Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 20 of 141
Found at i:6109167 original size:16 final size:16
Alignment explanation
Indices: 6109130--6109181 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
6109120 GATAAATAGC
*
6109130 ATAAACTAAATAACTAAA
1 ATAAA-TAAACAACT-AA
6109148 ATAAATAAACAACTAA
1 ATAAATAAACAACTAA
*
6109164 ATAAACAAACAACTAA
1 ATAAATAAACAACTAA
6109180 AT
1 AT
6109182 TGATTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 19 0.59
17 8 0.25
18 5 0.16
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAATAAACAACTAA
Found at i:6110467 original size:9 final size:9
Alignment explanation
Indices: 6110444--6110484 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
6110434 ATTAAAATTA
*
6110444 TTTAAAAAG
1 TTTAAAAAC
*
6110453 TATAAAAAC
1 TTTAAAAAC
6110462 TTTAAAAAC
1 TTTAAAAAC
6110471 TTTAAAAAC
1 TTTAAAAAC
6110480 TTTAA
1 TTTAA
6110485 TATATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (9 bp):
TTTAAAAAC
Found at i:6123510 original size:17 final size:18
Alignment explanation
Indices: 6123479--6123514 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
6123469 ATCGAAAAAG
6123479 TGAAAAAATAGAAAAATA
1 TGAAAAAATAGAAAAATA
*
6123497 TGAAAAAA-ATAAAAATA
1 TGAAAAAATAGAAAAATA
6123514 T
1 T
6123515 ATTCTGTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
TGAAAAAATAGAAAAATA
Found at i:6127642 original size:40 final size:40
Alignment explanation
Indices: 6127611--6127940 Score: 502
Period size: 40 Copynumber: 8.3 Consensus size: 40
6127601 GGACTAAGAT
* * * *
6127611 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
6127651 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6127691 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6127731 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6127771 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6127811 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
6127851 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
6127891 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
6127930 CCGAAGGCATT
1 CCGAAGGCATT
6127941 TGAACGAGGA
Statistics
Matches: 275, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 34 0.12
40 238 0.87
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:6127695 original size:80 final size:80
Alignment explanation
Indices: 6127558--6127940 Score: 504
Period size: 80 Copynumber: 4.8 Consensus size: 80
6127548 TTGAATGCTG
* * * * * * **
6127558 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
6127621 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * *
6127637 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
6127702 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
*
6127718 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
6127783 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
*
6127798 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
6127863 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * *
6127878 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
6127941 TGAACGAGGA
Statistics
Matches: 276, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
79 35 0.13
80 231 0.84
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:6127774 original size:120 final size:120
Alignment explanation
Indices: 6127558--6127940 Score: 504
Period size: 120 Copynumber: 3.2 Consensus size: 120
6127548 TTGAATGCTG
* * * * * **
6127558 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * * * *
6127621 TTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
6127678 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * *
6127743 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
*
6127798 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
6127863 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAA
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
* *
6127917 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6127941 TGAACGAGGA
Statistics
Matches: 234, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
119 36 0.15
120 189 0.81
121 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
Found at i:6134129 original size:40 final size:40
Alignment explanation
Indices: 6134085--6134308 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
6134075 AAGTGAATAT
* * * * **
6134085 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
6134125 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
6134165 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
6134205 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
6134245 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
6134284 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
6134309 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:6134183 original size:80 final size:80
Alignment explanation
Indices: 6134046--6134308 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
6134036 TTGAATGCTG
* * * * *
6134046 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
6134108 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
6134126 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
6134191 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
6134206 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
6134270 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
6134285 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6134309 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:6134260 original size:120 final size:120
Alignment explanation
Indices: 6134046--6134308 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
6134036 TTGAATGCTG
* * *
6134046 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
6134110 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
6134166 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
6134228 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
6134285 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6134309 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:6140584 original size:42 final size:42
Alignment explanation
Indices: 6140523--6140762 Score: 209
Period size: 42 Copynumber: 5.7 Consensus size: 42
6140513 TTAGCCGATA
** * * * *
6140523 ATGCACTTACCTGCTAGTATATTTGTTTTGGTTTATCTGATG
1 ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCTGATG
* * *
6140565 ATGCACTTATGTGTCAGTATAATTGTTTCGGTTTATCCGATG
1 ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCTGATG
* *** *
6140607 ATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATG
1 ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCTGATG
*
6140649 ATGCACTT-TGTGCCAGCATAATTGCTTCGGTTTAT-TCGATG
1 ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCT-GATG
* * * *
6140690 ATGCA-TTACGCGTGCCAGTATAATTGCTTTGGTTTGTCCGAT-
1 ATGCACTTA--TGTGCCAGTATAATTGCTTCGGTTTATCTGATG
* ** *
6140732 ATACACCTCGTGTGCCATTATAATTGCTTCG
1 ATGCA-CTTATGTGCCAGTATAATTGCTTCG
6140763 ACTTGCCCAA
Statistics
Matches: 159, Mismatches: 32, Indels: 14
0.78 0.16 0.07
Matches are distributed among these distances:
40 3 0.02
41 30 0.19
42 99 0.62
43 26 0.16
44 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (42 bp):
ATGCACTTATGTGCCAGTATAATTGCTTCGGTTTATCTGATG
Found at i:6140694 original size:83 final size:84
Alignment explanation
Indices: 6140557--6140718 Score: 247
Period size: 83 Copynumber: 1.9 Consensus size: 84
6140547 GTTTTGGTTT
* * * *
6140557 ATCTGATGATGCACTTATGTGTCAGTATAATTGTTTCGGTTTATCCGATGATGCACTTA-CGTGC
1 ATCTAATGATGCACTTATGTGCCAGCATAATTGCTTCGGTTTATCCGATGATGCA-TTACCGTGC
6140621 CAGTATAATTGCTTCGGAAC
65 CAGTATAATTGCTTCGGAAC
*
6140641 ATCTAATGATGCACTT-TGTGCCAGCATAATTGCTTCGGTTTATTCGATGATGCATTACGCGTGC
1 ATCTAATGATGCACTTATGTGCCAGCATAATTGCTTCGGTTTATCCGATGATGCATTAC-CGTGC
6140705 CAGTATAATTGCTT
65 CAGTATAATTGCTT
6140719 TGGTTTGTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
82 3 0.04
83 34 0.48
84 34 0.48
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (84 bp):
ATCTAATGATGCACTTATGTGCCAGCATAATTGCTTCGGTTTATCCGATGATGCATTACCGTGCC
AGTATAATTGCTTCGGAAC
Found at i:6140709 original size:84 final size:84
Alignment explanation
Indices: 6140512--6140718 Score: 247
Period size: 84 Copynumber: 2.5 Consensus size: 84
6140502 TATACTTTGA
* * * * * * * *** *
6140512 TTTAGCCGATAATGCACTTACCTGCTAGTATATTTGTTTTGGTTTATCTGATGATGCACTTATGT
1 TTTATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATGATGCACTTATGT
* * *
6140577 GTCAGTATAATTGTTTCGG
66 GCCAGCATAATTGCTTCGG
6140596 TTTATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATGATGCACTT-TGT
1 TTTATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATGATGCACTTATGT
6140660 GCCAGCATAATTGCTTCGG
66 GCCAGCATAATTGCTTCGG
*
6140679 TTTATTCGATGATGCA-TTACGCGTGCCAGTATAATTGCTT
1 TTTATCCGATGATGCACTTA--CGTGCCAGTATAATTGCTT
6140719 TGGTTTGTCC
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
82 3 0.03
83 34 0.32
84 69 0.65
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (84 bp):
TTTATCCGATGATGCACTTACGTGCCAGTATAATTGCTTCGGAACATCTAATGATGCACTTATGT
GCCAGCATAATTGCTTCGG
Found at i:6143403 original size:35 final size:33
Alignment explanation
Indices: 6143340--6143429 Score: 91
Period size: 35 Copynumber: 2.8 Consensus size: 33
6143330 TTTTTTTTAC
* *
6143340 TTATAAA-CTTTTAAATTTAAAAA-A--ATAAT
1 TTATAAATATTTTAAATATAAAAATAGCATAAT
*
6143369 TTTTAAATACTTTTATAA-ATTAAAAATAGCATAAT
1 TTATAAATA-TTTTA-AATA-TAAAAATAGCATAAT
6143404 TTATAAATATTTTAAATATAAAAATA
1 TTATAAATATTTTAAATATAAAAATA
6143430 ATTATTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
29 6 0.12
31 5 0.10
32 8 0.16
33 11 0.22
34 6 0.12
35 13 0.27
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (33 bp):
TTATAAATATTTTAAATATAAAAATAGCATAAT
Found at i:6162730 original size:21 final size:21
Alignment explanation
Indices: 6162704--6162745 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6162694 GTCTAATTTT
6162704 TGTCTTTCTATCAGTAGATCG
1 TGTCTTTCTATCAGTAGATCG
6162725 TGTCTTTCTATCAGTAGATCG
1 TGTCTTTCTATCAGTAGATCG
6162746 GGTAACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TGTCTTTCTATCAGTAGATCG
Found at i:6167218 original size:184 final size:183
Alignment explanation
Indices: 6166909--6167285 Score: 619
Period size: 184 Copynumber: 2.1 Consensus size: 183
6166899 AAGTGTGAAC
* *
6166909 TTTTAATGAGAATTCAGCCAAAGGAATTAAATGGGCTCTTTGGGTGAATTCTTACATGATGATCC
1 TTTTAATGGGAATTCAGCCAAAGGAATTAAATGGGCTCTTTGGGTAAATTCTTACATGATGATCC
* * * *
6166974 ACCTATTAAAATAAAATTGAACCCGTAGTTTAAATATTTTACAATTTGGGCCATTTTGATAATTT
66 ACCTATTAAAATAAAATTGAACCCATAGTTTAAATAGTTTACAATTTGGGCCACTTTGATAAATT
* *
6167039 GACCTGATATTTAATTAAATTGCTTTCCAAACTTCAGGATGGGCTTGTAGACA
131 GACCTGATATTTAATTAAATTACTTTCCAAACTTCAAGATGGGCTTGTAGACA
*
6167092 TTTTAATGGGAATTCAGGCAAAGGAATTAAATGGGCTCTTTGGGCTAAATTCTTACATGATGATC
1 TTTTAATGGGAATTCAGCCAAAGGAATTAAATGGGCTCTTTGGG-TAAATTCTTACATGATGATC
* *
6167157 CACCTATTAAAATAAAATTGAACCTATAGTTTAAATAGTTTACAATTTGGGTCACTTTGATAAAT
65 CACCTATTAAAATAAAATTGAACCCATAGTTTAAATAGTTTACAATTTGGGCCACTTTGATAAAT
* *
6167222 TGGCCTGATATTTAATTAAATTACTTTTCAAACTTCAAGATGGGCTTGTAGACA
130 TGACCTGATATTTAATTAAATTACTTTCCAAACTTCAAGATGGGCTTGTAGACA
*
6167276 TCTTAATGGG
1 TTTTAATGGG
6167286 TCATTTTTTC
Statistics
Matches: 179, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
183 42 0.23
184 137 0.77
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (183 bp):
TTTTAATGGGAATTCAGCCAAAGGAATTAAATGGGCTCTTTGGGTAAATTCTTACATGATGATCC
ACCTATTAAAATAAAATTGAACCCATAGTTTAAATAGTTTACAATTTGGGCCACTTTGATAAATT
GACCTGATATTTAATTAAATTACTTTCCAAACTTCAAGATGGGCTTGTAGACA
Found at i:6169100 original size:44 final size:45
Alignment explanation
Indices: 6169027--6169124 Score: 182
Period size: 44 Copynumber: 2.2 Consensus size: 45
6169017 CCATACAATC
6169027 ATAAAACCATCAACAATTATATCATTTAAATAAACTAAACATATT
1 ATAAAACCATCAACAATTATATCATTTAAATAAACTAAACATATT
6169072 ATAAAACCATCAAC-ATTATATCATTTAAATAAACTAAACATATT
1 ATAAAACCATCAACAATTATATCATTTAAATAAACTAAACATATT
6169116 AT-AAACCAT
1 ATAAAACCAT
6169125 TCATTCATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 7 0.13
44 32 0.60
45 14 0.26
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (45 bp):
ATAAAACCATCAACAATTATATCATTTAAATAAACTAAACATATT
Found at i:6170300 original size:33 final size:33
Alignment explanation
Indices: 6170253--6170318 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
6170243 CCAGACGACG
*
6170253 GCTAATGGATGCATAATTGAAATATGCATGCTC
1 GCTAATGGACGCATAATTGAAATATGCATGCTC
*
6170286 GCTAATGGACGCATAATTGAAATGTGCATGCTC
1 GCTAATGGACGCATAATTGAAATATGCATGCTC
6170319 AATTTAGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (33 bp):
GCTAATGGACGCATAATTGAAATATGCATGCTC
Found at i:6173266 original size:23 final size:27
Alignment explanation
Indices: 6173227--6173288 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 27
6173217 ACTGAAGAAT
*
6173227 GGTAAGCTC-TATCGAGCTGA-A-A-C
1 GGTAAGCTCATATAGAGCTGATATATC
*
6173250 GGTAAGCTCATA-AGAGCTTATATATC
1 GGTAAGCTCATATAGAGCTGATATATC
6173276 GGTAAGCTCATAT
1 GGTAAGCTCATAT
6173289 GAGTTGTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 15 0.47
24 3 0.09
25 1 0.03
26 13 0.41
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (27 bp):
GGTAAGCTCATATAGAGCTGATATATC
Found at i:6174062 original size:43 final size:42
Alignment explanation
Indices: 6173925--6174072 Score: 154
Period size: 43 Copynumber: 3.5 Consensus size: 42
6173915 TATCCTAGAT
* * *
6173925 ATGGTCTTACATGTTATCACATATCGATGCCACT-TCCCAGAC
1 ATGGTCTTACACGTAATCACATA-CGATGCCAATGTCCCAGAC
* * * * * *
6173967 AGGGTCTTAAACGAAATCATATAACGATGCTAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACAT-ACGATGCCAATGTCCCAGAC
*
6174010 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAC-ATACGATGCCAATGTCCCAGAC
* *
6174053 ATGGTCTTACATGTTATCAC
1 ATGGTCTTACACGTAATCAC
6174073 CTCTCAGTAA
Statistics
Matches: 85, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
42 24 0.28
43 59 0.69
44 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCACATACGATGCCAATGTCCCAGAC
Found at i:6178159 original size:26 final size:27
Alignment explanation
Indices: 6178130--6178180 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
6178120 TTCTTTATAT
* *
6178130 ATATATTTTTTATAATTTTT-TAAAAC
1 ATATATATTTTAGAATTTTTATAAAAC
*
6178156 ATATATATTTTGGAATTTTTATAAA
1 ATATATATTTTAGAATTTTTATAAA
6178181 TATTTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
ATATATATTTTAGAATTTTTATAAAAC
Found at i:6178193 original size:19 final size:18
Alignment explanation
Indices: 6178169--6178232 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
6178159 TATATTTTGG
6178169 AATTTTTATAAATATTTTT
1 AATTTTTA-AAATATTTTT
* *
6178188 AATTTTAAAAATTATTTTG
1 AATTTTTAAAA-TATTTTT
* *
6178207 AATTTTGAAAATCTTTTT
1 AATTTTTAAAATATTTTT
6178225 GAATTTTT
1 -AATTTTT
6178233 TTTTTTTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 8 0.22
19 29 0.78
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (18 bp):
AATTTTTAAAATATTTTT
Found at i:6178809 original size:27 final size:27
Alignment explanation
Indices: 6178779--6178834 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
6178769 ATTATTATAT
*
6178779 TTTTATAAAAAATATGAATTTTAGAAA
1 TTTTATAAAAAATATGAATTTTAAAAA
* * *
6178806 TTTTATAAATATTTTGAATTTTAAAAA
1 TTTTATAAAAAATATGAATTTTAAAAA
6178833 TT
1 TT
6178835 AATTTGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
TTTTATAAAAAATATGAATTTTAAAAA
Found at i:6178827 original size:18 final size:19
Alignment explanation
Indices: 6178804--6178846 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6178794 GAATTTTAGA
* *
6178804 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTAATTTG
6178822 AATTTTAAAAATTAATTTG
1 AATTTTAAAAATTAATTTG
6178841 AATTTT
1 AATTTT
6178847 TTTTATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTTTAAAAATTAATTTG
Found at i:6185777 original size:13 final size:14
Alignment explanation
Indices: 6185749--6185783 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
6185739 TATCTTTAAT
6185749 ATTTAAAAATACTA
1 ATTTAAAAATACTA
6185763 ATTTAAAAATA-TA
1 ATTTAAAAATACTA
6185776 ATGTTAAA
1 AT-TTAAA
6185784 TATTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (14 bp):
ATTTAAAAATACTA
Found at i:6193951 original size:22 final size:21
Alignment explanation
Indices: 6193894--6193995 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 21
6193884 GTTTATCATC
*
6193894 TTGCGCTTTGGTGCTTACCGTT
1 TTGCACTTTGGTGCTTA-CGTT
* *
6193916 TCGCACTTCGGTGCTTATCGTT
1 TTGCACTTTGGTGCTTA-CGTT
* * *
6193938 TTGGACTTTAGTGCCTACTGTT
1 TTGCACTTTGGTGCTTAC-GTT
*
6193960 TTGCACTTTGGTACTTA-GTGAT
1 TTGCACTTTGGTGCTTACGT--T
*
6193982 TTGCACTTCGGTGC
1 TTGCACTTTGGTGC
6193996 CTACTGTTCT
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.03
21 1 0.02
22 59 0.95
ACGTcount: A:0.11, C:0.22, G:0.25, T:0.43
Consensus pattern (21 bp):
TTGCACTTTGGTGCTTACGTT
Found at i:6199873 original size:35 final size:35
Alignment explanation
Indices: 6199832--6199902 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
6199822 TCAAAGACCA
6199832 ATGAATTTAAAACAAATAGTATAAAATAAAAAAAT
1 ATGAATTTAAAACAAATAGTATAAAATAAAAAAAT
6199867 ATGAATTTAAAACAAATAGTATAAAATAAAAAAAT
1 ATGAATTTAAAACAAATAGTATAAAATAAAAAAAT
6199902 A
1 A
6199903 AGGCAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (35 bp):
ATGAATTTAAAACAAATAGTATAAAATAAAAAAAT
Found at i:6200821 original size:23 final size:22
Alignment explanation
Indices: 6200778--6200835 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
6200768 AAAGGGTATC
* *
6200778 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
6200799 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
6200822 TGCATATCATATCT
1 TACAAATCATATCT
6200836 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:6200829 original size:17 final size:17
Alignment explanation
Indices: 6200807--6200858 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 17
6200797 ATTACAAAAT
6200807 CATATCTTCTAAGATTG
1 CATATCTTCTAAGATTG
6200824 CATATCATATCTAAGATTG
1 CATATC-T-TCTAAGATTG
6200843 CATATCCTTC-AAGATT
1 CATAT-CTTCTAAGATT
6200859 ATGTTTCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.38
18 3 0.09
19 16 0.50
20 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (17 bp):
CATATCTTCTAAGATTG
Found at i:6201664 original size:132 final size:132
Alignment explanation
Indices: 6201298--6201685 Score: 521
Period size: 131 Copynumber: 2.9 Consensus size: 132
6201288 GCAACTTCAG
* * * *** * ** *
6201298 GGAGATAAGG-CTGGTGCCTTAAATTTGCTTCCCTCCTACCTCAAGAAGATACGCCTCGCCGTCT
1 GGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCT
* * *
6201362 TTAATCTGCTCCACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCTACTACTGCT
65 TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCT
*
6201427 CAG
130 CAA
* * *
6201430 GGAGATAGGACTGGTGGCTTAAATCCGCTT-CCTACTA-TTTCGGAAAGATAAGATTCGTCGTCT
1 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTT-GGGAAGATAAGATTCGTCGTCT
* * * * *
6201493 TCGATCTACTTCACTACTACTTAGGGAGACAGGACCTACAATCTTCAACCTACTCCACTACTGCT
65 TTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCT
*
6201558 TAA
130 CAA
6201561 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTT
1 GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTT
*
6201626 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAACCTTCAACCTACTCCACTAC
66 TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTAC
6201686 AACCTCAGAG
Statistics
Matches: 220, Mismatches: 32, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
130 1 0.00
131 111 0.50
132 106 0.48
133 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (132 bp):
GGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGTCGTCTT
TGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCTC
AA
Found at i:6201808 original size:89 final size:89
Alignment explanation
Indices: 6201677--6201948 Score: 305
Period size: 89 Copynumber: 3.1 Consensus size: 89
6201667 CTTCAACCTA
* * * * * * * * *
6201677 CTCCACTACAACCTCAGAGAGGCAAGGGTAGTGTTTTTGATCTACTTCACTGCTAGTACAAGAAG
1 CTCCGCTACAAACTCAGAGAGGCAAGGCTGGTGTCTTTGATCTACTTCGCTGCCAATACAGGAAG
* *
6201742 ACAAGATCTGCTAT-TTTCGGTC-G
66 ACAAAATCTGCTATCTTT-AGTCTG
* * * * *
6201765 ACTCCGCTGCAAACTCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTACCAATACAGGAG
1 -CTCCGCTACAAACTCAGAGAGGCAAGGCTGGTGTCTTTGATCTACTTCGCTGCCAATACAGGAA
* *
6201830 GACAAAATTTGCTATCTTTATTCTG
65 GACAAAATCTGCTATCTTTAGTCTG
* *
6201855 CTCCGCTACAAACTCAGGGAGGCAAGGCTGATGTCTTTGATCTACTTCGCTGCCAATACAGGAAG
1 CTCCGCTACAAACTCAGAGAGGCAAGGCTGGTGTCTTTGATCTACTTCGCTGCCAATACAGGAAG
* * *
6201920 ACAATATATGTTATCTTTAGTCTG
66 ACAAAATCTGCTATCTTTAGTCTG
6201944 CTCCG
1 CTCCG
6201949 ATGCAACTTT
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
89 148 0.97
90 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (89 bp):
CTCCGCTACAAACTCAGAGAGGCAAGGCTGGTGTCTTTGATCTACTTCGCTGCCAATACAGGAAG
ACAAAATCTGCTATCTTTAGTCTG
Found at i:6202120 original size:44 final size:44
Alignment explanation
Indices: 6202036--6202149 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 44
6202026 ATTTTAATCC
* * * *
6202036 ACTCCACTGAAACTTTAGGGAGATAGGATTAGTAGCTTCAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAACCT
* * **
6202080 GA-TTCATTGCAACTTCAGGGAGATAAGATT-GATATTTTCAACCT
1 -ACTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAACCT
6202124 ACTCCACTGCAACTTCAGGGAGATAA
1 ACTCCACTGCAACTTCAGGGAGATAA
6202150 AGTTTGATGT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 2 0.04
44 54 0.95
45 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAACCT
Found at i:6202309 original size:42 final size:43
Alignment explanation
Indices: 6202254--6202374 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 43
6202244 GATTTGCTAT
* * * *
6202254 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGA-CTTCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTCA
* * * **
6202296 CTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TATTCA
*
6202340 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
6202375 AATTTGCCAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 31 0.48
44 33 0.52
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATATTCA
Found at i:6202544 original size:18 final size:19
Alignment explanation
Indices: 6202507--6202545 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6202497 CTTCAGGGGG
**
6202507 ATAAGACTTGTTTTCTTCA
1 ATAAGACTTGTTAACTTCA
6202526 ATAAGACTTG-TAACTTCA
1 ATAAGACTTGTTAACTTCA
6202544 AT
1 AT
6202546 CCGCTCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
ATAAGACTTGTTAACTTCA
Found at i:6202631 original size:44 final size:43
Alignment explanation
Indices: 6202526--6202978 Score: 313
Period size: 44 Copynumber: 10.2 Consensus size: 43
6202516 GTTTTCTTCA
* * * **
6202526 ATAAGACTTGTAACTTCAATCCGCTCCACTGCAACTTCAAAGAG
1 ATAAGA-TTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
6202570 ATAGGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGAGAG
1 ATAAGATTT-TAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* ** * * *
6202614 ATAGGATTATTGGCTTTAATCTACTCCATTGCAACTTTAGGGAG
1 ATAAGATT-TTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
6202658 ATAAGA-TTCACCATTTTTAGTCTG-TCCCACTGCAACATCAGGGGG
1 ATAAGATTTTA--A-CTTTAATCTGCT-CCACTGCAACTTCAGGGAG
* * * * * *
6202703 ATAAGACTTGCTT-TCTTCAGTCTACTCCACTACAAATTCAGGGAG
1 ATAAGA-TT--TTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
6202748 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTTAGGGAG
1 ATAAGA-TTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
6202792 ATAGGATTATTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAG
1 ATAAGATT-TTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
6202836 ATAAGATTTTCCATCTTCAGTCTGCTCAACTGCAACTTCAAGGGA-
1 ATAAGATTTT--AACTTTAATCTGCTCCACTGCAACTTC-AGGGAG
* * * * * *
6202881 ATAAGACTTACTT-TCTTCAGTCTGCTCCACTGCAATTTTAGGCAG
1 ATAAGA-TT--TTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* *
6202926 ATAAGACTTGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAG
1 ATAAGA-TTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
6202970 ATAGGATTT
1 ATAAGATTT
6202979 GTGGTTTCAC
Statistics
Matches: 323, Mismatches: 65, Indels: 43
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.00
43 11 0.03
44 178 0.55
45 121 0.37
46 8 0.02
47 1 0.00
48 2 0.01
49 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
ATAAGATTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
Found at i:6202870 original size:178 final size:178
Alignment explanation
Indices: 6202549--6202977 Score: 590
Period size: 178 Copynumber: 2.4 Consensus size: 178
6202539 CTTCAATCCG
* ** * * *
6202549 CTCCACTGCAACTTCAAAGAGATAGGATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGAGAG
1 CTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * *
6202614 ATAGGATTATTGGCTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTCACCATTTTTAGT
66 ATAGGATTATTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGT
* * * *
6202679 CTGTCCCACTGCAACATCAGGGGGATAAGACTTGCTTTCTTCAGTCTA
131 CTGTCCAACTGCAACATCAAGGGAATAAGACTTACTTTCTTCAGTCTA
* * *
6202727 CTCCACTACAAATTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTTAGGGAG
1 CTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * **
6202792 ATAGGATTATTAGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGT
66 ATAGGATTATTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGT
* *
6202857 CTG-CTCAACTGCAACTTCAAGGGAATAAGACTTACTTTCTTCAGTCTG
131 CTGTC-CAACTGCAACATCAAGGGAATAAGACTTACTTTCTTCAGTCTA
* * * *
6202905 CTCCACTGCAATTTTAGGCAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACCTCAGGGAG
1 CTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
6202970 ATAGGATT
66 ATAGGATT
6202978 TGTGGTTTCA
Statistics
Matches: 219, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
177 1 0.00
178 218 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (178 bp):
CTCCACTGCAAATTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAGGATTATTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCACCATCTTCAGT
CTGTCCAACTGCAACATCAAGGGAATAAGACTTACTTTCTTCAGTCTA
Found at i:6202880 original size:134 final size:133
Alignment explanation
Indices: 6202627--6202979 Score: 361
Period size: 134 Copynumber: 2.6 Consensus size: 133
6202617 GGATTATTGG
* * * ** *
6202627 CTTTAATCTACTCCATTGCAACTTTAGGGAGATAAGATTCACCATTTTTAGTCTG-TCCCACTGC
1 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-ACTAACTTTAATCTGCT-CCACTGC
* * ** *
6202691 AACATCAGGGGGATAAGACTTGCTTTCTTCAGTCTACTCCACTACAAATTCAGGGAGATAAGACT
64 AACATCAGGGAGATAAGATTTGCCATCTTCAGTCTACTCAACTACAAATTCAGGGA-ATAAGACT
*
6202756 T-GTAA
128 TACTAA
* * * * *
6202761 CTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATTAGCTTTAATCTGCTCTACTGCAA
1 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTACTAACTTTAATCTGCTCCACTGCAA
* * * * *
6202826 CTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCTCAACTGCAACTTCAAGGGAATAAGACTTA
66 CATCAGGGAGATAAGATTTGCCATCTTCAGTCTACTCAACTACAAATTC-AGGGAATAAGACTTA
**
6202891 CTTT
130 CTAA
* * * * *
6202895 CTTCAGTCTGCTCCACTGCAATTTTAGGCAGATAAGACTT-GTAACTTTAATCTGCTCCACTGCA
1 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTACTAACTTTAATCTGCTCCACTGCA
* *
6202959 ACCTCAGGGAGATAGGATTTG
65 ACATCAGGGAGATAAGATTTG
6202980 TGGTTTCACC
Statistics
Matches: 180, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
133 66 0.37
134 112 0.62
135 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (133 bp):
CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTACTAACTTTAATCTGCTCCACTGCAA
CATCAGGGAGATAAGATTTGCCATCTTCAGTCTACTCAACTACAAATTCAGGGAATAAGACTTAC
TAA
Found at i:6212702 original size:51 final size:50
Alignment explanation
Indices: 6212517--6212809 Score: 320
Period size: 50 Copynumber: 5.7 Consensus size: 50
6212507 GGTAAAGATA
*
6212517 TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCTTGAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGG
* *
6212573 TCCCATGTACGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*
6212623 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
6212673 TCCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAAC
1 T-CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * **
6212724 TCCCATGTAAGACCATATCTGGGATATGGAATTTGCA--GTACATGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
*
6212773 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
6212810 TATTGTTATC
Statistics
Matches: 205, Mismatches: 30, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 85 0.41
51 42 0.20
53 3 0.01
55 2 0.01
56 34 0.17
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:6212731 original size:101 final size:103
Alignment explanation
Indices: 6212517--6212752 Score: 298
Period size: 101 Copynumber: 2.3 Consensus size: 103
6212507 GGTAAAGATA
*
6212517 TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCTTGAGATCATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCC-TGAGA--ATGAGAGGTCCCACGTA
* * * **
6212582 CGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
63 AGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
6212623 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCCCGTAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCTGAGAATGAGAGGT-CCCACGTAAG
* *
6212685 ACCATGTCTGGGACATGGCATGGGCATCGATATGAGAAC
65 ACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
6212724 TCCCATGTAAGACCATATCTGGGATATGG
1 TCCCATGTAAGACCATGTCTGGGACATGG
6212753 AATTTGCAGT
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
100 9 0.08
101 67 0.58
103 3 0.03
105 2 0.02
106 35 0.30
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.22
Consensus pattern (103 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGCCATCCTGAGAATGAGAGGTCCCACGTAAGA
CCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:6217034 original size:5 final size:6
Alignment explanation
Indices: 6217018--6217043 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6217008 ATATTAAATT
6217018 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
6217044 TTTATTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:6232583 original size:22 final size:21
Alignment explanation
Indices: 6232558--6232600 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
6232548 ATAACATAGC
6232558 TTCA-AACTCTCAACCATAATTT
1 TTCACAAC-CTCAACCA-AATTT
*
6232580 TTCACCACCTCAACCAAATTT
1 TTCACAACCTCAACCAAATTT
6232601 ATAATGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (21 bp):
TTCACAACCTCAACCAAATTT
Found at i:6246412 original size:10 final size:10
Alignment explanation
Indices: 6246397--6246426 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
6246387 TTACCAATTC
6246397 GGTTAATTTT
1 GGTTAATTTT
*
6246407 GGTTAATTTC
1 GGTTAATTTT
6246417 GGTTAATTTT
1 GGTTAATTTT
6246427 AATTTGGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (10 bp):
GGTTAATTTT
Found at i:6246435 original size:25 final size:25
Alignment explanation
Indices: 6246399--6246446 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
6246389 ACCAATTCGG
6246399 TTAATTTTGGTTAATTTCGGTTAATT
1 TTAATTTTGGTTAA-TTCGGTTAATT
6246425 TTAA-TTTGGTTAATTCGGTTAA
1 TTAATTTTGGTTAATTCGGTTAA
6246447 ATGAACATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.41
25 9 0.41
26 4 0.18
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (25 bp):
TTAATTTTGGTTAATTCGGTTAATT
Found at i:6246437 original size:15 final size:16
Alignment explanation
Indices: 6246409--6246439 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6246399 TTAATTTTGG
6246409 TTAATTTCGGTTAATT
1 TTAATTTCGGTTAATT
6246425 TTAATTT-GGTTAATT
1 TTAATTTCGGTTAATT
6246440 CGGTTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (16 bp):
TTAATTTCGGTTAATT
Found at i:6246439 original size:9 final size:9
Alignment explanation
Indices: 6246392--6246446 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
6246382 ATATATTACC
*
6246392 AATTCGGTT
1 AATTTGGTT
6246401 AATTTTGGTT
1 AA-TTTGGTT
6246411 AATTTCGGTT
1 AATTT-GGTT
6246421 AA-TT--TT
1 AATTTGGTT
6246427 AATTTGGTT
1 AATTTGGTT
*
6246436 AATTCGGTT
1 AATTTGGTT
6246445 AA
1 AA
6246447 ATGAACATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
9 19 0.49
10 14 0.36
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.51
Consensus pattern (9 bp):
AATTTGGTT
Found at i:6253702 original size:48 final size:47
Alignment explanation
Indices: 6253608--6253702 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 47
6253598 GTAAAATTAT
* * * **
6253608 CGAAATACCTTCAATGGGTAAAATT-GTAGAAATACCCTTAATGGGTAC
1 CGAAATACCTTCGATGGGTAAAATTACTA-AAATCCCCCGAA-GGGTAC
6253656 CGAAATACCTTCGATGGGTAAAATTACTAAAATGCCCCCGAAGGGTA
1 CGAAATACCTTCGATGGGTAAAATTACTAAAAT-CCCCCGAAGGGTA
6253703 AAATTATCGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 33 0.82
49 7 0.17
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (47 bp):
CGAAATACCTTCGATGGGTAAAATTACTAAAATCCCCCGAAGGGTAC
Found at i:6253707 original size:102 final size:102
Alignment explanation
Indices: 6253557--6253746 Score: 299
Period size: 102 Copynumber: 1.9 Consensus size: 102
6253547 AAACTATTGT
* * **
6253557 AATACCCTCGATGGGTAAAATTACTAAAATACCCTCGATGGGTAAAATTATCGAAATACCTTCAA
1 AATACCCTCGATGGGTAAAATTACTAAAATACCCCCGAAGGGTAAAATTATCGAAATACCCCCAA
*
6253622 TGGGTAAAATTGTAGAAATACCCTTAATGGGTACCGA
66 TGGGTAAAATTATAGAAATACCCTTAATGGGTACCGA
* * *
6253659 AATACCTTCGATGGGTAAAATTACTAAAATGCCCCCGAAGGGTAAAATTATCGAAATACCCCCGA
1 AATACCCTCGATGGGTAAAATTACTAAAATACCCCCGAAGGGTAAAATTATCGAAATACCCCCAA
*
6253724 TGGGTAAAATTATCGAAATACCC
66 TGGGTAAAATTATAGAAATACCC
6253747 CCATAGGGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (102 bp):
AATACCCTCGATGGGTAAAATTACTAAAATACCCCCGAAGGGTAAAATTATCGAAATACCCCCAA
TGGGTAAAATTATAGAAATACCCTTAATGGGTACCGA
Found at i:6253748 original size:27 final size:27
Alignment explanation
Indices: 6253412--6253746 Score: 319
Period size: 27 Copynumber: 12.6 Consensus size: 27
6253402 TAATAAGCCT
*
6253412 AAATTATCGAAATACCCTCGATAGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* *
6253439 AAATTACCGAAATACTCTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* * *
6253466 AAATTATTGAAATACCCTCAATGGGTC
1 AAATTATCGAAATACCCTCGATGGGTA
* *
6253493 AAATTA-CTAAAATACCTTCGATGGGTA
1 AAATTATC-GAAATACCCTCGATGGGTA
* * * *
6253520 AAGTTACCAAAATACCTTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* * *
6253547 AAACTATTGTAATACCCTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
*
6253574 AAATTA-CTAAAATACCCTCGATGGGTA
1 AAATTATC-GAAATACCCTCGATGGGTA
* *
6253601 AAATTATCGAAATACCTTCAATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* * **
6253628 AAATTGTAGAAATACCCTTAATGGG--
1 AAATTATCGAAATACCCTCGATGGGTA
* *
6253653 ----TACCGAAATACCTTCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
* * * *
6253676 AAATTA-CTAAAATGCCCCCGAAGGGTA
1 AAATTATC-GAAATACCCTCGATGGGTA
*
6253703 AAATTATCGAAATACCCCCGATGGGTA
1 AAATTATCGAAATACCCTCGATGGGTA
6253730 AAATTATCGAAATACCC
1 AAATTATCGAAATACCC
6253747 CCATAGGGTA
Statistics
Matches: 250, Mismatches: 46, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
21 15 0.06
26 1 0.00
27 231 0.92
28 3 0.01
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATGGGTA
Found at i:6253755 original size:27 final size:28
Alignment explanation
Indices: 6253656--6253758 Score: 126
Period size: 27 Copynumber: 3.8 Consensus size: 28
6253646 TAATGGGTAC
**
6253656 CGAAATACCTTCGAT-GGGTAAAATTA-
1 CGAAATACCCCCGATAGGGTAAAATTAT
* *
6253682 CTAAAATGCCCCCGA-AGGGTAAAATTAT
1 C-GAAATACCCCCGATAGGGTAAAATTAT
6253710 CGAAATACCCCCGAT-GGGTAAAATTAT
1 CGAAATACCCCCGATAGGGTAAAATTAT
6253737 CGAAATACCCCC-ATAGGGTAAA
1 CGAAATACCCCCGATAGGGTAAA
6253759 CTGACTATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
26 3 0.05
27 62 0.94
28 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (28 bp):
CGAAATACCCCCGATAGGGTAAAATTAT
Found at i:6253776 original size:129 final size:129
Alignment explanation
Indices: 6253421--6253758 Score: 326
Period size: 129 Copynumber: 2.6 Consensus size: 129
6253411 TAAATTATCG
* ** * * * *
6253421 AAATACCCTCGATA-GGTAAAATTACCGAAATACTCTCGATGGGTAAAATTATTGAAATACCCTC
1 AAATACCCCCGA-AGGGTAAAATTACTAAAATACCCCCGATGGGTAAAATTATCGAAATACCCCC
* * * *
6253485 AATGGGTCAAATTACTA-AAATA-CCTTCGATGGGTAAAGTTACCAAAATACCTTCGATGGGTAA
65 AATGGGTAAAACT-GTAGAAATACCCTT-AAT-GG----G-TACCAAAATACCTTCGATGGGTAA
* *
6253548 AACTATTG
122 AACTACTA
* * * * **
6253556 TAATACCCTCGATGGGTAAAATTACTAAAATACCCTCGATGGGTAAAATTATCGAAATACCTTCA
1 AAATACCCCCGAAGGGTAAAATTACTAAAATACCCCCGATGGGTAAAATTATCGAAATACCCCCA
* * *
6253621 ATGGGTAAAATTGTAGAAATACCCTTAATGGGTACCGAAATACCTTCGATGGGTAAAATTACTA
66 ATGGGTAAAACTGTAGAAATACCCTTAATGGGTACCAAAATACCTTCGATGGGTAAAACTACTA
* *
6253685 AAATGCCCCCGAAGGGTAAAATTA-TCGAAATACCCCCGATGGGTAAAATTATCGAAATACCCCC
1 AAATACCCCCGAAGGGTAAAATTACT-AAAATACCCCCGATGGGTAAAATTATCGAAATACCCCC
6253749 -ATAGGGTAAA
65 AAT-GGGTAAA
6253759 CTGACTATTA
Statistics
Matches: 176, Mismatches: 22, Indels: 16
0.82 0.10 0.07
Matches are distributed among these distances:
128 3 0.02
129 89 0.51
130 1 0.01
134 4 0.02
135 75 0.43
136 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (129 bp):
AAATACCCCCGAAGGGTAAAATTACTAAAATACCCCCGATGGGTAAAATTATCGAAATACCCCCA
ATGGGTAAAACTGTAGAAATACCCTTAATGGGTACCAAAATACCTTCGATGGGTAAAACTACTA
Found at i:6259554 original size:17 final size:19
Alignment explanation
Indices: 6259528--6259565 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
6259518 ATTTTAATGT
6259528 AATTTATATAT-TTTT-AA
1 AATTTATATATATTTTGAA
*
6259545 AATTTTTATATATTTTGAA
1 AATTTATATATATTTTGAA
6259564 AA
1 AA
6259566 ATATTGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 4 0.22
19 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
AATTTATATATATTTTGAA
Found at i:6261973 original size:15 final size:16
Alignment explanation
Indices: 6261951--6261992 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
6261941 TGTTAATTTA
6261951 AGAAGAAAAGAGAGAA-
1 AGAAGAAAAGAGA-AAG
6261967 A-AAGAAAAGAGAAAG
1 AGAAGAAAAGAGAAAG
6261982 AGAAGAAAAGA
1 AGAAGAAAAGA
6261993 AACGGTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAGAAAAGAGAAAG
Found at i:6261979 original size:22 final size:21
Alignment explanation
Indices: 6261953--6261994 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6261943 TTAATTTAAG
6261953 AAGA-AAAGAG-AGAAAAAGAA
1 AAGAGAAAGAGAAG-AAAAGAA
6261973 AAGAGAAAGAGAAGAAAAGAA
1 AAGAGAAAGAGAAGAAAAGAA
6261994 A
1 A
6261995 CGGTTGCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAGAGAAAGAGAAGAAAAGAA
Found at i:6264321 original size:14 final size:14
Alignment explanation
Indices: 6264302--6264332 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6264292 AGGATAAGAC
6264302 GACTGATCGGGGAT
1 GACTGATCGGGGAT
6264316 GACTGATCGGGGAT
1 GACTGATCGGGGAT
6264330 GAC
1 GAC
6264333 AATGGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.16, G:0.42, T:0.19
Consensus pattern (14 bp):
GACTGATCGGGGAT
Found at i:6281141 original size:45 final size:45
Alignment explanation
Indices: 6281073--6281254 Score: 260
Period size: 45 Copynumber: 4.1 Consensus size: 45
6281063 TACTACGTGT
* *
6281073 ACCGGGTACCATTGATTACAAAGGTGGTTGCTATGCGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
6281118 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
6281163 ACTGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*** ** * *
6281208 ACTAAGTATTATTGACTATAAAGGTGG-TGCTGTGTGCTGA-TCC
1 ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
6281251 ACCG
1 ACCG
6281255 TGTATCTGTT
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
43 5 0.04
44 12 0.10
45 109 0.87
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (45 bp):
ACCGGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:6281584 original size:21 final size:22
Alignment explanation
Indices: 6281548--6281593 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
6281538 TATTTGCTGG
6281548 AATAAAATTAGTTTAAGTATTT
1 AATAAAATTAGTTTAAGTATTT
* *
6281570 AATAAATTTAG-TTAAGTGTTT
1 AATAAAATTAGTTTAAGTATTT
6281591 AAT
1 AAT
6281594 TTGTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
AATAAAATTAGTTTAAGTATTT
Found at i:6290075 original size:20 final size:22
Alignment explanation
Indices: 6290050--6290089 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6290040 GTACTTAAGT
6290050 ACATTTT-GTT-GCATTTTTGG
1 ACATTTTAGTTAGCATTTTTGG
6290070 ACATTTTAGTTAGCATTTTT
1 ACATTTTAGTTAGCATTTTT
6290090 AATATTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (22 bp):
ACATTTTAGTTAGCATTTTTGG
Found at i:6298287 original size:51 final size:50
Alignment explanation
Indices: 6298166--6298350 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 50
6298156 AAAGTGATGG
* * * * * * *
6298166 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAAG-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTATA-A
* *
6298216 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCAA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAG-TAT-AA
* * * **
6298267 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGT-ATAA
*
6298318 TCACATGTGTAGTACTATGTGTAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
6298351 TGAATCGGTA
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
50 38 0.34
51 72 0.64
52 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTATAA
Found at i:6298303 original size:101 final size:102
Alignment explanation
Indices: 6298166--6298350 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
6298156 AAAGTGATGG
* *
6298166 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAA--GATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAAGTGAT-GGTCACATGTGTAGT
6298229 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
* * * *
6298267 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
*
6298332 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
6298351 TGAATCGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 39 0.52
102 33 0.44
103 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (102 bp):
TCACATGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGAAAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCAA
Found at i:6305162 original size:88 final size:88
Alignment explanation
Indices: 6305057--6305237 Score: 344
Period size: 88 Copynumber: 2.1 Consensus size: 88
6305047 AAATTAAGTG
6305057 ATGACTCAAGGATGAAATTTCAAAGGTTATAAAGGGAAAAATGGTCAAATAGAAAGAGAGAAAAT
1 ATGACTCAAGGATGAAATTTCAAAGGTTATAAAGGGAAAAATGGTCAAATAGAAAGAGAGAAAAT
6305122 TCTAGAAGGTAATGATGATGTTT
66 TCTAGAAGGTAATGATGATGTTT
*
6305145 ATGACTCAAGGATGAAATTTCAAAGGTTATAAAGGGAAAAATGGTCAAATAGAAAGAGAGAGAAT
1 ATGACTCAAGGATGAAATTTCAAAGGTTATAAAGGGAAAAATGGTCAAATAGAAAGAGAGAAAAT
6305210 TCTAGAAGGTAATGATGATGTTT
66 TCTAGAAGGTAATGATGATGTTT
*
6305233 GTGAC
1 ATGAC
6305238 ATTTTTAATT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (88 bp):
ATGACTCAAGGATGAAATTTCAAAGGTTATAAAGGGAAAAATGGTCAAATAGAAAGAGAGAAAAT
TCTAGAAGGTAATGATGATGTTT
Found at i:6308246 original size:51 final size:49
Alignment explanation
Indices: 6308083--6308264 Score: 147
Period size: 51 Copynumber: 3.6 Consensus size: 49
6308073 TGAAAGTGAT
* * * *
6308083 GGTCACGTGTGTAGTACTTTGTGCAGGCTACTACGTGTACCGGAATG-ATG
1 GGTCACATGTGTAGTACTATGTGCAGGCTATTACGTGTA-CGG-ATGTATC
* * * *
6308133 GGTCGCATATGTAGTACTATGTGTAGGCTACTATAC--GTACTGGATAGTTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTA-T-TACGTGTAC-GGAT-GTATC
* *
6308184 GATCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCGGATGGTAAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTATTACGTGTA-CGGAT-GT-ATC
* *
6308235 GGTCACATGTGTAGTATTATGTGTAGGCTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTA
6308265 CAATGTGAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
49 6 0.06
50 32 0.31
51 61 0.59
52 5 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.34
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTATTACGTGTACGGATGTATC
Found at i:6312955 original size:49 final size:50
Alignment explanation
Indices: 6312901--6312995 Score: 156
Period size: 49 Copynumber: 1.9 Consensus size: 50
6312891 AATTGAGATT
* *
6312901 ATGAGAGGTCCCATGTAAGACCATG-CTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
*
6312950 ATGAGAGGTCTCATGTAAGACCATGTCTAGGACATGGCATTGGCAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCAC
6312996 GGACATGGCG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 24 0.57
50 18 0.43
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAG
Found at i:6313012 original size:17 final size:17
Alignment explanation
Indices: 6312979--6313012 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6312969 ACCATGTCTA
*
6312979 GGACATGGCATTGGCAC
1 GGACATGGCATTAGCAC
*
6312996 GGACATGGCGTTAGCAC
1 GGACATGGCATTAGCAC
6313013 CAAGATGAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.35, T:0.18
Consensus pattern (17 bp):
GGACATGGCATTAGCAC
Found at i:6313037 original size:67 final size:67
Alignment explanation
Indices: 6312929--6313062 Score: 205
Period size: 67 Copynumber: 2.0 Consensus size: 67
6312919 GACCATGCTG
* * * *
6312929 GGACATGGCGTTGGCACCGAGATGAGAGGTCTCATGTAAGACCATGTCTAGGACATGGCATTGGC
1 GGACATGGCGTTAGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGC
6312994 AC
66 AC
* * *
6312996 GGACATGGCGTTAGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGC
1 GGACATGGCGTTAGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGC
6313061 AC
66 AC
6313063 CAAGATGAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.19
Consensus pattern (67 bp):
GGACATGGCGTTAGCACCAAGATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGC
AC
Found at i:6313071 original size:50 final size:50
Alignment explanation
Indices: 6312996--6313161 Score: 224
Period size: 50 Copynumber: 3.3 Consensus size: 50
6312986 GCATTGGCAC
* *
6312996 GGACATGGCGTTAGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTG
1 GGACATGGCATTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTG
* *
6313046 GGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAAGACCAAGTCTG
1 GGACATGGCATTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTG
* * ** ** *
6313096 GGACATGGCATGGGCACCAATATGAGAACTCCCATGTAAGACCATATCTG
1 GGACATGGCATTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTG
*
6313146 GGATATGGCATTGGCA
1 GGACATGGCATTGGCA
6313162 GTACAGGAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 103 1.00
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.19
Consensus pattern (50 bp):
GGACATGGCATTGGCACCAAGATGAGAGGTCCCCCGTAAGACCATGTCTG
Found at i:6313106 original size:117 final size:116
Alignment explanation
Indices: 6312901--6313112 Score: 334
Period size: 117 Copynumber: 1.8 Consensus size: 116
6312891 AATTGAGATT
* * * *
6312901 ATGAGAGGTCCCATGTAAGACCATGCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCATGT
1 ATGAGAGGTCCCACGTAAGACCATGCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCACGT
* *
6312966 AAGACCATGTCTAGGACATGGCATTGGCACGGACATGGCGTTAGCACCAAG
66 AAGACCAAGTCTAGGACATGGCATGGGCACGGACATGGCGTTAGCACCAAG
* *
6313017 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCG
1 ATGAGAGGTCCCACGTAAGACCATG-CTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCACG
*
6313082 TAAGACCAAGTCTGGGACATGGCATGGGCAC
65 TAAGACCAAGTCTAGGACATGGCATGGGCAC
6313113 CAATATGAGA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
116 23 0.27
117 63 0.73
ACGTcount: A:0.26, C:0.24, G:0.32, T:0.18
Consensus pattern (116 bp):
ATGAGAGGTCCCACGTAAGACCATGCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCACGT
AAGACCAAGTCTAGGACATGGCATGGGCACGGACATGGCGTTAGCACCAAG
Found at i:6313721 original size:16 final size:16
Alignment explanation
Indices: 6313700--6313737 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
6313690 ATATTCTTAA
6313700 GATATGACCAAAAGAT
1 GATATGACCAAAAGAT
6313716 GATATGACCAAAAGAT
1 GATATGACCAAAAGAT
6313732 GATATG
1 GATATG
6313738 TAAATATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (16 bp):
GATATGACCAAAAGAT
Found at i:6323621 original size:20 final size:20
Alignment explanation
Indices: 6323579--6323621 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6323569 TGGTAATTTT
**
6323579 TCTGTCACTTCAATTTTTGC
1 TCTGTCACTTCAATTCCTGC
6323599 TCTGTCCACTTCAATTCCT-C
1 TCTGT-CACTTCAATTCCTGC
6323619 TCT
1 TCT
6323622 ATGATATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.14, C:0.33, G:0.07, T:0.47
Consensus pattern (20 bp):
TCTGTCACTTCAATTCCTGC
Found at i:6326892 original size:23 final size:23
Alignment explanation
Indices: 6326859--6326905 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
6326849 ATTGGCACAA
*
6326859 CATGCTCTTAGATTTGTCTATCT
1 CATGCTCTTAGATTAGTCTATCT
*
6326882 CATGCTTTTAGATTAGTCTATCT
1 CATGCTCTTAGATTAGTCTATCT
6326905 C
1 C
6326906 GGCCATCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (23 bp):
CATGCTCTTAGATTAGTCTATCT
Found at i:6327172 original size:130 final size:130
Alignment explanation
Indices: 6326939--6327199 Score: 378
Period size: 130 Copynumber: 2.0 Consensus size: 130
6326929 TGAGGATTAA
* *
6326939 CACCCTAATCATTCAAATTATCATCTAGACTAGCTATCACCCTACAAACAGGAGGATTAGCATCT
1 CACCCTAACCATTCAAATTATCATCTAGACTAGCTATCACCCTACAAACAAGAGGATTAGCATCT
** * *
6327004 TGACCATTTGGATTATCATTGAGGCCAAGATCATTCCTGTTCCTCGCCATTTTTCGCAATTCTTT
66 TGACCATTCAGATTATCATTAAGGCCAAGATCATTCCTGTTCCTAGCCATTTTTCGCAATTCTTT
* * * * **
6327069 CACCCTGACCATTCAAGTTATCATTTAGACTAGGTATCACCCTATGAACAAGAGGATTAGCATCT
1 CACCCTAACCATTCAAATTATCATCTAGACTAGCTATCACCCTACAAACAAGAGGATTAGCATCT
* * * *
6327134 TGACTATTCAGATTATCATTAAGGCCAGGATCATTCCTGTTCCTAGCCATTTTTTGCAGTTCTTT
66 TGACCATTCAGATTATCATTAAGGCCAAGATCATTCCTGTTCCTAGCCATTTTTCGCAATTCTTT
6327199 C
1 C
6327200 CACATTCTTC
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
130 115 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (130 bp):
CACCCTAACCATTCAAATTATCATCTAGACTAGCTATCACCCTACAAACAAGAGGATTAGCATCT
TGACCATTCAGATTATCATTAAGGCCAAGATCATTCCTGTTCCTAGCCATTTTTCGCAATTCTTT
Found at i:6329942 original size:17 final size:18
Alignment explanation
Indices: 6329897--6329943 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
6329887 AACTCTTTTT
*
6329897 TAAAATATTAAAGACTAAA
1 TAAAA-ATTAAAGAATAAA
* *
6329916 TATAACTTAAA-AATAAA
1 TAAAAATTAAAGAATAAA
6329933 TAAAAATTAAA
1 TAAAAATTAAA
6329944 TTGATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 14 0.61
18 5 0.22
19 4 0.17
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
TAAAAATTAAAGAATAAA
Found at i:6329965 original size:14 final size:13
Alignment explanation
Indices: 6329924--6329975 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
6329914 AATATAACTT
6329924 AAAAATAAA--TA
1 AAAAATAAATTTA
*
6329935 AAAATTAAATTGATA
1 AAAAATAAATT--TA
6329950 AAAAATAACATTTA
1 AAAAATAA-ATTTA
6329964 AAAAATAAATTT
1 AAAAATAAATTT
6329976 TACACCATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 8 0.24
13 4 0.12
14 10 0.29
15 9 0.26
16 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (13 bp):
AAAAATAAATTTA
Found at i:6330568 original size:23 final size:23
Alignment explanation
Indices: 6330510--6330574 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
6330500 TATTTTTTTA
*
6330510 TTTTTAAAATACTTTT-AAAATAT
1 TTTTTAAAAT-TTTTTAAAAATAT
6330533 TTTTTAAAATTTTTTAAAAATACT
1 TTTTTAAAATTTTTTAAAAATA-T
*
6330557 TTTTT-AATTTTTTTAAAA
1 TTTTTAAAATTTTTTAAAA
6330575 TTTAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.11
23 28 0.74
24 6 0.16
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTTAAAATTTTTTAAAAATAT
Found at i:6330576 original size:11 final size:11
Alignment explanation
Indices: 6330510--6330577 Score: 68
Period size: 11 Copynumber: 6.1 Consensus size: 11
6330500 TATTTTTTTA
*
6330510 TTTTTAAAATA
1 TTTTTAAAATT
*
6330521 CTTTTAAAATAT
1 TTTTTAAAAT-T
6330533 TTTTTAAAATT
1 TTTTTAAAATT
*
6330544 TTTTAAAAATACT
1 TTTTTAAAAT--T
6330557 TTTTT--AATT
1 TTTTTAAAATT
6330566 TTTTTAAAATT
1 TTTTTAAAATT
6330577 T
1 T
6330578 AAAATATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
9 6 0.13
11 27 0.57
12 9 0.19
13 5 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:6332862 original size:3 final size:3
Alignment explanation
Indices: 6332854--6332878 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6332844 AAATACTTAG
6332854 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
6332879 AGTAGATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6339174 original size:22 final size:22
Alignment explanation
Indices: 6339149--6339193 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6339139 TTTAATAAAA
6339149 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
6339171 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
6339193 A
1 A
6339194 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:6342959 original size:22 final size:23
Alignment explanation
Indices: 6342925--6342970 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
6342915 TTTAATAAAA
6342925 AAAACTATCTACAAAATATTCCT
1 AAAACTATCTACAAAATATTCCT
* *
6342948 AAAA-TATTTACAGAATATTCCT
1 AAAACTATCTACAAAATATTCCT
6342970 A
1 A
6342971 CACATTAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAACTATCTACAAAATATTCCT
Found at i:6344565 original size:13 final size:13
Alignment explanation
Indices: 6344547--6344571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6344537 ATTCCATATC
6344547 CATCGTTGAGTTT
1 CATCGTTGAGTTT
6344560 CATCGTTGAGTT
1 CATCGTTGAGTT
6344572 CCTTTGGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (13 bp):
CATCGTTGAGTTT
Found at i:6345667 original size:21 final size:21
Alignment explanation
Indices: 6345641--6345682 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6345631 CATACTCTGA
6345641 GACTATCTTAGTTGGTCCATT
1 GACTATCTTAGTTGGTCCATT
6345662 GACTATCTTAGTTGGTCCATT
1 GACTATCTTAGTTGGTCCATT
6345683 ACACTGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
GACTATCTTAGTTGGTCCATT
Found at i:6347060 original size:6 final size:6
Alignment explanation
Indices: 6347049--6347096 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
6347039 AGGTTTCTCA
* * * *
6347049 AAATGG AAATGG AAATGC TAATGC AAATGG AAATGG AGATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
6347097 ATACATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.48, C:0.04, G:0.29, T:0.19
Consensus pattern (6 bp):
AAATGG
Found at i:6347156 original size:50 final size:50
Alignment explanation
Indices: 6347096--6347196 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
6347086 GATGAGAAAT
* **
6347096 GATACATTTGCAAATGTACATGGATTACTCAGAAATGATTGAAAGAATGA
1 GATACATTTGCAAATGTACATGGATTACTCAGAAATAATCAAAAGAATGA
6347146 GATACATTTGCAAATGTACATGGATTACTCAGAAATAATCAAAAGAATGA
1 GATACATTTGCAAATGTACATGGATTACTCAGAAATAATCAAAAGAATGA
6347196 G
1 G
6347197 TTTATGTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.27
Consensus pattern (50 bp):
GATACATTTGCAAATGTACATGGATTACTCAGAAATAATCAAAAGAATGA
Found at i:6354529 original size:14 final size:13
Alignment explanation
Indices: 6354479--6354555 Score: 55
Period size: 13 Copynumber: 5.4 Consensus size: 13
6354469 GAAATTTACA
*
6354479 GAGAGAGGAATTA
1 GAGAGAGGAATTG
*
6354492 GAGATGAGGATTTTGG
1 GAGA-GAGGA-ATT-G
6354508 GAGAGAGGAATTG
1 GAGAGAGGAATTG
*
6354521 GAGACGAGGATTCTAAG
1 GAGA-GAGGAAT-T--G
*
6354538 GAGAGAAGAATTG
1 GAGAGAGGAATTG
6354551 GAGAG
1 GAGAG
6354556 CAATTTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
13 15 0.29
14 13 0.25
15 9 0.18
16 9 0.18
17 5 0.10
ACGTcount: A:0.38, C:0.03, G:0.42, T:0.18
Consensus pattern (13 bp):
GAGAGAGGAATTG
Found at i:6356702 original size:17 final size:18
Alignment explanation
Indices: 6356680--6356714 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6356670 TAAGAGTTGA
*
6356680 CAAA-TTTATTTTTCTAG
1 CAAATTTTATTATTCTAG
6356697 CAAATTTTATTATTCTAG
1 CAAATTTTATTATTCTAG
6356715 AATGTGAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (18 bp):
CAAATTTTATTATTCTAG
Found at i:6358548 original size:40 final size:40
Alignment explanation
Indices: 6358488--6358640 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
6358478 GTTAATTATA
6358488 CCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACC
* * *
6358528 CTTGATTGCACATACATGCCCCTATTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACC
* * **
6358568 CCTGATTGCACATACGTGCCCTTGATTGTACTTCAGTACC
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACC
* *
6358608 CCTGATTGAACATACGTGCCCCTGTTTATACTT
1 CCTGATTGCACATACGTGCCCCTGTTTGTACTT
6358641 CGATAATTTC
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (40 bp):
CCTGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACC
Found at i:6358595 original size:20 final size:20
Alignment explanation
Indices: 6358488--6358631 Score: 94
Period size: 20 Copynumber: 7.2 Consensus size: 20
6358478 GTTAATTATA
6358488 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * * ** *
6358508 CCTGTTTGTACTTTGGTACC
1 CCTGATTGCACATACGTGCC
* *
6358528 CTTGATTGCACATACATGCC
1 CCTGATTGCACATACGTGCC
* * ** *
6358548 CCT-ATTTGTACTTTGGTACC
1 CCTGA-TTGCACATACGTGCC
6358568 CCTGATTGCACATACGTGCC
1 CCTGATTGCACATACGTGCC
* * * *
6358588 CTTGATTGTAC-TTCAGTACC
1 CCTGATTGCACATAC-GTGCC
*
6358608 CCTGATTGAACATACGTGCC
1 CCTGATTGCACATACGTGCC
6358628 CCTG
1 CCTG
6358632 TTTATACTTC
Statistics
Matches: 86, Mismatches: 34, Indels: 8
0.67 0.27 0.06
Matches are distributed among these distances:
19 3 0.03
20 80 0.93
21 3 0.03
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (20 bp):
CCTGATTGCACATACGTGCC
Found at i:6363359 original size:27 final size:27
Alignment explanation
Indices: 6363320--6363398 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
6363310 ATTGAATATA
6363320 AAGGGGATTGCTAAGTGCTGATTCCCCC
1 AAGGGG-TTGCTAAGTGCTGATTCCCCC
*
6363348 AAGGGGTTGCTAAGTGATGATTCCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCCC
6363375 AAGGGGTTGCTAAGTGCTGATTCC
1 AAGGGGTTGCTAAGTGCTGATTCC
6363399 TCAACTCATT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 43 0.88
28 6 0.12
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (27 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:6365490 original size:50 final size:50
Alignment explanation
Indices: 6365426--6365525 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
6365416 ACGCAAGGAG
6365426 TTTCTTGAGCTGAAGCAGGGCCGAATGTCTGTGGCAGAATATGAAAGGGA
1 TTTCTTGAGCTGAAGCAGGGCCGAATGTCTGTGGCAGAATATGAAAGGGA
*
6365476 TTTCTTGAGTTGAAGCAGGGCCGAATGTCTGTGGCAGAATATGAAAGGGA
1 TTTCTTGAGCTGAAGCAGGGCCGAATGTCTGTGGCAGAATATGAAAGGGA
6365526 GTTTGTTAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (50 bp):
TTTCTTGAGCTGAAGCAGGGCCGAATGTCTGTGGCAGAATATGAAAGGGA
Found at i:6367513 original size:165 final size:165
Alignment explanation
Indices: 6367241--6367579 Score: 669
Period size: 165 Copynumber: 2.0 Consensus size: 165
6367231 CCGTATCTGG
6367241 ATAAGTTTGTGGTGGTGTTCATAGATGATATTTTAATTTATTCTCAGGATGAATGCGGGCATGCC
1 ATAAGTTTGTGGTGGTGTTCATAGATGATATTTTAATTTATTCTCAGGATGAATGCGGGCATGCC
6367306 GAACATTTGAGAATTGTGTTGCAGATTCTGAGAGAGAAGAAATTGTATGCTAAATTCAGCAAAAG
66 GAACATTTGAGAATTGTGTTGCAGATTCTGAGAGAGAAGAAATTGTATGCTAAATTCAGCAAAAG
6367371 TGAGTTTTAGCTGCGTGAGGTCGGATTTTTGGGGC
131 TGAGTTTTAGCTGCGTGAGGTCGGATTTTTGGGGC
6367406 ATAAGTTTGTGGTGGTGTTCATAGATGATATTTTAATTTATTCTCAGGATGAATGCGGGCATGCC
1 ATAAGTTTGTGGTGGTGTTCATAGATGATATTTTAATTTATTCTCAGGATGAATGCGGGCATGCC
6367471 GAACATTTGAGAATTGTGTTGCAGATTCTGAGAGAGAAGAAATTGTATGCTAAATTCAGCAAAAG
66 GAACATTTGAGAATTGTGTTGCAGATTCTGAGAGAGAAGAAATTGTATGCTAAATTCAGCAAAAG
6367536 TGAGTTTTAGCTGCGTGAGGTCGGATTTTTGGGGC
131 TGAGTTTTAGCTGCGTGAGGTCGGATTTTTGGGGC
6367571 ATATAGTTT
1 ATA-AGTTT
6367580 CAAGTGAAGG
Statistics
Matches: 173, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 168 0.97
166 5 0.03
ACGTcount: A:0.27, C:0.10, G:0.28, T:0.35
Consensus pattern (165 bp):
ATAAGTTTGTGGTGGTGTTCATAGATGATATTTTAATTTATTCTCAGGATGAATGCGGGCATGCC
GAACATTTGAGAATTGTGTTGCAGATTCTGAGAGAGAAGAAATTGTATGCTAAATTCAGCAAAAG
TGAGTTTTAGCTGCGTGAGGTCGGATTTTTGGGGC
Found at i:6372716 original size:137 final size:137
Alignment explanation
Indices: 6372461--6372726 Score: 374
Period size: 137 Copynumber: 1.9 Consensus size: 137
6372451 AACGGGCTTG
*
6372461 CTCACACAACTTGTCAGTCGAAACATAGCTACACAATGCTACTCACACAAGCTCTCGAGTATCCG
1 CTCACACAACTTGTCAGTCGAAACATAGCTACACAATGCCACTCACACAAGCTCTCGAGTATCCG
* * *
6372526 CAACAAATGTCGAAACTCAGCCACTAGTAGGACATCCAGGACCAACACTCGAAACATGGTAACCT
66 CAACAAATGTCGAAACGCAGCCACCAGTAGGACATCCAGGACCAACACCCGAAACATGGTAACCT
6372591 GGGTCTA
131 GGGTCTA
* * * *
6372598 CTCACACAAGC-TGTCGGTCGAAACGTAGCTACACAATGCCACTCACACAAGCTGTCGAGTATTC
1 CTCACACAA-CTTGTCAGTCGAAACATAGCTACACAATGCCACTCACACAAGCTCTCGAGTATCC
* * * * * *
6372662 GTAACAAATGTC-AGAACGCAGCCACCAGTGGGACGTTCAGGATCAGCACCCGAAACATGGTAAC
65 GCAACAAATGTCGA-AACGCAGCCACCAGTAGGACATCCAGGACCAACACCCGAAACATGGTAAC
6372726 C
129 C
6372727 CTAATGACAT
Statistics
Matches: 113, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
136 1 0.01
137 111 0.98
138 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (137 bp):
CTCACACAACTTGTCAGTCGAAACATAGCTACACAATGCCACTCACACAAGCTCTCGAGTATCCG
CAACAAATGTCGAAACGCAGCCACCAGTAGGACATCCAGGACCAACACCCGAAACATGGTAACCT
GGGTCTA
Found at i:6383713 original size:10 final size:10
Alignment explanation
Indices: 6383698--6383724 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6383688 TTATAAATGT
6383698 TTTAATATGC
1 TTTAATATGC
6383708 TTTAATATGC
1 TTTAATATGC
6383718 TTTAATA
1 TTTAATA
6383725 ATATTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTAATATGC
Found at i:6388828 original size:21 final size:21
Alignment explanation
Indices: 6388799--6388839 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6388789 GACTATCTTC
* *
6388799 AATCCTTGTTTAGTAATGCTA
1 AATCATTGTTTAGCAATGCTA
6388820 AATCATTGTTTAGCAATGCT
1 AATCATTGTTTAGCAATGCT
6388840 GGAACAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (21 bp):
AATCATTGTTTAGCAATGCTA
Found at i:6390944 original size:15 final size:15
Alignment explanation
Indices: 6390863--6390937 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
6390853 TTTTGAATAA
6390863 AAAT-TATTTTATTT
1 AAATATATTTTATTT
6390877 AAATATA-TTTA-TT
1 AAATATATTTTATTT
* * * *
6390890 AATTCTATTTAAATT
1 AAATATATTTTATTT
*
6390905 -AATAT-TTAAATATTT
1 AAATATATT--TTATTT
6390920 AAATATATTTTATTT
1 AAATATATTTTATTT
6390935 AAA
1 AAA
6390938 CTTATTTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 13
0.67 0.13 0.19
Matches are distributed among these distances:
13 9 0.20
14 14 0.31
15 15 0.33
16 5 0.11
17 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATATATTTTATTT
Found at i:6390957 original size:58 final size:57
Alignment explanation
Indices: 6390863--6390975 Score: 192
Period size: 58 Copynumber: 2.0 Consensus size: 57
6390853 TTTTGAATAA
*
6390863 AAATTATTTTATTTAAATATATTTATTAATTCTATTTAAATTAATATTTAAATATTT
1 AAATTATTTTATTTAAATATATTTATTAATTCTATTTAAACTAATATTTAAATATTT
6390920 AAATATATTTTATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATAT
1 AAAT-TATTTTATTTAAA-TATATTTATTAATTCTATTTAAACTAATATTTAAATAT
6390976 GTCAAATGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
57 4 0.08
58 48 0.91
59 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (57 bp):
AAATTATTTTATTTAAATATATTTATTAATTCTATTTAAACTAATATTTAAATATTT
Found at i:6390995 original size:58 final size:58
Alignment explanation
Indices: 6390882--6390995 Score: 158
Period size: 58 Copynumber: 2.0 Consensus size: 58
6390872 TATTTAAATA
* * * *
6390882 TATTTATTAATTCTATTTAAATTAATATTTAAATATTTAAATATATTTTATTTAAACT
1 TATTTATTAATTCTATTTAAACTAATATTTAAATATGTAAATATAGTTTAATTAAACT
* *
6390940 TATTTATTAATTCTATTTAAACTAATATTTAAATATGTCAA-ATGGTTTAGATTAAA
1 TATTTATTAATTCTATTTAAACTAATATTTAAATATGTAAATATAGTTTA-ATTAAA
6390996 TTTTTTTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
57 6 0.12
58 43 0.88
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (58 bp):
TATTTATTAATTCTATTTAAACTAATATTTAAATATGTAAATATAGTTTAATTAAACT
Found at i:6391322 original size:15 final size:14
Alignment explanation
Indices: 6391302--6391367 Score: 60
Period size: 15 Copynumber: 4.4 Consensus size: 14
6391292 CCATAACGTC
6391302 TAACCCTTAAATCTT
1 TAACCCTTAAA-CTT
*
6391317 TAACCCCTAAACTT
1 TAACCCTTAAACTT
6391331 TAAACCCTTAAACCTCT
1 T-AACCCTTAAA-CT-T
* * *
6391348 AAACCCCTAAACTG
1 TAACCCTTAAACTT
6391362 TAACCC
1 TAACCC
6391368 GAATCCCTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
14 9 0.21
15 21 0.50
16 11 0.26
17 1 0.02
ACGTcount: A:0.36, C:0.35, G:0.02, T:0.27
Consensus pattern (14 bp):
TAACCCTTAAACTT
Found at i:6391367 original size:30 final size:29
Alignment explanation
Indices: 6391302--6391367 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
6391292 CCATAACGTC
* * *
6391302 TAACCCTTAAATCTTTAACCCCTAAACTT
1 TAACCCTTAAACCTTAAACCCCTAAACTG
6391331 TAAACCCTTAAACCTCTAAACCCCTAAACTG
1 T-AACCCTTAAACCT-TAAACCCCTAAACTG
6391362 TAACCC
1 TAACCC
6391368 GAATCCCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 17 0.53
31 14 0.44
ACGTcount: A:0.36, C:0.35, G:0.02, T:0.27
Consensus pattern (29 bp):
TAACCCTTAAACCTTAAACCCCTAAACTG
Found at i:6391615 original size:21 final size:21
Alignment explanation
Indices: 6391575--6391615 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6391565 AACCTTAAAT
* * *
6391575 CCCTAACTCTTAATCTCTAAC
1 CCCTAACCCTTAACCCCTAAC
6391596 CCCTAACCCTTAACCCCTAA
1 CCCTAACCCTTAACCCCTAA
6391616 ATCACAACCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACCCTTAACCCCTAAC
Found at i:6391654 original size:14 final size:15
Alignment explanation
Indices: 6391635--6391667 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
6391625 CTTAAACCAA
6391635 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
6391649 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
6391664 AATC
1 AATC
6391668 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:6392131 original size:41 final size:40
Alignment explanation
Indices: 6392070--6392419 Score: 327
Period size: 41 Copynumber: 8.7 Consensus size: 40
6392060 ATATTTTGCA
*
6392070 GCGCTTTTTCAAAAACGCCGCTAAAGTCCCGAGCATTAGCG
1 GCGCCTTTTCAAAAACGCCGCTAAAG-CCCGAGCATTAGCG
* * *
6392111 ACGCCTTTTCAAAAACGCCGCTAAAGCCTTGAGCATTAGTG
1 GCGCCTTTTCAAAAACGCCGCTAAAGCC-CGAGCATTAGCG
* * *
6392152 GTGCATTTTCAAAAACACCGCTAAAGCCCTGAGCATTAGCG
1 GCGCCTTTTCAAAAACGCCGCTAAAGCCC-GAGCATTAGCG
* * * * *
6392193 GAGCTTTTTTAAAAACGTCGCTAAAGCCCTGAGCATTAGTG
1 GCGCCTTTTCAAAAACGCCGCTAAAGCCC-GAGCATTAGCG
6392234 GCGCCTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
1 GCGCCTTTTCAAAAACGCCGCTAAAGCCC-GAGCATTAGCG
* ** ** *
6392275 GCGCCTTTCCAAAAACGCCGCT-AA-TTC-AAAAAT-GC-
1 GCGCCTTTTCAAAAACGCCGCTAAAGCCCGAGCATTAGCG
* *
6392310 -CG-CTAATTCAAAAACACCGCTAAAGCCCCGAGCATTAGCG
1 GCGCCT-TTTCAAAAACGCCGCTAAAG-CCCGAGCATTAGCG
* * *
6392350 GTGCTTTTTCGAAAACGCCGCTAAAGACCCGAGCATTAGCG
1 GCGCCTTTTCAAAAACGCCGCTAAAG-CCCGAGCATTAGCG
* * ***
6392391 ACGCTTTTTCAAAATTTCCGCTAAAGCCC
1 GCGCCTTTTCAAAAACGCCGCTAAAGCCC
6392420 CGAAAGGTCA
Statistics
Matches: 251, Mismatches: 47, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
33 2 0.01
34 15 0.06
35 2 0.01
36 2 0.01
37 4 0.02
38 3 0.01
39 3 0.01
40 7 0.03
41 212 0.84
42 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
GCGCCTTTTCAAAAACGCCGCTAAAGCCCGAGCATTAGCG
Found at i:6392323 original size:18 final size:17
Alignment explanation
Indices: 6392284--6392332 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
6392274 GGCGCCTTTC
6392284 CAAAAACGCCGCTAATT
1 CAAAAACGCCGCTAATT
*
6392301 CAAAAATGCCGCTAATT
1 CAAAAACGCCGCTAATT
*
6392318 CAAAAACACCGCTAA
1 CAAAAACGCCGCTAA
6392333 AGCCCCGAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (17 bp):
CAAAAACGCCGCTAATT
Found at i:6392374 original size:157 final size:159
Alignment explanation
Indices: 6392070--6392419 Score: 422
Period size: 157 Copynumber: 2.2 Consensus size: 159
6392060 ATATTTTGCA
*
6392070 GCGCTTTTTCAAAAACGCCGCTAAAGTCCCGAGCATTAGCGACGCCTTTTCAAAAACGCCGCTAA
1 GCGCTTTTTCAAAAACGCCGCTAAAG-CCCGAGCATTAGCGACGCCTTTCCAAAAACGCCGCTAA
** * ** * *
6392135 AGCCTTGAGCATTAGTGGTGCATTTTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGGAGCTTT
65 A--CTT--GCAAAAATGCCGCATATTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGAGCTTT
* * *
6392200 TTTAAAAACGTCGCTAAAG-CCCTGAGCATTAGTG
126 TTCAAAAACGCCGCTAAAGACCC-GAGCATTAGCG
* *
6392234 GCGCCTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCCTTTCCAAAAACGCCGCT-A
1 GCGCTTTTTCAAAAACGCCGCTAAAGCCC-GAGCATTAGCGACGCCTTTCCAAAAACGCCGCTAA
*
6392298 A-TT-CAAAAATGCCGC-TAATTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGTGCTTTTTC
65 ACTTGCAAAAATGCCGCAT-ATTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGAGCTTTTTC
*
6392360 GAAAACGCCGCTAAAGACCCGAGCATTAGCG
129 AAAAACGCCGCTAAAGACCCGAGCATTAGCG
* ***
6392391 ACGCTTTTTCAAAATTTCCGCTAAAGCCC
1 GCGCTTTTTCAAAAACGCCGCTAAAGCCC
6392420 CGAAAGGTCA
Statistics
Matches: 163, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
156 1 0.01
157 96 0.59
158 3 0.02
160 2 0.01
163 5 0.03
164 56 0.34
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (159 bp):
GCGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTAGCGACGCCTTTCCAAAAACGCCGCTAAA
CTTGCAAAAATGCCGCATATTCAAAAACACCGCTAAAGCCCCGAGCATTAGCGGAGCTTTTTCAA
AAACGCCGCTAAAGACCCGAGCATTAGCG
Found at i:6395002 original size:23 final size:23
Alignment explanation
Indices: 6394972--6395017 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6394962 ATGAATATAT
*
6394972 AGTTGCTAATGTTGATGGTATTA
1 AGTTGCTAATGTTGATGGAATTA
*
6394995 AGTTGCTAATTTTGATGGAATTA
1 AGTTGCTAATGTTGATGGAATTA
6395018 CCTCTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (23 bp):
AGTTGCTAATGTTGATGGAATTA
Found at i:6397459 original size:23 final size:23
Alignment explanation
Indices: 6397425--6397662 Score: 189
Period size: 23 Copynumber: 10.3 Consensus size: 23
6397415 TATGTTAAAT
6397425 GGTAT-ATTGGTTGTGTTTGGAG
1 GGTATAATTGGTTGTGTTTGGAG
* **
6397447 GGTATACTTGGTTGTGTTCAGAG
1 GGTATAATTGGTTGTGTTTGGAG
* * * *
6397470 GTTATATATATGATGGTGTTTTGCA-
1 GGTATA-AT-TGGTTGTG-TTTGGAG
* * * *
6397495 GGTACATTTGGTTATGTTCGGAG
1 GGTATAATTGGTTGTGTTTGGAG
*
6397518 GGTA-AATTGGTTGTGTTTGAAG
1 GGTATAATTGGTTGTGTTTGGAG
* * *
6397540 GGTATACTTGGTTCTGTTCGGAG
1 GGTATAATTGGTTGTGTTTGGAG
*
6397563 GTTATATATATGGTTGTGTTTGGAG
1 GGTATA-AT-TGGTTGTGTTTGGAG
* * * *
6397588 GGTACATTTGGTTGTGTTCGGAT
1 GGTATAATTGGTTGTGTTTGGAG
*
6397611 GGTA-AATTGGTTGTGTTTCGAG
1 GGTATAATTGGTTGTGTTTGGAG
*
6397633 GGTA-AATTGGTTGTGTTTGGTG
1 GGTATAATTGGTTGTGTTTGGAG
6397655 GGTGATAA
1 GGT-ATAA
6397663 CTTTATGCTA
Statistics
Matches: 165, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
22 64 0.39
23 65 0.39
24 6 0.04
25 27 0.16
26 3 0.02
ACGTcount: A:0.18, C:0.05, G:0.35, T:0.42
Consensus pattern (23 bp):
GGTATAATTGGTTGTGTTTGGAG
Found at i:6397506 original size:48 final size:48
Alignment explanation
Indices: 6397427--6397649 Score: 216
Period size: 48 Copynumber: 4.8 Consensus size: 48
6397417 TGTTAAATGG
* * * *
6397427 TATAT-TGGTTGTGTTTGGAGGGTATACTTGGTTGTGTTCAGAGGTTA
1 TATATATGGTTGTGTTTGAAGGGTACATTTGGTTGTGTTCGGAGGTTA
* * * * *
6397474 TATATATGATGGTGTTTTGCA-GGTACATTTGGTTATGTTCGGAGGGTA
1 TATATATGGTTGTG-TTTGAAGGGTACATTTGGTTGTGTTCGGAGGTTA
* * *
6397522 -A-AT-TGGTTGTGTTTGAAGGGTATACTTGGTTCTGTTCGGAGGTTA
1 TATATATGGTTGTGTTTGAAGGGTACATTTGGTTGTGTTCGGAGGTTA
*
6397567 TATATATGGTTGTGTTTGGAGGGTACATTTGGTTGTGTTCGGATGG-TA
1 TATATATGGTTGTGTTTGAAGGGTACATTTGGTTGTGTTCGGA-GGTTA
*
6397615 -A-AT-TGGTTGTGTTTCG-AGGGTA-AATTGGTTGTGTT
1 TATATATGGTTGTGTTT-GAAGGGTACATTTGGTTGTGTT
6397650 TGGTGGGTGA
Statistics
Matches: 148, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
44 17 0.11
45 46 0.31
46 6 0.04
47 9 0.06
48 63 0.43
49 7 0.05
ACGTcount: A:0.18, C:0.05, G:0.34, T:0.43
Consensus pattern (48 bp):
TATATATGGTTGTGTTTGAAGGGTACATTTGGTTGTGTTCGGAGGTTA
Found at i:6397542 original size:93 final size:92
Alignment explanation
Indices: 6397425--6397649 Score: 319
Period size: 93 Copynumber: 2.4 Consensus size: 92
6397415 TATGTTAAAT
*
6397425 GGTATATTGGTTGTGTTTGGAGGGTATACTTGGTTGTGTTCAGAGGTTATATATATGATGGTGTT
1 GGTAAATTGGTTGTGTTT-GAGGGTATACTTGGTTGTGTTCAGAGGTTATATATATGATGGTG-T
6397490 TTGCA-GGTACATTTGGTTATGTTCGGAG
64 TTGCAGGGTACATTTGGTTATGTTCGGAG
* * * *
6397518 GGTAAATTGGTTGTGTTTGAAGGGTATACTTGGTTCTGTTCGGAGGTTATATATATGGTTGTGTT
1 GGTAAATTGGTTGTGTTTG-AGGGTATACTTGGTTGTGTTCAGAGGTTATATATATGATGGTGTT
* * *
6397583 TGGAGGGTACATTTGGTTGTGTTCGGAT
65 TGCAGGGTACATTTGGTTATGTTCGGAG
*
6397611 GGTAAATTGGTTGTGTTTCGAGGGTA-AATTGGTTGTGTT
1 GGTAAATTGGTTGTGTTT-GAGGGTATACTTGGTTGTGTT
6397650 TGGTGGGTGA
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
92 17 0.14
93 101 0.85
94 1 0.01
ACGTcount: A:0.18, C:0.05, G:0.34, T:0.43
Consensus pattern (92 bp):
GGTAAATTGGTTGTGTTTGAGGGTATACTTGGTTGTGTTCAGAGGTTATATATATGATGGTGTTT
GCAGGGTACATTTGGTTATGTTCGGAG
Found at i:6399875 original size:15 final size:15
Alignment explanation
Indices: 6399837--6399875 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
6399827 CTGCTTCATA
*
6399837 TAGATGATTGAATGT
1 TAGATGAATGAATGT
6399852 TAGAT-AATGAATGT
1 TAGATGAATGAATGT
*
6399866 TTGATGAATG
1 TAGATGAATG
6399876 GTATGAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (15 bp):
TAGATGAATGAATGT
Found at i:6401529 original size:19 final size:19
Alignment explanation
Indices: 6401505--6401541 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6401495 AATTTGGGCC
*
6401505 GTGTGGACTACACGGGCAT
1 GTGTGGACCACACGGGCAT
*
6401524 GTGTGGGCCACACGGGCA
1 GTGTGGACCACACGGGCA
6401542 AGGCCATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.24, G:0.41, T:0.16
Consensus pattern (19 bp):
GTGTGGACCACACGGGCAT
Found at i:6408972 original size:20 final size:18
Alignment explanation
Indices: 6408947--6408983 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
6408937 GGTAGGATTT
6408947 TGCTACTGCATAACTGTTAC
1 TGCTACTG-AT-ACTGTTAC
6408967 TGCTACTGATACTGTTA
1 TGCTACTGATACTGTTA
6408984 TAGGCTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (18 bp):
TGCTACTGATACTGTTAC
Found at i:6409828 original size:26 final size:26
Alignment explanation
Indices: 6409768--6409829 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
6409758 TCTGTAAGTG
*
6409768 TTTTGAAACTGATACAAGCTATGATA
1 TTTTGAAACTGATACAAGCTAGGATA
* * * * *
6409794 TTCTAAAACTGATATATGTTAGGATA
1 TTTTGAAACTGATACAAGCTAGGATA
6409820 TTTTGAAACT
1 TTTTGAAACT
6409830 ACTGTAGGTA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (26 bp):
TTTTGAAACTGATACAAGCTAGGATA
Found at i:6417524 original size:29 final size:30
Alignment explanation
Indices: 6417482--6417545 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
6417472 AAAGATGCAA
*
6417482 GGAGATGAGGATTTT-GGGTGAGAGGAATT
1 GGAGATGAGGATTTTAGGGAGAGAGGAATT
6417511 GGAGATGAGGATTTTAGGGAGAGAGGAATT
1 GGAGATGAGGATTTTAGGGAGAGAGGAATT
*
6417541 AGAGA
1 GGAGA
6417546 GCAGTTTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (30 bp):
GGAGATGAGGATTTTAGGGAGAGAGGAATT
Found at i:6417536 original size:16 final size:16
Alignment explanation
Indices: 6417482--6417537 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
6417472 AAAGATGCAA
6417482 GGAGATGAGGATTTTG
1 GGAGATGAGGATTTTG
* *
6417498 GGTGA-GAGGA-ATT-
1 GGAGATGAGGATTTTG
6417511 GGAGATGAGGATTTTAG
1 GGAGATGAGGATTTT-G
6417528 GGAGA-GAGGA
1 GGAGATGAGGA
6417538 ATTAGAGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
13 4 0.12
14 7 0.22
15 7 0.22
16 9 0.28
17 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.46, T:0.23
Consensus pattern (16 bp):
GGAGATGAGGATTTTG
Found at i:6426115 original size:101 final size:102
Alignment explanation
Indices: 6425984--6426168 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 102
6425974 AAAGTGATGG
* * * *
6425984 TCACATGTGTAGTACTGTGTGCAGGCTACTATATGTATCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGTATC-AAATGATAATGGTCACATGTGTAGT
*
6426047 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGAAGGCTACTATGCGTACCGGATAGTTTCGA
* * * *
6426085 TCACGTGTGTAGTACTATGTGGAGGCTACTACGTGTATCAAATGGTAATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCAAATGATAATGGTCACATGTGTAGTA
*
6426150 CTATGTGAAGGCTGCTATG
66 CTATGTGAAGGCTACTATG
6426169 TGAACCGAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
100 5 0.07
101 35 0.49
102 32 0.44
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACATGTATCAAATGATAATGGTCACATGTGTAGTA
CTATGTGAAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:6426145 original size:51 final size:50
Alignment explanation
Indices: 6425980--6426170 Score: 204
Period size: 51 Copynumber: 3.8 Consensus size: 50
6425970 AGTGAAAGTG
* * *
6425980 ATGGTCACATGTGTAGTACTGTGTGCAGGCTACTATATGTATCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATC-GAATGGT
* * * * *
6426031 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGAATGGT
* * * * * *
6426080 TTCGATCACGTGTGTAGTACTATGTGGAGGCTACTACGTGTATCAAATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGAATGGT
* *
6426131 AATGGTCACATGTGTAGTACTATGTGAAGGCTGCTATGTG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
6426171 AACCGAACAT
Statistics
Matches: 112, Mismatches: 25, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 4 0.04
50 36 0.32
51 71 0.63
52 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGAATGGT
Found at i:6426279 original size:45 final size:45
Alignment explanation
Indices: 6426172--6426262 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
6426162 TGCTATGTGA
* * * *
6426172 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGGACATCATTTATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
6426217 ACCGGACATCATTTATTAATAAGGTGGTTGCTATGTGTTGAATCC
1 ACCGGACATCATTTATTAATAAGGTGGTTGCTATGTGCTGAATCC
6426262 A
1 A
6426263 TCGAGTATCT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (45 bp):
ACCGGACATCATTTATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:6435255 original size:45 final size:45
Alignment explanation
Indices: 6435206--6435769 Score: 254
Period size: 44 Copynumber: 12.7 Consensus size: 45
6435196 AGTCTTATTC
* * * *
6435206 CCCTGAAGTTGTAGTGGGGCATACTGAAGATGGCAAATCTCATCT
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAAATCTCATCT
* * *
6435251 CCCTGAAGTTGCAGTAGAGCAGA-TTAA-A-GCCAATAATC-CTATCT
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGAC-A-AATCTC-ATCT
* * * * * *
6435295 CCCTGAAGTTGCAGTGGAGCGGATTAAAG-TTACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAAATCTCATCT
* * * ** * * *
6435339 CCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAGTCTTATCC
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAAATCTCATCT
* * * * * *
6435384 CCCTGATGTTACAGTGGGGTAGACTGAAGATGGCGAATCGT-ATCT
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAAATC-TCATCT
* * *
6435429 CCCTGAAGTTGTAGTGGAGCAGA-TTAA-A-GCCAATGATC-CTATCT
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAA--ATCTC-ATCT
* * * * * * * *
6435473 TCTTAAAGTTACAGTGGAGAAGATTAAAG-TTACAAATC-CTATCT
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAAATCTC-ATCT
* * * * * *
6435517 CCCTGAAGTTGCAGTGGAGCGGATTAAAG-TTACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAAATCTCATCT
* * * * * *
6435561 CCCTAAAGTTGTAGTGGAGCAGACTGAAGA-AAGCAAGTCTTATCC
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGA-CAAATCTCATCT
* *
6435606 CCCTGAAGTTGCAGTGG-GACAAACTGAAGATGGCAAATC-CTATCT
1 CCCTGAAGTTGCAGTGGAG-CAGACTGAAGATGACAAATCTC-ATCT
* * *
6435651 CCCTGAAGTTGCACTGGAGCAGA-TTAA-A-GCCAATAATC-CTATCT
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGAC-A-AATCTC-ATCT
* * * * * * * *
6435695 CCCTGAGGTTTCAGTGGAGCGGATTAAAG-TTACAAGTCTTAT-T
1 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAAATCTCATCT
* *
6435738 CCCCTAAAGTTGCAGTGGGGCAGACTGAAGAT
1 -CCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
6435770 AGCGAATCTC
Statistics
Matches: 394, Mismatches: 94, Indels: 62
0.72 0.17 0.11
Matches are distributed among these distances:
42 7 0.02
43 7 0.02
44 219 0.56
45 154 0.39
46 7 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
CCCTGAAGTTGCAGTGGAGCAGACTGAAGATGACAAATCTCATCT
Found at i:6435412 original size:178 final size:176
Alignment explanation
Indices: 6435107--6435781 Score: 712
Period size: 178 Copynumber: 3.8 Consensus size: 176
6435097 TGAAACCACA
* * * * *
6435107 AATCCTATCTCCCTGAGGTTGTAGTGGAGCGGATTAAAGTTACAAGTCCTATCTCCCTCAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTG
** * * * *
6435172 TAGTGGAATAGACTAAAGAAAGCAAGTCTTATTCCCCTGAAGTTGTAGTGGGGCATACTGAAGAT
66 TAGTGGAGCAGACTAAAGAAA-CAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGAT
*
6435237 GGCAAATCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCAAT
130 AGCAAATCTCATCTCCCTGAAGTTGCAGT-GAGCAGATTAAAGCCAAT
* * * *
6435285 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTG
* * * * *
6435350 TAGTGGAGCAGACTCAAGAAAACAAGTCTTATCCCCCTGATGTTACAGTGGGGTAGACTGAAGAT
66 TAGTGGAGCAGACTAAAG-AAACAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGAT
* * *
6435415 GGCGAATCGT-ATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
130 AGCAAATC-TCATCTCCCTGAAGTTGCAGT-GAGCAGATTAAAGCCAAT
* * * * * *
6435463 GATCCTATCTTCTTAAAGTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTG
* * * ** * * * *
6435528 CAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGAAA
66 TAGTGGAGCAGACTAAAGAAACAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATA
* * * * * * *
6435593 GCAAGTCTTATCCCCCTGAAGTTGCAGTGGGACAAACTGAAGATGGC-A-
131 GCAAATCTCATCTCCCTGAAGTTGCAGTGAG-CAGA-TTAA-A-GCCAAT
* ** *
6435641 AATCCTATCTCCCTGAAGTTGCACTGGAGCAGATTAAAGCCA-ATAATCCTATCTCCCTGAGGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AATCCTATCTCCCTGAAGTT
* * ** *
6435705 -TCAGTGGAGCGGATTAAAGTTACAAGTCTTATTCCCCTAAAGTTGCAGTGGGGCAGACTGAAGA
65 GT-AGTGGAGCAGACTAAAGAAACAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGA
*
6435769 TAGCGAATCTCAT
129 TAGCAAATCTCAT
6435782 TTTCCTAAAG
Statistics
Matches: 420, Mismatches: 68, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
176 3 0.01
177 62 0.15
178 347 0.83
179 6 0.01
180 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (176 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTG
TAGTGGAGCAGACTAAAGAAACAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATA
GCAAATCTCATCTCCCTGAAGTTGCAGTGAGCAGATTAAAGCCAAT
Found at i:6435517 original size:222 final size:222
Alignment explanation
Indices: 6435247--6435755 Score: 734
Period size: 222 Copynumber: 2.3 Consensus size: 222
6435237 GGCAAATCTC
* * * * **
6435247 ATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCA-ATAATCCTATCTCCCTGAAGTTGCAGTG
1 ATCTCCCTAAAGTTACAGTGGAGAAGATTAAAGTTACA-AATCCTATCTCCCTGAAGTTGCAGTG
6435311 GAGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAG
65 GAGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAG
* ** * * * *
6435376 TCTTATCCCCCTGATGTTACAGTGGGGTAGACTGAAGATGGCGAATCGTATCTCCCTGAAGTTGT
130 TCTTATCCCCCTGAAGTTACAGTGGGACAAACTGAAGATGGCAAATCCTATCTCCCTGAAGTTGC
* *
6435441 AGTGGAGCAGATTAAAGCCAATGATCCT
195 ACTGGAGCAGATTAAAGCCAATAATCCT
* *
6435469 ATCTTCTTAAAGTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGG
1 ATCTCCCTAAAGTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGG
* *
6435534 AGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGAAAGCAAGT
66 AGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAGT
*
6435599 CTTATCCCCCTGAAGTTGCAGTGGGACAAACTGAAGATGGCAAATCCTATCTCCCTGAAGTTGCA
131 CTTATCCCCCTGAAGTTACAGTGGGACAAACTGAAGATGGCAAATCCTATCTCCCTGAAGTTGCA
6435664 CTGGAGCAGATTAAAGCCAATAATCCT
196 CTGGAGCAGATTAAAGCCAATAATCCT
* * * ** * * *
6435691 ATCTCCCTGAGGTTTCAGTGGAGCGGATTAAAGTTACAAGTCTTAT-TCCCCTAAAGTTGCAGTG
1 ATCTCCCTAAAGTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCT-CCCTGAAGTTGCAGTG
6435755 G
65 G
6435756 GGCAGACTGA
Statistics
Matches: 255, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
221 1 0.00
222 253 0.99
223 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (222 bp):
ATCTCCCTAAAGTTACAGTGGAGAAGATTAAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGG
AGCGGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTCAAGAAAACAAGT
CTTATCCCCCTGAAGTTACAGTGGGACAAACTGAAGATGGCAAATCCTATCTCCCTGAAGTTGCA
CTGGAGCAGATTAAAGCCAATAATCCT
Found at i:6435920 original size:44 final size:43
Alignment explanation
Indices: 6435871--6436218 Score: 127
Period size: 44 Copynumber: 7.8 Consensus size: 43
6435861 TGACAAATCT
6435871 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAATTC
* * * * * *
6435915 TATCTCCTTGAAGTTGAAGTAGAGCGGATTGAAG---TGAAGTC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT-AATTC
* * * * * *
6435956 TTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAG-ATAGCAAGTC
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-A-TAATTC
* * ** * *
6436001 TCATCTCCCTGAAGATGGTAGTGGAATAGATCAAAGCTATAAATCATAAGATTT
1 T-ATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAGC-----A--AT-A-ATTC
* * * * * * * **
6436055 TATCTCTCTAAAGTTACAGTAGAGCAGATCACATCAA-ACCT-
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAATTC
* * *
6436096 TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAA--AATACCAATC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATA--ATTC
*** * * *
6436139 TTATCTCCCTGAAGTTGCAGTGGAATGGATTGAAGCTACTAATCC
1 -TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-AATAATTC
*
6436184 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
6436219 TACAAATCCT
Statistics
Matches: 222, Mismatches: 57, Indels: 50
0.67 0.17 0.15
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 29 0.13
42 31 0.14
43 1 0.00
44 89 0.40
45 19 0.09
46 15 0.07
47 4 0.02
52 15 0.07
53 12 0.05
54 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAATTC
Found at i:6435920 original size:225 final size:225
Alignment explanation
Indices: 6435639--6436217 Score: 621
Period size: 225 Copynumber: 2.6 Consensus size: 225
6435629 CTGAAGATGG
* * *
6435639 CAAATCCTATCTCCCTGAAGTTGCACTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAGGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
** * *
6435704 TTCAGTGGAGCGGATTAAAGTTACAAGTCTTAT-TCCCCTAAAGTTGCAGTGGGGCAGACTGAAG
66 TGAAGTAGAGCGGATTAAAG-T-CAAGTCTTATCT-CCCTAAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
6435768 ATAGCGAA-TCTCATTTTCCTAAAGCT-CTAGTGAAACAAATTAAAACTATAAATCA-CAGATCT
128 ATAGC-AAGTCTCATCTCCCTAAAGATGCTAGTGAAACAAATCAAAACTATAAATCATAAGATCT
** * *
6435830 TATCTCTCTAAAGTTGTAGTAGAGTAGATCATGA-
192 TATCTCTCTAAAGTTACAGTAGAGCAGATCA-CAT
* *
6435864 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATTCTATCTCCTTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
* * * * *
6435929 TGAAGTAGAGCGGATTGAAGTGAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATA
66 TGAAGTAGAGCGGATTAAAGTCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * * * *
6435994 GCAAGTCTCATCTCCCTGAAGATGGTAGTGGAATAGATCAAAGCTATAAATCATAAGATTTTATC
131 GCAAGTCTCATCTCCCTAAAGATGCTAGTGAAACAAATCAAAACTATAAATCATAAGATCTTATC
6436059 TCTCTAAAGTTACAGTAGAGCAGATCACAT
196 TCTCTAAAGTTACAGTAGAGCAGATCACAT
* * * *** ** *
6436089 CAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAAATACCAATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
* * ** * * * *
6436154 TGCAGTGGAATGGATTGAAGCTACTAA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
66 TGAAGTAGAGCGGATTAAAG-T-C-AAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
6436218 CTACAAATCC
Statistics
Matches: 296, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
222 2 0.01
223 53 0.18
224 26 0.09
225 179 0.60
226 1 0.00
227 33 0.11
228 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (225 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
TGAAGTAGAGCGGATTAAAGTCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
GCAAGTCTCATCTCCCTAAAGATGCTAGTGAAACAAATCAAAACTATAAATCATAAGATCTTATC
TCTCTAAAGTTACAGTAGAGCAGATCACAT
Found at i:6435990 original size:42 final size:45
Alignment explanation
Indices: 6435915--6436014 Score: 116
Period size: 42 Copynumber: 2.3 Consensus size: 45
6435905 CCAATAATTC
* *
6435915 TATCTCCTTGAAGTTGAAGTAGAGCGGATTGAAG-T-G-AAGTCT
1 TATCTCCTTGAAGTTGAAGTAGAGCAGACTGAAGATAGCAAGTCT
* * *
6435957 TATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAGTCT
1 TATCTCCTTGAAGTTGAAGTAGAGCAGACTGAAGATAGCAAGTCT
* *
6436002 CATCTCCCTGAAG
1 TATCTCCTTGAAG
6436015 ATGGTAGTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 29 0.60
43 1 0.02
44 1 0.02
45 17 0.35
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
TATCTCCTTGAAGTTGAAGTAGAGCAGACTGAAGATAGCAAGTCT
Found at i:6436219 original size:44 final size:44
Alignment explanation
Indices: 6436096--6436261 Score: 181
Period size: 44 Copynumber: 3.8 Consensus size: 44
6436086 CATCAAACCT
* * * ** * *
6436096 TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAAATACCAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCC
*** *
6436140 TATCTCCCTGAAGTTGCAGTGGAATGGATTGAAGCTACTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCC
6436184 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCC
* * * *
6436228 TATCTCCTTGAA-TTAGCAGCGAAGCAGATGGAAG
1 TATCTCCCTGAAGTT-GCAGTGGAGCAGATTGAAG
6436262 ACACCAGCCT
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
43 2 0.02
44 101 0.98
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCC
Done.