Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 298 of 328
Found at i:88946913 original size:16 final size:16
Alignment explanation
Indices: 88946886--88946923 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
88946876 TTAAACCAAA
88946886 CTTAAT-TAATTAAAC
1 CTTAATCTAATTAAAC
*
88946901 CTTAATCTAATTAAAT
1 CTTAATCTAATTAAAC
88946917 CTTAATC
1 CTTAATC
88946924 ACATTTAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (16 bp):
CTTAATCTAATTAAAC
Found at i:88955721 original size:12 final size:12
Alignment explanation
Indices: 88955701--88955737 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
88955691 TTTTTTAGCC
88955701 ATGGATTCCACT
1 ATGGATTCCACT
*
88955713 ATGGGTTCCACT
1 ATGGATTCCACT
*
88955725 GTGGATTCCACT
1 ATGGATTCCACT
88955737 A
1 A
88955738 CCTTTATCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (12 bp):
ATGGATTCCACT
Found at i:88957848 original size:23 final size:22
Alignment explanation
Indices: 88957801--88957851 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
88957791 ATTTTAATAT
*
88957801 TTAATTTTTTTTTAACTTTATA
1 TTAATTTTTTATTAACTTTATA
*
88957823 TTAATATTTTTATTAATTATTA-A
1 TTAAT-TTTTTATTAACT-TTATA
88957846 TTAATT
1 TTAATT
88957852 ATATTTAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAATTTTTTATTAACTTTATA
Found at i:88961042 original size:16 final size:15
Alignment explanation
Indices: 88961012--88961045 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
88961002 TAATGTTTTA
*
88961012 ATTATTTTTTATCAT
1 ATTATTTTGTATCAT
88961027 ATTATATTTGTATCAT
1 ATTAT-TTTGTATCAT
88961043 ATT
1 ATT
88961046 GTCGTAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTATTTTGTATCAT
Found at i:88964642 original size:42 final size:42
Alignment explanation
Indices: 88964584--88964666 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
88964574 TGATTTTCGG
* * *
88964584 TCAATTTCACTGAAACTTCAAGGAGATCTGCTGTAGCTTTAA
1 TCAATTCCACTAAAACTTCAAGGAGATCTGATGTAGCTTTAA
*
88964626 TCAATTCCACTAAAACTTCAAGGAGATCTGATGTGGCTTTA
1 TCAATTCCACTAAAACTTCAAGGAGATCTGATGTAGCTTTA
88964667 GCCGCTACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (42 bp):
TCAATTCCACTAAAACTTCAAGGAGATCTGATGTAGCTTTAA
Found at i:88966929 original size:40 final size:40
Alignment explanation
Indices: 88966884--88967049 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
88966874 CGGAATATAA
88966884 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
88966924 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
88966964 CCGGATA-AACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
88967003 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
88967042 CCGGATAT
1 CCGGATAT
88967050 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 46 0.43
40 60 0.57
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88967006 original size:39 final size:39
Alignment explanation
Indices: 88966900--88967009 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
88966890 ATAATCACGT
* *
88966900 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
* *
88966940 GCACGAATGCCTTCGGGCCTTAGCCCGGATA-AACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
*
88966979 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
88967010 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.03
39 31 0.50
40 29 0.47
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACAACTA
Found at i:88967033 original size:79 final size:78
Alignment explanation
Indices: 88966900--88967048 Score: 194
Period size: 79 Copynumber: 1.9 Consensus size: 78
88966890 ATAATCACGT
*
88966900 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
88966965 CGGATAAACCACTA
65 CGGATAAACCACTA
* * ** * *
88966979 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
88967042 CCGGATA
64 CCGGATA
88967049 TCATTCAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
78 16 0.26
79 45 0.74
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATAAACCACTA
Found at i:88980887 original size:31 final size:31
Alignment explanation
Indices: 88980822--88980888 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
88980812 ACTAAATTAG
* *
88980822 TATATTAATAATACATAAAATAATAATATAA
1 TATATAAATAATACATAAAATAATAATACAA
* *
88980853 TATATAAATATTAC-TAAAATATTAATAC-A
1 TATATAAATAATACATAAAATAATAATACAA
88980882 TATATAA
1 TATATAA
88980889 TTATTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 8 0.25
30 12 0.38
31 12 0.38
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.37
Consensus pattern (31 bp):
TATATAAATAATACATAAAATAATAATACAA
Found at i:88980893 original size:29 final size:30
Alignment explanation
Indices: 88980822--88980924 Score: 93
Period size: 29 Copynumber: 3.5 Consensus size: 30
88980812 ACTAAATTAG
* *
88980822 TATATTAATAATACATAAAATAATAATATAA
1 TATATAAATATTAC-TAAAATAATAATATAA
* *
88980853 TATATAAATATTACTAAAATATTAATA-CA
1 TATATAAATATTACTAAAATAATAATATAA
* * * * * *
88980882 TATATAATTATTATTTAGATTATAATAAAA
1 TATATAAATATTACTAAAATAATAATATAA
88980912 TATAT-AATATTAC
1 TATATAAATATTAC
88980925 ATGATATTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
29 28 0.48
30 18 0.31
31 12 0.21
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (30 bp):
TATATAAATATTACTAAAATAATAATATAA
Found at i:88983556 original size:18 final size:18
Alignment explanation
Indices: 88983530--88983567 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
88983520 TAATAAAAGA
*
88983530 TATAGTATTACATGATAT
1 TATAATATTACATGATAT
*
88983548 TATAATATTACTTGATAT
1 TATAATATTACATGATAT
88983566 TA
1 TA
88983568 CTTGATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (18 bp):
TATAATATTACATGATAT
Found at i:88983565 original size:10 final size:10
Alignment explanation
Indices: 88983535--88983575 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
88983525 AAAGATATAG
*
88983535 TATTACATGA
1 TATTACTTGA
*
88983545 TATTA--TAA
1 TATTACTTGA
88983553 TATTACTTGA
1 TATTACTTGA
88983563 TATTACTTGA
1 TATTACTTGA
88983573 TAT
1 TAT
88983576 GATATAGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.26
10 20 0.74
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (10 bp):
TATTACTTGA
Found at i:88983723 original size:16 final size:17
Alignment explanation
Indices: 88983699--88983732 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
88983689 TATAAAACGT
88983699 ACTACTATTATA-TATA
1 ACTACTATTATATTATA
*
88983715 ACTATTATTATATTATA
1 ACTACTATTATATTATA
88983732 A
1 A
88983733 ATTATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
ACTACTATTATATTATA
Found at i:88983826 original size:5 final size:5
Alignment explanation
Indices: 88983818--88983871 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
88983808 ATTATATACT
88983818 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
88983868 ATAT
1 ATAT
88983872 AACATTATAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:88984332 original size:24 final size:23
Alignment explanation
Indices: 88984299--88984356 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 23
88984289 GCTCGATTCA
*
88984299 TTTAGCGTTCGCAAACATGTTCAT
1 TTTAACGTTCGCAAACATGTTC-T
* *
88984323 TTTAATGTTCGCGAACATGTTCT
1 TTTAACGTTCGCAAACATGTTCT
88984346 TTTAACGTTCG
1 TTTAACGTTCG
88984357 TGAATGTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 11 0.37
24 19 0.63
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.41
Consensus pattern (23 bp):
TTTAACGTTCGCAAACATGTTCT
Found at i:88989304 original size:9 final size:9
Alignment explanation
Indices: 88989277--88989418 Score: 99
Period size: 9 Copynumber: 15.4 Consensus size: 9
88989267 ACATATGACA
*
88989277 AAAAATGAT
1 AAAAATTAT
*
88989286 AAAAA-AAT
1 AAAAATTAT
*
88989294 AAAAGTTAT
1 AAAAATTAT
88989303 AAAAATTAT
1 AAAAATTAT
*
88989312 ATAAATTAT
1 AAAAATTAT
* *
88989321 TAAACTT-T
1 AAAAATTAT
*
88989329 AATAAAATAT
1 AA-AAATTAT
*
88989339 AAAAATATTT
1 AAAAAT-TAT
*
88989349 AAAATTTACT
1 AAAAATTA-T
*
88989359 AAAAATTAG
1 AAAAATTAT
*
88989368 AAAAAATAT
1 AAAAATTAT
*
88989377 AAAAATTGT
1 AAAAATTAT
*
88989386 AAAATTTAAT
1 AAAAATT-AT
*
88989396 AAAAATCAT
1 AAAAATTAT
88989405 AAAAAATTAT
1 -AAAAATTAT
88989415 AAAA
1 AAAA
88989419 TGCATCAAAA
Statistics
Matches: 100, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
8 8 0.08
9 60 0.60
10 32 0.32
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:88989399 original size:37 final size:38
Alignment explanation
Indices: 88989332--88989418 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 38
88989322 AAACTTTAAT
* * *
88989332 AAAATATAAAAATATTTAAAATTTACTAAAAATTAGAA
1 AAAATATAAAAATATGTAAAATTTAATAAAAATCAGAA
*
88989370 AAAATATAAAAAT-TGTAAAATTTAATAAAAATCATAA
1 AAAATATAAAAATATGTAAAATTTAATAAAAATCAGAA
88989407 AAAATTATAAAA
1 AAAA-TATAAAA
88989419 TGCATCAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 24 0.55
38 20 0.45
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (38 bp):
AAAATATAAAAATATGTAAAATTTAATAAAAATCAGAA
Found at i:88989407 original size:19 final size:19
Alignment explanation
Indices: 88989292--88989408 Score: 73
Period size: 19 Copynumber: 6.3 Consensus size: 19
88989282 TGATAAAAAA
*
88989292 ATAAAAGTT-ATAAAAATT
1 ATAAAATTTAATAAAAATT
* **
88989310 ATATAAA-TTATTAAACTTT
1 ATA-AAATTTAATAAAAATT
* *
88989329 AATAAAATATAA-AAATATT
1 -ATAAAATTTAATAAAAATT
*
88989348 -TAAAATTTACTAAAAATT
1 ATAAAATTTAATAAAAATT
* **
88989366 AGAAAAAAT-ATAAAAATT
1 ATAAAATTTAATAAAAATT
* *
88989384 GTAAAATTTAATAAAAATC
1 ATAAAATTTAATAAAAATT
88989403 ATAAAA
1 ATAAAA
88989409 AATTATAAAA
Statistics
Matches: 72, Mismatches: 20, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
17 8 0.11
18 24 0.33
19 35 0.49
20 5 0.07
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
ATAAAATTTAATAAAAATT
Found at i:88989646 original size:8 final size:9
Alignment explanation
Indices: 88989599--88989775 Score: 60
Period size: 9 Copynumber: 19.0 Consensus size: 9
88989589 TTTTGGTATG
88989599 ATAATTTTT
1 ATAATTTTT
88989608 ATAATTCTTTT
1 ATAA-T-TTTT
* *
88989619 ACAAATTTT
1 ATAATTTTT
88989628 ATAATTCTTT
1 ATAATT-TTT
88989638 AT-ATTTTT
1 ATAATTTTT
*
88989646 ATCATTTTCTT
1 AT-AATTT-TT
*
88989657 CTAATTTTAT
1 ATAATTTT-T
* * *
88989667 AAAAAATTAT
1 -ATAATTTTT
*
88989677 ATATTTTTT
1 ATAATTTTT
*
88989686 CTACA-TTTT
1 ATA-ATTTTT
88989695 AT-ATTTTT
1 ATAATTTTT
88989703 AT-ATTTTT
1 ATAATTTTT
88989711 ATAATATTTTT
1 AT-A-ATTTTT
* *
88989722 CTAGTTTTT
1 ATAATTTTT
* *
88989731 AATAAATTTA
1 -ATAATTTTT
*
88989741 ATAAATTTT
1 ATAATTTTT
*
88989750 ATTGATTTTT
1 A-TAATTTTT
88989760 AT--TTTTT
1 ATAATTTTT
*
88989767 ATCATTTTT
1 ATAATTTTT
88989776 TTGTCACAAC
Statistics
Matches: 124, Mismatches: 27, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
7 8 0.06
8 19 0.15
9 48 0.39
10 28 0.23
11 21 0.17
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:88994027 original size:2 final size:2
Alignment explanation
Indices: 88994020--88994045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88994010 TTCCTTTCAA
88994020 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
88994046 TATGCCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88996628 original size:26 final size:26
Alignment explanation
Indices: 88996599--88996652 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
88996589 TCATGGACAA
88996599 ATGAACGTTTTTTTATGAATCATGAT
1 ATGAACGTTTTTTTATGAATCATGAT
88996625 ATGAACGTTTTTTTATGAATCATGAT
1 ATGAACGTTTTTTTATGAATCATGAT
88996651 AT
1 AT
88996653 CATTCATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (26 bp):
ATGAACGTTTTTTTATGAATCATGAT
Found at i:88996869 original size:18 final size:19
Alignment explanation
Indices: 88996822--88996870 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
88996812 AACATTTTTT
*
88996822 ATAA-ATTTTTATTTTTAA
1 ATAATATTTTTATTTCTAA
88996840 ATATATTATTTTTATTTCT-A
1 ATA-A-TATTTTTATTTCTAA
88996860 ATAATATTTTT
1 ATAATATTTTT
88996871 CACAAGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 4 0.15
21 11 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATAATATTTTTATTTCTAA
Found at i:89000246 original size:710 final size:710
Alignment explanation
Indices: 88998887--89002438 Score: 7032
Period size: 710 Copynumber: 5.0 Consensus size: 710
88998877 GCCCACACGG
88998887 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
1 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
88998952 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
66 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
*
88999017 CACGCCCGTGTGGTGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
131 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
*
88999082 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTTAGAACCTACAATCGAC
196 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
88999147 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
261 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
88999212 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
326 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
88999277 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
391 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
88999342 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
456 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
88999407 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
521 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
*
88999472 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAAAATATTTGATAACTCTCAAATCCCTTATC
586 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTATC
88999537 TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
651 TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
*
88999597 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATTACACGACCGTGTCTTATG
1 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
88999662 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
66 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
88999727 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
131 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
88999792 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
196 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
88999857 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
261 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
88999922 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
326 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
*
88999987 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAGAA
391 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
89000052 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
456 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
89000117 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
521 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
89000182 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTATC
586 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTATC
89000247 TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
651 TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
89000307 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
1 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
89000372 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
66 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
*
89000437 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTTAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
131 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
89000502 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
196 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
89000567 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
261 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
89000632 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
326 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
89000697 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
391 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
89000762 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
456 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
89000827 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
521 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
89000892 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTATC
586 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTATC
89000957 TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
651 TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
89001017 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
1 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
89001082 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
66 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
89001147 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
131 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
89001212 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
196 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
89001277 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
261 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
89001342 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
326 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
89001407 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
391 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
89001472 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
456 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
89001537 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
521 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
89001602 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTATC
586 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTATC
89001667 TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
651 TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
89001727 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
1 CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
89001792 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
66 CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
89001857 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
131 CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
89001922 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
196 GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
89001987 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
261 ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
89002052 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
326 CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
89002117 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
391 TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
89002182 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
456 TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
*
89002247 GAATTTCAAGGAAGAATTTTGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
521 GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
89002312 TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTAT
586 TGAAAGTTAGGGAAATTTTCAAAAAG-AAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTAT
89002377 CTCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
650 CTCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
89002438 C
1 C
89002439 GAGCAAAAAT
Statistics
Matches: 2831, Mismatches: 10, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
710 2731 0.96
711 100 0.04
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (710 bp):
CCTAAATAAGTTTAGCCTGTGTATCGCACACGGCCTACTTGGTCATCACACGACCGTGTCTTATG
CGCACGGCTGGCCTCATCAATCACACGTCCGTGTCCCATCACACGGCCTACCACACGGGTGACTA
CACGCCCGTGTGGCGTCGACAGTGAGGTTTTCAGCTTTTATCGAAACCTCATTTTCTACTTTTTT
GGGCACACACTTGGTATTGTTTCGAAGTAAAAACACACCCGAGCTTTTCAGAACCTACAATCGAC
ATTTCCAAGCTCGGAATCAGATCTAAAACAAGATTACATCAAATCTACGAAACCAACAACAATTC
CAACCAACACTTCGCACTTACCTTTATACTCAGAACAGTTACGACTCCAAATACGTGAGAGGAGA
TCCCTAAAATTCTCAATTTGCCGCTGCCAAAATAGAAGTAAGTCTTCAATGGTACTTTTGGAAAA
TGAGATTACAAAAGGGTTAGACCCACTTACCGAACAAAAAAAAAACACTGTTGAACTACGATTCA
GAATTTCAAGGAAGAATTTCGACAGAGTTACGACTATCGAAAGAAAAAAGAAGAAAAAGAAAATG
TGAAAGTTAGGGAAATTTTCAAAAAGAAAAAAAAAGAATATTTGATAACTCTCAAATCCCTTATC
TCACTTTCCCAATAACCCACTTCTCAGAATTCCTGTTTAACCGAAACTCTCTCGGTCAAA
Found at i:89005099 original size:18 final size:18
Alignment explanation
Indices: 89005076--89005112 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
89005066 ATATACACAG
*
89005076 TTAGATACAGATTTAGAT
1 TTAGATACAGATTCAGAT
*
89005094 TTAGATTCAGATTCAGAT
1 TTAGATACAGATTCAGAT
89005112 T
1 T
89005113 CAAATTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (18 bp):
TTAGATACAGATTCAGAT
Found at i:89008739 original size:21 final size:21
Alignment explanation
Indices: 89008715--89008765 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
89008705 TGATAATATA
89008715 AGTTATCTTTACCCGTTGAAG
1 AGTTATCTTTACCCGTTGAAG
*
89008736 AGTTATCTTTACCCTTTGAAG
1 AGTTATCTTTACCCGTTGAAG
89008757 AGTTATCTT
1 AGTTATCTT
89008766 GAGAACTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (21 bp):
AGTTATCTTTACCCGTTGAAG
Found at i:89010549 original size:53 final size:53
Alignment explanation
Indices: 89010500--89010605 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
89010490 CAAATAATGA
89010500 TTACCTAATATCCCAATTAAAATTTTATAAATAAATGTCATGCAAAATAAAAT
1 TTACCTAATATCCCAATTAAAATTTTATAAATAAATGTCATGCAAAATAAAAT
89010553 TTACCTAATATCCCAATTAAAATTTTATAAATAAATGTCATGCAAAATAAAAT
1 TTACCTAATATCCCAATTAAAATTTTATAAATAAATGTCATGCAAAATAAAAT
89010606 CAAAACTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (53 bp):
TTACCTAATATCCCAATTAAAATTTTATAAATAAATGTCATGCAAAATAAAAT
Found at i:89010553 original size:30 final size:30
Alignment explanation
Indices: 89010517--89010605 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
89010507 ATATCCCAAT
89010517 TAAAATTTTATAAATAAATGTCATGCAAAA
1 TAAAATTTTATAAATAAATGTCATGCAAAA
** * * *
89010547 TAAAA--TT-TACCT-AA--T-ATCCCAAT
1 TAAAATTTTATAAATAAATGTCATGCAAAA
89010570 TAAAATTTTATAAATAAATGTCATGCAAAA
1 TAAAATTTTATAAATAAATGTCATGCAAAA
89010600 TAAAAT
1 TAAAAT
89010606 CAAAACTAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
23 10 0.24
24 1 0.02
25 2 0.05
26 5 0.12
27 5 0.12
28 2 0.05
29 1 0.02
30 16 0.38
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (30 bp):
TAAAATTTTATAAATAAATGTCATGCAAAA
Found at i:89010872 original size:23 final size:23
Alignment explanation
Indices: 89010846--89010891 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
89010836 CAGTTGTTAG
89010846 GATACATTAAATAACATTGCACA
1 GATACATTAAATAACATTGCACA
89010869 GATACATTAAATAACATTGCACA
1 GATACATTAAATAACATTGCACA
89010892 TACTTATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (23 bp):
GATACATTAAATAACATTGCACA
Found at i:89011649 original size:2 final size:2
Alignment explanation
Indices: 89011642--89011668 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
89011632 ATAATTTCAA
89011642 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
89011669 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:89015571 original size:518 final size:518
Alignment explanation
Indices: 89014517--89015610 Score: 1741
Period size: 518 Copynumber: 2.1 Consensus size: 518
89014507 AAGGCGTGTT
*
89014517 CCAACATTGCCCTTAAATCAGTCACCTGCTTCCAATTTAGGGCGTTTGCAA-TAACATTGACTTT
1 CCAACATTG-CCTTAAATCAGTCACCTGCTTCCAATTTAGGGCGTTTGCAACGAACATTGACTTT
* * * ** * *
89014581 CCCGGCGTGATACTCAATCACACAATCATAAGTTTCAATAGCTCTAACCATGTCCATTTCCTAAG
65 CCCAGCGTGATAATCAATCACAAAATCATAAGTTTCAATAGCTCTAACCACCTCCATTGCATAAG
89014646 CTTCAATTTTTTTAAGTGAGAAGATAATTAAGGTTCTTATGGTTAGTGTAGATGTAATACTTCTT
130 CTTCAATTTTTTTAAGTGAGAAGATAATTAAGGTTCTTATGGTTAGTGTAGATGTAATACTTCTT
*
89014711 CCTATACAAATACTACCTCCAAATCTTAAGTGAAAAACCAACTGCAACTAACTTTAAGTCATGAG
195 CCTATACAAATACTACCTCCAAATCTTAAGTGAAAAACCAACTGCAACCAACTTTAAGTCATGAG
* *
89014776 TTGGGTAGTTGCACTGATGTTGTTTCAACTAAGTATGATTTGTCTTAACTCATCATCATTCACCA
260 TTGGGTAGTTGCACTCATGTTGTTTCAACTAAGTATGATTTCTCTTAACTCATCATCATTCACCA
* * *
89014841 AACAAAACCTCCATCGGAAACACAAGTTACCATTATATTAAATCTAAAATCCTCAATCTTTTCTT
325 AACAAAACCTCCATCGGAAACACAAGATACCATTATATGAAATCTAAAATCCTCAATCTTTCCTT
* * *
89014906 CTTCCATGAGCTTGATTCGAGGTAATAGAGTTATATCTGAGGGTTGTTTACATTTGATCTTATTG
390 CTTCCATGAGCTTGATTCGAGGTAATAGAGTTATATCTAAAGGTTGTTTACATTTGATCTCATTG
* *
89014971 GCTAAGGTGGGTTTTACTTGCAATTCTACTAGCAAGCCTCTATTATCCATTAAACTCAACCTTG
455 GCTAAGGTGGGTTTTACTTGCAATTCTACTAGCAAGCCTCCATCATCCATTAAACTCAACCTTG
* * * * *
89015035 CCAAGATTGCACTTAAATCAATCACCTGCTTCCAACTTAGGGTGTTTGCAACGAA-ATTGGCTTT
1 CCAACATTGC-CTTAAATCAGTCACCTGCTTCCAATTTAGGGCGTTTGCAACGAACATTGACTTT
* * *
89015099 CCCAAG-GTGGTAATCAATCACAAAATCATAATTTTCAATAGCTCTAACCACCTCTATTGCATAA
65 CCC-AGCGTGATAATCAATCACAAAATCATAAGTTTCAATAGCTCTAACCACCTCCATTGCATAA
*
89015163 GCTTTAATTTTTTTAAGTGAGAAGATAATTAAGGTTCTTATGGTTAGTGTAGATGTAATACTTCT
129 GCTTCAATTTTTTTAAGTGAGAAGATAATTAAGGTTCTTATGGTTAGTGTAGATGTAATACTTCT
89015228 TCCTATACAAATACTACCTCCAAATCTTAAGTGAAAAACCAACTGCAACCAACTTTAAGTCATGA
194 TCCTATACAAATACTACCTCCAAATCTTAAGTGAAAAACCAACTGCAACCAACTTTAAGTCATGA
* *
89015293 GTTGGGTAGTTGCACTCATGTTGTTTCAACTAAGTATGGTTTCTCTTAACTCATCATTATTCACC
259 GTTGGGTAGTTGCACTCATGTTGTTTCAACTAAGTATGATTTCTCTTAACTCATCATCATTCACC
* *
89015358 ACACAAAACCTCCATCGGAAACACAAGATACCATTATCCTGAAAT-TAGAAATCCTCAATCTTTC
324 AAACAAAACCTCCATCGGAAACACAAGATACCATTAT-ATGAAATCTA-AAATCCTCAATCTTTC
* * *
89015422 CTTCTTCCATGAGCTTGATTCGAGGTAATAGGGTTATATCTAAAGGTTGTTTAGATTTGGTCTCA
387 CTTCTTCCATGAGCTTGATTCGAGGTAATAGAGTTATATCTAAAGGTTGTTTACATTTGATCTCA
* **
89015487 TTGGCTAAGGTGGGTTTTACTTTCAATTCTGTTAGCAAGCCTCCATCATCCATTAAACTCAACCT
452 TTGGCTAAGGTGGGTTTTACTTGCAATTCTACTAGCAAGCCTCCATCATCCATTAAACTCAACCT
89015552 TG
517 TG
*
89015554 CCAA-ATTGCCTTTAAATCAGTCACCTGCTTCCAATTTAGAGCGTTTGCAACG-ACATT
1 CCAACATTGCC-TTAAATCAGTCACCTGCTTCCAATTTAGGGCGTTTGCAACGAACATT
89015611 CCCGAAAGGT
Statistics
Matches: 527, Mismatches: 42, Indels: 14
0.90 0.07 0.02
Matches are distributed among these distances:
517 3 0.01
518 376 0.71
519 148 0.28
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (518 bp):
CCAACATTGCCTTAAATCAGTCACCTGCTTCCAATTTAGGGCGTTTGCAACGAACATTGACTTTC
CCAGCGTGATAATCAATCACAAAATCATAAGTTTCAATAGCTCTAACCACCTCCATTGCATAAGC
TTCAATTTTTTTAAGTGAGAAGATAATTAAGGTTCTTATGGTTAGTGTAGATGTAATACTTCTTC
CTATACAAATACTACCTCCAAATCTTAAGTGAAAAACCAACTGCAACCAACTTTAAGTCATGAGT
TGGGTAGTTGCACTCATGTTGTTTCAACTAAGTATGATTTCTCTTAACTCATCATCATTCACCAA
ACAAAACCTCCATCGGAAACACAAGATACCATTATATGAAATCTAAAATCCTCAATCTTTCCTTC
TTCCATGAGCTTGATTCGAGGTAATAGAGTTATATCTAAAGGTTGTTTACATTTGATCTCATTGG
CTAAGGTGGGTTTTACTTGCAATTCTACTAGCAAGCCTCCATCATCCATTAAACTCAACCTTG
Found at i:89022651 original size:19 final size:19
Alignment explanation
Indices: 89022600--89022651 Score: 50
Period size: 22 Copynumber: 2.6 Consensus size: 19
89022590 AAAAATAAAC
** *
89022600 TTTTAAATCATTTTTTACT
1 TTTTAAATTTTTTTTTAAT
89022619 TTTTAAAAGGTTTTTTTTTAAT
1 TTTT-AAA--TTTTTTTTTAAT
89022641 TTTTAAATTTT
1 TTTTAAATTTT
89022652 AAGAATTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 8 0.30
20 3 0.11
21 3 0.11
22 13 0.48
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTTTTTTTAAT
Found at i:89024286 original size:2 final size:2
Alignment explanation
Indices: 89024279--89024305 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
89024269 AATTCCAAAT
89024279 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
89024306 TATTAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89026410 original size:13 final size:13
Alignment explanation
Indices: 89026392--89026419 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
89026382 CGTCACAACA
89026392 TTGAGAGTTTGTT
1 TTGAGAGTTTGTT
89026405 TTGAGAGTTTGTT
1 TTGAGAGTTTGTT
89026418 TT
1 TT
89026420 CACGACATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (13 bp):
TTGAGAGTTTGTT
Found at i:89041530 original size:49 final size:49
Alignment explanation
Indices: 89041477--89041783 Score: 162
Period size: 48 Copynumber: 6.5 Consensus size: 49
89041467 AAACTTATAG
* *
89041477 AAGGTAATAATATGATCCTGCTCCTAGATGCATGGAGGCAGACTTACAA
1 AAGGTAATAATATGATCCTGCTCCTAGATGCATGGAGGGAGGCTTACAA
* * * * *
89041526 AAGG---TAATA--A-CCTTGCTCTTAGATGTATGTAGGGAGGCTTAGAG
1 AAGGTAATAATATGATCC-TGCTCCTAGATGCATGGAGGGAGGCTTACAA
** * * * *
89041570 AAGAAAATAATATGGTTCTGCTCCTTGATGCATGG-GGGA-GCTTACGA
1 AAGGTAATAATATGATCCTGCTCCTAGATGCATGGAGGGAGGCTTACAA
* * * * *
89041617 AAGGTAATCATATGACCCTACTCCCAAATGCATGG-GGGAGGCTTACAGA
1 AAGGTAATAATATGATCCTGCTCCTAGATGCATGGAGGGAGGCTTACA-A
* * * * ** **
89041666 AA-ATAATAATATGACCCTACTTCC-AGATACATGGAGTAAGGCTTATGGA
1 AAGGTAATAATATGATCCTGC-TCCTAGATGCATGGAGGGAGGCTTA-CAA
* * * *
89041715 AA-GTAATAATAT-ATTCCTACTCCCAAATGCAAT--AGGGAGACTTACAA
1 AAGGTAATAATATGA-TCCTGCTCCTAGATGC-ATGGAGGGAGGCTTACAA
89041762 CAA-GTAATAATATGA-CCTGCTC
1 -AAGGTAATAATATGATCCTGCTC
89041784 TTAAACACAT
Statistics
Matches: 195, Mismatches: 46, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
43 2 0.01
44 28 0.14
46 5 0.03
47 46 0.24
48 58 0.30
49 53 0.27
50 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (49 bp):
AAGGTAATAATATGATCCTGCTCCTAGATGCATGGAGGGAGGCTTACAA
Found at i:89041680 original size:48 final size:48
Alignment explanation
Indices: 89041597--89041778 Score: 176
Period size: 48 Copynumber: 3.8 Consensus size: 48
89041587 CTGCTCCTTG
*
89041597 ATGCATGGGGGA-GCTTAC-GAAAGGTAATCATATGACCCTACTCCCAA
1 ATGCATGGGGGAGGCTTACAGAAA-GTAATAATATGACCCTACTCCCAA
* * *
89041644 ATGCATGGGGGAGGCTTACAGAAAATAATAATATGACCCTACTTCCAG
1 ATGCATGGGGGAGGCTTACAGAAAGTAATAATATGACCCTACTCCCAA
* ** ** *
89041692 ATACATGGAGTAAGGCTTATGGAAAGTAATAATAT-ATTCCTACTCCCAA
1 ATGCATGG-GGGAGGCTTACAGAAAGTAATAATATGA-CCCTACTCCCAA
* *
89041741 ATGCAAT-AGGGAGACTTACA-ACAAGTAATAATATGACC
1 ATGC-ATGGGGGAGGCTTACAGA-AAGTAATAATATGACC
89041779 TGCTCTTAAA
Statistics
Matches: 107, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
47 13 0.12
48 54 0.50
49 38 0.36
50 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (48 bp):
ATGCATGGGGGAGGCTTACAGAAAGTAATAATATGACCCTACTCCCAA
Found at i:89041833 original size:18 final size:18
Alignment explanation
Indices: 89041810--89041846 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
89041800 AGTCTTACAG
89041810 AAGTAATAATGTTACCCT
1 AAGTAATAATGTTACCCT
89041828 AAGTAATAATGTTACCCT
1 AAGTAATAATGTTACCCT
89041846 A
1 A
89041847 CTTCTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (18 bp):
AAGTAATAATGTTACCCT
Found at i:89042603 original size:21 final size:21
Alignment explanation
Indices: 89042577--89042624 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
89042567 AGTTCTAGGG
89042577 TTCGGCACTTTGAAAGCTTGA
1 TTCGGCACTTTGAAAGCTTGA
89042598 TTCGGCACTTTGAAAGCTTGA
1 TTCGGCACTTTGAAAGCTTGA
89042619 TTCGGC
1 TTCGGC
89042625 TATGTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (21 bp):
TTCGGCACTTTGAAAGCTTGA
Found at i:89046232 original size:14 final size:14
Alignment explanation
Indices: 89046192--89046238 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
89046182 TCTTTGTTTC
89046192 TTTATGCCTGAAAT
1 TTTATGCCTGAAAT
*
89046206 TTT-TACC---AAT
1 TTTATGCCTGAAAT
89046216 TTTATGCCTGAAAT
1 TTTATGCCTGAAAT
89046230 TTTATGCCT
1 TTTATGCCT
89046239 TTCTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 6 0.22
11 3 0.11
13 3 0.11
14 15 0.56
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (14 bp):
TTTATGCCTGAAAT
Found at i:89047087 original size:43 final size:43
Alignment explanation
Indices: 89047035--89047218 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
89047025 TTTTTGAAAA
89047035 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * ** ** *
89047078 AAATGCCGCTAAAGACCAAGATTTTTAGCGGCGC-TTTTAAAA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * **
89047120 AAACGCCGCTAAAAACCATGACCTTTAGTGGCGCTTTTTTTGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* *
89047163 AAACGCTGCTAAATACCATGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
89047206 AAACGCCGCTAAA
1 AAACGCCGCTAAA
89047219 AATAATGATC
Statistics
Matches: 117, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
42 33 0.28
43 84 0.72
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
Found at i:89047174 original size:85 final size:86
Alignment explanation
Indices: 89047025--89047220 Score: 259
Period size: 85 Copynumber: 2.3 Consensus size: 86
89047015 TAGTGGCGTT
* *
89047025 TTTTTGAAAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAATGCCGCTAA
1 TTTTT-AAAAAAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAA
**
89047090 AGACCAAGATTTTTAGCGGCGC
65 AGACCAAGACCTTTAGCGGCGC
* ** *
89047112 -TTTTAAAAAAACGCCGCTAAAAACCATGACCTTTAGTGGCGCTTTTTTTGCAAACGCTGCTAAA
1 TTTTTAAAAAAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAA
* *
89047176 TACCATGACCTTTAGCGGCGC
66 GACCAAGACCTTTAGCGGCGC
** *
89047197 TTTTTTCACAAACGCCGCTAAAAA
1 TTTTTAAAAAAACGCCGCTAAAAA
89047221 TAATGATCTT
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
85 71 0.75
86 24 0.25
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (86 bp):
TTTTTAAAAAAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAA
GACCAAGACCTTTAGCGGCGC
Found at i:89047269 original size:24 final size:24
Alignment explanation
Indices: 89047229--89047276 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
89047219 AATAATGATC
*
89047229 TTAAAAAATTTTATTTTATTTTAA
1 TTAAAAAATTTTATTTTATGTTAA
*
89047253 TTAAATAATATTT-TTTTATGTTAA
1 TTAAAAAAT-TTTATTTTATGTTAA
89047277 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTAAAAAATTTTATTTTATGTTAA
Found at i:89047568 original size:17 final size:18
Alignment explanation
Indices: 89047541--89047574 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
89047531 ATGCCAAAAT
89047541 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
89047559 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
89047575 CTCACATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:89051527 original size:22 final size:21
Alignment explanation
Indices: 89051493--89051541 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
89051483 CATAAACACT
*
89051493 AACCCTTGAACCTTTAACCCC
1 AACCCTTGAACCTTAAACCCC
*
89051514 AAACCCTT-ACACCTTAAACTCC
1 -AACCCTTGA-ACCTTAAACCCC
89051536 AACCCT
1 AACCCT
89051542 AACCCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.33, C:0.43, G:0.02, T:0.22
Consensus pattern (21 bp):
AACCCTTGAACCTTAAACCCC
Found at i:89051621 original size:21 final size:22
Alignment explanation
Indices: 89051597--89051677 Score: 94
Period size: 21 Copynumber: 3.6 Consensus size: 22
89051587 ACTCCTAAAC
89051597 CTTAAACCCTAAACT-ATATAT
1 CTTAAACCCTAAACTCATATAT
* * *
89051618 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCCTA---AACTCATATAT
89051643 CTTAAACCCTAAA-TCATATAT
1 CTTAAACCCTAAACTCATATAT
89051664 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
89051678 CTTCAACTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 29 0.59
22 2 0.04
24 4 0.08
25 14 0.29
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (22 bp):
CTTAAACCCTAAACTCATATAT
Found at i:89051634 original size:46 final size:46
Alignment explanation
Indices: 89051581--89051671 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
89051571 CTTCAAATAC
*
89051581 TAGTTAACTCCTAAACCTTAAACCCTAAA-CTATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAATC-ATATATCTTAAACCA
89051627 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
1 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
89051672 CTAAACCTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACCA
Found at i:89051728 original size:25 final size:25
Alignment explanation
Indices: 89051694--89051743 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
89051684 CTATAATGAT
89051694 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
89051719 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
89051744 TACTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTAATTCGATATTTTAAATTCAA
Found at i:89051955 original size:40 final size:41
Alignment explanation
Indices: 89051872--89052119 Score: 299
Period size: 40 Copynumber: 6.1 Consensus size: 41
89051862 GTTATATGAC
* *
89051872 TTTTAGTGGCGTTTTGT-CGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTT-TCCAAAAGCGCCGCTAATGCTCTGGT
*
89051913 TTTTAGCGGCGTTTTTCCAAAAGCG-CTCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
89051953 TTTTAACGGCGTTTTGCCAAAAGCGTCGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
89051993 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* * *
89052034 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
* ** *
89052074 TTTTAGCGACGTTTTTAGTAAAA-CGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTT-CCAAAAGCGCCGCTAATGCTCTG-GT
89052116 TTTT
1 TTTT
89052120 CAATTTTTGC
Statistics
Matches: 180, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
40 103 0.57
41 72 0.40
42 5 0.03
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:89052025 original size:81 final size:81
Alignment explanation
Indices: 89051879--89052119 Score: 342
Period size: 81 Copynumber: 3.0 Consensus size: 81
89051869 GACTTTTAGT
* * * * *
89051879 GGCGTTTTGTCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGCG-CTCTA
1 GGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-ATTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTA
89051943 ATGCTCTGGTTTTTAAC
65 ATGCTCTGGTTTTTAAC
*
89051960 GGCGTTTTGCCAAAAGCGTCGCTATTGCTCTATTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAA
1 GGCGTTTTGCCAAAAGCGCCGCTATTGCTCTATTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAA
*
89052025 TGCTCTGGTTTTTAGC
66 TGCTCTGGTTTTTAAC
* **
89052041 GGCGTTTTGCCAAAAGCGCCGCTATTGCTCTATTTTTAGCGACGTTTTTAGTAAAA-CGCCGCTA
1 GGCGTTTTGCCAAAAGCGCCGCTATTGCTCTATTTTTAGCGGCGTTTTT-CCAAAAGCGCCGCTA
*
89052105 TTGCTCTGTGTTTTT
65 ATGCTCTG-GTTTTT
89052120 CAATTTTTGC
Statistics
Matches: 145, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
80 26 0.18
81 109 0.75
82 10 0.07
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (81 bp):
GGCGTTTTGCCAAAAGCGCCGCTATTGCTCTATTTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAA
TGCTCTGGTTTTTAAC
Found at i:89052104 original size:121 final size:121
Alignment explanation
Indices: 89051872--89052111 Score: 326
Period size: 121 Copynumber: 2.0 Consensus size: 121
89051862 GTTATATGAC
* * *
89051872 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTTCCAAAAGC
1 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
* * * *
89051937 GCTCTAATGCTCTGGTTTTTAACGGCGTTTTGCCAAAAGCGTCGCTATTGCTCTAT
66 GCGCTAATGCTCTGATTTTTAACGACGTTTTGCCAAAAGCGCCGCTATTGCTCTAT
89051993 TTTTAGCGGCGTTTT-TCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAG
1 TTTTAGCGGCGTTTTGT-CAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAG
* * *
89052057 CGCCGCTATTGCTCT-ATTTTTAGCGACGTTTTTAG-TAAAA-CGCCGCTATTGCTCT
65 CG-CGCTAATGCTCTGATTTTTAACGACG-TTTT-GCCAAAAGCGCCGCTATTGCTCT
89052112 GTGTTTTTCA
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
120 1 0.01
121 85 0.81
122 18 0.17
123 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (121 bp):
TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
GCGCTAATGCTCTGATTTTTAACGACGTTTTGCCAAAAGCGCCGCTATTGCTCTAT
Found at i:89053527 original size:22 final size:22
Alignment explanation
Indices: 89053496--89053560 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
89053486 TTGGGGCTCT
* *
89053496 TTTTTCTTTAAGGCCATTTATG
1 TTTTTGTTTAAGGCCATTGATG
89053518 TTTTTGTTTAAGGCCATTGATG
1 TTTTTGTTTAAGGCCATTGATG
*
89053540 TTTTTGTTTAAGGCAATTGAT
1 TTTTTGTTTAAGGCCATTGAT
89053561 CTGCTCTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.52
Consensus pattern (22 bp):
TTTTTGTTTAAGGCCATTGATG
Found at i:89057421 original size:18 final size:18
Alignment explanation
Indices: 89057400--89057442 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
89057390 ATAATTTAAA
89057400 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
89057418 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
89057436 ATGTAAA
1 ATATAAA
89057443 AACATCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:89070315 original size:17 final size:17
Alignment explanation
Indices: 89070289--89070325 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
89070279 TGAACACTTT
*
89070289 TAAAATACCTTAAACCC
1 TAAAAAACCTTAAACCC
89070306 TAAAAAACCTTAAACCC
1 TAAAAAACCTTAAACCC
89070323 TAA
1 TAA
89070326 CCCTAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (17 bp):
TAAAAAACCTTAAACCC
Found at i:89070331 original size:23 final size:23
Alignment explanation
Indices: 89070301--89070374 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
89070291 AAATACCTTA
*
89070301 AACCCTAAAAAACCTTAAA-CCCT
1 AACCCTAAAAAA-CTAAAATCCCT
*
89070324 AACCCTAAAACACTAAAATCCCT
1 AACCCTAAAAAACTAAAATCCCT
* **
89070347 AACCTTAAAAAA-TAAAAAACCT
1 AACCCTAAAAAACTAAAATCCCT
89070369 AACCCT
1 AACCCT
89070375 GGAGAGAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 18 0.42
23 25 0.58
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (23 bp):
AACCCTAAAAAACTAAAATCCCT
Found at i:89070369 original size:22 final size:23
Alignment explanation
Indices: 89070321--89070374 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
89070311 AACCTTAAAC
* **
89070321 CCTAACCCTAAAACACTAAAATC
1 CCTAACCCTAAAACAATAAAAAA
*
89070344 CCTAACCTTAAAA-AATAAAAAA
1 CCTAACCCTAAAACAATAAAAAA
89070366 CCTAACCCT
1 CCTAACCCT
89070375 GGAGAGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (23 bp):
CCTAACCCTAAAACAATAAAAAA
Found at i:89075376 original size:21 final size:21
Alignment explanation
Indices: 89075337--89075376 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89075327 ACTGTTATAT
* **
89075337 TAACTAATTTCACCGCTACAG
1 TAACTAATCTCACAACTACAG
89075358 TAACTAATCTCACAACTAC
1 TAACTAATCTCACAACTAC
89075377 CGTTATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.28
Consensus pattern (21 bp):
TAACTAATCTCACAACTACAG
Found at i:89076685 original size:15 final size:15
Alignment explanation
Indices: 89076665--89076740 Score: 50
Period size: 14 Copynumber: 5.0 Consensus size: 15
89076655 ACTACAAAGC
89076665 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
89076680 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
* *
89076699 ATTTATTATAAAAAT
1 ATTTATTATTAATAT
*
89076714 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
*
89076727 ATTT-TTAATAATAT
1 ATTTATTATTAATAT
89076741 GTAAAGAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
13 8 0.17
14 12 0.26
15 10 0.21
16 1 0.02
17 6 0.13
18 1 0.02
19 9 0.19
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:89076822 original size:13 final size:13
Alignment explanation
Indices: 89076800--89076852 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
89076790 AAATTTAGAA
89076800 TATT-AAATAATT
1 TATTAAAATAATT
*
89076812 TATTAAAATAATA
1 TATTAAAATAATT
*
89076825 AATTATATTAATAATT
1 TATTA-A--AATAATT
89076841 TATTAAAATAAT
1 TATTAAAATAAT
89076853 AAATCATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 4 0.12
13 17 0.52
14 1 0.03
15 1 0.03
16 10 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTAAAATAATT
Found at i:89076877 original size:16 final size:16
Alignment explanation
Indices: 89076758--89076883 Score: 70
Period size: 16 Copynumber: 8.1 Consensus size: 16
89076748 ATATTATTTA
*
89076758 AATTTATTATTTTTAA-
1 AATTTATTA-TATTAAT
*
89076774 AATTTATTAT-TAAAAT
1 AATTTATTATAT-TAAT
**
89076790 AAATTTAGAATATTAAAT
1 -AATTTATTATATT-AAT
89076808 AATTTATTA-A--AAT
1 AATTTATTATATTAAT
**
89076821 AATAAATTATATTAAT
1 AATTTATTATATTAAT
89076837 AATTTATTA-A--AAT
1 AATTTATTATATTAAT
** *
89076850 AATAAATCATATTAAT
1 AATTTATTATATTAAT
*
89076866 AATTTATTATATGAAT
1 AATTTATTATATTAAT
89076882 AA
1 AA
89076884 ATATAAATAA
Statistics
Matches: 82, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
13 19 0.23
14 3 0.04
15 4 0.05
16 37 0.45
17 15 0.18
18 4 0.05
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTTATTATATTAAT
Found at i:89076885 original size:29 final size:29
Alignment explanation
Indices: 89076799--89076874 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
89076789 TAAATTTAGA
*
89076799 ATATTAAATAATTTATTAAAATAATAAATT
1 ATATT-AATAATTTATTAAAATAATAAATC
89076829 ATATTAATAATTTATTAAAATAATAAATC
1 ATATTAATAATTTATTAAAATAATAAATC
89076858 ATATTAATAATTTATTA
1 ATATTAATAATTTATTA
89076875 TATGAATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 40 0.89
30 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (29 bp):
ATATTAATAATTTATTAAAATAATAAATC
Found at i:89076894 original size:29 final size:29
Alignment explanation
Indices: 89076805--89076894 Score: 114
Period size: 29 Copynumber: 3.1 Consensus size: 29
89076795 TAGAATATTA
89076805 AATAATTTATTAAAATAATAAAT-TATATT
1 AATAATTTATTAAAATAATAAATATA-ATT
89076834 AATAATTTATTAAAATAATAAATCAT-ATT
1 AATAATTTATTAAAATAATAAAT-ATAATT
* *
89076863 AATAATTTATT-ATATGAATAAATATAAAT
1 AATAATTTATTAAAAT-AATAAATATAATT
89076892 AAT
1 AAT
89076895 TAAATATGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
28 5 0.09
29 49 0.89
31 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (29 bp):
AATAATTTATTAAAATAATAAATATAATT
Found at i:89076939 original size:22 final size:22
Alignment explanation
Indices: 89076914--89076957 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
89076904 ATGTTTAGTA
89076914 ATATTGAA-AATTATAATATTTT
1 ATATT-AATAATTATAATATTTT
* *
89076936 ATATTAATATTTTTAATATTTT
1 ATATTAATAATTATAATATTTT
89076958 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATTAATAATTATAATATTTT
Found at i:89080647 original size:22 final size:23
Alignment explanation
Indices: 89080621--89080669 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
89080611 AATAATTTAG
*
89080621 TTTAGATTTACTTTTATT-TAAA
1 TTTAGATATACTTTTATTATAAA
*
89080643 TTTAGATATACTTTTATTATTAA
1 TTTAGATATACTTTTATTATAAA
89080666 TTTA
1 TTTA
89080670 TTGTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTAGATATACTTTTATTATAAA
Found at i:89095601 original size:33 final size:33
Alignment explanation
Indices: 89095554--89095622 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
89095544 TTAGGTTCCA
* *
89095554 TTTAGTTTTTGAAAATATATTTTA-TTTTTATTT
1 TTTAATTTTAGAAAATA-ATTTTATTTTTTATTT
*
89095587 TTTAATTTTAGAAAATAGTTTTATTTTTTATTT
1 TTTAATTTTAGAAAATAATTTTATTTTTTATTT
89095620 TTT
1 TTT
89095623 TGAAAATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 5 0.16
33 27 0.84
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (33 bp):
TTTAATTTTAGAAAATAATTTTATTTTTTATTT
Found at i:89098698 original size:60 final size:60
Alignment explanation
Indices: 89098574--89098747 Score: 167
Period size: 60 Copynumber: 2.9 Consensus size: 60
89098564 TAGGCCATCT
* * * * * * * *
89098574 TAAATCTTATTTGAAACAC-CCAGCAGATA-CCAAGATCAGCCAAAC-CAATAAGTAGTCC
1 TAAATCTTACTTGAAATACTCAAGCAGATAGCC-ACATCAGCCAAACATAATAAGCACTCG
* * * *
89098632 TAAATCTTACTTGAAACT-CTCAAGCATATATCCACATCAGCCAAGCTTAATAAGCACTCG
1 TAAATCTTACTTGAAA-TACTCAAGCAGATAGCCACATCAGCCAAACATAATAAGCACTCG
* * *
89098692 TAAATCTTCCTTGAAATAGTCATGCAGATAGCCACATCAGCCAAACATAATAAGCA
1 TAAATCTTACTTGAAATACTCAAGCAGATAGCCACATCAGCCAAACATAATAAGCA
89098748 GTCCTAAAAC
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
58 16 0.17
59 20 0.21
60 58 0.62
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (60 bp):
TAAATCTTACTTGAAATACTCAAGCAGATAGCCACATCAGCCAAACATAATAAGCACTCG
Found at i:89102291 original size:2 final size:2
Alignment explanation
Indices: 89102284--89102312 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
89102274 ATCTTTTTCC
89102284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89102313 ATAATCCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89103669 original size:16 final size:16
Alignment explanation
Indices: 89103648--89103692 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
89103638 ATTGAAAATC
* *
89103648 AATTTTAAATATATTT
1 AATTTTAAAAATATAT
89103664 AATTTTTAAAAAATATAT
1 AA-TTTT-AAAAATATAT
89103682 AATTTTAAAAA
1 AATTTTAAAAA
89103693 GAATAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 7 0.28
17 8 0.32
18 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTTAAAAATATAT
Found at i:89103688 original size:17 final size:17
Alignment explanation
Indices: 89103648--89103692 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
89103638 ATTGAAAATC
* *
89103648 AATTTT-AAATATATTT
1 AATTTTAAAAAATATAT
89103664 AATTTTTAAAAAATATAT
1 AA-TTTTAAAAAATATAT
89103682 AATTTTAAAAA
1 AATTTTAAAAA
89103693 GAATAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 13 0.52
18 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTTAAAAAATATAT
Found at i:89104356 original size:26 final size:25
Alignment explanation
Indices: 89104311--89104361 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
89104301 TTTAATTAAG
*
89104311 TAAAATCTTAAAATAAAAAATTTATT
1 TAAAATC-TAAAATAAAAAAATTATT
89104337 TAAAATC-AAAATATATAAAAATTAT
1 TAAAATCTAAAATA-A-AAAAATTAT
89104362 AAAAAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 6 0.27
25 1 0.05
26 15 0.68
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAAATCTAAAATAAAAAAATTATT
Found at i:89104470 original size:2 final size:2
Alignment explanation
Indices: 89104459--89104488 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
89104449 ATATTGTTAT
89104459 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89104489 TTCCTTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89116600 original size:93 final size:93
Alignment explanation
Indices: 89116488--89116658 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
89116478 GCCCATAAGT
*
89116488 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
89116552 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
89116581 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89116646 CGAGTTCGGATGC
66 CGAGTTCGGATGC
89116659 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:89116674 original size:46 final size:46
Alignment explanation
Indices: 89116480--89116660 Score: 226
Period size: 46 Copynumber: 3.9 Consensus size: 46
89116470 TGTAACCCGC
* *
89116480 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGCTCGCAT
* *
89116526 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
89116576 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
89116619 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
89116661 AACCATCCTA
Statistics
Matches: 116, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.03
46 70 0.60
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:89124664 original size:24 final size:24
Alignment explanation
Indices: 89124637--89124690 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
89124627 AGTAAGGTTA
89124637 GAATACCCTGTTCATTAAGTCCAT
1 GAATACCCTGTTCATTAAGTCCAT
*
89124661 GAATACCCTGTTCATTAAGTCTAT
1 GAATACCCTGTTCATTAAGTCCAT
89124685 GAATAC
1 GAATAC
89124691 TGTTGGCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (24 bp):
GAATACCCTGTTCATTAAGTCCAT
Found at i:89127946 original size:44 final size:45
Alignment explanation
Indices: 89127856--89127984 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
89127846 GACAGAACGA
*
89127856 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
89127902 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
89127946 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
89127985 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:89133007 original size:17 final size:17
Alignment explanation
Indices: 89132987--89133020 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89132977 AAAAAAGTCA
89132987 AATCAACTAAAATGAAT
1 AATCAACTAAAATGAAT
89133004 AATCAACTAAAATGAAT
1 AATCAACTAAAATGAAT
89133021 CTAAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (17 bp):
AATCAACTAAAATGAAT
Found at i:89133130 original size:5 final size:5
Alignment explanation
Indices: 89133122--89133204 Score: 123
Period size: 5 Copynumber: 16.6 Consensus size: 5
89133112 CTTTAAATAT
* * *
89133122 ATAAT ATAAT ATAAT ATAAC ATAAC ATAAC ATAAC ATAAC AT-AC ATAAC
1 ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC ATAAC
89133171 ATAAC AATAAC ATAAC ATAAC ATAAC ATAAC ATA
1 ATAAC -ATAAC ATAAC ATAAC ATAAC ATAAC ATA
89133205 TATATAATGT
Statistics
Matches: 75, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
4 4 0.05
5 66 0.88
6 5 0.07
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (5 bp):
ATAAC
Found at i:89133523 original size:26 final size:26
Alignment explanation
Indices: 89133485--89133620 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
89133475 TGATACAAAT
*
89133485 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
89133511 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
89133537 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
89133563 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89133589 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89133615 TGATAA
1 TGATAA
89133621 GAATTTCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:89136835 original size:12 final size:12
Alignment explanation
Indices: 89136818--89136848 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
89136808 ACTCGGGGAA
89136818 GAGGCCGTGGTC
1 GAGGCCGTGGTC
89136830 GAGGCCGTGGTC
1 GAGGCCGTGGTC
89136842 GAGGCCG
1 GAGGCCG
89136849 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:89141708 original size:26 final size:26
Alignment explanation
Indices: 89141670--89141805 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
89141660 TGATACAAAT
*
89141670 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
89141696 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
89141722 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
89141748 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89141774 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89141800 TGATAA
1 TGATAA
89141806 GAATTTCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:89145027 original size:12 final size:12
Alignment explanation
Indices: 89145010--89145052 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
89145000 ACTCGGGGAA
89145010 GAGGCCGTGGTC
1 GAGGCCGTGGTC
89145022 GAGGCCGTGGTC
1 GAGGCCGTGGTC
89145034 GAGGCCGTGGTC
1 GAGGCCGTGGTC
89145046 GAGGCCG
1 GAGGCCG
89145053 AGGTAGTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.09, C:0.26, G:0.51, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:89149911 original size:26 final size:26
Alignment explanation
Indices: 89149873--89150008 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
89149863 TGATACAAAT
*
89149873 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
89149899 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
89149925 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
89149951 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89149977 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
89150003 TGATAA
1 TGATAA
89150009 GAATTTCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:89167178 original size:13 final size:13
Alignment explanation
Indices: 89167160--89167193 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
89167150 GAGACACGGG
*
89167160 CGTGTGTCTCAGC
1 CGTGTGTCACAGC
89167173 CGTGTGTCACAGC
1 CGTGTGTCACAGC
89167186 CGTGTGTC
1 CGTGTGTC
89167194 CCCTGATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.29, G:0.32, T:0.29
Consensus pattern (13 bp):
CGTGTGTCACAGC
Found at i:89175539 original size:17 final size:16
Alignment explanation
Indices: 89175498--89175538 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
89175488 TTAAATTTAA
89175498 AATTTAA-TTT-ATAT
1 AATTTAATTTTGATAT
*
89175512 ATTTTAATTTTGATAT
1 AATTTAATTTTGATAT
89175528 AATTTAATTTT
1 AATTTAATTTT
89175539 TTAACTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 6 0.26
15 3 0.13
16 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
AATTTAATTTTGATAT
Found at i:89180641 original size:2 final size:2
Alignment explanation
Indices: 89180634--89180660 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
89180624 AAAACAAAAG
89180634 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
89180661 AAAATGAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:89184809 original size:38 final size:38
Alignment explanation
Indices: 89184758--89184838 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
89184748 GAAAGTTATC
89184758 ATTTTCGGTTTTAGAAACTAAACTGAATAAAATATGAA
1 ATTTTCGGTTTTAGAAACTAAACTGAATAAAATATGAA
*
89184796 ATTTTTGGTTTTAGAAACTAAACTGAATAAAATATGAA
1 ATTTTCGGTTTTAGAAACTAAACTGAATAAAATATGAA
89184834 ATTTT
1 ATTTT
89184839 AGGGAACTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.38
Consensus pattern (38 bp):
ATTTTCGGTTTTAGAAACTAAACTGAATAAAATATGAA
Found at i:89188194 original size:27 final size:26
Alignment explanation
Indices: 89188126--89188195 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
89188116 AAGAGTGCGT
89188126 CACAAAGGCTTTCTTTCATATTACAC
1 CACAAAGGCTTTCTTTCATATTACAC
* **
89188152 CGCAAAGGCTTTCTTTCATATTATGC
1 CACAAAGGCTTTCTTTCATATTACAC
*
89188178 CACAAAAGGCTTCCTTTC
1 CAC-AAAGGCTTTCTTTC
89188196 CTAATGTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 25 0.66
27 13 0.34
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.34
Consensus pattern (26 bp):
CACAAAGGCTTTCTTTCATATTACAC
Found at i:89197327 original size:18 final size:18
Alignment explanation
Indices: 89197304--89197348 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
89197294 TAAGACATTC
89197304 ACAAATCAACTATACACA
1 ACAAATCAACTATACACA
89197322 ACAAATCAACTATACACA
1 ACAAATCAACTATACACA
*
89197340 ACATATCAA
1 ACAAATCAA
89197349 AAGGCCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.18
Consensus pattern (18 bp):
ACAAATCAACTATACACA
Found at i:89201177 original size:40 final size:40
Alignment explanation
Indices: 89201113--89201191 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
89201103 ATACGGTACC
* *
89201113 ACTTGGTGTGTAGGGTTGGATGGGTTGATTGTCTCCCCAT
1 ACTTGGTGTGTAGGGCTGGATGGGTTGATTGTATCCCCAT
* *
89201153 ACTTGGTGTGTAGGGCTGGGTGGGTTGATTTTATCCCCA
1 ACTTGGTGTGTAGGGCTGGATGGGTTGATTGTATCCCCA
89201192 CATAGTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.13, C:0.15, G:0.35, T:0.37
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGATGGGTTGATTGTATCCCCAT
Found at i:89203155 original size:15 final size:16
Alignment explanation
Indices: 89203135--89203164 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
89203125 GAAAATTGCC
89203135 AAAATGGG-CTAAATG
1 AAAATGGGACTAAATG
89203150 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
89203165 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATG
Found at i:89209420 original size:2 final size:2
Alignment explanation
Indices: 89209413--89209440 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89209403 ACATAAACTC
89209413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89209441 TCATGAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89209826 original size:56 final size:57
Alignment explanation
Indices: 89209766--89209875 Score: 195
Period size: 56 Copynumber: 1.9 Consensus size: 57
89209756 TAGACAGGGT
*
89209766 CTTACTCACACACATATATCGGAGTCACATATCGATGCCAACGTATTA-AACGTGGG
1 CTTACTCACACACATATATCGAAGTCACATATCGATGCCAACGTATTACAACGTGGG
*
89209822 CTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATTACAACGT
1 CTTACTCACACACATATATCGAAGTCACATATCGATGCCAACGTATTACAACGT
89209876 ATTAAACGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
56 46 0.90
57 5 0.10
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (57 bp):
CTTACTCACACACATATATCGAAGTCACATATCGATGCCAACGTATTACAACGTGGG
Found at i:89218581 original size:62 final size:62
Alignment explanation
Indices: 89218505--89218629 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
89218495 TCTCTTTAAG
89218505 TTTGAATGTTTCTAGACTAAAACTAACTCTAACGGGTTAGGCATTCTTTTGCTCAAATCCCC
1 TTTGAATGTTTCTAGACTAAAACTAACTCTAACGGGTTAGGCATTCTTTTGCTCAAATCCCC
89218567 TTTGAATGTTTCTAGACTAAAACTAACTCTAACGGGTTAGGCATTCTTTTGCTCAAATCCCC
1 TTTGAATGTTTCTAGACTAAAACTAACTCTAACGGGTTAGGCATTCTTTTGCTCAAATCCCC
89218629 T
1 T
89218630 ACTCATCTAG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.36
Consensus pattern (62 bp):
TTTGAATGTTTCTAGACTAAAACTAACTCTAACGGGTTAGGCATTCTTTTGCTCAAATCCCC
Found at i:89220635 original size:22 final size:22
Alignment explanation
Indices: 89220610--89220653 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
89220600 ATTAGTTTTC
89220610 TATTGTTTGATGATCTTTAATT
1 TATTGTTTGATGATCTTTAATT
*
89220632 TATTGTTTGATTATCTTTAATT
1 TATTGTTTGATGATCTTTAATT
89220654 GATAGTGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (22 bp):
TATTGTTTGATGATCTTTAATT
Found at i:89223238 original size:19 final size:20
Alignment explanation
Indices: 89223177--89223245 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
89223167 AACAATTTTC
89223177 AATATTTTT-ATTATTAATA
1 AATATTTTTAATTATTAATA
* *
89223196 AATAATTAAATTAAATATTTAAT-
1 AAT-ATT--TTTAATTA-TTAATA
89223219 AATATTTTTAATTATTAATA
1 AATATTTTTAATTATTAATA
89223239 AATATTT
1 AATATTT
89223246 GAATCAATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
19 8 0.20
20 16 0.40
22 5 0.12
23 6 0.15
24 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTTTTAATTATTAATA
Found at i:89223861 original size:20 final size:20
Alignment explanation
Indices: 89223833--89223886 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
89223823 AGGGGCACAC
*
89223833 GCCCATGTGGCCT-GAGACAT
1 GCCCGTGTGGCCTGGA-ACAT
89223853 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
89223873 GCCCGTGTGGCCTG
1 GCCCGTGTGGCCTG
89223887 CCCGTAGGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.13, C:0.31, G:0.35, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:89226009 original size:23 final size:24
Alignment explanation
Indices: 89225983--89226027 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
89225973 ATATTACATG
89225983 TGTATTAATCCCACACC-TACACA
1 TGTATTAATCCCACACCATACACA
89226006 TGTATTAATCCCACACCATACA
1 TGTATTAATCCCACACCATACA
89226028 TTTGTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.36, C:0.33, G:0.04, T:0.27
Consensus pattern (24 bp):
TGTATTAATCCCACACCATACACA
Found at i:89226066 original size:3 final size:3
Alignment explanation
Indices: 89226045--89226094 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
89226035 TTATCTCAAT
89226045 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89226089 TAA TAA
1 TAA TAA
89226095 GTAAATATCT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:89227833 original size:21 final size:21
Alignment explanation
Indices: 89227808--89227876 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
89227798 TATAATGATT
89227808 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
89227829 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
89227849 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
89227869 ATTATTAT
1 ATTATTAT
89227877 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:89227889 original size:15 final size:14
Alignment explanation
Indices: 89227863--89227893 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
89227853 TATGGTTTTA
89227863 TATTAGATTATTAT
1 TATTAGATTATTAT
89227877 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
89227892 TA
1 TA
89227894 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:89230561 original size:3 final size:3
Alignment explanation
Indices: 89230547--89230677 Score: 54
Period size: 3 Copynumber: 43.0 Consensus size: 3
89230537 TTTTTATTTT
* * * *
89230547 TTA TTA TCA TTA TTA -TA TTA TTA TTA TTT TTCA CGTA CATA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA -TTA TTA TTA
* * * * * *
89230593 TATA TTA TTT TTA TGA TTA TTA TT- GTA TTTA TTT TTA CTA CTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * * *
89230639 -TA TTTA TTA TTA GTA TTA GTA TTA TAA TTA CTA TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89230678 CACCTATATG
Statistics
Matches: 94, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
2 6 0.06
3 78 0.83
4 9 0.10
5 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:89230613 original size:24 final size:24
Alignment explanation
Indices: 89230533--89230629 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 24
89230523 ATATTGTCTT
* *
89230533 TTATT-TTT-TATTTTTTATTATCA
1 TTATTATTTATATTATTT-TTATGA
*
89230556 TTATTATATTATTATTATTTTTCACGTA
1 TTATTAT-TTA-TATTATTTTT-ATG-A
*
89230584 CATATTATTTATATTATTTTTATGA
1 -TTATTATTTATATTATTTTTATGA
89230609 TTATTATTGTAT-TTATTTTTA
1 TTATTATT-TATATTATTTTTA
89230630 CTACTATTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
23 5 0.08
24 17 0.28
25 6 0.10
26 4 0.07
27 18 0.30
28 4 0.07
29 6 0.10
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (24 bp):
TTATTATTTATATTATTTTTATGA
Found at i:89230637 original size:24 final size:24
Alignment explanation
Indices: 89230557--89230649 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 24
89230547 TTATTATCAT
89230557 TATTATATTATTATTATTTTTCACGTAC
1 TATTAT-TTA-TATTATTTTT-AC-TAC
*
89230585 ATATTATTTATATTATTTTTA-TGAT
1 -TATTATTTATATTATTTTTACT-AC
89230610 TATTATTGTAT-TTATTTTTACTAC
1 TATTATT-TATATTATTTTTACTAC
89230634 TATTATATT-TATTATT
1 TATTAT-TTATATTATT
89230650 AGTATTAGTA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
23 1 0.02
24 30 0.53
25 6 0.11
26 1 0.02
27 10 0.18
28 3 0.05
29 6 0.11
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.62
Consensus pattern (24 bp):
TATTATTTATATTATTTTTACTAC
Found at i:89230957 original size:27 final size:27
Alignment explanation
Indices: 89230925--89231062 Score: 100
Period size: 27 Copynumber: 5.4 Consensus size: 27
89230915 CTATATTACT
* *
89230925 TTTTTTACAT-ATTATCTTCTGTATATA
1 TTTTTTA-ATAATTATATTATGTATATA
*
89230952 TTTTTTAATAATTATATTATGTATGTA
1 TTTTTTAATAATTATATTATGTATATA
*** *
89230979 -TTTTTAA-CGCTATATTA--TATACA
1 TTTTTTAATAATTATATTATGTATATA
* *
89231002 TATTTTAAT-ACTATATTATGTATATA
1 TTTTTTAATAATTATATTATGTATATA
89231028 --TTTT-AT-A-TATATTATGTATATA
1 TTTTTTAATAATTATATTATGTATATA
89231050 TATTTTTAATAAT
1 T-TTTTTAATAAT
89231063 ATTTTTTATA
Statistics
Matches: 89, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
22 15 0.17
23 7 0.08
24 18 0.20
25 11 0.12
26 16 0.18
27 22 0.25
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (27 bp):
TTTTTTAATAATTATATTATGTATATA
Found at i:89231015 original size:24 final size:24
Alignment explanation
Indices: 89230946--89231075 Score: 102
Period size: 24 Copynumber: 5.3 Consensus size: 24
89230936 TTATCTTCTG
* *
89230946 TATATATTTTTTAATAATTATATTA
1 TATATATATTTTAAT-ACTATATTA
* * **
89230971 TGTATGTATTTTTAACGCTATATTA
1 TATATATA-TTTTAATACTATATTA
*
89230996 TATACATATTTTAATACTATATTA
1 TATATATATTTTAATACTATATTA
*
89231020 TGTATATATTTT-ATA-TATATTA
1 TATATATATTTTAATACTATATTA
* * *
89231042 TGTATATATATTTTTAATAATATTTTT
1 --TATATATA-TTTTAATACTATATTA
89231069 TATATAT
1 TATATAT
89231076 GTTATGTATA
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
22 7 0.08
23 3 0.04
24 31 0.37
25 28 0.34
26 9 0.11
27 5 0.06
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATATATTTTAATACTATATTA
Found at i:89231029 original size:11 final size:11
Alignment explanation
Indices: 89231013--89231050 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
89231003 ATTTTAATAC
89231013 TATATTATGTA
1 TATATTATGTA
* *
89231024 TATATTTTATA
1 TATATTATGTA
89231035 TATATTATGTA
1 TATATTATGTA
89231046 TATAT
1 TATAT
89231051 ATTTTTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (11 bp):
TATATTATGTA
Found at i:89231033 original size:13 final size:12
Alignment explanation
Indices: 89231017--89231091 Score: 59
Period size: 13 Copynumber: 6.2 Consensus size: 12
89231007 TAATACTATA
89231017 TTATGTATATATT
1 TTAT-TATATATT
89231030 TTA-TATATATT
1 TTATTATATATT
89231041 ATGTA-TATATATT
1 -T-TATTATATATT
*
89231054 TT-TAATAATATT
1 TTATTAT-ATATT
*
89231066 TT-TTATATATG
1 TTATTATATATT
89231077 TTATGTATATATT
1 TTAT-TATATATT
89231090 TT
1 TT
89231092 TAATATCACA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
11 17 0.33
12 13 0.25
13 22 0.42
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.61
Consensus pattern (12 bp):
TTATTATATATT
Found at i:89231057 original size:49 final size:48
Alignment explanation
Indices: 89230944--89231086 Score: 127
Period size: 49 Copynumber: 3.0 Consensus size: 48
89230934 TATTATCTTC
*
89230944 TGTATATAT-TTTTTAATAATTATATTATGTATGTATTTT-TA-ACGCTA-TA
1 TGTATATATATTTTTAAT-A-TATATTATGTATATATTTTATATA---TATTA
*
89230993 T-TATATACATATTTTAATACTATATTATGTATATATTTTATATATATTA
1 TGTATATATAT-TTTTAATA-TATATTATGTATATATTTTATATATATTA
* * * *
89231042 TGTATATATATTTTTAATA-ATATTTTTTATATATGTTATGTATAT
1 TGTATATATATTTTTAATATATATTATGTATATATTTTATATATAT
89231087 ATTTTTAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
47 22 0.28
48 8 0.10
49 32 0.40
50 17 0.21
51 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.57
Consensus pattern (48 bp):
TGTATATATATTTTTAATATATATTATGTATATATTTTATATATATTA
Found at i:89231073 original size:36 final size:35
Alignment explanation
Indices: 89231025--89231096 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 35
89231015 TATTATGTAT
89231025 ATATTTTATATATA-TTATGTATATATATTTTTAATA
1 ATATTTTATATATAGTTATG--TATATATTTTTAATA
*
89231061 ATATTTTTTATATATGTTATGTATATATTTTTAATA
1 ATATTTTATATATA-GTTATGTATATATTTTTAATA
89231097 TCACATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 28 0.85
38 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (35 bp):
ATATTTTATATATAGTTATGTATATATTTTTAATA
Found at i:89231081 original size:38 final size:36
Alignment explanation
Indices: 89231023--89231096 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 36
89231013 TATATTATGT
89231023 ATATATTTTATATATATTATGTATATATATTTTTAATA
1 ATATATTTTATATATATTATG--TATATATTTTTAATA
* *
89231061 ATATTTTTTATATATGTTATGTATATATTTTTAATA
1 ATATATTTTATATATATTATGTATATATTTTTAATA
89231097 TCACATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 15 0.44
38 19 0.56
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (36 bp):
ATATATTTTATATATATTATGTATATATTTTTAATA
Found at i:89231512 original size:32 final size:32
Alignment explanation
Indices: 89231450--89231513 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
89231440 ATTGTATATA
*
89231450 TATATATATATTTAATCTAGTATTATATGTTT
1 TATATATATATTTAATCTACTATTATATGTTT
*
89231482 TATATATATATGTTCA-CTACTATT-TCATGTTT
1 TATATATATAT-TTAATCTACTATTAT-ATGTTT
89231514 ACATTATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 1 0.04
32 24 0.86
33 3 0.11
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (32 bp):
TATATATATATTTAATCTACTATTATATGTTT
Found at i:89233053 original size:16 final size:17
Alignment explanation
Indices: 89233023--89233059 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
89233013 GTTTAAAATT
89233023 TTTAATTAATTAAATTTA
1 TTTAATTAA-TAAATTTA
89233041 TTTAATTAA-AAATTTA
1 TTTAATTAATAAATTTA
89233057 TTT
1 TTT
89233060 TCATTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTAATAAATTTA
Found at i:89233199 original size:20 final size:20
Alignment explanation
Indices: 89233164--89233201 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89233154 TAATCACTTT
89233164 GTAACAAAACGATAACATAA
1 GTAACAAAACGATAACATAA
89233184 GTAACTAAAACG-TAACAT
1 GTAAC-AAAACGATAACAT
89233202 TTTCAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.18
Consensus pattern (20 bp):
GTAACAAAACGATAACATAA
Found at i:89234086 original size:22 final size:23
Alignment explanation
Indices: 89234058--89234100 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
89234048 TATTATAATG
89234058 TGAACAT-TAAAAAATGTTAAGA
1 TGAACATATAAAAAATGTTAAGA
* *
89234080 TGAACATATATAAAATTTTAA
1 TGAACATATAAAAAATGTTAA
89234101 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (23 bp):
TGAACATATAAAAAATGTTAAGA
Found at i:89234163 original size:31 final size:31
Alignment explanation
Indices: 89234095--89234178 Score: 75
Period size: 31 Copynumber: 2.7 Consensus size: 31
89234085 ATATATAAAA
*
89234095 TTTTAATAAA-TAAAAAT-ATATATAATTAT
1 TTTTATTAAATTAAAAATAATATATAATTAT
**
89234124 TAAATATTAAATTAAAAATAATATA-AATATAT
1 T-TTTATTAAATTAAAAATAATATATAAT-TAT
** *
89234156 TTTTATTATTTTTAAAATAATAT
1 TTTTATTAAATTAAAAATAATAT
89234179 CGACAGACCT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.02
30 6 0.14
31 27 0.63
32 9 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
TTTTATTAAATTAAAAATAATATATAATTAT
Found at i:89238831 original size:46 final size:46
Alignment explanation
Indices: 89238780--89238871 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
89238770 TGTACCATGT
89238780 TCTTGAGCTTGTTTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
1 TCTTGAGCTTGTTTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
89238826 TCTTGAGCTTGTTTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
1 TCTTGAGCTTGTTTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
89238872 CTTTTTCCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (46 bp):
TCTTGAGCTTGTTTCAACTCGTAGAGAGCCTTATTTAACAAATAAA
Found at i:89248374 original size:25 final size:25
Alignment explanation
Indices: 89248345--89248425 Score: 135
Period size: 25 Copynumber: 3.2 Consensus size: 25
89248335 CCTCAAATCA
*
89248345 TTTTTCCCAAATCTCTAACTTAGTTT
1 TTTTTCCCAAATCCCTAACTTAG-TT
89248371 TTTTTCCCTAAATCCCTAACTTAGTT
1 TTTTTCCC-AAATCCCTAACTTAGTT
89248397 TTTTTCCCAAATCCCTAACTTAGTT
1 TTTTTCCCAAATCCCTAACTTAGTT
89248422 TTTT
1 TTTT
89248426 CTTTCCCATC
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
25 21 0.40
26 18 0.34
27 14 0.26
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (25 bp):
TTTTTCCCAAATCCCTAACTTAGTT
Found at i:89248383 original size:27 final size:26
Alignment explanation
Indices: 89248345--89248425 Score: 137
Period size: 26 Copynumber: 3.1 Consensus size: 26
89248335 CCTCAAATCA
*
89248345 TTTTTCCCAAATCTCTAACTTAGTTT
1 TTTTTCCCAAATCCCTAACTTAGTTT
89248371 TTTTTCCCTAAATCCCTAACTTAG-TT
1 TTTTTCCC-AAATCCCTAACTTAGTTT
89248397 TTTTTCCCAAATCCCTAACTTAGTTT
1 TTTTTCCCAAATCCCTAACTTAGTTT
89248423 TTT
1 TTT
89248426 CTTTCCCATC
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
25 15 0.29
26 23 0.44
27 14 0.27
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.49
Consensus pattern (26 bp):
TTTTTCCCAAATCCCTAACTTAGTTT
Found at i:89249215 original size:36 final size:36
Alignment explanation
Indices: 89249168--89249239 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
89249158 ATATTGTGTT
89249168 TGTATTTGGGAAAGAGACACAAAGGCAAAGACTTAA
1 TGTATTTGGGAAAGAGACACAAAGGCAAAGACTTAA
* *
89249204 TGTATTTGGGAAAGAGACACAGAGGCAGAGACTTAA
1 TGTATTTGGGAAAGAGACACAAAGGCAAAGACTTAA
89249240 AGACAACTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (36 bp):
TGTATTTGGGAAAGAGACACAAAGGCAAAGACTTAA
Found at i:89251245 original size:67 final size:67
Alignment explanation
Indices: 89251171--89251374 Score: 295
Period size: 66 Copynumber: 3.1 Consensus size: 67
89251161 CAAATTGCTT
* * *
89251171 AACTTAAAGCGGAGGTAGCATCGAAAGAAATAGAGGCTAAAAAGAAAATATGATGAACTCCATCT
1 AACTTAAAGCGGAGGTAGCATCGAGAGAAACAGAGGCTAAAAAGAAAATATGATGAACTCCAGCT
89251236 AC
66 AC
* **
89251238 AACTTAAAGCGGATGTAGCATCGAGAGAAACAGAGGCT-AAAAGAAAATATGATGAACTTTAGCT
1 AACTTAAAGCGGAGGTAGCATCGAGAGAAACAGAGGCTAAAAAGAAAATATGATGAACTCCAGCT
89251302 AC
66 AC
* * * * *
89251304 AACTTAAAGCGGAGGTAGCAGCGAGGGAAACAGAAGC-AACAAGAAAATATGACGAACTCCAGCT
1 AACTTAAAGCGGAGGTAGCATCGAGAGAAACAGAGGCTAAAAAGAAAATATGATGAACTCCAGCT
89251368 AC
66 AC
89251370 AACTT
1 AACTT
89251375 CAAAATATGA
Statistics
Matches: 122, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
66 87 0.71
67 35 0.29
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.17
Consensus pattern (67 bp):
AACTTAAAGCGGAGGTAGCATCGAGAGAAACAGAGGCTAAAAAGAAAATATGATGAACTCCAGCT
AC
Found at i:89255318 original size:2 final size:2
Alignment explanation
Indices: 89255311--89255342 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
89255301 GGGTTAACGC
*
89255311 GA GA GA GA GA GA GA GA GA GA GA GG GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
89255343 ATCGAAAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:89257585 original size:2 final size:2
Alignment explanation
Indices: 89257578--89257612 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
89257568 GTTCAGTCTG
89257578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89257613 TTATTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.