGATTACATGTAAGACCATATCC
Found at i:59389609 original size:43 final size:41
Alignment explanation
Indices: 59389477--59389610 Score: 112
Period size: 43 Copynumber: 3.2 Consensus size: 41
59389467 ATCTGGGACA
* * *
59389477 TTGGCATCGATATGTGATTACGTGTAAGACTATGTCTGGGACA-
1 TTGGCATCGATATGTGATT-CATGTAAGACCATGTCT--GAAAG
* * * * *
59389520 TTGGCATCG-TATTTGATTCATGTAAGACCCTATCCGGGACAG
1 TTGGCATCGATATGTGATTCATGTAAGACCATGT-C-TGAAAG
59389562 -TGGCATCGATATGTGATTGCATGTAAGACCATGTCTGAAATG
1 TTGGCATCGATATGTGATT-CATGTAAGACCATGTCTGAAA-G
59389604 TTGGCAT
1 TTGGCAT
59389611 TGTGCGATAT
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
41 26 0.36
42 19 0.26
43 28 0.38
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (41 bp):
TTGGCATCGATATGTGATTCATGTAAGACCATGTCTGAAAG
Found at i:59389814 original size:18 final size:19
Alignment explanation
Indices: 59389780--59389817 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
59389770 GGTACAAATT
59389780 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
59389799 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
59389817 A
1 A
59389818 GTACATTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:59395941 original size:25 final size:25
Alignment explanation
Indices: 59395866--59395941 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
59395856 GTGTATATAT
59395866 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
59395891 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
59395913 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
59395938 GTGA
1 GTGA
59395942 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:59395982 original size:22 final size:22
Alignment explanation
Indices: 59395957--59396033 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
59395947 AACATGCATA
59395957 TATGTGATAAGGCCGAATGGCC
1 TATGTGATAAGGCCGAATGGCC
* * *
59395979 TATGTGATGAATG-TGAACAT-GCATA
1 TATGTGAT-AAGGCCG-A-ATGGC--C
59396004 TATGTGATAAGGCCGAATGGCC
1 TATGTGATAAGGCCGAATGGCC
59396026 TATGTGAT
1 TATGTGAT
59396034 GAATGTGAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 8 0.19
25 9 0.21
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.29
Consensus pattern (22 bp):
TATGTGATAAGGCCGAATGGCC
Found at i:59396129 original size:25 final size:25
Alignment explanation
Indices: 59396054--59396129 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
59396044 ATGCATATAT
59396054 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
59396079 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
59396101 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
59396126 GTGA
1 GTGA
59396130 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:59396173 original size:47 final size:47
Alignment explanation
Indices: 59395839--59396172 Score: 524
Period size: 47 Copynumber: 7.1 Consensus size: 47
59395829 TTAGGATTTT
** *
59395839 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
59395886 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
59395933 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
59395980 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
59396027 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
59396074 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
59396121 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
59396168 ATGTG
1 ATGTG
59396173 GAATATATAT
Statistics
Matches: 265, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 265 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:59396525 original size:37 final size:37
Alignment explanation
Indices: 59396380--59396524 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
59396370 GGAAATATAT
* *
59396380 TCCGGGTGAGACACGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59396417 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
59396454 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
59396491 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
59396525 TCATCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:59398377 original size:21 final size:21
Alignment explanation
Indices: 59398353--59398403 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
59398343 ACCAAGTTAA
59398353 AAGAGTTGAAACCACATCTGC
1 AAGAGTTGAAACCACATCTGC
* *
59398374 AAGAATTGAAAGCACATCTGC
1 AAGAGTTGAAACCACATCTGC
*
59398395 AAAAGTTGA
1 AAGAGTTGA
59398404 CAAATAAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (21 bp):
AAGAGTTGAAACCACATCTGC
Found at i:59421802 original size:25 final size:26
Alignment explanation
Indices: 59421761--59421834 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
59421751 TTACTGATTA
*
59421761 CAACTCGTGAGAGCTTACCGATTCT-
1 CAACTCATGAGAGCTTACCGATTCTG
* *
59421786 CAGCTCAT-ATGAGCTTACTGATT-TG
1 CAACTCATGA-GAGCTTACCGATTCTG
*
59421811 CAACTCATGAGAGCATACCGATTC
1 CAACTCATGAGAGCTTACCGATTC
59421835 ATAGTTTGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (26 bp):
CAACTCATGAGAGCTTACCGATTCTG
Found at i:59441753 original size:46 final size:45
Alignment explanation
Indices: 59441703--59441875 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
59441693 TGGTTGAGCA
59441703 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
59441749 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
59441794 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
59441842 ACCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59441876 GGGGTGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:59441859 original size:93 final size:93
Alignment explanation
Indices: 59441700--59441870 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
59441690 GGATGGTTGA
* *
59441700 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
59441765 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
59441793 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
59441858 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59441871 ACTTAGGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59444784 original size:41 final size:40
Alignment explanation
Indices: 59444728--59444809 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 40
59444718 ATTCGATTGT
59444728 TAAAGTTCAGTTGTATTACAGGATATCTCTAAAGGGGGTC
1 TAAAGTTCAGTTGTATTACAGGATATCTCTAAAGGGGGTC
59444768 TAAAGTCTCAGTTGTATTACAGGATATCTCTAAAGGGGGTC
1 TAAAGT-TCAGTTGTATTACAGGATATCTCTAAAGGGGGTC
59444809 T
1 T
59444810 GTAGACTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 6 0.15
41 35 0.85
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (40 bp):
TAAAGTTCAGTTGTATTACAGGATATCTCTAAAGGGGGTC
Found at i:59445545 original size:27 final size:27
Alignment explanation
Indices: 59445515--59445571 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
59445505 AGTACGGTAA
*
59445515 TGGTGACTATGTCACATTCACTGTTAC
1 TGGTGACTATGCCACATTCACTGTTAC
* * * *
59445542 TGGTGGCTTTGCCACATTTACTGTTTC
1 TGGTGACTATGCCACATTCACTGTTAC
59445569 TGG
1 TGG
59445572 CAGCTATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (27 bp):
TGGTGACTATGCCACATTCACTGTTAC
Found at i:59445758 original size:28 final size:28
Alignment explanation
Indices: 59445722--59445782 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
59445712 ATTACATTGT
* * *
59445722 ACTGATACTGTATTGAGCTTAGGCCCAC
1 ACTGTTACTGTATAGAGCTAAGGCCCAC
* *
59445750 ACTGTTACTGTATAGGGCTAAGGCCCAG
1 ACTGTTACTGTATAGAGCTAAGGCCCAC
59445778 ACTGT
1 ACTGT
59445783 GCTGATACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (28 bp):
ACTGTTACTGTATAGAGCTAAGGCCCAC
Found at i:59452683 original size:13 final size:13
Alignment explanation
Indices: 59452667--59452694 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59452657 AAAAAGTCTT
59452667 TGTATCTCTCCCA
1 TGTATCTCTCCCA
59452680 TGTATCTCTCCCA
1 TGTATCTCTCCCA
59452693 TG
1 TG
59452695 CATCGTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.36, G:0.11, T:0.39
Consensus pattern (13 bp):
TGTATCTCTCCCA
Found at i:59456070 original size:40 final size:40
Alignment explanation
Indices: 59456009--59456230 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
59455999 TATTCGGATG
* * * *
59456009 ATAACTGGGCTAAGTCCCGAAGGCAATTGTGCTAATGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACT
* * *
59456049 A-ATTCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACT
*
59456089 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACT
*
59456129 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACT
* *
59456169 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCG-AGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTA-CT
* *
59456209 ATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
59456231 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 16, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
39 19 0.12
40 141 0.88
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACT
Found at i:59456142 original size:80 final size:79
Alignment explanation
Indices: 59456009--59456230 Score: 304
Period size: 80 Copynumber: 2.8 Consensus size: 79
59455999 TATTCGGATG
* * * * * *
59456009 ATAACTGGGCTAAGTCCCGAAGGCAATTGTGCTAATGACTA-ATTCCGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC-GGCTAAGTCCCGAAGGC
*
59456073 ATTTGTGCGAGTTACT
64 ATTTGTGCAAGTTACT
*
59456089 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCA
59456154 TTTGTGCAAGTTACT
65 TTTGTGCAAGTTACT
* *
59456169 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
59456231 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
79 17 0.13
80 110 0.86
81 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCAAGTTACT
Found at i:59461902 original size:23 final size:22
Alignment explanation
Indices: 59461860--59461902 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
59461850 ATAATCCATA
* *
59461860 CCAAATCATACCGAATCATAAG
1 CCAAATCATACCAAAACATAAG
59461882 CCAAAGTCATACCAAAACATA
1 CCAAA-TCATACCAAAACATA
59461903 TGTTTCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.49, C:0.28, G:0.07, T:0.16
Consensus pattern (22 bp):
CCAAATCATACCAAAACATAAG
Found at i:59462705 original size:42 final size:42
Alignment explanation
Indices: 59462612--59462729 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 42
59462602 CAATACCAAC
59462612 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATAGATGCCACT
1 GTCCCAGACAG-GGTCTTACATG-AATCAAATATAGATGCCACT
* * *
59462655 ATCCCAGACAGGGTCTTACATGAAGTCAAATA-CGATGCTGA-T
1 GTCCCAGACAGGGTCTTACATGAA-TCAAATATAGATGC-CACT
* *
59462697 GTCCCAGACATGGTCTTACATGAAATCACATAT
1 GTCCCAGACAGGGTCTTACATG-AATCAAATAT
59462730 CAAAATCCTA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 34 0.53
43 29 0.45
44 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGAATCAAATATAGATGCCACT
Found at i:59463718 original size:18 final size:18
Alignment explanation
Indices: 59463695--59463731 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59463685 TATAAAGACA
59463695 TAGCAATTCAACACTTAT
1 TAGCAATTCAACACTTAT
*
59463713 TAGCAATTCAGCACTTAT
1 TAGCAATTCAACACTTAT
59463731 T
1 T
59463732 CATGTAGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (18 bp):
TAGCAATTCAACACTTAT
Found at i:59471406 original size:18 final size:18
Alignment explanation
Indices: 59471359--59471409 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
59471349 GGCTATAGAG
59471359 GAAAAGAAGAAGAAGAGGA
1 GAAAAGAAGAAG-AGAGGA
* *
59471378 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGGA
59471395 GAAAAGAAGAAGAGA
1 GAAAAGAAGAAGAGA
59471410 AAAGAATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGGA
Found at i:59471415 original size:18 final size:18
Alignment explanation
Indices: 59471359--59471415 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
59471349 GGCTATAGAG
*
59471359 GAAAAGAAGAAGA-AGAG
1 GAAAAGAAGAAGAGAGAA
* *
59471376 GAAATAGATGAAGAGAGGA
1 GAAA-AGAAGAAGAGAGAA
*
59471395 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
59471413 GAA
1 GAA
59471416 TTGTTAGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 4 0.12
18 22 0.69
19 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:59472523 original size:19 final size:18
Alignment explanation
Indices: 59472490--59472529 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
59472480 ATACAGTATT
59472490 ATTTTTCTAATAATAATA
1 ATTTTTCTAATAATAATA
* *
59472508 ATTTTATCTCATAATACTA
1 ATTTT-TCTAATAATAATA
59472527 ATT
1 ATT
59472530 AAAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTTCTAATAATAATA
Found at i:59480287 original size:47 final size:47
Alignment explanation
Indices: 59480221--59480789 Score: 960
Period size: 47 Copynumber: 12.1 Consensus size: 47
59480211 GAAATGATAG
59480221 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59480268 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAAATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT--ATATGTGA
*
59480317 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59480364 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59480411 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59480458 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
59480505 TAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59480552 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59480599 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59480646 TAAGGCCT-ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59480692 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
59480739 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59480786 TAAG
1 TAAG
59480790 TCCCGAAGGG
Statistics
Matches: 496, Mismatches: 23, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 46 0.09
47 403 0.81
49 47 0.09
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:59480964 original size:37 final size:37
Alignment explanation
Indices: 59480908--59480986 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
59480898 CCGAGCTCTA
* *
59480908 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
59480945 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59480982 AAGAC
1 AAGAC
59480987 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59482888 original size:43 final size:43
Alignment explanation
Indices: 59482840--59482942 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
59482830 TTGGTTTTCA
59482840 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
59482883 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
59482926 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
59482943 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:59482959 original size:29 final size:29
Alignment explanation
Indices: 59482924--59482997 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
59482914 GTTGTGAGAT
* *
59482924 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
59482953 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
59482982 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59482998 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:59483433 original size:40 final size:40
Alignment explanation
Indices: 59483389--59483585 Score: 313
Period size: 40 Copynumber: 4.9 Consensus size: 40
59483379 GAGTTACTAA
59483389 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
59483429 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
59483469 ATCCGGGCTAAGTCCCGAAAAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
59483509 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
59483549 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
59483586 CATGTATTCG
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:59483447 original size:80 final size:79
Alignment explanation
Indices: 59483348--59483585 Score: 316
Period size: 80 Copynumber: 3.0 Consensus size: 79
59483338 TAAGTGACCA
* * * * *
59483348 TATCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGC
1 TATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGC
59483412 ATTCATGCTAGTGATG
64 ATTCATGCTAGTGATG
* * * *
59483428 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAAAGCA
1 TATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
59483493 TTCATGCTAGTGATG
65 TTCATGCTAGTGATG
* *
59483508 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCA
1 TATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCA
* *
59483573 ATCATGCTGGTGA
65 TTCATGCTAGTGA
59483586 CATGTATTCG
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 125 0.91
81 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (79 bp):
TATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAT
TCATGCTAGTGATG
Found at i:59486223 original size:47 final size:47
Alignment explanation
Indices: 59486157--59486678 Score: 866
Period size: 47 Copynumber: 11.1 Consensus size: 47
59486147 GAAATGATAG
59486157 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59486204 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
59486253 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59486300 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59486347 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
59486394 TAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59486441 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
59486488 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59486535 TAAGGCCT-ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59486581 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
59486628 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
59486675 TAAG
1 TAAG
59486679 TCCCGAAGGG
Statistics
Matches: 451, Mismatches: 21, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 45 0.10
47 359 0.80
49 47 0.10
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:59486853 original size:37 final size:37
Alignment explanation
Indices: 59486797--59486875 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
59486787 CCGAGCTCTA
* *
59486797 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
59486834 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59486871 AAGAC
1 AAGAC
59486876 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59488734 original size:56 final size:56
Alignment explanation
Indices: 59488648--59488767 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
59488638 ACAAGGGATG
59488648 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
59488704 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
59488760 ATGGGCAA
1 ATGGGCAA
59488768 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:59489981 original size:40 final size:39
Alignment explanation
Indices: 59489897--59490081 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
59489887 TCGAATGAAG
* * *
59489897 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
59489936 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
59489977 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
*
59490016 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
* *
59490055 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
59490082 AACTAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:59490033 original size:79 final size:81
Alignment explanation
Indices: 59489897--59490081 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
59489887 TCGAATGAAG
* *
59489897 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
59489961 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
59489976 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
59490038 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
59490056 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
59490082 AACTAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:59490103 original size:79 final size:79
Alignment explanation
Indices: 59489950--59490114 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
59489940 GGACTAAGAT
* **
59489950 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59490015 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
59490029 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACTAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59490092 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59490108 CCGAAGG
1 CCGAAGG
59490115 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59495961 original size:55 final size:55
Alignment explanation
Indices: 59495877--59495994 Score: 227
Period size: 55 Copynumber: 2.1 Consensus size: 55
59495867 ACAAGGGATG
59495877 ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
59495932 ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
59495987 ATGGGCAA
1 ATGGGCAA
59495995 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (55 bp):
ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:59497207 original size:40 final size:39
Alignment explanation
Indices: 59497123--59497307 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
59497113 TCGAATGAAG
* * *
59497123 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
59497162 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
*
59497203 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
*
59497242 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
* *
59497281 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
59497308 AACTAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 36 0.29
40 79 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:59497259 original size:79 final size:81
Alignment explanation
Indices: 59497123--59497307 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
59497113 TCGAATGAAG
* *
59497123 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
59497187 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
59497202 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
59497264 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
59497282 ACCGGGCTATGACCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
59497308 AACTAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:59497329 original size:79 final size:79
Alignment explanation
Indices: 59497176--59497340 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
59497166 GGACTAAGAT
* **
59497176 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59497241 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
59497255 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACTAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59497318 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59497334 CCGAAGG
1 CCGAAGG
59497341 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59499633 original size:18 final size:17
Alignment explanation
Indices: 59499583--59499634 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
59499573 CGGCTATAGA
59499583 GAAAAAGAAGAAGAAGAG
1 GAAAAAGAAGAAG-AGAG
* *
59499601 GAAATAGATGAAGAGAG
1 GAAAAAGAAGAAGAGAG
59499618 GAGAAAAGAAGAAGAGA
1 GA-AAAAGAAGAAGAGA
59499635 AAAGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 6 0.21
18 23 0.79
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.04
Consensus pattern (17 bp):
GAAAAAGAAGAAGAGAG
Found at i:59499640 original size:18 final size:18
Alignment explanation
Indices: 59499585--59499640 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
59499575 GCTATAGAGA
*
59499585 AAAAGAAGAAGA-AGAGG
1 AAAAGAAGAAGAGAGAAG
* *
59499602 AAATAGATGAAGAGAGGAG
1 AAA-AGAAGAAGAGAGAAG
*
59499621 AAAAGAAGAAGAGAAAAG
1 AAAAGAAGAAGAGAGAAG
59499639 AA
1 AA
59499641 TTGTTAGAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 3 0.10
18 22 0.71
19 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (18 bp):
AAAAGAAGAAGAGAGAAG
Found at i:59500636 original size:18 final size:18
Alignment explanation
Indices: 59500613--59500660 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
59500603 CTTTCCTATC
*
59500613 TAATAATAATTATAAT-AA
1 TAATAAAAATT-TAATAAA
*
59500631 TAATAAAAATTTTATAAA
1 TAATAAAAATTTAATAAA
59500649 TAATAAAAATTT
1 TAATAAAAATTT
59500661 CAAATATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATAAAAATTTAATAAA
Found at i:59502270 original size:17 final size:18
Alignment explanation
Indices: 59502248--59502281 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59502238 CACATTGAAG
59502248 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
59502265 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
59502282 CCTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:59504082 original size:46 final size:46
Alignment explanation
Indices: 59504032--59504207 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
59504022 TGGTTGAGCA
59504032 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59504078 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
59504123 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59504171 CCCGAGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59504208 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59504188 original size:93 final size:93
Alignment explanation
Indices: 59504029--59504200 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
59504019 GGATGGTTGA
* *
59504029 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59504094 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
59504122 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGA-TCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGA-ACTCGTTGAG
59504186 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
59504201 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 74 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59507534 original size:46 final size:46
Alignment explanation
Indices: 59507484--59507657 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
59507474 GTTGAGCATT
59507484 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * *
59507530 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* * *
59507577 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* *
59507623 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59507658 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:59507647 original size:93 final size:93
Alignment explanation
Indices: 59507479--59507650 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
59507469 GGATGGTTGA
* * *
59507479 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59507544 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
59507572 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59507637 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59507651 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59511784 original size:39 final size:40
Alignment explanation
Indices: 59511739--59511826 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
59511729 CGGGGTTTAG
* * *
59511739 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
59511778 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
59511818 CCGGATATA
1 CCGGATATA
59511827 GTCGCTAGCA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
39 15 0.38
40 24 0.62
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:59511897 original size:41 final size:40
Alignment explanation
Indices: 59511762--59511906 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
59511752 CTCGCACAAG
* * * * *
59511762 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
59511802 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* ** * *
59511842 GCCTT-TGGATCTTAGTTCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
59511883 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
59511907 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.65
41 25 0.28
42 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:59516413 original size:18 final size:18
Alignment explanation
Indices: 59516389--59516436 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
59516379 GTGTTTTATC
* *
59516389 AAAAACCTTGTTTTCATT
1 AAAAACCTTGTTTACAAT
* *
59516407 GAAAACCCTTCTTTACAAT
1 -AAAAACCTTGTTTACAAT
59516426 AAAAACCTTGT
1 AAAAACCTTGT
59516437 GTAAAATCCC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAAACCTTGTTTACAAT
Found at i:59516607 original size:39 final size:39
Alignment explanation
Indices: 59516553--59516633 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
59516543 CAGAAGCTTT
59516553 ATTTAAAACAGATGATCTATGAAAACACGTCACTTAAAA
1 ATTTAAAACAGATGATCTATGAAAACACGTCACTTAAAA
** *
59516592 ATTTAAAACAGATGATCTATGAAAACTTGTCATTTAAAA
1 ATTTAAAACAGATGATCTATGAAAACACGTCACTTAAAA
59516631 ATT
1 ATT
59516634 AAGTTGCGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (39 bp):
ATTTAAAACAGATGATCTATGAAAACACGTCACTTAAAA
Found at i:59521691 original size:27 final size:27
Alignment explanation
Indices: 59521633--59521723 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
59521623 ACCCACACTT
* * *
59521633 ATTCATTTGGCCTATTTAGGCCCAATCTC
1 ATTCATATGGCCTA--TCGGCCCAATCAC
59521662 ATTCATATGGCCTATCGGCCCAATCAC
1 ATTCATATGGCCTATCGGCCCAATCAC
* ** *
59521689 ATTGATATGGCCCGTCAAGCCCAATCAC
1 ATTCATATGGCCTATC-GGCCCAATCAC
59521717 ATTCATA
1 ATTCATA
59521724 GTCATGTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 24 0.45
28 16 0.30
29 13 0.25
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (27 bp):
ATTCATATGGCCTATCGGCCCAATCAC
Found at i:59527766 original size:34 final size:35
Alignment explanation
Indices: 59527690--59527766 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
59527680 GATTGCATTT
59527690 CTGTTACT-ATTACTGTAATGGGCTAAGGCCCATA
1 CTGTTACTGATTACTGTAATGGGCTAAGGCCCATA
* *
59527724 CTGCTACTGA-TACTGTATTGGGCTAAGGCCC-TAA
1 CTGTTACTGATTACTGTAATGGGCTAAGGCCCAT-A
59527758 CTGTTACTG
1 CTGTTACTG
59527767 GATTGTTACT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 1 0.03
34 36 0.95
35 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (35 bp):
CTGTTACTGATTACTGTAATGGGCTAAGGCCCATA
Found at i:59538618 original size:47 final size:47
Alignment explanation
Indices: 59538541--59539089 Score: 837
Period size: 47 Copynumber: 11.6 Consensus size: 47
59538531 TTAAACCCAT
59538541 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59538590 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
59538637 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59538684 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
**
59538733 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59538780 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
59538827 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59538874 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
59538923 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** * *
59538970 ATGTGAAAGTGTATATGCGTGAGAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
59539017 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
59539064 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
59539090 TCCCGAAGGG
Statistics
Matches: 465, Mismatches: 31, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
47 366 0.79
49 99 0.21
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:59538801 original size:143 final size:141
Alignment explanation
Indices: 59538541--59539089 Score: 837
Period size: 143 Copynumber: 3.9 Consensus size: 141
59538531 TTAAACCCAT
59538541 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
59538606 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
59538671 GCCGATGTGATGA
129 GCCGATGTGATGA
*
59538684 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
**
59538749 GCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
59538814 GCCGATGTGATGA
129 GCCGATGTGATGA
* *
59538827 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
* ** *
59538892 ATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATG
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
59538957 GCCGATGTGATGA
129 GCCGATGTGATGA
** * *
59538970 ATGTGAAAGTGTATATGCGTGAGAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
59539035 GTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59539090 TCCCGAAGGG
Statistics
Matches: 375, Mismatches: 29, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
141 95 0.25
143 280 0.75
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (141 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
CGATGTGATGA
Found at i:59538884 original size:190 final size:190
Alignment explanation
Indices: 59538541--59539089 Score: 922
Period size: 190 Copynumber: 2.9 Consensus size: 190
59538531 TTAAACCCAT
**
59538541 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
59538606 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
59538671 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
129 GCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
59538733 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
59538798 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
59538863 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
131 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* **
59538923 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGC
1 ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
59538988 GTGAGAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
* * *
59539053 CAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
131 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
59539090 TCCCGAAGGG
Statistics
Matches: 341, Mismatches: 16, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 319 0.94
192 11 0.03
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (190 bp):
ATGTGAAAGTGTATATGCGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGC
CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:59539264 original size:37 final size:37
Alignment explanation
Indices: 59539210--59539285 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
59539200 GAGTTCTAAG
* * *
59539210 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
59539247 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
59539284 GA
1 GA
59539286 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:59549755 original size:93 final size:93
Alignment explanation
Indices: 59549643--59549814 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
59549633 CGACCATAAG
***
59549643 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59549708 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
59549736 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59549801 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59549815 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59549811 original size:46 final size:46
Alignment explanation
Indices: 59549636--59549811 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59549626 TGTAACCCGA
* *** *
59549636 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
59549682 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
59549732 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
59549775 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59549812 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:59555263 original size:93 final size:93
Alignment explanation
Indices: 59555151--59555322 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
59555141 CGACCATAAG
***
59555151 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59555216 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
59555244 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59555309 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59555323 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59555319 original size:46 final size:46
Alignment explanation
Indices: 59555144--59555319 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59555134 TGTAACCCGA
* *** *
59555144 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
59555190 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
59555240 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
59555283 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
59555320 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:59560767 original size:93 final size:93
Alignment explanation
Indices: 59560655--59560826 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
59560645 CGCCCATAAG
***
59560655 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
59560720 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* **
59560748 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
59560813 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59560827 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59560770 original size:47 final size:49
Alignment explanation
Indices: 59560648--59560826 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 49
59560638 TGTAACCCGC
* *
59560648 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G--TGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
*
59560694 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * *
59560744 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
59560787 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
59560827 TCAACCATCC
Statistics
Matches: 113, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.56
47 29 0.26
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:59563925 original size:46 final size:45
Alignment explanation
Indices: 59563858--59564032 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
59563848 TGTAACCCGC
* *
59563858 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* * *
59563904 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * *
59563954 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
* *
59563997 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
59564033 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:59563978 original size:93 final size:93
Alignment explanation
Indices: 59563865--59564036 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
59563855 CGCCCATAAG
* * *
59563865 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
59563930 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
59563958 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
59564023 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59564037 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59567464 original size:27 final size:27
Alignment explanation
Indices: 59567434--59567699 Score: 170
Period size: 27 Copynumber: 10.0 Consensus size: 27
59567424 ACATGCTAGA
* *
59567434 AAATGTAAGCCTTTGTAGAAATCTATG
1 AAATGGAAGCCTTTGTGGAAATCTATG
* * **
59567461 AAATGAAAGTCTTTGTGGCGTATC--TG
1 AAATGGAAGCCTTTGTGG-AAATCTATG
* *
59567487 AAATGGAAGCCTTTATGGAAATATATG
1 AAATGGAAGCCTTTGTGGAAATCTATG
*
59567514 AAATGGAAGCCTTTGTGGCAATCTATG
1 AAATGGAAGCCTTTGTGGAAATCTATG
* ** * *
59567541 AAATGGAAACCTTTACAGCATATC--TG
1 AAATGGAAGCCTTT-GTGGAAATCTATG
** **
59567567 AAATGGAAGTATTTGTGGCGTATC--TG
1 AAATGGAAGCCTTTGTGG-AAATCTATG
* *
59567593 AAATGGAAGCCTTTGTGGCAATCTGTG
1 AAATGGAAGCCTTTGTGGAAATCTATG
* *
59567620 AAATAGAAGCCTTTGTGGCATATCTA--
1 AAATGGAAGCCTTTGTGG-AAATCTATG
** * **
59567646 AAATGGAAGAATTTTTGTCAATCTATG
1 AAATGGAAGCCTTTGTGGAAATCTATG
* **
59567673 AAATTGAAGCCTTTGTGGTGATCTATG
1 AAATGGAAGCCTTTGTGGAAATCTATG
59567700 GAAAGGATTG
Statistics
Matches: 180, Mismatches: 49, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
25 11 0.06
26 65 0.36
27 93 0.52
28 11 0.06
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGAAATCTATG
Found at i:59567514 original size:53 final size:53
Alignment explanation
Indices: 59567434--59567654 Score: 205
Period size: 53 Copynumber: 4.2 Consensus size: 53
59567424 ACATGCTAGA
* * * *
59567434 AAATGTAAGCCTTTGTAGAAATCTATGAAATGAAAGTCTTTGTGGCGTATCTG
1 AAATGGAAGCCTTTATAGAAATATATGAAATGAAAGCCTTTGTGGCGTATCTG
* * *
59567487 AAATGGAAGCCTTTATGGAAATATATGAAATGGAAGCCTTTGTGGC-AATCTATG
1 AAATGGAAGCCTTTATAGAAATATATGAAATGAAAGCCTTTGTGGCGTATC--TG
* * * * * **
59567541 AAATGGAAACCTTTACAG-CATATCTGAAATGGAAGTATTTGTGGCGTATCTG
1 AAATGGAAGCCTTTATAGAAATATATGAAATGAAAGCCTTTGTGGCGTATCTG
* * * * * * *
59567593 AAATGGAAGCCTTTGTGGCAATCTGTGAAAT-AGAAGCCTTTGTGGCATATCTA
1 AAATGGAAGCCTTTATAGAAATATATGAAATGA-AAGCCTTTGTGGCGTATCTG
59567646 AAATGGAAG
1 AAATGGAAG
59567655 AATTTTTGTC
Statistics
Matches: 136, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
52 19 0.14
53 97 0.71
54 20 0.15
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (53 bp):
AAATGGAAGCCTTTATAGAAATATATGAAATGAAAGCCTTTGTGGCGTATCTG
Found at i:59567622 original size:79 final size:79
Alignment explanation
Indices: 59567434--59567699 Score: 230
Period size: 80 Copynumber: 3.3 Consensus size: 79
59567424 ACATGCTAGA
* * * * *** * * **
59567434 AAATGTAAGCCTTTGTAGAAATCTATGAAAT-GAAAGTCTTTGTGGCGTATCTGAAATGGAAGCC
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAA-CCTTTACAGCATATCTAAAATGGAAGAA
* * *
59567498 TTTATGGAAATATATG
65 TTTGTGGCAAT-CATG
* * *
59567514 AAATGGAAGCCTTTGTGGCAATCTATGAAATGGAAACCTTTACAGCATATCTGAAATGGAAGTAT
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTTACAGCATATCTAAAATGGAAGAAT
*
59567579 TTGTGGCGTATC-TG
66 TTGTGGC-AATCATG
* * ***
59567593 AAATGGAAGCCTTTGTGGCAATCTGTGAAATAGAAGCCTTTGTGGCATATCTAAAATGGAAGAAT
1 AAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTTACAGCATATCTAAAATGGAAGAAT
* *
59567658 TTTTGTCAATCTATG
66 TTGTGGCAATC-ATG
* **
59567673 AAATTGAAGCCTTTGTGGTGATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
59567700 GAAAGGATTG
Statistics
Matches: 153, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
78 3 0.02
79 64 0.42
80 80 0.52
81 6 0.04
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (79 bp):
AAATGGAAGCCTTTGTGGCAATCTATGAAATAGAAACCTTTACAGCATATCTAAAATGGAAGAAT
TTGTGGCAATCATG
Found at i:59567668 original size:53 final size:53
Alignment explanation
Indices: 59567453--59567690 Score: 180
Period size: 53 Copynumber: 4.5 Consensus size: 53
59567443 CCTTTGTAGA
* * * ** * *
59567453 AATCTATGAAAT-GAAAGTCTTTGTGGCGTATCTGAAATGGAAGCCTTTATGGA
1 AATCTATGAAATAG-AAGCCTTTGTGGCATATCTAAAATGGAAGAATTTGTGGC
* * * ***
59567506 AATATATGAAATGGAAGCCTTTGTGGCA-ATCTATGAAATGGAA-ACCTTTACAGC
1 AATCTATGAAATAGAAGCCTTTGTGGCATATCTA--AAATGGAAGA-ATTTGTGGC
* ** * * **
59567560 ATATC--TGAAATGGAAGTATTTGTGGCGTATCTGAAATGGAAGCCTTTGTGGC
1 A-ATCTATGAAATAGAAGCCTTTGTGGCATATCTAAAATGGAAGAATTTGTGGC
* * *
59567612 AATCTGTGAAATAGAAGCCTTTGTGGCATATCTAAAATGGAAGAATTTTTGTC
1 AATCTATGAAATAGAAGCCTTTGTGGCATATCTAAAATGGAAGAATTTGTGGC
*
59567665 AATCTATGAAATTGAAGCCTTTGTGG
1 AATCTATGAAATAGAAGCCTTTGTGG
59567691 TGATCTATGG
Statistics
Matches: 148, Mismatches: 28, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
51 3 0.02
52 19 0.13
53 104 0.70
54 20 0.14
55 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (53 bp):
AATCTATGAAATAGAAGCCTTTGTGGCATATCTAAAATGGAAGAATTTGTGGC
Found at i:59567675 original size:106 final size:106
Alignment explanation
Indices: 59567453--59567690 Score: 288
Period size: 106 Copynumber: 2.2 Consensus size: 106
59567443 CCTTTGTAGA
*
59567453 AATCTATGAAATGAAAGTCTTTGTGGCGTATCTGAAATGGAAGCCTTTATGGAAATATATGAAAT
1 AATCTATGAAATGGAAGTCTTTGTGGCGTATCTGAAATGGAAGCCTTTATGGAAATATATGAAAT
* *
59567518 GGAAGCCTTTGTGGCAATCTATGAAATGGAAACCTTTACAGC
66 AGAAGCCTTTGTGGCAATCTA-GAAATGGAAACATTTACAGC
* * * * *
59567560 ATATC--TGAAATGGAAGTATTTGTGGCGTATCTGAAATGGAAGCCTTTGTGGCAATCTGTGAAA
1 A-ATCTATGAAATGGAAGTCTTTGTGGCGTATCTGAAATGGAAGCCTTTATGGAAATATATGAAA
**
59567623 TAGAAGCCTTTGTGGCATATCTA-AAATGGAAGA-ATTT-TTGTC
65 TAGAAGCCTTTGTGGCA-ATCTAGAAATGGAA-ACATTTACAG-C
* *
59567665 AATCTATGAAATTGAAGCCTTTGTGG
1 AATCTATGAAATGGAAGTCTTTGTGG
59567691 TGATCTATGG
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
104 4 0.04
105 13 0.12
106 86 0.77
107 6 0.05
108 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (106 bp):
AATCTATGAAATGGAAGTCTTTGTGGCGTATCTGAAATGGAAGCCTTTATGGAAATATATGAAAT
AGAAGCCTTTGTGGCAATCTAGAAATGGAAACATTTACAGC
Found at i:59574647 original size:23 final size:23
Alignment explanation
Indices: 59574621--59574751 Score: 81
Period size: 25 Copynumber: 5.4 Consensus size: 23
59574611 AAATTGTACA
59574621 GCACTAAGTGCGATTGACTATGT
1 GCACTAAGTGCGATTGACTATGT
* *
59574644 GCACTAAGTGCGAAATGAATATGAT
1 GCACTAAGTGCG-ATTGACTATG-T
* *
59574669 GCACTAATTG-GAATTGAC-ATGC
1 GCACTAAGTGCG-ATTGACTATGT
*
59574691 GCACTAGTGTGCGAGTTGA-TATGT
1 GCACTA-AGTGCGA-TTGACTATGT
* *
59574715 AGCA-TAAGTGTGCGATTTGATTACGT
1 -GCACTAA--GTGCGA-TTGACTATGT
59574741 AGCACTAAGTG
1 -GCACTAAGTG
59574752 TGCGAGTTGA
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
22 6 0.07
23 18 0.21
24 24 0.28
25 26 0.31
26 8 0.09
27 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (23 bp):
GCACTAAGTGCGATTGACTATGT
Found at i:59574754 original size:27 final size:27
Alignment explanation
Indices: 59574691--59574782 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 27
59574681 ATTGACATGC
59574691 GCACT-AGTGTGCGAGTTGA-TATGTA
1 GCACTAAGTGTGCGAGTTGATTATGTA
* *
59574716 GCA-TAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGTTGATTATGTA
*
59574742 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTATGTA
*
59574769 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
59574783 GACTCAATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.02
25 16 0.28
26 8 0.14
27 33 0.57
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTATGTA
Found at i:59582756 original size:27 final size:27
Alignment explanation
Indices: 59582725--59582902 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
59582715 TAAATTGTAC
59582725 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
59582752 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59582778 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
59582806 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
59582834 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
59582861 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
59582888 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59582903 GACTCAATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:59582893 original size:82 final size:81
Alignment explanation
Indices: 59582722--59582902 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
59582712 GATTAAATTG
* *
59582722 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
59582787 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
59582803 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
59582867 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
59582885 TATAGCACTAAGTGTGCG
1 TACAGCACTAAGTGTGCG
59582903 GACTCAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59582913 original size:27 final size:27
Alignment explanation
Indices: 59582807--59582913 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
59582797 TGACCATGCG
* * * *
59582807 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
59582835 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
59582862 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
59582889 GCACTAAGTGTGCG-GACTCAATATA
1 GCACTAAGTGTGCGAG-CTCAATATA
59582914 CATTCGTGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 53 0.77
28 15 0.22
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:59585313 original size:48 final size:48
Alignment explanation
Indices: 59585261--59585405 Score: 290
Period size: 48 Copynumber: 3.0 Consensus size: 48
59585251 GGATATTTTT
59585261 ATTAGTAACAACAAAACTAGAGGTCCTTAGTTTATCTTTGTATAATTG
1 ATTAGTAACAACAAAACTAGAGGTCCTTAGTTTATCTTTGTATAATTG
59585309 ATTAGTAACAACAAAACTAGAGGTCCTTAGTTTATCTTTGTATAATTG
1 ATTAGTAACAACAAAACTAGAGGTCCTTAGTTTATCTTTGTATAATTG
59585357 ATTAGTAACAACAAAACTAGAGGTCCTTAGTTTATCTTTGTATAATTG
1 ATTAGTAACAACAAAACTAGAGGTCCTTAGTTTATCTTTGTATAATTG
59585405 A
1 A
59585406 ACTGGGCTCC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 97 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (48 bp):
ATTAGTAACAACAAAACTAGAGGTCCTTAGTTTATCTTTGTATAATTG
Found at i:59587027 original size:36 final size:34
Alignment explanation
Indices: 59586961--59587028 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 34
59586951 TCATGTCAAC
*
59586961 AAAAATAAAAAAAATTAATTTTTTTGAAAAATAA
1 AAAAATAAAAAAAATTAATTCTTTTGAAAAATAA
*
59586995 AAAAATAAAAGGAATATTAAATTCTTTT-AAAAAT
1 AAAAATAAAA--AAAATT-AATTCTTTTGAAAAAT
59587029 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 10 0.34
36 11 0.38
37 8 0.28
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (34 bp):
AAAAATAAAAAAAATTAATTCTTTTGAAAAATAA
Found at i:59587044 original size:18 final size:18
Alignment explanation
Indices: 59587011--59587083 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
59587001 AAAAGGAATA
*
59587011 TTAAATTCTTTTAAAAATT
1 TTAAATT-TTTAAAAAATT
* *
59587030 TTAATTTTTTAAAAAAAT
1 TTAAATTTTTAAAAAATT
*
59587048 TTAAATTTTAAAAAAATGT
1 TTAAATTTTTAAAAAAT-T
*
59587067 TATAAATTTGTAAAAAA
1 T-TAAATTTTTAAAAAA
59587084 AATATTATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
18 23 0.52
19 8 0.18
20 13 0.30
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (18 bp):
TTAAATTTTTAAAAAATT
Found at i:59587045 original size:19 final size:18
Alignment explanation
Indices: 59587023--59587084 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 18
59587013 AAATTCTTTT
59587023 AAAAATTTTAATTTTTTAA
1 AAAAATTTTAA-TTTTTAA
*
59587042 AAAAA-TTTAAATTTTAA
1 AAAAATTTTAATTTTTAA
*
59587059 AAAAATGTTATAAATTTGTAA
1 AAAAAT-TT-T-AATTTTTAA
59587080 AAAAA
1 AAAAA
59587085 ATATTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.31
18 5 0.14
19 7 0.19
20 1 0.03
21 12 0.33
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAAATTTTAATTTTTAA
Found at i:59587063 original size:20 final size:21
Alignment explanation
Indices: 59587040--59587091 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
59587030 TTAATTTTTT
59587040 AAAAAAATT-TAAATTT-TAA
1 AAAAAAATTATAAATTTGTAA
**
59587059 AAAAATGTTATAAATTTGTAA
1 AAAAAAATTATAAATTTGTAA
59587080 AAAAAATATTAT
1 AAAAAA-ATTAT
59587092 TATAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.27
20 7 0.27
21 8 0.31
22 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAAAAATTATAAATTTGTAA
Found at i:59587085 original size:22 final size:20
Alignment explanation
Indices: 59587023--59587091 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 20
59587013 AAATTCTTTT
* *
59587023 AAAAAT-TT-TAATTTTTTA
1 AAAAATATTATAAATTTTAA
59587041 AAAAA-ATT-TAAATTTTAA
1 AAAAATATTATAAATTTTAA
*
59587059 AAAAATGTTATAAATTTGTAAA
1 AAAAATATTATAAATTT-T-AA
59587081 AAAAATATTAT
1 AAAAATATTAT
59587092 TATAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
18 20 0.48
19 2 0.05
20 7 0.17
21 1 0.02
22 12 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
AAAAATATTATAAATTTTAA
Found at i:59587734 original size:17 final size:16
Alignment explanation
Indices: 59587703--59587741 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
59587693 TTTAAATATT
59587703 CTTTTT-AAATTTTTA
1 CTTTTTAAAATTTTTA
59587718 CTTTTTAAAAGTTTTTA
1 CTTTTTAAAA-TTTTTA
*
59587735 ATTTTTA
1 CTTTTTA
59587742 TTTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 3 0.14
17 12 0.57
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (16 bp):
CTTTTTAAAATTTTTA
Found at i:59587824 original size:18 final size:18
Alignment explanation
Indices: 59587803--59587841 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59587793 TTCTTTTAGA
59587803 ATATTTATTT-ATTTTTAT
1 ATATTTATTTAATTTTT-T
*
59587821 ATATTTCTTTAATTTTTT
1 ATATTTATTTAATTTTTT
59587839 ATA
1 ATA
59587842 ATTAGGATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATATTTATTTAATTTTTT
Found at i:59592489 original size:35 final size:35
Alignment explanation
Indices: 59592450--59592521 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
59592440 TTCATTTTTC
59592450 TTATCCTTTAGATTGCACAAATTCGAAA-GACTCTA
1 TTATCCTTTAGATTGCACAAATTC-AAAGGACTCTA
*
59592485 TTATCCTTTAGGTTGCACAAATTCAAAGGACTCTA
1 TTATCCTTTAGATTGCACAAATTCAAAGGACTCTA
59592520 TT
1 TT
59592522 GCAAAAGTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 3 0.09
35 32 0.91
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (35 bp):
TTATCCTTTAGATTGCACAAATTCAAAGGACTCTA
Done.