Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 87 of 250
Found at i:27820366 original size:12 final size:13
Alignment explanation
Indices: 27820349--27820386 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
27820339 ATCCTGGAAT
27820349 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
27820361 ATTAAGAACACATA
1 ATTAAGAACA-AGA
27820375 ATTAAGAACAAG
1 ATTAAGAACAAG
27820387 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:27825910 original size:39 final size:39
Alignment explanation
Indices: 27825852--27825984 Score: 214
Period size: 39 Copynumber: 3.4 Consensus size: 39
27825842 ATGCATGTTA
*
27825852 CTGGAAAAATATCCAGACTTGAAGTCCGCAGGCTTTATG
1 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATG
27825891 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATG
1 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATG
* * *
27825930 CTGGAAACATATCCGGACTTAAAGTCCGCAGGC-TAAGTG
1 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TG
27825969 CTGGAAAAATATCCGG
1 CTGGAAAAATATCCGG
27825985 GCTAAGTCCC
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 2 0.02
39 86 0.98
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (39 bp):
CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATG
Found at i:27826009 original size:39 final size:39
Alignment explanation
Indices: 27825852--27826011 Score: 166
Period size: 39 Copynumber: 4.1 Consensus size: 39
27825842 ATGCATGTTA
* * *
27825852 CTGGAAAAATATCCAGACTTGAAGTCCGCAGGCTTTA-TG
1 CTGGAAAAATATCCGGACTTAAAGTCCGAAGGC-TTAGTG
* *
27825891 CTGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TG
1 CTGGAAAAATATCCGGACTTAAAGTCCGAAGGC-TTAGTG
* * *
27825930 CTGGAAACATATCCGGACTTAAAGTCCGCAGGCTAAGTG
1 CTGGAAAAATATCCGGACTTAAAGTCCGAAGGCTTAGTG
* *
27825969 CTGGAAAAATATCCGGGC-T-AAGTCCCGAAGGCATTCGTG
1 CTGGAAAAATATCCGGACTTAAAGT-CCGAAGGC-TTAGTG
27826008 CTGG
1 CTGG
27826012 TGTTATATCC
Statistics
Matches: 109, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
37 4 0.04
38 10 0.09
39 95 0.87
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (39 bp):
CTGGAAAAATATCCGGACTTAAAGTCCGAAGGCTTAGTG
Found at i:27826010 original size:78 final size:78
Alignment explanation
Indices: 27825852--27826011 Score: 200
Period size: 78 Copynumber: 2.1 Consensus size: 78
27825842 ATGCATGTTA
* *
27825852 CTGGAAAAATATCCAGACTTGAAGTCCGCAGGCTTTATGCTGGAAAAATATCCGGACTTGAAGTC
1 CTGGAAAAATATCCAGACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATCCGGACTTGAAGTC
* *
27825917 CGCAGGCTTTATG
66 CGAAGGCTTCATG
* * *
27825930 CTGGAAACATATCCGGACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAAATATCCGGGC-T-AAGT
1 CTGGAAAAATATCCAGACTTAAAGTCCGCAGGCTTAA-TGCTGGAAAAATATCCGGACTTGAAGT
*
27825992 CCCGAAGGCATTCGTG
65 -CCGAAGGC-TTCATG
27826008 CTGG
1 CTGG
27826012 TGTTATATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
76 4 0.06
77 10 0.14
78 57 0.80
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (78 bp):
CTGGAAAAATATCCAGACTTAAAGTCCGCAGGCTTAATGCTGGAAAAATATCCGGACTTGAAGTC
CGAAGGCTTCATG
Found at i:27826042 original size:14 final size:14
Alignment explanation
Indices: 27826023--27826053 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
27826013 GTTATATCCG
27826023 GGCTAAGTCCTGAA
1 GGCTAAGTCCTGAA
27826037 GGCTAAGTCCTGAA
1 GGCTAAGTCCTGAA
27826051 GGC
1 GGC
27826054 ATTCGTGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (14 bp):
GGCTAAGTCCTGAA
Found at i:27826064 original size:53 final size:53
Alignment explanation
Indices: 27825984--27826092 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 53
27825974 AAAATATCCG
* *
27825984 GGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCTGAA
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAA
* *
27826037 GGCTAAGTCCTGAAGGCATTCGTGCTGGTATTATATCTGGGCTAAGTCCCGAA
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAA
27826090 GGC
1 GGC
27826093 ATTCGTGCTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (53 bp):
GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAA
Found at i:27826091 original size:39 final size:39
Alignment explanation
Indices: 27826037--27826206 Score: 259
Period size: 39 Copynumber: 4.3 Consensus size: 39
27826027 AAGTCCTGAA
* *
27826037 GGCTAAGTCCTGAAGGCATTCGTGCTGGTATTATATCTG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
**
27826076 GGCTAAGTCCCGAAGGCATTCGTGCTGGTGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
* *
27826115 GGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATTCG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
*
27826154 GGCTAAGTCCCGAAGGCATTTGTGCTGGTATTATATCCG
1 GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
27826193 GGCTTAAAGTCCCG
1 GGC-T-AAGTCCCG
27826207 CATGCTTTGT
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
39 111 0.93
40 1 0.01
41 8 0.07
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCG
Found at i:27832552 original size:12 final size:13
Alignment explanation
Indices: 27832535--27832572 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
27832525 ATCCTGGAAT
27832535 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
27832547 ATTAAGAACACATA
1 ATTAAGAACA-AGA
27832561 ATTAAGAACAAG
1 ATTAAGAACAAG
27832573 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:27833842 original size:20 final size:20
Alignment explanation
Indices: 27833789--27833842 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
27833779 CGCGGCCTGC
27833789 CCACACGAGCGTGTCCCAAG
1 CCACACGAGCGTGTCCCAAG
* * *
27833809 CCATATGAGTGTGTCCCAAG
1 CCACACGAGCGTGTCCCAAG
*
27833829 CCACACGGGCGTGT
1 CCACACGAGCGTGT
27833843 GGCTCTTAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (20 bp):
CCACACGAGCGTGTCCCAAG
Found at i:27839058 original size:40 final size:40
Alignment explanation
Indices: 27838984--27839245 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 40
27838974 AACCCAAGTA
* * *
27838984 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
27839023 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
27839063 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
27839103 CCTTCGGGACTTAGCCCGAATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * *
27839143 CCTTCGGGACTGAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
27839183 CCTTCGGGACTTAGCCCGGATATAATCACTAGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
27839223 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
27839246 CATTCGAATA
Statistics
Matches: 202, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 12 0.06
40 187 0.93
41 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:27858623 original size:26 final size:26
Alignment explanation
Indices: 27858594--27858644 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
27858584 GTCTATCGCG
27858594 AGGCTGATGCATGTCCCAGACATGTA
1 AGGCTGATGCATGTCCCAGACATGTA
27858620 AGGCTGATGCATGTCCCAGACATGT
1 AGGCTGATGCATGTCCCAGACATGT
27858645 CTTACACTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (26 bp):
AGGCTGATGCATGTCCCAGACATGTA
Found at i:27858736 original size:46 final size:47
Alignment explanation
Indices: 27858620--27858746 Score: 177
Period size: 48 Copynumber: 2.7 Consensus size: 47
27858610 CAGACATGTA
*
27858620 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATA-CTTG
* *
27858668 AGGCCGATGCATGTCCCAGACATGTCTTACGCTGGCTCT-CATA-TTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATACTTG
* *
27858714 TGGCCGATGCATGTCCCAGACATATCTTACACT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACT
27858747 AGCACACATA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 33 0.46
48 38 0.53
49 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATACTTG
Found at i:27858757 original size:46 final size:46
Alignment explanation
Indices: 27858620--27858757 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 46
27858610 CAGACATGTA
* * * *
27858620 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGC--ACACATATTG
* * *
27858668 AGGCCGATGCATGTCCCAGACATGTCTTACGCTGGCTCTCATATTG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACACATATTG
* * *
27858714 TGGCCGATGCATGTCCCAGACATATCTTACACTAGCACACATAT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACACATAT
27858758 CACCCAATAT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 43 0.56
48 34 0.44
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCACACATATTG
Found at i:27868906 original size:40 final size:40
Alignment explanation
Indices: 27868822--27869005 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
27868812 TTGAATGCTG
* * * *
27868822 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
27868861 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
27868902 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
27868942 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
27868982 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27869006 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:27868959 original size:80 final size:81
Alignment explanation
Indices: 27868822--27869002 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
27868812 TTGAATGCTG
* * *
27868822 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
27868886 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
27868902 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
27868963 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
27868982 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
27869003 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:27869026 original size:39 final size:38
Alignment explanation
Indices: 27868903--27869052 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
27868893 GTTATTAATT
* ** * *
27868903 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
27868943 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
27868982 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
27869022 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
27869053 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:27876207 original size:131 final size:131
Alignment explanation
Indices: 27875973--27876231 Score: 482
Period size: 131 Copynumber: 2.0 Consensus size: 131
27875963 TCGTAAAACC
* * *
27875973 GAGTCAAAAATAATTTTATAAATATTTATGAAATGTTATTAATGTGGTATTAAAATTTCGTTAGG
1 GAGTCAAAAATAAATTTATAAATATTTATGAAATGCTATTAATGTGGTATTAAAATTTCGTTAAG
27876038 AAATTTTAATGTTTGGGTAGTCAATTAAATGAAAAGGACTAAATTGTAATAAGTGTAAAAGTTGC
66 AAATTTTAATGTTTGGGTAGTCAATTAAATGAAAAGGACTAAATTGTAATAAGTGTAAAAGTTGC
27876103 T
131 T
27876104 GAGTCAAAAATAAATTTATAAATATTTATGAAATGCTATTAATGTGGTATTAAAATTTCGTTAAG
1 GAGTCAAAAATAAATTTATAAATATTTATGAAATGCTATTAATGTGGTATTAAAATTTCGTTAAG
*
27876169 AAATTTTAATGTTTGGGTAGTCAATTAAATGAAAAGGACTAAATTGTAATAGGTGTAAAAGTT
66 AAATTTTAATGTTTGGGTAGTCAATTAAATGAAAAGGACTAAATTGTAATAAGTGTAAAAGTT
27876232 ATTAGAGTGA
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 124 1.00
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.37
Consensus pattern (131 bp):
GAGTCAAAAATAAATTTATAAATATTTATGAAATGCTATTAATGTGGTATTAAAATTTCGTTAAG
AAATTTTAATGTTTGGGTAGTCAATTAAATGAAAAGGACTAAATTGTAATAAGTGTAAAAGTTGC
T
Found at i:28095825 original size:46 final size:45
Alignment explanation
Indices: 28095758--28095924 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 45
28095748 CGCCCCTAAG
*
28095758 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* *
28095804 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
28095851 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
28095897 TGAACTC-GACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
28095925 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 22 0.21
46 34 0.33
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:28095869 original size:93 final size:92
Alignment explanation
Indices: 28095759--28095928 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
28095749 GCCCCTAAGT
* *
28095759 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTC-GACTCAACTCAA
28095824 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
28095852 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGACTCAACTCAAC
28095917 GAGTTCGGATGC
66 GAGTTCGGATGC
28095929 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 25 0.35
93 47 0.65
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:28103087 original size:19 final size:20
Alignment explanation
Indices: 28103063--28103100 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
28103053 GGTACCACCA
28103063 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
28103082 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
28103101 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:28103439 original size:93 final size:93
Alignment explanation
Indices: 28103329--28103499 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
28103319 GCCCCTAAGT
* *
28103329 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
28103394 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
28103422 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
28103487 CGAGTTCGGATGC
66 CGAGTTCGGATGC
28103500 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:28103496 original size:46 final size:46
Alignment explanation
Indices: 28103324--28103496 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
28103314 AACCCGCCCC
* * * *
28103324 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
28103370 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
28103418 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
28103463 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
28103497 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:28113132 original size:9 final size:8
Alignment explanation
Indices: 28113118--28113174 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
28113108 TCTTGATTGG
28113118 TTTAATCTA
1 TTTAAT-TA
28113127 TTTAATTA
1 TTTAATTA
**
28113135 TTTGTTTA
1 TTTAATTA
*
28113143 TTTTATTA
1 TTTAATTA
*
28113151 TTTATTTA
1 TTTAATTA
*
28113159 TTTTAGTTA
1 -TTTAATTA
28113168 TTTAATT
1 TTTAATT
28113175 CTTGACATTC
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
8 26 0.67
9 13 0.33
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (8 bp):
TTTAATTA
Found at i:28113150 original size:16 final size:16
Alignment explanation
Indices: 28113125--28113171 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
28113115 TGGTTTAATC
* *
28113125 TATTTAATTATTTGTT
1 TATTTTATTATTTATT
28113141 TATTTTATTATTTATT
1 TATTTTATTATTTATT
28113157 TATTTTAGTTATTTA
1 TATTTTA-TTATTTA
28113172 ATTCTTGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 21 0.75
17 7 0.25
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (16 bp):
TATTTTATTATTTATT
Found at i:28120346 original size:51 final size:51
Alignment explanation
Indices: 28120269--28120372 Score: 165
Period size: 51 Copynumber: 2.0 Consensus size: 51
28120259 AAAATACACG
* *
28120269 GTGGCCTTCACATAATACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAATACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
*
28120320 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAATACCACACTTGTGTCCAAAGCTATTATATTCACAAA
28120371 GT
1 GT
28120373 TCAACAGGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 1 0.02
51 48 0.98
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAATACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:28120433 original size:28 final size:28
Alignment explanation
Indices: 28120389--28120532 Score: 139
Period size: 28 Copynumber: 5.4 Consensus size: 28
28120379 GGGAAATTTC
*
28120389 TCACTTAGCAC-TATGCCATGGACTTATT
1 TCACTTAACACAT-TGCCATGGACTTATT
28120417 TCACTTAACACATTGCCATGGACTTATT
1 TCACTTAACACATTGCCATGGACTTATT
* *
28120445 TCACTT---AGA-TGCCATGGTCTTATT
1 TCACTTAACACATTGCCATGGACTTATT
*
28120469 T-AGC-TAAGTACATTGCCATGGACTTATT
1 TCA-CTTAA-CACATTGCCATGGACTTATT
*
28120497 TCACTT-A-A-A-TGCCATGGTCTTATT
1 TCACTTAACACATTGCCATGGACTTATT
28120521 TCACTTAACACA
1 TCACTTAACACA
28120533 ATATCATATC
Statistics
Matches: 98, Mismatches: 6, Indels: 25
0.76 0.05 0.19
Matches are distributed among these distances:
23 2 0.02
24 36 0.37
25 4 0.04
26 2 0.02
27 3 0.03
28 48 0.49
29 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (28 bp):
TCACTTAACACATTGCCATGGACTTATT
Found at i:28120460 original size:52 final size:52
Alignment explanation
Indices: 28120401--28120532 Score: 205
Period size: 52 Copynumber: 2.5 Consensus size: 52
28120391 ACTTAGCACT
* *
28120401 ATGCCATGGACTTATTTCACTTAACACATTGCCATGGACTTATTTCACTTAG
1 ATGCCATGGTCTTATTTCACTTAACACATTGCCATGGACTTATTTCACTTAA
*
28120453 ATGCCATGGTCTTATTT-AGC-TAAGTACATTGCCATGGACTTATTTCACTTAA
1 ATGCCATGGTCTTATTTCA-CTTAA-CACATTGCCATGGACTTATTTCACTTAA
28120505 ATGCCATGGTCTTATTTCACTTAACACA
1 ATGCCATGGTCTTATTTCACTTAACACA
28120533 ATATCATATC
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
51 4 0.06
52 64 0.89
53 4 0.06
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (52 bp):
ATGCCATGGTCTTATTTCACTTAACACATTGCCATGGACTTATTTCACTTAA
Found at i:28120528 original size:24 final size:24
Alignment explanation
Indices: 28120401--28120528 Score: 132
Period size: 24 Copynumber: 5.0 Consensus size: 24
28120391 ACTTAGCACT
28120401 ATGCCATGGACTTATTTCACTTAACA
1 ATGCCATGGACTTATTTCACTT-A-A
*
28120427 CATTGCCATGGACTTATTTCACTTAG
1 -A-TGCCATGGACTTATTTCACTTAA
*
28120453 ATGCCATGGTCTTATTT-AGCTAAGTACA
1 ATGCCATGGACTTATTTCA-CT---TA-A
*
28120481 TTGCCATGGACTTATTTCACTTAA
1 ATGCCATGGACTTATTTCACTTAA
*
28120505 ATGCCATGGTCTTATTTCACTTAA
1 ATGCCATGGACTTATTTCACTTAA
28120529 CACAATATCA
Statistics
Matches: 87, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
23 1 0.01
24 40 0.46
25 3 0.03
27 4 0.05
28 38 0.44
29 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAA
Found at i:28120707 original size:45 final size:45
Alignment explanation
Indices: 28120639--28120728 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
28120629 ACACTACGCA
* * *
28120639 ACGATCGTGATCTATCCTGCGCTTTTACTCAATTTGAACTTTTAC
1 ACGATCGTGATATATCCTACGCTTTTACTCAATTCGAACTTTTAC
28120684 ACGATCGTGATATATCCTACGCTTTTACTCAATTCGAACTTTTAC
1 ACGATCGTGATATATCCTACGCTTTTACTCAATTCGAACTTTTAC
28120729 TTTAATTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (45 bp):
ACGATCGTGATATATCCTACGCTTTTACTCAATTCGAACTTTTAC
Found at i:28121729 original size:25 final size:26
Alignment explanation
Indices: 28121692--28121761 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
28121682 CTCTTTTAAT
*
28121692 AACTGGGGCAAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
*
28121717 AATTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
28121742 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
28121762 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.12
25 32 0.80
26 3 0.08
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:28122048 original size:54 final size:54
Alignment explanation
Indices: 28121990--28122155 Score: 233
Period size: 54 Copynumber: 3.1 Consensus size: 54
28121980 AGGGTCTCTC
* *
28121990 GATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTT
1 GATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTT
* * * * * *
28122044 GATAATTCTACCCTACAAGGTTATTTCAATAATTCTACCATACGGGGGTATTTC
1 GATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTT
* **
28122098 GGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTT
1 GATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTT
28122152 GATA
1 GATA
28122156 TTTTACAAAT
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTT
Found at i:28122092 original size:81 final size:81
Alignment explanation
Indices: 28121991--28122150 Score: 248
Period size: 81 Copynumber: 2.0 Consensus size: 81
28121981 GGGTCTCTCG
* *
28121991 ATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTTGATAATTCTACC
1 ATAATTCTACCATACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTGATAATTCTACC
*
28122056 CTACAAGGTTATTTCA
66 CTACAAGGGTATTTCA
* * * *
28122072 ATAATTCTACCATACGGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACC
1 ATAATTCTACCATACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTGATAATTCTACC
*
28122137 CTACAGGGGTATTT
66 CTACAAGGGTATTT
28122151 TGATATTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
ATAATTCTACCATACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTGATAATTCTACC
CTACAAGGGTATTTCA
Found at i:28122152 original size:27 final size:27
Alignment explanation
Indices: 28121992--28122150 Score: 210
Period size: 27 Copynumber: 5.9 Consensus size: 27
28121982 GGTCTCTCGA
*
28121992 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * * *
28122019 TATTTCTACCCTACAAGGGTATTTTGA
1 TAATTCTACCCTACAGGGGTATTTCGG
* * **
28122046 TAATTCTACCCTACAAGGTTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
28122073 TAATTCTACCATACGGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
28122100 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
28122127 TAATTCTACCCTACAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTT
28122151 TGATATTTTA
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:28122238 original size:54 final size:54
Alignment explanation
Indices: 28122113--28122402 Score: 255
Period size: 54 Copynumber: 5.4 Consensus size: 54
28122103 TTCTACCCTA
* ** * *
28122113 CAGGGGTATTTTGGTAATTCTAC-CCTACAGGGGTATTTTGAT-ATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT-CAGGGGTATTTTGGTAATTTTACAAAC
* * * * *
28122166 C-GAGAGTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGC
1 CAG-GGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC
* ** *
28122220 CAGGGGTATTTTGGTAATTTTACAAACCAATGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC
* * * * * *
28122274 TAGGGGTATTTTGGTAGTTTTACAAACCAGAGGTATTTTAGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC
* * * ** **
28122328 TAGGGATATTTTGATAATTTTACTGATC-GAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAAC
** *
28122382 CAAAGGTATTTTAGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
28122403 GTAAATCGAG
Statistics
Matches: 193, Mismatches: 39, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
52 1 0.01
53 31 0.16
54 160 0.83
55 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC
Found at i:28122284 original size:81 final size:79
Alignment explanation
Indices: 28122114--28122402 Score: 273
Period size: 81 Copynumber: 3.6 Consensus size: 79
28122104 TCTACCCTAC
* ** * *
28122114 AGGGGTATTTTGGTAATTCTACCCTA-CAGGGGTATTTT-G-ATATTTTACAAATCGAGAGTATT
1 AGGGGTATTTTGGTAATTTTA-CAAACCAGAGGTATTTTAGTA-ATTTTACAAA-CAAG-GTATT
* *
28122176 TCGATAATTTCACAA-AT
62 TTGATAATTTTACAAGAT
* * *
28122193 CAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAATGGTATTT
1 -AGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAA-CAA-GGTATTT
* *
28122258 TGGTAATTTTACAAGCT
63 TGATAATTTTACAAGAT
* * *
28122275 AGGGGTATTTTGGTAGTTTTACAAACCAGAGGTATTTTAGTAATTTTATAAACTAGGGATATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAAC-AAGG-TATTTT
*
28122340 GATAATTTTAC-TGAT
64 GATAATTTTACAAGAT
* ** *
28122355 CGAGGGTATTTTGGTAATTTTGTAAACCAAAGGTATTTTAGTAATTTT
1 AG-GGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTT
28122403 GTAAATCGAG
Statistics
Matches: 177, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
79 1 0.01
80 38 0.21
81 135 0.76
82 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACAAGGTATTTTGA
TAATTTTACAAGAT
Found at i:28122624 original size:81 final size:81
Alignment explanation
Indices: 28122395--28122657 Score: 391
Period size: 81 Copynumber: 3.2 Consensus size: 81
28122385 AGGTATTTTA
* *
28122395 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
28122460 AATTGAGGGTAAAATG
66 AATCGAGGGTAAAATG
** * *
28122476 GTAATTTTATAAATCGAGGGTAAAACAATAATTTTGTAAATCAAGGGTGAAACGGTAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATA
28122541 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
28122557 GTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATA
***
28122622 AATCGAGGGTACTTTG
66 AATCGAGGGTAAAATG
* *
28122638 GTAATTTTAAAAATTGAGGG
1 GTAATTTTATAAATCGAGGG
28122658 ATTTCAGTAA
Statistics
Matches: 162, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 162 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (81 bp):
GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:28122643 original size:27 final size:27
Alignment explanation
Indices: 28122395--28122632 Score: 323
Period size: 27 Copynumber: 8.8 Consensus size: 27
28122385 AGGTATTTTA
*
28122395 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAATG
28122422 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
* * *
28122449 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
* **
28122476 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAATG
* * * *
28122503 ATAATTTTGTAAATCAAGGGTGAAACG
1 GTAATTTTGTAAATCGAGGGTAAAATG
* *
28122530 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
* *
28122557 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAATG
*
28122584 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAATG
*
28122611 GTAATTCTGTAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
28122633 CTTTGGTAAT
Statistics
Matches: 188, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 188 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAATG
Found at i:28122651 original size:27 final size:27
Alignment explanation
Indices: 28122143--28122670 Score: 264
Period size: 27 Copynumber: 19.6 Consensus size: 27
28122133 TACCCTACAG
* *
28122143 GGGTATTTTGAT-ATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * * *
28122169 GAGTATTTCGATAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
28122195 GGGGTATTTTGGTAATTTTA-CAAGCCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
28122222 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * * *
28122250 TGGTATTTTGGTAATTTTA-CAAGCTA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
28122276 GGGGTATTTTGGTAGTTTTACAAA-CCA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* *
28122303 GAGGTATTTTAGTAATTTTATAAA-CTA
1 G-GGTATTTTGGTAATTTTATAAATCGA
* *
28122330 GGGATATTTTGATAATTTTACT-GATCGA
1 GGG-TATTTTGGTAATTTTA-TAAATCGA
* * *
28122358 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
28122385 AGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** *
28122412 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
28122439 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTATTTTGGTAATTTTATAAATCGA
***
28122466 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
****** * *
28122493 GGGTAAAACAATAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
28122520 GGGTGA-AACGGTAATTCTATAAATCGA
1 GGGT-ATTTTGGTAATTTTATAAATCGA
*** *
28122547 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
28122574 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** * *
28122601 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
28122628 GGGTACTTTGGTAATTTTAAAAATTGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**
28122655 GGG-ATTTCAGTAATTT
1 GGGTATTTTGGTAATTT
28122671 GGTAAACTAA
Statistics
Matches: 414, Mismatches: 75, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
26 33 0.08
27 368 0.89
28 13 0.03
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:28124402 original size:13 final size:13
Alignment explanation
Indices: 28124386--28124410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28124376 CAAACGCAAT
28124386 TTTCATGAAATCA
1 TTTCATGAAATCA
28124399 TTTCATGAAATC
1 TTTCATGAAATC
28124411 GTAGACCATA
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTCATGAAATCA
Found at i:28127794 original size:50 final size:49
Alignment explanation
Indices: 28127636--28127809 Score: 267
Period size: 49 Copynumber: 3.5 Consensus size: 49
28127626 TTGGTACGCA
* * * * *
28127636 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
*
28127685 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
**
28127734 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGATACACG
28127784 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
28127810 TGCGATCTCA
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 75 0.65
50 40 0.35
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
Found at i:28129995 original size:15 final size:15
Alignment explanation
Indices: 28129958--28130005 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
28129948 AGAAAACCGA
*
28129958 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
28129973 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
28129987 AGTAAAGAAACCCAAG
1 A-TAAAGAAACCCAAG
28130003 ATA
1 ATA
28130006 CGATACTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 3 0.11
15 22 0.79
16 3 0.11
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.10
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:28133050 original size:49 final size:49
Alignment explanation
Indices: 28132984--28133221 Score: 262
Period size: 49 Copynumber: 4.8 Consensus size: 49
28132974 TAGCCAAAGC
* * * * * *
28132984 TATCTGGTACGCATAGTAACCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
28133033 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTGCACACGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
28133082 TATCCGGTACACGTAGGAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* *** *
28133132 CATCTAATACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACTAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* **
28133183 T-TTCGAGTACACATAGTAGCCTGCACAGAGTACTACACA
1 TATCCG-GTACACATAGTAGCCTGCACTTAGTACTACACA
28133222 TGCGACCTCA
Statistics
Matches: 159, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 85 0.53
50 41 0.26
51 32 0.20
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:28133163 original size:99 final size:101
Alignment explanation
Indices: 28133040--28133221 Score: 262
Period size: 99 Copynumber: 1.8 Consensus size: 101
28133030 AATTATCCGG
* * *
28133040 TACACGTAGTAGCCTGCACTTAGTACTGCACACGTGA-C-CAATTATCCG-GTACACGTAGGAGC
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATT-TCCGAGTACACATAGGAGC
**
28133102 CTGCACTTAGTACTACACACGTGACCTAACCATCTAA
65 CTGCACAGAGTACTACACACGTGACCTAACCATCTAA
* * *
28133139 TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACTATTTTCGAGTACACATAGTAGCC
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTTCCGAGTACACATAGGAGCC
28133204 TGCACAGAGTACTACACA
66 TGCACAGAGTACTACACA
28133222 TGCGACCTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
99 35 0.49
100 4 0.06
101 33 0.46
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTTCCGAGTACACATAGGAGCC
TGCACAGAGTACTACACACGTGACCTAACCATCTAA
Found at i:28142246 original size:9 final size:9
Alignment explanation
Indices: 28142232--28142258 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
28142222 TTCCTCGGTT
28142232 GCCAAAACG
1 GCCAAAACG
28142241 GCCAAAACG
1 GCCAAAACG
28142250 GCCAAAACG
1 GCCAAAACG
28142259 ACCTATTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.22, T:0.00
Consensus pattern (9 bp):
GCCAAAACG
Found at i:28146448 original size:16 final size:16
Alignment explanation
Indices: 28146415--28146460 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
28146405 ATGTATCGGC
*
28146415 AAAAGCCGAAATGCTG
1 AAAAGCCGAAAAGCTG
* *
28146431 AAAAGTCGAAAAGTTG
1 AAAAGCCGAAAAGCTG
*
28146447 AAATGCCGAAAAGC
1 AAAAGCCGAAAAGC
28146461 CAAAAGTTTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (16 bp):
AAAAGCCGAAAAGCTG
Found at i:28146449 original size:24 final size:23
Alignment explanation
Indices: 28146422--28146468 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
28146412 GGCAAAAGCC
* *
28146422 GAAATGCTGAAAAGTCGAAAAGTT
1 GAAATGCCGAAAAG-CCAAAAGTT
28146446 GAAATGCCGAAAAGCCAAAAGTT
1 GAAATGCCGAAAAGCCAAAAGTT
28146469 TGGCTACGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.47, C:0.13, G:0.23, T:0.17
Consensus pattern (23 bp):
GAAATGCCGAAAAGCCAAAAGTT
Found at i:28146719 original size:29 final size:29
Alignment explanation
Indices: 28146683--28146740 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
28146673 TGAATGCGAC
*
28146683 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATT
* *
28146712 TGGGCCTAATGGGCCATATGAATATGATT
1 TGGGCCTAACGGGCCATATAAATATGATT
28146741 AGGCTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
TGGGCCTAACGGGCCATATAAATATGATT
Found at i:28147424 original size:20 final size:20
Alignment explanation
Indices: 28147399--28147447 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
28147389 TGAATGATGT
28147399 TTTTGCATTGCATGGGTAAG
1 TTTTGCATTGCATGGGTAAG
* *
28147419 TTTTGCATTGGATGGGTGAG
1 TTTTGCATTGCATGGGTAAG
28147439 TTTTGCATT
1 TTTTGCATT
28147448 ACATTGCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.08, G:0.31, T:0.45
Consensus pattern (20 bp):
TTTTGCATTGCATGGGTAAG
Found at i:28149244 original size:15 final size:15
Alignment explanation
Indices: 28149219--28149256 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
28149209 TAACTGACTC
*
28149219 CTTCTTCTTCTTTTTT
1 CTTC-TCTTCTTTTCT
28149235 CTTCTCTTCTTTTCT
1 CTTCTCTTCTTTTCT
28149250 CTTCTCT
1 CTTCTCT
28149257 CCCTCTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
CTTCTCTTCTTTTCT
Found at i:28156922 original size:10 final size:11
Alignment explanation
Indices: 28156906--28156941 Score: 58
Period size: 10 Copynumber: 3.5 Consensus size: 11
28156896 TGACTGGCTC
28156906 CTTCTTCTTCT
1 CTTCTTCTTCT
28156917 -TTCTTCTTCT
1 CTTCTTCTTCT
28156927 CTTCTT-TTCT
1 CTTCTTCTTCT
28156937 CTTCT
1 CTTCT
28156942 CTCCCTCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 19 0.79
11 5 0.21
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
CTTCTTCTTCT
Found at i:28156931 original size:15 final size:15
Alignment explanation
Indices: 28156906--28156943 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
28156896 TGACTGGCTC
28156906 CTTCTTCTTC-TTTCTT
1 CTTC-TCTTCTTTTC-T
28156922 CTTCTCTTCTTTTCT
1 CTTCTCTTCTTTTCT
28156937 CTTCTCT
1 CTTCTCT
28156944 CCCTCTCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
CTTCTCTTCTTTTCT
Found at i:28163685 original size:40 final size:44
Alignment explanation
Indices: 28163590--28163685 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 44
28163580 AAATGATCCT
* *
28163590 GCACACTTAGTGCCATCTCGAATAGCCGAAGCTATCTCGATATC
1 GCACACTTAGTGCCATCTCGAATAACCGAAGCTATCTCCATATC
* *
28163634 GCACACTTAGTGCC-TC-C-TATAACCGAAGCTAT-TCCATTTC
1 GCACACTTAGTGCCATCTCGAATAACCGAAGCTATCTCCATATC
28163674 GCACACTTAGTG
1 GCACACTTAGTG
28163686 TTATTTATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 18 0.38
41 13 0.27
42 1 0.02
43 2 0.04
44 14 0.29
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (44 bp):
GCACACTTAGTGCCATCTCGAATAACCGAAGCTATCTCCATATC
Found at i:28174252 original size:25 final size:25
Alignment explanation
Indices: 28174224--28174271 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28174214 TTATAATATG
* * *
28174224 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
28174249 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
28174272 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:28174332 original size:11 final size:10
Alignment explanation
Indices: 28174300--28174336 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
28174290 TACGTGGCAT
28174300 ATGATAT-AC
1 ATGATATGAC
28174309 ATGAT-TGAC
1 ATGATATGAC
28174318 ATGATATGCAC
1 ATGATATG-AC
28174329 ATGATATG
1 ATGATATG
28174337 TATGAAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.04
9 12 0.48
10 2 0.08
11 10 0.40
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (10 bp):
ATGATATGAC
Found at i:28174332 original size:20 final size:20
Alignment explanation
Indices: 28174307--28174352 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
28174297 CATATGATAT
*
28174307 ACATGAT-TGACATGATATGC
1 ACATGATATG-CATGAAATGC
*
28174327 ACATGATATGTATGAAATGC
1 ACATGATATGCATGAAATGC
28174347 ACATGA
1 ACATGA
28174353 CGTAATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (20 bp):
ACATGATATGCATGAAATGC
Found at i:28174431 original size:25 final size:25
Alignment explanation
Indices: 28174403--28174522 Score: 129
Period size: 25 Copynumber: 4.8 Consensus size: 25
28174393 GAGGAAGTGC
*
28174403 AAAAGGGCTATGCCCTAGTTTATTG
1 AAAAGGGCTATGCCCCAGTTTATTG
28174428 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGC-TATGCCCCAGTTTATTG
* *
28174454 AAAAGGGCTTTGCCCCAGTTTA-TC
1 AAAAGGGCTATGCCCCAGTTTATTG
* * *
28174478 AAAAGGACTTTACCCCAG-TTATT-
1 AAAAGGGCTATGCCCCAGTTTATTG
*
28174501 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTATGCC-CCAGTT
28174523 ATATGATAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.10
24 23 0.28
25 25 0.31
26 25 0.31
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTATTG
Found at i:28174448 original size:26 final size:25
Alignment explanation
Indices: 28174403--28174510 Score: 132
Period size: 26 Copynumber: 4.4 Consensus size: 25
28174393 GAGGAAGTGC
* *
28174403 AAAAGGGCTATGCCCTAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATTG
28174428 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
*
28174454 AAAAGGGCTTTGCCCCAGTTTA-TC
1 AAAAGGGCTTTGCCCCAGTTTATTG
* *
28174478 AAAAGGACTTTACCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
28174501 AAAAGAGGCT
1 AAAAG-GGCT
28174511 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 8 0.11
24 21 0.28
25 21 0.28
26 24 0.32
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:28174758 original size:31 final size:31
Alignment explanation
Indices: 28174721--28174811 Score: 103
Period size: 38 Copynumber: 2.7 Consensus size: 31
28174711 CCGTTAAACG
28174721 AAAGGCTTCGGCCCAGTAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTAATATGAAACATGA
*
28174752 AAAGGCTTCGGCCCAGTGTTATGAATTATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T-AA-TATGAAACATGA
28174790 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTAATATG
28174812 TTGAGATTGG
Statistics
Matches: 52, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
30 4 0.08
31 16 0.31
33 2 0.04
36 2 0.04
37 2 0.04
38 26 0.50
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAACATGA
Found at i:28181322 original size:40 final size:40
Alignment explanation
Indices: 28181245--28181422 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
28181235 AAACCAAGTA
* *
28181245 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
28181284 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
28181324 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
28181364 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
28181404 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
28181423 TTATCATCCG
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.12
40 111 0.88
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:28185851 original size:11 final size:11
Alignment explanation
Indices: 28185835--28185892 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
28185825 TACCTGATTG
28185835 ACATGATATGC
1 ACATGATATGC
28185846 ACATGATATG-
1 ACATGATATGC
*
28185856 -TATGATATGC
1 ACATGATATGC
28185866 ACATGATATG-
1 ACATGATATGC
* *
28185876 -TATGAAATGC
1 ACATGATATGC
28185886 ACATGAT
1 ACATGAT
28185893 GTAATCATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 15 0.41
11 22 0.59
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (11 bp):
ACATGATATGC
Found at i:28185860 original size:20 final size:20
Alignment explanation
Indices: 28185837--28185892 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
28185827 CCTGATTGAC
28185837 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
28185857 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
*
28185877 ATGAAATGCACATGAT
1 ATGATATGCACATGAT
28185893 GTAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:28185982 original size:26 final size:24
Alignment explanation
Indices: 28185943--28186048 Score: 117
Period size: 26 Copynumber: 4.3 Consensus size: 24
28185933 AGGAAGTGCA
* *
28185943 AAAGGGCTATGCCCGAGTTTATTG
1 AAAGGGCTTTGCCCCAGTTTATTG
*
28185967 ACAAGGGCTTATGCCCGAGTTTATTG
1 A-AAGGGCTT-TGCCCCAGTTTATTG
*
28185993 AAAAGGGCTTTGCCCCAGTTTA-TC
1 -AAAGGGCTTTGCCCCAGTTTATTG
*
28186017 AAAGGGCTTTGCCCCA-TTTATTA
1 AAAGGGCTTTGCCCCAGTTTATTG
28186040 AAAGAGGCT
1 AAAG-GGCT
28186049 AGGCCTCTAG
Statistics
Matches: 73, Mismatches: 4, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
22 4 0.05
23 21 0.29
24 6 0.08
25 18 0.25
26 23 0.32
27 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (24 bp):
AAAGGGCTTTGCCCCAGTTTATTG
Found at i:28191040 original size:67 final size:66
Alignment explanation
Indices: 28190911--28191063 Score: 188
Period size: 67 Copynumber: 2.3 Consensus size: 66
28190901 GATACTATGT
* * * *
28190911 TGTAGCTAGGTCACATGTGT-GATACAGGATGTATACCATGTAGACAAGAGAGCCACGGGAT-AA
1 TGTAGCTAGGTCACATGTGTGGTTACAGGATGGACACCATGTAGACAAGAGAGCCACGAGATAAA
28190974 A
66 A
* * *
28190975 TGTAGCTAGGTCGCATGTGTGGTTCCAGGTGATGGACACCATGTAGACAAGAGAGCTACGAGATA
1 TGTAGCTAGGTCACATGTGTGGTTACA-G-GATGGACACCATGTAGACAAGAGAGCCACGAGATA
28191040 AAA
64 AAA
*
28191043 TG--GCTAGGTCACATGGGTGGT
1 TGTAGCTAGGTCACATGTGTGGT
28191064 ACTAAGTGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
64 19 0.25
65 4 0.05
66 18 0.24
67 30 0.39
68 5 0.07
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (66 bp):
TGTAGCTAGGTCACATGTGTGGTTACAGGATGGACACCATGTAGACAAGAGAGCCACGAGATAAA
A
Found at i:28192450 original size:29 final size:29
Alignment explanation
Indices: 28192418--28192476 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
28192408 ACCCATACCT
28192418 AAGAAGGTGGGACGATTTTAAGCTTTAAA
1 AAGAAGGTGGGACGATTTTAAGCTTTAAA
*
28192447 AAGATGGTGGGACGATTTTAAGCTTTAAA
1 AAGAAGGTGGGACGATTTTAAGCTTTAAA
28192476 A
1 A
28192477 TCATTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.29
Consensus pattern (29 bp):
AAGAAGGTGGGACGATTTTAAGCTTTAAA
Found at i:28195356 original size:19 final size:19
Alignment explanation
Indices: 28195329--28195365 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28195319 TGGCTAAATG
*
28195329 TTTTCTTATTCAATCTTGC
1 TTTTATTATTCAATCTTGC
*
28195348 TTTTATTATTTAATCTTG
1 TTTTATTATTCAATCTTG
28195366 GGGTTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTATTATTCAATCTTGC
Found at i:28198858 original size:40 final size:41
Alignment explanation
Indices: 28198761--28198861 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 41
28198751 GAGAATTAGG
* *
28198761 TGTAAGACCATGTCTGGGAAGTAGGCATCGTATCTGATTTCG
1 TGTAAGACCATGTCTGGGAAGTAGGCATCGTATCTGA-TACA
*
28198803 TGTAAGACCTTGTCTGGGATAG-AGGCATCG-ATACTG-TACA
1 TGTAAGACCATGTCTGGGA-AGTAGGCATCGTAT-CTGATACA
28198843 TGTAAGACCATGTCTGGGA
1 TGTAAGACCATGTCTGGGA
28198862 CGTCGACATT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
40 20 0.38
41 2 0.04
42 29 0.55
43 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGAAGTAGGCATCGTATCTGATACA
Found at i:28210594 original size:34 final size:34
Alignment explanation
Indices: 28210551--28210620 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
28210541 TTGTGAGATT
*
28210551 GAGCCAGTATGCTCGGGAATGTGTATCAAATGAA
1 GAGCCAGTATGCTCGAGAATGTGTATCAAATGAA
*
28210585 GAGCCAGTATGCTCTAGAATGTGTATCAAATGAA
1 GAGCCAGTATGCTCGAGAATGTGTATCAAATGAA
28210619 GA
1 GA
28210621 ATAATGTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.24
Consensus pattern (34 bp):
GAGCCAGTATGCTCGAGAATGTGTATCAAATGAA
Found at i:28215907 original size:43 final size:43
Alignment explanation
Indices: 28215763--28215913 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
28215753 GGTTACTGAA
* * *
28215763 ATGTGATTACATATAAGACCATGTCTAGAACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGAT
* * *
28215805 ATTGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGAT
* * * * * *
28215849 AAT-CGATTTCGTGTAAGACCCTATCTAGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGAT
*
28215892 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
28215914 ATTTGGGATA
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 3 0.03
43 80 0.93
44 2 0.02
45 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGAT
Found at i:28223524 original size:43 final size:43
Alignment explanation
Indices: 28223427--28223597 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
28223417 ACTGAGATGT
* * *
28223427 GATTACATGTAAGACCATGTCAGGGACATTGGCATTGTATTGA
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
* *
28223470 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAAT-C
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTG-TAATGA
* * * * ** *
28223513 GATTTCCTGTAAGACCCTATCTGGGACAGTGGCACCG-ATATGT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTA-ATGA
* * * * *
28223556 GATAACATGTAAGACCATATTTGGGATA-TGGCATTGT-ATGA
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
28223597 G
1 G
28223598 CCGTGGGTGG
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
41 5 0.05
42 8 0.08
43 87 0.84
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACCTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
Found at i:28227993 original size:47 final size:49
Alignment explanation
Indices: 28227916--28228278 Score: 201
Period size: 47 Copynumber: 7.7 Consensus size: 49
28227906 AAGGTATAAT
*
28227916 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * *
28227963 GTCGATGCCATGTCCCAGACAAGGTATTACACTGACT-ATCGAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-AAATCGAA
* * * *
28228012 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATC--C
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-A-ATCGAA
* * * * *
28228060 GTGCTGATGCCATGTCCCAGACATGGTCGTATACTGACACATC---TCGTA
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * ** *
28228108 GTCGATG-CATGTCCCTGACAT-GTCTTACATTGGCTTA-CATCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * * ***
28228154 GTTGATG-CATGTCCCAGACAT-GTCCTATACTAGCTC-TCGTCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * * **
28228199 TGCCAATGCCATGTCCCAGAAAGGGTCTTACAAC-GGCTC-TCATAAT-GTG
1 -GTCGATGCCATGTCCCAGACATGGTCTTAC-ACTGGCTCATCA-AATCGAA
*
28228248 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
28228279 AGTGCACAAC
Statistics
Matches: 240, Mismatches: 54, Indels: 45
0.71 0.16 0.13
Matches are distributed among these distances:
43 1 0.00
44 10 0.04
45 16 0.07
46 57 0.24
47 59 0.25
48 24 0.10
49 39 0.16
50 32 0.13
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
Found at i:28228030 original size:49 final size:47
Alignment explanation
Indices: 28227922--28228102 Score: 150
Period size: 49 Copynumber: 3.7 Consensus size: 47
28227912 TAATGTCGAT
* * * *
28227922 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGAC
* * *
28227969 GCCATGTCCCAGACAAGGTATTACACTGACT-ATCGAAATCGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATC-AAGCCGAC
* ** * *
28228018 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATCCGTGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-AT-CAAGCCGAC
* * *
28228068 GCCATGTCCCAGACATGGTCGTATACTGACACATC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC
28228103 TCGTAGTCGA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
46 3 0.03
47 28 0.26
48 6 0.06
49 33 0.31
50 32 0.30
51 4 0.04
52 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGCCGAC
Found at i:28234197 original size:30 final size:30
Alignment explanation
Indices: 28234163--28234228 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
28234153 GTTGTCCCAA
* *
28234163 CCCTTTTCATAGTTCAACAGTTGAAGCTAT
1 CCCTTTTCATAGCTCAACAGCTGAAGCTAT
* *
28234193 CCCTTTTCATAGCTCAATAGCTGGAGCTAT
1 CCCTTTTCATAGCTCAACAGCTGAAGCTAT
28234223 CCCTTT
1 CCCTTT
28234229 CCATTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (30 bp):
CCCTTTTCATAGCTCAACAGCTGAAGCTAT
Found at i:28234280 original size:29 final size:30
Alignment explanation
Indices: 28234221--28234281 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
28234211 AGCTGGAGCT
* * *
28234221 ATCCCTTTCCATTATTTTATGGTTGTAACC
1 ATCCCTTTCCATTAGTTGATGGTCGTAACC
* *
28234251 ATCCCTTTTCATT-GTTGATGGTCGTCACC
1 ATCCCTTTCCATTAGTTGATGGTCGTAACC
28234280 AT
1 AT
28234282 TGTGATAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (30 bp):
ATCCCTTTCCATTAGTTGATGGTCGTAACC
Found at i:28235609 original size:46 final size:46
Alignment explanation
Indices: 28235556--28235678 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
28235546 ACCATCCGAC
*
28235556 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAA
* * *
28235602 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAA
* *
28235648 CTCGTTGAGTTGAGTACGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28235679 GTGGGTTACA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAA
Found at i:28237021 original size:30 final size:30
Alignment explanation
Indices: 28236983--28237058 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
28236973 GGGACATTAC
*
28236983 AACC-ATCCCTTTTCATAATTTGATAGCCG
1 AACCTATCCCTTTTCATAATTTGAGAGCCG
* *
28237012 AACCTATCCCTTTTCACAATTTGAGAGTCG
1 AACCTATCCCTTTTCATAATTTGAGAGCCG
*
28237042 AAGCTATCCCTTTTCAT
1 AACCTATCCCTTTTCAT
28237059 TGTTGAATAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 4 0.10
30 37 0.90
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (30 bp):
AACCTATCCCTTTTCATAATTTGAGAGCCG
Found at i:28238729 original size:42 final size:42
Alignment explanation
Indices: 28238613--28238749 Score: 161
Period size: 41 Copynumber: 3.3 Consensus size: 42
28238603 TAGAGCCTAG
* * *
28238613 TATAATACACTGGCA-CAGAGCTTGCTAAGCAATAAACCTGA
1 TATAATACACTGGCATCAAAGCCTGCTAAGCAATAAGCCTGA
* ** *
28238654 TTTAATACACCAGCAT-AAAGCCTGCTATGCAATAAGCCTGA
1 TATAATACACTGGCATCAAAGCCTGCTAAGCAATAAGCCTGA
* *
28238695 TATCATACACTGGCATCAAAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACTGGCATCAAAGCCTGCTAAGCAATAAGCCTGA
*
28238737 TATTATATCACTG
1 TATAATA-CACTG
28238750 TTACAAAGTT
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
41 45 0.56
42 30 0.38
43 5 0.06
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (42 bp):
TATAATACACTGGCATCAAAGCCTGCTAAGCAATAAGCCTGA
Found at i:28239993 original size:31 final size:30
Alignment explanation
Indices: 28239955--28240030 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 30
28239945 TACGGTTACC
28239955 ATCCCTTTT-TTATAATTTGATAGCC-AAGGCT
1 ATCCCTTTTATTAT--TTTGATAGCCGAA-GCT
28239986 ATCCCTTTTCATTATTTTGATAGCCGAAGCT
1 ATCCCTTTT-ATTATTTTGATAGCCGAAGCT
28240017 ATCCCTTTTCATTA
1 ATCCCTTTT-ATTA
28240031 GCCGATAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
31 36 0.86
32 2 0.05
33 4 0.10
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTATTATTTTGATAGCCGAAGCT
Found at i:28241745 original size:20 final size:20
Alignment explanation
Indices: 28241717--28241755 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
28241707 CAACATACAT
* *
28241717 TTCACATACAATTTAATCAA
1 TTCAAATACAATTCAATCAA
28241737 TTCAAATACAATTCAATCA
1 TTCAAATACAATTCAATCA
28241756 CAACCAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
TTCAAATACAATTCAATCAA
Found at i:28243265 original size:39 final size:39
Alignment explanation
Indices: 28243222--28243300 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
28243212 ATATATATAT
*
28243222 ATATACGTATACACTTTCATTGTAAACCAAACCATAATG
1 ATATACATATACACTTTCATTGTAAACCAAACCATAATG
*
28243261 ATATATATATACACTTTCATTGTAAACCAAACCATAATG
1 ATATACATATACACTTTCATTGTAAACCAAACCATAATG
28243300 A
1 A
28243301 CAAGCGTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (39 bp):
ATATACATATACACTTTCATTGTAAACCAAACCATAATG
Found at i:28244342 original size:50 final size:50
Alignment explanation
Indices: 28244288--28244383 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
28244278 TAACACCACG
* *
28244288 TAAATACTTACCTATATAACCGAATATACAAGGTCCAATATATCATATCA
1 TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATATCA
* ** * *
28244338 TAAATACTTACATGTATGGCCGAATACACAAGGTTCATTATATCAT
1 TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCAT
28244384 CACATATGGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (50 bp):
TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATATCA
Found at i:28244713 original size:41 final size:41
Alignment explanation
Indices: 28244650--28244727 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
28244640 TCTGATATTT
*
28244650 ATTCACCGGCACTAAGCCTGCTAGGCACAAAGCCCGATCAA
1 ATTCACCAGCACTAAGCCTGCTAGGCACAAAGCCCGATCAA
* *
28244691 ATTCACCAGCAC-AAGGCTTGCTAGGCTCAAAGCCCGA
1 ATTCACCAGCACTAA-GCCTGCTAGGCACAAAGCCCGA
28244728 ATATCACAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.06
41 31 0.94
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (41 bp):
ATTCACCAGCACTAAGCCTGCTAGGCACAAAGCCCGATCAA
Found at i:28246290 original size:27 final size:27
Alignment explanation
Indices: 28246257--28246762 Score: 234
Period size: 27 Copynumber: 18.7 Consensus size: 27
28246247 CCTCAAATTG
*
28246257 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ***
28246284 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * ****
28246311 CAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * **** *
28246338 CAGAATTATCGTTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *** * *
28246365 TAGAATTACTATTTTACCATTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *****
28246392 TAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
28246419 CAAAATTACTAAAATACCCT-TAGTTTA
1 TAAAATTACCAAAATACCCTCGA-TTTA
* *
28246446 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
28246472 GTAAAATTACCAAAATACCCTAG-TTTG
1 -TAAAATTACCAAAATACCCTCGATTTA
* * * *
28246499 TAAAATTGCTAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAATACCCTC-GATTTA
* * *
28246526 TAAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* *
28246553 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* *
28246580 TAAAATTACCAAAATACCACT-GGTTTG
1 TAAAATTACCAAAATACC-CTCGATTTA
* ** *
28246607 TGAAATTACCAAAATACCCTTAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
*
28246634 TAAAATTACCAAAATACCC-CTGGTTTA
1 TAAAATTACCAAAATACCCTC-GATTTA
* * * *
28246661 CAAAGTTACAAAAATACCCTCGACTTTC
1 TAAAATTACCAAAATACCCTCGA-TTTA
*** * * *
28246689 TAAAATTATGGAAATACCATTGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * * *
28246716 CAAAATTACTAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
28246743 TAGATTTACCAAAACACCCT
1 TAAAATTACCAAAATACCCT
28246763 TGTAGGATGA
Statistics
Matches: 388, Mismatches: 77, Indels: 28
0.79 0.16 0.06
Matches are distributed among these distances:
26 25 0.06
27 341 0.88
28 22 0.06
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:28246464 original size:54 final size:54
Alignment explanation
Indices: 28246406--28246763 Score: 310
Period size: 54 Copynumber: 6.6 Consensus size: 54
28246396 ATTACTGTTT
** *
28246406 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
** ** * *
28246460 TACCCTCGATCAGTAAAATTACCAAAATACCC-TAGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * * **
28246513 TACCC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * ***
28246567 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CTTAGTTTACAAAATTACCAAAA
** * * * *
28246621 TACCCTTAATTTGTAAAATTACCAAAATACCCCTGGTTTACAAAGTTACAAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* *** * * *
28246675 TACCCTCGACTTTCTAAAATTATGGAAATACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * * *
28246730 TACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTT
28246764 GTAGGATGAA
Statistics
Matches: 246, Mismatches: 51, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
52 1 0.00
53 44 0.18
54 155 0.63
55 46 0.19
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
Found at i:28246613 original size:81 final size:81
Alignment explanation
Indices: 28246420--28246678 Score: 333
Period size: 81 Copynumber: 3.2 Consensus size: 81
28246410 CTCGATTTAC
* * ** * **
28246420 AAAATTACTAAAATACC-CTTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACAAAAATACCAC-TGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
28246484 AAATA-CCCTAGTTTGT
65 AAATACCCCTAGTTTGT
* * * *
28246500 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACAAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
28246565 AATACCCCTAGTTTGT
66 AATACCCCTAGTTTGT
* * *
28246581 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTTAATTTGTAAAATTACCAA
1 AAAATTACAAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
* **
28246646 AATACCCCTGGTTTAC
66 AATACCCCTAGTTTGT
*
28246662 AAAGTTACAAAAATACC
1 AAAATTACAAAAATACC
28246679 CTCGACTTTC
Statistics
Matches: 158, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
80 59 0.37
81 99 0.63
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACAAAAATACCACTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTTTGT
Found at i:28246825 original size:27 final size:27
Alignment explanation
Indices: 28246795--28246882 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
28246785 ACCCATATTA
28246795 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
*
28246822 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** * *
28246849 GGTAAAGTGACCATAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
28246876 GGTAAAA
1 GGTAAAA
28246883 TGATGAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:28247764 original size:52 final size:52
Alignment explanation
Indices: 28247686--28247831 Score: 242
Period size: 52 Copynumber: 2.8 Consensus size: 52
28247676 GGGGAAGTGC
*
28247686 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCTAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAATTTATTG
* *
28247738 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAATTTATTG
*
28247790 AAAAAGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCA
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCA
28247832 GTTATTAAAG
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 7 0.08
51 24 0.27
52 58 0.65
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAATTTATTG
Found at i:28247809 original size:25 final size:26
Alignment explanation
Indices: 28247686--28247834 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
28247676 GGGGAAGTGC
28247686 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * **
28247712 AAAAGGGCTTATGCCCTAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
28247738 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
28247764 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
28247790 AAAAAGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
28247815 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
28247835 ATTAAAGAGG
Statistics
Matches: 109, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
25 32 0.29
26 77 0.71
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:28248038 original size:42 final size:42
Alignment explanation
Indices: 28247979--28248070 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
28247969 TAGTCTCCCC
* ** *
28247979 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
28248021 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
28248063 AAATGGGC
1 AAATGGGC
28248071 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:28248171 original size:31 final size:31
Alignment explanation
Indices: 28248094--28248172 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
28248084 CGTTTACAGT
*
28248094 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
28248125 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
28248156 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
28248173 AACTGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:28254392 original size:38 final size:37
Alignment explanation
Indices: 28254319--28254392 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
28254309 TTCAGCTAAG
* *
28254319 GTTTTGTATAGGTAAATATATATGAATTGGCTGTTAT
1 GTTTTGTATAGGTAAATATATATAAAATGGCTGTTAT
28254356 GTTTTGATATAGGT-AATAATATATAAACATGG-TGTTA
1 GTTTTG-TATAGGTAAAT-ATATATAAA-ATGGCTGTTA
28254393 AATGATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 9 0.28
38 20 0.62
39 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (37 bp):
GTTTTGTATAGGTAAATATATATAAAATGGCTGTTAT
Found at i:28259988 original size:27 final size:27
Alignment explanation
Indices: 28259958--28260448 Score: 605
Period size: 27 Copynumber: 18.2 Consensus size: 27
28259948 AAAGTACTCC
* *
28259958 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
28259985 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* *
28260012 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
28260039 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
28260066 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* *
28260093 CGATTTATAAAATTACCATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
28260120 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
28260147 CGATTTATAAAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
28260174 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
28260201 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* **
28260228 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* *
28260255 CAATTTATAGAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
**
28260282 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
*
28260309 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
28260336 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * * *
28260363 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
* * *
28260390 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTATAGAATTACCGTTTTACCCT
* **
28260417 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTATAGAATTACCGTTTTACCCT
*
28260444 TGATT
1 CGATT
28260449 GTGAAATTAC
Statistics
Matches: 402, Mismatches: 52, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 392 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTATAGAATTACCGTTTTACCCT
Found at i:28260521 original size:54 final size:54
Alignment explanation
Indices: 28260453--28260648 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
28260443 TTGATTGTGA
* * * * *
28260453 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
28260507 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
28260561 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
28260615 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
28260649 ATTTTGCCTC
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:28260648 original size:27 final size:27
Alignment explanation
Indices: 28260453--28260648 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
28260443 TTGATTGTGA
* *
28260453 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * * *
28260480 AATTTCTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
28260507 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
28260534 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
28260561 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
28260588 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
28260615 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
28260642 AATTACC
1 AATTACC
28260649 ATTTTGCCTC
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:28260908 original size:27 final size:26
Alignment explanation
Indices: 28260847--28260929 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
28260837 CGGAGGAAGC
* *
28260847 GTTCTAGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
28260874 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * * *
28260900 TTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
28260927 GTT
1 GTT
28260930 GACCGATCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:28261049 original size:22 final size:22
Alignment explanation
Indices: 28261017--28261075 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
28261007 CCCGTTATTA
*
28261017 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
28261039 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
28261061 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
28261076 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:28261262 original size:27 final size:27
Alignment explanation
Indices: 28261240--28261313 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
28261230 TAGGTGGGTT
*
28261240 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
28261267 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
28261294 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
28261314 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:28261459 original size:25 final size:23
Alignment explanation
Indices: 28261431--28261497 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 23
28261421 TTGCATTCAC
*
28261431 ATTCTGATTTGAATTTTGTCACGTA
1 ATTCTGATTTG-ATTCTGTCAC-TA
*
28261456 ATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATT-TGATTCTGTCACTA
28261480 ATTCTGATTTTGATTCTG
1 ATTCTGA-TTTGATTCTG
28261498 ATTCTGTTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
24 17 0.45
25 19 0.50
26 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (23 bp):
ATTCTGATTTGATTCTGTCACTA
Found at i:28261465 original size:6 final size:6
Alignment explanation
Indices: 28261456--28261617 Score: 165
Period size: 6 Copynumber: 26.8 Consensus size: 6
28261446 TTGTCACGTA
* *
28261456 ATTCTG ATTCTG ATTCTG -TTACTA ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
28261504 -TTACTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTTTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
28261553 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
28261601 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
28261618 CATTTTGGTT
Statistics
Matches: 131, Mismatches: 12, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
5 10 0.08
6 110 0.84
7 9 0.07
8 2 0.02
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:28261638 original size:30 final size:30
Alignment explanation
Indices: 28261456--28261617 Score: 254
Period size: 30 Copynumber: 5.4 Consensus size: 30
28261446 TTGTCACGTA
28261456 ATTCTGATTCTGATTCTGTTACTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
28261486 ATTTTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* *
28261516 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
28261547 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
28261577 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
28261607 ATTCTGATTCT
1 ATTCTGATTCT
28261618 CATTTTGGTT
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
29 1 0.01
30 92 0.76
31 28 0.23
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:28263672 original size:30 final size:30
Alignment explanation
Indices: 28263638--28263707 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
28263628 GCTGTCCCAA
* * *
28263638 CCCTTTTCATAGCTCGATAGTCGAAGCTAT
1 CCCTTTTCATAGCTCAATAGCCGAAGCTAG
*
28263668 CCCTTTTCACAGCTCAATAGCCGAAGCTAG
1 CCCTTTTCATAGCTCAATAGCCGAAGCTAG
*
28263698 GCCTTTTCAT
1 CCCTTTTCAT
28263708 TATTTGATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (30 bp):
CCCTTTTCATAGCTCAATAGCCGAAGCTAG
Found at i:28263735 original size:30 final size:31
Alignment explanation
Indices: 28263701--28263774 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
28263691 AAGCTAGGCC
* *
28263701 TTTTCATTATTTGATGTTCGTCACCAT-CCT
1 TTTTCATTATTTGATGGTCATCACCATCCCT
*
28263731 TTTTCATT-GTTGATGGTCATCACCATCCCT
1 TTTTCATTATTTGATGGTCATCACCATCCCT
*
28263761 TTTT-ATAATTTGAT
1 TTTTCATTATTTGAT
28263775 AACCAAAGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTTCATTATTTGATGGTCATCACCATCCCT
Found at i:28263743 original size:29 final size:31
Alignment explanation
Indices: 28263701--28263764 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
28263691 AAGCTAGGCC
* * *
28263701 TTTTCATTATTTGATGTTCGTCACCAT-CCT
1 TTTTCATTAGTTGATGGTCATCACCATCCCT
28263731 TTTTCATT-GTTGATGGTCATCACCATCCCT
1 TTTTCATTAGTTGATGGTCATCACCATCCCT
28263761 TTTT
1 TTTT
28263765 ATAATTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTTCATTAGTTGATGGTCATCACCATCCCT
Found at i:28274134 original size:14 final size:14
Alignment explanation
Indices: 28274115--28274146 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
28274105 TCCAATCACC
28274115 GGGCCAATTTGGTT
1 GGGCCAATTTGGTT
*
28274129 GGGCCAGTTTGGTT
1 GGGCCAATTTGGTT
28274143 GGGC
1 GGGC
28274147 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.16, G:0.44, T:0.31
Consensus pattern (14 bp):
GGGCCAATTTGGTT
Found at i:28279229 original size:14 final size:14
Alignment explanation
Indices: 28279207--28279238 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
28279197 TCCAATCACC
28279207 GGGCAAGTTTGGTT
1 GGGCAAGTTTGGTT
*
28279221 GGGCCAGTTTGGTT
1 GGGCAAGTTTGGTT
28279235 GGGC
1 GGGC
28279239 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.12, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCAAGTTTGGTT
Found at i:28282393 original size:3 final size:3
Alignment explanation
Indices: 28282385--28282420 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
28282375 GAAGTTCCAA
28282385 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
28282421 TAGCTGTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:28282393 original size:24 final size:24
Alignment explanation
Indices: 28282359--28282579 Score: 147
Period size: 24 Copynumber: 8.7 Consensus size: 24
28282349 GTGGTGACGA
28282359 AGCTGCTGCTGCCGCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* ** * *
28282383 AACTGCTGCTGCTGCTGCTGCTGCTGC
1 -A--GCTGCTGCTGCCGCTGAAGTTCC
* ** *
28282410 TGCTGCTGCTGTAGCTGTAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
* * *
28282434 AACTGCTGCTGCCGCTGTAACTCTAGC
1 AGCTGCTGCTGCCGCTG-AAGT-T-CC
* * *
28282461 TGCTGCTGCTGCCGCTGTAA-CTCT
1 AGCTGCTGCTGCCGCTG-AAGTTCC
*
28282485 AGCTGCTGCTGCTGTCGCTGTAGTTCC
1 AGCTGCTGCTGC---CGCTGAAGTTCC
*
28282512 AGTTGCTGCTGTTGCCGCTGAAGTTCC
1 A---GCTGCTGCTGCCGCTGAAGTTCC
*
28282539 AGCTGCTGCTGCCTCTGAAGTTCC
1 AGCTGCTGCTGCCGCTGAAGTTCC
*
28282563 AGCTGCTGCTGCTGCTG
1 AGCTGCTGCTGCCGCTG
28282580 TCGCTGAAGT
Statistics
Matches: 150, Mismatches: 34, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
24 77 0.51
25 4 0.03
26 2 0.01
27 57 0.38
30 10 0.07
ACGTcount: A:0.10, C:0.31, G:0.28, T:0.31
Consensus pattern (24 bp):
AGCTGCTGCTGCCGCTGAAGTTCC
Found at i:28282396 original size:27 final size:27
Alignment explanation
Indices: 28282360--28282606 Score: 192
Period size: 27 Copynumber: 9.4 Consensus size: 27
28282350 TGGTGACGAA
*
28282360 GCTGCTGCTGCCGCTGAAGTTCCAACT
1 GCTGCTGCTGCCGCTGAAGTTCCAGCT
* * * *
28282387 GCTGCTGCTGCTGCT---GCTGCTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAGCT
** *
28282411 GCTGCTGCTGTAGCTGTAGTTCCA---
1 GCTGCTGCTGCCGCTGAAGTTCCAGCT
* * *
28282435 ACTGCTGCTGCCGCTGTAA-CTCTAGCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAGCT
* *
28282462 GCTGCTGCTGCCGCTGTAA-CTCTAGCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAGCT
* * *
28282489 GCTGCTGCTGTCGCTGTAGTTCCAGTT
1 GCTGCTGCTGCCGCTGAAGTTCCAGCT
*
28282516 GCTGCTGTTGCCGCTGAAGTTCCA---
1 GCTGCTGCTGCCGCTGAAGTTCCAGCT
*
28282540 GCTGCTGCTGCCTCTGAAGTTCCAGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAGCT
*
28282567 GCTGCTGCTGCTGTCGCTGAAGTTCCAACT
1 GCTGCTGCTGC---CGCTGAAGTTCCAGCT
*
28282597 GCCGCTGCTG
1 GCTGCTGCTG
28282607 TTGAAACTGA
Statistics
Matches: 176, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
24 56 0.32
25 1 0.01
26 1 0.01
27 95 0.54
30 23 0.13
ACGTcount: A:0.11, C:0.31, G:0.28, T:0.30
Consensus pattern (27 bp):
GCTGCTGCTGCCGCTGAAGTTCCAGCT
Found at i:28282396 original size:30 final size:30
Alignment explanation
Indices: 28282360--28282624 Score: 115
Period size: 30 Copynumber: 9.8 Consensus size: 30
28282350 TGGTGACGAA
28282360 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
*
28282390 GCTGCTGCTGCTGCT---G------CTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
** *
28282411 GCTGCTGCTGTAGCTGTAGTTCCAACTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
* * *
28282441 GCTGC--C-GCTG-T-AA-CT-CTA--GCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
* *
28282462 GCTGCTGCTGCCGCTGTAA-CT-CTA--GCT
1 GCTGCTGCTGCCGCTG-AAGTTCCAACTGCT
* * *
28282489 GCTGCTGCTGTCGCTGTAGTTCC-A--GTT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
*
28282516 GCTGCTGTTGCCGCTGAAGTTCC-A-----
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
* *
28282540 GCTGCTGCTGCCTCTGAAGTTCCAGCTGCT
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
* *
28282570 GCTGCTGCTGTCGCTGAAGTTCCAACTGCC
1 GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
* ***
28282600 GCTGCTGTTGAAACTGAAGTTCCAA
1 GCTGCTGCTGCCGCTGAAGTTCCAA
28282625 AAGGTGTTCC
Statistics
Matches: 185, Mismatches: 27, Indels: 46
0.72 0.10 0.18
Matches are distributed among these distances:
21 26 0.14
23 3 0.02
24 26 0.14
25 2 0.01
26 2 0.01
27 53 0.29
28 2 0.01
30 71 0.38
ACGTcount: A:0.12, C:0.30, G:0.27, T:0.30
Consensus pattern (30 bp):
GCTGCTGCTGCCGCTGAAGTTCCAACTGCT
Found at i:28282611 original size:24 final size:24
Alignment explanation
Indices: 28282530--28282611 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
28282520 CTGTTGCCGC
* *
28282530 TGAAGTTCCAGCTGCTGCTGCCT-C
1 TGAAGTTCCAGCTGCCGCTG-CTGT
28282554 TGAAGTTCCAGCTGCTGCTGCTGCTGT
1 TGAAGTTCCAGCTGC--C-GCTGCTGT
*
28282581 CGCTGAAGTTCCAACTGCCGCTGCTGT
1 ---TGAAGTTCCAGCTGCCGCTGCTGT
28282608 TGAA
1 TGAA
28282612 ACTGAAGTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
24 19 0.40
26 2 0.04
27 12 0.25
28 1 0.02
30 14 0.29
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (24 bp):
TGAAGTTCCAGCTGCCGCTGCTGT
Found at i:28288963 original size:13 final size:13
Alignment explanation
Indices: 28288935--28288968 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
28288925 ATATCTCATA
28288935 ATACCG-TTGCAC
1 ATACCGTTTGCAC
*
28288947 ATACCGTTTGCAT
1 ATACCGTTTGCAC
28288960 ATACCGTTT
1 ATACCGTTT
28288969 CTTCTATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (13 bp):
ATACCGTTTGCAC
Found at i:28300106 original size:19 final size:19
Alignment explanation
Indices: 28300082--28300119 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
28300072 TATCAAAATG
28300082 TCGTCAATAAACACAACGA
1 TCGTCAATAAACACAACGA
28300101 TCGTCAATAAACACAACGA
1 TCGTCAATAAACACAACGA
28300120 CAAACTTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (19 bp):
TCGTCAATAAACACAACGA
Found at i:28312951 original size:49 final size:49
Alignment explanation
Indices: 28312879--28312976 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
28312869 AGGTGAATGG
*
28312879 AAATGTCACCCAAGTATTGATATCCCAACCTACTTTAATCAAGAAATAA
1 AAATGTCACCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
* *
28312928 AAATGTCGCCCAAGTACTGATATCCCAACCTCCTTTAATCAAGAAATAA
1 AAATGTCACCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
28312977 TGTTTCCTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (49 bp):
AAATGTCACCCAAGTACTGATATCCCAACCTACTTTAATCAAGAAATAA
Found at i:28321718 original size:15 final size:15
Alignment explanation
Indices: 28321698--28321734 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
28321688 CTTAAATCAA
28321698 TTGTTTCTTCTCTAT
1 TTGTTTCTTCTCTAT
28321713 TTGTTTCTTCTCTAT
1 TTGTTTCTTCTCTAT
*
28321728 TTCTTTC
1 TTGTTTC
28321735 CTAGTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.22, G:0.05, T:0.68
Consensus pattern (15 bp):
TTGTTTCTTCTCTAT
Found at i:28324955 original size:20 final size:20
Alignment explanation
Indices: 28324913--28324968 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
28324903 AAACCAGCTA
* *
28324913 AAAAACCGGTTGAATTGGGT
1 AAAAACCGGTTGAACTCGGT
* *
28324933 AAAAACCTGTTGAACTCGTT
1 AAAAACCGGTTGAACTCGGT
* *
28324953 AAAAATCGGTTAAACT
1 AAAAACCGGTTGAACT
28324969 GGGGTTTTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (20 bp):
AAAAACCGGTTGAACTCGGT
Found at i:28329088 original size:30 final size:29
Alignment explanation
Indices: 28329021--28329094 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
28329011 GCTACCTCAA
* *
28329021 TTAAAAGAGAGTCTTTGTGGTGATCTCTG
1 TTAAAAGAAAGTCTTTGTGGCGATCTCTG
*
28329050 TTAAAAGAAAGTCTTTGTGGCGATCTTTG
1 TTAAAAGAAAGTCTTTGTGGCGATCTCTG
28329079 TTAAAAAGAAAGTCTT
1 TT-AAAAGAAAGTCTT
28329095 CATGGTTATC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 28 0.68
30 13 0.32
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (29 bp):
TTAAAAGAAAGTCTTTGTGGCGATCTCTG
Found at i:28329168 original size:29 final size:29
Alignment explanation
Indices: 28329021--28329210 Score: 95
Period size: 29 Copynumber: 6.5 Consensus size: 29
28329011 GCTACCTCAA
*
28329021 TTAAAAGAGA-GTCTTTGTGG-TGATCTCTG
1 TTAAAAG-GATGTCTTTGAGGCT-ATCTCTG
* * * * *
28329050 TTAAAAGAAAGTCTTTGTGGCGATCTTTG
1 TTAAAAGGATGTCTTTGAGGCTATCTCTG
* * * * *
28329079 TTAAAAAGAAAGTC-TTCATGGTTATCTCTA
1 TT-AAAAGGATGTCTTTGA-GGCTATCTCTG
** * * * *
28329109 TTTTAAGGATGACTTTGTGGCTATTTATG
1 TTAAAAGGATGTCTTTGAGGCTATCTCTG
28329138 TTAAAAGGATGTCTTTGAGGCTATCTCTG
1 TTAAAAGGATGTCTTTGAGGCTATCTCTG
* * *
28329167 TT-TAGGGAATGTCTTT-ATGGATATCTCTG
1 TTAAAAGG-ATGTCTTTGA-GGCTATCTCTG
28329196 TT-AAAGGAATGTCTT
1 TTAAAAGG-ATGTCTT
28329211 GTAGCAAATT
Statistics
Matches: 123, Mismatches: 31, Indels: 14
0.73 0.18 0.08
Matches are distributed among these distances:
28 5 0.04
29 96 0.78
30 22 0.18
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.41
Consensus pattern (29 bp):
TTAAAAGGATGTCTTTGAGGCTATCTCTG
Found at i:28333270 original size:17 final size:20
Alignment explanation
Indices: 28333229--28333270 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
28333219 TTTTTTGGTC
*
28333229 TTTATTGTTCTTATCTTTGA
1 TTTATTATTCTTATCTTTGA
28333249 TTTATTATTC-TAT-TTT-A
1 TTTATTATTCTTATCTTTGA
28333266 TTTAT
1 TTTAT
28333271 CTTAGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 3 0.14
19 3 0.14
20 9 0.43
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTATTATTCTTATCTTTGA
Found at i:28333279 original size:13 final size:13
Alignment explanation
Indices: 28333263--28333316 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
28333253 TTATTCTATT
*
28333263 TTATTTATCTTAG
1 TTATTTATCTTAA
*
28333276 TTATTTATTTTAA
1 TTATTTATCTTAA
* *
28333289 TTAATTATATTAA
1 TTATTTATCTTAA
*
28333302 TTTTTTATCTTAA
1 TTATTTATCTTAA
28333315 TT
1 TT
28333317 GGATTTGTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:28347289 original size:42 final size:42
Alignment explanation
Indices: 28347237--28347390 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
28347227 TGAGATTAGC
* * *
28347237 TGTAAAACCATATCTGGGATATGGCATCTATATGAGACTCCG
1 TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
* **
28347279 TGTAAGACCATATCTGGGATATGGAATCGATAAGAGACTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
* * * * *
28347321 TGTAAGACCATAGT-TAGGCTATTGGGATCGATACGAGA-TCCCA
1 TGTAAGACCATA-TCTGGGATA-TGGCATCGATAAGAGACT-CCG
28347364 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
28347391 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 60 0.65
43 32 0.35
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATAAGAGACTCCG
Found at i:28353791 original size:21 final size:20
Alignment explanation
Indices: 28353744--28353791 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
28353734 ATGATAGCTT
* * *
28353744 TTTTTGTTTTATTAATTTAC
1 TTTTTATTTTACTAAATTAC
*
28353764 TTATTATTTTACTAAATTACC
1 TTTTTATTTTACTAAATTA-C
28353785 TTTTTAT
1 TTTTTAT
28353792 CCTTATTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTATTTTACTAAATTAC
Done.