Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 27 of 189
Found at i:8676316 original size:154 final size:156
Alignment explanation
Indices: 8676158--8676455 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
8676148 AGTAAATTCA
*
8676158 TATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
8676223 TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
66 TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
8676286 AAATTTATGCTAATTATTAAGAATTT
131 AAATTTATGCTAATTATTAAGAATTT
8676312 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
*
8676377 TTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCATTTACCAAAA
66 TTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAA
*
8676442 CAAATTTCTGCTAA
130 CAAATTTATGCTAA
8676456 GGGTATTCTA
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 76 0.55
155 2 0.01
157 60 0.43
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
TTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATAATAATTTACCAAAAC
AAATTTATGCTAATTATTAAGAATTT
Found at i:8676336 original size:18 final size:17
Alignment explanation
Indices: 8676308--8676342 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8676298 ATTATTAAGA
*
8676308 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8676325 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8676343 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8676596 original size:16 final size:16
Alignment explanation
Indices: 8676575--8676613 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8676565 TTGATTTGCT
*
8676575 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
8676591 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
8676607 ATTACAC
1 ATTACAC
8676614 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:8676614 original size:16 final size:16
Alignment explanation
Indices: 8676588--8676644 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
8676578 ACACAGCTTT
* *
8676588 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
8676604 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
8676620 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
8676636 TCCAATACA
1 TCCAATACA
8676645 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:8687611 original size:19 final size:19
Alignment explanation
Indices: 8687587--8687623 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8687577 GTTAAAGTAT
*
8687587 TTTATTATTATTTTATTAC
1 TTTATTATTATTTAATTAC
8687606 TTTATTATTATTTAATTA
1 TTTATTATTATTTAATTA
8687624 ATAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTATTATTTAATTAC
Found at i:8692677 original size:16 final size:16
Alignment explanation
Indices: 8692656--8692688 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8692646 TATGACAAGT
8692656 AAATAAATTTTTCACA
1 AAATAAATTTTTCACA
8692672 AAATAAATTTTTCACA
1 AAATAAATTTTTCACA
8692688 A
1 A
8692689 GATTACATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAAATTTTTCACA
Found at i:8693594 original size:33 final size:33
Alignment explanation
Indices: 8693547--8693671 Score: 115
Period size: 33 Copynumber: 3.5 Consensus size: 33
8693537 ATACGATGGG
* *
8693547 ATCAGCACTTAGCAACCACCAATGAGTCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
* *
8693580 ATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGA
1 ATCAACACTTAGCAA-CCAC--CA-A--T-GAAT-CGG-GGA
*
8693622 ATCAACACTTAGCAACCACCAATGATTCGGGGA
1 ATCAACACTTAGCAACCACCAATGAATCGGGGA
*
8693655 ATCAGCACTTAGCAACC
1 ATCAACACTTAGCAACC
8693672 CCTTGGGGGA
Statistics
Matches: 75, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
33 33 0.44
34 6 0.08
35 2 0.03
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.03
41 6 0.08
42 18 0.24
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (33 bp):
ATCAACACTTAGCAACCACCAATGAATCGGGGA
Found at i:8693596 original size:75 final size:75
Alignment explanation
Indices: 8693468--8693675 Score: 326
Period size: 75 Copynumber: 2.8 Consensus size: 75
8693458 CTGTTATCGG
* * *
8693468 TGGATTCAGCACTTAGCAACCACCAGTGATTTGGGGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
*
8693533 TAAGATACGA
66 TAAAATACGA
* * * *
8693543 TGGGATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCCTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
*
8693608 TAAAATACGG
66 TAAAATACGA
*
8693618 TGGAATCAACACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
8693676 GGGGGAATTA
Statistics
Matches: 119, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 119 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
TAAAATACGA
Found at i:8696701 original size:16 final size:17
Alignment explanation
Indices: 8696655--8696701 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
8696645 AAATTCTTTT
8696655 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
8696672 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
8696689 TAATTCA-AAAATT
1 TAAATCACAAAATT
8696702 ATTCTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:8702043 original size:34 final size:34
Alignment explanation
Indices: 8702000--8702071 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
8701990 CATCACACTA
8702000 TCACAATATAATTATGGCATGTATAGATAGACTC
1 TCACAATATAATTATGGCATGTATAGATAGACTC
8702034 TCACAATATAATTATGGCATGTATAGATAGACTC
1 TCACAATATAATTATGGCATGTATAGATAGACTC
8702068 TCAC
1 TCAC
8702072 GCATATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (34 bp):
TCACAATATAATTATGGCATGTATAGATAGACTC
Found at i:8703482 original size:75 final size:75
Alignment explanation
Indices: 8703353--8703561 Score: 301
Period size: 75 Copynumber: 2.8 Consensus size: 75
8703343 CCGTTATCGG
* * * *
8703353 TGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGTAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCACATT
*
8703418 TAAGATACGA
66 TAAAATACGA
* * * * *
8703428 TGGGATCAGCACTTAGCAACCACCAATAAGTCGAGGAATCGGCACTTAGCAACCCCCTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCACATT
*
8703493 TAAAATACGG
66 TAAAATACGA
* *
8703503 TGGAATCAGCACTTGGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCCTT
1 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTT
8703562 TATATTCAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 116 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (75 bp):
TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCCTTCACATT
TAAAATACGA
Found at i:8707800 original size:40 final size:40
Alignment explanation
Indices: 8707755--8707842 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
8707745 CGTTAATGAC
8707755 TTTAATATATAAATTT-AATATTTTTTAA-TATTAATATAAA
1 TTTAATATAT-AATTTCAATATTTTTTAACTATT-ATATAAA
* *
8707795 TTTAATATCTAATTTCAATATTTTTTAACTATTATTTAAA
1 TTTAATATATAATTTCAATATTTTTTAACTATTATATAAA
*
8707835 GTTAATAT
1 TTTAATAT
8707843 TATTTTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 5 0.12
40 34 0.79
41 4 0.09
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (40 bp):
TTTAATATATAATTTCAATATTTTTTAACTATTATATAAA
Found at i:8715930 original size:12 final size:12
Alignment explanation
Indices: 8715913--8715945 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8715903 CAACTCGTCC
8715913 ATATTAATTTTT
1 ATATTAATTTTT
8715925 ATATT-ATTTTT
1 ATATTAATTTTT
8715936 ATA-TAATTTT
1 ATATTAATTTT
8715946 AAAAAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:8716138 original size:22 final size:22
Alignment explanation
Indices: 8716113--8716155 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8716103 TATCCAAACA
8716113 ATAACAATAAAAT-AGTAGCAAC
1 ATAACAATAAAATGA-TAGCAAC
* *
8716135 ATAATAGTAAAATGATAGCAA
1 ATAACAATAAAATGATAGCAA
8716156 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATGATAGCAAC
Found at i:8731875 original size:73 final size:73
Alignment explanation
Indices: 8731755--8731901 Score: 222
Period size: 73 Copynumber: 2.0 Consensus size: 73
8731745 TAGGATCATT
*
8731755 AGAATAATATGGTTTTCACAAGTTTAAGAAATATCTTATACAAAATTGGAGTTGACCATTAGACA
1 AGAATAATATGATTTTCACAAGTTTAAGAAATATCTTATACAAAATTGGAGTTGACCATTAGACA
*
8731820 CGACGAAG
66 CGACAAAG
* * ** *
8731828 AGAATAATATGATTTTCACAAGTTTGAGAAATATCTTATGCGGAATTGGAGTTGACTATTAGACA
1 AGAATAATATGATTTTCACAAGTTTAAGAAATATCTTATACAAAATTGGAGTTGACCATTAGACA
*
8731893 TGACAAAG
66 CGACAAAG
8731901 A
1 A
8731902 ATGCGAAGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (73 bp):
AGAATAATATGATTTTCACAAGTTTAAGAAATATCTTATACAAAATTGGAGTTGACCATTAGACA
CGACAAAG
Found at i:8733380 original size:50 final size:50
Alignment explanation
Indices: 8733256--8733504 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
8733246 GATAATAACA
* * ** * *
8733256 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
8733307 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
8733357 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
8733407 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
8733462 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
8733505 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:8733434 original size:100 final size:104
Alignment explanation
Indices: 8733255--8733504 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
8733245 TGATAATAAC
**
8733255 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
8733320 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
8733357 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
8733420 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
8733462 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8733505 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:8733620 original size:13 final size:13
Alignment explanation
Indices: 8733599--8733630 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8733589 GCTTGGATCA
*
8733599 TCATCAAATAAAT
1 TCATAAAATAAAT
8733612 TCATAAAATAAAT
1 TCATAAAATAAAT
8733625 TCATAA
1 TCATAA
8733631 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:8733877 original size:30 final size:30
Alignment explanation
Indices: 8733842--8733899 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8733832 CCTCGACTCT
*
8733842 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
8733872 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
8733900 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:8740972 original size:50 final size:50
Alignment explanation
Indices: 8740848--8741096 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
8740838 GATAATAACA
* * ** * *
8740848 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
8740899 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
8740949 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
8740999 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
8741054 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
8741097 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:8741026 original size:100 final size:104
Alignment explanation
Indices: 8740847--8741096 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
8740837 TGATAATAAC
**
8740847 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
8740912 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
8740949 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
8741012 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
8741054 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8741097 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:8741212 original size:13 final size:13
Alignment explanation
Indices: 8741191--8741222 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8741181 GCTTGGATCA
*
8741191 TCATCAAATAAAT
1 TCATAAAATAAAT
8741204 TCATAAAATAAAT
1 TCATAAAATAAAT
8741217 TCATAA
1 TCATAA
8741223 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:8741469 original size:30 final size:30
Alignment explanation
Indices: 8741434--8741491 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8741424 CCTCGACTCT
*
8741434 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
8741464 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
8741492 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:8750544 original size:23 final size:23
Alignment explanation
Indices: 8750475--8750544 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 23
8750465 GAAATTGTTA
8750475 TTGTTCCTAATCATTATATTTTC
1 TTGTTCCTAATCATTATATTTTC
** * * * *
8750498 -TAATCATTAA-AATTCTTATGTTC
1 TTGTTC-CTAATCATT-ATATTTTC
8750521 TTGTTCCTAATCATTATATTTTC
1 TTGTTCCTAATCATTATATTTTC
8750544 T
1 T
8750545 AGTTTTTTTC
Statistics
Matches: 31, Mismatches: 12, Indels: 8
0.61 0.24 0.16
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.26, C:0.16, G:0.04, T:0.54
Consensus pattern (23 bp):
TTGTTCCTAATCATTATATTTTC
Found at i:8755842 original size:14 final size:14
Alignment explanation
Indices: 8755823--8755850 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8755813 GTTTGTCTTC
8755823 TGAGCAAGCAAAGT
1 TGAGCAAGCAAAGT
8755837 TGAGCAAGCAAAGT
1 TGAGCAAGCAAAGT
8755851 ATAGATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (14 bp):
TGAGCAAGCAAAGT
Found at i:8773197 original size:3 final size:3
Alignment explanation
Indices: 8773182--8773276 Score: 56
Period size: 3 Copynumber: 32.7 Consensus size: 3
8773172 CGAATGAGTA
* *
8773182 AAT AAT TAT AAT AAT AAT AA- AGT AAGT AAT AAT AAT AA- ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT A-AT AAT
* * * * * * *
8773227 ACT AGT AAT AGT AAT AGT AAT AGT AGT AGT AAT AAT -AT AA- AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8773272 AAT AA
1 AAT AA
8773277 ATAAAATAGG
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
2 8 0.11
3 61 0.84
4 4 0.05
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8773225 original size:24 final size:26
Alignment explanation
Indices: 8773178--8773275 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 26
8773168 GATACGAATG
* *
8773178 AGTAAATAATTATAAT-AATAATAA-
1 AGTAAGTAATAATAATAAATAATAAT
8773202 AGTAAGTAATAATAATAAAT-ATAAT
1 AGTAAGTAATAATAATAAATAATAAT
* * * *
8773227 ACT-AGTAATAGTAAT-AGTAATAGT
1 AGTAAGTAATAATAATAAATAATAAT
*
8773251 AGT-AGTAATAAT-ATAAAAAATAAT
1 AGTAAGTAATAATAATAAATAATAAT
8773275 A
1 A
8773276 AATAAAATAG
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
23 4 0.07
24 50 0.85
25 5 0.08
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (26 bp):
AGTAAGTAATAATAATAAATAATAAT
Found at i:8773651 original size:9 final size:9
Alignment explanation
Indices: 8773637--8773666 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8773627 GGGTTTAAGG
8773637 TTTTAGGGT
1 TTTTAGGGT
*
8773646 TTTTAGGAT
1 TTTTAGGGT
8773655 TTTTAGGGT
1 TTTTAGGGT
8773664 TTT
1 TTT
8773667 GGAGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:8776133 original size:14 final size:15
Alignment explanation
Indices: 8776109--8776137 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8776099 TGGGTGCTCG
8776109 AACTCTCTCTTTTCT
1 AACTCTCTCTTTTCT
8776124 AACT-TCTCTTTTCT
1 AACTCTCTCTTTTCT
8776138 TTTTGGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.55
Consensus pattern (15 bp):
AACTCTCTCTTTTCT
Found at i:8777041 original size:100 final size:100
Alignment explanation
Indices: 8776868--8777067 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
8776858 GTTATAATTG
8776868 AAAATTTTATCATGGTTTAACGGATTCTTATAAATTAATTCCACTTATTTTCATACACTAACATA
1 AAAATTTTATCATGGTTTAACGGATTCTTATAAATTAATTCCACTTATTTTCATACACTAACATA
8776933 ATTTTCAACATTAGTTTCACCCGCAACTTATTCAC
66 ATTTTCAACATTAGTTTCACCCGCAACTTATTCAC
8776968 AAAATTTTATCATGGTTTAACGGATTCTTATAAATTAATTCCACTTATTTTCATACACTAACATA
1 AAAATTTTATCATGGTTTAACGGATTCTTATAAATTAATTCCACTTATTTTCATACACTAACATA
8777033 ATTTTCAACATTAGTTTCACCCGCAACTTATTCAC
66 ATTTTCAACATTAGTTTCACCCGCAACTTATTCAC
8777068 TCCAATAATT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (100 bp):
AAAATTTTATCATGGTTTAACGGATTCTTATAAATTAATTCCACTTATTTTCATACACTAACATA
ATTTTCAACATTAGTTTCACCCGCAACTTATTCAC
Found at i:8781277 original size:22 final size:22
Alignment explanation
Indices: 8781236--8781303 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
8781226 TGCACTAATG
**
8781236 AACAGAGAGCACAGGTGTGCTA
1 AACAGAGAGCACAGACGTGCTA
*
8781258 AACAGAGAGCACTGACGTGCTAA
1 AACAGAGAGCACAGACGTGCT-A
*
8781281 AATCATAGAGCACCA-ACGTGCTA
1 AA-CAGAGAGCA-CAGACGTGCTA
8781304 GTAGTTAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
22 18 0.47
23 4 0.11
24 15 0.39
25 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (22 bp):
AACAGAGAGCACAGACGTGCTA
Found at i:8781319 original size:25 final size:25
Alignment explanation
Indices: 8781261--8781366 Score: 142
Period size: 25 Copynumber: 4.3 Consensus size: 25
8781251 TGTGCTAAAC
** *
8781261 AGAGAGCACTGACGTGCTAA-AATC
1 AGAGAGCACCAACGTGCTAATAATT
* * *
8781285 ATAGAGCACCAACGTGCTAGTAGTT
1 AGAGAGCACCAACGTGCTAATAATT
*
8781310 AGAGAGCACCAACGTGCTAATAATC
1 AGAGAGCACCAACGTGCTAATAATT
8781335 AGAGAGCACCAACGTGCTAATAATT
1 AGAGAGCACCAACGTGCTAATAATT
8781360 AGAGAGC
1 AGAGAGC
8781367 GCGCTAAAGT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
24 16 0.23
25 54 0.77
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (25 bp):
AGAGAGCACCAACGTGCTAATAATT
Found at i:8781349 original size:50 final size:49
Alignment explanation
Indices: 8781261--8781366 Score: 158
Period size: 50 Copynumber: 2.1 Consensus size: 49
8781251 TGTGCTAAAC
** * * *
8781261 AGAGAGCACTGACGTGCTAAAATCATAGAGCACCAACGTGCTAGTAGTT
1 AGAGAGCACCAACGTGCTAAAATCAGAGAGCACCAACGTGCTAATAATT
8781310 AGAGAGCACCAACGTGCTAATAATCAGAGAGCACCAACGTGCTAATAATT
1 AGAGAGCACCAACGTGCTAA-AATCAGAGAGCACCAACGTGCTAATAATT
8781360 AGAGAGC
1 AGAGAGC
8781367 GCGCTAAAGT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 18 0.35
50 33 0.65
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (49 bp):
AGAGAGCACCAACGTGCTAAAATCAGAGAGCACCAACGTGCTAATAATT
Found at i:8782373 original size:16 final size:16
Alignment explanation
Indices: 8782352--8782388 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8782342 GTTTTATCTA
8782352 TATAATAATATAATAT
1 TATAATAATATAATAT
8782368 TATAATAATATAATAT
1 TATAATAATATAATAT
*
8782384 AATAA
1 TATAA
8782389 CTTACTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:8782388 original size:8 final size:8
Alignment explanation
Indices: 8782351--8782382 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
8782341 TGTTTTATCT
8782351 ATATAATA
1 ATATAATA
8782359 ATATAATA
1 ATATAATA
*
8782367 TTATAATA
1 ATATAATA
8782375 ATATAATA
1 ATATAATA
8782383 TAATAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:8783271 original size:26 final size:27
Alignment explanation
Indices: 8783235--8783296 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
8783225 GGCCCGGCCC
* * *
8783235 ATTTTTAAAATAAACA-TTAAAAAATT
1 ATTTTAAAAATAAAAAGTAAAAAAATT
8783261 ATTTTAAAAATAAAAAGTAAAAAAATT
1 ATTTTAAAAATAAAAAGTAAAAAAATT
8783288 ATTTTAAAA
1 ATTTTAAAA
8783297 GTATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
ATTTTAAAAATAAAAAGTAAAAAAATT
Found at i:8783302 original size:38 final size:40
Alignment explanation
Indices: 8783255--8783331 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 40
8783245 TAAACATTAA
* *
8783255 AAAATTATTTTAAAAATAAAAAGTAAAAA-AA-TTATTTT
1 AAAAGTATTTTAAAAATAAAAAATAAAAATAATTTATTTT
*
8783293 AAAAGTATTTTAAAATTAAAAAATAAAAATAATTTATTT
1 AAAAGTATTTTAAAAATAAAAAATAAAAATAATTTATTT
8783332 ATTATATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 26 0.76
39 2 0.06
40 6 0.18
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (40 bp):
AAAAGTATTTTAAAAATAAAAAATAAAAATAATTTATTTT
Found at i:8785039 original size:30 final size:30
Alignment explanation
Indices: 8785003--8785086 Score: 116
Period size: 30 Copynumber: 2.8 Consensus size: 30
8784993 GAGAATGTAA
*
8785003 TGCTCACACAAGCTGACAGTATATC-AGGAT
1 TGCTCACACAAGCTGACATTATATCTAGG-T
*
8785033 TGCTCACACAAGCTGACATTATAACTAGGT
1 TGCTCACACAAGCTGACATTATATCTAGGT
* *
8785063 TACTCACACAAGCTGTCATTATAT
1 TGCTCACACAAGCTGACATTATAT
8785087 TGAGGTTACT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 45 0.94
31 3 0.06
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (30 bp):
TGCTCACACAAGCTGACATTATATCTAGGT
Found at i:8785093 original size:30 final size:28
Alignment explanation
Indices: 8785005--8785096 Score: 103
Period size: 30 Copynumber: 3.1 Consensus size: 28
8784995 GAATGTAATG
* *
8785005 CTCACACAAGCTGACAGTATATCAGGATTG
1 CTCACACAAGCTGACATTATAT-AGG-TTA
8785035 CTCACACAAGCTGACATTATAACTAGGTTA
1 CTCACACAAGCTGACATTAT-A-TAGGTTA
*
8785065 CTCACACAAGCTGTCATTATATTGAGGTTA
1 CTCACACAAGCTGACATTATA-T-AGGTTA
8785095 CT
1 CT
8785097 TGTCCTGACT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
29 2 0.04
30 48 0.87
31 4 0.07
32 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (28 bp):
CTCACACAAGCTGACATTATATAGGTTA
Found at i:8785310 original size:113 final size:114
Alignment explanation
Indices: 8785112--8785339 Score: 404
Period size: 113 Copynumber: 2.0 Consensus size: 114
8785102 TGACTAAACC
*
8785112 TACAATACATTTAACTTGAGAATCTGCAACAAATGCTGGATCTCATAATAACATGTAAATCCCTG
1 TACAATAAATTTAACTTGAGAATCTGCAACAAATGCTGGATCTCATAATAACATGTAAATCCCTG
8785177 ATCAAATACGAGTATAACCCTAATGACATGCCA-TAATATCCTAACCTT
66 ATCAAATACGAGTATAACCCTAATGACATGCCATTAATATCCTAACCTT
**
8785225 TACAATAAATTTAACTTGAGAATCTGCAACAAATTTTGGATCTCATAATAACATGTAAATCCCTG
1 TACAATAAATTTAACTTGAGAATCTGCAACAAATGCTGGATCTCATAATAACATGTAAATCCCTG
* *
8785290 ATCAAATATGAGTATAACCCTAATGACATGCCATTCATATCCTAACCTT
66 ATCAAATACGAGTATAACCCTAATGACATGCCATTAATATCCTAACCTT
8785339 T
1 T
8785340 TACTAAGCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
113 94 0.86
114 15 0.14
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (114 bp):
TACAATAAATTTAACTTGAGAATCTGCAACAAATGCTGGATCTCATAATAACATGTAAATCCCTG
ATCAAATACGAGTATAACCCTAATGACATGCCATTAATATCCTAACCTT
Found at i:8789588 original size:11 final size:13
Alignment explanation
Indices: 8789569--8789599 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8789559 TTTATTTAAG
*
8789569 TTATATATAAATA
1 TTATATATAATTA
8789582 TTATATATAATTA
1 TTATATATAATTA
8789595 TTATA
1 TTATA
8789600 ATTATTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATATAATTA
Found at i:8789606 original size:3 final size:3
Alignment explanation
Indices: 8789580--8789650 Score: 54
Period size: 3 Copynumber: 22.7 Consensus size: 3
8789570 TATATATAAA
* * * * *
8789580 TAT TAT ATAT AAT TAT TAT AAT TAT TAAC CAT TAT TAT GGTCT TA- TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT --TAT TAT TAT
8789628 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
8789651 AATAAAGTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 4 0.08
5 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:8790197 original size:12 final size:12
Alignment explanation
Indices: 8790180--8790210 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8790170 GAAGCAGGGG
8790180 AGAAAAAGCGAA
1 AGAAAAAGCGAA
*
8790192 AGAAAAAGGGAA
1 AGAAAAAGCGAA
8790204 AGAAAAA
1 AGAAAAA
8790211 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGCGAA
Found at i:8798192 original size:17 final size:17
Alignment explanation
Indices: 8798150--8798210 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
8798140 TAATTTCAGA
8798150 TTAACTATTTTAA-AAAT
1 TTAA-TATTTTAATAAAT
* *
8798167 ATTATTATTTTAATAGAT
1 -TTAATATTTTAATAAAT
*
8798185 TTAATA-TTAAATTAAAT
1 TTAATATTTTAA-TAAAT
8798202 TTAATATTT
1 TTAATATTT
8798211 ACCTTAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 4 0.11
17 23 0.66
18 8 0.23
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAATATTTTAATAAAT
Found at i:8800367 original size:11 final size:11
Alignment explanation
Indices: 8800353--8800384 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
8800343 CAAACACAAA
8800353 AAAATAAAAAT
1 AAAATAAAAAT
8800364 AAAATAAAAAAT
1 AAAAT-AAAAAT
8800376 AAAATAAAA
1 AAAATAAAA
8800385 CCCCTAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:8800367 original size:12 final size:11
Alignment explanation
Indices: 8800350--8800384 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
8800340 AAACAAACAC
8800350 AAAAAAATAAA
1 AAAAAAATAAA
*
8800361 AATAAAATAAA
1 AAAAAAATAAA
8800372 AAATAAAATAAA
1 AAA-AAAATAAA
8800384 A
1 A
8800385 CCCCTAAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:8800374 original size:18 final size:17
Alignment explanation
Indices: 8800351--8800384 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
8800341 AACAAACACA
8800351 AAAAAATAAAAATAAAAT
1 AAAAAAT-AAAATAAAAT
8800369 AAAAAATAAAATAAAA
1 AAAAAATAAAATAAAA
8800385 CCCCTAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:8804109 original size:83 final size:83
Alignment explanation
Indices: 8803970--8804135 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
8803960 GTCTCTAGTA
*
8803970 GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGTGT
1 GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGCGT
8804035 GTATCTCATTTTAACCTT
66 GTATCTCATTTTAACCTT
8804053 GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGCGT
1 GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGCGT
8804118 GTATCTCATTTTAACCTT
66 GTATCTCATTTTAACCTT
8804136 CTTTTTCTTC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.14, C:0.15, G:0.17, T:0.54
Consensus pattern (83 bp):
GTCTGAAAGTTTGTTTCGTGTTGCTTGTTTTGCAATTTTTCTTTTCTTTTCATCTAAGTGTGCGT
GTATCTCATTTTAACCTT
Found at i:8806584 original size:23 final size:23
Alignment explanation
Indices: 8806553--8806602 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8806543 TGCGCAGGCT
* *
8806553 TATTGTATT-TATCTATTACAATA
1 TATTATATTGTATCT-TTAAAATA
*
8806576 TATTATATTGTTTCTTTAAAATA
1 TATTATATTGTATCTTTAAAATA
8806599 TATT
1 TATT
8806603 TAAAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTATATTGTATCTTTAAAATA
Found at i:8819972 original size:3 final size:3
Alignment explanation
Indices: 8819964--8819990 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8819954 AAGCATAAAG
8819964 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
8819991 CATTGGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8820126 original size:3 final size:3
Alignment explanation
Indices: 8820112--8820162 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
8820102 ACACTAGTAC
* * * * *
8820112 ATA ATT ATA ATA ATA GTA ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8820159 ATA A
1 ATA A
8820163 GGATATTTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8823871 original size:8 final size:8
Alignment explanation
Indices: 8823858--8823884 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8823848 GGCTTACACT
8823858 TTATTTTA
1 TTATTTTA
8823866 TTATTTTA
1 TTATTTTA
8823874 TTATTTTA
1 TTATTTTA
8823882 TTA
1 TTA
8823885 AATGTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:8827181 original size:13 final size:13
Alignment explanation
Indices: 8827163--8827189 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8827153 TAACTTTCTA
8827163 AAAAATGAAAATG
1 AAAAATGAAAATG
8827176 AAAAATGAAAATG
1 AAAAATGAAAATG
8827189 A
1 A
8827190 CCTGCAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:8829581 original size:8 final size:8
Alignment explanation
Indices: 8829570--8829606 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
8829560 TTATTTTATT
8829570 ATAATATA
1 ATAATATA
8829578 ATAATATA
1 ATAATATA
8829586 ATACAATATA
1 AT--AATATA
8829596 ATAATATA
1 ATAATATA
8829604 ATA
1 ATA
8829607 TAACATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 19 0.70
10 8 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATATA
Found at i:8829587 original size:13 final size:13
Alignment explanation
Indices: 8829570--8829609 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
8829560 TTATTTTATT
8829570 ATAATATAATA-A
1 ATAATATAATATA
*
8829582 TATAATACAATATA
1 -ATAATATAATATA
8829596 ATAATATAATATA
1 ATAATATAATATA
8829609 A
1 A
8829610 CATTTACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATATAATATA
Found at i:8829595 original size:18 final size:18
Alignment explanation
Indices: 8829572--8829606 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8829562 ATTTTATTAT
8829572 AATATAATAATATAATAC
1 AATATAATAATATAATAC
8829590 AATATAATAATATAATA
1 AATATAATAATATAATA
8829607 TAACATTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AATATAATAATATAATAC
Found at i:8838801 original size:17 final size:18
Alignment explanation
Indices: 8838779--8838820 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
8838769 AAATTTCATT
8838779 AAAAAAACAAA-GACAAAA
1 AAAAAAACAAAGGA-AAAA
*
8838797 AAAAAAAAAAAGGAAAAA
1 AAAAAAACAAAGGAAAAA
8838815 AAAAAA
1 AAAAAA
8838821 CCCCTAAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAGGAAAAA
Found at i:8838802 original size:18 final size:17
Alignment explanation
Indices: 8838779--8838821 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8838769 AAATTTCATT
8838779 AAAAAAACAAAGACAAAA
1 AAAAAAACAAAG-CAAAA
* *
8838797 AAAAAAAAAAAGGAAAA
1 AAAAAAACAAAGCAAAA
8838814 AAAAAAAC
1 AAAAAAAC
8838822 CCCTAAGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAGCAAAA
Found at i:8844878 original size:23 final size:23
Alignment explanation
Indices: 8844847--8844896 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8844837 TGCGCAGGCT
* *
8844847 TATTGTATT-TATCTATTACAATA
1 TATTATATTGTATCT-TTAAAATA
*
8844870 TATTATATTGTTTCTTTAAAATA
1 TATTATATTGTATCTTTAAAATA
8844893 TATT
1 TATT
8844897 TAAAAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTATATTGTATCTTTAAAATA
Found at i:8852185 original size:31 final size:31
Alignment explanation
Indices: 8852147--8852213 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
8852137 TGGTGAAGTG
8852147 TCTCTCTTTTTAACTATTTTACTGCATTCTT
1 TCTCTCTTTTTAACTATTTTACTGCATTCTT
*
8852178 TCTCTCTTTTTAACTATTTTTCTGCATTCTT
1 TCTCTCTTTTTAACTATTTTACTGCATTCTT
8852209 TCTCT
1 TCTCT
8852214 ATATGGAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.13, C:0.24, G:0.03, T:0.60
Consensus pattern (31 bp):
TCTCTCTTTTTAACTATTTTACTGCATTCTT
Found at i:8852610 original size:14 final size:14
Alignment explanation
Indices: 8852593--8852622 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8852583 TTTCGTCATA
8852593 TACATATATATATG
1 TACATATATATATG
*
8852607 TACATATATGTATG
1 TACATATATATATG
8852621 TA
1 TA
8852623 TGTTTGGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (14 bp):
TACATATATATATG
Found at i:8855271 original size:19 final size:21
Alignment explanation
Indices: 8855249--8855289 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
8855239 TTTACTTGCT
*
8855249 TTTTGTATTT-TTT-ACACAA
1 TTTTATATTTGTTTAACACAA
8855268 TTTTATATTTGTTTAACACAA
1 TTTTATATTTGTTTAACACAA
8855289 T
1 T
8855290 CATTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTATATTTGTTTAACACAA
Found at i:8872167 original size:15 final size:14
Alignment explanation
Indices: 8872130--8872171 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
8872120 ATTTAATTGG
8872130 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
8872143 AATATGAATTAAAT
1 AAAATGAATTAAAT
8872157 AAAAGTGAATTAAAT
1 AAAA-TGAATTAAAT
8872172 TATGATTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 3 0.12
15 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:8878239 original size:37 final size:39
Alignment explanation
Indices: 8878189--8878280 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
8878179 CGGATAGATT
* * *
8878189 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTAT-C
* * *
8878226 CGATGAGACACTGGATGCCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
8878265 CGATGAGGCACTGGGT
1 CGATGAGGCACTGGGT
8878281 GCCATACTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
37 19 0.43
38 2 0.05
39 20 0.45
40 3 0.07
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTACCAACTATTGCTTCGAACTATC
Found at i:8894097 original size:20 final size:20
Alignment explanation
Indices: 8894055--8894105 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
8894045 AAAAAATGAC
* *
8894055 ATTATAATAAATTTAAATTT
1 ATTAAAATAAATTTAAATGT
8894075 ATTAAAATAAATTT-AATAGT
1 ATTAAAATAAATTTAAAT-GT
*
8894095 ATTAGAATAAA
1 ATTAAAATAAA
8894106 AAATTACTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
ATTAAAATAAATTTAAATGT
Found at i:8898986 original size:30 final size:30
Alignment explanation
Indices: 8898950--8899029 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
8898940 GACTTGGTCA
8898950 ACAATCAGCAACTACAATTGGGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
* *
8898980 ACAATCAGCAACTACGATTGTGATATTCTT
1 ACAATCAGCAACTACAATTGGGATATTCTT
8899010 AC-ATGCAGCAACTACAATTG
1 ACAAT-CAGCAACTACAATTG
8899030 CAAATGTCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 2 0.04
30 44 0.96
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (30 bp):
ACAATCAGCAACTACAATTGGGATATTCTT
Found at i:8902998 original size:27 final size:27
Alignment explanation
Indices: 8902967--8903020 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
8902957 AACCAATAGA
*
8902967 AGGATTTATAGTATATTAATATAGAGT
1 AGGATTTATAGTATATTAATACAGAGT
8902994 AGGATTTATAGTATATTAATACAGAGT
1 AGGATTTATAGTATATTAATACAGAGT
8903021 TAATGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGATTTATAGTATATTAATACAGAGT
Found at i:8907819 original size:24 final size:23
Alignment explanation
Indices: 8907767--8907819 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
8907757 AATTAACTAT
*
8907767 TTAAGAATATATTTATATTGAATA
1 TTAAAAATATATTTATATTG-ATA
*
8907791 ATAAAAATATATTTTATATTTG-TA
1 TTAAAAATATA-TTTATA-TTGATA
8907815 TTAAA
1 TTAAA
8907820 TTATAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
24 15 0.62
25 6 0.25
26 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (23 bp):
TTAAAAATATATTTATATTGATA
Found at i:8913645 original size:41 final size:41
Alignment explanation
Indices: 8913588--8913828 Score: 297
Period size: 41 Copynumber: 5.9 Consensus size: 41
8913578 ATATGAGATT
*
8913588 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
*
8913629 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
8913670 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * *
8913711 TTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
* * * * * *
8913752 ATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGA
1 TTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG-AATTA
* * ** *
8913794 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
8913829 TTTTATATAG
Statistics
Matches: 182, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 2 0.01
41 173 0.95
42 7 0.04
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:8914518 original size:14 final size:15
Alignment explanation
Indices: 8914494--8914528 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
8914484 TACTTTAATC
8914494 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
8914509 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
8914524 ATGGT
1 ATGGT
8914529 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:8919709 original size:34 final size:34
Alignment explanation
Indices: 8919671--8919739 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
8919661 AGTTTGAATG
8919671 TATGATACAAGTTCTTTGATTCTTTGAGTTGAAC
1 TATGATACAAGTTCTTTGATTCTTTGAGTTGAAC
8919705 TATGATACAAGTTCTTTGATTCTTTGAGTTGAAC
1 TATGATACAAGTTCTTTGATTCTTTGAGTTGAAC
8919739 T
1 T
8919740 TAATATTATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (34 bp):
TATGATACAAGTTCTTTGATTCTTTGAGTTGAAC
Found at i:8920078 original size:41 final size:41
Alignment explanation
Indices: 8920021--8920307 Score: 380
Period size: 41 Copynumber: 7.0 Consensus size: 41
8920011 TTGTATATGA
8920021 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
8920062 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
8920103 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
8920144 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
* * * * *
8920185 AATTATTTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
* * * * * *
8920226 AATTAATTCCGACTTTATGTCTAGCAGGCTTTG-TGCCGGTG
1 GATTATTTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTG
* * * * ** *
8920267 AAATGA-ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 -GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
8920308 TTTTATATAG
Statistics
Matches: 228, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
40 2 0.01
41 219 0.96
42 7 0.03
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (41 bp):
GATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
Found at i:8920997 original size:14 final size:16
Alignment explanation
Indices: 8920973--8921006 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
8920963 TACTTTAATC
8920973 ATGGATTAGTATTT-T
1 ATGGATTAGTATTTAT
8920988 ATGG-TTAGTATTTAT
1 ATGGATTAGTATTTAT
8921003 ATGG
1 ATGG
8921007 CAATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (16 bp):
ATGGATTAGTATTTAT
Found at i:8929189 original size:29 final size:29
Alignment explanation
Indices: 8929157--8929235 Score: 77
Period size: 31 Copynumber: 2.7 Consensus size: 29
8929147 TTGTAACTTT
8929157 TTAAAGTTTAATGATCAAATCAGATTATC
1 TTAAAGTTTAATGATCAAATCAGATTATC
* * * * * * *
8929186 TTAAAAATATTAGTGACCAAATTATATTTTT
1 TT-AAAGT-TTAATGATCAAATCAGATTATC
8929217 TTAAAGTTTAATGATCAAA
1 TTAAAGTTTAATGATCAAA
8929236 ACAAACCATC
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
29 12 0.32
30 8 0.21
31 18 0.47
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.41
Consensus pattern (29 bp):
TTAAAGTTTAATGATCAAATCAGATTATC
Found at i:8929247 original size:60 final size:60
Alignment explanation
Indices: 8929126--8929257 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 60
8929116 AAAAATCATT
* ** * * * **
8929126 TTAAAAATATAAGTGATTAAATTGTAACTTTTTAAAGTTTAATGATCAAATCAGATTATC
1 TTAAAAATATTAGTGACCAAATTATAACTTTTTAAAGTTTAATGATCAAAACAAACCATC
**
8929186 TTAAAAATATTAGTGACCAAATTATATTTTTTTAAAGTTTAATGATCAAAACAAACCATC
1 TTAAAAATATTAGTGACCAAATTATAACTTTTTAAAGTTTAATGATCAAAACAAACCATC
*
8929246 TTGAAAATATTA
1 TTAAAAATATTA
8929258 ACGAAAGCCG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (60 bp):
TTAAAAATATTAGTGACCAAATTATAACTTTTTAAAGTTTAATGATCAAAACAAACCATC
Found at i:8940508 original size:19 final size:19
Alignment explanation
Indices: 8940486--8940524 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8940476 AAAAAGAGAA
8940486 CTTAAAAAGAAAATAAAAC
1 CTTAAAAAGAAAATAAAAC
*
8940505 CTTAAAATGAAAATAAAAC
1 CTTAAAAAGAAAATAAAAC
8940524 C
1 C
8940525 ACTAGTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (19 bp):
CTTAAAAAGAAAATAAAAC
Found at i:8941014 original size:16 final size:16
Alignment explanation
Indices: 8940976--8941016 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
8940966 AAACTCAGGT
*
8940976 TTTTAGGGTTTGGGTCA
1 TTTT-GGGTTTGGGCCA
8940993 -TTTGGGTTTGGGCCA
1 TTTTGGGTTTGGGCCA
8941008 TTTTGGGTT
1 TTTTGGGTT
8941017 CAAATGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.07, C:0.07, G:0.37, T:0.49
Consensus pattern (16 bp):
TTTTGGGTTTGGGCCA
Found at i:8972247 original size:8 final size:8
Alignment explanation
Indices: 8972234--8972268 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
8972224 TTTCTTATAA
*
8972234 AGAGAGAG
1 AGAGAGGG
8972242 AGAGAGGG
1 AGAGAGGG
8972250 AGAGAGGG
1 AGAGAGGG
8972258 AGAGAGGG
1 AGAGAGGG
8972266 AGA
1 AGA
8972269 AGGAGCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (8 bp):
AGAGAGGG
Found at i:8973069 original size:2 final size:2
Alignment explanation
Indices: 8973064--8973093 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8973054 ATATTTTGTT
*
8973064 AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8973094 CATAGGAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8975843 original size:6 final size:6
Alignment explanation
Indices: 8975828--8975875 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
8975818 TGTACCAACA
* * *
8975828 CTGCTC CTGCTT CTGCTC CTGCTT CTGCTC CTGCTG CTGCTC CTGCTC
1 CTGCTC CTGCTC CTGCTC CTGCTC CTGCTC CTGCTC CTGCTC CTGCTC
8975876 TTCCACGAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.44, G:0.19, T:0.38
Consensus pattern (6 bp):
CTGCTC
Found at i:8975845 original size:12 final size:12
Alignment explanation
Indices: 8975828--8975874 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
8975818 TGTACCAACA
8975828 CTGCTCCTGCTT
1 CTGCTCCTGCTT
8975840 CTGCTCCTGCTT
1 CTGCTCCTGCTT
*
8975852 CTGCTCCTGCTG
1 CTGCTCCTGCTT
8975864 CTGCTCCTGCT
1 CTGCTCCTGCT
8975875 CTTCCACGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.00, C:0.43, G:0.19, T:0.38
Consensus pattern (12 bp):
CTGCTCCTGCTT
Found at i:8977216 original size:19 final size:19
Alignment explanation
Indices: 8977192--8977230 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8977182 AATCCAAATT
8977192 ATGCAAAACAAATCTTTAC
1 ATGCAAAACAAATCTTTAC
8977211 ATGCAAAACAAATCTTTAC
1 ATGCAAAACAAATCTTTAC
8977230 A
1 A
8977231 ACATTAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (19 bp):
ATGCAAAACAAATCTTTAC
Found at i:8984974 original size:2 final size:2
Alignment explanation
Indices: 8984969--8985004 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8984959 ATATTTTGTT
*
8984969 AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8985005 CATAGGAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8987205 original size:6 final size:6
Alignment explanation
Indices: 8987196--8987257 Score: 106
Period size: 6 Copynumber: 10.3 Consensus size: 6
8987186 TGCGGTTGTG
* *
8987196 GCTCCT GCTCCT GCTCCT GCTCCT GCTTCT GCTCCT GCTCCT GCTGCT
1 GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT
8987244 GCTCCT GCTCCT GC
1 GCTCCT GCTCCT GC
8987258 ACCAGCTCCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.00, C:0.47, G:0.19, T:0.34
Consensus pattern (6 bp):
GCTCCT
Found at i:8993269 original size:27 final size:27
Alignment explanation
Indices: 8993239--8993303 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
8993229 CCTATCAGGT
8993239 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
8993266 AGGCGTCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
8993293 AGGCGCCAATG
1 AGGCGCCAATG
8993304 GTGGCCTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.22, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:8993441 original size:3 final size:3
Alignment explanation
Indices: 8993435--8993480 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
8993425 AAAAGAGAGA
*
8993435 AAG AAG AAG AAG -AG AAG GAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
8993481 AGAAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:8993577 original size:12 final size:12
Alignment explanation
Indices: 8993560--8993585 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8993550 TTTGTGAATT
8993560 TTTTAGAAGATA
1 TTTTAGAAGATA
8993572 TTTTAGAAGATA
1 TTTTAGAAGATA
8993584 TT
1 TT
8993586 GTGAGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTTAGAAGATA
Found at i:8993680 original size:22 final size:22
Alignment explanation
Indices: 8993653--8993719 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
8993643 TGGATTAGAA
*
8993653 TTTTGTATGAATATTCTAATTT
1 TTTTGTATGAATATTGTAATTT
8993675 TTTTGTATGAATATTGTAA--T
1 TTTTGTATGAATATTGTAATTT
*
8993695 TTTT-TATGAATATTGTAATTA
1 TTTTGTATGAATATTGTAATTT
8993716 TTTT
1 TTTT
8993720 ATAATTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
19 14 0.34
20 5 0.12
21 4 0.10
22 18 0.44
ACGTcount: A:0.28, C:0.01, G:0.10, T:0.60
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Found at i:8993696 original size:41 final size:41
Alignment explanation
Indices: 8993651--8993870 Score: 168
Period size: 41 Copynumber: 5.2 Consensus size: 41
8993641 TTTGGATTAG
8993651 AATTTTGTATGAATATTCTAATTTTTTTGTATGAATATTGT
1 AATTTTGTATGAATATTCTAATTTTTTTGTATGAATATTGT
* * *
8993692 AATTTTTTATGAATATTGTAA-TTATTT-TAT--A-A-T-T
1 AATTTTGTATGAATATTCTAATTTTTTTGTATGAATATTGT
* ** * *
8993726 AAATTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGT
1 AATTTTGTATGAATA-TTCT-AATT--T-TTTTGTATGAATATTGT
*
8993772 AATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTAT
1 AATTTTGTATGAATATTCTAATTTTTTTGTATGAATATTG--------T
*
8993821 AATTTTATATGAATATTGC-AATTTTTTTGTATGAATATTGT
1 AATTTTGTATGAATATT-CTAATTTTTTTGTATGAATATTGT
8993862 AATTTTGTA
1 AATTTTGTA
8993871 ATTTTGTATG
Statistics
Matches: 140, Mismatches: 18, Indels: 42
0.70 0.09 0.21
Matches are distributed among these distances:
34 12 0.09
35 4 0.03
36 2 0.01
37 2 0.01
39 4 0.03
40 8 0.06
41 47 0.34
42 1 0.01
43 1 0.01
44 4 0.03
45 4 0.03
46 13 0.09
49 38 0.27
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.55
Consensus pattern (41 bp):
AATTTTGTATGAATATTCTAATTTTTTTGTATGAATATTGT
Found at i:8993824 original size:49 final size:49
Alignment explanation
Indices: 8993764--8993944 Score: 235
Period size: 49 Copynumber: 3.7 Consensus size: 49
8993754 ATTTTGTATG
8993764 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * *
8993813 AATATTATAATTTTATATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
* * ** *
8993862 AATTTTGTAATTTTGTATGAATATTGTAA--TGTCGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
*
8993907 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTT
1 AATATTGTAA--TTTTGTATGAATATTGTAATTTTTTT
8993945 ATAAGTAATT
Statistics
Matches: 112, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 16 0.14
47 24 0.21
49 72 0.64
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGT
Found at i:8993834 original size:27 final size:26
Alignment explanation
Indices: 8993764--8993891 Score: 146
Period size: 27 Copynumber: 5.1 Consensus size: 26
8993754 ATTTTGTATG
8993764 AATATTGTAATTTTGTATGAATATTGT
1 AATATT-TAATTTTGTATGAATATTGT
8993791 -A-ATTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
*
8993813 AATATTATAATTTTATATGAATATTG-
1 AATATT-TAATTTTGTATGAATATTGT
*
8993839 CA-ATTT--TTTTGTATGAATATTGT
1 AATATTTAATTTTGTATGAATATTGT
*
8993862 AATTTTGTAATTTTGTATGAATATTGT
1 AATATT-TAATTTTGTATGAATATTGT
8993889 AAT
1 AAT
8993892 GTCGGGATAT
Statistics
Matches: 86, Mismatches: 5, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
22 32 0.37
23 2 0.02
24 7 0.08
25 8 0.09
26 2 0.02
27 35 0.41
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (26 bp):
AATATTTAATTTTGTATGAATATTGT
Found at i:8993891 original size:19 final size:19
Alignment explanation
Indices: 8993651--8993870 Score: 131
Period size: 19 Copynumber: 11.5 Consensus size: 19
8993641 TTTGGATTAG
*
8993651 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
8993670 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
8993692 AATTTTTTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
8993711 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
8993734 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
8993754 -ATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
8993772 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
8993791 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
8993805 AATATTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
* *
8993821 AATTTTATATGAATATTGC
1 AATTTTGTATGAATATTGT
8993840 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
8993862 AATTTTGTA
1 AATTTTGTA
8993871 ATTTTGTATG
Statistics
Matches: 158, Mismatches: 18, Indels: 50
0.70 0.08 0.22
Matches are distributed among these distances:
13 1 0.01
14 7 0.04
15 3 0.02
16 7 0.04
17 5 0.03
18 8 0.05
19 64 0.41
20 14 0.09
21 1 0.01
22 40 0.25
23 4 0.03
24 3 0.02
25 1 0.01
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:8993998 original size:60 final size:60
Alignment explanation
Indices: 8993932--8994053 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
8993922 TGTATGAATA
* * * * * *
8993932 TTGTAATTATTTTATAA-GTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATGTAATTTATTAGTAATTTAAGATTAAGCTATAAATTGTTGTGT
* *
8993992 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAAGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTAAAATGTAATTTATTAGTAATTTAAGATTAAGCTATAAATTGTTGTGT
8994052 TT
1 TT
8994054 AGTTTAGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 6 0.11
60 47 0.89
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTAAAATGTAATTTATTAGTAATTTAAGATTAAGCTATAAATTGTTGTGT
Found at i:8994138 original size:37 final size:37
Alignment explanation
Indices: 8994087--8994167 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
8994077 CATATAAAGT
8994087 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGTTTAA
8994125 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
8994162 TTATAA
1 TTATAA
8994168 CTGACTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 39 0.91
38 4 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (37 bp):
TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
Found at i:8997972 original size:22 final size:23
Alignment explanation
Indices: 8997944--8997986 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
8997934 AAATACCTTA
*
8997944 TTTTTTTCTTCT-TTTCCTTCCT
1 TTTTTTTCTTCTGCTTCCTTCCT
8997966 TTTTTTTCTTCTGCTTCCTTC
1 TTTTTTTCTTCTGCTTCCTTC
8997987 TTATTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTTTCTTCTGCTTCCTTCCT
Found at i:8997974 original size:19 final size:19
Alignment explanation
Indices: 8997945--8997997 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
8997935 AATACCTTAT
*
8997945 TTTTTTCTTCTTTTCCTTCC
1 TTTTTT-TTCTTCTCCTTCC
*
8997965 TTTTTTTTCTTCTGCTTCC
1 TTTTTTTTCTTCTCCTTCC
*
8997984 TTCTTATTTCTTCT
1 TT-TTTTTTCTTCT
8997998 GTTTCTCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTTTTCTTCTCCTTCC
Found at i:8997997 original size:23 final size:23
Alignment explanation
Indices: 8997939--8997997 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
8997929 AACCAAAATA
*
8997939 CCTTATTTTTTTCTTCTTTTCCTT
1 CCTTA-TTTTTTCTTCTCTTCCTT
8997963 CCTT-TTTTTTCTTCTGCTTCCTT
1 CCTTATTTTTTCTTCT-CTTCCTT
*
8997986 -CTTATTTCTTCT
1 CCTTATTTTTTCT
8997998 GTTTCTCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 14 0.45
23 13 0.42
24 4 0.13
ACGTcount: A:0.03, C:0.27, G:0.02, T:0.68
Consensus pattern (23 bp):
CCTTATTTTTTCTTCTCTTCCTT
Found at i:9004428 original size:6 final size:6
Alignment explanation
Indices: 9004417--9004451 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
9004407 AGTTTATTTG
* *
9004417 TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
9004452 GTTGTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:9004441 original size:18 final size:17
Alignment explanation
Indices: 9004418--9004463 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
9004408 GTTTATTTGT
9004418 TTTATTTTTATTTTTATG
1 TTTATTTTTATTTTTA-G
*
9004436 TTTATTGTTATTTTTAG
1 TTTATTTTTATTTTTAG
*
9004453 -TTGTTTTTATT
1 TTTATTTTTATT
9004464 GTCACTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.36
17 1 0.04
18 15 0.60
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTTTTAG
Found at i:9010444 original size:12 final size:12
Alignment explanation
Indices: 9010427--9010454 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
9010417 CGGGGCAACT
9010427 TGGTCTGCTTCA
1 TGGTCTGCTTCA
9010439 TGGTCTGCTTCA
1 TGGTCTGCTTCA
9010451 TGGT
1 TGGT
9010455 TTGCATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.29, T:0.43
Consensus pattern (12 bp):
TGGTCTGCTTCA
Found at i:9023681 original size:20 final size:21
Alignment explanation
Indices: 9023648--9023693 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
9023638 AAATCTAAGC
*
9023648 TTTTATAGGAAAATATTGGGT
1 TTTTATAGGAAAATATTGGCT
*
9023669 TTTTATAGG-AAATGTTGGCT
1 TTTTATAGGAAAATATTGGCT
9023689 TTTTA
1 TTTTA
9023694 CAGGGATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (21 bp):
TTTTATAGGAAAATATTGGCT
Found at i:9023768 original size:23 final size:23
Alignment explanation
Indices: 9023710--9023768 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
9023700 TAAACTTAGA
9023710 TTTTTACAAGGAATAATCATTTTAT
1 TTTTTACAA-GAAT-ATCATTTTAT
**
9023735 TTTTT-TTAGAAT-TCATTTTAAT
1 TTTTTACAAGAATATCATTTT-AT
9023757 TTTTTACAAGAA
1 TTTTTACAAGAA
9023769 AAATCAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 7 0.25
22 7 0.25
23 8 0.29
24 1 0.04
25 5 0.18
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.53
Consensus pattern (23 bp):
TTTTTACAAGAATATCATTTTAT
Found at i:9028206 original size:3 final size:3
Alignment explanation
Indices: 9028185--9028230 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
9028175 ATTTTTATAA
* * * *
9028185 TAT TAT TAC TAT TAC TAT TAT TAT TAT CAT TAT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9028231 TTTTAAAACT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9030395 original size:3 final size:3
Alignment explanation
Indices: 9030375--9030417 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
9030365 TCCACCTCTA
* *
9030375 CTT CTT GCTT CCT CTT CTT CTT CTT CTT CTT CTT CTT TTT CTT
1 CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9030418 TTTTCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:9035783 original size:13 final size:13
Alignment explanation
Indices: 9035767--9035796 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9035757 TCAACCTATG
9035767 TGCCTAACCAATA
1 TGCCTAACCAATA
9035780 TGCCTAACCAATA
1 TGCCTAACCAATA
9035793 TGCC
1 TGCC
9035797 CTCATTGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.23
Consensus pattern (13 bp):
TGCCTAACCAATA
Found at i:9037740 original size:25 final size:25
Alignment explanation
Indices: 9037712--9037776 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
9037702 TGTAAATGGG
* *
9037712 AAGCTCTTCCGAGCTATATAACAGA
1 AAGCTCATCCGAGCTAAATAACAGA
** *
9037737 AAGCTCATGTGAGCTAAATAACAGG
1 AAGCTCATCCGAGCTAAATAACAGA
* *
9037762 AAGATCATGCGAGCT
1 AAGCTCATCCGAGCT
9037777 GTATATCGGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (25 bp):
AAGCTCATCCGAGCTAAATAACAGA
Found at i:9037775 original size:50 final size:49
Alignment explanation
Indices: 9037721--9037826 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 49
9037711 GAAGCTCTTC
**
9037721 CGAGCTATATAACAGAAAGCTCATGTGAGCT-AAATAACAGGAAGATCATG
1 CGAGCTATATAACAGAAAGCTCATAAGAGCTGAAAT--CAGGAAGATCATG
* * * * * *
9037771 CGAGCTGTATATCGGGAAGCTCATAAGAGCTGAAATCGGGAAGCTCATG
1 CGAGCTATATAACAGAAAGCTCATAAGAGCTGAAATCAGGAAGATCATG
9037820 CGAGCTA
1 CGAGCTA
9037827 AATATTGGGA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
49 17 0.37
50 25 0.54
51 4 0.09
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (49 bp):
CGAGCTATATAACAGAAAGCTCATAAGAGCTGAAATCAGGAAGATCATG
Found at i:9037788 original size:25 final size:24
Alignment explanation
Indices: 9037737--9037841 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 24
9037727 ATATAACAGA
* *
9037737 AAGCTCATGTGAGCT-AAATAACAGG
1 AAGCTCATGCGAGCTGAAAT--CGGG
* *
9037762 AAGATCATGCGAGCTGTATATCGGG
1 AAGCTCATGCGAGCTG-AAATCGGG
**
9037787 AAGCTCATAAGAGCTGAAATCGGG
1 AAGCTCATGCGAGCTGAAATCGGG
* *
9037811 AAGCTCATGCGAGCTAAATATTGGG
1 AAGCTCATGCGAGCTGAA-ATCGGG
9037836 AAGCTC
1 AAGCTC
9037842 TTAAAAGCTG
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
24 22 0.34
25 40 0.62
27 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (24 bp):
AAGCTCATGCGAGCTGAAATCGGG
Found at i:9037813 original size:24 final size:24
Alignment explanation
Indices: 9037772--9037851 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
9037762 AAGATCATGC
*
9037772 GAGCTGTATATCGGGAAGCTCATAA
1 GAGCTG-AAATCGGGAAGCTCATAA
**
9037797 GAGCTGAAATCGGGAAGCTCATGC
1 GAGCTGAAATCGGGAAGCTCATAA
* * *
9037821 GAGCTAAATATTGGGAAGCTCTTAA
1 GAGCTGAA-ATCGGGAAGCTCATAA
*
9037846 AAGCTG
1 GAGCTG
9037852 TGGTGTGTTC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (24 bp):
GAGCTGAAATCGGGAAGCTCATAA
Found at i:9039012 original size:13 final size:13
Alignment explanation
Indices: 9038994--9039168 Score: 77
Period size: 13 Copynumber: 13.2 Consensus size: 13
9038984 TATTTATATC
9038994 CATATAAACATTT
1 CATATAAACATTT
9039007 CATATAAACATTT
1 CATATAAACATTT
9039020 CATAT-AACTATTT
1 CATATAAAC-ATTT
** *
9039033 CCATATAGCCGA-AT
1 -CATATAAAC-ATTT
9039047 CATATAAACATTT
1 CATATAAACATTT
***
9039060 CATATATTTATTT
1 CATATAAACATTT
* * *
9039073 CCATACAATCAATT
1 -CATATAAACATTT
* * *
9039087 CACATAACCATTC
1 CATATAAACATTT
*
9039100 CATAT-ATCTATTT
1 CATATAAAC-ATTT
*
9039113 CCATATAATCATTT
1 -CATATAAACATTT
* * **
9039127 CGTATATATGTTT
1 CATATAAACATTT
* *
9039140 CCATATAATCAATT
1 -CATATAAACATTT
*
9039154 CATATAACCATTT
1 CATATAAACATTT
9039167 CA
1 CA
9039169 AATATTCATT
Statistics
Matches: 118, Mismatches: 35, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
12 6 0.05
13 76 0.64
14 31 0.26
15 5 0.04
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.39
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:9039038 original size:40 final size:40
Alignment explanation
Indices: 9038983--9039132 Score: 158
Period size: 40 Copynumber: 3.8 Consensus size: 40
9038973 CACTTTTTAC
* * *
9038983 ATATTTATATCCATATAAACATTTCATATAAACATTTCAT
1 ATATCTATTTCCATATAATCATTTCATATAAACATTTCAT
* ** *
9039023 ATAACTATTTCCATATAGCCGA-ATCATATAAACATTTCAT
1 ATATCTATTTCCATATAATC-ATTTCATATAAACATTTCAT
* * * * * *
9039063 ATATTTATTTCCATACAATCAATTCACATAACCATTCCAT
1 ATATCTATTTCCATATAATCATTTCATATAAACATTTCAT
*
9039103 ATATCTATTTCCATATAATCATTTCGTATA
1 ATATCTATTTCCATATAATCATTTCATATA
9039133 TATGTTTCCA
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
39 1 0.01
40 86 0.98
41 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (40 bp):
ATATCTATTTCCATATAATCATTTCATATAAACATTTCAT
Found at i:9039116 original size:14 final size:14
Alignment explanation
Indices: 9039097--9039146 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9039087 CACATAACCA
9039097 TTCCATATATCTAT
1 TTCCATATATCTAT
9039111 TTCCATATAATC-AT
1 TTCCATAT-ATCTAT
* * *
9039125 TT-CGTATATATGT
1 TTCCATATATCTAT
9039138 TTCCATATA
1 TTCCATATA
9039147 ATCAATTCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 2 0.07
13 7 0.24
14 17 0.59
15 3 0.10
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.48
Consensus pattern (14 bp):
TTCCATATATCTAT
Found at i:9039167 original size:27 final size:27
Alignment explanation
Indices: 9038994--9039167 Score: 81
Period size: 27 Copynumber: 6.5 Consensus size: 27
9038984 TATTTATATC
* * *
9038994 CATATAAACATTT-CATATAAACATTT
1 CATATAACCATTTCCATATAATCAATT
* **
9039020 CATATAACTATTTCCATATAGCCGAA-T
1 CATATAACCATTTCCATATAATC-AATT
* * * *
9039047 CATATAAACATTT-CATATATTTATTT
1 CATATAACCATTTCCATATAATCAATT
* * * * *
9039073 CCATACAATCAATT-CACATAA-CCATT
1 -CATATAACCATTTCCATATAATCAATT
* * *
9039099 CCATATATCTATTTCCATATAATCATTT
1 -CATATAACCATTTCCATATAATCAATT
* **
9039127 CGTATATA-TGTTTCCATATAATCAATT
1 CATATA-ACCATTTCCATATAATCAATT
9039154 CATATAACCATTTC
1 CATATAACCATTTC
9039168 AAATATTCAT
Statistics
Matches: 106, Mismatches: 34, Indels: 15
0.68 0.22 0.10
Matches are distributed among these distances:
25 1 0.01
26 30 0.28
27 71 0.67
28 4 0.04
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (27 bp):
CATATAACCATTTCCATATAATCAATT
Found at i:9039340 original size:13 final size:13
Alignment explanation
Indices: 9039324--9039470 Score: 82
Period size: 13 Copynumber: 11.1 Consensus size: 13
9039314 TATAGCCAAA
*
9039324 TCATATAAACATT
1 TCATATAATCATT
* *
9039337 TCATATATTTATT
1 TCATATAATCATT
* *
9039350 TCCATACAATCAAT
1 T-CATATAATCATT
*
9039364 TCATATAACCATT
1 TCATATAATCATT
*
9039377 CCATAT-ATCTATT
1 TCATATAATC-ATT
*
9039390 TCCATATAATCAAT
1 T-CATATAATCATT
*
9039404 TCATATAACCATT
1 TCATATAATCATT
* * *
9039417 TCGTGTATAT-GTT
1 TCATATA-ATCATT
* *
9039430 TCCATATAATAAAT
1 T-CATATAATCATT
*
9039444 TCATATAACCATT
1 TCATATAATCATT
* *
9039457 TCAAATATTCATT
1 TCATATAATCATT
9039470 T
1 T
9039471 TTCCACCCAA
Statistics
Matches: 97, Mismatches: 30, Indels: 14
0.69 0.21 0.10
Matches are distributed among these distances:
12 2 0.02
13 68 0.70
14 24 0.25
15 3 0.03
ACGTcount: A:0.37, C:0.18, G:0.02, T:0.42
Consensus pattern (13 bp):
TCATATAATCATT
Found at i:9039350 original size:40 final size:40
Alignment explanation
Indices: 9039306--9039470 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
9039296 CCCATATAGC
** *
9039306 TATTTCCATATAGCCAAATCATATAAACATTTCATATATT
1 TATTTCCATATAATCAAATCATATAACCATTTCATATATT
* * * *
9039346 TATTTCCATACAATCAATTCATATAACCATTCCATATATC
1 TATTTCCATATAATCAAATCATATAACCATTTCATATATT
* * * *
9039386 TATTTCCATATAATCAATTCATATAACCATTTCGTGTATA
1 TATTTCCATATAATCAAATCATATAACCATTTCATATATT
* *
9039426 TGTTTCCATATAAT-AAATTCATATAACCATTTCAAATATT
1 TATTTCCATATAATCAAA-TCATATAACCATTTCATATATT
*
9039466 CATTT
1 TATTT
9039471 TTCCACCCAA
Statistics
Matches: 104, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 2 0.02
40 102 0.98
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (40 bp):
TATTTCCATATAATCAAATCATATAACCATTTCATATATT
Found at i:9039417 original size:27 final size:28
Alignment explanation
Indices: 9039297--9039418 Score: 74
Period size: 27 Copynumber: 4.5 Consensus size: 28
9039287 TAAACTATTC
* * ** *
9039297 CCATATAGCTATTTCCATATAGCCAAAT
1 CCATATAACCATTTCCATATAATCAATT
* * * *
9039325 -CATATAAACATTT-CATATATTTATTT
1 CCATATAACCATTTCCATATAATCAATT
* * * *
9039351 CCATACAATCAATT-CATATAA-CCATT
1 CCATATAACCATTTCCATATAATCAATT
* *
9039377 CCATATATCTATTTCCATATAATCAATT
1 CCATATAACCATTTCCATATAATCAATT
9039405 -CATATAACCATTTC
1 CCATATAACCATTTC
9039419 GTGTATATGT
Statistics
Matches: 68, Mismatches: 23, Indels: 7
0.69 0.23 0.07
Matches are distributed among these distances:
26 19 0.28
27 45 0.66
28 4 0.06
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.39
Consensus pattern (28 bp):
CCATATAACCATTTCCATATAATCAATT
Found at i:9039432 original size:80 final size:80
Alignment explanation
Indices: 9039297--9039456 Score: 221
Period size: 80 Copynumber: 2.0 Consensus size: 80
9039287 TAAACTATTC
* * *
9039297 CCATATAGCTATTTCCATATAGCCAAATCATATAAACATTTCATATATTTATTTCCATACAATCA
1 CCATATAGCTATTTCCATATAACCAAATCATATAAACATTTCATATATATATTTCCATACAATAA
9039362 ATTCATATAACCATT
66 ATTCATATAACCATT
* * * * * * * *
9039377 CCATATATCTATTTCCATATAATCAATTCATATAACCATTTCGTGTATATGTTTCCATATAATAA
1 CCATATAGCTATTTCCATATAACCAAATCATATAAACATTTCATATATATATTTCCATACAATAA
9039442 ATTCATATAACCATT
66 ATTCATATAACCATT
9039457 TCAAATATTC
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (80 bp):
CCATATAGCTATTTCCATATAACCAAATCATATAAACATTTCATATATATATTTCCATACAATAA
ATTCATATAACCATT
Found at i:9044380 original size:18 final size:18
Alignment explanation
Indices: 9044320--9044393 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 18
9044310 GATTTCAAAT
9044320 AAATTTATTATATCATTCTTA
1 AAATTT-TTATA-CATT-TTA
* * *
9044341 TAATTTTTACAAATATTATA
1 AAATTTTTATACAT-TT-TA
9044361 AAATTTTTATACATTTT-
1 AAATTTTTATACATTTTA
9044378 AAATTTTTA-ACATTTT
1 AAATTTTTATACATTTT
9044394 TATATTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 7 0.16
17 9 0.20
18 1 0.02
19 5 0.11
20 18 0.40
21 5 0.11
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTTTTATACATTTTA
Found at i:9044402 original size:18 final size:17
Alignment explanation
Indices: 9044361--9044413 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 17
9044351 AAATATTATA
9044361 AAATTTTTATACA-TTTT
1 AAATTTTTA-ACATTTTT
9044378 AAATTTTTAACATTTTT
1 AAATTTTTAACATTTTT
*
9044395 ATATTTTTTAACAATTTTT
1 A-AATTTTTAAC-ATTTTT
9044414 TTTAATTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 3 0.09
17 14 0.44
18 9 0.28
19 6 0.19
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATTTTTAACATTTTT
Found at i:9046102 original size:19 final size:18
Alignment explanation
Indices: 9046071--9046113 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
9046061 TTTTTTTGAG
9046071 AAAAAAATCGAATACAAA
1 AAAAAAATCGAATACAAA
*
9046089 AAAAAAGATTGAATACAAA
1 AAAAAA-ATCGAATACAAA
9046108 AAAAAA
1 AAAAAA
9046114 TCAAAGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAAATCGAATACAAA
Done.