Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 204 of 255
Found at i:68214982 original size:23 final size:23
Alignment explanation
Indices: 68214942--68215008 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
68214932 AATAGGGTAT
*
68214942 TTAATTCACT-TTTCAATTTTCAA
1 TTAATTCA-TATTTTAATTTTCAA
68214965 TTAATTCATATTTTAA--TT-AA
1 TTAATTCATATTTTAATTTTCAA
**
68214985 TTAATT-ATATTTTTTTTTTCAA
1 TTAATTCATATTTTAATTTTCAA
68215007 TT
1 TT
68215009 CAATATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 7 0.19
20 8 0.22
21 4 0.11
22 5 0.14
23 13 0.35
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATTCATATTTTAATTTTCAA
Found at i:68216631 original size:31 final size:32
Alignment explanation
Indices: 68216575--68216637 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
68216565 CACACTTGTC
*
68216575 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
68216607 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
68216638 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:68228948 original size:26 final size:26
Alignment explanation
Indices: 68228919--68228970 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
68228909 AATAATCGAC
68228919 AACGGTACCCCTTGTAAACTCACAAT
1 AACGGTACCCCTTGTAAACTCACAAT
* * *
68228945 AACGGTAGCCCTTTTAATCTCACAAT
1 AACGGTACCCCTTGTAAACTCACAAT
68228971 CTCAGATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (26 bp):
AACGGTACCCCTTGTAAACTCACAAT
Found at i:68239999 original size:38 final size:38
Alignment explanation
Indices: 68239935--68240007 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
68239925 TAATTTAATA
* *
68239935 ATTATCTTATTGTATTTTATTAATTTAATGTTAAAGTG
1 ATTATCTTATTGTATTTTATGAATTTAATATTAAAGTG
68239973 ATTATCTTA-T-TATTTTAATGAGATTTAATATTAAA
1 ATTATCTTATTGTATTTT-ATGA-ATTTAATATTAAA
68240008 TTTAATCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 6 0.19
37 4 0.13
38 21 0.68
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (38 bp):
ATTATCTTATTGTATTTTATGAATTTAATATTAAAGTG
Found at i:68241637 original size:19 final size:20
Alignment explanation
Indices: 68241615--68241652 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68241605 TGCATTTATT
*
68241615 TAATA-TTTATTTTTTTAAA
1 TAATACTTTAATTTTTTAAA
68241634 TAATACTTTAATTTTTTAA
1 TAATACTTTAATTTTTTAA
68241653 TAAATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATACTTTAATTTTTTAAA
Found at i:68248599 original size:19 final size:20
Alignment explanation
Indices: 68248575--68248618 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
68248565 TGAAAATAAT
68248575 TAAATT-AAAATATAAATAC
1 TAAATTCAAAATATAAATAC
* *
68248594 TAAATTCATAATATAAGTAC
1 TAAATTCAAAATATAAATAC
68248614 -AAATT
1 TAAATT
68248619 GACCAATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAATTCAAAATATAAATAC
Found at i:68250020 original size:13 final size:13
Alignment explanation
Indices: 68250004--68250054 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
68249994 TTTAAACCAA
*
68250004 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
68250017 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
68250030 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
68250043 ACTTTTCAAAAG
1 ACTTTTCAAAAG
68250055 TATTGTCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:68250226 original size:91 final size:92
Alignment explanation
Indices: 68250082--68250250 Score: 252
Period size: 91 Copynumber: 1.8 Consensus size: 92
68250072 TTAATGACCA
* * ** *
68250082 GCACCACCTTGATTTTTGACCCAATTATTACCTGATGATTGTGTTAGGCTTAAAAAAATAATT-T
1 GCACCACCTTGATTTTTGACCCAATAATCACCTGATGATTGTGCCAGGCTTAAAAAAA-AATTAA
68250146 TTTTTGGG-TTGGGAGACTTAATGGCTG
65 TTTTTGGGATTGGGAGACTTAATGGCTG
* *
68250173 GCACCACCTTGATTTTTGACCCAATAATCACTTGATGATTGTGCCAGGTTTAAAAAAAAATTAAT
1 GCACCACCTTGATTTTTGACCCAATAATCACCTGATGATTGTGCCAGGCTTAAAAAAAAATTAAT
68250238 TTTTGGGATTGGG
66 TTTTGGGATTGGG
68250251 GGGGACTTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 4 0.06
91 60 0.87
92 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (92 bp):
GCACCACCTTGATTTTTGACCCAATAATCACCTGATGATTGTGCCAGGCTTAAAAAAAAATTAAT
TTTTGGGATTGGGAGACTTAATGGCTG
Found at i:68253845 original size:21 final size:21
Alignment explanation
Indices: 68253817--68253872 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
68253807 TGTAAAGTAA
68253817 AATAATTTAAATA-AAAAATT
1 AATAATTTAAATATAAAAATT
*
68253837 AATACATTTAAATATAAAAAAT
1 AATA-ATTTAAATATAAAAATT
*
68253859 -ATTATTTAAATATA
1 AATAATTTAAATATA
68253873 CATTTAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.47
21 11 0.34
22 6 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAATTTAAATATAAAAATT
Found at i:68253982 original size:24 final size:23
Alignment explanation
Indices: 68253951--68254013 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 23
68253941 ATTATATACA
68253951 ATAAAGTAAATAAATTATTCAATT
1 ATAAAGTAAATAAATTATTC-ATT
68253975 ATAAAGTAAATAAATTATTCATT
1 ATAAAGTAAATAAATTATTCATT
*
68253998 TTAAAGATTAAATAAA
1 ATAAAG--TAAATAAA
68254014 AAACTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 8 0.22
24 20 0.56
25 8 0.22
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (23 bp):
ATAAAGTAAATAAATTATTCATT
Found at i:68255737 original size:41 final size:41
Alignment explanation
Indices: 68255684--68255799 Score: 187
Period size: 41 Copynumber: 2.8 Consensus size: 41
68255674 CTATTTAAAA
* *
68255684 TCACACACTAAGTGCCATATGTAGCTGAAGTTATCTCATTC
1 TCACACACTAAGTGCCATATGTAGCCGAAGCTATCTCATTC
68255725 TCACACACTAAGTGCCATATGTAGCCGAAGCTATCTCATTC
1 TCACACACTAAGTGCCATATGTAGCCGAAGCTATCTCATTC
** *
68255766 TCGTACACTAAGTGCCATATATAGCCGAAGCTAT
1 TCACACACTAAGTGCCATATGTAGCCGAAGCTAT
68255800 GACGAATCAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (41 bp):
TCACACACTAAGTGCCATATGTAGCCGAAGCTATCTCATTC
Found at i:68255830 original size:40 final size:39
Alignment explanation
Indices: 68255647--68255831 Score: 154
Period size: 41 Copynumber: 4.6 Consensus size: 39
68255637 CGATATCTTG
* * * * * *
68255647 CACACTAAGTGTCGTACATAGCTGAAGCTATTTAAAATCA
1 CACACTAAGTGCCATATATAGCCGAAGCTA-TCACAATCA
* * * * *
68255687 CACACTAAGTGCCATATGTAGCTGAAGTTATCTCATTCTCA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCACA--ATCA
* * * *
68255728 CACACTAAGTGCCATATGTAGCCGAAGCTATCTCATTCT
1 CACACTAAGTGCCATATATAGCCGAAGCTATCACAATCA
*
68255767 CGTACACTAAGTGCCATATATAGCCGAAGCTATGACGAATCA
1 C--ACACTAAGTGCCATATATAGCCGAAGCTATCAC-AATCA
* *
68255809 CACACTAAGTGCCACAAATAGCC
1 CACACTAAGTGCCATATATAGCC
68255832 AATTTTTTAT
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 5 0.04
40 45 0.38
41 66 0.55
42 4 0.03
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (39 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCACAATCA
Found at i:68260565 original size:30 final size:30
Alignment explanation
Indices: 68260529--68260591 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
68260519 ACTTATTTTA
68260529 TTGTTAATTTTGTTA-GTATTTTAAAGACAT
1 TTGTTAATTTTGTTATG-ATTTTAAAGACAT
* *
68260559 TTGTTAATTTTGTTATGATTTTAGAGGCAT
1 TTGTTAATTTTGTTATGATTTTAAAGACAT
68260589 TTG
1 TTG
68260592 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.54
Consensus pattern (30 bp):
TTGTTAATTTTGTTATGATTTTAAAGACAT
Found at i:68260737 original size:12 final size:12
Alignment explanation
Indices: 68260716--68260749 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
68260706 TATATATTTT
*
68260716 AAAATTATATAA
1 AAAATAATATAA
68260728 AAAATAATATAA
1 AAAATAATATAA
*
68260740 AAATTAATAT
1 AAAATAATAT
68260750 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:68264675 original size:11 final size:11
Alignment explanation
Indices: 68264653--68264708 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
68264643 AGGATCACTA
68264653 ACTAATACTAAT
1 ACTAATA-TAAT
68264665 A-TAATATTAAT
1 ACTAATA-TAAT
* *
68264676 A-AAATAGAAT
1 ACTAATATAAT
68264686 ACTAATATAAT
1 ACTAATATAAT
*
68264697 ACTAATAGAAT
1 ACTAATATAAT
68264708 A
1 A
68264709 GAAAATGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
10 4 0.11
11 32 0.86
12 1 0.03
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (11 bp):
ACTAATATAAT
Found at i:68264694 original size:27 final size:27
Alignment explanation
Indices: 68264656--68264711 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
68264646 ATCACTAACT
*
68264656 AATACTAATATAATATTAATAAAATAG
1 AATACTAATATAATACTAATAAAATAG
*
68264683 AATACTAATATAATACTAATAGAATAG
1 AATACTAATATAATACTAATAAAATAG
68264710 AA
1 AA
68264712 AATGCAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (27 bp):
AATACTAATATAATACTAATAAAATAG
Found at i:68271427 original size:46 final size:46
Alignment explanation
Indices: 68271290--68271461 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
68271280 TGGGTAAGGT
* * *
68271290 GCCGATGCCATGTTCCAGACATAGTCTTACATTGGCTCACATCTCAA
1 GCCGATGCCATG-TCCAGACATAGTCTTACACTGGCTTACATCTCGA
** * * *
68271337 GTTGATGCCATATTCCAGACATGGTCTTACACTGACTATA-ATCTCGTA
1 GCCGATGCCAT-GTCCAGACATAGTCTTACACTGGCT-TACATCTCG-A
68271385 GCCGATG-CATGTCCAAGACAT-GTCTTACACTGGCTTACATCTCGA
1 GCCGATGCCATGTCC-AGACATAGTCTTACACTGGCTTACATCTCGA
*
68271430 GGCCGATG-CATGTCCCATACAT-GTCTTACACT
1 -GCCGATGCCATGT-CCAGACATAGTCTTACACT
68271462 AGCACTCGTC
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
45 3 0.03
46 49 0.47
47 46 0.44
48 7 0.07
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCCATGTCCAGACATAGTCTTACACTGGCTTACATCTCGA
Found at i:68271452 original size:93 final size:94
Alignment explanation
Indices: 68271290--68271461 Score: 217
Period size: 93 Copynumber: 1.8 Consensus size: 94
68271280 TGGGTAAGGT
* ** *
68271290 GCCGATGCCATGTTCCAGACATAGTCTTACATTGGCTCACATCTCAAGTTGATGCCATATTCCAG
1 GCCGATGCCATGTTCCAGACATAGTCTTACACTGGCTCACATCTCAAGCCGATGCCATATCCCAG
68271355 ACATGGTCTTACACTGACTATAATCTCGTA
66 ACAT-GTCTTACACTGACTATAATCTCGTA
* * *
68271385 GCCGATG-CATG-TCCAAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATG-CATGTCCC
1 GCCGATGCCATGTTCC-AGACATAGTCTTACACTGGCTCACATCTC-AAGCCGATGCCATATCCC
*
68271446 ATACATGTCTTACACT
64 AGACATGTCTTACACT
68271462 AGCACTCGTC
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
92 10 0.15
93 34 0.51
94 16 0.24
95 7 0.10
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (94 bp):
GCCGATGCCATGTTCCAGACATAGTCTTACACTGGCTCACATCTCAAGCCGATGCCATATCCCAG
ACATGTCTTACACTGACTATAATCTCGTA
Found at i:68271560 original size:46 final size:46
Alignment explanation
Indices: 68271385--68271560 Score: 159
Period size: 46 Copynumber: 3.8 Consensus size: 46
68271375 TAATCTCGTA
* * * * *
68271385 GCCGATGCATGTCCAAGACATGTCTTACACTGGCT-TACAT-CTCGAG
1 GCCGATGCATGTCCCATACATGTCTTACACTAGCTCT-CATAAT-GTG
*
68271431 GCCGATGCATGTCCCATACATGTCTTACACTAGCACTCGTCTTAA--T-
1 GCCGATGCATGTCCCATACATGTCTTACACTAG--CTC-TCATAATGTG
*
68271477 GCCGATACCATGT--CATGGACATGGTCTTACACTAGCTCTCATAATGTG
1 GCCGAT-GCATGTCCCAT--ACAT-GTCTTACACTAGCTCTCATAATGTG
68271525 GCCGATGCATGTCCCATACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCATACATGTCTTACACTAGCTC
68271561 ACGCAACTAA
Statistics
Matches: 107, Mismatches: 9, Indels: 28
0.74 0.06 0.19
Matches are distributed among these distances:
45 8 0.07
46 54 0.50
47 19 0.18
48 20 0.19
49 5 0.05
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCATACATGTCTTACACTAGCTCTCATAATGTG
Found at i:68272301 original size:22 final size:22
Alignment explanation
Indices: 68272276--68272317 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
68272266 CAAAAATACA
*
68272276 AAAATCATCAACAAAGGACATG
1 AAAATCATCAACAAAAGACATG
68272298 AAAATCATCAACAAAAGACA
1 AAAATCATCAACAAAAGACA
68272318 ATATTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.19, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCAACAAAAGACATG
Found at i:68272412 original size:11 final size:11
Alignment explanation
Indices: 68272390--68272445 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
68272380 GGGATCACTA
68272390 ACTAATACTAAT
1 ACTAATA-TAAT
68272402 A-TAATATTAAT
1 ACTAATA-TAAT
* *
68272413 A-AAATAGAAT
1 ACTAATATAAT
68272423 ACTAATATAAT
1 ACTAATATAAT
*
68272434 ACTAATAGAAT
1 ACTAATATAAT
68272445 A
1 A
68272446 GAAAATGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
10 4 0.11
11 32 0.86
12 1 0.03
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (11 bp):
ACTAATATAAT
Found at i:68272431 original size:27 final size:27
Alignment explanation
Indices: 68272393--68272448 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
68272383 ATCACTAACT
*
68272393 AATACTAATATAATATTAATAAAATAG
1 AATACTAATATAATACTAATAAAATAG
*
68272420 AATACTAATATAATACTAATAGAATAG
1 AATACTAATATAATACTAATAAAATAG
68272447 AA
1 AA
68272449 AATGCAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (27 bp):
AATACTAATATAATACTAATAAAATAG
Found at i:68278302 original size:46 final size:46
Alignment explanation
Indices: 68278215--68278339 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 46
68278205 TCATCTCCTA
* * *
68278215 GCCAATGCATGTCCCAGGCATGTCTTACACTGGCTTACGTCTCGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCGAG
* ** *
68278261 GCCAATGCATGTCCTAGACATGTCTTACACTAGCACT-CGTCTTAAT
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCGAG
** *
68278307 GCTGATGCCATGTCCCGGACATGGTCTTACACT
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACT
68278340 GGCTTTCATA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 42 0.65
47 13 0.20
48 10 0.15
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCGAG
Found at i:68280813 original size:17 final size:17
Alignment explanation
Indices: 68280791--68280842 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
68280781 ATAGAAACAT
*
68280791 AATCTTCGAAGATATGC
1 AATCTTAGAAGATATGC
*
68280808 AATCTTAGATATGATATGT
1 AATCTTAGA-A-GATATGC
*
68280827 AATCTTAAAAGATATG
1 AATCTTAGAAGATATG
68280843 ATTCATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 14 0.47
18 2 0.07
19 14 0.47
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (17 bp):
AATCTTAGAAGATATGC
Found at i:68280861 original size:22 final size:23
Alignment explanation
Indices: 68280814--68280856 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
68280804 ATGCAATCTT
68280814 AGATATGA-TATGTAATCTTAAA
1 AGATATGATTATGTAATCTTAAA
68280836 AGATATGATTCAT-TAATCTTA
1 AGATATGATT-ATGTAATCTTA
68280857 GAGATTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 9 0.47
24 2 0.11
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAAA
Found at i:68285224 original size:27 final size:27
Alignment explanation
Indices: 68285193--68285265 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
68285183 TTAGTTTACC
*
68285193 AAATTACTAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTAATTTGTA
*
68285220 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTAATTTGTA
*
68285247 AAATTACCGAAATACCCCT
1 AAATTACCAAAATACCCCT
68285266 GTAGGGTAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAATTTGTA
Found at i:68285281 original size:27 final size:27
Alignment explanation
Indices: 68285248--68285658 Score: 599
Period size: 27 Copynumber: 15.3 Consensus size: 27
68285238 TAATTTGTGA
68285248 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68285275 AAATACCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
68285301 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68285328 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
68285355 AATTACCGAAATACCCCTGTAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68285382 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68285409 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
68285436 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
68285463 AATTACTGAAATACCCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
68285490 AATTATCTATATATCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68285517 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68285544 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68285571 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
68285598 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
68285625 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
68285652 AATTACC
1 AATTACC
68285659 ATTTTGCCCC
Statistics
Matches: 344, Mismatches: 39, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 25 0.07
27 319 0.93
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:68285932 original size:27 final size:27
Alignment explanation
Indices: 68285902--68285954 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
68285892 CCTCGCTGCA
*
68285902 ATCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGACCTAGCCACAATATCTGT
* * *
68285929 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGACCTAGCCACAATATCTG
68285955 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
ATCTGGTGACCTAGCCACAATATCTGT
Found at i:68286082 original size:6 final size:6
Alignment explanation
Indices: 68286073--68286160 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
68286063 TTGCATTCAC
* * * *
68286073 ATTCTT ATTCTG ATTCTG -TCACCTG ATACTG ATTCTG ACTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
68286122 -TCACCTG ATTCTG ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
68286161 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 3 0.05
6 53 0.82
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (6 bp):
ATTCTG
Found at i:68286106 original size:19 final size:18
Alignment explanation
Indices: 68286081--68286140 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
68286071 ACATTCTTAT
68286081 TCTGATTCTGTCACCTGA
1 TCTGATTCTGTCACCTGA
68286099 TACTGATTCTG--A-C---
1 T-CTGATTCTGTCACCTGA
68286112 TCTGATTCTGTCACCTGA
1 TCTGATTCTGTCACCTGA
68286130 TTCTGATTCTG
1 -TCTGATTCTG
68286141 ATTCTAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 15
0.69 0.00 0.31
Matches are distributed among these distances:
12 9 0.26
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.56
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (18 bp):
TCTGATTCTGTCACCTGA
Found at i:68286116 original size:31 final size:31
Alignment explanation
Indices: 68286081--68286151 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
68286071 ACATTCTTAT
68286081 TCTGATTCTGTCACCTGATACTGATTCTGAC
1 TCTGATTCTGTCACCTGATACTGATTCTGAC
* *
68286112 TCTGATTCTGTCACCTGATTCTGATTCTGAT
1 TCTGATTCTGTCACCTGATACTGATTCTGAC
*
68286143 TCTAATTCT
1 TCTGATTCT
68286152 AGTTCTGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (31 bp):
TCTGATTCTGTCACCTGATACTGATTCTGAC
Found at i:68286875 original size:40 final size:41
Alignment explanation
Indices: 68286805--68286883 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
68286795 GTTACAATCG
* *
68286805 CATTAAACCAAAGCTATCTCAGTATCGCACACTTAGTGCCA
1 CATTAAACCAAAGCTATCTCAATATCGCACACTAAGTGCCA
* * *
68286846 CATTCAACCGAAGCTATTTCAAT-TCGCACACTAAGTGC
1 CATTAAACCAAAGCTATCTCAATATCGCACACTAAGTGC
68286884 TATATATAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 14 0.42
41 19 0.58
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (41 bp):
CATTAAACCAAAGCTATCTCAATATCGCACACTAAGTGCCA
Found at i:68310406 original size:16 final size:17
Alignment explanation
Indices: 68310382--68310455 Score: 69
Period size: 18 Copynumber: 4.3 Consensus size: 17
68310372 AAAAATAGAA
*
68310382 ATAATAATATAT-AAAT
1 ATAAAAATATATAAAAT
68310398 ATAAAAATATATAAAAT
1 ATAAAAATATATAAAAT
* * *
68310415 ATTTAGAATATATAAAAA
1 A-TAAAAATATATAAAAT
* *
68310433 ATAAAATAGATATAATAT
1 ATAAAA-ATATATAAAAT
68310451 ATAAA
1 ATAAA
68310456 TAGATTGAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 11 0.24
17 8 0.17
18 27 0.59
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAAAAATATATAAAAT
Found at i:68317020 original size:20 final size:20
Alignment explanation
Indices: 68316974--68317012 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68316964 AGGGACAATT
*
68316974 AGAAAAGAAAAAAATTAAGA
1 AGAAAAGAAAAAAATTAACA
*
68316994 AAAAAAGAAAAAAATTAAC
1 AGAAAAGAAAAAAATTAAC
68317013 TTGAAAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (20 bp):
AGAAAAGAAAAAAATTAACA
Found at i:68319167 original size:46 final size:46
Alignment explanation
Indices: 68319114--68319232 Score: 168
Period size: 46 Copynumber: 2.6 Consensus size: 46
68319104 TGTGCTAGTC
* * *
68319114 TAAGACATGTCCGGGACATGCATCGGC-TACATTATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCATACA-GACGAGAGCCAGTG
** *
68319160 TAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCATACAGACGAGAGCCAGTG
68319206 TAAGACATGTCTGGGACATGCATCGGC
1 TAAGACATGTCTGGGACATGCATCGGC
68319233 CTCGAGATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 64 0.97
47 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCATACAGACGAGAGCCAGTG
Found at i:68319273 original size:48 final size:46
Alignment explanation
Indices: 68319107--68319273 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 46
68319097 TGATATGTGT
* * * * *
68319107 GCTAGTCTAAGACATGTCCGGGACATGCATCGGC-TAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGA-GAAGAAA
* * * *
68319153 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAAA
* *
68319199 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA-AGA-AA
* *
68319247 GCTAGTGTAAGACCTGTCTGGAACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
68319274 GCGTCTGATA
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
46 74 0.72
47 3 0.03
48 26 0.25
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAGAAA
Found at i:68343946 original size:580 final size:578
Alignment explanation
Indices: 68342845--68344005 Score: 1873
Period size: 580 Copynumber: 2.0 Consensus size: 578
68342835 GATGAGGAAT
*
68342845 AGACCCTTTCTAAGAGTAAATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAGATAGGGT
1 AGACCCTGTCTAAGAGTAAATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAGATAGGGT
68342910 GACAAGATTTTACCGGATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGCAATT
66 GACAAGATTTTACCGGATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGCAATT
* **
68342975 CTAGGGTGTTAATTAGAAAGAGATTTCAATTATTCAACCTAGGGTTAGATGTTATTAGTCTCGAG
131 CTAGGGTGTTAATTAGAAAGAGATTTCAATTATTCAACCTAGGATTAGACATTATTAGTCTCGAG
*
68343040 AGAGATAATAATATAACTTAGGGATTTCTATGGATCAAGTCAAATGAATAAATCGTTTGATTCAA
196 AGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGTTTGATTCAA
*
68343105 AGTCAAATAACAAGTGAAGTCTAGGTGGATCTGTCCTTAGGTATTGTCTCAATCAATCGAATTTT
261 AGTCAAATAACAAGTGAAGTCTAGGTGGATCTGTCCTT--GTATTGTCTCAATCAATCAAATTTT
*
68343170 CCCAAAAGTATTTTCCCAAGTTTTTCTTTCTGTGCATTCTTAGTTAGTAATTAGTTTAGACAACC
324 CCCAAAAGTATTTTCCCAAGTTTTTCTTTCTGTGCATTCTTAGTTAGTAATTAGTTCAGACAACC
* **
68343235 AAAACTCTTAAATTTTAGGCTAGATAATAAAAAGGAAGTAAGTACTTATAGTTCCTTTGGGTTTG
389 AAAACTCTTAAATTTTAGGCTAGATAATAAAAAGGAAGTAAGTACTCATAGTTCCTTTGGGTTCA
* * *
68343300 GCAATCCGGTCTTGCTGAACTATACTACTGTTCGATAGGTACACTTACATTAATCGTGAGAATAA
454 ACAATCCGGTCTTGCTAAACTATACTACTATTCGATAGGTACACTTACATTAATCGTGAGAATAA
*** * *
68343365 GTTAGTCTCAAGAATGTTTCATTTATAAATCTTTAAAACCTGTTATGAATACCACGCATC
519 GTTAGTCTCAAGAAAAATTCATGTATAAATCTTTAAAACCTGTTACGAATACCACGCATC
* *
68343425 AGACCCTGTCTAAGAGTAAATTTGTCATAATTGAGTGGAGTTGATTGCGCGCCTAGAGATAGGGT
1 AGACCCTGTCTAAGAGTAAATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAGATAGGGT
* * * *
68343490 GACAATATTTTGCTGGATTAGGGTGAAACCTAATAGGGGAATCCATAGATCGAGTTAATGCAATT
66 GACAAGATTTTACCGGATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGCAATT
68343555 CTAGGGTGTTAATTAGAAAGAGATTTCAATTATTCAACCTAGGATTAGACATTATTAGTCTCGAG
131 CTAGGGTGTTAATTAGAAAGAGATTTCAATTATTCAACCTAGGATTAGACATTATTAGTCTCGAG
* *
68343620 AGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATTGTTTGATTCAG
196 AGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGTTTGATTCAA
* *
68343685 AGTCAAATAACAAGTGAAGTCTAGGTGGATTTTTCC-T-TA-TGTCTCAATCAATCAAATTTTCC
261 AGTCAAATAACAAGTGAAGTCTAGGTGGATCTGTCCTTGTATTGTCTCAATCAATCAAATTTTCC
*
68343747 CAAAAGTATTTTCCCAAG-TTTTCTTTCTG-GACATTCTTAGTTAGTAATTAGTTCAGATAACCA
326 CAAAAGTATTTTCCCAAGTTTTTCTTTCTGTG-CATTCTTAGTTAGTAATTAGTTCAGACAACCA
* *
68343810 AACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACTAGTACTCATAGTTCCTTTGG
390 AAACTCTTAAATTTTAGGCTAGATAATAAAAAGGAAG----TA--AGTACTCATAGTTCCTTTGG
* * * *
68343875 GTTCAACAATCCGGTCTTGCTAAACTATACTACTATTCGATAGGTTCACTTGCCTTAATCGTGAT
449 GTTCAACAATCCGGTCTTGCTAAACTATACTACTATTCGATAGGTACACTTACATTAATCGTGAG
* *
68343940 AATAAGTTAGTCTCAAGAAAAATTCATGTATAAATTTTTAAAACCTGTTACGAATATCACGCATC
514 AATAAGTTAGTCTCAAGAAAAATTCATGTATAAATCTTTAAAACCTGTTACGAATACCACGCATC
68344005 A
1 A
68344006 ATAAGGTCAC
Statistics
Matches: 537, Mismatches: 37, Indels: 14
0.91 0.06 0.02
Matches are distributed among these distances:
573 1 0.00
574 76 0.14
575 40 0.07
576 2 0.00
578 2 0.00
579 1 0.00
580 415 0.77
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (578 bp):
AGACCCTGTCTAAGAGTAAATTTGTCATAATTAAGCGGAGTTGATTGCGCGCCTAGAGATAGGGT
GACAAGATTTTACCGGATTAGGGTGAAACCTAATAAGGGAATCCATAGATCGAGTTAATGCAATT
CTAGGGTGTTAATTAGAAAGAGATTTCAATTATTCAACCTAGGATTAGACATTATTAGTCTCGAG
AGAGATAATAATATAACTTAGGGATTTCTACGGATCAAGTCAAATGAATAAATCGTTTGATTCAA
AGTCAAATAACAAGTGAAGTCTAGGTGGATCTGTCCTTGTATTGTCTCAATCAATCAAATTTTCC
CAAAAGTATTTTCCCAAGTTTTTCTTTCTGTGCATTCTTAGTTAGTAATTAGTTCAGACAACCAA
AACTCTTAAATTTTAGGCTAGATAATAAAAAGGAAGTAAGTACTCATAGTTCCTTTGGGTTCAAC
AATCCGGTCTTGCTAAACTATACTACTATTCGATAGGTACACTTACATTAATCGTGAGAATAAGT
TAGTCTCAAGAAAAATTCATGTATAAATCTTTAAAACCTGTTACGAATACCACGCATC
Found at i:68347327 original size:22 final size:22
Alignment explanation
Indices: 68347302--68347344 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
68347292 GGAGGCCAAG
68347302 GAAATCAGAGACCACCTCCAGA
1 GAAATCAGAGACCACCTCCAGA
68347324 GAAATCAGAGACCACCTCCAG
1 GAAATCAGAGACCACCTCCAG
68347345 GCTACCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.33, G:0.19, T:0.09
Consensus pattern (22 bp):
GAAATCAGAGACCACCTCCAGA
Found at i:68357787 original size:39 final size:39
Alignment explanation
Indices: 68357733--68357811 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
68357723 TGTGACAGAA
* ** *
68357733 ACATAACAATTTATGATGAATGAATGTTACAATTTGATG
1 ACATAAAAATTTATGATGAACAAATGTTACAAATTGATG
68357772 ACATAAAAATTTATGATGAACAAATGTTACAAATTGATG
1 ACATAAAAATTTATGATGAACAAATGTTACAAATTGATG
68357811 A
1 A
68357812 ACTAGATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.33
Consensus pattern (39 bp):
ACATAAAAATTTATGATGAACAAATGTTACAAATTGATG
Found at i:68358727 original size:4 final size:4
Alignment explanation
Indices: 68358709--68358798 Score: 50
Period size: 4 Copynumber: 22.2 Consensus size: 4
68358699 CCTTTTACCC
68358709 TTTA TTT- TATTA TTTA TTTA TTTA TTTA -TT- TTTA TATTA TTTA TATATA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA T-T-TA
*
68358758 TTTGA TTTG TTT- TCTTA -TTA TTTTA TTT- TATT- TTTA TTTA T
1 TTT-A TTTA TTTA T-TTA TTTA -TTTA TTTA T-TTA TTTA TTTA T
68358799 GCTTAGATTT
Statistics
Matches: 71, Mismatches: 1, Indels: 28
0.71 0.01 0.28
Matches are distributed among these distances:
3 12 0.17
4 42 0.59
5 14 0.20
6 3 0.04
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:68358730 original size:11 final size:11
Alignment explanation
Indices: 68358709--68358798 Score: 62
Period size: 12 Copynumber: 7.8 Consensus size: 11
68358699 CCTTTTACCC
68358709 TTTATTTTATTA
1 TTTA-TTTATTA
68358721 TTTATTTATTTA
1 TTTATTTA-TTA
68358733 TTTATTT-TTA
1 TTTATTTATTA
68358743 TATTATTTA-TA
1 T-TTATTTATTA
*
68358754 TATATTTGATT-
1 TTTATTT-ATTA
*
68358765 TGTTTTCTTATTA
1 T-TTAT-TTATTA
68358778 TTTTATTTTATT-
1 -TTTA-TTTATTA
68358790 TTTATTTAT
1 TTTATTTAT
68358799 GCTTAGATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
10 14 0.22
11 19 0.30
12 20 0.31
13 9 0.14
14 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:68358911 original size:12 final size:11
Alignment explanation
Indices: 68358894--68358932 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
68358884 ATTGAGTTAA
68358894 TTTCTTTTCTTT
1 TTTCTTTT-TTT
68358906 TTTCTTTTTCTT
1 TTTCTTTTT-TT
68358918 TTTCTTTTGTTT
1 TTTCTTTT-TTT
68358930 TTT
1 TTT
68358933 TAGTTGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:68361025 original size:52 final size:52
Alignment explanation
Indices: 68360957--68361059 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
68360947 TGCAGTTGCA
68360957 TATGATTTTTACATCCAACTTTCGATGGTCTTGCAACATATGAACAACCGTT
1 TATGATTTTTACATCCAACTTTCGATGGTCTTGCAACATATGAACAACCGTT
* * *
68361009 TATGTTTTTTGCATCCAACTTTCGATGGTCTTGCGACATATGAACAACCGT
1 TATGATTTTTACATCCAACTTTCGATGGTCTTGCAACATATGAACAACCGT
68361060 ACATGTGTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (52 bp):
TATGATTTTTACATCCAACTTTCGATGGTCTTGCAACATATGAACAACCGTT
Found at i:68361256 original size:20 final size:20
Alignment explanation
Indices: 68361231--68361274 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
68361221 AGCTATACTG
*
68361231 CTTTGTTGCATGTAAATAGT
1 CTTTGTTGCATATAAATAGT
*
68361251 CTTTGTTGCATATAAATATT
1 CTTTGTTGCATATAAATAGT
68361271 CTTT
1 CTTT
68361275 CTTGTTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (20 bp):
CTTTGTTGCATATAAATAGT
Found at i:68362575 original size:20 final size:20
Alignment explanation
Indices: 68362525--68362575 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
68362515 TTAATTGAGT
*
68362525 GGTTAATTAGGCTTTAATTAA
1 GGTTAATTA-GCTTAAATTAA
*
68362546 -GTGAATTTAGCTTAAATTAA
1 GGTTAA-TTAGCTTAAATTAA
68362566 GGTTAATTAG
1 GGTTAATTAG
68362576 GTATAATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (20 bp):
GGTTAATTAGCTTAAATTAA
Found at i:68362738 original size:20 final size:22
Alignment explanation
Indices: 68362715--68362875 Score: 170
Period size: 20 Copynumber: 8.0 Consensus size: 22
68362705 TTTATGTTTT
68362715 AAATATATTAT-TTA-ATTATA
1 AAATATATTATATTATATTATA
68362735 AAATATATTATATTATATTAT-
1 AAATATATTATATTATATTATA
*
68362756 -ATTATATTATATTATATTAT-
1 AAATATATTATATTATATTATA
*
68362776 -ATTATATTATATTATATTAT-
1 AAATATATTATATTATATTATA
*
68362796 -ATTATATTATATTATATTAT-
1 AAATATATTATATTATATTATA
*
68362816 -ATTATATTATATTATATTAT-
1 AAATATATTATATTATATTATA
*
68362836 -ATTATATTATATTATATTAT-
1 AAATATATTATATTATATTATA
*
68362856 -ATTATATTATATTATATTAT
1 AAATATATTATATTATATTAT
68362876 TATGTAATAT
Statistics
Matches: 138, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
20 130 0.94
21 3 0.02
22 5 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATATATTATATTATATTATA
Found at i:68362748 original size:5 final size:5
Alignment explanation
Indices: 68362738--68362875 Score: 276
Period size: 5 Copynumber: 27.6 Consensus size: 5
68362728 AATTATAAAA
68362738 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
68362788 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
68362838 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
68362876 TATGTAATAT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 133 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:68363009 original size:21 final size:21
Alignment explanation
Indices: 68362975--68363015 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
68362965 ATGCTTACTT
*
68362975 ATTATATAACTGTATTATTAA
1 ATTATATAACTGTAATATTAA
* *
68362996 ATTATATTATTGTAATATTA
1 ATTATATAACTGTAATATTA
68363016 TTATAAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTATATAACTGTAATATTAA
Found at i:68363061 original size:18 final size:19
Alignment explanation
Indices: 68363029--68363075 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
68363019 TAAAACAAAT
68363029 GAAACAAATGAAATA-AAAA
1 GAAACAAA-GAAATAGAAAA
*
68363048 GAAATAAAGAAATAGAAAA
1 GAAACAAAGAAATAGAAAA
68363067 GAAACAAAG
1 GAAACAAAG
68363076 TAACAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.72, C:0.04, G:0.15, T:0.09
Consensus pattern (19 bp):
GAAACAAAGAAATAGAAAA
Found at i:68363829 original size:47 final size:47
Alignment explanation
Indices: 68363760--68363860 Score: 193
Period size: 47 Copynumber: 2.1 Consensus size: 47
68363750 TTATGGTAAG
68363760 AAAATTAAGGTAAGTGTAGTATATTTGATATTGAATTGAGTATTTAT
1 AAAATTAAGGTAAGTGTAGTATATTTGATATTGAATTGAGTATTTAT
68363807 AAAATTAAGGTAAGTGTAGTATATTTGATATTGAATTGAGTATTTAT
1 AAAATTAAGGTAAGTGTAGTATATTTGATATTGAATTGAGTATTTAT
*
68363854 GAAATTA
1 AAAATTA
68363861 TAATTTATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (47 bp):
AAAATTAAGGTAAGTGTAGTATATTTGATATTGAATTGAGTATTTAT
Found at i:68363848 original size:21 final size:21
Alignment explanation
Indices: 68363777--68363849 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
68363767 AGGTAAGTGT
68363777 AGTATATTTGATATTGAATTG
1 AGTATATTTGATATTGAATTG
* * *
68363798 AGTAT-TTATAAAATTAAGGTAAGTG
1 AGTATATT-TGATATT---G-AATTG
68363823 TAGTATATTTGATATTGAATTG
1 -AGTATATTTGATATTGAATTG
68363845 AGTAT
1 AGTAT
68363850 TTATGAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 2 0.05
21 15 0.38
22 4 0.10
23 1 0.03
24 1 0.03
25 4 0.10
26 10 0.26
27 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (21 bp):
AGTATATTTGATATTGAATTG
Found at i:68364569 original size:18 final size:18
Alignment explanation
Indices: 68364546--68364657 Score: 118
Period size: 18 Copynumber: 6.2 Consensus size: 18
68364536 TAAATAAAAG
* *
68364546 TACTGAATGACTGACTGT
1 TACTGAATAACTGATTGT
*
68364564 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
*
68364582 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
* *
68364600 TACTGAGA-AAATGATTGC
1 TACTGA-ATAACTGATTGT
* *
68364618 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGT
* *
68364636 TACTGAATAATTGAATGT
1 TACTGAATAACTGATTGT
68364654 TACT
1 TACT
68364658 AAATGAAACT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
17 1 0.01
18 78 0.98
19 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:68364586 original size:36 final size:36
Alignment explanation
Indices: 68364546--68364657 Score: 145
Period size: 36 Copynumber: 3.1 Consensus size: 36
68364536 TAAATAAAAG
* * *
68364546 TACTGAATGACTGACTGTTACTGAATAATTGATTGT
1 TACTGAATAACTGATTGCTACTGAATAATTGATTGT
* *
68364582 TACTGAATAACTGATTGCTACTGAGA-AAATGATTGC
1 TACTGAATAACTGATTGCTACTGA-ATAATTGATTGT
* *
68364618 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
1 TACTGAATAACTGATTGCTACTGAATAATTGATTGT
68364654 TACT
1 TACT
68364658 AAATGAAACT
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.02
36 63 0.97
37 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (36 bp):
TACTGAATAACTGATTGCTACTGAATAATTGATTGT
Found at i:68367573 original size:46 final size:46
Alignment explanation
Indices: 68367523--68367698 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
68367513 TGATTGAGCA
68367523 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68367569 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
68367614 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
68367662 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68367699 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68367679 original size:93 final size:93
Alignment explanation
Indices: 68367520--68367690 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
68367510 GGATGATTGA
* *
68367520 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
68367585 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
68367613 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
68367677 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
68367691 TCTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68375149 original size:46 final size:46
Alignment explanation
Indices: 68375099--68375227 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
68375089 TGATTGAGCA
*
68375099 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
68375145 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
68375191 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68375228 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:68377282 original size:27 final size:27
Alignment explanation
Indices: 68377251--68377428 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
68377241 TAAATTGTAC
68377251 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
68377278 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68377304 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
68377332 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
68377360 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
68377387 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
68377414 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
68377429 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:68377365 original size:82 final size:81
Alignment explanation
Indices: 68377252--68377407 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
68377242 AAATTGTACA
* *
68377252 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
68377316 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
68377333 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
68377398 TGCGAGTTGA
65 TGCGAATTGA
68377408 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:68377419 original size:82 final size:81
Alignment explanation
Indices: 68377248--68377428 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
68377238 GATTAAATTG
* *
68377248 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
68377313 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
68377329 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
68377393 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
68377411 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
68377429 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:68380490 original size:19 final size:18
Alignment explanation
Indices: 68380468--68380553 Score: 74
Period size: 18 Copynumber: 4.9 Consensus size: 18
68380458 TACTTAAAGG
*
68380468 ATAAATTATATTTAAAACA
1 ATAAATTATAATTAAAA-A
68380487 ATAAATT-TGAATT-AAAA
1 ATAAATTAT-AATTAAAAA
**
68380504 AT-AA-T-TAATTAAATG
1 ATAAATTATAATTAAAAA
*
68380519 ATAAATTATATTTAAAAA
1 ATAAATTATAATTAAAAA
*
68380537 ATAAATTTTAATTAAAA
1 ATAAATTATAATTAAAA
68380554 TAAAATAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
14 4 0.07
15 6 0.11
16 4 0.07
17 4 0.07
18 26 0.48
19 10 0.19
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAAATTATAATTAAAAA
Found at i:68380534 original size:69 final size:69
Alignment explanation
Indices: 68380461--68380623 Score: 195
Period size: 69 Copynumber: 2.3 Consensus size: 69
68380451 AAATAATTAC
* * * * * *
68380461 TTAAAGGATAAATTATATTTAAAACAATA-AATTTGAATTAAAAATAATTAATTAAATGATAAAT
1 TTAAAGAATAAATTATAATTAAAACAAAATAATTT-AAATAAAAATAATTAAGTAAAGGATAAAT
68380525 TATAT
65 TATAT
* * * *
68380530 TTAAAAAATAAATTTTAATTAAAATAAAATAATTTAAATAAAAATAATTAAGTATAGGATAAATT
1 TTAAAGAATAAATTATAATTAAAACAAAATAATTTAAATAAAAATAATTAAGTAAAGGATAAATT
68380595 ATAT
66 ATAT
68380599 TTAAAGCAATAAATT-TAAATTAAAA
1 TTAAAG-AATAAATTAT-AATTAAAA
68380624 ATAATTAATC
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
69 59 0.74
70 21 0.26
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (69 bp):
TTAAAGAATAAATTATAATTAAAACAAAATAATTTAAATAAAAATAATTAAGTAAAGGATAAATT
ATAT
Found at i:68380562 original size:14 final size:15
Alignment explanation
Indices: 68380545--68380580 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
68380535 AAATAAATTT
68380545 TAATTAAAAT-AAAA
1 TAATTAAAATAAAAA
*
68380559 TAATTTAAATAAAAA
1 TAATTAAAATAAAAA
68380574 TAATTAA
1 TAATTAA
68380581 GTATAGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATTAAAATAAAAA
Found at i:68380567 original size:51 final size:52
Alignment explanation
Indices: 68380440--68380568 Score: 174
Period size: 51 Copynumber: 2.5 Consensus size: 52
68380430 GCTAGGACAG
*
68380440 TAATTAAAATAAAATAATTACTTAAAGGATAAATTATATTTAAAACAATAAATTT
1 TAATTAAAATAAAATAA-T--TTAAATGATAAATTATATTTAAAACAATAAATTT
* *
68380495 GAATTAAAA-ATAATTAA-TTAAATGATAAATTATATTTAAAA-AATAAATTT
1 TAATTAAAATA-AAATAATTTAAATGATAAATTATATTTAAAACAATAAATTT
68380545 TAATTAAAATAAAATAATTTAAAT
1 TAATTAAAATAAAATAATTTAAAT
68380569 AAAAATAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
50 22 0.33
51 30 0.45
54 1 0.02
55 13 0.20
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (52 bp):
TAATTAAAATAAAATAATTTAAATGATAAATTATATTTAAAACAATAAATTT
Found at i:68380573 original size:20 final size:21
Alignment explanation
Indices: 68380534--68380576 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
68380524 TTATATTTAA
* *
68380534 AAAATAAATTTTAATTAAAAT
1 AAAATAAATTTAAATAAAAAT
68380555 AAAAT-AATTTAAATAAAAAT
1 AAAATAAATTTAAATAAAAAT
68380575 AA
1 AA
68380577 TTAAGTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAAATTTAAATAAAAAT
Found at i:68380601 original size:36 final size:35
Alignment explanation
Indices: 68380499--68380603 Score: 101
Period size: 36 Copynumber: 3.0 Consensus size: 35
68380489 AAATTTGAAT
68380499 TAAAAATAATTAAT-TAAATGATAAATTATATTTAAA
1 TAAAAATAATTAATAT-AA-GATAAATTATATTTAAA
* * * *
68380535 AAATAAAT-TTTAAT-TAAAATAAAATA-ATTTAAA
1 TAA-AAATAATTAATATAAGATAAATTATATTTAAA
*
68380568 TAAAAATAATTAAGTATAGGATAAATTATATTTAAA
1 TAAAAATAATTAA-TATAAGATAAATTATATTTAAA
68380604 GCAATAAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
32 4 0.07
33 13 0.24
34 8 0.15
35 11 0.20
36 15 0.27
37 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (35 bp):
TAAAAATAATTAATATAAGATAAATTATATTTAAA
Found at i:68380730 original size:13 final size:14
Alignment explanation
Indices: 68380695--68380726 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
68380685 ACAAACATGA
68380695 TTTTAATTACTTAT
1 TTTTAATTACTTAT
68380709 TTTTAATTA-TT-T
1 TTTTAATTACTTAT
68380721 TTTTAA
1 TTTTAA
68380727 ATTAGACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 2 0.11
14 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTAATTACTTAT
Found at i:68389101 original size:37 final size:37
Alignment explanation
Indices: 68389051--68389130 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
68389041 CTTATTACAA
* * *
68389051 AGTCTTACCCGGACATAATCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
*
68389088 AGTCTTACCCGGACAAAATCCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
*
68389125 GGTCTT
1 AGTCTT
68389131 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
Found at i:68389423 original size:49 final size:47
Alignment explanation
Indices: 68389249--68389616 Score: 603
Period size: 47 Copynumber: 7.7 Consensus size: 47
68389239 CCCTTCGAGA
* * * * *
68389249 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68389296 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
68389343 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68389390 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68389439 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68389488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68389535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
68389582 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
68389617 AGAATCCTAA
Statistics
Matches: 308, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 212 0.69
49 95 0.31
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:68389595 original size:192 final size:190
Alignment explanation
Indices: 68389249--68389595 Score: 622
Period size: 192 Copynumber: 1.8 Consensus size: 190
68389239 CCCTTCGAGA
* * *
68389249 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACAC
68389314 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
68389379 GGCCATTAGGTCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
68389439 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
68389504 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
68389569 TCGGCCATTAGGCCTTATCTCATATAT
129 TCGGCCATTAGGCCTTATCACATATAT
68389596 GCATGTTCAC
Statistics
Matches: 149, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
190 10 0.07
191 1 0.01
192 138 0.93
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (190 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:68391934 original size:85 final size:85
Alignment explanation
Indices: 68391805--68391983 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
68391795 TATTTTATTG
* *
68391805 CCCATGCCCTTTATTTTATTAATCCTTACATAATGTACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
68391870 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
68391890 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCATCATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
68391955 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
68391975 CCCATGCTC
1 CCCATGCTC
68391984 ATGGCCAGCC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:68393683 original size:39 final size:40
Alignment explanation
Indices: 68393608--68393949 Score: 515
Period size: 40 Copynumber: 8.8 Consensus size: 40
68393598 CCAGCATGAT
* * * *
68393608 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
68393648 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
68393687 TGCTCCTCGGAACTTAG-CCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
68393726 TGCTC-TC-GGACTTAG-CCGGATATAT--C-A-CACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
68393759 TGCTCTTC-GAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
68393798 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
68393838 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
68393878 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
68393918 TGCTCTTCGGGACTTAGCCCGAATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
68393950 CTCAATTCTC
Statistics
Matches: 278, Mismatches: 16, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
33 11 0.04
34 10 0.04
35 11 0.04
37 18 0.06
38 3 0.01
39 71 0.26
40 154 0.55
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:68393940 original size:23 final size:23
Alignment explanation
Indices: 68393829--68393941 Score: 61
Period size: 23 Copynumber: 5.4 Consensus size: 23
68393819 GATATATCAC
68393829 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
68393852 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
68393869 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
68393892 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
68393909 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
*
68393932 TAGCCCGAAT
1 TAGCACGAAT
68393942 ATATCACTCT
Statistics
Matches: 61, Mismatches: 17, Indels: 24
0.60 0.17 0.24
Matches are distributed among these distances:
17 16 0.26
18 6 0.10
19 4 0.07
21 4 0.07
22 6 0.10
23 25 0.41
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:68395215 original size:37 final size:37
Alignment explanation
Indices: 68395165--68395243 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
68395155 TTATTACAAA
* * *
68395165 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
68395202 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
68395239 GTCTT
1 GTCTT
68395244 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:68395431 original size:47 final size:47
Alignment explanation
Indices: 68395362--68395680 Score: 532
Period size: 47 Copynumber: 6.7 Consensus size: 47
68395352 CCATTCGGGA
* * * * *
68395362 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68395409 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68395456 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68395503 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68395552 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
68395599 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
68395646 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
68395681 AGAATCCTAA
Statistics
Matches: 261, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 213 0.82
49 47 0.18
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:68395631 original size:143 final size:143
Alignment explanation
Indices: 68395362--68395680 Score: 540
Period size: 143 Copynumber: 2.3 Consensus size: 143
68395352 CCATTCGGGA
* * *
68395362 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
68395425 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
68395490 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
68395503 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
68395568 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
68395633 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
68395646 CTTATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATATACACT-TTCACATCCATCACAT
68395681 AGAATCCTAA
Statistics
Matches: 168, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
140 1 0.01
141 33 0.20
142 1 0.01
143 133 0.79
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:68397999 original size:85 final size:85
Alignment explanation
Indices: 68397870--68398048 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
68397860 TATTTTATTG
*
68397870 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
68397935 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
68397955 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
68398020 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
68398040 CCCATGCTC
1 CCCATGCTC
68398049 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:68401312 original size:24 final size:24
Alignment explanation
Indices: 68401283--68401331 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
68401273 TTACGAAAGA
68401283 AAGGAAGTCGTGTTGCAACACAGG
1 AAGGAAGTCGTGTTGCAACACAGG
68401307 AAGGAAGTCGTGTTGCAACACAGG
1 AAGGAAGTCGTGTTGCAACACAGG
68401331 A
1 A
68401332 CGATGAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.33, T:0.16
Consensus pattern (24 bp):
AAGGAAGTCGTGTTGCAACACAGG
Found at i:68403390 original size:21 final size:21
Alignment explanation
Indices: 68403347--68403391 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
68403337 ATCATATTGA
* *
68403347 TTATCTTTTTTTACGTGGTAT
1 TTATCTTTTTTAACGTGGAAT
* *
68403368 TTATGTTTTTTAACTTGGAAT
1 TTATCTTTTTTAACGTGGAAT
68403389 TTA
1 TTA
68403392 GTCATATTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (21 bp):
TTATCTTTTTTAACGTGGAAT
Found at i:68413547 original size:27 final size:27
Alignment explanation
Indices: 68413517--68413577 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
68413507 TTTTTTTATG
* *
68413517 AAAAATATTCTTTAAAATTTAAAATA-T
1 AAAAATATT-TTTAAAATATAAAAAATT
68413544 AAAAATTATTTTTAAAATATAAAAAATT
1 AAAAA-TATTTTTAAAATATAAAAAATT
68413572 AAAAAT
1 AAAAAT
68413578 TCAATGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAAATATTTTTAAAATATAAAAAATT
Found at i:68413997 original size:27 final size:27
Alignment explanation
Indices: 68413958--68414032 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 27
68413948 ATAAGATTGA
*
68413958 ATTTTGAATTTTTTTGTATTTTAAAAAT
1 ATTTTTAA-TTTTTTGTATTTTAAAAAT
* *
68413986 ATTTTTAATTTTTT-AATTTTAAAGAT
1 ATTTTTAATTTTTTGTATTTTAAAAAT
* *
68414012 TTTTTTAAATTTTTGTATTTT
1 ATTTTTAATTTTTTGTATTTT
68414033 TTGTTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 22 0.55
27 11 0.28
28 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (27 bp):
ATTTTTAATTTTTTGTATTTTAAAAAT
Found at i:68422466 original size:42 final size:42
Alignment explanation
Indices: 68422349--68422466 Score: 155
Period size: 43 Copynumber: 2.8 Consensus size: 42
68422339 GTACCAATGC
*
68422349 CATATCCCAAATATGGTCTTACATGTAATCTCATATCGATGG
1 CATATCCCAAATATGGTCTTACATGAAATCTCATATCGATGG
* * ** * * *
68422391 CAATAGCCTAGCTATGGTCTTACACGAAGTCTCATATCGATGT
1 C-ATATCCCAAATATGGTCTTACATGAAATCTCATATCGATGG
68422434 CATATCCCAAATATGGTCTTACATGAAATCTCA
1 CATATCCCAAATATGGTCTTACATGAAATCTCA
68422467 ATAACCCTAA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (42 bp):
CATATCCCAAATATGGTCTTACATGAAATCTCATATCGATGG
Found at i:68429393 original size:42 final size:42
Alignment explanation
Indices: 68429347--68429481 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
68429337 ATTCATATGA
*
68429347 GTTTCTATTCAGCTCTTTTGAGCTTCTGTTTAACCCTAATGG
1 GTTTCTGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTAATGG
** * *
68429389 GTTTCTGTTCAATTCTTTTAAGCTTCTGTTTAACCCTTATGG
1 GTTTCTGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTAATGG
* * * * *
68429431 GTTT-TCGTTCAGCTCTTATGAGCTTCCGTTCAGCCCTTATGG
1 GTTTCT-GTTCAGCTCTTTTGAGCTTCTGTTTAACCCTAATGG
*
68429473 GATTCTGTT
1 GTTTCTGTT
68429482 TAGCACTCAT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 76 0.97
43 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (42 bp):
GTTTCTGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTAATGG
Found at i:68429450 original size:21 final size:21
Alignment explanation
Indices: 68429422--68429507 Score: 73
Period size: 21 Copynumber: 4.1 Consensus size: 21
68429412 TTCTGTTTAA
* *
68429422 CCCTTATGGGTTTTCGTTCAG
1 CCCTTATGGGCTTCCGTTCAG
* *
68429443 CTCTTATGAGCTTCCGTTCAG
1 CCCTTATGGGCTTCCGTTCAG
* * *
68429464 CCCTTATGGGATTCTGTTTAG
1 CCCTTATGGGCTTCCGTTCAG
* * * *
68429485 CACTCATGTGCTTCCGTTTAG
1 CCCTTATGGGCTTCCGTTCAG
68429506 CC
1 CC
68429508 TTCGAGCTTC
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.40
Consensus pattern (21 bp):
CCCTTATGGGCTTCCGTTCAG
Found at i:68437246 original size:19 final size:19
Alignment explanation
Indices: 68437218--68437267 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
68437208 AGTATAGAGA
*
68437218 ACACGACCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
68437237 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGCTAGGG
68437256 ACACGCCCGTGT
1 ACACGCCCGTGT
68437268 CCCAAACCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.18, C:0.32, G:0.34, T:0.16
Consensus pattern (19 bp):
ACACGCCCGTGTGCTAGGG
Found at i:68440088 original size:40 final size:40
Alignment explanation
Indices: 68440006--68440223 Score: 248
Period size: 40 Copynumber: 5.5 Consensus size: 40
68439996 AAGCCAAGTA
* * * *
68440006 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* *
68440044 CCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
68440084 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * *
68440124 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
68440164 CCTTCGGGACTTAGCCCGGA-ACTAGTCACT-AGCGCAAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CAC-AAATG
68440205 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
68440224 TTATCATCCA
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 12 0.08
39 16 0.10
40 105 0.67
41 24 0.15
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:68440139 original size:80 final size:79
Alignment explanation
Indices: 68440006--68440223 Score: 282
Period size: 80 Copynumber: 2.7 Consensus size: 79
68439996 AAGCCAAGTA
* * * * *
68440006 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
68440069 TAACTCACACCAATG
65 TAACTCACACAAATG
*
68440084 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
68440149 TAACTCGCACAAATG
65 TAACTCACACAAATG
68440164 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
68440224 TTATCATCCA
Statistics
Matches: 125, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
78 14 0.11
79 17 0.14
80 65 0.52
81 25 0.20
82 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
AACTCACACAAATG
Found at i:68442119 original size:35 final size:35
Alignment explanation
Indices: 68442079--68442145 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
68442069 TAGCTATGCA
*
68442079 TCATAAGCATGACTTACTTATTTGCAACATTATTC
1 TCATAAACATGACTTACTTATTTGCAACATTATTC
68442114 TCATAAACATGACTTACTTATTTGCAACATTA
1 TCATAAACATGACTTACTTATTTGCAACATTA
68442146 CCAAAGGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.39
Consensus pattern (35 bp):
TCATAAACATGACTTACTTATTTGCAACATTATTC
Found at i:68456838 original size:24 final size:24
Alignment explanation
Indices: 68456811--68456873 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
68456801 AGTTAACATA
68456811 TGGCACTATGTGTGCGGAATTAAG
1 TGGCACTATGTGTGCGGAATTAAG
68456835 TGGCACTATGTGTGCGGAATTAAG
1 TGGCACTATGTGTGCGGAATTAAG
68456859 TGGCACTATGTGTGC
1 TGGCACTATGTGTGC
68456874 CGATTTGGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.30
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGAATTAAG
Found at i:68456943 original size:24 final size:24
Alignment explanation
Indices: 68456911--68456970 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
68456901 AAAATCCAAT
* * *
68456911 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAATA-A
68456935 GCACTATGTGTGCGAGTGTAATAA
1 GCACTATGTGTGCGAGTGTAATAA
68456959 GCACTATGTGTG
1 GCACTATGTGTG
68456971 TAAATTCGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 26 0.81
25 6 0.19
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATAA
Found at i:68464570 original size:24 final size:24
Alignment explanation
Indices: 68464538--68464598 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
68464528 AAAATCCAAT
* * *
68464538 GCACTATGTGTGCG-GTTTATTATG
1 GCACTATGTGTGCGAGTGTAATA-A
68464562 GCACTATGTGTGCGAGTGTAATAA
1 GCACTATGTGTGCGAGTGTAATAA
68464586 GCACTATGTGTGC
1 GCACTATGTGTGC
68464599 AAATTCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATAA
Found at i:68467129 original size:42 final size:42
Alignment explanation
Indices: 68467049--68467130 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
68467039 TACAAGTTTG
* * *
68467049 ACACGGCTAAGACACACTCCCGTGGCTTAGGCCATGTGTCAT
1 ACACAGCTAAGACACACGCCCGTGGCTTAGCCCATGTGTCAT
* * * *
68467091 ACACAGCTAAGACATACGCCCGTGTCTTTGCCCTTGTGTC
1 ACACAGCTAAGACACACGCCCGTGGCTTAGCCCATGTGTC
68467131 CAATTCTGAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (42 bp):
ACACAGCTAAGACACACGCCCGTGGCTTAGCCCATGTGTCAT
Found at i:68468463 original size:25 final size:25
Alignment explanation
Indices: 68468435--68468491 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
68468425 TACCGATCAA
68468435 GATGCTCGCAAGAACTATTTAATAG
1 GATGCTCGCAAGAACTATTTAATAG
* * *
68468460 GATGCTTGGAAGATCTATTTAATAG
1 GATGCTCGCAAGAACTATTTAATAG
68468485 GATGCTC
1 GATGCTC
68468492 AAGAGGGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (25 bp):
GATGCTCGCAAGAACTATTTAATAG
Found at i:68472793 original size:20 final size:20
Alignment explanation
Indices: 68472754--68472794 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
68472744 ATACATGAAA
*
68472754 TTAAAAAAATAAATCTTAAT
1 TTAAAAAAATAAATCGTAAT
68472774 TTAAAGAAAATAAAT-GTAAT
1 TTAAA-AAAATAAATCGTAAT
68472794 T
1 T
68472795 ATCTAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
TTAAAAAAATAAATCGTAAT
Found at i:68472847 original size:22 final size:22
Alignment explanation
Indices: 68472822--68472866 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
68472812 AAAATTTTAT
68472822 TATTATGAAAA-TATATTATAAA
1 TATTAT-AAAATTATATTATAAA
68472844 TATTATAAAATTATATTATAAA
1 TATTATAAAATTATATTATAAA
68472866 T
1 T
68472867 GTATTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTATAAAATTATATTATAAA
Found at i:68474131 original size:6 final size:6
Alignment explanation
Indices: 68474122--68474147 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
68474112 TTATTTAATT
68474122 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
68474148 TTTAATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:68478443 original size:16 final size:16
Alignment explanation
Indices: 68478422--68478452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68478412 CATTTTATTT
*
68478422 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
68478438 ATATTAAGATAATTA
1 ATATTAAGATAATTA
68478453 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:68478481 original size:28 final size:27
Alignment explanation
Indices: 68478418--68478482 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
68478408 ACTCCATTTT
68478418 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
68478446 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
68478475 ATTTTATT
1 ATTTTATT
68478483 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:68478497 original size:10 final size:10
Alignment explanation
Indices: 68478478--68478509 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
68478468 TTTTAGGATT
68478478 TTAT-TTTAA
1 TTATCTTTAA
68478487 TTATCTTTAA
1 TTATCTTTAA
68478497 TTATCTTTAA
1 TTATCTTTAA
68478507 TTA
1 TTA
68478510 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:68479256 original size:17 final size:19
Alignment explanation
Indices: 68479220--68479257 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
68479210 TTATTTTTCC
68479220 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCTGCAAT
68479239 TTATTT-AATTTC-GCAAT
1 TTATTTCAATTTCTGCAAT
68479256 TT
1 TT
68479258 CAATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTCAATTTCTGCAAT
Found at i:68484931 original size:32 final size:30
Alignment explanation
Indices: 68484895--68484964 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
68484885 TTAATTTTAA
* *
68484895 ATTTTATTTCTA-TTGTTATTATTTTTTTTATT
1 ATTTTATTTCAATTTGTT-TTA--TTTTTAATT
68484927 ATTTTATTTCAATTTGTTTTATTTTTAATT
1 ATTTTATTTCAATTTGTTTTATTTTTAATT
68484957 ATTTTATT
1 ATTTTATT
68484965 ATATTAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 16 0.46
32 14 0.40
33 5 0.14
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (30 bp):
ATTTTATTTCAATTTGTTTTATTTTTAATT
Found at i:68484961 original size:15 final size:14
Alignment explanation
Indices: 68484898--68484964 Score: 57
Period size: 15 Copynumber: 4.7 Consensus size: 14
68484888 ATTTTAAATT
*
68484898 TTATTTCTATTGTTA
1 TTATTT-TATTTTTA
68484913 TTA-TTT-TTTTTA
1 TTATTTTATTTTTA
**
68484925 TTATTTTATTTCAA
1 TTATTTTATTTTTA
*
68484939 TTTGTTTTATTTTTAA
1 -TTATTTTATTTTT-A
68484955 TTATTTTATT
1 TTATTTTATT
68484965 ATATTAATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
12 8 0.20
13 4 0.10
14 6 0.15
15 22 0.54
16 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (14 bp):
TTATTTTATTTTTA
Found at i:68486840 original size:16 final size:16
Alignment explanation
Indices: 68486819--68486849 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68486809 CATTTTATTT
*
68486819 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
68486835 ATATTAAGATAATTA
1 ATATTAAGATAATTA
68486850 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:68486878 original size:28 final size:27
Alignment explanation
Indices: 68486815--68486879 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
68486805 ACTCCATTTT
68486815 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
68486843 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
68486872 ATTTTATT
1 ATTTTATT
68486880 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:68487661 original size:18 final size:18
Alignment explanation
Indices: 68487631--68487668 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
68487621 TTATTTTTCC
68487631 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCT-CAAT
68487650 TTATTT-AATTTCTCAAT
1 TTATTTCAATTTCTCAAT
68487667 TT
1 TT
68487669 CAATTCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.26, C:0.13, G:0.03, T:0.58
Consensus pattern (18 bp):
TTATTTCAATTTCTCAAT
Found at i:68496285 original size:43 final size:43
Alignment explanation
Indices: 68496214--68496358 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
68496204 TACTCGGTAT
* * * *
68496214 GGTCTTACATGTTATCAC-ATATCAATGCCACTGTCCCACATAG
1 GGTCTTACACGTAATCGCAATA-CAATGCCACTGTCCCACACAG
* * *
68496257 GGTCTTACACG-AAGTCG-ATTAACGATGCCGA-TGTCCCACACAT
1 GGTCTTACACGTAA-TCGCAAT-ACAATGCC-ACTGTCCCACACAG
*
68496300 GGTCTTACACGTAATCGCAATACAATGCCACTATCCCACACAG
1 GGTCTTACACGTAATCGCAATACAATGCCACTGTCCCACACAG
*
68496343 GGTCTTACATGTAATC
1 GGTCTTACACGTAATC
68496359 ACATCTCAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 75 0.90
44 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCGCAATACAATGCCACTGTCCCACACAG
Found at i:68504735 original size:11 final size:11
Alignment explanation
Indices: 68504719--68504746 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
68504709 AATTTGCATC
68504719 TCGGAACTTCT
1 TCGGAACTTCT
68504730 TCGGAACTTCT
1 TCGGAACTTCT
68504741 TCGGAA
1 TCGGAA
68504747 TGTGATTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (11 bp):
TCGGAACTTCT
Found at i:68506966 original size:32 final size:32
Alignment explanation
Indices: 68506922--68506986 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
68506912 TCCTAAGAGG
68506922 TTAGTTCACGTCATTATGCGGTGTGTCACTTT
1 TTAGTTCACGTCATTATGCGGTGTGTCACTTT
* *
68506954 TTAGTTCGCGTCATTATGCTGTGTGTCACTTT
1 TTAGTTCACGTCATTATGCGGTGTGTCACTTT
68506986 T
1 T
68506987 GCTTCCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (32 bp):
TTAGTTCACGTCATTATGCGGTGTGTCACTTT
Found at i:68508045 original size:13 final size:13
Alignment explanation
Indices: 68508029--68508054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68508019 AAGTTAGCTG
68508029 AGATGGTTAATGC
1 AGATGGTTAATGC
68508042 AGATGGTTAATGC
1 AGATGGTTAATGC
68508055 GGAGATGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
AGATGGTTAATGC
Found at i:68512899 original size:21 final size:21
Alignment explanation
Indices: 68512875--68512914 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
68512865 TAGAACGACG
*
68512875 TAGTTTTGCCTTTTAACTTAA
1 TAGTTTTGACTTTTAACTTAA
68512896 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
68512915 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:68518310 original size:17 final size:17
Alignment explanation
Indices: 68518270--68518301 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
68518260 TCAAAGTTGC
68518270 AATAATTATACATTTAA
1 AATAATTATACATTTAA
68518287 AATAATTATA-ATTTA
1 AATAATTATACATTTA
68518302 TTAAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATTATACATTTAA
Found at i:68518455 original size:6 final size:6
Alignment explanation
Indices: 68518444--68518470 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
68518434 GGAAAACGTC
68518444 AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AAT
68518471 ATTTTCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:68518576 original size:44 final size:44
Alignment explanation
Indices: 68518528--68518613 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
68518518 AGCAAAACAA
* * *
68518528 AAGTTGTTATAAGTATACATTTAAAAATAATTGTAATTTAATAG
1 AAGTTGTGATAAGTACACATTTAAAAATAATTATAATTTAATAG
* *
68518572 AAGTTGTGATAATTACATATTTAAAAATAATTATAATTTAAT
1 AAGTTGTGATAAGTACACATTTAAAAATAATTATAATTTAAT
68518614 TTACAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (44 bp):
AAGTTGTGATAAGTACACATTTAAAAATAATTATAATTTAATAG
Found at i:68518633 original size:260 final size:258
Alignment explanation
Indices: 68518220--68518692 Score: 623
Period size: 260 Copynumber: 1.8 Consensus size: 258
68518210 ATTTTTCTTT
* *
68518220 ATATTACTAAATTCACATTTAGAAAAAAGTTAAAGTAAAATCAAAGTTGCAATAATTATACATTT
1 ATATTACTAAATTCACATTTAGAAAAAAGTTAAAGCAAAATCAAAGTTGCAATAAGTATACATTT
* *
68518285 AAAATAATTATAATTTATTAAAAATTGAAATTGTGACCAATTATATTTTAAAAATAATTATAATT
66 AAAATAATTATAA-TTATT--AAATAGAAATTGTGACCAATTACATTTTAAAAATAATTATAATT
** * * * *
68518350 TAATTTACAATTATTAATTAAAAATGTTGTGCTAATTTTAAAATAGATTTATTACTTAAATAAAA
128 TAATTTACAATTATTAATTAAAAAAATTCTACTAACTTTAAAATAGAGTTATTACTTAAATAAAA
*
68518415 ATCTAAGCTTAAAATATAGGGAAAACGTCAATTATAATTATAATTATAATTATAATATTTTCAAT
193 ATCTAAGCATAAAATATAGGGAAAACGTCAATTATAATTATAATTATAATTATAATATTTTCAAT
68518480 C
258 C
* **
68518481 ATATTACTAAATTCACATTTAGAAATTAAATAGTTGAAGCAAAA-CAAAAGTTGTTATAAGTATA
1 ATATTACTAAATTCACATTTAG-AA--AAA-AGTTAAAGCAAAATC-AAAGTTGCAATAAGTATA
* * *
68518545 CATTTAAAAATAATTGTAA-T-TT-AATAGAAGTTGTGA-TAATTACATATTTAAAAATAATTAT
61 CATTT-AAAATAATTATAATTATTAAATAGAAATTGTGACCAATTACAT-TTTAAAAATAATTAT
* *
68518606 AATTTAATTTACAATTATTAGTTAAAAAAATTCTACTAACTTTAAAATAGAGTTATTACTTGAAT
124 AATTTAATTTACAATTATTAATTAAAAAAATTCTACTAACTTTAAAATAGAGTTATTACTTAAAT
* * *
68518671 AGAACTCTAAGCATAGAATATA
189 AAAAATCTAAGCATAAAATATA
68518693 AGAAAATGTT
Statistics
Matches: 183, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
259 7 0.04
260 102 0.56
261 22 0.12
262 2 0.01
263 2 0.01
264 5 0.03
265 31 0.17
266 12 0.07
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (258 bp):
ATATTACTAAATTCACATTTAGAAAAAAGTTAAAGCAAAATCAAAGTTGCAATAAGTATACATTT
AAAATAATTATAATTATTAAATAGAAATTGTGACCAATTACATTTTAAAAATAATTATAATTTAA
TTTACAATTATTAATTAAAAAAATTCTACTAACTTTAAAATAGAGTTATTACTTAAATAAAAATC
TAAGCATAAAATATAGGGAAAACGTCAATTATAATTATAATTATAATTATAATATTTTCAATC
Found at i:68518724 original size:6 final size:6
Alignment explanation
Indices: 68518708--68518748 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
68518698 ATGTTGTGAT
*
68518708 AATTAC GATTAC AATTAC AATTAC AATTAC AATTAC AATTA
1 AATTAC AATTAC AATTAC AATTAC AATTAC AATTAC AATTA
68518749 TTAGTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (6 bp):
AATTAC
Found at i:68518919 original size:15 final size:15
Alignment explanation
Indices: 68518899--68518928 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68518889 GTTAATTAGT
68518899 TATTGTTTTGAATAA
1 TATTGTTTTGAATAA
*
68518914 TATTGTTTTGCATAA
1 TATTGTTTTGAATAA
68518929 ATTATATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.53
Consensus pattern (15 bp):
TATTGTTTTGAATAA
Found at i:68518993 original size:21 final size:21
Alignment explanation
Indices: 68518964--68519005 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
68518954 ATGTTCAGTA
*
68518964 TATTAAAAATATTTTAATTAT
1 TATTAAAAAAATTTTAATTAT
* *
68518985 TATTTAAAAAATTTTTATTAT
1 TATTAAAAAAATTTTAATTAT
68519006 GATATTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTAAAAAAATTTTAATTAT
Found at i:68527950 original size:46 final size:46
Alignment explanation
Indices: 68527890--68528152 Score: 375
Period size: 46 Copynumber: 5.7 Consensus size: 46
68527880 TTTGACATGA
* * * * * *
68527890 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * **
68527936 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
68527982 TGCCATGTTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
68528028 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
68528074 TGACATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
68528120 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
68528153 CAGGTTGTCA
Statistics
Matches: 197, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 193 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:68528138 original size:138 final size:130
Alignment explanation
Indices: 68527890--68528201 Score: 401
Period size: 138 Copynumber: 2.3 Consensus size: 130
68527880 TTTGACATGA
* * * * * * *
68527890 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGACATGGTATCTTTCAA
** * * *
68527954 CCATGGTCTTATTCTTTTCATGTCACATTGCCATGTTATCTTTCAACCATGGTCTTACACATCTC
65 CCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C
68528019 ATATCAGGT
125 --A-CAGGT
68528028 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGACATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGACATGGTATCTTTCAAC
**
68528093 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
66 CATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
*
68528158 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
68528202 AGAGCACACT
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
130 48 0.30
131 1 0.01
133 1 0.01
136 3 0.02
137 4 0.03
138 101 0.64
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (130 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGACATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
Found at i:68528166 original size:38 final size:38
Alignment explanation
Indices: 68528115--68528190 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
68528105 CATTTCATAT
68528115 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
68528153 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
68528191 TTTCATATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:68531888 original size:22 final size:22
Alignment explanation
Indices: 68531861--68531906 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
68531851 TCGAAAGATA
*
68531861 AAATTGAGCCACTTAGTAATTT
1 AAATTGAACCACTTAGTAATTT
*
68531883 AAATTGAACTACTTAGTAATTT
1 AAATTGAACCACTTAGTAATTT
68531905 AA
1 AA
68531907 GCAATTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (22 bp):
AAATTGAACCACTTAGTAATTT
Done.