Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 283 of 333
Found at i:93754922 original size:18 final size:18
Alignment explanation
Indices: 93754901--93754935 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93754891 TGGTTATCCA
93754901 GTAACAGTCAATTATTCG
1 GTAACAGTCAATTATTCG
*
93754919 GTAATAGTCAATTATTC
1 GTAACAGTCAATTATTC
93754936 AGAAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
GTAACAGTCAATTATTCG
Found at i:93754942 original size:18 final size:18
Alignment explanation
Indices: 93754906--93754942 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
93754896 ATCCAGTAAC
* *
93754906 AGTCAATTATTCGGTAAT
1 AGTCAATTATTCAGAAAT
93754924 AGTCAATTATTCAGAAAT
1 AGTCAATTATTCAGAAAT
93754942 A
1 A
93754943 ATCAGTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (18 bp):
AGTCAATTATTCAGAAAT
Found at i:93755182 original size:45 final size:45
Alignment explanation
Indices: 93755110--93755218 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 45
93755100 ACAAATCCGA
*
93755110 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
* * *
93755155 AACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
93755200 AACAGTAAC-GATAACAGTA
1 AACAGTAACAG-TAACAGTA
93755219 ACAGTAGTCG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 57 0.98
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
Found at i:93756970 original size:9 final size:9
Alignment explanation
Indices: 93756944--93757004 Score: 54
Period size: 9 Copynumber: 6.8 Consensus size: 9
93756934 GTTAGCTTTG
93756944 TTTT-TTTC
1 TTTTATTTC
93756952 TTTTTCATTTC
1 -TTTT-ATTTC
93756963 TTTTATTTC
1 TTTTATTTC
*
93756972 ATTTATTTC
1 TTTTATTTC
93756981 -TTTATTTC
1 TTTTATTTC
* * *
93756989 ATTTCTTTA
1 TTTTATTTC
93756998 TTTTATT
1 TTTTATT
93757005 ATTAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.18
9 28 0.64
10 4 0.09
11 4 0.09
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTATTTC
Found at i:93756984 original size:17 final size:18
Alignment explanation
Indices: 93756958--93757004 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
93756948 TTTCTTTTTC
93756958 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
93756976 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
93756993 CTTTATTTTATT
1 ATTTCTTTTATT
93757005 ATTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:93756994 original size:13 final size:13
Alignment explanation
Indices: 93756958--93757000 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
93756948 TTTCTTTTTC
* *
93756958 ATTTCTTTTATTT
1 ATTTCATTTCTTT
93756971 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
93756984 ATTTCATTTCTTT
1 ATTTCATTTCTTT
93756997 ATTT
1 ATTT
93757001 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:93757062 original size:22 final size:23
Alignment explanation
Indices: 93757019--93757071 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
93757009 AAATATTAAA
* *
93757019 ATATTTATTATTTATACATGTAT
1 ATATTTATTATATACACATGTAT
93757042 ATATTTATTA-ATACACATGTAT
1 ATATTTATTATATACACATGTAT
93757064 -TCATTTAT
1 AT-ATTTAT
93757072 CACCTTACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 16 0.59
23 10 0.37
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATTTATTATATACACATGTAT
Found at i:93762711 original size:19 final size:19
Alignment explanation
Indices: 93762687--93762732 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
93762677 CTTACTTTCT
93762687 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
93762706 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
93762725 TGTGCATT
1 TTTGCATT
93762733 AAACTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:93767509 original size:44 final size:43
Alignment explanation
Indices: 93767373--93767605 Score: 138
Period size: 44 Copynumber: 5.3 Consensus size: 43
93767363 AGCCTTAATC
*
93767373 CCCTAAGCAGTAGGGCAACAGGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGATCTTATCT
* * * *** * * * *
93767417 CCTTAAGCAGTAGTGGAGCA-GATCGAGGACGGT-GAG-CCTTAACC
1 CCCTAAGCAGTAG-GGAACAGGCT-GA--AAATTACAGATCTTATCT
93767461 CCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGATCTTATCT
* * ** * *
93767505 CCCTAAGCAGTAGTGGAGC-GGATCGAAGACGGT-GAG-CCTTATC-
1 CCCTAAGCAGTAG-GGAACAGGCT-GAA-A-ATTACAGATCTTATCT
* *
93767548 CTCCTAAGCAATAGGGAAACAGGCTGGAAATTACAGATCTTATCT
1 C-CCTAAGCAGTAGGG-AACAGGCTGAAAATTACAGATCTTATCT
93767593 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
93767606 TCGAGCGGAT
Statistics
Matches: 135, Mismatches: 36, Indels: 36
0.65 0.17 0.17
Matches are distributed among these distances:
42 3 0.02
43 15 0.11
44 99 0.73
45 15 0.11
46 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAACAGGCTGAAAATTACAGATCTTATCT
Found at i:93767512 original size:88 final size:88
Alignment explanation
Indices: 93767361--93767700 Score: 461
Period size: 88 Copynumber: 3.9 Consensus size: 88
93767351 AAAAAATTCA
* * * *
93767361 TGAGCCTTAATCCCCTAAGCAGTAGGGCAACAGGCTAAAAATTACAGATCTTATCTCCTTAAGCA
1 TGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCA
*
93767426 GTAGTGGAGCAGATCGAGGACGG
66 GTAGTGGAGCAGATCGAAGACGG
93767449 TGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCA
*
93767514 GTAGTGGAGCGGATCGAAGACGG
66 GTAGTGGAGCAGATCGAAGACGG
* * * *
93767537 TGAGCCTTATCCTCCTAAGCAATAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCA
1 TGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCA
* *
93767602 GTAGTCGAGCGGATCGAAGAC--
66 GTAGTGGAGCAGATCGAAGACGG
* * * ** * * * *
93767623 T-AGCCTTATCCCCTTAAGTAGTAGGGAAATGGGCTGAAGATTACAAATCATATCTCTCTAAGCA
1 TGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCA
*
93767687 GTAGCGGAGCAGAT
66 GTAGTGGAGCAGAT
93767701 TGAAACGAAA
Statistics
Matches: 227, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
85 63 0.28
86 1 0.00
88 163 0.72
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (88 bp):
TGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACGG
Found at i:93770823 original size:24 final size:23
Alignment explanation
Indices: 93770788--93770839 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
93770778 GTCGTTATAT
* * *
93770788 AAAAA-GTTAAAATAGATAATAA
1 AAAAATGTAAAAATAAAAAATAA
93770810 CAAAAATGTAAAAATAAAAAATAA
1 -AAAAATGTAAAAATAAAAAATAA
93770834 AAAAAT
1 AAAAAT
93770840 AACATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (23 bp):
AAAAATGTAAAAATAAAAAATAA
Found at i:93770898 original size:26 final size:26
Alignment explanation
Indices: 93770867--93770927 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
93770857 AAACCAAATT
*
93770867 ATATATATACATATTTAAAATAGATAAA
1 ATATATAT-CA-ATTTAAAATAAATAAA
* * *
93770895 ATATATATGAATTTCAAATAAATAAT
1 ATATATATCAATTTAAAATAAATAAA
93770921 ATATATA
1 ATATATA
93770928 AAAATATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.69
27 1 0.03
28 8 0.28
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (26 bp):
ATATATATCAATTTAAAATAAATAAA
Found at i:93782695 original size:10 final size:10
Alignment explanation
Indices: 93782680--93782710 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
93782670 CTGCTGGAAT
93782680 TGAAGAGAAA
1 TGAAGAGAAA
93782690 TGAAGAGAAA
1 TGAAGAGAAA
93782700 TGAAGAGAAA
1 TGAAGAGAAA
93782710 T
1 T
93782711 CTAGATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (10 bp):
TGAAGAGAAA
Found at i:93790815 original size:43 final size:43
Alignment explanation
Indices: 93790750--93790900 Score: 223
Period size: 43 Copynumber: 3.5 Consensus size: 43
93790740 AATGTGACAT
*
93790750 TCGGGCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATGATA
* *
93790793 TCGGGATTCGAGCCTAGGAGGCTATAATACCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATGATA
* * *
93790836 TCAGGCTTC-AGACCTAGCAGGCTATAATGCCGGCGAGATGATA
1 TCGGGCTTCGAG-CCTAGCAGGCTATAATACCGGTGAGATGATA
*
93790879 TCGGGTTTCGAGCCTAGCAGGC
1 TCGGGCTTCGAGCCTAGCAGGC
93790901 AAAATGCCGA
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.02
43 92 0.96
44 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATACCGGTGAGATGATA
Found at i:93791509 original size:16 final size:18
Alignment explanation
Indices: 93791478--93791510 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
93791468 AACTCGTCAC
93791478 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
93791496 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
93791511 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:93792701 original size:21 final size:21
Alignment explanation
Indices: 93792675--93792716 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
93792665 AAAGAGATGA
93792675 AATTGTCAGCACTTATGTTGT
1 AATTGTCAGCACTTATGTTGT
*
93792696 AATTGTCGGCACTTATGTTGT
1 AATTGTCAGCACTTATGTTGT
93792717 TGACAAGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (21 bp):
AATTGTCAGCACTTATGTTGT
Found at i:93799886 original size:15 final size:15
Alignment explanation
Indices: 93799866--93799901 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
93799856 ACATTTTTTT
93799866 GGTCAAATACTGGTG
1 GGTCAAATACTGGTG
93799881 GGTCAAATACTGGTG
1 GGTCAAATACTGGTG
93799896 GGTCAA
1 GGTCAA
93799902 TGGGGTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (15 bp):
GGTCAAATACTGGTG
Found at i:93800425 original size:18 final size:18
Alignment explanation
Indices: 93800404--93800438 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93800394 ATTAAAAATA
93800404 TTAAAAATAATTTTTATT
1 TTAAAAATAATTTTTATT
93800422 TTAAAAATAATTTTTAT
1 TTAAAAATAATTTTTAT
93800439 ACTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAAAAATAATTTTTATT
Found at i:93800451 original size:20 final size:19
Alignment explanation
Indices: 93800408--93800467 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
93800398 AAAATATTAA
**
93800408 AAATAATTTTTAT-TTTAA
1 AAATAATTTTTATATTTTT
93800426 AAATAATTTTTATACTTTTT
1 AAATAATTTTTATA-TTTTT
* *
93800446 AAATAAGTTTAATAATTTTT
1 AAATAATTTTTAT-ATTTTT
93800466 AA
1 AA
93800468 TTTTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 13 0.37
20 21 0.60
21 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
AAATAATTTTTATATTTTT
Found at i:93800487 original size:18 final size:18
Alignment explanation
Indices: 93800461--93800498 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
93800451 AGTTTAATAA
93800461 TTTTTAA-TTTTAAAATT
1 TTTTTAATTTTTAAAATT
93800478 TTTTTGAATTTTTAAAATT
1 TTTTT-AATTTTTAAAATT
93800497 TT
1 TT
93800499 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 2 0.11
19 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTAATTTTTAAAATT
Found at i:93800637 original size:17 final size:16
Alignment explanation
Indices: 93800596--93800628 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93800586 CATCTATTTT
93800596 AAAAAAATTTAATAAA
1 AAAAAAATTTAATAAA
93800612 AAAACAAATTTAA-AAA
1 AAAA-AAATTTAATAAA
93800628 A
1 A
93800629 CTAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAAAATTTAATAAA
Found at i:93803007 original size:13 final size:13
Alignment explanation
Indices: 93802989--93803015 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93802979 TATAATTGTG
93802989 TGTGTATATATAT
1 TGTGTATATATAT
93803002 TGTGTATATATAT
1 TGTGTATATATAT
93803015 T
1 T
93803016 ATATGCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TGTGTATATATAT
Found at i:93805930 original size:47 final size:49
Alignment explanation
Indices: 93805854--93805982 Score: 148
Period size: 46 Copynumber: 2.8 Consensus size: 49
93805844 AACCCACCCC
*
93805854 TAAGTGAACTCGGACTC-ACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
93805901 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
93805946 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
93805983 TCAACCATCC
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 41 0.59
47 18 0.26
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:93805998 original size:46 final size:44
Alignment explanation
Indices: 93805856--93805998 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
93805846 CCCACCCCTA
93805856 AGTGAACTCGGACTC-ACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
93805902 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
93805948 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
93805994 AGTGA
1 AGTGA
93805999 CATGTCACTT
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 45 0.57
47 19 0.24
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:93807276 original size:37 final size:37
Alignment explanation
Indices: 93807221--93807292 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
93807211 TAAGAGGTGG
*
93807221 AATCGTTAAAATTGCATGAGTCTAATGATCATGAAAC
1 AATCATTAAAATTGCATGAGTCTAATGATCATGAAAC
*
93807258 AATCATTAAAATTGCATGAGTCTAATTATCATGAA
1 AATCATTAAAATTGCATGAGTCTAATGATCATGAA
93807293 GCACAACATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (37 bp):
AATCATTAAAATTGCATGAGTCTAATGATCATGAAAC
Found at i:93808484 original size:56 final size:56
Alignment explanation
Indices: 93808398--93808517 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
93808388 ACAAGGGATG
93808398 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
93808454 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
93808510 ATGGGCAA
1 ATGGGCAA
93808518 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:93809728 original size:40 final size:40
Alignment explanation
Indices: 93809644--93809829 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
93809634 TCGAATGATG
* * * *
93809644 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
93809684 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
93809724 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
93809764 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
93809805 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93809830 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 116 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:93809836 original size:80 final size:79
Alignment explanation
Indices: 93809697--93809862 Score: 210
Period size: 80 Copynumber: 2.1 Consensus size: 79
93809687 GGACTAAGAT
* * **
93809697 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTATGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
93809761 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
93809777 CCGAAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTATGCGAGATACTAAT-ACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
93809841 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
93809856 CCGAAGG
1 CCGAAGG
93809863 TACGTGATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTATGCGAGATACTAATACCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:93812760 original size:27 final size:28
Alignment explanation
Indices: 93812724--93812776 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
93812714 TTTTTAGTTA
*
93812724 AATTTGACCATCAACCTTT-AAAAATTG
1 AATTTAACCATCAACCTTTCAAAAATTG
93812751 AATTTAACCATCAACCTTTCAAAAAT
1 AATTTAACCATCAACCTTTCAAAAAT
93812777 ATTTTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (28 bp):
AATTTAACCATCAACCTTTCAAAAATTG
Found at i:93812952 original size:29 final size:30
Alignment explanation
Indices: 93812888--93812952 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
93812878 AATAGACACA
93812888 CAACTATTCAATTTGTTCTATTTTAATCAT
1 CAACTATTCAATTTGTTCTATTTTAATCAT
* *
93812918 CTAACTATT-AATTTTTTC-ATTTTAGTCACT
1 C-AACTATTCAATTTGTTCTATTTTAATCA-T
93812948 CAACT
1 CAACT
93812953 TTTTCAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 13 0.42
30 11 0.35
31 7 0.23
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.49
Consensus pattern (30 bp):
CAACTATTCAATTTGTTCTATTTTAATCAT
Found at i:93813373 original size:47 final size:47
Alignment explanation
Indices: 93813304--93813394 Score: 164
Period size: 47 Copynumber: 1.9 Consensus size: 47
93813294 GGAAGTTGAA
* *
93813304 AATATCAAATGTCATGGCCTTGACCTGTTATCTCTTTTCAATACTTC
1 AATATCAAATGTCACGGCCTTGACCTGTTATCTCTCTTCAATACTTC
93813351 AATATCAAATGTCACGGCCTTGACCTGTTATCTCTCTTCAATAC
1 AATATCAAATGTCACGGCCTTGACCTGTTATCTCTCTTCAATAC
93813395 CTGAGCTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.37
Consensus pattern (47 bp):
AATATCAAATGTCACGGCCTTGACCTGTTATCTCTCTTCAATACTTC
Found at i:93813709 original size:25 final size:26
Alignment explanation
Indices: 93813681--93813737 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
93813671 ATAAAATACA
93813681 TAAAGTAAATCTAAAT-TA-AAA-ATTT
1 TAAAG-AAA-CTAAATATATAAAGATTT
*
93813706 TAAAGAAAGTAAATATATAAAGATTT
1 TAAAGAAACTAAATATATAAAGATTT
93813732 TAAAGA
1 TAAAGA
93813738 TTTTTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.18
24 5 0.18
25 8 0.29
26 10 0.36
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (26 bp):
TAAAGAAACTAAATATATAAAGATTT
Found at i:93846555 original size:20 final size:21
Alignment explanation
Indices: 93846530--93846571 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
93846520 AATTTATCAA
93846530 TTTAAAAATATTT-TAACTTT
1 TTTAAAAATATTTATAACTTT
93846550 TTTAAAAATATTTATAACTTT
1 TTTAAAAATATTTATAACTTT
93846571 T
1 T
93846572 ACAAATCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAAAAATATTTATAACTTT
Found at i:93846742 original size:23 final size:23
Alignment explanation
Indices: 93846712--93846757 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
93846702 AAACTCGAAT
* *
93846712 TCAAACCACATGGGCAGTGAACA
1 TCAAACCACATGAGCAATGAACA
93846735 TCAAACCACATGAGCAATGAACA
1 TCAAACCACATGAGCAATGAACA
93846758 CCTTGACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.26, G:0.17, T:0.13
Consensus pattern (23 bp):
TCAAACCACATGAGCAATGAACA
Found at i:93849278 original size:18 final size:18
Alignment explanation
Indices: 93849208--93849266 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
93849198 TGGTGATAAC
* * *
93849208 GAAGACGAACAGGAAGTG
1 GAAGACGAAGAAGAAGAG
93849226 GAAGAGCAGAACGAAGAAGAG
1 GAAGA-C-GAA-GAAGAAGAG
93849247 GAAGACGAAGAAGAAGAG
1 GAAGACGAAGAAGAAGAG
93849265 GA
1 GA
93849267 GGAGGAGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 16 0.46
19 4 0.11
20 4 0.11
21 11 0.31
ACGTcount: A:0.51, C:0.08, G:0.39, T:0.02
Consensus pattern (18 bp):
GAAGACGAAGAAGAAGAG
Found at i:93849692 original size:15 final size:15
Alignment explanation
Indices: 93849672--93849701 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93849662 TAAGCCATCA
93849672 TTCCTCCTCTTCTTC
1 TTCCTCCTCTTCTTC
93849687 TTCCTCCTCTTCTTC
1 TTCCTCCTCTTCTTC
93849702 GTCGGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCCTCCTCTTCTTC
Found at i:93850506 original size:19 final size:19
Alignment explanation
Indices: 93850458--93850507 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
93850448 ATTTAAATTT
*
93850458 TTATAAATAAAACTTATAAA
1 TTATAAA-AAAACTTAGAAA
* * *
93850478 TAATATAAAAAGTTAGAAA
1 TTATAAAAAAACTTAGAAA
93850497 TTATAAAAAAA
1 TTATAAAAAAA
93850508 AAAGTTTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
TTATAAAAAAACTTAGAAA
Found at i:93853912 original size:29 final size:28
Alignment explanation
Indices: 93853850--93853914 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
93853840 GGCTATTACA
*
93853850 AATTGTTTTGGATTTTTATAAGTTTCTAT
1 AATT-TTTTGGAGTTTTATAAGTTTCTAT
* *
93853879 GATTTTTTGGAAGTTTTATAA-TTATTTAT
1 AATTTTTTGG-AGTTTTATAAGTT-TCTAT
93853908 AATTTTT
1 AATTTTT
93853915 AATAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (28 bp):
AATTTTTTGGAGTTTTATAAGTTTCTAT
Found at i:93854041 original size:21 final size:21
Alignment explanation
Indices: 93853975--93854050 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 21
93853965 TTTTTTAAAT
93853975 ATTTTTATAA-TTTATTA-GA
1 ATTTTTATAATTTTATTATGA
* *
93853994 ATATTATATAAGTTT-TTAT-A
1 AT-TTTTATAATTTTATTATGA
*
93854014 ATATTTATAATTTTATTATGA
1 ATTTTTATAATTTTATTATGA
93854035 ATTTTTACT-ATTTTAT
1 ATTTTTA-TAATTTTAT
93854051 AAGTTTATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
19 11 0.24
20 17 0.37
21 17 0.37
22 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (21 bp):
ATTTTTATAATTTTATTATGA
Found at i:93854054 original size:48 final size:50
Alignment explanation
Indices: 93853995--93854091 Score: 126
Period size: 48 Copynumber: 2.0 Consensus size: 50
93853985 TTTATTAGAA
* * *
93853995 TATTATATAAGTTTTTATAATA-TTT-ATAATTTTATTATGAATTTTTAC
1 TATTATATAAGTTTATATAAAATTTTAATAATTTTATTATAAATTTTTAC
* * *
93854043 TATTTTATAAGTTTATATAAAATTTTAATATTTTTATTTTAAATTTTTA
1 TATTATATAAGTTTATATAAAATTTTAATAATTTTATTATAAATTTTTA
93854092 AAATTTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 19 0.46
49 3 0.07
50 19 0.46
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (50 bp):
TATTATATAAGTTTATATAAAATTTTAATAATTTTATTATAAATTTTTAC
Found at i:93854068 original size:28 final size:29
Alignment explanation
Indices: 93854012--93854076 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
93854002 TAAGTTTTTA
* * *
93854012 TAATA-TTTATAATTTTATTATGAATTTT
1 TAATATTTTATAAGTTTATTATAAAATTT
*
93854040 TACTATTTTATAAGTTTA-TATAAAATTT
1 TAATATTTTATAAGTTTATTATAAAATTT
93854068 TAATATTTT
1 TAATATTTT
93854077 TATTTTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (29 bp):
TAATATTTTATAAGTTTATTATAAAATTT
Found at i:93854098 original size:50 final size:48
Alignment explanation
Indices: 93853977--93854098 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 48
93853967 TTTTAAATAT
* * *
93853977 TTTTATAATTTATTAGAATATTATATAAGTTTTTATAATATTTATAATTTTA
1 TTTTA-AATTT-TTA-AA-ATTTTATAAGTTTATATAAAATTTATAATTTTA
* * ** *
93854029 TTATGAATTTTTACTATTTTATAAGTTTATATAAAATTTTAATATTTTTA
1 TTTTAAATTTTTAAAATTTTATAAGTTTATATAAAA-TTT-ATAATTTTA
93854079 TTTTAAATTTTTAAAATTTT
1 TTTTAAATTTTTAAAATTTT
93854099 TAATGTTATT
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
48 18 0.32
49 3 0.05
50 27 0.48
51 5 0.09
52 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (48 bp):
TTTTAAATTTTTAAAATTTTATAAGTTTATATAAAATTTATAATTTTA
Found at i:93854313 original size:29 final size:29
Alignment explanation
Indices: 93854278--93854343 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
93854268 TTAATGATAA
93854278 TGGCTCAATTAGGTGCAAATTTAGTGTAG
1 TGGCTCAATTAGGTGCAAATTTAGTGTAG
* *
93854307 -GAGCTCAATTGGGTGCAGATTTAGTGTAG
1 TG-GCTCAATTAGGTGCAAATTTAGTGTAG
93854336 TGGCTCAA
1 TGGCTCAA
93854344 GTGATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 1 0.03
29 31 0.94
30 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (29 bp):
TGGCTCAATTAGGTGCAAATTTAGTGTAG
Found at i:93855931 original size:21 final size:21
Alignment explanation
Indices: 93855891--93855930 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
93855881 AAAAGTTGCA
*
93855891 GGTTAAATTTAGTAAAAAAAG
1 GGTTAAATTTAATAAAAAAAG
93855912 GGTTAAA-TTAATAAAAAAA
1 GGTTAAATTTAATAAAAAAA
93855931 ATATAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (21 bp):
GGTTAAATTTAATAAAAAAAG
Found at i:93863051 original size:54 final size:54
Alignment explanation
Indices: 93862969--93863077 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
93862959 AAACCTCTAC
*
93862969 AGGGGGGTATAAAAGAAAGACAGTAAAATTGTATAATTAAAGTGTAATTATTAT
1 AGGGGGGTATAAAAGAAAGACAGTAAAATTGTATAATTAAAGTGTAATTACTAT
* *
93863023 AGGGGGGTATAAAGGAAAGACAGTAAAATTGTATAATTAAAGTGTGATTACTAT
1 AGGGGGGTATAAAAGAAAGACAGTAAAATTGTATAATTAAAGTGTAATTACTAT
93863077 A
1 A
93863078 TGAACATTCT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.28
Consensus pattern (54 bp):
AGGGGGGTATAAAAGAAAGACAGTAAAATTGTATAATTAAAGTGTAATTACTAT
Found at i:93864289 original size:22 final size:22
Alignment explanation
Indices: 93864259--93864309 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
93864249 GCTGAACACA
93864259 ATTTGTAGGAATATTCTGTAAAT
1 ATTT-TAGGAATATTCTGTAAAT
* *
93864282 ATTTTAGGAATATTTTGTAGAT
1 ATTTTAGGAATATTCTGTAAAT
93864304 AGTTTT
1 A-TTTT
93864310 TTTATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (22 bp):
ATTTTAGGAATATTCTGTAAAT
Found at i:93870006 original size:10 final size:10
Alignment explanation
Indices: 93869991--93870018 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
93869981 GATTAATATG
93869991 AAAAGAAAAA
1 AAAAGAAAAA
93870001 AAAAGAAAAA
1 AAAAGAAAAA
93870011 AAAAGAAA
1 AAAAGAAA
93870019 TCGAGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:93871078 original size:19 final size:19
Alignment explanation
Indices: 93871051--93871087 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
93871041 TTGAGAGAAA
93871051 AGTTAAAAATTTTAACTTT
1 AGTTAAAAATTTTAACTTT
*
93871070 AGTTCAAAATTTTAACTT
1 AGTTAAAAATTTTAACTT
93871088 ATCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (19 bp):
AGTTAAAAATTTTAACTTT
Found at i:93878476 original size:12 final size:11
Alignment explanation
Indices: 93878449--93878480 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
93878439 AACATATCAC
*
93878449 TAAAAAGATTT
1 TAAAAAAATTT
93878460 TAAAAAAATTT
1 TAAAAAAATTT
93878471 TAAAAAAATT
1 TAAAAAAATT
93878481 CATTGTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAAAAATTT
Found at i:93879090 original size:19 final size:19
Alignment explanation
Indices: 93879068--93879116 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
93879058 ATTATTTTAG
*
93879068 TCTTATTTTTTTATTTGTT
1 TCTTATTTTTATATTTGTT
* *
93879087 TCTTGTTTTAATATTTGTT
1 TCTTATTTTTATATTTGTT
93879106 T-TTATGTTTTA
1 TCTTAT-TTTTA
93879117 AATGTATTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.14, C:0.04, G:0.08, T:0.73
Consensus pattern (19 bp):
TCTTATTTTTATATTTGTT
Found at i:93879115 original size:20 final size:19
Alignment explanation
Indices: 93879079--93879117 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
93879069 CTTATTTTTT
93879079 TATTTGTTTCTTGTTTTAA
1 TATTTGTTTCTTGTTTTAA
*
93879098 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTCT-TGTTTTAA
93879118 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (19 bp):
TATTTGTTTCTTGTTTTAA
Found at i:93879140 original size:25 final size:23
Alignment explanation
Indices: 93879098--93879143 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
93879088 CTTGTTTTAA
*
93879098 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
93879121 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
93879144 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:93881912 original size:14 final size:16
Alignment explanation
Indices: 93881895--93881926 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93881885 TTAGAGTATA
93881895 TAAA-TAAAA-ATAAT
1 TAAATTAAAATATAAT
93881909 TAAATTAAAATATAAT
1 TAAATTAAAATATAAT
93881925 TA
1 TA
93881927 CACAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 5 0.31
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATTAAAATATAAT
Found at i:93888148 original size:15 final size:15
Alignment explanation
Indices: 93888091--93888148 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
93888081 CTTTATACTA
*
93888091 TAAAACATTTATTAT
1 TAAAATATTTATTAT
* *
93888106 TAATATATTTATAATTT
1 TAAAATATTTAT--TAT
93888123 TAACGAATATTTATTAT
1 TAA--AATATTTATTAT
93888140 TAAAATATT
1 TAAAATATT
93888149 AGTATTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.47
17 10 0.29
19 8 0.24
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (15 bp):
TAAAATATTTATTAT
Found at i:93888214 original size:16 final size:16
Alignment explanation
Indices: 93888176--93888221 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 16
93888166 TTTATATGTG
*
93888176 ATGAATATTATTTAAA
1 ATGATTATTATTTAAA
93888192 ATGATTATT-TTTAAA
1 ATGATTATTATTTAAA
93888207 AT--TTATTA-TTAAA
1 ATGATTATTATTTAAA
93888220 AT
1 AT
93888222 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 12 0.43
15 8 0.29
16 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (16 bp):
ATGATTATTATTTAAA
Found at i:93888256 original size:16 final size:16
Alignment explanation
Indices: 93888237--93888271 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
93888227 TAAAACATTA
*
93888237 AATAATTTATTAAAAT
1 AATAAATTATTAAAAT
*
93888253 AATAAATTATTAATAT
1 AATAAATTATTAAAAT
93888269 AAT
1 AAT
93888272 TTATTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATTATTAAAAT
Found at i:93888277 original size:16 final size:15
Alignment explanation
Indices: 93888233--93888278 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
93888223 AAATTAAAAC
93888233 ATTAAATAATTTATT
1 ATTAAATAATTTATT
**
93888248 A--AAATAATAAATT
1 ATTAAATAATTTATT
93888261 ATTAATATAATTTATT
1 ATTAA-ATAATTTATT
93888277 AT
1 AT
93888279 ATGATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
13 11 0.46
15 3 0.12
16 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAAATAATTTATT
Found at i:93896098 original size:42 final size:43
Alignment explanation
Indices: 93895998--93896146 Score: 117
Period size: 43 Copynumber: 3.5 Consensus size: 43
93895988 CAATACGGAC
* * * * **
93895998 GTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAATATCGATGCCGAT
* *
93896041 GTCCCAGATAGGGTCTTACACG-AAATCAGATAT-GATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCA-ATATCGATGCCGAT
* * * * *
93896083 GTCTCAGACATGGTCTTATACGTAAATCTCA-ATCGAGGCTTG-T
1 GTCCCAGACATGGTCTTACACGTAAATC-AATATCGATGC-CGAT
*
93896126 GTCCCAGACACGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
93896147 AATGTCTCAG
Statistics
Matches: 83, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
42 32 0.39
43 50 0.60
44 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAATATCGATGCCGAT
Found at i:93902970 original size:182 final size:182
Alignment explanation
Indices: 93902599--93903001 Score: 565
Period size: 182 Copynumber: 2.2 Consensus size: 182
93902589 TTCGACATGA
* * * *
93902599 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCA--GTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTTTCAAC
*
93902664 CATGGTCTTATTCATTTCTCATCATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
64 CATGGTCTTATTCATTTCCCATCATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
** * * *
93902729 TATCACATTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
129 TATCACATTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCATAT
* * *
93902783 TGCCATGGTATTTTTCAACCAGTCTTATTCA-TTTCATGTCACGTTGTCATGGTATCTTTCAACC
1 TGCCATGGTATCTTTCAACCAGTCTTACTCATTTTC-TGTCACGTTGCCATGGTATCTTTCAACC
* * *
93902847 ATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTTAACCATGGTCTTATTCATTTCAT
65 ATGGTCTTATTCATTTCCCATCATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
* * *
93902912 GTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATAT
130 ATCACATTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCATAT
* *
93902965 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTT
1 TGCCATGGTATCTTTCAACCA--GTCTTACTCATTTT
93903002 ATTTCAGAAA
Statistics
Matches: 192, Mismatches: 23, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
181 4 0.02
182 160 0.83
184 25 0.13
185 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (182 bp):
TGCCATGGTATCTTTCAACCAGTCTTACTCATTTTCTGTCACGTTGCCATGGTATCTTTCAACCA
TGGTCTTATTCATTTCCCATCATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATA
TCACATTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCATAT
Found at i:93903000 original size:46 final size:46
Alignment explanation
Indices: 93902594--93902993 Score: 538
Period size: 46 Copynumber: 8.7 Consensus size: 46
93902584 TTATCTTCGA
* * * * *
93902594 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
*
93902640 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTC-TCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT-GT
* *
93902686 CATATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
** * *
93902732 CACATTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
93902778 CATGTTGCCATGGTATTTTTCAACCA--GTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * **
93902822 CACGTTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
93902868 CATGTTGCCATGGTATCTTTTAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* ** *
93902914 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
93902960 CATATTGCCATGGTATCTTTCAACTATGGTCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
93902994 CACATTTTAT
Statistics
Matches: 316, Mismatches: 34, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
44 40 0.13
45 5 0.02
46 270 0.85
47 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:93904906 original size:24 final size:27
Alignment explanation
Indices: 93904877--93904940 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 27
93904867 TTTTTATATA
93904877 CTAATAAAATAATAAAAT-ATA-TTAT
1 CTAATAAAATAATAAAATAATATTTAT
* *
93904902 -TAATATATTAATAAAATAATATTTAT
1 CTAATAAAATAATAAAATAATATTTAT
*
93904928 CTAATTAAATAAT
1 CTAATAAAATAAT
93904941 TATAAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 15 0.48
25 3 0.10
26 4 0.13
27 9 0.29
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (27 bp):
CTAATAAAATAATAAAATAATATTTAT
Found at i:93905224 original size:30 final size:31
Alignment explanation
Indices: 93905158--93905225 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
93905148 CCACCCTTAA
* * *
93905158 AATATTTACACTATTAGTCCTTTAAATTTTT
1 AATATTTACACTATTAGACCTTAAAATTTTG
*
93905189 CATATTTACACT-TTA-ACCTCTAAAATTTTG
1 AATATTTACACTATTAGACCT-TAAAATTTTG
93905219 AATATTT
1 AATATTT
93905226 TCTCTTGTGC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 3 0.10
30 17 0.55
31 11 0.35
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.49
Consensus pattern (31 bp):
AATATTTACACTATTAGACCTTAAAATTTTG
Found at i:93906162 original size:22 final size:22
Alignment explanation
Indices: 93906136--93906180 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
93906126 CACATTGTCG
93906136 CATTATTTACACATGTACTTAC
1 CATTATTTACACATGTACTTAC
93906158 CATTATTTACACATGTACTTAC
1 CATTATTTACACATGTACTTAC
93906180 C
1 C
93906181 TCGATACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.40
Consensus pattern (22 bp):
CATTATTTACACATGTACTTAC
Found at i:93907993 original size:39 final size:39
Alignment explanation
Indices: 93907789--93908011 Score: 180
Period size: 40 Copynumber: 5.6 Consensus size: 39
93907779 TTGAATGCTG
* * * * * * *
93907789 TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
93907829 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * * *
93907868 TTTCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* * *
93907909 TCCGGGTTAAGTCCCGAAGGTATTCGTGCAAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
93907949 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
93907988 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
93908012 TGAACGAAGA
Statistics
Matches: 149, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
39 38 0.26
40 101 0.68
41 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:93915258 original size:80 final size:79
Alignment explanation
Indices: 93915174--93915345 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
93915164 GGACTAAGAT
*
93915174 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGGGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGGGCGAGATACT
* *
93915238 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * * * *
93915254 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGGGCGAGATACTAA
*
93915319 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
93915333 CCGAAGGCATTTG
1 CCGAAGGCATTTG
93915346 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 37 0.48
80 37 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGGGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:93915331 original size:39 final size:40
Alignment explanation
Indices: 93915174--93915343 Score: 191
Period size: 40 Copynumber: 4.3 Consensus size: 40
93915164 GGACTAAGAT
* * * *
93915174 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * * * *
93915214 CCGAAGGCCTTTGGGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTATGTC
* *
93915254 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTATGTC
* * *
93915294 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTATGTC
93915333 CCGAAGGCATT
1 CCGAAGGCATT
93915344 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
39 34 0.30
40 77 0.68
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:93918827 original size:13 final size:14
Alignment explanation
Indices: 93918809--93918842 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
93918799 GCTCAGAAAA
93918809 TCTTGC-AGATCCC
1 TCTTGCGAGATCCC
*
93918822 TCTTGCGGGATCCC
1 TCTTGCGAGATCCC
93918836 TCTTGCG
1 TCTTGCG
93918843 GAAACAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.09, C:0.35, G:0.24, T:0.32
Consensus pattern (14 bp):
TCTTGCGAGATCCC
Found at i:93918833 original size:14 final size:14
Alignment explanation
Indices: 93918816--93918843 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93918806 AAATCTTGCA
93918816 GATCCCTCTTGCGG
1 GATCCCTCTTGCGG
93918830 GATCCCTCTTGCGG
1 GATCCCTCTTGCGG
93918844 AAACAGATTA
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:0.07, C:0.36, G:0.29, T:0.29
Consensus pattern (14 bp):
GATCCCTCTTGCGG
Found at i:93919120 original size:22 final size:22
Alignment explanation
Indices: 93919076--93919120 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
93919066 CATTAGACAT
**
93919076 AGAAGAGTTATTACAAATGCCA
1 AGAAGAGTTATTACAAACACCA
93919098 AGAAGAGTTATTACAAACACCA
1 AGAAGAGTTATTACAAACACCA
93919120 A
1 A
93919121 ATATCCCCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (22 bp):
AGAAGAGTTATTACAAACACCA
Found at i:93927862 original size:47 final size:47
Alignment explanation
Indices: 93927791--93928237 Score: 723
Period size: 47 Copynumber: 9.5 Consensus size: 47
93927781 CCCTTCGGGA
* * * * * *
93927791 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
93927838 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93927885 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93927932 CGTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93927979 CTTATCACATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93928026 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93928073 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93928120 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93928169 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93928216 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
93928238 CGTTAATTTT
Statistics
Matches: 380, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 335 0.88
49 45 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:93927869 original size:25 final size:25
Alignment explanation
Indices: 93927841--93927919 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
93927831 ACTCGGCCCT
93927841 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * **
93927866 ATCACAT-T-GGC-CATTCGGCCCT-
1 ATCACATATATACACTTTC-ACATTC
93927888 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
93927913 ATCACAT
1 ATCACAT
93927920 CGGCCATTCG
Statistics
Matches: 37, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
22 11 0.30
23 4 0.11
24 4 0.11
25 18 0.49
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:93931015 original size:53 final size:53
Alignment explanation
Indices: 93930948--93931062 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 53
93930938 GTTTGTCGAA
* * * *
93930948 TATTGTTACTGTTTC-GAATTTGTTCCGATGAGGTACTTTGTGTACTGTACTGT
1 TATTGTTACCGTTTCAG-ATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGC
*
93931001 TATTGTTACCGTTTCAGATTTGTTCTGATGAGGTACTCTGTGTACCGTACTGC
1 TATTGTTACCGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGC
*
93931054 TACTGTTAC
1 TATTGTTAC
93931063 TGTTACTGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 54 0.98
54 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (53 bp):
TATTGTTACCGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTACTGC
Found at i:93931284 original size:18 final size:18
Alignment explanation
Indices: 93931261--93931334 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
93931251 ATAACCGATC
93931261 AATTGATTGATACTGAAT
1 AATTGATTGATACTGAAT
* *
93931279 AATTGATT-ATTATTGAAA
1 AATTGATTGA-TACTGAAT
* *
93931297 AATTGATTGTTACCGAAT
1 AATTGATTGATACTGAAT
* * *
93931315 AACTGACTGTTACTGAAT
1 AATTGATTGATACTGAAT
93931333 AA
1 AA
93931335 ATAATTATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
17 1 0.02
18 44 0.98
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (18 bp):
AATTGATTGATACTGAAT
Found at i:93931379 original size:20 final size:20
Alignment explanation
Indices: 93931351--93931404 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
93931341 ATTTTGATTG
93931351 ACTGATTGTTAATGAATATT
1 ACTGATTGTTAATGAATATT
*
93931371 ACTGGTTGTTAATGAATATT
1 ACTGATTGTTAATGAATATT
93931391 ACTGATTGATTAAT
1 ACTGATTG-TTAAT
93931405 TGCTATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (20 bp):
ACTGATTGTTAATGAATATT
Found at i:93932058 original size:12 final size:13
Alignment explanation
Indices: 93932035--93932060 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93932025 GTGTTACATT
93932035 AAATTAAAAAAAC
1 AAATTAAAAAAAC
93932048 AAATTAAAAAAAC
1 AAATTAAAAAAAC
93932061 CTTGGTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATTAAAAAAAC
Found at i:93938852 original size:43 final size:43
Alignment explanation
Indices: 93938804--93938964 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 43
93938794 TGTGATAACA
93938804 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACG
* * * * *
93938847 TGTAAGACCATGTTTGGGATATTGGCATTGCTAAT-CGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGAGATTACG
* * * ** * * *
93938890 TGTAAGACCCTGTCTGGGACAGTGGC-GTCCATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGAGATTACG
* *
93938933 TGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT
93938965 GAGCGTATGT
Statistics
Matches: 91, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
41 1 0.01
42 6 0.07
43 81 0.89
44 3 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACG
Found at i:93940720 original size:25 final size:25
Alignment explanation
Indices: 93940691--93940765 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 25
93940681 ATTCTACCTT
93940691 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
93940716 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
93940738 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
93940763 ATC
1 ATC
93940766 TCATAAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 18
0.63 0.07 0.31
Matches are distributed among these distances:
22 6 0.16
23 11 0.30
24 11 0.30
25 9 0.24
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:93940749 original size:47 final size:47
Alignment explanation
Indices: 93940103--93940765 Score: 872
Period size: 47 Copynumber: 14.1 Consensus size: 47
93940093 TTCCACGTTT
**
93940103 ATCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
93940150 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCAAATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
93940197 ATCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
93940244 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * *
93940291 ATCACATTGGCCATTCGGCCTTATCACATATATACA-CTTC-CATGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA--TTC
93940338 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
93940385 ATCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
* * * * *
93940432 ATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCAC--ACATATGCA-TGTTCACATTC
93940481 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
93940528 ATCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
**
93940575 ATCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * *
93940622 ATCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
**
93940669 ATCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
93940716 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
93940763 ATC
1 ATC
93940766 TCATAAAATC
Statistics
Matches: 542, Mismatches: 60, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
45 2 0.00
46 7 0.01
47 477 0.88
48 7 0.01
49 49 0.09
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:93940844 original size:331 final size:328
Alignment explanation
Indices: 93940150--93940765 Score: 1009
Period size: 331 Copynumber: 1.9 Consensus size: 328
93940140 GTTCACATTC
* *
93940150 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCAAATTCATCACATTGGCCATTCGG
1 ATCACATTAGCCATTCGGCCATATCACACATATGCATGTTCAAATTCATCACATTGGCCATTCGG
*
93940215 CCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGGCCTTATCACACATATGCA
66 CCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGACCTTATCACACATATGCA
*
93940280 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTCCATGTTTATCACAT
131 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACAT
*
93940345 TGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
196 TGGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
* * * ** * * *
93940410 ACATATATACACTTCCACGTTTATCACATTGGCCATTCGGCCTTATCACATATATATACACTTCC
261 ACACATATACACTTCCACATTCATCACATT-GAAAAT--GCCTAATCACATATATATAAACTTCC
93940475 ACGTTT
323 ACGTTT
* * *
93940481 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 ATCACATTAGCCATTCGGCCATATCACACATATGCATGTTCAAATTCATCACATTGGCCATTCGG
*
93940546 CCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCTACCTTATCACACATATGCA
66 CCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGACCTTATCACACATATGCA
93940611 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACAT
131 TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACAT
*
93940676 TGGCCATTCTACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
196 TGGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
* *
93940741 ACACATATGCA-TGTTCACATTCATC
261 ACACATATACACT-TCCACATTCATC
93940766 TCATAAAATC
Statistics
Matches: 273, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
330 1 0.00
331 272 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (328 bp):
ATCACATTAGCCATTCGGCCATATCACACATATGCATGTTCAAATTCATCACATTGGCCATTCGG
CCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCGACCTTATCACACATATGCA
TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACAT
TGGCCATTCGACCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
ACACATATACACTTCCACATTCATCACATTGAAAATGCCTAATCACATATATATAAACTTCCACG
TTT
Found at i:93952240 original size:29 final size:30
Alignment explanation
Indices: 93952208--93952264 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
93952198 ACCATGAATA
* *
93952208 TAATTAAACTAACAA-ATTCAACCAAAAAC
1 TAATGAAACTAACAAGACTCAACCAAAAAC
*
93952237 TAATGACACTAACAAGACTCAACCAAAA
1 TAATGAAACTAACAAGACTCAACCAAAA
93952265 GCAATCTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.56, C:0.23, G:0.04, T:0.18
Consensus pattern (30 bp):
TAATGAAACTAACAAGACTCAACCAAAAAC
Found at i:93964054 original size:43 final size:42
Alignment explanation
Indices: 93964007--93964087 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
93963997 TCTTATAGGT
*
93964007 AATCAAACATCGATG-CCACTATCCCAGACAGGGTCTTACCCAA
1 AATCAAACA-CGATGCCCA-TATCCCAGACAGGATCTTACCCAA
* * *
93964050 AATCAAATACGATGCCCATGTCCCAGACATGATCTTAC
1 AATCAAACACGATGCCCATATCCCAGACAGGATCTTAC
93964088 ACACAAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 22 0.67
43 11 0.33
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.21
Consensus pattern (42 bp):
AATCAAACACGATGCCCATATCCCAGACAGGATCTTACCCAA
Found at i:93966308 original size:25 final size:24
Alignment explanation
Indices: 93966266--93966312 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
93966256 ACTAGCTTTT
93966266 CACAATTTATTTCACATTTCATTA
1 CACAATTTATTTCACATTTCATTA
93966290 CACAATTGTATTATC-CATTTCAT
1 CACAATT-TATT-TCACATTTCAT
93966313 ATTCATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 12 0.57
26 2 0.10
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.45
Consensus pattern (24 bp):
CACAATTTATTTCACATTTCATTA
Found at i:93968225 original size:25 final size:25
Alignment explanation
Indices: 93968197--93968269 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 25
93968187 CCCAATATAT
93968197 GGCTCCTCAGAGCTTTCCGATTAAA
1 GGCTCCTCAGAGCTTTCCGATTAAA
* * *
93968222 GGCTCTTTTATGAGC-TTCCTGATTAAT
1 GGCTC-CTCA-GAGCTTTCC-GATTAAA
*
93968249 GGCT-CTCCAGAGCTTCCCGAT
1 GGCTCCT-CAGAGCTTTCCGAT
93968270 ATTGGCTTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
25 13 0.35
26 10 0.27
27 14 0.38
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (25 bp):
GGCTCCTCAGAGCTTTCCGATTAAA
Found at i:93971159 original size:20 final size:20
Alignment explanation
Indices: 93971121--93971159 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
93971111 TATTCAAACT
*
93971121 ATATTAATTGAATAGTTATA
1 ATATTAATTGAATAATTATA
93971141 ATATTAGATTG-ATAATTAT
1 ATATTA-ATTGAATAATTAT
93971160 GTCTCTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
ATATTAATTGAATAATTATA
Found at i:93974352 original size:40 final size:40
Alignment explanation
Indices: 93974290--93974384 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
93974280 CCATCTCCGA
* * *
93974290 CCAACCCAACACACC-A-TGTGGGGATAGAATCGACCCA-
1 CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
* *
93974327 CCTAACCCTACACGCCAAGTATGGGGATATAATCAACCCAT
1 CC-AACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
93974368 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
93974385 AAGGTACCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
37 2 0.04
38 11 0.23
39 1 0.02
40 32 0.67
41 2 0.04
ACGTcount: A:0.36, C:0.37, G:0.14, T:0.14
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAGAATCAACCCAT
Found at i:93975435 original size:20 final size:21
Alignment explanation
Indices: 93975410--93975450 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
93975400 TTGAATAGAA
93975410 GAAAAACAAA-AAAAAAAAAG
1 GAAAAACAAAGAAAAAAAAAG
* *
93975430 GAAAAAGAAAGAAAAGAAAAG
1 GAAAAACAAAGAAAAAAAAAG
93975451 AATTTCGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (21 bp):
GAAAAACAAAGAAAAAAAAAG
Found at i:93976672 original size:20 final size:20
Alignment explanation
Indices: 93976634--93976674 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
93976624 GATTTTTGTA
*
93976634 TCCTCCATTATAGACAAACT
1 TCCTCCATTATAGAAAAACT
* *
93976654 TCCTCCATTTTGGAAAAACT
1 TCCTCCATTATAGAAAAACT
93976674 T
1 T
93976675 TAAAAGAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (20 bp):
TCCTCCATTATAGAAAAACT
Found at i:93976706 original size:16 final size:16
Alignment explanation
Indices: 93976687--93976743 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
93976677 AAAGAAGACT
93976687 GAAATATAAGAAAGAG
1 GAAATATAAGAAAGAG
* *
93976703 GAAATATGTAA-CAAGACT
1 GAAATA--TAAGAAAGA-G
*
93976721 GAAACATAAGAAAGAG
1 GAAATATAAGAAAGAG
93976737 GAAATAT
1 GAAATAT
93976744 GTAACACCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 15 0.48
17 8 0.26
18 8 0.26
ACGTcount: A:0.58, C:0.05, G:0.21, T:0.16
Consensus pattern (16 bp):
GAAATATAAGAAAGAG
Found at i:93976719 original size:34 final size:34
Alignment explanation
Indices: 93976681--93976749 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
93976671 ACTTTAAAAG
*
93976681 AAGACTGAAATATAAGAAAGAGGAAATATGTAAC
1 AAGACTGAAACATAAGAAAGAGGAAATATGTAAC
93976715 AAGACTGAAACATAAGAAAGAGGAAATATGTAAC
1 AAGACTGAAACATAAGAAAGAGGAAATATGTAAC
93976749 A
1 A
93976750 CCCTATACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.16
Consensus pattern (34 bp):
AAGACTGAAACATAAGAAAGAGGAAATATGTAAC
Found at i:93978811 original size:18 final size:18
Alignment explanation
Indices: 93978788--93978841 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
93978778 AATCGAACAG
*
93978788 GAGACCTTAAGGCAAACT
1 GAGACCTTAGGGCAAACT
93978806 GAGACCTTAGGGCAAACT
1 GAGACCTTAGGGCAAACT
*
93978824 GAAACCTTAGGGCAAACT
1 GAGACCTTAGGGCAAACT
93978842 AACACCTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (18 bp):
GAGACCTTAGGGCAAACT
Found at i:93978848 original size:18 final size:17
Alignment explanation
Indices: 93978791--93978850 Score: 75
Period size: 18 Copynumber: 3.4 Consensus size: 17
93978781 CGAACAGGAG
* *
93978791 ACCTTAAGGCAAACTGAG
1 ACCTTAGGGCAAACT-AA
93978809 ACCTTAGGGCAAACTGAA
1 ACCTTAGGGCAAACT-AA
93978827 ACCTTAGGGCAAACTAA
1 ACCTTAGGGCAAACTAA
93978844 CACCTTA
1 -ACCTTA
93978851 CCACTTGAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
17 2 0.05
18 37 0.95
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (17 bp):
ACCTTAGGGCAAACTAA
Found at i:93979949 original size:22 final size:22
Alignment explanation
Indices: 93979905--93979949 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
93979895 AATAAATTAT
* *
93979905 TTTAAATTAAATTATATTTATA
1 TTTAAATTAAATTATAGTAATA
* *
93979927 TTTAAATTGAATTTTAGTAATA
1 TTTAAATTAAATTATAGTAATA
93979949 T
1 T
93979950 GACAAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTAAATTAAATTATAGTAATA
Found at i:93984294 original size:19 final size:19
Alignment explanation
Indices: 93984263--93984316 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
93984253 TAGATGGAGA
93984263 TATAAACATTTTATTAATAT
1 TATAAA-ATTTTATTAATAT
* *
93984283 TTTAAAATTTTAATAATAT
1 TATAAAATTTTATTAATAT
*
93984302 TAAAAAATATTTATT
1 TATAAAAT-TTTATT
93984317 TTATAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAAAATTTTATTAATAT
Found at i:93984336 original size:34 final size:32
Alignment explanation
Indices: 93984280--93984365 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 32
93984270 ATTTTATTAA
93984280 TATTTTAAAATTTTAATAATATTAAAAAATATT
1 TATTTTAAAATTTTAATAATATTAAAAAAT-TT
* * * *
93984313 TATTTTATAATTTTTATGCATATTAAATAATTTT
1 TATTTTAAAATTTTAAT-AATATTAAA-AAATTT
93984347 AGTGATTTTAAAATTTTAA
1 --T-ATTTTAAAATTTTAA
93984366 AAAAATGGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
33 15 0.36
34 10 0.24
35 3 0.07
36 1 0.02
37 13 0.31
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (32 bp):
TATTTTAAAATTTTAATAATATTAAAAAATTT
Found at i:93999088 original size:20 final size:20
Alignment explanation
Indices: 93999065--93999102 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93999055 AATATCTAAA
* *
93999065 ATAATTTTTTTTATAATTAG
1 ATAATTATTTGTATAATTAG
93999085 ATAATTATTTGTATAATT
1 ATAATTATTTGTATAATT
93999103 TACAATATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
ATAATTATTTGTATAATTAG
Found at i:93999849 original size:21 final size:21
Alignment explanation
Indices: 93999825--93999864 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93999815 AGGTTTATAA
**
93999825 TTTTTAATAGTTTTTTTAAAT
1 TTTTTAATAAATTTTTTAAAT
93999846 TTTTTAATAAATTTTTTAA
1 TTTTTAATAAATTTTTTAA
93999865 TTAAATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTTAATAAATTTTTTAAAT
Found at i:93999869 original size:13 final size:13
Alignment explanation
Indices: 93999840--93999870 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
93999830 AATAGTTTTT
93999840 TTAAATTTTTTAA
1 TTAAATTTTTTAA
93999853 -TAAATTTTTTAA
1 TTAAATTTTTTAA
93999865 TTAAAT
1 TTAAAT
93999871 GAATTAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTAAATTTTTTAA
Found at i:94008126 original size:12 final size:12
Alignment explanation
Indices: 94008109--94008141 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
94008099 GACACACGGG
94008109 CGTGTGACTGGC
1 CGTGTGACTGGC
*
94008121 CGTGTGGCTGGC
1 CGTGTGACTGGC
94008133 CGTGTGACT
1 CGTGTGACT
94008142 TAACCCAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.24, G:0.42, T:0.27
Consensus pattern (12 bp):
CGTGTGACTGGC
Found at i:94009860 original size:19 final size:19
Alignment explanation
Indices: 94009838--94009875 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
94009828 TCTATTCAAG
* *
94009838 AAAATATTAAAATCAAATT
1 AAAATAATAAAATAAAATT
94009857 AAAATAATAAAATAAAATT
1 AAAATAATAAAATAAAATT
94009876 TGCCAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAATAAAATAAAATT
Found at i:94014761 original size:28 final size:28
Alignment explanation
Indices: 94014717--94014773 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
94014707 CTTTGATGAA
*
94014717 AAAGCTGAACGCTTAATTAATTACCAAG
1 AAAGCTGAACGCCTAATTAATTACCAAG
*
94014745 AAAGTTGAACGCCTAATTAATTACCAAG
1 AAAGCTGAACGCCTAATTAATTACCAAG
94014773 A
1 A
94014774 TTTTGTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (28 bp):
AAAGCTGAACGCCTAATTAATTACCAAG
Found at i:94016441 original size:29 final size:30
Alignment explanation
Indices: 94016385--94016441 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
94016375 AGTTACAACC
**
94016385 AACCGTATACATGCCATCATAGGGAAATTT
1 AACCGTATACATGCCATCATAGCAAAATTT
* *
94016415 AACC-TATACATGCCATTATATCAAAAT
1 AACCGTATACATGCCATCATAGCAAAAT
94016442 AAGTTTACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (30 bp):
AACCGTATACATGCCATCATAGCAAAATTT
Found at i:94017565 original size:22 final size:22
Alignment explanation
Indices: 94017509--94017565 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
94017499 TGCACAATTC
*
94017509 ATACCATATTCATTTCAATCAA
1 ATACCATATTCAATTCAATCAA
* * *
94017531 TTTCCATAATCAATTCAAGTCAA
1 ATACCATATTCAATTCAA-TCAA
94017554 ATACC-TATTCAA
1 ATACCATATTCAA
94017566 AATCTTATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (22 bp):
ATACCATATTCAATTCAATCAA
Found at i:94018349 original size:47 final size:47
Alignment explanation
Indices: 94018242--94018369 Score: 130
Period size: 47 Copynumber: 2.7 Consensus size: 47
94018232 AATCGATAAG
* * * * *
94018242 TACCTATACCATGGCCCATAGTCAAGTCAAGGTAACTTATTTAGGAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTAGGAA
* * * * * **
94018289 TACCAATATCATGGCCCGTAGCCAAATCAAGTTAACTCCTCTCTGAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTAGGAA
* *
94018336 TACCTATACCATGGCCCATAACCAAATCACGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
94018370 TTATTCGCAC
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCTAGGAA
Found at i:94019850 original size:25 final size:25
Alignment explanation
Indices: 94019798--94019886 Score: 78
Period size: 25 Copynumber: 3.7 Consensus size: 25
94019788 CACTTTGTCA
* **
94019798 AGCCATATAACAGGATGCTCATGTG
1 AGCCATATAACAGGAAGCTCATCCG
*
94019823 AGCCATATAACAGGAAGCTTATCCG
1 AGCCATATAACAGGAAGCTCATCCG
**
94019848 AG-C-TA-AATCAGGAAGCTCATAAG
1 AGCCATATAA-CAGGAAGCTCATCCG
*
94019871 AGCCATA-AATAGGAAG
1 AGCCATATAACAGGAAG
94019887 TTCACAAAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
22 2 0.04
23 16 0.30
24 8 0.15
25 27 0.51
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.19
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATCCG
Found at i:94019949 original size:26 final size:26
Alignment explanation
Indices: 94019882--94019949 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
94019872 GCCATAAATA
* * * *
94019882 GGAAGTTCACAAAGAAATTTTAATCG
1 GGAAGCTCACAAAGAGACTTTAAACG
*
94019908 GGAAGCTCACAAAGAGCCTTTAAACG
1 GGAAGCTCACAAAGAGACTTTAAACG
94019934 GGAAGCTCACAAAGAG
1 GGAAGCTCACAAAGAG
94019950 TCATATAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGACTTTAAACG
Found at i:94023959 original size:21 final size:23
Alignment explanation
Indices: 94023934--94023980 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
94023924 TCTTGTTAAT
94023934 TTTGTT-A-TTATTTTAAAGGCA
1 TTTGTTAATTTATTTTAAAGGCA
* *
94023955 TTTGTTAATTTTTTTTAGAGGCA
1 TTTGTTAATTTATTTTAAAGGCA
94023978 TTT
1 TTT
94023981 TACTTGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 1 0.05
23 15 0.68
ACGTcount: A:0.23, C:0.04, G:0.15, T:0.57
Consensus pattern (23 bp):
TTTGTTAATTTATTTTAAAGGCA
Found at i:94034159 original size:25 final size:25
Alignment explanation
Indices: 94034130--94034188 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
94034120 TCTTATCTCA
* * **
94034130 ATTTTACTCCAATAAAGTTTTGATT
1 ATTTTACCCCAATAAAATTTTGACG
*
94034155 ATTTTTCCCCAATAAAATTTTGACG
1 ATTTTACCCCAATAAAATTTTGACG
94034180 ATTTTACCC
1 ATTTTACCC
94034189 TTGGTAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.44
Consensus pattern (25 bp):
ATTTTACCCCAATAAAATTTTGACG
Found at i:94038129 original size:34 final size:34
Alignment explanation
Indices: 94038086--94038176 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
94038076 TTTAATACAG
* *
94038086 TACTGAAATGGGCTAAGGCCCAGACTGCCCCTGT
1 TACTGAAATGGGCTAAGGCCCAGACTGACACTGT
** * *
94038120 TACTGAAATGGGCCCAGGCCCAGATTGATACTGT
1 TACTGAAATGGGCTAAGGCCCAGACTGACACTGT
*
94038154 TACTGAAAAAGGTGCTAAGGCCC
1 TACTG-AAATGG-GCTAAGGCCC
94038177 TAACTGGAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
34 33 0.72
35 5 0.11
36 8 0.17
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.21
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACTGACACTGT
Found at i:94049612 original size:42 final size:42
Alignment explanation
Indices: 94049561--94049806 Score: 327
Period size: 42 Copynumber: 5.9 Consensus size: 42
94049551 GTTTACAAAC
* *
94049561 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
94049603 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
94049645 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
* * *
94049687 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * ***
94049729 AAAAACGCCGCTAAAGAACATGTTCTTTAGTGGC-ATT-TTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
94049769 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
94049807 TTATACAAAA
Statistics
Matches: 182, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
40 32 0.18
41 7 0.04
42 140 0.77
43 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:94049712 original size:126 final size:126
Alignment explanation
Indices: 94049559--94049825 Score: 378
Period size: 126 Copynumber: 2.1 Consensus size: 126
94049549 GCGTTTACAA
** *
94049559 ACAAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCAT
1 ACAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAT
* *
94049624 GTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTA-
66 GTTCTTTAGCGGC-ATT-GAAAAAAACGCCGCAAAAGAACATGTTCTTTAGCGGCGCTTT-TAT
*
94049686 A-AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAT
1 ACAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAT
* *** * *
94049750 GTTCTTTAGTGGCATTTTTACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTAT
66 GTTCTTTAGCGGCATTGAAAAAAACGCCGCAAAAGAACATGTTCTTTAGCGGCGCTTTTAT
94049811 ACAAAAACGCCACTA
1 ACAAAAACGCCACTA
94049826 TTTTTGGGAT
Statistics
Matches: 124, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
124 34 0.27
125 6 0.05
126 83 0.67
127 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (126 bp):
ACAAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAT
GTTCTTTAGCGGCATTGAAAAAAACGCCGCAAAAGAACATGTTCTTTAGCGGCGCTTTTAT
Found at i:94049898 original size:14 final size:14
Alignment explanation
Indices: 94049875--94049908 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
94049865 GCCCTCCTGT
*
94049875 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
94049889 AGCAACATTTCAAA
1 AGCAACATTTCAAA
94049903 AGCAAC
1 AGCAAC
94049909 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:94050181 original size:21 final size:21
Alignment explanation
Indices: 94050134--94050189 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
94050124 TTGCTCTGCT
* * *
94050134 CTGCTTCTCTTGCTGCAGTCT
1 CTGCTTCCCTCGCTGCAGTCG
*
94050155 CCGCTTCCCTCGCTGCAGTCG
1 CTGCTTCCCTCGCTGCAGTCG
94050176 CTGCTTCCCTCGCT
1 CTGCTTCCCTCGCT
94050190 TCCGCCTCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.04, C:0.43, G:0.20, T:0.34
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCAGTCG
Found at i:94051305 original size:18 final size:18
Alignment explanation
Indices: 94051282--94051420 Score: 65
Period size: 18 Copynumber: 8.0 Consensus size: 18
94051272 AATTGCAATG
94051282 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
94051300 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
94051318 GTAAGTTAAATGTAAG-T-T
1 GTAAGTT--ATGTAAGTTAT
*
94051336 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
94051355 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
94051373 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
94051387 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
94051405 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
94051421 TATGTATTGT
Statistics
Matches: 97, Mismatches: 3, Indels: 44
0.67 0.02 0.31
Matches are distributed among these distances:
14 6 0.06
15 5 0.05
16 10 0.10
17 7 0.07
18 56 0.58
19 9 0.09
20 4 0.04
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:94051330 original size:11 final size:9
Alignment explanation
Indices: 94051282--94051420 Score: 65
Period size: 7 Copynumber: 16.0 Consensus size: 9
94051272 AATTGCAATG
94051282 GTAAGTTAT
1 GTAAGTTAT
94051291 GTAAGTTAT
1 GTAAGTTAT
94051300 GTAAGTTAAAT
1 GTAAGTT--AT
94051311 GT-A-TTAT
1 GTAAGTTAT
94051318 GTAAGTTAAAT
1 GTAAGTT--AT
94051329 GTAAG-T-T
1 GTAAGTTAT
94051336 GTAAGTTAT
1 GTAAGTTAT
*
94051345 -TATGTATTAT
1 GTAAG--TTAT
94051355 GTAAG-T-T
1 GTAAGTTAT
94051362 GTAAGTTAAAT
1 GTAAGTT--AT
*
94051373 GT-A-TTGT
1 GTAAGTTAT
94051380 GTAAG-T-T
1 GTAAGTTAT
94051387 GTAAGTTAAAT
1 GTAAGTT--AT
94051398 GT-A-TTAT
1 GTAAGTTAT
94051405 GTAAG-T-T
1 GTAAGTTAT
94051412 GTAAGTTAT
1 GTAAGTTAT
94051421 TATGTATTGT
Statistics
Matches: 102, Mismatches: 3, Indels: 50
0.66 0.02 0.32
Matches are distributed among these distances:
7 35 0.34
8 13 0.13
9 26 0.25
10 8 0.08
11 20 0.20
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:94051361 original size:26 final size:26
Alignment explanation
Indices: 94051327--94051706 Score: 518
Period size: 26 Copynumber: 15.1 Consensus size: 26
94051317 TGTAAGTTAA
94051327 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
94051353 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
94051378 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
94051403 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
94051429 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
94051454 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
94051480 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
94051506 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
94051532 ATGTAAGTTGTAAGTTATTGTGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
94051558 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
94051583 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
94051601 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
94051626 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
94051652 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
94051679 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
94051705 AT
1 AT
94051707 TTAATAAAAT
Statistics
Matches: 317, Mismatches: 24, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.04
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 112 0.35
26 161 0.51
27 15 0.05
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:94051423 original size:19 final size:19
Alignment explanation
Indices: 94051399--94051702 Score: 95
Period size: 19 Copynumber: 16.5 Consensus size: 19
94051389 AAGTTAAATG
94051399 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
94051418 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * * *
94051433 AAGT-TGCAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
94051449 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
94051469 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
* *
94051487 ---T-TGTAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
*
94051501 GTATTGTGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
94051521 TATTATGT-ATTATGTAAGT
1 TATTATGTAAGT-TGTAAGT
* * *
94051540 T-GTAAGTTA-TTGT--G-
1 TATTATGTAAGTTGTAAGT
*
94051554 TATTGTGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
* * *
94051573 TAAATGTAT-TATGTCAGTCAAAT
1 T--AT-TATGTAAGT-TGT-AAGT
94051596 GTATTATGTAAGTTGTAAGTTAAAT
1 -TATTATGTAAGTTGTAAG-----T
94051621 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
94051641 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
94051659 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
94051674 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
94051694 TATTATGTA
1 TATTATGTA
94051703 TTATTTAATA
Statistics
Matches: 208, Mismatches: 33, Indels: 88
0.63 0.10 0.27
Matches are distributed among these distances:
14 13 0.06
15 15 0.07
16 11 0.05
17 10 0.05
18 28 0.13
19 74 0.36
20 12 0.06
21 11 0.05
22 10 0.05
23 3 0.01
24 1 0.00
25 20 0.10
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:94051630 original size:18 final size:18
Alignment explanation
Indices: 94051566--94051687 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
94051556 TTGTGTAAGT
94051566 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
94051584 TGTCAGTCAAATGTATTATGTAA
1 TGTAAGTTAAATG---TAT-T-A
94051607 GTTGTAAGTTAAATGTATTA
1 --TGTAAGTTAAATGTATTA
*
94051627 TGTAAGTTGTAA-GTTATTA
1 TGTAAGTT-AAATG-TATTA
*
94051646 TGT-A-TT--ATGTAAGTAA
1 TGTAAGTTAAATGT-A-TTA
94051662 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
94051680 TGTAAGTT
1 TGTAAGTT
94051688 GTAAGTTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 32
0.68 0.06 0.27
Matches are distributed among these distances:
14 2 0.02
15 2 0.02
16 5 0.06
17 3 0.04
18 33 0.41
19 11 0.14
20 5 0.06
21 4 0.05
22 4 0.05
23 1 0.01
25 11 0.14
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:94051676 original size:53 final size:51
Alignment explanation
Indices: 94051327--94051706 Score: 528
Period size: 51 Copynumber: 7.5 Consensus size: 51
94051317 TGTAAGTTAA
94051327 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATT
* * *
94051378 GTGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
* * * *
94051429 GTGTAAGTTGCAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
* *
94051480 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
* *
94051532 ATGTAAGTTGTAAGTTATTGTGTATTGTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATT
* *
94051583 ATGTCA---GTCA---A--ATGTATTATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATT
94051626 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGT--TGTAAGTTAAATGTATT
94051679 ATGTAAGTTGTAAGTTATTATGTATTAT
1 ATGTAAGTTGTAAGTTATTATGTATTAT
94051707 TTAATAAAAT
Statistics
Matches: 301, Mismatches: 16, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
43 35 0.12
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.08
51 115 0.38
52 74 0.25
53 45 0.15
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.47
Consensus pattern (51 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATT
Found at i:94051900 original size:74 final size:74
Alignment explanation
Indices: 94051743--94051890 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
94051733 ACATTACTAA
94051743 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
94051808 TATTTTTTT
66 TATTTTTTT
94051817 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
94051882 TATTTTTTT
66 TATTTTTTT
94051891 ATATTTTATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (74 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTTT
Found at i:94052058 original size:13 final size:13
Alignment explanation
Indices: 94052040--94052110 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
94052030 ATTTATAATT
94052040 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
94052053 ATTTAAGTAACAT
1 ATTTAAGTAATAA
94052066 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
94052079 ATTTAAGTAACAT
1 ATTTAAGTAATAA
94052092 ATTTAAGTAATAA
1 ATTTAAGTAATAA
94052105 ATTTAA
1 ATTTAA
94052111 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Done.