Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 62 of 276
Found at i:19290082 original size:88 final size:91
Alignment explanation
Indices: 19289989--19290178 Score: 215
Period size: 92 Copynumber: 2.1 Consensus size: 91
19289979 AATAATGGTA
* * * * **
19289989 GTGGAGCCATAGAGAATGGCACCACCATTTTAATGT-A-AGTTTTTCTTTTTA-GTTTTTTAATT
1 GTGGAGCCATAGAGAATGACACCACCAGTGTAATGTGACAGGTTTTCTTTAAAGGTTTTTTAATT
19290051 TAAAAATAAAAATAATATTTTATTTG
66 TAAAAATAAAAATAATATTTTATTTG
* * ** * *
19290077 GTGGAGACATAGATAATGATGCCACTAGTGTCATGTGACAGGTTTTCTTTAAAGTGTTTTTTAAT
1 GTGGAGCCATAGAGAATGACACCACCAGTGTAATGTGACAGGTTTTCTTTAAAG-GTTTTTTAAT
* * *
19290142 TTAAAATTAAAATTGATATTTTATTTG
65 TTAAAAATAAAAATAATATTTTATTTG
19290169 GTGGAGCCAT
1 GTGGAGCCAT
19290179 TCTCTTTGGC
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
88 27 0.33
89 1 0.01
90 11 0.13
92 43 0.52
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (91 bp):
GTGGAGCCATAGAGAATGACACCACCAGTGTAATGTGACAGGTTTTCTTTAAAGGTTTTTTAATT
TAAAAATAAAAATAATATTTTATTTG
Found at i:19292384 original size:19 final size:18
Alignment explanation
Indices: 19292356--19292391 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
19292346 ACACGGTCAT
*
19292356 ATGGTCAGGCTGTGTGGA
1 ATGGTCAGGCTATGTGGA
19292374 ATGGATCAGGCTATGTGG
1 ATGG-TCAGGCTATGTGG
19292392 GTTGCATGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.19, C:0.11, G:0.42, T:0.28
Consensus pattern (18 bp):
ATGGTCAGGCTATGTGGA
Found at i:19293637 original size:89 final size:89
Alignment explanation
Indices: 19293470--19293645 Score: 203
Period size: 89 Copynumber: 2.0 Consensus size: 89
19293460 TGCAGAAGAC
* * * * * *
19293470 CGCGGTATAGATATGCAGTATAAATTACCATATCAGATATATTACGCAACGAAGCTAGCGTATAA
1 CGCGGTACAGATATGCAGTATAAACTACCAGATCAGATATATTACGCAACGAAGCTAACGAACAA
**
19293535 GCTGTATCGTGCAATGCGGTAAAT
66 GCTGTATAATGCAATGCGGTAAAT
* * * *
19293559 CGCGGTACAGATATGCAGTATAAACTACCAGATCAGTTATATTACGTAGCGTAGCTAACGAACAT
1 CGCGGTACAGATATGCAGTATAAACTACCAGATCAGATATATTACGCAACGAAGCTAACGAACA-
*
19293624 A-C-GATATAATGCAATGTGGTAA
65 AGCTG-TATAATGCAATGCGGTAA
19293646 TCTGCTATAT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.01
89 70 0.97
90 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (89 bp):
CGCGGTACAGATATGCAGTATAAACTACCAGATCAGATATATTACGCAACGAAGCTAACGAACAA
GCTGTATAATGCAATGCGGTAAAT
Found at i:19294933 original size:30 final size:30
Alignment explanation
Indices: 19294878--19294935 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
19294868 CACGGCCACG
*
19294878 ACACACGGGCATGTGGTCTATCCGTGTGTC
1 ACACACGGGCATGTGGTCTACCCGTGTGTC
19294908 ACACACGGGCATGTGGAT-TACCCGTGTG
1 ACACACGGGCATGTGG-TCTACCCGTGTG
19294936 GAAGTGCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (30 bp):
ACACACGGGCATGTGGTCTACCCGTGTGTC
Found at i:19296781 original size:6 final size:6
Alignment explanation
Indices: 19296772--19296801 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
19296762 AAGAAAATTT
19296772 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
19296802 TAGTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:19300186 original size:124 final size:124
Alignment explanation
Indices: 19299966--19300210 Score: 454
Period size: 124 Copynumber: 2.0 Consensus size: 124
19299956 AAATCAATTG
* *
19299966 GGAATATAAATTTATTGATTTTGACAAGTACATCTTCAATGATACCCCTAGGAAATCTAATGGTT
1 GGAATATAAACTTATCGATTTTGACAAGTACATCTTCAATGATACCCCTAGGAAATCTAATGGTT
*
19300031 TTATCTGCTAACTGAATACTCATCCTAGTTTGTTTGGGTTTCCTAAGACCTAGTTGATT
66 TTATCTGCTAACTGAATACTCATCCTAGTTTGTTTGGGTTTCCCAAGACCTAGTTGATT
19300090 GGAATATAAACTTATCGATTTTGACAAGTACATCTTCAATGATACCCCTAGGAAATCTAATGGTT
1 GGAATATAAACTTATCGATTTTGACAAGTACATCTTCAATGATACCCCTAGGAAATCTAATGGTT
*
19300155 TTATCTGCTAACTGAATGCTCATCCTAGTTTGTTTGGGTTTCCCAAGACCTAGTTG
66 TTATCTGCTAACTGAATACTCATCCTAGTTTGTTTGGGTTTCCCAAGACCTAGTTG
19300211 TTTAAACATT
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 117 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (124 bp):
GGAATATAAACTTATCGATTTTGACAAGTACATCTTCAATGATACCCCTAGGAAATCTAATGGTT
TTATCTGCTAACTGAATACTCATCCTAGTTTGTTTGGGTTTCCCAAGACCTAGTTGATT
Found at i:19305608 original size:23 final size:21
Alignment explanation
Indices: 19305556--19305614 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
19305546 CACATAAAGC
* *
19305556 GCCTAAAAGGACACAAGAGGT
1 GCCTAATACGACACAAGAGGT
* *
19305577 GCCTGATACGACACACGAGGT
1 GCCTAATACGACACAAGAGGT
19305598 GCCTAAAATACGACACA
1 GCCT--AATACGACACA
19305615 TAAAGTCCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 21 0.68
23 10 0.32
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.12
Consensus pattern (21 bp):
GCCTAATACGACACAAGAGGT
Found at i:19306023 original size:15 final size:14
Alignment explanation
Indices: 19305999--19306038 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
19305989 TATATATTAT
19305999 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
19306013 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
19306028 ATAAATTCAAT
1 AT-AATTCAAT
19306039 AAATTCATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:19306399 original size:51 final size:50
Alignment explanation
Indices: 19306323--19306443 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 50
19306313 CCCAAATTTT
* * * *
19306323 CTTCATACTTCATCCGGAATTATTACTTTGTTATTCTGGCTTCAACAAGAA
1 CTTCATATTTCATCCGG-ATTATTACTTTATTACTCTAGCTTCAACAAGAA
* * *
19306374 CTTCATATTTCATCCGGATCTATTACTTTATTGCTCTAGTTTCAACAAGAG
1 CTTCATATTTCATCCGGAT-TATTACTTTATTACTCTAGCTTCAACAAGAA
*
19306425 CTTCATATTTCACCCGGAT
1 CTTCATATTTCATCCGGAT
19306444 AACTTAGCTC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 2 0.03
51 59 0.97
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (50 bp):
CTTCATATTTCATCCGGATTATTACTTTATTACTCTAGCTTCAACAAGAA
Found at i:19311620 original size:38 final size:39
Alignment explanation
Indices: 19311519--19311703 Score: 234
Period size: 38 Copynumber: 4.7 Consensus size: 39
19311509 GTGTATCTGT
*
19311519 GGTTAAAGGT-CCGCAGGCTTCGTGCTGGTATTATATTCG
1 GGTTAAA-GTCCCGCAGGCTTCGTGCTGGTATTATATCCG
*
19311558 GGCTTAAAGGT-CCGCAGGCTTCGTGCTAGTATTATATCCG
1 GG-TTAAA-GTCCCGCAGGCTTCGTGCTGGTATTATATCCG
19311598 GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCG
1 GGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATATCCG
* * *
19311636 GGTTAAA-TCCCGCAGGCTTAGTGCTGGTTTTATATTCG
1 GGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATATCCG
* * *
19311674 AGTTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 -GGTTAAAGTCCCGCAGGCTTCGTGCTGGT
19311704 GACTGGATTA
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
37 1 0.01
38 63 0.47
39 13 0.10
40 56 0.42
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (39 bp):
GGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATATCCG
Found at i:19311622 original size:78 final size:78
Alignment explanation
Indices: 19311519--19311703 Score: 234
Period size: 78 Copynumber: 2.4 Consensus size: 78
19311509 GTGTATCTGT
* *
19311519 GGTTAAAGGT-CCGCAGGCTTCGTGCTGGTATTATATTCGGGCTTAAAGGT-CCGCAGGCTTCGT
1 GGTTAAA-GTCCCGCAGGCTTCGTGCTGGTATTATATCCGGG-TTAAA--TCCCGCAGGCTTAGT
19311582 GCTAGTATTATATCCG-
62 GCTAGTATTATATCCGA
*
19311598 GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTG
1 GGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTA
* *
19311662 GTTTTATATTCGA
66 GTATTATATCCGA
* * *
19311675 GTTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 GGTTAAAGTCCCGCAGGCTTCGTGCTGGT
19311704 GACTGGATTA
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
75 1 0.01
76 25 0.27
77 12 0.13
78 49 0.52
79 7 0.07
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (78 bp):
GGTTAAAGTCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTA
GTATTATATCCGA
Found at i:19312726 original size:34 final size:34
Alignment explanation
Indices: 19312678--19312745 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
19312668 AAATGTCTGA
*
19312678 TACTAAAACTGAAATGGGCTAAGGCCCGAACTGC
1 TACTAAAACTGAAATAGGCTAAGGCCCGAACTGC
*
19312712 TACTGAAACTGAAATAGGCTAAGGCCCGAACTGC
1 TACTAAAACTGAAATAGGCTAAGGCCCGAACTGC
19312746 ATTTGACTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (34 bp):
TACTAAAACTGAAATAGGCTAAGGCCCGAACTGC
Found at i:19313133 original size:55 final size:55
Alignment explanation
Indices: 19313056--19313185 Score: 161
Period size: 55 Copynumber: 2.4 Consensus size: 55
19313046 CCCTTAGCCT
* * * * * ** *
19313056 GTGTGCAACACTGACTTTAAGACATGGTCATGATTTACGCCCGTGTGACCTACTC
1 GTGTACAATACTGACTTAAAGACACGGCCATGATACACGCCCGTGTGACCTACCC
* *
19313111 GTGTACAATACTGACTTAAAGACACGGCCATGGTACACGCCCGTGTGGCCTACCC
1 GTGTACAATACTGACTTAAAGACACGGCCATGATACACGCCCGTGTGACCTACCC
*
19313166 GTGCACAATACTGACTTAAA
1 GTGTACAATACTGACTTAAA
19313186 ATTTTAAGTG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (55 bp):
GTGTACAATACTGACTTAAAGACACGGCCATGATACACGCCCGTGTGACCTACCC
Found at i:19314142 original size:94 final size:91
Alignment explanation
Indices: 19313925--19314152 Score: 248
Period size: 94 Copynumber: 2.5 Consensus size: 91
19313915 CAAACATGGG
* * *
19313925 ATAA-GTGGCCGATGCCATGTCCCAGACATGGTTTTATACTAGCTCTCATATATACGTGCTGATG
1 ATAATGTGGCCGATG-CATGTCCCAGACAT-GTCTTATACT-GGTCTCATATATACG-GCCGATG
*
19313989 CATGTCCCGGACATGTCTTACACTAGCACA
62 CATGTCCCAGACATGTCTTACACTAGCACA
* * * * *
19314019 ACT-CT-TAGCCGATGCATGTCCCTGACATGTCTTATACTGGTACTCATCTCTAC-GCCGATGCC
1 A-TAATGTGGCCGATGCATGTCCCAGACATGTCTTATACTGGT-CTCATATATACGGCCGATG-C
*
19314081 ATGTCCCAGACATGGTCTTACACTGGCACTA
63 ATGTCCCAGACAT-GTCTTACACTAGCAC-A
*
19314112 ATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGG
1 ATAATGTGGCCGATGCATGTCCCAGACATGTCTTATACTGG
19314153 CACACAAGAA
Statistics
Matches: 112, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
90 6 0.05
91 15 0.13
92 33 0.29
93 16 0.14
94 41 0.37
95 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (91 bp):
ATAATGTGGCCGATGCATGTCCCAGACATGTCTTATACTGGTCTCATATATACGGCCGATGCATG
TCCCAGACATGTCTTACACTAGCACA
Found at i:19314535 original size:30 final size:30
Alignment explanation
Indices: 19314494--19314551 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19314484 AAATTCACAT
* * *
19314494 CTTTGGTAAAATAACTATTTTGCCCCTAGG
1 CTTTGGCAAAATAACCATTTTACCCCTAGG
*
19314524 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
19314552 TTGTTGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGG
Found at i:19317388 original size:30 final size:30
Alignment explanation
Indices: 19317352--19317408 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
19317342 TTAGTTGATG
19317352 GATTATGGAAGCTTGATGTTGGGTTTATAT
1 GATTATGGAAGCTTGATGTTGGGTTTATAT
19317382 GATTATGGAAGCTTGATGTTGGGTTTA
1 GATTATGGAAGCTTGATGTTGGGTTTA
19317409 CATGTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.04, G:0.32, T:0.42
Consensus pattern (30 bp):
GATTATGGAAGCTTGATGTTGGGTTTATAT
Found at i:19323870 original size:71 final size:71
Alignment explanation
Indices: 19323791--19323940 Score: 248
Period size: 71 Copynumber: 2.1 Consensus size: 71
19323781 CACCCAGCCA
*
19323791 CTCAATCAGATGCGTATGAATGCAGTCAAGTCGTAAAAACTCAC-CTATCCAGCCAACACACCTC
1 CTCAATCAGATGCGTATGAATGCAGTCAAGTAGTAAAAACTCACTC-ATCCAGCCAACACACCTC
19323855 TCCGCCC
65 TCCGCCC
* *
19323862 CTCAATCAGATGTGTATGAGTGCAGTCAAGTAGTAAAAACTCACTCATCCAGCCAACACACCTCT
1 CTCAATCAGATGCGTATGAATGCAGTCAAGTAGTAAAAACTCACTCATCCAGCCAACACACCTCT
19323927 CCGCCC
66 CCGCCC
*
19323933 CTCGATCA
1 CTCAATCA
19323941 CACCCCAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
71 73 0.99
72 1 0.01
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.21
Consensus pattern (71 bp):
CTCAATCAGATGCGTATGAATGCAGTCAAGTAGTAAAAACTCACTCATCCAGCCAACACACCTCT
CCGCCC
Found at i:19327510 original size:11 final size:11
Alignment explanation
Indices: 19327494--19327535 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
19327484 TAGCTATTTA
19327494 TAATAAAATAT
1 TAATAAAATAT
19327505 TAATAAAATAT
1 TAATAAAATAT
*
19327516 CTCATTAAAATAT
1 -T-AATAAAATAT
19327529 TAATAAA
1 TAATAAA
19327536 GTAATCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:19336042 original size:39 final size:39
Alignment explanation
Indices: 19335988--19336077 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
19335978 ACTCAATGAT
* * *
19335988 GAATTATATTCGGACTTAAGGTCCGCAGGCTATATGTTG
1 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGGTG
19336027 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGGTG
1 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGGTG
*
19336066 GAATTACGTCCG
1 GAATTATGTCCG
19336078 AGCTAAAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (39 bp):
GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGGTG
Found at i:19336092 original size:39 final size:39
Alignment explanation
Indices: 19335998--19336096 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 39
19335988 GAATTATATT
* * *
19335998 CGGACTTAAGGTCCGCAGGCTATATGTTGGAATTATGTC
1 CGGACTTAAAGTCCGCAGGCTATATGGTGGAATTACGTC
*
19336037 CGGACTTAAGGTCCGCAGGCTATATGGTGGAATTACGTC
1 CGGACTTAAAGTCCGCAGGCTATATGGTGGAATTACGTC
19336076 C-GAGC-TAAAGTCCCGCAGGCT
1 CGGA-CTTAAAGT-CCGCAGGCT
19336097 TCGAGCTGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
38 7 0.13
39 48 0.87
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGACTTAAAGTCCGCAGGCTATATGGTGGAATTACGTC
Found at i:19352602 original size:12 final size:13
Alignment explanation
Indices: 19352580--19352608 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19352570 AAGCCCATAA
19352580 AAAACCCAAAAAT
1 AAAACCCAAAAAT
19352593 AAAA-CCAAAAAT
1 AAAACCCAAAAAT
19352605 AAAA
1 AAAA
19352609 AATAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.76, C:0.17, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAACCCAAAAAT
Found at i:19356203 original size:14 final size:14
Alignment explanation
Indices: 19356178--19356212 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
19356168 GTAGTCTTAA
19356178 AATAAA-ATAAAAT
1 AATAAATATAAAAT
19356191 AATAAATATAAAAT
1 AATAAATATAAAAT
19356205 AATAAATA
1 AATAAATA
19356213 AAATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAATATAAAAT
Found at i:19366236 original size:14 final size:14
Alignment explanation
Indices: 19366217--19366250 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
19366207 AACTTATAAC
19366217 CATCACCTATATTT
1 CATCACCTATATTT
19366231 CATCACCTATATTT
1 CATCACCTATATTT
19366245 CATCAC
1 CATCAC
19366251 ATACAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (14 bp):
CATCACCTATATTT
Found at i:19370314 original size:27 final size:27
Alignment explanation
Indices: 19370258--19370314 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
19370248 CTAGTAGAAC
**
19370258 TCTGAGCTACACCGATGATCATCAGTT
1 TCTGAGCTACACCGATGATCATCAAAT
* *
19370285 TCTGAGCTACATCGATGGTCATCAAAT
1 TCTGAGCTACACCGATGATCATCAAAT
19370312 TCT
1 TCT
19370315 ACCAAAGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (27 bp):
TCTGAGCTACACCGATGATCATCAAAT
Found at i:19376378 original size:30 final size:32
Alignment explanation
Indices: 19376342--19376409 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
19376332 AGTTTTATTT
* *
19376342 CAGTCACCTAAC-TTCTGAAAAA-TAACAAAA
1 CAGTCACCTAACGTTATAAAAAAGTAACAAAA
*
19376372 CAGTCA-CTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACCTAACGTTATAAAAAAGTAACAAAA
19376403 CAGTCAC
1 CAGTCAC
19376410 TGACTAACAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 5 0.16
30 14 0.44
31 13 0.41
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.19
Consensus pattern (32 bp):
CAGTCACCTAACGTTATAAAAAAGTAACAAAA
Found at i:19376469 original size:21 final size:20
Alignment explanation
Indices: 19376441--19376485 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
19376431 GCCTTAACAG
19376441 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
19376461 AACTAGCTGATGTGGCCAGTT
1 AACT-GCTGATGTGGCAAGTT
19376482 AACT
1 AACT
19376486 TGCCACATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:19377498 original size:15 final size:15
Alignment explanation
Indices: 19377457--19377503 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
19377447 TTTTACAATC
*
19377457 TCTTCTTATTCTACT
1 TCTTCTTATTCTTCT
* *
19377472 GCTGCTTATTCTTCT
1 TCTTCTTATTCTTCT
*
19377487 TCTTCTTCTTCTTCT
1 TCTTCTTATTCTTCT
19377502 TC
1 TC
19377504 CCTGTTCAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.06, C:0.30, G:0.04, T:0.60
Consensus pattern (15 bp):
TCTTCTTATTCTTCT
Found at i:19378807 original size:31 final size:31
Alignment explanation
Indices: 19378769--19378827 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
19378759 TTTTAGGAGG
19378769 ATGAAAGGTCAAGAGTCATTGGTTTATGGCA
1 ATGAAAGGTCAAGAGTCATTGGTTTATGGCA
19378800 ATGAAAGGTCAAGAGTCATTGGTTTATG
1 ATGAAAGGTCAAGAGTCATTGGTTTATG
19378828 ACTTTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (31 bp):
ATGAAAGGTCAAGAGTCATTGGTTTATGGCA
Found at i:19390868 original size:2 final size:2
Alignment explanation
Indices: 19390861--19390888 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19390851 AAGATTTAAA
19390861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19390889 CTTTTTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19392394 original size:7 final size:7
Alignment explanation
Indices: 19392382--19392414 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
19392372 TAAAAATTGA
19392382 AATATTC
1 AATATTC
19392389 AATATTC
1 AATATTC
19392396 AATATTC
1 AATATTC
19392403 AATATTC
1 AATATTC
19392410 AATAT
1 AATAT
19392415 GAAATTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:19405731 original size:17 final size:19
Alignment explanation
Indices: 19405709--19405752 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
19405699 TTGATGTCAC
*
19405709 AAATTAATTAAGAA-TTA-
1 AAATTAATTAAAAATTTAT
*
19405726 AAATTATTTAAAAATTTAT
1 AAATTAATTAAAAATTTAT
19405745 AAATTAAT
1 AAATTAAT
19405753 ATCATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 12 0.55
18 3 0.14
19 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAATTAATTAAAAATTTAT
Found at i:19406530 original size:9 final size:9
Alignment explanation
Indices: 19406511--19406543 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
19406501 TTTGCAGCTG
19406511 AAAAT-AAA
1 AAAATAAAA
19406519 AAAATAAAA
1 AAAATAAAA
19406528 AAAATAAAA
1 AAAATAAAA
19406537 AATAATA
1 AA-AATA
19406544 TATAAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.22
9 14 0.61
10 4 0.17
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (9 bp):
AAAATAAAA
Found at i:19407369 original size:108 final size:108
Alignment explanation
Indices: 19407250--19407681 Score: 828
Period size: 108 Copynumber: 4.0 Consensus size: 108
19407240 ATAGAGAGAG
* * *
19407250 AAAAAATTGAGAGAGATGAACAGTTGGGCTTGTGATGTTTTCTAGAAAAAGATACGATTGAAGAA
1 AAAAAAATGAGAGAGATGAACAGTTGGGTTTGTGATGTTTTCTAGAAAAAGATAAGATTGAAGAA
19407315 CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
66 CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
*
19407358 AAAAAAATGAGAGAGATGAACAGTTGGGTTTGTGATGTTTTCTAGAAAAAGATACGATTGAAGAA
1 AAAAAAATGAGAGAGATGAACAGTTGGGTTTGTGATGTTTTCTAGAAAAAGATAAGATTGAAGAA
19407423 CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
66 CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
19407466 AAAAAAATGAGAGAGATGAACAGTTGGGTTTGTGATGTTTTCTAGAAAAAGATAAGATTGAAGAA
1 AAAAAAATGAGAGAGATGAACAGTTGGGTTTGTGATGTTTTCTAGAAAAAGATAAGATTGAAGAA
19407531 CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
66 CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
19407574 AAAAAAATGAGAGAGATGAACAGTTGGGTTTGTGATGTTTTCTAGAAAAAGATAAGATTGAAGAA
1 AAAAAAATGAGAGAGATGAACAGTTGGGTTTGTGATGTTTTCTAGAAAAAGATAAGATTGAAGAA
19407639 CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
66 CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
19407682 TGGAAGAGAA
Statistics
Matches: 321, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 321 1.00
ACGTcount: A:0.51, C:0.04, G:0.24, T:0.20
Consensus pattern (108 bp):
AAAAAAATGAGAGAGATGAACAGTTGGGTTTGTGATGTTTTCTAGAAAAAGATAAGATTGAAGAA
CGAGATGAACAAAGATGATAAAATAAAAAGGAAAGAAAATGAA
Found at i:19408175 original size:25 final size:26
Alignment explanation
Indices: 19408126--19408178 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
19408116 AAAAAAGCTA
* *
19408126 AATAAACGATCCCCCTCCCTTAACTG
1 AATAAACGATCCCCATCCCTCAACTG
19408152 AATAAACGAT-CCCATCCCTCAACTG
1 AATAAACGATCCCCATCCCTCAACTG
19408177 AA
1 AA
19408179 AAAATGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.36, C:0.36, G:0.08, T:0.21
Consensus pattern (26 bp):
AATAAACGATCCCCATCCCTCAACTG
Found at i:19408262 original size:34 final size:36
Alignment explanation
Indices: 19408223--19408319 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 36
19408213 CTGCGTGTTA
* *
19408223 TTGTTTGTGTTAGT-GTTTT-GGGA-AGGAAAAAAAG
1 TTGTTTGTGTT-GTAATTTTGGGGAGAAGAAAAAAAG
*
19408257 TTGTTTATGTTGTAATTTTGGGGAGAAGAAAAAAAG
1 TTGTTTGTGTTGTAATTTTGGGGAGAAGAAAAAAAG
*
19408293 TTGTTTGTGTTG-AAGTTTTAGGGAGAA
1 TTGTTTGTGTTGTAA-TTTTGGGGAGAA
19408320 ATTGTAAGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
33 2 0.04
34 14 0.26
35 6 0.11
36 32 0.59
ACGTcount: A:0.30, C:0.00, G:0.31, T:0.39
Consensus pattern (36 bp):
TTGTTTGTGTTGTAATTTTGGGGAGAAGAAAAAAAG
Found at i:19410534 original size:28 final size:29
Alignment explanation
Indices: 19410503--19410557 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
19410493 CACAATATAA
19410503 GGAACATATAATA-GAT-CAATGCATATTC
1 GGAACATAT-ATACGATGCAATGCATATTC
* *
19410531 GGAATATATTTACGATGCAATGCATAT
1 GGAACATATATACGATGCAATGCATAT
19410558 GCAAATGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.09
28 11 0.48
29 10 0.43
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (29 bp):
GGAACATATATACGATGCAATGCATATTC
Found at i:19416705 original size:34 final size:34
Alignment explanation
Indices: 19416662--19416731 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
19416652 GAGTTAGAGA
19416662 GTCACCTTAGTGAGATTTTAGGTTTCTAAATAGT
1 GTCACCTTAGTGAGATTTTAGGTTTCTAAATAGT
*
19416696 GTCACCTTAGTGAGATTTTGGGTTTCTAAATAGT
1 GTCACCTTAGTGAGATTTTAGGTTTCTAAATAGT
19416730 GT
1 GT
19416732 AAAAGTCTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.41
Consensus pattern (34 bp):
GTCACCTTAGTGAGATTTTAGGTTTCTAAATAGT
Found at i:19418811 original size:22 final size:22
Alignment explanation
Indices: 19418783--19418827 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19418773 TCAAGCTATA
19418783 CAAGGTAGTTTTGATAAGGTTT
1 CAAGGTAGTTTTGATAAGGTTT
19418805 CAAGGTAGTTTTGATAAGGTTT
1 CAAGGTAGTTTTGATAAGGTTT
19418827 C
1 C
19418828 GAATTCTACT
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:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (22 bp):
CAAGGTAGTTTTGATAAGGTTT
Found at i:19423448 original size:18 final size:18
Alignment explanation
Indices: 19423403--19423474 Score: 58
Period size: 18 Copynumber: 3.9 Consensus size: 18
19423393 TACAAGCATA
*
19423403 CAGATTCAGATACACAGT-
1 CAGATTCAGATACAGA-TC
** *
19423421 CAGAAGCAGATACAGTTC
1 CAGATTCAGATACAGATC
19423439 CAGATTCAGA-ATCAGATC
1 CAGATTCAGATA-CAGATC
*
19423457 CAGATTTAGATTACAGAT
1 CAGATTCAGA-TACAGAT
19423475 ACGGATATGC
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
17 2 0.05
18 34 0.81
19 5 0.12
20 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (18 bp):
CAGATTCAGATACAGATC
Found at i:19425505 original size:33 final size:31
Alignment explanation
Indices: 19425468--19425537 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 31
19425458 TAGATGTAAC
19425468 TTAACAAGCAAAGCCTCTAAAATAATAACAAAA
1 TTAACAA--AAAGCCTCTAAAATAATAACAAAA
* * *
19425501 TTAAC-AAATGTCTTTAAAATAATAACAAAA
1 TTAACAAAAAGCCTCTAAAATAATAACAAAA
19425531 TTAACAA
1 TTAACAA
19425538 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 26 0.79
31 1 0.03
32 1 0.03
33 5 0.15
ACGTcount: A:0.57, C:0.14, G:0.04, T:0.24
Consensus pattern (31 bp):
TTAACAAAAAGCCTCTAAAATAATAACAAAA
Found at i:19425942 original size:136 final size:134
Alignment explanation
Indices: 19425694--19425956 Score: 427
Period size: 136 Copynumber: 1.9 Consensus size: 134
19425684 ATTTATAGGC
* * *
19425694 AAAAAAAGGTAAGAGTCGGTAGCTTTTCTATGCCTTTCCTGACATAATCACATATATCAATGAAT
1 AAAAAAAGGTAAGAGTCGGTAGCTTTTCTATGCCTTTCCTAACATAATCACATAAATCAATAAAT
* **
19425759 CTGGACATAGAGAAATGGAAATTCTCTTTTCTCGAAACTCCGGATATTTTCATTTTTCTAAATAT
66 CTGGACATAGAGAAAAGGAAATTCTCTTTTCTCGAAACTCCAAATATTTTCATTTTTCTAAATAT
19425824 AGTA
131 AGTA
*
19425828 AAAAAAAGGGTAAGAGTCGGTAGCTTTTTCTATGTCTTTCCTAACATAATCACATAAATCAATAA
1 AAAAAAA-GGTAAGAGTCGGTAGC-TTTTCTATGCCTTTCCTAACATAATCACATAAATCAATAA
* *
19425893 ATCTGGAGATAGAGAAAAGGAAATTCTCTTTTCTTGAAACTCCAAATATTTTCATTTTTCTAAA
64 ATCTGGACATAGAGAAAAGGAAATTCTCTTTTCTCGAAACTCCAAATATTTTCATTTTTCTAAA
19425957 AGTTTATTTC
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
134 7 0.06
135 16 0.14
136 95 0.81
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (134 bp):
AAAAAAAGGTAAGAGTCGGTAGCTTTTCTATGCCTTTCCTAACATAATCACATAAATCAATAAAT
CTGGACATAGAGAAAAGGAAATTCTCTTTTCTCGAAACTCCAAATATTTTCATTTTTCTAAATAT
AGTA
Found at i:19428423 original size:89 final size:88
Alignment explanation
Indices: 19428261--19428477 Score: 271
Period size: 89 Copynumber: 2.4 Consensus size: 88
19428251 TTAAGGGTGT
*
19428261 AAAAAGCTCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCTTCCTCTTGTTTTTTGAACTCAATT
1 AAAAAGCCCTCAAA-TTTTTCAAAAAAAGCAATTAAG--CTTCCTCTTGTTTTTTGAACTCAATT
19428326 GAGCACTTGAACTTTCAAAATGCATA
63 GAGCACTTGAACTTTCAAAATGCATA
* **
19428352 AAAAAGACCCTCAAATTTCTTCAAAAAAAGCAATTAAG-TTCCT-TTATTTTTTTTCACTCAATT
1 AAAAAG-CCCTCAAATTT-TTCAAAAAAAGCAATTAAGCTTCCTCTT-GTTTTTTGAACTCAATT
* *
19428415 G-GATACTTGAACTTTCAAAATGCATC
63 GAG-CACTTGAACTTTCAAAATGCATA
19428441 AAAAAGTCCCTCAAAATTTTTC-AAAAAAGCAATTAAG
1 AAAAAG-CCCTC-AAATTTTTCAAAAAAAGCAATTAAG
19428478 GCCCTGCTCT
Statistics
Matches: 114, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
88 18 0.16
89 55 0.48
90 6 0.05
91 9 0.08
92 26 0.23
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (88 bp):
AAAAAGCCCTCAAATTTTTCAAAAAAAGCAATTAAGCTTCCTCTTGTTTTTTGAACTCAATTGAG
CACTTGAACTTTCAAAATGCATA
Found at i:19428558 original size:18 final size:19
Alignment explanation
Indices: 19428518--19428561 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
19428508 AAGAAAAAAT
* *
19428518 AAATTTTAGATAAATTATT
1 AAATTTTAGATAAAATATA
19428537 AAATTTTA-ATAAAATATA
1 AAATTTTAGATAAAATATA
19428555 AAATTTT
1 AAATTTT
19428562 CAAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAATTTTAGATAAAATATA
Found at i:19428930 original size:10 final size:10
Alignment explanation
Indices: 19428917--19429026 Score: 77
Period size: 10 Copynumber: 11.3 Consensus size: 10
19428907 CTTTATAAAA
19428917 TTTTATAATT
1 TTTTATAATT
19428927 TTTT-T-ATAT
1 TTTTATAAT-T
* *
19428936 TTCTAT-ATA
1 TTTTATAATT
*
19428945 TTTTATAAAT
1 TTTTATAATT
19428955 TTTTAT-A-T
1 TTTTATAATT
*
19428963 TTTTATAATA
1 TTTTATAATT
*
19428973 TTTTACAATT
1 TTTTATAATT
*
19428983 TTTTATATTT
1 TTTTATAATT
*
19428993 TTTTATGATT
1 TTTTATAATT
**
19429003 TTTATATTTTT
1 TTT-TATAATT
*
19429014 TTTTCTAATT
1 TTTTATAATT
19429024 TTT
1 TTT
19429027 AATATTTGAA
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
8 9 0.12
9 12 0.16
10 48 0.62
11 8 0.10
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:19428951 original size:28 final size:27
Alignment explanation
Indices: 19428916--19429015 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
19428906 ACTTTATAAA
*
19428916 ATTTTATAATTTTTTTATATTTCTATAT
1 ATTTTATAA-TTTTTTATATTTTTATAT
*
19428944 ATTTTATAAATTTTTATATTTTTATAAT
1 ATTTTATAATTTTTTATATTTTTAT-AT
* *
19428972 ATTTTACAATTTTTTATATTTTTTTAT
1 ATTTTATAATTTTTTATATTTTTATAT
*
19428999 GATTTTTATATTTTTTT
1 -A-TTTTATAATTTTTT
19429016 TTCTAATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 16 0.26
28 34 0.55
29 12 0.19
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (27 bp):
ATTTTATAATTTTTTATATTTTTATAT
Found at i:19428987 original size:38 final size:39
Alignment explanation
Indices: 19428908--19429008 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 39
19428898 TTCTTACGAC
* * *
19428908 TTTATAAAATTTTATAATTTTT-TTATATTTCTATATAT
1 TTTATAAATTTTTATAATTTTTATAATATTTCTAAATAT
*
19428946 TTTATAAATTTTTAT-ATTTTTATAATATTT-TACAATTT
1 TTTATAAATTTTTATAATTTTTATAATATTTCTA-AATAT
** *
19428984 TTTATATTTTTTTATGATTTTTATA
1 TTTATAAATTTTTATAATTTTTATA
19429009 TTTTTTTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
37 8 0.15
38 37 0.69
39 9 0.17
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (39 bp):
TTTATAAATTTTTATAATTTTTATAATATTTCTAAATAT
Found at i:19429005 original size:21 final size:21
Alignment explanation
Indices: 19428917--19429033 Score: 90
Period size: 21 Copynumber: 6.0 Consensus size: 21
19428907 CTTTATAAAA
*
19428917 TTTTATAATTTTTTTATATTT
1 TTTTATAATTTTTATATATTT
* * *
19428938 CTATAT-A-TTTTATA-A-AT
1 TTTTATAATTTTTATATATTT
*
19428955 TTTTAT-ATTTTTATA-A-TA
1 TTTTATAATTTTTATATATTT
*
19428973 TTTTACAATTTTT-TATATTT
1 TTTTATAATTTTTATATATTT
* *
19428993 TTTTATGATTTTTATATTTTT
1 TTTTATAATTTTTATATATTT
*
19429014 TTTTCTAATTTTTA-ATATTT
1 TTTTATAATTTTTATATATTT
19429034 GAATTTTTCT
Statistics
Matches: 75, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
17 6 0.08
18 16 0.21
19 13 0.17
20 18 0.24
21 22 0.29
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (21 bp):
TTTTATAATTTTTATATATTT
Found at i:19429013 original size:19 final size:18
Alignment explanation
Indices: 19428917--19429015 Score: 81
Period size: 19 Copynumber: 5.2 Consensus size: 18
19428907 CTTTATAAAA
* *
19428917 TTTTATAATTTTTTTATAT
1 TTTTAT-ATTTTTATATTT
* **
19428936 TTCTATATATTTTATAAAT
1 TTTTATAT-TTTTATATTT
* *
19428955 TTTTATATTTTTATAATA
1 TTTTATATTTTTATATTT
*
19428973 TTTTACAATTTTTTATATTT
1 TTTTA-TA-TTTTTATATTT
19428993 TTTTATGATTTTTATATTT
1 TTTTAT-ATTTTTATATTT
19429012 TTTT
1 TTTT
19429016 TTCTAATTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
18 15 0.23
19 36 0.55
20 15 0.23
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (18 bp):
TTTTATATTTTTATATTT
Found at i:19429255 original size:85 final size:85
Alignment explanation
Indices: 19429134--19429291 Score: 201
Period size: 85 Copynumber: 1.9 Consensus size: 85
19429124 ATTGTTTTTT
* * * * * *
19429134 TTTTGAAAAAAGTTTGAGGGTGTTTTTGATGTATTTTGAAATTTCAAGAACCCAACTAAGTGCAA
1 TTTTAAAAAAAGTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGAACCCAAATAAGTGCAA
19429199 AA-AAAAAGGGACTTAATTA
66 AAGAAAAAGGGACTTAATTA
* * * * *
19429218 TTTTAAAAAAAGGTTTTAGAGTCTTTTTTATGCATTTTGAAAATTCAAGTATCCAAATGAGTGCA
1 TTTTAAAAAAA-GTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGAACCCAAATAAGTGCA
19429283 AAAGAAAAA
65 AAAGAAAAA
19429292 CAATGACTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
84 10 0.16
85 46 0.75
86 5 0.08
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (85 bp):
TTTTAAAAAAAGTTTGAGAGTCTTTTTGATGCATTTTGAAAATTCAAGAACCCAAATAAGTGCAA
AAGAAAAAGGGACTTAATTA
Found at i:19436566 original size:29 final size:27
Alignment explanation
Indices: 19436529--19436583 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
19436519 CAGTTATATA
19436529 CAGTCTGGGGCCTGAACCCATTATAGATT
1 CAGTCT-GGGCCTGAACCCATT-TAGATT
* * *
19436558 CAGTTTGGGCCTTAGCCCATTTAGAT
1 CAGTCTGGGCCTGAACCCATTTAGAT
19436584 ATAGCCTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 13 0.57
29 5 0.22
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (27 bp):
CAGTCTGGGCCTGAACCCATTTAGATT
Found at i:19437105 original size:18 final size:18
Alignment explanation
Indices: 19437066--19437099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19437056 CATGTGGCCT
*
19437066 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGAGCCCACAC
19437084 GCCCGTGT-AGCCCACA
1 GCCCGTGTGAGCCCACA
19437100 TGGCCCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (18 bp):
GCCCGTGTGAGCCCACAC
Found at i:19456346 original size:14 final size:14
Alignment explanation
Indices: 19456327--19456353 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19456317 CATCTTATTT
19456327 TAAAACTATAAAAC
1 TAAAACTATAAAAC
19456341 TAAAACTATAAAA
1 TAAAACTATAAAA
19456354 ACTTAGAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAACTATAAAAC
Found at i:19457504 original size:22 final size:21
Alignment explanation
Indices: 19457479--19457541 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
19457469 AATACTACAT
19457479 AAATATGTACATATATATATTA
1 AAATATGTACATA-ATATATTA
**
19457501 AAATAAATACATAATAATATTA
1 AAATATGTACATAAT-ATATTA
*
19457523 AGAGTATGTACATAATATA
1 A-AATATGTACATAATATA
19457542 GTGTTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.06
22 21 0.62
23 11 0.32
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (21 bp):
AAATATGTACATAATATATTA
Found at i:19457650 original size:21 final size:22
Alignment explanation
Indices: 19457621--19457662 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
19457611 TTATTAATAG
19457621 TAAAC-ATATACATATATAAAT
1 TAAACAATATACATATATAAAT
*
19457642 TAAAGATATATACATATATAA
1 TAAACA-ATATACATATATAA
19457663 TAGAACACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
23 14 0.78
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAACAATATACATATATAAAT
Found at i:19457684 original size:3 final size:3
Alignment explanation
Indices: 19457676--19457704 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19457666 AACACATACT
19457676 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
19457705 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:19457709 original size:3 final size:3
Alignment explanation
Indices: 19457703--19457731 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19457693 CAACAACAAC
19457703 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19457732 AAGTATGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19457829 original size:16 final size:15
Alignment explanation
Indices: 19457810--19457859 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
19457800 AGGTATAATA
19457810 ATAAATATAATGATAT
1 ATAAATATAAT-ATAT
*
19457826 ATAAAGATAATATTAT
1 ATAAATATAATA-TAT
* *
19457842 ATATATAAAATATAT
1 ATAAATATAATATAT
19457857 ATA
1 ATA
19457860 TACACGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 7 0.24
16 22 0.76
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (15 bp):
ATAAATATAATATAT
Found at i:19457845 original size:20 final size:17
Alignment explanation
Indices: 19457812--19457861 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 17
19457802 GTATAATAAT
19457812 AAATATA-ATGATATATA
1 AAATATATAT-ATATATA
19457829 AAGATAATATTATATATATA
1 AA-AT-ATA-TATATATATA
19457849 AAATATATATATA
1 AAATATATATATA
19457862 CACGTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 8 0.28
18 5 0.17
19 5 0.17
20 9 0.31
21 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (17 bp):
AAATATATATATATATA
Found at i:19457894 original size:24 final size:23
Alignment explanation
Indices: 19457832--19457902 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
19457822 ATATATAAAG
19457832 ATAATATTATATATATAAAATATAT
1 ATAATATTA-ATA-ATAAAATATAT
* *
19457857 ATATACACGT-ATAATAAAATATAT
1 ATA-ATA-TTAATAATAAAATATAT
19457881 ACTAATATTAATAAT-AAATATA
1 A-TAATATTAATAATAAAATATA
19457903 ATAGGGGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
23 8 0.21
24 19 0.50
25 8 0.21
26 2 0.05
27 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (23 bp):
ATAATATTAATAATAAAATATAT
Found at i:19457966 original size:17 final size:18
Alignment explanation
Indices: 19457921--19457968 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
19457911 AAAAATAGGT
19457921 ATAATAAT-ATATTAGATA
1 ATAATAATAATA-TAGATA
* *
19457939 GTAAAAATAATATA-ATA
1 ATAATAATAATATAGATA
19457956 ATAATAATAATAT
1 ATAATAATAATAT
19457969 GGGAAGGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 14 0.56
18 8 0.32
19 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
ATAATAATAATATAGATA
Found at i:19459707 original size:31 final size:32
Alignment explanation
Indices: 19459644--19459707 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
19459634 GGCTATAACA
* *
19459644 TCAACTATTTTTCAAAATGTTGATGGTTAAAT
1 TCAACTATTTTTCAAAATATTGATGGTCAAAT
*
19459676 TCAACTCTTTTT-AAAATATTGA-GTGTCAAAT
1 TCAACTATTTTTCAAAATATTGATG-GTCAAAT
19459707 T
1 T
19459708 TAGTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.04
31 16 0.57
32 11 0.39
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (32 bp):
TCAACTATTTTTCAAAATATTGATGGTCAAAT
Found at i:19461835 original size:23 final size:23
Alignment explanation
Indices: 19461809--19461857 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
19461799 TTTGAAGGTT
19461809 TATTCTAATTTTAGATTATGGAC
1 TATTCTAATTTTAGATTATGGAC
19461832 TATTCTAATTTTAGATTATGGAC
1 TATTCTAATTTTAGATTATGGAC
19461855 TAT
1 TAT
19461858 CTTTGGGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (23 bp):
TATTCTAATTTTAGATTATGGAC
Found at i:19462452 original size:28 final size:28
Alignment explanation
Indices: 19462394--19462453 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
19462384 CTAGCATGAT
* *
19462394 TTTAGCTTCTAATTTTTAGAACACAAAA
1 TTTAGCTTCTAATTCTTAGAAAACAAAA
* *
19462422 TTTAGCTTCTAATTACTT-GAAAATAAGA
1 TTTAGCTTCTAATT-CTTAGAAAACAAAA
19462450 TTTA
1 TTTA
19462454 TATATTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (28 bp):
TTTAGCTTCTAATTCTTAGAAAACAAAA
Found at i:19463069 original size:63 final size:64
Alignment explanation
Indices: 19462971--19463167 Score: 272
Period size: 64 Copynumber: 3.1 Consensus size: 64
19462961 ACATGGAACT
* * *
19462971 ATATAGCAAATTAAGACGTCAGGTTGTTAGTTGGAAGTACATAAAACAAATTAATAATTAATAA
1 ATATAGCAAAGTAAGACGTCAGGTTGATAGGTGGAAGTACATAAAACAAATTAATAATTAATAA
** * * *
19463035 ATAT-GGGAAGCTAAGAGGT-AGGTTGATAGGTGGAAGCACATAAAACTAATTAATAATTAATAA
1 ATATAGCAAAG-TAAGACGTCAGGTTGATAGGTGGAAGTACATAAAACAAATTAATAATTAATAA
* * *
19463098 ATATAGCAAAGTAGGACGTCAGGTTGGTAGGTGGAAGTACATAAAATAAATTAATAATTAATAA
1 ATATAGCAAAGTAAGACGTCAGGTTGATAGGTGGAAGTACATAAAACAAATTAATAATTAATAA
19463162 ATATAG
1 ATATAG
19463168 TAATAAGGAG
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
63 53 0.46
64 61 0.54
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (64 bp):
ATATAGCAAAGTAAGACGTCAGGTTGATAGGTGGAAGTACATAAAACAAATTAATAATTAATAA
Found at i:19464051 original size:21 final size:22
Alignment explanation
Indices: 19464020--19464060 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19464010 TCGAGCCAAT
19464020 AACCCTAAATCATAAACCTTAA
1 AACCCTAAATCATAAACCTTAA
* *
19464042 AACCC-AAATCCTGAACCTT
1 AACCCTAAATCATAAACCTT
19464061 GAGATTCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (22 bp):
AACCCTAAATCATAAACCTTAA
Found at i:19464096 original size:13 final size:13
Alignment explanation
Indices: 19464059--19464102 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
19464049 ATCCTGAACC
19464059 TTGAGATTCAAGGT
1 TTGAG-TTCAAGGT
*
19464073 TTAATGTTCAAGGT
1 TTGA-GTTCAAGGT
*
19464087 TTGAGTTCAAGAT
1 TTGAGTTCAAGGT
19464100 TTG
1 TTG
19464103 GGGTTCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.42
14 14 0.54
15 1 0.04
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.41
Consensus pattern (13 bp):
TTGAGTTCAAGGT
Found at i:19465163 original size:11 final size:11
Alignment explanation
Indices: 19465135--19465177 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
19465125 AGTTGGGATA
*
19465135 ATTTTTTTTATT
1 ATTTTTCTT-TT
19465147 ATTTTTCTTTTT
1 ATTTTTC-TTTT
*
19465159 CTTTTTCTTTT
1 ATTTTTCTTTT
19465170 ATTTTTCT
1 ATTTTTCT
19465178 CTCTTCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 11 0.41
12 14 0.52
13 2 0.07
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTTCTTTT
Found at i:19474349 original size:13 final size:13
Alignment explanation
Indices: 19474331--19474383 Score: 88
Period size: 13 Copynumber: 4.1 Consensus size: 13
19474321 GCTCGGCAGG
19474331 GACACGCCCGTGT
1 GACACGCCCGTGT
19474344 GACACGCCCGTGT
1 GACACGCCCGTGT
*
19474357 GACACGCTCGTGT
1 GACACGCCCGTGT
*
19474370 GACACGCCTGTGT
1 GACACGCCCGTGT
19474383 G
1 G
19474384 CGATTATTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.15, C:0.34, G:0.32, T:0.19
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:19482488 original size:44 final size:44
Alignment explanation
Indices: 19482432--19482516 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
19482422 AAAAAAAATA
19482432 AAAAAGGAATCAAGGTGAAAACCCAAAAAGGGCATCTTGATAAT
1 AAAAAGGAATCAAGGTGAAAACCCAAAAAGGGCATCTTGATAAT
* * *
19482476 AAAAAGGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGAT
1 AAAAAGGAATCAAGGTGAAAACCCAAAAAGGGCATCTTGAT
19482517 TAACACAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.46, C:0.14, G:0.25, T:0.15
Consensus pattern (44 bp):
AAAAAGGAATCAAGGTGAAAACCCAAAAAGGGCATCTTGATAAT
Found at i:19482540 original size:44 final size:43
Alignment explanation
Indices: 19482432--19482527 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 43
19482422 AAAAAAAATA
* * *
19482432 AAAAAGGAATCAAGGTGAAAACCCAAAAAGGGCATCTTGATAAT
1 AAAAAGG-ATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAC
19482476 AAAAAGGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATTAAC
1 AAAAA-GGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGA-TAAC
19482521 ACAAAAG
1 A-AAAAG
19482528 ATTAGGATGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
44 35 0.76
45 7 0.15
46 4 0.09
ACGTcount: A:0.48, C:0.15, G:0.23, T:0.15
Consensus pattern (43 bp):
AAAAAGGATCAAGGTGAAAACCCGAAAAGGGCGTCTTGATAAC
Found at i:19483504 original size:75 final size:74
Alignment explanation
Indices: 19483333--19483697 Score: 423
Period size: 70 Copynumber: 5.1 Consensus size: 74
19483323 TGATGTTTTT
* * * * *
19483333 ATTTTTGTTT-TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACA--TTGA
1 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGGTACACGCTGA
19483395 GGTATTTTCA
65 GGTATTTTCA
* *
19483405 ATTTCTATCTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTG
1 ATTTCTGT-TTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGT-ACACGCTG
*
19483469 AGGTAATTTCA
64 AGGTATTTTCA
* * **
19483480 ATTTCTGTTTGTCAAAAATCAACTCATATTACAAGAAGTGAGTTGAGCCT-A---ATGCGCTGAG
1 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTACACGCTGAG
*
19483541 GTGTTTTCA
66 GTATTTTCA
* * * *
19483550 ATTTTTGTTTGTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCACGT----GTTGAG
1 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTACACGCTGAG
*
19483611 GTGTTTTCA
66 GTATTTTCA
* * *
19483620 ATTTCTGCTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACACGCTGAG
1 ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTACACGCTGAG
19483684 GTATTTTCA
66 GTATTTTCA
19483693 ATTTC
1 ATTTC
19483698 CTTTTTTTTT
Statistics
Matches: 251, Mismatches: 29, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
70 123 0.49
71 1 0.00
72 9 0.04
73 60 0.24
74 3 0.01
75 55 0.22
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (74 bp):
ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTACACGCTGAG
GTATTTTCA
Found at i:19483667 original size:140 final size:142
Alignment explanation
Indices: 19483343--19483697 Score: 437
Period size: 145 Copynumber: 2.5 Consensus size: 142
19483333 ATTTTTGTTT
* * **
19483343 TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGATACATTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT--AGATACGCTGAGGTATTTTCAATT
* *
19483408 TCTATCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGT
64 TCTATCTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCACGT----CGCTGAGGT
*
19483473 AATTTCAATTTCTGTTTG
125 AATTTCAATTTCTGCTTG
* * * * *
19483491 TCAAAAATCAACTCATATTACAAGAAGTGAGTTGAGCCTA-ATGCGCTGAGGTGTTTTCAATTTT
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGATACGCTGAGGTATTTTCAATTTC
* * * **
19483555 TGT-TTGTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCACGT-GTTGAGGTGTTTT
66 TATCTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCACGTCGCTGAGGTAATTT
19483618 CAATTTCTGCTTG
130 CAATTTCTGCTTG
* *
19483631 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC-TA-GATACGCTGAGGTATTTTCAATT
19483696 TC
64 TC
19483698 CTTTTTTTTT
Statistics
Matches: 179, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
140 57 0.32
141 2 0.01
143 20 0.11
144 2 0.01
145 62 0.35
146 1 0.01
148 35 0.20
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (142 bp):
TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTAGATACGCTGAGGTATTTTCAATTTC
TATCTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCACGTCGCTGAGGTAATTTC
AATTTCTGCTTG
Found at i:19483846 original size:87 final size:89
Alignment explanation
Indices: 19483631--19483846 Score: 262
Period size: 90 Copynumber: 2.4 Consensus size: 89
19483621 TTTCTGCTTG
* **
19483631 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTATTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAA
** * *
19483696 TCCTTTTTTTTTCAATTTATATTTT
66 TCC-TTGCTTTTCAAATTATATGTT
* *
19483721 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTCA
19483785 AAAT-C-TGCTTTTCAAATTA-A-GTT
63 AAATCCTTGCTTTTCAAATTATATGTT
* *
19483808 TCAAAAACCAACTCATATTGCGAAAGGTGAGTTGAGCCT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
19483847 TGGCTCATGT
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
87 39 0.35
88 1 0.01
89 11 0.10
90 41 0.37
91 2 0.02
92 18 0.16
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (89 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAA
TCCTTGCTTTTCAAATTATATGTT
Found at i:19483868 original size:87 final size:91
Alignment explanation
Indices: 19483631--19483868 Score: 269
Period size: 87 Copynumber: 2.7 Consensus size: 91
19483621 TTTCTGCTTG
*
19483631 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACA--CGCTGAGGTATTTTCA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCACATGTGCTGAGGTATTTTCA
** ** * *
19483693 ATTTCCTTTTTTTTTCAATTTATATTTT
65 AAATCC-TTGCTTTTCAAATTATATGTT
*
19483721 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGT-C-GAGGTATTTTC
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGG-CACATGTGCTGAGGTATTTTC
19483784 AAAAT-C-TGCTTTTCAAATTA-A-GTT
64 AAAATCCTTGCTTTTCAAATTATATGTT
* * * *
19483808 TCAAAAACCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCATGTGCTGAGCTATTT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCACATGTGCTGAGGTATTT
19483869 CCAATTTCAG
Statistics
Matches: 128, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
85 6 0.05
86 3 0.02
87 47 0.37
88 1 0.01
89 11 0.09
90 41 0.32
91 1 0.01
92 17 0.13
93 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (91 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCACATGTGCTGAGGTATTTTCAA
AATCCTTGCTTTTCAAATTATATGTT
Found at i:19484377 original size:25 final size:25
Alignment explanation
Indices: 19484343--19484390 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
19484333 AAAAGTCTTT
*
19484343 ACTCTATTCTCGTTACACGACAACA
1 ACTCTATTCTCATTACACGACAACA
*
19484368 ACTCTGTTCTCATTACACGACAA
1 ACTCTATTCTCATTACACGACAA
19484391 TGAGTAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.29
Consensus pattern (25 bp):
ACTCTATTCTCATTACACGACAACA
Found at i:19485784 original size:46 final size:46
Alignment explanation
Indices: 19485724--19487048 Score: 2379
Period size: 46 Copynumber: 28.8 Consensus size: 46
19485714 TTTGACATGA
* * * * * * *
19485724 TGCCATAGTGTCTTTCAACTATGGTCTTACTCGTTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGT
*
19485770 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19485816 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19485862 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19485908 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19485954 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486000 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486046 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486092 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486138 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486184 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486230 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486276 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486322 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486368 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486414 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486460 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486506 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19486552 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
19486598 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
19486644 TGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
19486690 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
19486736 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
19486782 TGCCATGGTATCTTTCAACCATGGTCTTATC-C-TTTCATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-CACATTTCATATCAGGT
* * *
19486827 TGCCATGGTATCTTTGAACCATGGTCTTGCACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
19486873 TGCCATGGTATATTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * *
19486919 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
19486964 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
19487010 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
19487049 TTTAGAGAGC
Statistics
Matches: 1241, Mismatches: 33, Indels: 10
0.97 0.03 0.01
Matches are distributed among these distances:
44 1 0.00
45 84 0.07
46 1155 0.93
47 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:19489206 original size:11 final size:11
Alignment explanation
Indices: 19489192--19489232 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
19489182 ACTAAATAAT
19489192 TAATAAAAAAA
1 TAATAAAAAAA
**
19489203 TAATAATGAAA
1 TAATAAAAAAA
*
19489214 TAATAATAAAA
1 TAATAAAAAAA
19489225 TAATAAAA
1 TAATAAAA
19489233 TATCTCATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
TAATAAAAAAA
Found at i:19489257 original size:20 final size:21
Alignment explanation
Indices: 19489204--19489279 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
19489194 ATAAAAAAAT
* *
19489204 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
19489223 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
19489244 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
19489265 TAATCATAAAATATC
1 -AATAATAAAATATC
19489280 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:19501365 original size:44 final size:44
Alignment explanation
Indices: 19501298--19501456 Score: 129
Period size: 44 Copynumber: 3.5 Consensus size: 44
19501288 TATAAAACCC
* *
19501298 TATCTCCCTGAAGATGCAATGGAGTAGGTTGAAGTTACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAATCT
* * ** ** *
19501342 TATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGAAACCATGAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTA-CA--AATCT
** * * * * *
19501389 TATCTCCCTGAAGTTTTAGTGGAATGGGTTGAAATTACGAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAATCT
* *
19501433 AATTTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
19501457 CAGACCGAAA
Statistics
Matches: 84, Mismatches: 28, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
44 51 0.61
45 2 0.02
46 1 0.01
47 30 0.36
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGTTACAAATCT
Found at i:19501635 original size:44 final size:44
Alignment explanation
Indices: 19501572--19501716 Score: 163
Period size: 44 Copynumber: 3.4 Consensus size: 44
19501562 TGGCGGATCC
19501572 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGCCACTAA-CCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGCCAC-AAGCCT
* * * ** ** *
19501616 TATCTCCCTGAAGATGCAGTGGAGCAGGTTGAAGTTACAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGCCT
* *
19501660 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAA---ACAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGCCT
19501701 TATCTCCCTGAAGTTG
1 TATCTCCCTGAAGTTG
19501717 TAGCGGAGCC
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
41 23 0.27
43 2 0.02
44 60 0.71
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAGCCACAAGCCT
Found at i:19503470 original size:18 final size:18
Alignment explanation
Indices: 19503449--19503488 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19503439 TTTGCCTTTG
*
19503449 TATTGTTATTTTATTATC
1 TATTATTATTTTATTATC
* *
19503467 TATTATTGTTTTATTATT
1 TATTATTATTTTATTATC
19503485 TATT
1 TATT
19503489 CATTCATCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (18 bp):
TATTATTATTTTATTATC
Found at i:19504229 original size:25 final size:27
Alignment explanation
Indices: 19504201--19504252 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19504191 TTCAAAATTA
19504201 TTTTTACACAT-T-ATTTATTTTAAAT
1 TTTTTACACATATGATTTATTTTAAAT
*
19504226 TTTTTCCACATATGATTTATTTTAAAT
1 TTTTTACACATATGATTTATTTTAAAT
19504253 CTTTGTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 10 0.42
26 1 0.04
27 13 0.54
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTTACACATATGATTTATTTTAAAT
Found at i:19504374 original size:28 final size:27
Alignment explanation
Indices: 19504195--19504382 Score: 107
Period size: 26 Copynumber: 7.0 Consensus size: 27
19504185 TATATTTTCA
* *
19504195 AAATTATTTTTACACATTATTTATTTT
1 AAATTTTTTTTACATATTATTTATTTT
** *
19504222 AAATTTTTTCCACATATGATTTATTTT
1 AAATTTTTTTTACATATTATTTATTTT
* * *
19504249 AAATCTTTGTGT--ATATTATCTATTTT
1 AAAT-TTTTTTTACATATTATTTATTTT
* * ** * **
19504275 AAA-GTTTTATATGTATTACTTGGTTT
1 AAATTTTTTTTACATATTATTTATTTT
* * * * *
19504301 -AACTTATTTTATATGTTATTTACTTTA
1 AAATTTTTTTTACATATTATTTA-TTTT
* *
19504328 AAATTTCTTATACATTATTATTTATTTT
1 AAATTTTTTTTACA-TATTATTTATTTT
19504356 AAATTTCTTTTTACATATTA-TTATTTT
1 AAATTT-TTTTTACATATTATTTATTTT
19504383 GAGCTTCTTA
Statistics
Matches: 118, Mismatches: 35, Indels: 16
0.70 0.21 0.09
Matches are distributed among these distances:
24 4 0.03
25 2 0.02
26 36 0.31
27 35 0.30
28 27 0.23
29 14 0.12
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (27 bp):
AAATTTTTTTTACATATTATTTATTTT
Found at i:19504458 original size:21 final size:22
Alignment explanation
Indices: 19504421--19504461 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19504411 TTTATATGTA
19504421 TTATTTCAAACTTGTCTTATTC
1 TTATTTCAAACTTGTCTTATTC
*
19504443 TTATTT-AAATTTGTCTTAT
1 TTATTTCAAACTTGTCTTAT
19504462 ACAACTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (22 bp):
TTATTTCAAACTTGTCTTATTC
Found at i:19504594 original size:25 final size:27
Alignment explanation
Indices: 19504540--19504591 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
19504530 TATAGTATTT
19504540 ATTATATATATATTACCTATTTTAATA
1 ATTATATATATATTACCTATTTTAATA
19504567 ATTATATATATA-TACTCTATTTTAA
1 ATTATATATATATTAC-CTATTTTAA
19504592 ATTGTTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATATATATATTACCTATTTTAATA
Found at i:19506683 original size:19 final size:19
Alignment explanation
Indices: 19506656--19506702 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
19506646 CCTTCCTTTC
19506656 TTTTGCATT-CATTCCATGCA
1 TTTT-CATTGCATTCCAT-CA
*
19506676 TTTTCATTGCATTGCATCA
1 TTTTCATTGCATTCCATCA
*
19506695 TTTGCATT
1 TTTTCATT
19506703 AAACTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (19 bp):
TTTTCATTGCATTCCATCA
Found at i:19510873 original size:45 final size:44
Alignment explanation
Indices: 19510699--19511352 Score: 158
Period size: 45 Copynumber: 14.8 Consensus size: 44
19510689 ACCAATTCTA
* * * *
19510699 CAGATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAGGACGG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGA-TG
* * * * * ** *
19510744 C-GAATCTAGTCTTCCTGAAGTTGTAGTGAAGCAGATTTAAG--C
1 CAG-ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATG
* * * * * * **
19510786 CACCATCCTATCTCCCTAAAGTTGTAGTGGAG-TAGGCTGAAGATTG
1 CA-GATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATC-GAAGA-TG
* *
19510832 TAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATG
* * * * * * ** *
19510876 ACAAATCTTGTCTTCTTGAAGTTACAGTGAAGCAGATTTAAG--C
1 -CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATG
* * * * * * * ** *
19510919 CACCATCCTATCTTCCTAAAGTTGTAGTGGAG-TAGCCGGAAGATTA
1 CA-GATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATC-GAAGA-TG
*
19510965 TAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATGG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGAT-G
* * * ** *
19511010 C-GAATCTTGTC-CTCCTGAAGTTGCAGTGAAACAGATTTAAG--C
1 CAG-ATCTTGTCTC-CCTGAAGTTGCAGTGGAGCAAATCGAAGATG
* * * * ** * **
19511052 CACCATCCTATCTCCCTAAAGTTTTAGTGGAG-TAGGCTGAAGATTG
1 CA-GATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATC-GAAGA-TG
* * *
19511098 TAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAAATCGAAGACGG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGA-TG
* * ** ** **
19511143 CAAATCTTGTCTTCCTGAAGTTGCAGTAAAGCAGTTTTAAGCCAT-
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAG--ATG
* * * * * **
19511188 C--ATCCTATCTCCCTAAAGTTGTAGTGGAG-TAGCCTGAAGATTG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATC-GAAGA-TG
* * * * * *
19511231 TAGATCTTGTTTCCCTGAAGTTGTAGTGGAACAGATCGAAGACGG
1 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGA-TG
* * * * *
19511276 C-GAACCTTGTCTTCCTGAAGTTGCAGTGGAGCAAGTTGAA-ATTA
1 CAG-ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGA-TG
* * *
19511320 CA-AGTCTTATCTCTCTGAAGTTGCAGTAGAGCA
1 CAGA-TCTTGTCTCCCTGAAGTTGCAGTGGAGCA
19511353 GACTGAAAAT
Statistics
Matches: 416, Mismatches: 156, Indels: 75
0.64 0.24 0.12
Matches are distributed among these distances:
41 1 0.00
42 5 0.01
43 96 0.23
44 33 0.08
45 270 0.65
46 10 0.02
47 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATG
Found at i:19510938 original size:133 final size:133
Alignment explanation
Indices: 19510700--19511308 Score: 957
Period size: 133 Copynumber: 4.6 Consensus size: 133
19510690 CCAATTCTAC
* * * *
19510700 AGATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAGGACGGCGAATCTAGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* *
19510765 TGTAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCTGAAGAT
19510830 TGT
131 TGT
* * *
19510833 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGACAAATCTTGTCTTCTTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* * *
19510898 TACAGTGAAGCAGATTTAAGCCACCATCCTATCTTCCTAAAGTTGTAGTGGAGTAGCCGGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCTGAAGAT
*
19510963 TAT
131 TGT
* *
19510966 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATGGCGAATCTTGTCCTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* * *
19511031 TGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAAGTTTTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCTGAAGAT
19511096 TGT
131 TGT
* *
19511099 AGATCTTGTCTCCCTGAAGTTACAGTGGAGCAAATCGAAGACGGCAAATCTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
* * *
19511164 TGCAGTAAAGCAGTTTTAAGCCATCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCTGAAGAT
19511229 TGT
131 TGT
* * * * *
19511232 AGATCTTGTTTCCCTGAAGTTGTAGTGGAACAGATCGAAGACGGCGAACCTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
*
19511297 TGCAGTGGAGCA
66 TGCAGTGAAGCA
19511309 AGTTGAAATT
Statistics
Matches: 432, Mismatches: 44, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 432 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (133 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCGAATCTTGTCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCTGAAGAT
TGT
Found at i:19511360 original size:44 final size:44
Alignment explanation
Indices: 19511290--19511449 Score: 126
Period size: 44 Copynumber: 3.6 Consensus size: 44
19511280 CCTTGTCTTC
*
19511290 CTGAAGTTGCAGTGGAGCA-AGTTGAAATTACAAGTCTTATCTCT
1 CTGAAGTTGCAGTAGAGCAGA-TTGAAATTACAAGTCTTATCTCT
* * * *
19511334 CTGAAGTTGCAGTAGAGCAGACTGAAAATAGTGAA-CCTTATCTCT
1 CTGAAGTTGCAGTAGAGCAGATTGAAATTA--CAAGTCTTATCTCT
* * ** * * * * *
19511379 CTAAAGTTGTAGTAGAGTGGGTTGAAGTCACTAGTCTTATCTCC
1 CTGAAGTTGCAGTAGAGCAGATTGAAATTACAAGTCTTATCTCT
* * *
19511423 CTGAAGTTACAGTGGAGCGGATTGAAA
1 CTGAAGTTGCAGTAGAGCAGATTGAAA
19511450 CCACAAACCT
Statistics
Matches: 87, Mismatches: 25, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
43 1 0.01
44 53 0.61
45 31 0.36
46 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
CTGAAGTTGCAGTAGAGCAGATTGAAATTACAAGTCTTATCTCT
Found at i:19511428 original size:266 final size:266
Alignment explanation
Indices: 19510700--19511435 Score: 749
Period size: 266 Copynumber: 2.8 Consensus size: 266
19510690 CCAATTCTAC
* * * * * * *
19510700 AGATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATCGAGGACGGCGAATCTAGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCGAAGACGGCGAACCTTGTCCTCCTGAAGT
* * * * * * * * * *
19510765 TGTAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAACAGATTGAAACCACAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAAAT
* * * * * * * * *
19510830 TGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGACAAATCTTGTCTTCTTGA
131 AGTAGACCTTATCTCCCTAAAGTTACAGTAGAGCAAATCGAAGACGACAAATCTTATCTCCCTGA
* *
19510895 AGTTACAGTGAAGCAGATTTAAGCCACCATCCTATCTTCCTAAAGTTGTAGTGGAGTAGCCGGAA
196 AGTTACAGTAAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCGGAA
19510960 GATTAT
261 GATTAT
* * *
19510966 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGATGGCGAATCTTGTCCTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCGAAGACGGCGAACCTTGTCCTCCTGAAGT
* * * ** * * * *
19511031 TGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAAGTTTTAGTGGAGTAGGCTGAAGAT
66 TGCAGTGAAACAGATTGAAACCACAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAAAT
* * * * * * * *
19511096 TGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAAATCGAAGACGGCAAATCTTGTCTTCCTGA
131 AGTAGACCTTATCTCCCTAAAGTTACAGTAGAGCAAATCGAAGACGACAAATCTTATCTCCCTGA
* * * *
19511161 AGTTGCAGTAAAGCAGTTTTAAGCCATCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCTGAA
196 AGTTACAGTAAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCGGAA
*
19511226 GATTGT
261 GATTAT
* * * *
19511232 AGATCTTGTTTCCCTGAAGTTGTAGTGGAACAGATCGAAGACGGCGAACCTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCGAAGACGGCGAACCTTGTCCTCCTGAAGT
* * ** * * *
19511297 TGCAGTGGAGCA-AGTTGAAATTACAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAA
66 TGCAGTGAAACAGA-TTGAAACCACAA-TCCTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAA
* ** **** * * * *
19511361 ATAGT-GAACCTTATCTCTCTAAAGTTGTAGTAGAGTGGGTTGAAGTC-ACTAGTCTTATCTCCC
129 ATAGTAG-ACCTTATCTCCCTAAAGTTACAGTAGAGCAAATCGAAGACGACAAATCTTATCTCCC
19511424 TGAAGTTACAGT
193 TGAAGTTACAGT
19511436 GGAGCGGATT
Statistics
Matches: 405, Mismatches: 62, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
265 1 0.00
266 345 0.85
267 59 0.15
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (266 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAAATCGAAGACGGCGAACCTTGTCCTCCTGAAGT
TGCAGTGAAACAGATTGAAACCACAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAAAT
AGTAGACCTTATCTCCCTAAAGTTACAGTAGAGCAAATCGAAGACGACAAATCTTATCTCCCTGA
AGTTACAGTAAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGCCGGAA
GATTAT
Found at i:19513299 original size:21 final size:22
Alignment explanation
Indices: 19513275--19513319 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
19513265 ACCTATTCCT
19513275 TTTTA-CATTGATTTTATTT-TA
1 TTTTACCATTGA-TTTATTTATA
*
19513296 TTTTACCATTTATTTATTTATA
1 TTTTACCATTGATTTATTTATA
19513318 TT
1 TT
19513320 CTTTTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTACCATTGATTTATTTATA
Found at i:19513574 original size:6 final size:6
Alignment explanation
Indices: 19513394--19513572 Score: 313
Period size: 6 Copynumber: 29.8 Consensus size: 6
19513384 TTTATTGTAT
*
19513394 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAT
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
* * *
19513442 TATTAT TGTTAT TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
19513490 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
*
19513538 TATTAA TATTAA TATTAA TATTAA TATTAT TATTA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTA
19513573 TTGTTATTAT
Statistics
Matches: 168, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 168 1.00
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.53
Consensus pattern (6 bp):
TATTAA
Found at i:19513579 original size:6 final size:6
Alignment explanation
Indices: 19513391--19513607 Score: 157
Period size: 6 Copynumber: 36.3 Consensus size: 6
19513381 ATTTTTATTG
* * * * * * *
19513391 TATTAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* * * * * *
19513439 TATTAT TATTGT TATTAT TAATAT TAATAT TAATAT TAATAT TAATAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* * * * * * * *
19513487 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* * * * * *
19513535 TAATAT TAATAT TAATAT TAATAT TAATAT TATTAT TATTGT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* * *
19513583 TAGTA- TATTAT TATCAT TCTTAT TA
1 TATTAT TATTAT TATTAT TATTAT TA
19513608 ATGTGTTATA
Statistics
Matches: 196, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
5 4 0.02
6 192 0.98
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (6 bp):
TATTAT
Found at i:19518940 original size:57 final size:58
Alignment explanation
Indices: 19518849--19518979 Score: 140
Period size: 57 Copynumber: 2.2 Consensus size: 58
19518839 TATGTGTCGA
* *
19518849 CTACTGTGACTGTTTCGGATTCGTTCCAAAGAGGTAC-TCTGTACCTG-ACTGTGACTG
1 CTACTGTTACTGTTTCAGATTCGTTCCAAAGAGGTACTTCTGTACC-GCACTGTGACTG
* * * * * * *
19518906 TTACTGTTACTGTTTCAGATTTGTTTCGATGAGGTACTTTGTGTACCGCTACTGTTACTG
1 CTACTGTTACTGTTTCAGATTCGTTCCAAAGAGGTAC-TTCTGTACCGC-ACTGTGACTG
19518966 CTACTGTTACTGTT
1 CTACTGTTACTGTT
19518980 ACCATTACGG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
57 30 0.50
58 1 0.02
59 7 0.12
60 22 0.37
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (58 bp):
CTACTGTTACTGTTTCAGATTCGTTCCAAAGAGGTACTTCTGTACCGCACTGTGACTG
Found at i:19518970 original size:12 final size:12
Alignment explanation
Indices: 19518953--19518977 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19518943 TTTGTGTACC
19518953 GCTACTGTTACT
1 GCTACTGTTACT
19518965 GCTACTGTTACT
1 GCTACTGTTACT
19518977 G
1 G
19518978 TTACCATTAC
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GCTACTGTTACT
Found at i:19535064 original size:38 final size:38
Alignment explanation
Indices: 19535013--19535089 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
19535003 GCTTGAATTG
19535013 TTAAAATGATGTTTATGCTGTTATAAGCCTCGGTAAGA
1 TTAAAATGATGTTTATGCTGTTATAAGCCTCGGTAAGA
19535051 TTAAAATGATGTTTATGCTGTTATAAGCCTCGGTAAGA
1 TTAAAATGATGTTTATGCTGTTATAAGCCTCGGTAAGA
19535089 T
1 T
19535090 GCTTGACTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (38 bp):
TTAAAATGATGTTTATGCTGTTATAAGCCTCGGTAAGA
Found at i:19540917 original size:18 final size:18
Alignment explanation
Indices: 19540894--19540934 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19540884 TACTTTTCTC
19540894 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
19540912 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
19540930 TTTCT
1 TTTCT
19540935 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:19541123 original size:38 final size:39
Alignment explanation
Indices: 19541039--19541173 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
19541029 ACCAATATGG
*
19541039 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
19541078 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
19541116 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATTTAG-TGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAA--TAGTTGA
*
19541157 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
19541174 ACTCGAGGTT
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 35 0.47
40 3 0.04
41 16 0.21
42 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:19542092 original size:12 final size:12
Alignment explanation
Indices: 19542077--19542107 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
19542067 TTCTCTTTTA
19542077 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
19542089 TTTTTCTTTCTC
1 TTTTTCTTTCCC
19542101 TTTTTCT
1 TTTTTCT
19542108 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:19545499 original size:55 final size:54
Alignment explanation
Indices: 19545398--19545504 Score: 151
Period size: 55 Copynumber: 2.0 Consensus size: 54
19545388 TTCAGAGAGA
* * * *
19545398 TAAGTTTTGTATCTTCGATCTGCTCTACTGCAACTTCAAAGTGATAAGATTTGC
1 TAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGATTTGC
**
19545452 TAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
1 TAAGATTTG-TATCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGATTT
19545505 ATGATTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 8 0.17
55 38 0.83
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
TAAGATTTGTATCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGATTTGC
Found at i:19545760 original size:44 final size:45
Alignment explanation
Indices: 19545665--19545786 Score: 167
Period size: 44 Copynumber: 2.7 Consensus size: 45
19545655 TTAGTCTTGT
* *
19545665 TCCACTGCAACTTCAAGGAAATAAGATTCGCCAACTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCCAACTTCAATCTAC
* *
19545710 TCCACTGCAACTTCAGGGAAATGAGACTT-G-TAACTTCAATCTAC
1 TCCACTGCAACTTCAGGGAAATAAGA-TTCGCCAACTTCAATCTAC
* *
19545754 TCCACTGCAACTTCAGGGAGATAGGATTCGCCA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCCA
19545787 TGGTAGATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 36 0.55
45 26 0.39
46 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGCCAACTTCAATCTAC
Found at i:19545965 original size:51 final size:49
Alignment explanation
Indices: 19545810--19545981 Score: 156
Period size: 51 Copynumber: 3.5 Consensus size: 49
19545800 CTAACCTACC
* * *
19545810 ACAACTTCAGAGGTATAGGATTTGTAACTTGTAGCTTTAATCTATTCCACT
1 ACAACTTCAG-GGAATAAGATTTGT-ACTTATAGCTTTAATCTATTCCACT
* * ** * * *
19545861 ACAACTTTAAGGAAATAA-AACTCT-C-TAT--CTTTAATTTACTCCACT
1 ACAAC-TTCAGGGAATAAGATTTGTACTTATAGCTTTAATCTATTCCACT
*
19545906 GCAACTTCAGGGAGATAAGATTTGTGACTTATAGCTTTAATCTATTCCACT
1 ACAACTTCAGGGA-ATAAGATTTGT-ACTTATAGCTTTAATCTATTCCACT
19545957 ACAACTTCAGGGTAATAAGATTTGT
1 ACAACTTCAGGG-AATAAGATTTGT
19545982 TTTCTTTCGT
Statistics
Matches: 93, Mismatches: 19, Indels: 18
0.72 0.15 0.14
Matches are distributed among these distances:
44 6 0.06
45 23 0.25
46 3 0.03
47 2 0.02
48 2 0.02
49 3 0.03
50 3 0.03
51 46 0.49
52 5 0.05
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (49 bp):
ACAACTTCAGGGAATAAGATTTGTACTTATAGCTTTAATCTATTCCACT
Found at i:19545988 original size:96 final size:96
Alignment explanation
Indices: 19545579--19546199 Score: 340
Period size: 96 Copynumber: 6.6 Consensus size: 96
19545569 CTACTGCAAT
* ** ** ** * * *
19545579 TTCAGGGAGATAAGATTTGCGATCTTCGATCCACTTCACTGAAACTTCAGGGAGATAAGATTAGT
1 TTCAGGGAAATAAGATTTGTTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * * *
19545644 AGCTTGTAGCTTTAGTCTTGTTCCACTGCAAC
66 AACTTATAGCTTTAATC-TATTCCACTACAAC
* * ** * * * * * * *
19545676 TTCAAGGAAATAAGATTCGCCAACTTCAGTCTACTCCACTGCAACTTCAGGGAAATGAGACTTGT
1 TTCAGGGAAATAAGATTTGTTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* *
19545741 AAC-T-T--C---AATCTACTCCACTGCAAC
66 AACTTATAGCTTTAATCTATTCCACTACAAC
* * * ** ** * ** * *
19545765 TTCAGGGAGATAGGATTCGCCAT-GGTAGATTTGGTCTAACCTACCACAACTTCAGAGG-TATAG
1 TTCAGGGAAATAAGATTTGTTATCTTTA-ATCT-G-CT--CC-ACTGCAACTTCAG-GGAGATAA
*
19545828 GATTTGTAACTTGTAGCTTTAATCTATTCCACTACAAC
59 GATTTGTAACTTATAGCTTTAATCTATTCCACTACAAC
* * * * * * *
19545866 TTTAAGGAAATAAAACTCT-CTATCTTTAATTTACTCCACTGCAACTTCAGGGAGATAAGATTTG
1 TTCAGGGAAATAAGA-TTTGTTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
*
19545930 TGACTTATAGCTTTAATCTATTCCACTACAAC
65 TAACTTATAGCTTTAATCTATTCCACTACAAC
* * ** * * *
19545962 TTCAGGGTAATAAGATTTGTTTTCTTTCGTCTGCTCCACTGTAACTTTAGGGAAATAAGATTTG-
1 TTCAGGGAAATAAGATTTGTTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * *
19546026 --C-TAT--CTTTAGTCTACTCCACTGCAAC
66 AACTTATAGCTTTAATCTATTCCACTACAAC
* * * * * * * * *
19546052 TTAAGGGAGATAAGACTCG-TAACTTAAACCTGCTCCACTGCAACTTCAGGGGGATAAGGTTTGT
1 TTCAGGGAAATAAGATTTGTTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
* * * * *
19546116 AATTTGTAGCTTTAATCTGTTCCACTGCAAT
66 AACTTATAGCTTTAATCTATTCCACTACAAC
* * * * *
19546147 TTCAGTGAAATAAGATTTGCTATTTTTAGTCCGCTCCACTGCAACTTCAGGGA
1 TTCAGGGAAATAAGATTTGTTATCTTTAATCTGCTCCACTGCAACTTCAGGGA
19546200 CATGGGACTC
Statistics
Matches: 395, Mismatches: 104, Indels: 51
0.72 0.19 0.09
Matches are distributed among these distances:
88 1 0.00
89 66 0.17
90 36 0.09
91 2 0.01
92 3 0.01
93 6 0.02
94 22 0.06
95 40 0.10
96 125 0.32
97 55 0.14
98 1 0.00
99 2 0.01
101 33 0.08
102 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (96 bp):
TTCAGGGAAATAAGATTTGTTATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
AACTTATAGCTTTAATCTATTCCACTACAAC
Found at i:19546019 original size:45 final size:45
Alignment explanation
Indices: 19545844--19546199 Score: 173
Period size: 45 Copynumber: 7.7 Consensus size: 45
19545834 TAACTTGTAG
* * * * *
19545844 CTTTAATCTATTCCACTACAACTTTAA-GGAAATAAAACTCT-CTAT
1 CTTTAGTCTACTCCACTGCAAC-TTAAGGGAAATAAGA-TTTGCTAT
* * * *
19545889 CTTTAATTTACTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTAT
1 CTTTAGTCTACTCCACTGCAACTTAAGGGAAATAAGA-TT-TG-C-TAT
* * * * * * *
19545938 AGCTTTAATCTATTCCACTACAACTTCAGGGTAATAAGATTTGTTTT
1 --CTTTAGTCTACTCCACTGCAACTTAAGGGAAATAAGATTTGCTAT
* * * *
19545985 CTTTCGTCTGCTCCACTGTAACTTTAGGGAAATAAGATTTGCTAT
1 CTTTAGTCTACTCCACTGCAACTTAAGGGAAATAAGATTTGCTAT
* * * *
19546030 CTTTAGTCTACTCCACTGCAACTTAAGGGAGATAAGACTCG-TAA
1 CTTTAGTCTACTCCACTGCAACTTAAGGGAAATAAGATTTGCTAT
* ** * * ** *
19546074 CTTAAACCTGCTCCACTGCAACTTCAGGGGGATAAGGTTTG-TAAT
1 CTTTAGTCTACTCCACTGCAACTTAAGGGAAATAAGATTTGCT-AT
* * * *
19546119 -TTGTAGCTTTAATCTGTTCCACTGCAATTTCAGTGAAATAAGATTTGCTAT
1 CTT-TAG-TCT-A-C---TCCACTGCAACTTAAGGGAAATAAGATTTGCTAT
* ** *
19546170 TTTTAGTCCGCTCCACTGCAACTTCAGGGA
1 CTTTAGTCTACTCCACTGCAACTTAAGGGA
19546200 CATGGGACTC
Statistics
Matches: 236, Mismatches: 58, Indels: 34
0.72 0.18 0.10
Matches are distributed among these distances:
44 40 0.17
45 116 0.49
46 2 0.01
47 2 0.01
48 3 0.01
49 5 0.02
50 3 0.01
51 62 0.26
52 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTTAGTCTACTCCACTGCAACTTAAGGGAAATAAGATTTGCTAT
Found at i:19546030 original size:141 final size:140
Alignment explanation
Indices: 19545571--19546066 Score: 403
Period size: 141 Copynumber: 3.5 Consensus size: 140
19545561 AATTTTCTCT
* * * * * *
19545571 ACTGCAA-TTTCAGGGAGATAAGATTTGCGATCTTCGATCCACTTCACTGAAACTTCAGGGAGAT
1 ACTGCAACTTT-AGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGAT
* * * * * ****
19545635 AAGATTAGTAGCTTGTAGCTTTAGTCTTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCCAAC
65 AAGATTAGTA-CTTGTAGCTTTAGTC-TATTCCACTACAACTTCAGGGTAATAAGATTTGTTTTC
19545700 -TTCAGTCTACTCC
128 TTTC-GTCTACTCC
* * * *
19545713 ACTGCAACTTCAGGGAAATGAGACTTG-TAACTTCAATCTACTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
* * * * * * * * *
19545777 GGATTCG-CCATGGTAGATTTGGTCTA-ACCTACCACAACTTCAGAGGT-ATAGGATTTGTAACT
66 AGATTAGTAC-TTGTAGCTTTAGTCTATTCC-ACTACAACTTCAG-GGTAATAAGATTTGT---T
** *
19545839 TGTAGCTTTAATCTATTCC
125 T-T--CTTTCGTCTACTCC
* * * * * *
19545858 ACTACAACTTTAAGGAAATAAAACTCT-CTATCTTTAATTTACTCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTTAGGGAAATAAGA-TTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGAT
* * *
19545922 AAGATTTGTGACTTATAGCTTTAATCTATTCCACTACAACTTCAGGGTAATAAGATTTGTTTTCT
65 AAGATTAGT-ACTTGTAGCTTTAGTCTATTCCACTACAACTTCAGGGTAATAAGATTTGTTTTCT
*
19545987 TTCGTCTGCTCC
129 TTCGTCTACTCC
* * * *
19545999 ACTGTAACTTTAGGGAAATAAGATTTGCTATCTTTAGTCTACTCCACTGCAACTTAAGGGAGATA
1 ACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
19546064 AGA
66 AGA
19546067 CTCGTAACTT
Statistics
Matches: 272, Mismatches: 64, Indels: 37
0.73 0.17 0.10
Matches are distributed among these distances:
138 2 0.01
139 20 0.07
140 15 0.06
141 103 0.38
142 20 0.07
143 3 0.01
144 2 0.01
145 26 0.10
146 45 0.17
147 33 0.12
148 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (140 bp):
ACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
AGATTAGTACTTGTAGCTTTAGTCTATTCCACTACAACTTCAGGGTAATAAGATTTGTTTTCTTT
CGTCTACTCC
Found at i:19546209 original size:140 final size:140
Alignment explanation
Indices: 19545991--19546248 Score: 338
Period size: 140 Copynumber: 1.8 Consensus size: 140
19545981 TTTTCTTTCG
* *
19545991 TCTGCTCCACTGTAACTTTAGGGAAATAAGATTTGCTATCTTTAGTCTACTCCACTGCAACTTAA
1 TCTGCTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTTAGTCCACTCCACTGCAACTTAA
* * * * *
19546056 GGGAGATAAGACTCGTAACTTAAACCTGCTCCACTGCAACTTCAGGGGGATAAGGTTTGTAATTT
66 GGGACATAAGACTCATAACCTAAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTAATTT
19546121 GTAGCTTTAA
131 GTAGCTTTAA
* * * * *
19546131 TCTGTTCCACTGCAA-TTTCAGTGAAATAAGATTTGCTATTTTTAGTCCGCTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTT-AGGGAAATAAGATTTGCTATCTTTAGTCCACTCCACTGCAACTTA
** ** * *
19546195 AGGGACATGGGACTCATGGCCTCAATCTGCTCCACTACAACTTCAGGGAGATAA
65 AGGGACATAAGACTCATAACCTAAACCTGCTCCACTACAACTTCAGGGAGATAA
19546249 AATTCGCCAT
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
139 3 0.03
140 96 0.97
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (140 bp):
TCTGCTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTTAGTCCACTCCACTGCAACTTAA
GGGACATAAGACTCATAACCTAAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTAATTT
GTAGCTTTAA
Found at i:19546790 original size:13 final size:13
Alignment explanation
Indices: 19546772--19546796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19546762 GGTTTGTTTA
19546772 TTAAACTAATTAT
1 TTAAACTAATTAT
19546785 TTAAACTAATTA
1 TTAAACTAATTA
19546797 ACTAATTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:19549804 original size:27 final size:27
Alignment explanation
Indices: 19549767--19549832 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 27
19549757 CCCTTATCAG
19549767 ACTAT-AACATGGTAGCATAATTAGAA
1 ACTATCAACATGGTAGCATAATTAGAA
*
19549793 ACTATCAACATGGTAGCATATTTAGAA
1 ACTATCAACATGGTAGCATAATTAGAA
19549820 ACTATCAAACATG
1 ACTATC-AACATG
19549833 TTGGGTTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
26 5 0.14
27 26 0.70
28 6 0.16
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (27 bp):
ACTATCAACATGGTAGCATAATTAGAA
Found at i:19555500 original size:69 final size:70
Alignment explanation
Indices: 19555418--19555582 Score: 206
Period size: 71 Copynumber: 2.4 Consensus size: 70
19555408 TTGCGCTTAG
* *
19555418 CGCTGGTTGGTAGAACTGACAA-AACTGTACCCAACACTGGTCGGTATAACTAACAATAAATGCA
1 CGCTGGTTGGTAGAACTGACAATAACTGTACCCAACACTGGTCGATATAACCAACAATAAATGCA
19555482 CCCTA
66 CCCTA
* ** * * * * *
19555487 CGCTGGTTGGTAGAACTGACAAATAAGTGTGGCCAACATTGGTTGATATAGCCGACAATAATTGC
1 CGCTGGTTGGTAGAACTGAC-AATAACTGTACCCAACACTGGTCGATATAACCAACAATAAATGC
*
19555552 GCCCTA
65 ACCCTA
*
19555558 CGTTGGTTGGTAGAACTGACAATAA
1 CGCTGGTTGGTAGAACTGACAATAA
19555583 TTGCAACCTA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
69 20 0.24
70 7 0.09
71 55 0.67
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (70 bp):
CGCTGGTTGGTAGAACTGACAATAACTGTACCCAACACTGGTCGATATAACCAACAATAAATGCA
CCCTA
Found at i:19555605 original size:35 final size:35
Alignment explanation
Indices: 19555418--19555607 Score: 148
Period size: 35 Copynumber: 5.4 Consensus size: 35
19555408 TTGCGCTTAG
* * *
19555418 CGCTGGTTGGTAGAACTGACAA-AACTGTACCCAA
1 CGCTGGTTGGTAGAACTGACAATAATTGCACCCTA
* * * * *
19555452 CACTGGTCGGTATAACTAACAATAAATGCACCCTA
1 CGCTGGTTGGTAGAACTGACAATAATTGCACCCTA
* *** *
19555487 CGCTGGTTGGTAGAACTGACAAATAAGTGTGGCCAA
1 CGCTGGTTGGTAGAACTGAC-AATAATTGCACCCTA
** * * * * *
19555523 CATTGGTTGATATAGCCGACAATAATTGCGCCCTA
1 CGCTGGTTGGTAGAACTGACAATAATTGCACCCTA
* *
19555558 CGTTGGTTGGTAGAACTGACAATAATTGCAACCTA
1 CGCTGGTTGGTAGAACTGACAATAATTGCACCCTA
* *
19555593 TGCTGGTCGGTAGAA
1 CGCTGGTTGGTAGAA
19555608 TCGACAAATA
Statistics
Matches: 118, Mismatches: 36, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
34 18 0.15
35 76 0.64
36 24 0.20
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (35 bp):
CGCTGGTTGGTAGAACTGACAATAATTGCACCCTA
Found at i:19563994 original size:24 final size:25
Alignment explanation
Indices: 19563962--19564010 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
19563952 TAAATTACGT
*
19563962 ACCAAACCTTGCAAACCAA-GACAC
1 ACCAAACCTTACAAACCAAGGACAC
*
19563986 ACCAAACCTTACACACCAAGGACAC
1 ACCAAACCTTACAAACCAAGGACAC
19564011 TAGAAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.45, C:0.39, G:0.08, T:0.08
Consensus pattern (25 bp):
ACCAAACCTTACAAACCAAGGACAC
Found at i:19564766 original size:71 final size:71
Alignment explanation
Indices: 19564622--19564872 Score: 197
Period size: 71 Copynumber: 3.5 Consensus size: 71
19564612 GTGCTAGTCT
** * * ** *
19564622 GTAGAATTTAAAAATAAGTGT-CCCAACACTGGTTGGTATAACCGACAATAATTTTAC-CC-TAC
1 GTAGAATCGAAAAATAAGTGTGCCCAAAACTAGTCAGTATAACCGACAATAA--TTACGCCTTGC
** * *
19564684 ATTGGTCG
64 GCTAGTAG
* * * * ** *
19564692 GTAGAGTCGAAAAATAAATGTGCCCAAAA-TTGATCGGTATAATTGACAATAATTATGCCTTGCG
1 GTAGAATCGAAAAATAAGTGTGCCCAAAACTAG-TCAGTATAACCGACAATAATTACGCCTTGCG
19564756 CTAGTAG
65 CTAGTAG
* ** *
19564763 GTAGAATC-AACAAATAAGTGTGCCTAGCACTAGTCAGTATAACCGACAATAATTGCGCCTTGCG
1 GTAGAATCGAA-AAATAAGTGTGCCCAAAACTAGTCAGTATAACCGACAATAATTACGCCTTGCG
* *
19564827 CTGGTCG
65 CTAGTAG
* *
19564834 GTAGAACCGAAAAATAAGTGTGCCCAACACTAGTCAGTA
1 GTAGAATCGAAAAATAAGTGTGCCCAAAACTAGTCAGTA
19564873 GAATCAAGAA
Statistics
Matches: 143, Mismatches: 31, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
69 3 0.02
70 23 0.16
71 113 0.79
72 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (71 bp):
GTAGAATCGAAAAATAAGTGTGCCCAAAACTAGTCAGTATAACCGACAATAATTACGCCTTGCGC
TAGTAG
Found at i:19564787 original size:36 final size:36
Alignment explanation
Indices: 19564763--19564890 Score: 116
Period size: 36 Copynumber: 3.6 Consensus size: 36
19564753 GCGCTAGTAG
*
19564763 GTAGAATCAACAAATAAGTGTGCCTAGCACTAGTCA
1 GTAGAACCAACAAATAAGTGTGCCTAGCACTAGTCA
* * * * * * * *
19564799 GTATAACCGAC-AATAATTGCGCCTTGCGCTGGTCG
1 GTAGAACCAACAAATAAGTGTGCCTAGCACTAGTCA
* *
19564834 GTAGAACCGAA-AAATAAGTGTGCCCAACACTAGTCA
1 GTAGAACC-AACAAATAAGTGTGCCTAGCACTAGTCA
* *
19564870 GTAGAATCAAGAAATAAGTGT
1 GTAGAACCAACAAATAAGTGT
19564891 CCATTCGTTC
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
35 27 0.39
36 42 0.61
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (36 bp):
GTAGAACCAACAAATAAGTGTGCCTAGCACTAGTCA
Found at i:19564842 original size:35 final size:35
Alignment explanation
Indices: 19564736--19564857 Score: 109
Period size: 36 Copynumber: 3.4 Consensus size: 35
19564726 CGGTATAATT
* * *
19564736 GACAATAATTATGCCTTGCGCTAGTAGGTAGAATC
1 GACAATAATTGTGCCTTGCGCTAGTCGGTAGAACC
* * * * * *
19564771 AACAAATAAGTGTGCCTAGCACTAGTCAGTATAACC
1 GAC-AATAATTGTGCCTTGCGCTAGTCGGTAGAACC
* *
19564807 GACAATAATTGCGCCTTGCGCTGGTCGGTAGAACC
1 GACAATAATTGTGCCTTGCGCTAGTCGGTAGAACC
* *
19564842 GAAAAATAAGTGTGCC
1 G-ACAATAATTGTGCC
19564858 CAACACTAGT
Statistics
Matches: 65, Mismatches: 20, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
35 28 0.43
36 37 0.57
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (35 bp):
GACAATAATTGTGCCTTGCGCTAGTCGGTAGAACC
Found at i:19566675 original size:2 final size:2
Alignment explanation
Indices: 19566668--19566710 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
19566658 GATCCCTCAT
* * *
19566668 AC AC AC AC AC AT AC AC GC AC AC AA AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
19566710 A
1 A
19566711 TATATATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.44, G:0.02, T:0.02
Consensus pattern (2 bp):
AC
Found at i:19566767 original size:2 final size:2
Alignment explanation
Indices: 19566710--19566747 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
19566700 ACACACACAC
*
19566710 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19566748 GACATAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:19568112 original size:29 final size:30
Alignment explanation
Indices: 19568080--19568136 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19568070 AATTTGAAAT
* *
19568080 TTAATTTTTATA-TTTTTATTTTTAAAAAA
1 TTAATTTTTATACTTTTAAATTTTAAAAAA
19568109 TTAATTTTTATACTTTTAAATTTTAAAA
1 TTAATTTTTATACTTTTAAATTTTAAAA
19568137 TTTCGATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
TTAATTTTTATACTTTTAAATTTTAAAAAA
Found at i:19568375 original size:29 final size:29
Alignment explanation
Indices: 19568325--19568380 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
19568315 AAGAAGGAAA
*
19568325 ATTAAATTCTTAAAAATAAAAGTGTATGG
1 ATTAAATTCTTAAAAATAAAAGAGTATGG
* *
19568354 ATTAAATT-TTGAAAATTTAAAGAGTAT
1 ATTAAATTCTT-AAAAATAAAAGAGTAT
19568381 ATGTACTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (29 bp):
ATTAAATTCTTAAAAATAAAAGAGTATGG
Found at i:19568909 original size:16 final size:16
Alignment explanation
Indices: 19568884--19568914 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19568874 TTAAATAGTT
19568884 AAAATAAAATTATAAA
1 AAAATAAAATTATAAA
*
19568900 AAAATTAAATTATAA
1 AAAATAAAATTATAA
19568915 TGATAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATAAAATTATAAA
Found at i:19568937 original size:28 final size:25
Alignment explanation
Indices: 19568898--19568949 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
19568888 TAAAATTATA
*
19568898 AAAAAATTAAATTATAATGATAATTTT
1 AAAAAATTAAATGATAA-GA-AATTTT
19568925 AAAAAATTCAAATGATAAGAAATTT
1 AAAAAATT-AAATGATAAGAAATTT
19568950 AGATATTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 10 0.43
28 8 0.35
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
AAAAAATTAAATGATAAGAAATTTT
Done.