Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 164 of 316
Found at i:52153890 original size:20 final size:20
Alignment explanation
Indices: 52153853--52153890 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52153843 TTAATAAGTA
*
52153853 AAATTTCTTTTCTATTTTTC
1 AAATTTCTTTGCTATTTTTC
52153873 AAATTTCTTATGCT-TTTT
1 AAATTTCTT-TGCTATTTT
52153891 ATCTTTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.21, C:0.13, G:0.03, T:0.63
Consensus pattern (20 bp):
AAATTTCTTTGCTATTTTTC
Found at i:52154003 original size:43 final size:43
Alignment explanation
Indices: 52153955--52154040 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
52153945 TATTATATTG
* * *
52153955 TTATTACCATAATATAAATGACCTAATTTGATAAGTGCTAAAA
1 TTATTACAATAATATAAATAACCTAAATTGATAAGTGCTAAAA
52153998 TTATTACAATAATATAAATAACCTAAATTGATAAGTGCTAAAA
1 TTATTACAATAATATAAATAACCTAAATTGATAAGTGCTAAAA
52154041 GAAACATGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (43 bp):
TTATTACAATAATATAAATAACCTAAATTGATAAGTGCTAAAA
Found at i:52156494 original size:39 final size:39
Alignment explanation
Indices: 52156440--52156515 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
52156430 GAATGTTTAC
52156440 TCTTTGGTTTTAATATAGAGCACAAGCAAGTCAACTTAT
1 TCTTTGGTTTTAATATAGAGCACAAGCAAGTCAACTTAT
52156479 TCTTTGGTTTTAATATAGAGCACAAGCAAGTCAACTT
1 TCTTTGGTTTTAATATAGAGCACAAGCAAGTCAACTT
52156516 TATGGGTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (39 bp):
TCTTTGGTTTTAATATAGAGCACAAGCAAGTCAACTTAT
Found at i:52164436 original size:26 final size:26
Alignment explanation
Indices: 52164406--52164487 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
52164396 TGAAATTCCC
52164406 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52164432 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52164458 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52164484 ATCA
1 ATCA
52164488 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:52166461 original size:19 final size:19
Alignment explanation
Indices: 52166413--52166451 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
52166403 GTGACCCCTG
*
52166413 TTTCGAAAATTTTCTAATT
1 TTTCTAAAATTTTCTAATT
52166432 TTTCTAAAATTTTCT-ATT
1 TTTCTAAAATTTTCTAATT
52166450 TT
1 TT
52166452 GTTTCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTCTAAAATTTTCTAATT
Found at i:52166785 original size:18 final size:18
Alignment explanation
Indices: 52166762--52166799 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
52166752 TACCCGAGAC
52166762 CGTTGCCGGAGTCGAACA
1 CGTTGCCGGAGTCGAACA
52166780 CGTTGCCGGAGTCGAACA
1 CGTTGCCGGAGTCGAACA
52166798 CG
1 CG
52166800 AGGTGGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (18 bp):
CGTTGCCGGAGTCGAACA
Found at i:52168179 original size:93 final size:93
Alignment explanation
Indices: 52168067--52168238 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
52168057 CGCCCATAAG
* *
52168067 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
52168132 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
52168160 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
52168225 ACGAGTTTGGATGC
66 ACGAGCTCGGATGC
52168239 TCAACAATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:52168235 original size:46 final size:46
Alignment explanation
Indices: 52168060--52168229 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
52168050 TGTAACCCGC
* * *
52168060 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
52168106 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
52168152 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
52168199 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
52168230 TTTGGATGCT
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 63 0.61
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:52172834 original size:28 final size:28
Alignment explanation
Indices: 52172771--52172893 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
52172761 ATATTAAGTC
*
52172771 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
52172798 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
52172826 CGAACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52172854 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
52172883 CGCACACTTAG
1 CGCACACTTAG
52172894 CACCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.26
28 47 0.55
29 16 0.19
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52174492 original size:40 final size:40
Alignment explanation
Indices: 52174441--52174703 Score: 343
Period size: 40 Copynumber: 6.6 Consensus size: 40
52174431 TTGAATGCTG
* * * * *
52174441 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAA
* *
52174481 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
52174521 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
52174561 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
52174601 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * * **
52174641 TCCGGGATATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
52174680 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
52174704 TGAACGAGGA
Statistics
Matches: 203, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 35 0.17
40 160 0.79
41 8 0.04
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:52187448 original size:21 final size:21
Alignment explanation
Indices: 52187397--52187478 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 21
52187387 CCTGATCAAT
*
52187397 ATACGACACATAA-GTGCCTA
1 ATACGACACACAAGGTGCCTA
* * *
52187417 AAACGATACACGAGGTGCCTA
1 ATACGACACACAAGGTGCCTA
* * *
52187438 ATATGACACACAAGGTGCTTG
1 ATACGACACACAAGGTGCCTA
* *
52187459 ATACGACACATAAAGTGCCT
1 ATACGACACACAAGGTGCCT
52187479 GATATATGAC
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
20 9 0.19
21 38 0.81
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (21 bp):
ATACGACACACAAGGTGCCTA
Found at i:52187481 original size:21 final size:21
Alignment explanation
Indices: 52187397--52187504 Score: 74
Period size: 21 Copynumber: 5.1 Consensus size: 21
52187387 CCTGATCAAT
*
52187397 ATACGACACAT-AAGTGCCTA
1 ATACGACACATAAAGTGCCTG
* * ** * *
52187417 AAACGATACACGAGGTGCCTA
1 ATACGACACATAAAGTGCCTG
* * * *
52187438 ATATGACACACAAGGTGCTTG
1 ATACGACACATAAAGTGCCTG
52187459 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* *
52187480 ATATATGACACATAAAGTTCCTG
1 --ATACGACACATAAAGTGCCTG
52187503 AT
1 AT
52187505 CGGCAAAGCC
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
20 8 0.12
21 42 0.61
23 19 0.28
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:52187493 original size:23 final size:22
Alignment explanation
Indices: 52187431--52187503 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 22
52187421 GATACACGAG
* *
52187431 GTGCCT-AATATGACACACAAG
1 GTGCCTGAATATGACACATAAA
* *
52187452 GTGCTTG-ATACGACACATAAA
1 GTGCCTGAATATGACACATAAA
52187473 GTGCCTGATATATGACACATAAA
1 GTGCCTGA-ATATGACACATAAA
*
52187496 GTTCCTGA
1 GTGCCTGA
52187504 TCGGCAAAGC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
21 22 0.52
23 20 0.48
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (22 bp):
GTGCCTGAATATGACACATAAA
Found at i:52189146 original size:19 final size:20
Alignment explanation
Indices: 52189111--52189148 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
52189101 ATTACAAACG
52189111 TATGTATAATATTTATTACA
1 TATGTATAATATTTATTACA
*
52189131 TATGTAT-ATTTTTATTAC
1 TATGTATAATATTTATTAC
52189149 TACACATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TATGTATAATATTTATTACA
Found at i:52197142 original size:67 final size:67
Alignment explanation
Indices: 52197028--52197229 Score: 269
Period size: 67 Copynumber: 3.0 Consensus size: 67
52197018 CACGGCTGAG
* * *
52197028 ACACACACCAGTGTAAGCTTCGAATTAGGGCACACGACTGTGCCCCAGCTTGTGTCCTTACCCGT
1 ACACAC-CCA-TGTAAGCTTCGAACTAGGGCACACGACCGTGTCCCAGCTTGTGTCCTTACCCGT
52197093 GTGC
64 GTGC
** * * *
52197097 ACACATTCATGTAAGCTTCGAACTAGGGCACACGGCCGTGTCCCAGCTTGTGTCCTCACCCGCGT
1 ACACACCCATGTAAGCTTCGAACTAGGGCACACGACCGTGTCCCAGCTTGTGTCCTTACCCGTGT
*
52197162 GT
66 GC
* * * *
52197164 ACACACCCATGTAAGCTTCAAACTAGGGCACACAACCGTGTCCTAGCTTGTATCCTTACCCGTGT
1 ACACACCCATGTAAGCTTCGAACTAGGGCACACGACCGTGTCCCAGCTTGTGTCCTTACCCGTGT
52197229 G
66 G
52197230 ACTTTTTGAG
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
67 108 0.94
68 2 0.02
69 5 0.04
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (67 bp):
ACACACCCATGTAAGCTTCGAACTAGGGCACACGACCGTGTCCCAGCTTGTGTCCTTACCCGTGT
GC
Found at i:52208586 original size:3 final size:3
Alignment explanation
Indices: 52208530--52208567 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
52208520 TAATGTATAT
52208530 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
52208568 GAAAATGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:52209381 original size:25 final size:25
Alignment explanation
Indices: 52209333--52209381 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
52209323 CACAATTGAA
* * *
52209333 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
52209358 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
52209382 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:52214651 original size:48 final size:48
Alignment explanation
Indices: 52214584--52215013 Score: 743
Period size: 48 Copynumber: 9.0 Consensus size: 48
52214574 ATAAATATAG
*
52214584 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAG
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
52214632 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
52214680 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
* *
52214728 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGGGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
* *
52214776 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGGGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
* * * *
52214824 GTATATATGGTAAAGCCAAATGGCTAATGTGAAATATGCATGGGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
52214872 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
*
52214920 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAC
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
* * *
52214968 GTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAGAT
1 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
52215014 GTGTGTATAT
Statistics
Matches: 369, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 369 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
Found at i:52215299 original size:37 final size:37
Alignment explanation
Indices: 52215156--52215298 Score: 241
Period size: 37 Copynumber: 3.9 Consensus size: 37
52215146 AAATATATTT
52215156 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
52215193 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
*
52215230 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* * * *
52215267 CGGTTAAGACCCGATAACTTCGTGTAGAGATT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATT
52215299 TCATCTGAGC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Found at i:52231849 original size:49 final size:48
Alignment explanation
Indices: 52231747--52232009 Score: 204
Period size: 49 Copynumber: 5.5 Consensus size: 48
52231737 ATACCCGACA
* * *
52231747 CCATGTCCTAGACATGGTCTTACACTGGC-T-ATTATGTCAAGGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGACTTCA-TATATCAAGGTCGATG
* *
52231795 CCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCAAGG-CTGATT
1 CCATGTCCCAGACAGGTCTTACACTGAC-TTCATATATCAAGGTC-GATG
* * * * *
52231844 CCATGTCCCAGACAGGTGTTACACTGGCTCTCATCTATCAATGTCCATG
1 CCATGTCCCAGACAGGTCTTACACTGACT-TCATATATCAAGGTCGATG
* * * * * *
52231893 CCATGTCCCAGATAGCTCTTACACTGAC-ACACA-A-CAAGCT-GACG
1 CCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAGGTCGATG
* * *
52231937 CCATGTCCCAGACAGGTCTTACACT-AGC-TCGTATATCTTGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGA-CTTCATATATC--AAGGTCGATG
*
52231986 -CATGTCCCAGACATGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
52232010 AGCTCTCGTC
Statistics
Matches: 170, Mismatches: 33, Indels: 24
0.75 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 5 0.03
46 2 0.01
47 15 0.09
48 39 0.23
49 78 0.46
50 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACAGGTCTTACACTGACTTCATATATCAAGGTCGATG
Found at i:52231959 original size:93 final size:95
Alignment explanation
Indices: 52231747--52231973 Score: 264
Period size: 98 Copynumber: 2.4 Consensus size: 95
52231737 ATACCCGACA
* * * * *
52231747 CCATGTCCTAGACATGGTCTTACACTGGCTATTATGTCAAGGTCGATGCCATGTCCCAGATAGGT
1 CCATGTCCCAGACA-GGTCTTACACTGGCTCTTATATCAAGGTCCATGCCATGTCCCAGATAGCT
* * **
52231812 CTTACACTGACTTTCATATATCAAGGCTGATT
65 CTTACACTGAC-TACACATATCAAGGCTGACG
* * *
52231844 CCATGTCCCAGACAGGTGTTACACTGGCTCTCATCTATCAATGTCCATGCCATGTCCCAGATAGC
1 CCATGTCCCAGACAGGTCTTACACTGGCTCT--TATATCAAGGTCCATGCCATGTCCCAGATAGC
52231909 TCTTACACTGAC-ACACA-A-CAA-GCTGACG
64 TCTTACACTGACTACACATATCAAGGCTGACG
* *
52231937 CCATGTCCCAGACAGGTCTTACACTAGCTCGTATATC
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTTATATC
52231974 TTGAGGCCGA
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
91 5 0.04
93 33 0.29
94 3 0.03
95 1 0.01
96 18 0.16
97 13 0.12
98 39 0.35
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTCTTATATCAAGGTCCATGCCATGTCCCAGATAGCTC
TTACACTGACTACACATATCAAGGCTGACG
Found at i:52232046 original size:46 final size:48
Alignment explanation
Indices: 52231938--52232055 Score: 159
Period size: 46 Copynumber: 2.5 Consensus size: 48
52231928 AAGCTGACGC
* * ** *
52231938 CATGTCCCAGACAGGTCTTACACTAGCTCGTATATCTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGTACATCTCAAGACCGATG
* *
52231986 CATGTCCCAGACATGTCTTACACTAGCTC-T-CGTCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCGTACATCTCAAGACCGATG
52232032 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
52232056 GACACACATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
46 34 0.54
47 1 0.02
48 28 0.44
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTCGTACATCTCAAGACCGATG
Found at i:52239627 original size:42 final size:42
Alignment explanation
Indices: 52239562--52239647 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
52239552 TATGTGATTT
*
52239562 ATATTGAAATGGAAAAAACGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGGAAAAAACGAGAAATGAATATGAGATAAGAA
* * * *
52239604 ATATTGAAATGGAAAATATGAGAAATGATTGTGAGATAAGAA
1 ATATTGAAATGGAAAAAACGAGAAATGAATATGAGATAAGAA
52239646 AT
1 AT
52239648 GAAATATGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.52, C:0.01, G:0.23, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGGAAAAAACGAGAAATGAATATGAGATAAGAA
Found at i:52250634 original size:19 final size:19
Alignment explanation
Indices: 52250589--52250638 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
52250579 GTATTTAGTA
*
52250589 AATCGATCATTCA--TAAC
1 AATCAATCATTCAGTTAAC
* *
52250606 ATTCAGTCATTCAGTTAAC
1 AATCAATCATTCAGTTAAC
52250625 AATCAATCA-TCAGT
1 AATCAATCATTCAGT
52250639 GCTTTATCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 11 0.42
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (19 bp):
AATCAATCATTCAGTTAAC
Found at i:52251605 original size:9 final size:9
Alignment explanation
Indices: 52251591--52251630 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
52251581 TTCTTTAGTC
52251591 TTTTATTAT
1 TTTTATTAT
52251600 TTTTATTAT
1 TTTTATTAT
*
52251609 TGTTATTAT
1 TTTTATTAT
52251618 TTATATATTAT
1 TT-T-TATTAT
52251629 TT
1 TT
52251631 AATTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 18 0.67
10 1 0.04
11 8 0.30
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTATTAT
Found at i:52251616 original size:18 final size:20
Alignment explanation
Indices: 52251593--52251629 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
52251583 CTTTAGTCTT
52251593 TTATTATTT-T-TATTATTG
1 TTATTATTTATATATTATTG
52251611 TTATTATTTATATATTATT
1 TTATTATTTATATATTATT
52251630 TAATTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTATTATTTATATATTATTG
Found at i:52251797 original size:32 final size:32
Alignment explanation
Indices: 52251754--52251814 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
52251744 TTATTTACTT
52251754 TATTTAATTAA-TATAA-TATAATAATATAAATA
1 TATTTAATTAATTATAACTA-AAT-ATATAAATA
*
52251786 TATTTACTTAATTATAACTAAATATATAA
1 TATTTAATTAATTATAACTAAATATATAA
52251815 TAGTTACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 16 0.62
33 8 0.31
34 2 0.08
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (32 bp):
TATTTAATTAATTATAACTAAATATATAAATA
Found at i:52259116 original size:19 final size:19
Alignment explanation
Indices: 52259094--52259135 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
52259084 TAAAAAATGT
*
52259094 AAATTTACAAAAAATTATA
1 AAATTTACAAAAAATTAAA
* *
52259113 AAATTTACTAAAATTTAAA
1 AAATTTACAAAAAATTAAA
52259132 AAAT
1 AAAT
52259136 AGAAATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTTACAAAAAATTAAA
Found at i:52259126 original size:44 final size:45
Alignment explanation
Indices: 52259057--52259144 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 45
52259047 AATATTTATA
*
52259057 AAAAAATTATAAAACTTATTAAAAATATAAAAAAT-GTAAATTTAC
1 AAAAAATTATAAAACTTACTAAAAATATAAAAAATAG-AAATTTAC
* *
52259102 AAAAAATTATAAAATTTACT-AAAATTTAAAAAATAGAAATTTA
1 AAAAAATTATAAAACTTACTAAAAATATAAAAAATAGAAATTTA
52259145 ATATTTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 20 0.51
45 19 0.49
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (45 bp):
AAAAAATTATAAAACTTACTAAAAATATAAAAAATAGAAATTTAC
Found at i:52259370 original size:19 final size:20
Alignment explanation
Indices: 52259348--52259387 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
52259338 TTCAATTAAA
52259348 TAATAATTT-AAATAATTTT
1 TAATAATTTCAAATAATTTT
*
52259367 TAATTATTTCAAATAATTTT
1 TAATAATTTCAAATAATTTT
52259387 T
1 T
52259388 TACTATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATAATTTCAAATAATTTT
Found at i:52259403 original size:21 final size:19
Alignment explanation
Indices: 52259353--52259403 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
52259343 TTAAATAATA
*
52259353 ATTTAAATAATTTTTAATT
1 ATTTAAATAATTTTTAACT
*
52259372 ATTTCAAATAATTTTTTACT
1 ATTT-AAATAATTTTTAACT
52259392 ATCTTAAGATAA
1 AT-TTAA-ATAA
52259404 ATTATTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 17 0.63
21 6 0.22
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTAAATAATTTTTAACT
Found at i:52259812 original size:36 final size:40
Alignment explanation
Indices: 52259762--52259840 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 40
52259752 AATATAATAA
*
52259762 TTTTTACTATTTTTA-AA-ATTTAAT-ATTTCAAATAATT
1 TTTTTACTAATTTTACAATATTTAATAATTTCAAATAATT
* *
52259799 TTTTTA-TAATTTTACAATATTTTATAATTTCTAATAATT
1 TTTTTACTAATTTTACAATATTTAATAATTTCAAATAATT
52259838 TTT
1 TTT
52259841 AAATTTATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 7 0.19
37 8 0.22
38 6 0.17
39 15 0.42
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (40 bp):
TTTTTACTAATTTTACAATATTTAATAATTTCAAATAATT
Found at i:52259846 original size:36 final size:34
Alignment explanation
Indices: 52259756--52259846 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 34
52259746 TTTCAAAATA
*
52259756 TAATAATTTTTACTATTTTTAAAATTTAATATTTC
1 TAATAATTTTTA-TAATTTTAAAATTTAATATTTC
* *
52259791 AAATAATTTTTTTATAATTTTACAATATTTTATAATTTC
1 TAATAA--TTTTTATAATTTTA-AA-ATTTAAT-ATTTC
52259830 TAATAATTTTTA-AATTT
1 TAATAATTTTTATAATTT
52259847 ATAGTGTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
35 5 0.11
36 12 0.26
37 14 0.30
38 6 0.13
39 10 0.21
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (34 bp):
TAATAATTTTTATAATTTTAAAATTTAATATTTC
Found at i:52259847 original size:25 final size:26
Alignment explanation
Indices: 52259819--52259869 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
52259809 TTTACAATAT
52259819 TTTATAAT-TTCT-AATAATTTTTAAA
1 TTTATAATGTT-TAAATAATTTTTAAA
*
52259844 TTTATAGTGTTTAAATAATTTTTAAA
1 TTTATAATGTTTAAATAATTTTTAAA
52259870 AAAAGTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTATAATGTTTAAATAATTTTTAAA
Found at i:52263889 original size:19 final size:20
Alignment explanation
Indices: 52263867--52263904 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
52263857 ACCAGTGTCA
*
52263867 TCCATCGTAAT-AAAATTTG
1 TCCACCGTAATCAAAATTTG
*
52263886 TCCACCTTAATCAAAATTT
1 TCCACCGTAATCAAAATTT
52263905 TTATTAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (20 bp):
TCCACCGTAATCAAAATTTG
Found at i:52265511 original size:39 final size:39
Alignment explanation
Indices: 52265331--52265497 Score: 203
Period size: 39 Copynumber: 4.3 Consensus size: 39
52265321 TCCTCGTTCA
* * * * **
52265331 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCATAC-
1 AATGCCTTCGGGACTTAACCCGGATTTA-AAACTCGCACG
*
52265370 AATGCCTTC-GGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACG
52265409 AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
* * *
52265448 AATGCCTTCGGGACTTAACCCGGATTTATATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
*
52265487 AAGGCCTTCGG
1 AATGCCTTCGG
52265498 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
38 23 0.20
39 74 0.64
40 18 0.16
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACG
Found at i:52265559 original size:41 final size:41
Alignment explanation
Indices: 52265482--52265559 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
52265472 TTTATATCTC
* * *
52265482 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
52265523 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
52265560 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:52273373 original size:40 final size:40
Alignment explanation
Indices: 52273190--52273359 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
52273180 TCCTCGTTCA
* * * *
52273190 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52273229 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52273269 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52273309 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52273349 AAGGCCTTCGG
1 AATGCCTTCGG
52273360 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52275118 original size:16 final size:16
Alignment explanation
Indices: 52275097--52275130 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52275087 AGAAAAATAT
52275097 TTGTTTGCGTAAACCA
1 TTGTTTGCGTAAACCA
* *
52275113 TTGTTTTCGTAAATCA
1 TTGTTTGCGTAAACCA
52275129 TT
1 TT
52275131 TTGTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (16 bp):
TTGTTTGCGTAAACCA
Found at i:52276599 original size:14 final size:14
Alignment explanation
Indices: 52276582--52276609 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52276572 AATTGAGAAA
52276582 GAAAAAGAAGAGAT
1 GAAAAAGAAGAGAT
52276596 GAAAAAGAAGAGAT
1 GAAAAAGAAGAGAT
52276610 AGAAGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
GAAAAAGAAGAGAT
Found at i:52278047 original size:17 final size:17
Alignment explanation
Indices: 52278005--52278040 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
52277995 ATCTCAAGAT
52278005 TACCACTTATTCATTCA
1 TACCACTTATTCATTCA
52278022 TACCACTTATTCATTCA
1 TACCACTTATTCATTCA
52278039 TA
1 TA
52278041 GTGCTTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.42
Consensus pattern (17 bp):
TACCACTTATTCATTCA
Found at i:52282505 original size:16 final size:16
Alignment explanation
Indices: 52282468--52282507 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
52282458 TGCATATCAG
*
52282468 ACAG-ACAAATTTATC
1 ACAGAACAAATTTATA
52282483 A-AGAACAAATTTATA
1 ACAGAACAAATTTATA
52282498 ACAGAACAAA
1 ACAGAACAAA
52282508 ACAGATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 12 0.55
16 8 0.36
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.20
Consensus pattern (16 bp):
ACAGAACAAATTTATA
Found at i:52287484 original size:40 final size:39
Alignment explanation
Indices: 52287447--52287538 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
52287437 GCTACTCGTT
*
52287447 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
52287487 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
52287526 CAAATGCCTTCGG
1 CAAATGCCTTCGG
52287539 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:52287518 original size:39 final size:40
Alignment explanation
Indices: 52287428--52287591 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
52287418 CGGAATTTAA
** *
52287428 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
52287468 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52287507 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
52287547 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52287587 CCGGA
1 CCGGA
52287592 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52301707 original size:36 final size:36
Alignment explanation
Indices: 52301660--52301730 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
52301650 CACACACAAT
*
52301660 CCTTGGCCCAGCACCGGTTGAACATTTGAGTGACAC
1 CCTTGGCCCAGCACCGGTTGAACATTTGAATGACAC
*
52301696 CCTTGGCCCAGCACCGGTTGACCATTTGAATGACA
1 CCTTGGCCCAGCACCGGTTGAACATTTGAATGACA
52301731 GCTGATGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.23
Consensus pattern (36 bp):
CCTTGGCCCAGCACCGGTTGAACATTTGAATGACAC
Found at i:52314765 original size:39 final size:39
Alignment explanation
Indices: 52314710--52314907 Score: 180
Period size: 39 Copynumber: 5.0 Consensus size: 39
52314700 GTTCGATTTT
* * *
52314710 CAAATACTCAAATTCCTATTGGAAACCCAACTTTGTATC
1 CAAATACTCAAATTCCTAGTGGAAACCCAAATTTGTAAC
* * **
52314749 CAAATACTCAACTTCCTAGTGAAAAAACATAATTTTGTAAC
1 CAAATACTCAAATTCCTAGTGGAAACCCA-AA-TTTGTAAC
* * * * * *
52314790 CAAATACTCAAAGTCCTAATGGAAATCCAACTTCGTGAC
1 CAAATACTCAAATTCCTAGTGGAAACCCAAATTTGTAAC
* * **
52314829 CAAATACTCAAATTCCTAGCGAAATAACATAAATTTGTAAC
1 CAAATACTCAAATTCCTAGTG-GA-AACCCAAATTTGTAAC
* * *
52314870 CAAATACTCAAATACCTATTAGAAACCCAAATTTGTAA
1 CAAATACTCAAATTCCTAGTGGAAACCCAAATTTGTAA
52314908 ATTCTTTAAA
Statistics
Matches: 122, Mismatches: 33, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
39 61 0.50
40 4 0.03
41 57 0.47
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.27
Consensus pattern (39 bp):
CAAATACTCAAATTCCTAGTGGAAACCCAAATTTGTAAC
Found at i:52314798 original size:41 final size:41
Alignment explanation
Indices: 52314710--52314887 Score: 157
Period size: 41 Copynumber: 4.4 Consensus size: 41
52314700 GTTCGATTTT
* * ** * *
52314710 CAAATACTCAAATTCCTATTG--GAAACCCAACTTTGTATC
1 CAAATACTCAAATTCCTAGTGAAAAAACATAAATTTGTAAC
* *
52314749 CAAATACTCAACTTCCTAGTGAAAAAACATAATTTTGTAAC
1 CAAATACTCAAATTCCTAGTGAAAAAACATAAATTTGTAAC
* * * * * * * *
52314790 CAAATACTCAAAGTCCTAATG-GAAATC-CAACTTCGTGAC
1 CAAATACTCAAATTCCTAGTGAAAAAACATAAATTTGTAAC
* *
52314829 CAAATACTCAAATTCCTAGCGAAATAACATAAATTTGTAAC
1 CAAATACTCAAATTCCTAGTGAAAAAACATAAATTTGTAAC
*
52314870 CAAATACTCAAATACCTA
1 CAAATACTCAAATTCCTA
52314888 TTAGAAACCC
Statistics
Matches: 108, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
39 45 0.42
40 7 0.06
41 56 0.52
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (41 bp):
CAAATACTCAAATTCCTAGTGAAAAAACATAAATTTGTAAC
Found at i:52314813 original size:80 final size:78
Alignment explanation
Indices: 52314710--52314906 Score: 268
Period size: 80 Copynumber: 2.5 Consensus size: 78
52314700 GTTCGATTTT
* *
52314710 CAAATACTCAAATTCCTATTGGAAACCCAACTTTGTATCCAAATACTCAACTTCCTAGTGAAAAA
1 CAAATACTCAAA-TCCTATTGGAAACCCAACTTTGTA-CCAAATACTCAAATTCCTAGCGAAAAA
*
52314775 ACATAATTTTGTAAC
64 ACATAAATTTGTAAC
* * * *
52314790 CAAATACTCAAAGTCCTAATGGAAATCCAACTTCGTGACCAAATACTCAAATTCCTAGCGAAATA
1 CAAATACTCAAA-TCCTATTGGAAACCCAACTTTGT-ACCAAATACTCAAATTCCTAGCGAAAAA
52314855 ACATAAATTTGTAAC
64 ACATAAATTTGTAAC
* *
52314870 CAAATACTCAAATACCTATTAGAAACCCAAATTTGTA
1 CAAATACTCAAAT-CCTATTGGAAACCCAACTTTGTA
52314907 AATTCTTTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 99 0.97
81 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.27
Consensus pattern (78 bp):
CAAATACTCAAATCCTATTGGAAACCCAACTTTGTACCAAATACTCAAATTCCTAGCGAAAAAAC
ATAAATTTGTAAC
Found at i:52316904 original size:39 final size:40
Alignment explanation
Indices: 52316854--52316933 Score: 119
Period size: 39 Copynumber: 2.0 Consensus size: 40
52316844 TGAATCAAAG
52316854 TTAATTGGTTCAGGTAA-C-AAAGAAACAAAAAAGAATTAA
1 TTAATTGGTTCAGGTAACCAAAAGAAA-AAAAAAGAATTAA
* *
52316893 TTAATTGGTTCATGTAACCAAAAGAAAAAAAAAGAGTTAA
1 TTAATTGGTTCAGGTAACCAAAAGAAAAAAAAAGAATTAA
52316933 T
1 T
52316934 GGTTTCAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 16 0.43
40 14 0.38
41 7 0.19
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (40 bp):
TTAATTGGTTCAGGTAACCAAAAGAAAAAAAAAGAATTAA
Found at i:52319101 original size:22 final size:21
Alignment explanation
Indices: 52319075--52319129 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
52319065 TTTTTGCTTC
52319075 TTTTTGTCCTAAAACTAACATT
1 TTTTTGT-CTAAAACTAACATT
*
52319097 TTTTTGT-TAAAACTAACTTT
1 TTTTTGTCTAAAACTAACATT
52319117 TTTTTGTC-AAAAC
1 TTTTTGTCTAAAAC
52319130 ACCCAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 24 0.77
22 7 0.23
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTTGTCTAAAACTAACATT
Found at i:52320448 original size:27 final size:27
Alignment explanation
Indices: 52320418--52320472 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
52320408 CACAAGCGCC
*
52320418 TGTGGGCCCACACGCTCGTGTGGCCCA
1 TGTGGGCCCACACACTCGTGTGGCCCA
52320445 TGTGGGCCCACACACTCGTGTGGCCCA
1 TGTGGGCCCACACACTCGTGTGGCCCA
52320472 T
1 T
52320473 ATGACCCCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.13, C:0.36, G:0.31, T:0.20
Consensus pattern (27 bp):
TGTGGGCCCACACACTCGTGTGGCCCA
Found at i:52320481 original size:27 final size:27
Alignment explanation
Indices: 52320424--52320481 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
52320414 CGCCTGTGGG
* * **
52320424 CCCACACGCTCGTGTGGCCCATGTGGG
1 CCCACACACTCGTGTGGCCCATATGAC
52320451 CCCACACACTCGTGTGGCCCATATGAC
1 CCCACACACTCGTGTGGCCCATATGAC
52320478 CCCA
1 CCCA
52320482 GTTAGTCCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (27 bp):
CCCACACACTCGTGTGGCCCATATGAC
Found at i:52325130 original size:47 final size:47
Alignment explanation
Indices: 52325073--52325376 Score: 407
Period size: 47 Copynumber: 6.4 Consensus size: 47
52325063 ATTGATGTAC
* * *
52325073 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
52325120 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
52325169 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
52325216 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
52325263 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
52325310 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
52325357 AAGTATATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
52325377 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 194 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:52325254 original size:22 final size:22
Alignment explanation
Indices: 52325227--52325348 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
52325217 CATGTGTATG
52325227 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
52325249 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
52325274 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
52325296 TGTGATGAATG-AGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
52325321 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
52325343 TGTGAT
1 TGTGAT
52325349 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:52327613 original size:25 final size:25
Alignment explanation
Indices: 52327585--52327649 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
52327575 TCAATTCATA
*
52327585 TAATGGGAAGCTCAT-GTGAGCCAT
1 TAATGGGAAGCTCATAGAGAGCCAT
* *
52327609 GTAATAGGAAGCT-TTAGAGAGCCAT
1 -TAATGGGAAGCTCATAGAGAGCCAT
*
52327634 TAACGGGAAGCTCATA
1 TAATGGGAAGCTCATA
52327650 CGAGCTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (25 bp):
TAATGGGAAGCTCATAGAGAGCCAT
Found at i:52329223 original size:24 final size:22
Alignment explanation
Indices: 52329181--52329238 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
52329171 ATTAATTTTT
52329181 TAAA-AAAA-TATAAAAATT-A
1 TAAATAAAATTATAAAAATTAA
52329200 TAGAATAAAATTATAAAATTATTAA
1 TA-AATAAAATTATAAAA--ATTAA
*
52329225 TAAATAAATTTATA
1 TAAATAAAATTATA
52329239 TATTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 4 0.12
22 7 0.22
24 14 0.44
25 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAATAAAATTATAAAAATTAA
Found at i:52329288 original size:9 final size:9
Alignment explanation
Indices: 52329276--52329322 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
52329266 TAATTTTAAA
52329276 ATTTTTTAT
1 ATTTTTTAT
52329285 A-TTTTTAT
1 ATTTTTTAT
*
52329293 ATTTTTGA-
1 ATTTTTTAT
52329301 A-TTTTTAT
1 ATTTTTTAT
*
52329309 ATTTTATAT
1 ATTTTTTAT
52329318 ATTTT
1 ATTTT
52329323 AAAATATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
7 5 0.16
8 10 0.31
9 17 0.53
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:52329289 original size:8 final size:8
Alignment explanation
Indices: 52329278--52329322 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
52329268 ATTTTAAAAT
52329278 TTTTTATA
1 TTTTTATA
52329286 TTTTTATA
1 TTTTTATA
52329294 TTTTTGA-A
1 TTTTT-ATA
52329302 TTTTTATA
1 TTTTTATA
52329310 TTTTATATA
1 TTTT-TATA
52329319 TTTT
1 TTTT
52329323 AAAATATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 1 0.03
8 24 0.71
9 9 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTTATA
Found at i:52329323 original size:9 final size:9
Alignment explanation
Indices: 52329233--52329323 Score: 61
Period size: 8 Copynumber: 10.4 Consensus size: 9
52329223 AATAAATAAA
52329233 TTTATATA-
1 TTTATATAT
52329241 TTTATATAT
1 TTTATATAT
*
52329250 TTT-TATGCT
1 TTTATAT-AT
*
52329259 TCTTAAATAAT
1 T-TTATAT-AT
*
52329270 TTTA-AAAT
1 TTTATATAT
*
52329278 TTTTTATAT
1 TTTATATAT
52329287 TTT-TATAT
1 TTTATATAT
52329295 TTT-TGA-AT
1 TTTAT-ATAT
52329303 TTT-TATAT
1 TTTATATAT
52329311 TTTATATAT
1 TTTATATAT
52329320 TTTA
1 TTTA
52329324 AAATATTAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
7 1 0.01
8 36 0.53
9 22 0.32
10 5 0.07
11 4 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTATATAT
Found at i:52331880 original size:16 final size:16
Alignment explanation
Indices: 52331859--52331922 Score: 53
Period size: 16 Copynumber: 4.0 Consensus size: 16
52331849 TTTTATTTTT
52331859 TTATGTAATTTATTTG
1 TTATGTAATTTATTTG
* *
52331875 TTATGT-GTTT-TTAGG
1 TTATGTAATTTATT-TG
*
52331890 TTGAT-TAGATTTATTTT
1 TT-ATGTA-ATTTATTTG
52331907 TTATGTAATTTATTTG
1 TTATGTAATTTATTTG
52331923 GCATGTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
14 2 0.06
15 7 0.19
16 18 0.50
17 7 0.19
18 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (16 bp):
TTATGTAATTTATTTG
Found at i:52333572 original size:14 final size:14
Alignment explanation
Indices: 52333561--52333588 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52333551 TTTTCTAATG
52333561 ATACTATTCTAACA
1 ATACTATTCTAACA
52333575 ATACTATTCTAACA
1 ATACTATTCTAACA
52333589 TGTAATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
ATACTATTCTAACA
Found at i:52338796 original size:27 final size:27
Alignment explanation
Indices: 52338749--52338818 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
52338739 GTGGTACTGG
* *
52338749 TGCCGCCTATCAAATAGGGGTCACCAA
1 TGCCGCCTATCAGATAAGGGTCACCAA
* ***
52338776 TGCCGCCTATGAGATAAGGGTCACTGG
1 TGCCGCCTATCAGATAAGGGTCACCAA
52338803 TGCCGCCTATCAGATA
1 TGCCGCCTATCAGATA
52338819 GACATTATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.21
Consensus pattern (27 bp):
TGCCGCCTATCAGATAAGGGTCACCAA
Found at i:52340851 original size:36 final size:36
Alignment explanation
Indices: 52340804--52340873 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
52340794 AGTCAAATGT
52340804 GTCAGTTTTTAGGGATGTGCTGCCTATGCACCACGG
1 GTCAGTTTTTAGGGATGTGCTGCCTATGCACCACGG
52340840 GTCAGTTTTTAGGGATGTGCTGCCTATGCACCAC
1 GTCAGTTTTTAGGGATGTGCTGCCTATGCACCAC
52340874 CCTCCACTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.17, C:0.23, G:0.29, T:0.31
Consensus pattern (36 bp):
GTCAGTTTTTAGGGATGTGCTGCCTATGCACCACGG
Found at i:52342429 original size:34 final size:34
Alignment explanation
Indices: 52342391--52342462 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
52342381 ACATAATTAT
* *
52342391 ATATGTATAGTTTGGTATAATCGAA-AGTGAATAC
1 ATATGTATAGTTTGATATAACCGAAGA-TGAATAC
* *
52342425 ATATGTATGGTTTGATATAACCGAAGATGAATAT
1 ATATGTATAGTTTGATATAACCGAAGATGAATAC
52342459 ATAT
1 ATAT
52342463 ATACATTTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (34 bp):
ATATGTATAGTTTGATATAACCGAAGATGAATAC
Found at i:52342661 original size:59 final size:61
Alignment explanation
Indices: 52342534--52342668 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 61
52342524 TAAGCTTGAG
* * *
52342534 ATGAGCACTAAGTGTGCGAAGTGAAATTGGTACTGAGTACTAAGTGTACGAAATTGATCAT
1 ATGAGCACTAAGTGTGCAAAGTGAAATTGATACCGAGTACTAAGTGTACGAAATTGATCAT
* * * *
52342595 TTG-GCACTAAGTGTGCAAATTG-AATTTATACCGAGTACTAAGTGTAC-AAGATCTG-TTA-
1 ATGAGCACTAAGTGTGCAAAGTGAAATTGATACCGAGTACTAAGTGTACGAA-AT-TGATCAT
52342653 ATGAGCACTAAGTGTG
1 ATGAGCACTAAGTGTG
52342669 TGAGTTTATC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
58 4 0.06
59 38 0.60
60 19 0.30
61 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (61 bp):
ATGAGCACTAAGTGTGCAAAGTGAAATTGATACCGAGTACTAAGTGTACGAAATTGATCAT
Found at i:52349548 original size:34 final size:34
Alignment explanation
Indices: 52349510--52349581 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
52349500 ACATAATTAT
* *
52349510 ATATGTATAGTTTGGTATAATCGAA-AGTGAATAC
1 ATATGTATAGTTTGATATAACCGAAGA-TGAATAC
* *
52349544 ATATGTATGGTTTGATATAACCGAAGATGAATAT
1 ATATGTATAGTTTGATATAACCGAAGATGAATAC
52349578 ATAT
1 ATAT
52349582 ACATTTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (34 bp):
ATATGTATAGTTTGATATAACCGAAGATGAATAC
Found at i:52349782 original size:59 final size:61
Alignment explanation
Indices: 52349651--52349788 Score: 149
Period size: 59 Copynumber: 2.3 Consensus size: 61
52349641 TAAGCTTGAG
* * * *
52349651 ATGAGCACTAAGTGTGCGAAGTGAAATTGGTACTGAGTACTAAGTGTACGAAATTGATCAT
1 ATGAGCACTAAGTGTGCGAAATGAAATTGATACCGAGTACTAAGTGTACGAAATCGATCAT
* * * * * *
52349712 TTG-GCATTAAGTGTGC-AAATCG-AATTTATACCGAGTACTAAGTGTACGAGATCGGTTA-
1 ATGAGCACTAAGTGTGCGAAAT-GAAATTGATACCGAGTACTAAGTGTACGAAATCGATCAT
52349770 ATGAGCACTAAGTGTGCGA
1 ATGAGCACTAAGTGTGCGA
52349789 GTTTATCTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
58 2 0.03
59 44 0.71
60 14 0.23
61 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (61 bp):
ATGAGCACTAAGTGTGCGAAATGAAATTGATACCGAGTACTAAGTGTACGAAATCGATCAT
Found at i:52355491 original size:26 final size:28
Alignment explanation
Indices: 52355451--52355502 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
52355441 GGAATTTAAA
52355451 AAAAGAACAGGTGAAACA-AAAAAAATG
1 AAAAGAACAGGTGAAACAGAAAAAAATG
* *
52355478 AAAAG-ACAGTTGAAATAGAAAAAAA
1 AAAAGAACAGGTGAAACAGAAAAAAA
52355503 AAGAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.67, C:0.06, G:0.17, T:0.10
Consensus pattern (28 bp):
AAAAGAACAGGTGAAACAGAAAAAAATG
Found at i:52359281 original size:20 final size:20
Alignment explanation
Indices: 52359234--52359299 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
52359224 GTGTAGGGGT
* *
52359234 CACACGCCCAAGTAAAGGAGG
1 CACACGCCCATGTAAA-AAGG
*
52359255 CACACGCTCATGTAAAAAGG
1 CACACGCCCATGTAAAAAGG
* *
52359275 CATACGCCCGTGTAAAAAGG
1 CACACGCCCATGTAAAAAGG
*
52359295 TACAC
1 CACAC
52359300 AGTCGTGTGG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.38, C:0.27, G:0.23, T:0.12
Consensus pattern (20 bp):
CACACGCCCATGTAAAAAGG
Found at i:52362831 original size:22 final size:22
Alignment explanation
Indices: 52362781--52362839 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 22
52362771 ATGTCCAAGT
** *
52362781 AAAGGAGGCACATGCCCATGTG
1 AAAGGAGGCACACACCCATGAG
52362803 AAA--AGGCACACACCCATGAG
1 AAAGGAGGCACACACCCATGAG
52362823 AAAGGAGGCACACACCC
1 AAAGGAGGCACACACCC
52362840 GTGTGTTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 17 0.53
22 15 0.47
ACGTcount: A:0.39, C:0.29, G:0.25, T:0.07
Consensus pattern (22 bp):
AAAGGAGGCACACACCCATGAG
Found at i:52362932 original size:21 final size:21
Alignment explanation
Indices: 52362906--52362974 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
52362896 CAGGATCAAC
*
52362906 CGTGTGAAAGTCTGACACGGT
1 CGTGTGAAAGTCTGACACGCT
52362927 CGTGTGAAAGTCTGTCACAC-CT
1 CGTGTGAAAGTCTG--ACACGCT
* *
52362949 -GTGTGAAAATCTGTCACGCT
1 CGTGTGAAAGTCTGACACGCT
52362969 CGTGTG
1 CGTGTG
52362975 CCCATAGGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.07
20 2 0.05
21 31 0.76
22 1 0.02
23 4 0.10
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (21 bp):
CGTGTGAAAGTCTGACACGCT
Found at i:52367408 original size:19 final size:19
Alignment explanation
Indices: 52367384--52367420 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
52367374 ATTTTGATGT
52367384 TGTGGTATG-ATAGTTTAAA
1 TGTGGTATGTAT-GTTTAAA
52367403 TGTGGTATGTATGTTTAA
1 TGTGGTATGTATGTTTAA
52367421 TTCGATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (19 bp):
TGTGGTATGTATGTTTAAA
Found at i:52369269 original size:36 final size:36
Alignment explanation
Indices: 52369229--52369302 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
52369219 AGAGTGGGAA
* * *
52369229 AGAAAAAGTTATGAGAGAAAGATATAGGGATGAGAG
1 AGAAAAAGATATGAGAGAAAGATAGAGGGACGAGAG
* *
52369265 AGAAAGAGATATGGGAGAAAGATAGAGGGACGAGAG
1 AGAAAAAGATATGAGAGAAAGATAGAGGGACGAGAG
52369301 AG
1 AG
52369303 GGAAAGTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.49, C:0.01, G:0.38, T:0.12
Consensus pattern (36 bp):
AGAAAAAGATATGAGAGAAAGATAGAGGGACGAGAG
Found at i:52374190 original size:12 final size:12
Alignment explanation
Indices: 52374173--52374197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52374163 TTAAAATAAC
52374173 TGATAAGTTACT
1 TGATAAGTTACT
52374185 TGATAAGTTACT
1 TGATAAGTTACT
52374197 T
1 T
52374198 TTCGTTATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TGATAAGTTACT
Found at i:52381888 original size:47 final size:49
Alignment explanation
Indices: 52381819--52382135 Score: 162
Period size: 46 Copynumber: 6.7 Consensus size: 49
52381809 AGTGTAATGC
*
52381819 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCGAAGT
* * * * * *
52381866 CGATGCCATGTCCCACACATGGTCTTACATTGACT-ATCGAAATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCGAAGT
* * * * ***
52381915 CGACGCCATGTGCCAAACGTGGTCTTACACTGGCTC-TCACATCTCCGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCGAAGT
* * * * ** *
52381963 GCTGATGCCATGTCTCAGACATGGTCTTACATTGACACAT--C-TCCTAGC
1 -C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCGAAGT
* * * * *
52382011 CGAT-ACATGTCCCAGACAT-GTTTTACACTGGCTTA-CATC-TCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-CATCGAAGT
* * * *
52382057 CGATG-CATGTCCTAGATAT-GTCTTACACTAGCTC-TCGTC-TC-AATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-ACATCGAA-GT
* * * *
52382103 CGTTGCCAAGTCCTAGACATGGTCTTAGACTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG
52382136 ATCCCATAAT
Statistics
Matches: 201, Mismatches: 53, Indels: 31
0.71 0.19 0.11
Matches are distributed among these distances:
44 11 0.05
45 14 0.07
46 48 0.24
47 44 0.22
48 21 0.10
49 35 0.17
50 27 0.13
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCACATCGAAGT
Found at i:52385472 original size:45 final size:45
Alignment explanation
Indices: 52385252--52385478 Score: 282
Period size: 45 Copynumber: 5.1 Consensus size: 45
52385242 TTTTCTCAAA
* * *
52385252 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* * * ** *
52385294 CCACCGGTATTATAGCCTGTTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAACATT
* * *
52385339 TCACCGGCATTATAGGCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
*
52385384 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
* *
52385429 TCACCGGCATTATAGCCTGTTAGGCTCAAAGGCCCGAAAAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
52385474 TCACC
1 TCACC
52385479 ACTTCTTTCC
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
42 9 0.06
43 13 0.08
44 8 0.05
45 130 0.81
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
Found at i:52387199 original size:23 final size:23
Alignment explanation
Indices: 52387171--52387214 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
52387161 CTCCACACTG
52387171 ATATGA-TATGTAAATATTAGAAT
1 ATATGATTATGT-AATATTAGAAT
*
52387194 ATATGATTTTGTAATATTAGA
1 ATATGATTATGTAATATTAGA
52387215 GATTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (23 bp):
ATATGATTATGTAATATTAGAAT
Found at i:52391972 original size:29 final size:29
Alignment explanation
Indices: 52391915--52391972 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
52391905 TCTCCAAATT
*
52391915 ATATATATTATATTACTCAATCCCGTCAA
1 ATATATATTATATTACTCAATCCCATCAA
* * *
52391944 ATATTTATTATATTATTCAATCTCATCAA
1 ATATATATTATATTACTCAATCCCATCAA
52391973 CATGTGACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (29 bp):
ATATATATTATATTACTCAATCCCATCAA
Found at i:52404188 original size:11 final size:11
Alignment explanation
Indices: 52404172--52404223 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
52404162 GAGACTGTAG
52404172 AAAAAGAAAAA
1 AAAAAGAAAAA
52404183 AAAAAGAAAAA
1 AAAAAGAAAAA
*
52404194 AAAAAG--AGA
1 AAAAAGAAAAA
*
52404203 GAAAAGAAAAA
1 AAAAAGAAAAA
*
52404214 GAAAAGAAAA
1 AAAAAGAAAA
52404224 TTAAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 7 0.19
11 29 0.81
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:52405801 original size:16 final size:16
Alignment explanation
Indices: 52405780--52405811 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52405770 TTAATTAATC
52405780 ACTTGGATGCTAAGTT
1 ACTTGGATGCTAAGTT
52405796 ACTTGGATGCTAAGTT
1 ACTTGGATGCTAAGTT
52405812 GCTTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (16 bp):
ACTTGGATGCTAAGTT
Found at i:52409322 original size:33 final size:33
Alignment explanation
Indices: 52409280--52409345 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
52409270 TTTTGTGAAA
52409280 GGATTTTTCATGAAACCACCAAAAATAGACCTT
1 GGATTTTTCATGAAACCACCAAAAATAGACCTT
* *
52409313 GGATTTTTCATGAAACCACCTAAAATGGACCTT
1 GGATTTTTCATGAAACCACCAAAAATAGACCTT
52409346 TTTGTAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (33 bp):
GGATTTTTCATGAAACCACCAAAAATAGACCTT
Found at i:52410189 original size:48 final size:48
Alignment explanation
Indices: 52410103--52410492 Score: 345
Period size: 48 Copynumber: 8.0 Consensus size: 48
52410093 TGATACTAGG
* * * *
52410103 GTTATGTAGGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATT
1 GTTATG-A-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
* * * *
52410153 GTTATGAGAACTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTC
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
** * * * * * *
52410201 AATATGCGAGCCAGCGTAAGACCATGTTTGGAACATGGCACCGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
* * * * *
52410249 GTTAT-ATGTGTTAGTGTAAGACCATGTCTGAGACATGGCATCAGCACT
1 GTTATGA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
* * *
52410297 GATGTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
1 G-T-TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
** * * * * *
52410347 CATATGCGAGCTAGTGTAAGACAATGTTTGGAACATGGCATTGGCATT
1 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
* **
52410395 GTTAT-ATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACC
1 GTTATGA-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
** *
52410443 GATGTATGAGAGCTAGTGTAAGACCATGTCCAGGACATGGCATCAGCATT
1 G-T-TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
52410493 TTACCCTTTT
Statistics
Matches: 265, Mismatches: 65, Indels: 20
0.76 0.19 0.06
Matches are distributed among these distances:
47 1 0.00
48 178 0.67
49 3 0.01
50 80 0.30
51 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
Found at i:52410276 original size:96 final size:98
Alignment explanation
Indices: 52410112--52410490 Score: 313
Period size: 98 Copynumber: 3.9 Consensus size: 98
52410102 GGTTATGTAG
** *
52410112 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGAGAACTAGTGTAAGACTA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTGTTATGAGAACTAGTGTAAGACCA
* * *
52410177 TGTCTGGGACATGGCATCGGC-CTCA-ATATGC
66 TGTCTGAGACATGGCATCAGCACTCATATATGA
* ***
52410208 GAGCCAGCGTAAGACCATGTTTGGAACATGGCACCGGCATTGTTAT-ATGTGTTAGTGTAAGACC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTGTTATGA-GAACTAGTGTAAGACC
* *
52410272 ATGTCTGAGACATGGCATCAGCACTGATGTATGA
65 ATGTCTGAGACATGGCATCAGCACTCATATATGA
* * * * * * *** * * *
52410306 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCCATATGCGAGCTAGTGTAAGACAA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTGTTATGAGAACTAGTGTAAGACCA
* ** * **
52410371 TGTTTG-GAACATGGCATTGGCATTGTTATAT--
66 TGTCTGAG-ACATGGCATCAGCACTCATATATGA
* * * * * ** *
52410402 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTG-T-TATGAGAACTAGTGTAAGAC
*
52410467 CATGTC-CAGGACATGGCATCAGCA
64 CATGTCTGA-GACATGGCATCAGCA
52410491 TTTTACCCTT
Statistics
Matches: 228, Mismatches: 46, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
95 1 0.00
96 110 0.48
97 4 0.02
98 112 0.49
99 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (98 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTGTTATGAGAACTAGTGTAAGACCA
TGTCTGAGACATGGCATCAGCACTCATATATGA
Found at i:52410367 original size:146 final size:145
Alignment explanation
Indices: 52410116--52410489 Score: 554
Period size: 146 Copynumber: 2.6 Consensus size: 145
52410106 ATGTAGGAGC
* * * * *
52410116 CAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTG-T-TATGAGAACTAGTGTAAGACTATG
1 CAGTGTAAGACCATGTCTGG-ACATGGCATCGGCACTGATGTATGAGAGCTAGTGTAAGACCATG
* *
52410179 TCTGGGACATGGCATCGGCCTCAATATGCGAGCCAGCGTAAGACCATGTTTGGAACATGGCACCG
65 TCTGGGACATGGCATCAGCCTCAATATGCGAGCCAGCGTAAGACAATGTTTGGAACATGGCACCG
52410244 GCATTGTTATATGTGT
130 GCATTGTTATATGTGT
* *
52410260 TAGTGTAAGACCATGTCTGAGACATGGCATCAGCACTGATGTATGAGAGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTG-GACATGGCATCGGCACTGATGTATGAGAGCTAGTGTAAGACCATG
* * * **
52410325 TCTGGGACATGGCATCAGCCTCCATATGCGAGCTAGTGTAAGACAATGTTTGGAACATGGCATTG
65 TCTGGGACATGGCATCAGCCTCAATATGCGAGCCAGCGTAAGACAATGTTTGGAACATGGCACCG
52410390 GCATTGTTATATGTGT
130 GCATTGTTATATGTGT
*
52410406 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATGTATGAGAGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCT-GGACATGGCATCGGCACTGATGTATGAGAGCTAGTGTAAGACCATG
**
52410471 TCCAGGACATGGCATCAGC
65 TCTGGGACATGGCATCAGC
52410490 ATTTTACCCT
Statistics
Matches: 207, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
144 31 0.15
145 2 0.01
146 173 0.84
147 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (145 bp):
CAGTGTAAGACCATGTCTGGACATGGCATCGGCACTGATGTATGAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCAGCCTCAATATGCGAGCCAGCGTAAGACAATGTTTGGAACATGGCACCGG
CATTGTTATATGTGT
Found at i:52413217 original size:27 final size:27
Alignment explanation
Indices: 52413187--52413585 Score: 295
Period size: 27 Copynumber: 14.6 Consensus size: 27
52413177 ATATTGAGTC
* *
52413187 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
52413214 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
52413241 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
52413268 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
52413296 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* *
52413323 CGCACACTTAGTGC-ATCATATTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
52413350 CGCACACTTAGTGCTGTACA-ATTTAATCC
1 CGCACACTTAGTGC--TACATAATCAA-CT
* * **
52413379 CGCGCACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
52413406 CGCACACTTAATGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
52413433 CGCACACTTAGTGCTGTACA-ATTTAATCC
1 CGCACACTTAGTGC--TACATAATCAA-CT
* *
52413462 CGCGCACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
52413490 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
52413517 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
52413544 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
52413571 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52413586 GTACAATTTA
Statistics
Matches: 305, Mismatches: 51, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.00
27 210 0.69
28 60 0.20
29 33 0.11
30 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:52413431 original size:83 final size:82
Alignment explanation
Indices: 52413235--52413584 Score: 350
Period size: 83 Copynumber: 4.2 Consensus size: 82
52413225 TGCTATATAA
* * * * * * * *
52413235 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGC--TACATAGTCAAACTCG
1 TCAATTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGTACA-ATTTAATCCCG
* * *
52413298 CACACTTAGTGCCGCATGG
65 CGCACTTAGTG-CTCATAG
* *
52413317 TCAATTCGCACACTTAGTGCATCATATTCAAATCGCACACTTAGTGCTGTACAATTTAATCCCGC
1 TCAATTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGTACAATTTAATCCCGC
*
52413382 GCACTTAGTGCATCATAT
66 GCACTTAGTGC-TCATAG
* *
52413400 TCATTTCGCACACTTAATGCAACATAGTCAAATCGCACACTTAGTGCTGTACAATTTAATCCCGC
1 TCAATTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGTACAATTTAATCCCGC
52413465 GCACTTAGTGCTACATAG
66 GCACTTAGTGCT-CATAG
* ** * * * * **
52413483 TCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-AT-C-ATATTCATTTC
1 TC-AATTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGTACAAT-TTAATCCC
* *
52413545 GCACACTTAGTGCAACATAG
64 GCGCACTTAGTGC-TCATAG
*
52413565 TCAAATCGCACACTTAGTGC
1 TCAATTCGCACACTTAGTGC
52413585 TGTACAATTT
Statistics
Matches: 229, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
81 19 0.08
82 69 0.30
83 99 0.43
84 42 0.18
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (82 bp):
TCAATTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGTACAATTTAATCCCGC
GCACTTAGTGCTCATAG
Found at i:52413525 original size:138 final size:136
Alignment explanation
Indices: 52413186--52413610 Score: 470
Period size: 138 Copynumber: 3.1 Consensus size: 136
52413176 TATATTGAGT
* * * ** *
52413186 CCGCACACTCAGTGCTATATAATC-AACTCGCACACTCAGTGCTATATAATCAACTCGCACACTT
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGCAT--TCAATTCGCACACTT
* * ** * *
52413250 AGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCG--
64 AGTGCAT-CATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTAGTGCTGTA
*
52413312 C-ATGGTCAAT-
127 CAAT--TTAATC
* * * * *
52413322 TCGCACACTTAGTGC-ATCATATTCAAA-TCGCACACTTAGTGCTGTACAATTTAATCCCGCGCA
1 CCGCACACTTAGTGCTA-CATAATCAAACTCGCACACTTAGTGCTG--C-ATTCAAT-TCGCACA
*
52413385 CTTAGTGCATCATATTCATTTCGCACACTTAATGCAACATAGTCAAATCGCACACTTAGTGCTGT
61 CTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGT
52413450 ACAATTTAATC
126 ACAATTTAATC
* * *
52413461 CCGCGCACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTT
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGCAT--TCAATTCGCACACTT
52413526 AGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGTACA
64 AGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGTACA
52413591 ATTTAATC
129 ATTTAATC
*
52413599 CCGCGCACTTAG
1 CCGCACACTTAG
52413611 CGCCAATCTC
Statistics
Matches: 247, Mismatches: 27, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
135 1 0.00
136 33 0.13
137 23 0.09
138 141 0.57
139 30 0.12
140 19 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (136 bp):
CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGCATTCAATTCGCACACTTAG
TGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCTGTACAAT
TTAATC
Found at i:52418837 original size:42 final size:42
Alignment explanation
Indices: 52418768--52418926 Score: 142
Period size: 42 Copynumber: 3.8 Consensus size: 42
52418758 GGATATGGCA
* * * * *
52418768 ATGGCATCGGTATGTG-TTATCATGTAAGACCATATCTGAGAT
1 ATGGCATCGATATGAGATT-TCGTGTAAGACCATATTTGGGAT
* * ** *
52418810 ATGGCGTTGATATGAGATTTCGTGTAAGACCACGTTTGGGAC
1 ATGGCATCGATATGAGATTTCGTGTAAGACCATATTTGGGAT
* *
52418852 ATGGCATCGAAATGAGATTTCGTAG-AAGATCATATTTGGGAT
1 ATGGCATCGATATGAGATTTCGT-GTAAGACCATATTTGGGAT
* ** *
52418894 ATGGCATCGATGTGAGATCCCATGTAAGACCAT
1 ATGGCATCGATATGAGATTTCGTGTAAGACCAT
52418927 GTCTAGGACA
Statistics
Matches: 91, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
41 1 0.01
42 87 0.96
43 3 0.03
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
ATGGCATCGATATGAGATTTCGTGTAAGACCATATTTGGGAT
Found at i:52422345 original size:14 final size:14
Alignment explanation
Indices: 52422326--52422354 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
52422316 AACCCTTATT
52422326 CTGGATTGAAACTA
1 CTGGATTGAAACTA
52422340 CTGGATTGAAACTA
1 CTGGATTGAAACTA
52422354 C
1 C
52422355 GATTAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (14 bp):
CTGGATTGAAACTA
Found at i:52436934 original size:11 final size:12
Alignment explanation
Indices: 52436902--52436934 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52436892 GAGTTGTAGC
52436902 AAACTTAATTAT
1 AAACTTAATTAT
*
52436914 AAACTGAATTA-
1 AAACTTAATTAT
52436925 AAACTTAATT
1 AAACTTAATT
52436935 TATTAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
AAACTTAATTAT
Found at i:52437002 original size:20 final size:21
Alignment explanation
Indices: 52436965--52437010 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
52436955 GAGCTGAATC
*
52436965 GAGCTGAATTCTAGCTCAAAT
1 GAGCTGAATTCGAGCTCAAAT
*
52436986 GAGCTGAA-TCGAGCTCAAGT
1 GAGCTGAATTCGAGCTCAAAT
52437006 GAGCT
1 GAGCT
52437011 AATGGGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (21 bp):
GAGCTGAATTCGAGCTCAAAT
Found at i:52438039 original size:22 final size:23
Alignment explanation
Indices: 52437999--52438047 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
52437989 TTATCACAAC
*
52437999 TCTTTTTCTTTTCTCTTTCAATT
1 TCTTTTTCTTCTCTCTTTCAATT
* *
52438022 TCTTTTTC-TCTCTTTTTCATTT
1 TCTTTTTCTTCTCTCTTTCAATT
52438044 TCTT
1 TCTT
52438048 GCCTTTCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.71
Consensus pattern (23 bp):
TCTTTTTCTTCTCTCTTTCAATT
Found at i:52441599 original size:11 final size:12
Alignment explanation
Indices: 52441567--52441599 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52441557 GAGCTGTAGC
52441567 AAACTTAATTAT
1 AAACTTAATTAT
*
52441579 AAACTGAATTA-
1 AAACTTAATTAT
52441590 AAACTTAATT
1 AAACTTAATT
52441600 TATTAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
AAACTTAATTAT
Found at i:52445042 original size:27 final size:27
Alignment explanation
Indices: 52444968--52445034 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
52444958 ATCTCAACGA
**
52444968 GACGTTAAACACGGGGTAGTCTAGCAG
1 GACGTTAAACACGGGGTAGTCTAAAAG
* * *
52444995 GATGTTAAACATGGGGCAGTCTAAAAG
1 GACGTTAAACACGGGGTAGTCTAAAAG
52445022 GACGTTAAACACG
1 GACGTTAAACACG
52445035 AGATAGTCCG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.19
Consensus pattern (27 bp):
GACGTTAAACACGGGGTAGTCTAAAAG
Found at i:52452023 original size:3 final size:3
Alignment explanation
Indices: 52452015--52452041 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
52452005 ATTGCAAGTT
52452015 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
52452042 CAATGCAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:52455894 original size:21 final size:21
Alignment explanation
Indices: 52455870--52455919 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 21
52455860 ATCAAAAACA
52455870 ATTATAAAATTTAATTTAAAT
1 ATTATAAAATTTAATTTAAAT
52455891 ATTAT--AA-TTAATTTAAAT
1 ATTATAAAATTTAATTTAAAT
*
52455909 ATATTTAAAAT
1 AT-TATAAAAT
52455920 ATATAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 13 0.54
19 4 0.17
21 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTATAAAATTTAATTTAAAT
Found at i:52458630 original size:6 final size:6
Alignment explanation
Indices: 52458619--52458643 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52458609 TCTTAATATA
52458619 ACTCAT ACTCAT ACTCAT ACTCAT A
1 ACTCAT ACTCAT ACTCAT ACTCAT A
52458644 TAAATATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ACTCAT
Found at i:52460146 original size:19 final size:20
Alignment explanation
Indices: 52460108--52460146 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
52460098 CTAATTCTCC
* *
52460108 TTCTTTCTCTTTTTCTTTCT
1 TTCTTTCTCTGTTTCGTTCT
52460128 TTCTTT-TCTGTTTCGTTCT
1 TTCTTTCTCTGTTTCGTTCT
52460147 ATCTCTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (20 bp):
TTCTTTCTCTGTTTCGTTCT
Found at i:52461358 original size:13 final size:13
Alignment explanation
Indices: 52461340--52461379 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
52461330 AAGTAAGTGA
52461340 TCTTGATGGTTTT
1 TCTTGATGGTTTT
52461353 TCTTGATGGTTTT
1 TCTTGATGGTTTT
*
52461366 TCTTGATGATTTT
1 TCTTGATGGTTTT
52461379 T
1 T
52461380 GTACATTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.10, C:0.07, G:0.20, T:0.62
Consensus pattern (13 bp):
TCTTGATGGTTTT
Found at i:52462254 original size:46 final size:46
Alignment explanation
Indices: 52462075--52462283 Score: 176
Period size: 46 Copynumber: 4.5 Consensus size: 46
52462065 ATTGTGTGCT
* * **
52462075 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
* ** * *
52462121 AGTGTAAGACCATGTCTGGGACTTGGCATCGGC-ATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGATGAGAGCC
* * * *
52462169 AGTGTAAGACATATCTGGGACATGCCTCAGCCT-CGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACAAGATG-AGAGCC
* * *
52462215 AGTGTAAGACATGTCTGAGACATGCATCGGCTACAAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
*
52462259 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
52462284 TCTTCGGTAC
Statistics
Matches: 130, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 51 0.39
47 28 0.22
48 24 0.18
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGAGCC
Found at i:52468612 original size:20 final size:20
Alignment explanation
Indices: 52468565--52468612 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
52468555 AGATAGGGGC
* * * *
52468565 ACATGCTCGTGTGGCTTGGG
1 ACATGCCCGTATGGCCTGGA
*
52468585 ACACGCCCGTATGGCCTGGA
1 ACATGCCCGTATGGCCTGGA
52468605 ACATGCCC
1 ACATGCCC
52468613 ATGTGCTACA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTATGGCCTGGA
Found at i:52468873 original size:17 final size:21
Alignment explanation
Indices: 52468851--52468893 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
52468841 ACCTAAAAAT
52468851 TTTCAA-CC-AAACAA-T-TA
1 TTTCAAGCCAAAACAAGTATA
52468868 TTTCAAGCCAAAACAAGTATA
1 TTTCAAGCCAAAACAAGTATA
52468889 TTTCA
1 TTTCA
52468894 TTTTCCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.27
18 2 0.09
19 6 0.27
20 1 0.05
21 7 0.32
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAGCCAAAACAAGTATA
Found at i:52469553 original size:52 final size:53
Alignment explanation
Indices: 52469431--52469590 Score: 184
Period size: 52 Copynumber: 3.1 Consensus size: 53
52469421 CGGATCACAT
* * * *
52469431 ATCATACCGAGGCCATATCCCAGATATGGTCTTATAC-GGAATTACATTATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAATCACA-TATCAC
*
52469484 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACGA-ATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAATCAC-ATATCAC
** * * *
52469536 ATTGTACCGATGCCATAGCCCGGCTATGGTCTTATAC-GGAAGCATATATCAC
1 ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAATCACATATCAC
52469588 ATC
1 ATC
52469591 TTTTCCGTCA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
51 5 0.05
52 47 0.51
53 35 0.38
54 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (53 bp):
ATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAATCACATATCAC
Found at i:52472540 original size:46 final size:46
Alignment explanation
Indices: 52472390--52472598 Score: 182
Period size: 46 Copynumber: 4.5 Consensus size: 46
52472380 ATTGTGAGCT
* * *
52472390 AGTGTAAGA-CATGTTTGGGACATGCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GCCTCGA-GATGTA-AGCC
* * * *
52472436 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GCCTCGAGATGTA-AGCC
* *
52472484 AGTGTAAGA-CATATCTGGGACATGCCTCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GCCTCGAGATGTAAGCC
* * *
52472530 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACAAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGCCT-CGAGATGTAAGCC
52472574 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
52472599 GCTTCGGTAC
Statistics
Matches: 138, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
44 11 0.08
45 18 0.13
46 57 0.41
47 27 0.20
48 24 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGCCTCGAGATGTAAGCC
Found at i:52473220 original size:46 final size:46
Alignment explanation
Indices: 52473040--52473219 Score: 152
Period size: 46 Copynumber: 3.9 Consensus size: 46
52473030 ATTGTGTGCT
* * **
52473040 AGTGTAAGACAT-TTCTGGAACATGCATCGACCACATTATGAGAGCC
1 AGTGTAAGACATGTT-TGGGACATGCATCGACTACAAGATGAGAGCC
* ** * *
52473086 AGTATAAGAGCATGTTTGGGACATGGCATCGAC-ATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGACTA-CAAGATGAGAGCC
* * * * *
52473134 AGTGTAGGACATGTTTGGGACATGCCTTAGCCT-CGAGATGTA-AGCC
1 AGTGTAAGACATGTTTGGGACATG-CATCGACTACAAGATG-AGAGCC
52473180 AGTGTAAGACATGTTTGGGACATGCATCGACTACAAGATG
1 AGTGTAAGACATGTTTGGGACATGCATCGACTACAAGATG
52473220 TGTTAGTGTA
Statistics
Matches: 105, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
45 5 0.05
46 46 0.44
47 30 0.29
48 24 0.23
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCGACTACAAGATGAGAGCC
Found at i:52473860 original size:159 final size:160
Alignment explanation
Indices: 52473562--52473876 Score: 497
Period size: 159 Copynumber: 2.0 Consensus size: 160
52473552 CCTACTTTTA
*
52473562 TTTTATGAGCATGATGATGAATGAAAAAGTTGTTGTTATATTTATTTTCATGCAACTTACTAAGC
1 TTTTATGAGCATGATGATGAATGAAAAAGTTGTTGTTATATTTATTTTCAAGCAACTTACTAAGC
52473627 TTTATGCTTACCCCATTTCTTTCCATTTTCTTATAGTGCCACCTAATTAGCTCGTGGATCAACAA
66 TTTATGCTTACCCCATTTCTTTCCATTTTCTTATAGTGCCACCTAATTAGCTCGTGGATCAACAA
*
52473692 ACGTTGGAGGCATCGATCACACTATCTTGG
131 ACGTCGGAGGCATCGATCACACTATCTTGG
* *
52473722 TTTTATGAGCATGATGATGGATGATAAAGTTG-TGTTATATTTATTTTCAAGCAACTTACTAAGC
1 TTTTATGAGCATGATGATGAATGAAAAAGTTGTTGTTATATTTATTTTCAAGCAACTTACTAAGC
* ** ** ** * **
52473786 TTTATGCTTGCCCTGTTTCTTTTTATTTTCTTATAGTGCTGCCTAATTAGCTTGTGGATCAACGG
66 TTTATGCTTACCCCATTTCTTTCCATTTTCTTATAGTGCCACCTAATTAGCTCGTGGATCAACAA
52473851 ACGTCGGAGGCATCGATCACACTATC
131 ACGTCGGAGGCATCGATCACACTATC
52473877 ATTTGAAACA
Statistics
Matches: 141, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
159 111 0.79
160 30 0.21
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (160 bp):
TTTTATGAGCATGATGATGAATGAAAAAGTTGTTGTTATATTTATTTTCAAGCAACTTACTAAGC
TTTATGCTTACCCCATTTCTTTCCATTTTCTTATAGTGCCACCTAATTAGCTCGTGGATCAACAA
ACGTCGGAGGCATCGATCACACTATCTTGG
Found at i:52477566 original size:19 final size:20
Alignment explanation
Indices: 52477535--52477572 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
52477525 GTGGCGTCGA
52477535 CAGAATGGTTTTCGACTTTT
1 CAGAATGGTTTTCGACTTTT
*
52477555 CAGAAT-GTTTTCGGCTTT
1 CAGAATGGTTTTCGACTTT
52477573 CACCAAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (20 bp):
CAGAATGGTTTTCGACTTTT
Found at i:52480625 original size:37 final size:37
Alignment explanation
Indices: 52480575--52480653 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52480565 TTATTACGAA
* * *
52480575 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
52480612 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52480649 GTCTT
1 GTCTT
52480654 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:52480859 original size:47 final size:47
Alignment explanation
Indices: 52480772--52481270 Score: 685
Period size: 47 Copynumber: 10.4 Consensus size: 47
52480762 CCTTTCGGGA
* * * * * * * *
52480772 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
*
52480820 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52480866 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52480913 CATATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52480960 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52481007 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52481054 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52481101 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
52481152 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
52481203 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52481252 CTTATTACATACATACACT
1 CTTATCACATATATACACT
52481271 CTCTTGGCTG
Statistics
Matches: 420, Mismatches: 24, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 270 0.64
48 2 0.00
49 58 0.14
50 1 0.00
51 87 0.21
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52484604 original size:24 final size:25
Alignment explanation
Indices: 52484564--52484613 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
52484554 GGAATTCGCA
52484564 CACACACAAGTGCCTC-TAATCATT
1 CACACACAAGTGCCTCTTAATCATT
*
52484588 CACACACATAGTG-CTCTTATTCATT
1 CACACACA-AGTGCCTCTTAATCATT
52484613 C
1 C
52484614 GTTATTACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (25 bp):
CACACACAAGTGCCTCTTAATCATT
Found at i:52484835 original size:39 final size:39
Alignment explanation
Indices: 52484776--52485007 Score: 181
Period size: 39 Copynumber: 6.0 Consensus size: 39
52484766 CGAATACACG
*
52484776 TCACCAGCATG-ATGCT-TTCGGACCTAGCCCGGACATA
1 TCACCAGCATGAATGCTCTTCGGACTTAGCCCGGACATA
* * ** * *
52484813 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCATGAATGCTCTTC-GGACTTAGCCCGGACATA
* * * *
52484853 TCACTAGCACG-ATGCTCTTCGGAACTTAGCCC-GATACA
1 TCACCAGCATGAATGCTCTTCGG-ACTTAGCCCGGACATA
* * * *
52484891 TCACTAGCATGAATGCTCCTCGGACTTAGCCCGGATACA
1 TCACCAGCATGAATGCTCTTCGGACTTAGCCCGGACATA
* *
52484930 TCA-CAGCATGAATGCTCTTCGGGACTTAGCCCGGATATGG
1 TCACCAGCATGAATGCTCTTC-GGACTTAGCCCGGACAT-A
* * *
52484970 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACAT
1 TCAC-CAGCATGAATGCTCTTC-GGACTTAGCCCGGACAT
52485008 CATTCAAATA
Statistics
Matches: 162, Mismatches: 23, Indels: 17
0.80 0.11 0.08
Matches are distributed among these distances:
37 9 0.06
38 46 0.28
39 53 0.33
40 46 0.28
41 4 0.02
42 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
TCACCAGCATGAATGCTCTTCGGACTTAGCCCGGACATA
Found at i:52484918 original size:38 final size:38
Alignment explanation
Indices: 52484776--52484962 Score: 177
Period size: 38 Copynumber: 4.9 Consensus size: 38
52484766 CGAATACACG
* * *
52484776 TCACCAGCATG-ATGCT-TTCGGACCTAGCCCG-GACA
1 TCACTAGCATGAATGCTCTTCGGACTTAGCCCGATACA
* * ** * *
52484811 TAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 T--CACTAGCATGAATGCTCTTC-GGACTTAGC-CCGATACA
*
52484853 TCACTAGCACG-ATGCTCTTCGGAACTTAGCCCGATACA
1 TCACTAGCATGAATGCTCTTCGG-ACTTAGCCCGATACA
*
52484891 TCACTAGCATGAATGCTCCTCGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGACTTAGCCC-GATACA
52484930 TCAC-AGCATGAATGCTCTTCGGGACTTAGCCCG
1 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCG
52484963 GATATGGTCA
Statistics
Matches: 126, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
35 1 0.01
37 9 0.07
38 48 0.38
39 48 0.38
40 15 0.12
41 2 0.02
42 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (38 bp):
TCACTAGCATGAATGCTCTTCGGACTTAGCCCGATACA
Found at i:52498441 original size:85 final size:85
Alignment explanation
Indices: 52498285--52498446 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
52498275 ACCACCACTG
* *
52498285 ATTTACAGTTACTGCTACTTGTTGTAGGTGCACAACATATTTGCAAATTAAACAAACTACTACTA
1 ATTTACAGTTACTGCCACTTGTTGTAGGTGCACAACATATTTGCAAATTAAAAAAACTACTACTA
* *
52498350 GGTTCATGATCGTACAATAT
66 GATTCATAATCGTACAATAT
* * * * *
52498370 ATTTGCAGTTACTGCCACTTGTTGT-GAGTGTACAACGTATTTGCAGATTAAAAAAATTGAC-AC
1 ATTTACAGTTACTGCCACTTGTTGTAG-GTGCACAACATATTTGCAAATTAAAAAAACT-ACTAC
*
52498433 TTGATTCATAATCG
64 TAGATTCATAATCG
52498447 AACCACATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.95
86 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (85 bp):
ATTTACAGTTACTGCCACTTGTTGTAGGTGCACAACATATTTGCAAATTAAAAAAACTACTACTA
GATTCATAATCGTACAATAT
Found at i:52499628 original size:63 final size:65
Alignment explanation
Indices: 52499495--52499662 Score: 157
Period size: 63 Copynumber: 2.6 Consensus size: 65
52499485 CAGGAGTCAA
* * * * * * **
52499495 ACGGGTAAAACACACGGGCGTGTGTTTAGGTCGTGTAACTCATTGAGTTTGTATTAGAGGCACAT
1 ACGGGTGAGACACACGGGCGTGTGTCTAAGCCGTGTAACTCATTGAGCTCCTATTAGAGGCACAT
*
52499560 A--GGTGAGACACACGGGTGTGTGTCTAAGCCGTGTAACTC-TCTGAGCTCCTATTAGA-G-ACA
1 ACGGGTGAGACACACGGGCGTGTGTCTAAGCCGTGTAACTCAT-TGAGCTCCTATTAGAGGCACA
52499620 T
65 T
* * * * * *
52499621 ACGGGTGAGAAACATGAGCGTGTGTCCAAGCTGTGTGACTCA
1 ACGGGTGAGACACACGGGCGTGTGTCTAAGCCGTGTAACTCA
52499663 CTAAGTTTAC
Statistics
Matches: 83, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
61 5 0.06
62 2 0.02
63 75 0.90
65 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (65 bp):
ACGGGTGAGACACACGGGCGTGTGTCTAAGCCGTGTAACTCATTGAGCTCCTATTAGAGGCACAT
Found at i:52506735 original size:40 final size:40
Alignment explanation
Indices: 52506684--52507076 Score: 592
Period size: 40 Copynumber: 9.8 Consensus size: 40
52506674 ATTTGAATTT
* * * *
52506684 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
52506724 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
52506764 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
52506804 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
52506844 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
52506884 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
52506924 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATA
* *
52506966 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
* *
52507006 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
* * *
52507046 T-GCTCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATC-CGGGCTAAGACCCGAAGGCATTTGTGC
52507077 TTGTGGTAAT
Statistics
Matches: 333, Mismatches: 16, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
39 1 0.00
40 292 0.88
41 3 0.01
42 37 0.11
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
Found at i:52515542 original size:40 final size:40
Alignment explanation
Indices: 52515459--52515852 Score: 576
Period size: 40 Copynumber: 9.8 Consensus size: 40
52515449 ATTTGAATTT
* * * *
52515459 TATCCGGGCTAAGTCCCG-AGGCAATTGTGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGA-TA
* *
52515498 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
52515538 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
52515578 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG--ATA
52515620 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
52515660 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
52515700 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG--ATA
* * *
52515742 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
* * *
52515782 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
** * * *
52515822 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGC
52515853 TTGTGGTAAT
Statistics
Matches: 331, Mismatches: 18, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
39 17 0.05
40 234 0.71
41 3 0.01
42 77 0.23
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
Found at i:52515657 original size:82 final size:80
Alignment explanation
Indices: 52515459--52515852 Score: 585
Period size: 82 Copynumber: 4.9 Consensus size: 80
52515449 ATTTGAATTT
* * * *
52515459 TATCCGGGCTAAGTCCCG-AGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCA
52515522 TTTGTGCAAGTTGATA
65 TTTGTGCAAGTTGATA
*
52515538 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCAT
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
*
52515603 TTGTGCGAGTTGATATA
66 TTGTGCAAGTTG--ATA
*
52515620 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCAT
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
*
52515685 TTGTGCGAGTTGATA
66 TTGTGCAAGTTGATA
52515700 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG--ATATATCCGGGCTAAGACCCGAAGGC
*
52515765 AATTGTGCAAGTTGATA
64 ATTTGTGCAAGTTGATA
* * * ** * *
52515782 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATGCCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
52515847 TTGTGC
66 TTGTGC
52515853 TTGTGGTAAT
Statistics
Matches: 294, Mismatches: 15, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
79 17 0.06
80 119 0.40
81 3 0.01
82 155 0.53
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAGTTGATA
Found at i:52515715 original size:122 final size:122
Alignment explanation
Indices: 52515459--52515852 Score: 632
Period size: 122 Copynumber: 3.3 Consensus size: 122
52515449 ATTTGAATTT
* * *
52515459 TATCCGGGCTAAGTCCCG-AGGCAATTGTGCTAG-TGAT-TTTATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGCAGGCAATTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
52515521 ATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
66 ATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
* *
52515578 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGCAGGC
1 TATCCGGGCTAAGACCCGCAGGCAATTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
*
52515643 ATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
66 ATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
*
52515700 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
1 TATCCGGGCTAAGACCCGCAGGCAATTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
* * * *
52515765 AATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTA
66 ATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
** * *
52515822 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGCAGGCAATTGTGC
52515853 TTGTGGTAAT
Statistics
Matches: 255, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
119 17 0.07
120 13 0.05
121 4 0.02
122 221 0.87
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (122 bp):
TATCCGGGCTAAGACCCGCAGGCAATTGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGGC
ATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
Found at i:52517405 original size:20 final size:19
Alignment explanation
Indices: 52517361--52517405 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
52517351 AAAAGGCCGA
*
52517361 ACACACTTTCCATTTACAC
1 ACACATTTTCCATTTACAC
* *
52517380 ATACATTTTTCATTTACATC
1 ACACATTTTCCATTTACA-C
52517400 ACACAT
1 ACACAT
52517406 GATTTGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (19 bp):
ACACATTTTCCATTTACAC
Found at i:52520332 original size:21 final size:22
Alignment explanation
Indices: 52520282--52520336 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
52520272 TAAAAATGTC
*
52520282 AAATGTTATAAAATTTATTTTAA
1 AAATATTATAAAATTTA-TTTAA
*
52520305 AAA-ATTATAAGATTTA-TTAA
1 AAATATTATAAAATTTATTTAA
52520325 AAATATTA-AAAA
1 AAATATTATAAAA
52520337 CTTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 10 0.36
21 4 0.14
22 11 0.39
23 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AAATATTATAAAATTTATTTAA
Done.