Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 192 of 427
Found at i:53259797 original size:14 final size:14
Alignment explanation
Indices: 53259778--53259808 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
53259768 CTAATTGAAC
53259778 CTTTCTTAACCTTT
1 CTTTCTTAACCTTT
*
53259792 CTTTCTTAGCCTTT
1 CTTTCTTAACCTTT
53259806 CTT
1 CTT
53259809 CAACTATCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.29, G:0.03, T:0.58
Consensus pattern (14 bp):
CTTTCTTAACCTTT
Found at i:53260183 original size:12 final size:13
Alignment explanation
Indices: 53260166--53260195 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
53260156 TATACAAGTT
53260166 AAAAAAATCC-AA
1 AAAAAAATCCGAA
53260178 AAAAAAATCCGAA
1 AAAAAAATCCGAA
53260191 AAAAA
1 AAAAA
53260196 GGAAGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.77, C:0.13, G:0.03, T:0.07
Consensus pattern (13 bp):
AAAAAAATCCGAA
Found at i:53267651 original size:37 final size:38
Alignment explanation
Indices: 53267592--53267700 Score: 175
Period size: 37 Copynumber: 2.8 Consensus size: 38
53267582 CTAAGTGACT
53267592 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCAA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTCCAA
53267631 AT-CGGACTAAGTCCGAAGGCATTTGTGCGAGTTCCAA
1 ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTCCAA
**
53267668 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 ATCCGGACTAAGT-CCGAAGGCATTTGTGCGAG
53267701 CTATTATAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
37 28 0.42
38 17 0.26
39 21 0.32
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
ATCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTCCAA
Found at i:53267725 original size:40 final size:38
Alignment explanation
Indices: 53267556--53267741 Score: 173
Period size: 38 Copynumber: 4.8 Consensus size: 38
53267546 CGAATGATGT
* ** * *
53267556 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTCCAAA
*
53267594 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTCCAAA
* *
53267632 TCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTCCAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCAAA
* *
53267669 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTAT-TATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-T-TCCA-AA
* * *
53267710 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
53267742 CGCTATATCC
Statistics
Matches: 126, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
37 27 0.21
38 39 0.31
39 28 0.22
40 29 0.23
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCAAA
Found at i:53275643 original size:39 final size:39
Alignment explanation
Indices: 53275587--53275733 Score: 147
Period size: 39 Copynumber: 3.7 Consensus size: 39
53275577 TCGAATGATG
* *
53275587 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTGACAAA
* **
53275626 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACAAA
* **
53275665 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCAAG-TGACAAA
**
53275705 TCCGGGTTAAG-TCCCGAAGGCATTTGTGC
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC
53275734 GAGCTATTAT
Statistics
Matches: 96, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
39 57 0.59
40 39 0.41
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCAAGTGACAAA
Found at i:53275722 original size:40 final size:39
Alignment explanation
Indices: 53275625--53275736 Score: 181
Period size: 39 Copynumber: 2.8 Consensus size: 39
53275615 TAAGTGACAT
53275625 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCAA
53275664 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT-CCAA
**
53275704 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAG
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG
53275737 CTATTATAAC
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
39 36 0.52
40 33 0.48
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCAA
Found at i:53275750 original size:40 final size:40
Alignment explanation
Indices: 53275587--53275776 Score: 169
Period size: 40 Copynumber: 4.8 Consensus size: 40
53275577 TCGAATGATG
* *
53275587 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGA-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* *
53275626 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TTCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* * *
53275665 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
53275705 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
53275746 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
53275777 TCGCTATATC
Statistics
Matches: 130, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 57 0.44
40 71 0.55
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:53281202 original size:45 final size:44
Alignment explanation
Indices: 53281134--53281225 Score: 175
Period size: 45 Copynumber: 2.1 Consensus size: 44
53281124 CTCAATAGGC
53281134 TTTAATTTTATATTTTATTCAACCTACAACTCAATTTACACAAT
1 TTTAATTTTATATTTTATTCAACCTACAACTCAATTTACACAAT
53281178 TTTATATTTTATATTTTATTCAACCTACAACTCAATTTACACAAT
1 TTTA-ATTTTATATTTTATTCAACCTACAACTCAATTTACACAAT
53281223 TTT
1 TTT
53281226 TGGTGGATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.09
45 43 0.91
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (44 bp):
TTTAATTTTATATTTTATTCAACCTACAACTCAATTTACACAAT
Found at i:53281796 original size:96 final size:97
Alignment explanation
Indices: 53281696--53281881 Score: 250
Period size: 96 Copynumber: 1.9 Consensus size: 97
53281686 AACAGTGTCG
* * *
53281696 ATGCCATGTTCCAGACATGGTCTTATACGGGACCTC-TTATCGATGCCAATGCCATATCCCAGAT
1 ATGCCATATCCCAGACATGGTCTTATACAGGACCTCATT-TCGATGCCAATGCCATATCCCAGAT
53281760 ATGGTCTTACATGGGATCTC-ATACTGATGCCA
65 ATGGTCTTACATGGGATCTCAATACTGATGCCA
* * ** * *
53281792 ATGCCATATCCCAGATATGGTCTTATACAGGATCTCATTTCGATGCTGATGCCATATCCTAGGTA
1 ATGCCATATCCCAGACATGGTCTTATACAGGACCTCATTTCGATGCCAATGCCATATCCCAGATA
* *
53281857 TGGTCTTATATGGTATCTCAATACT
66 TGGTCTTACATGGGATCTCAATACT
53281882 CACATGTTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
96 70 0.91
97 7 0.09
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (97 bp):
ATGCCATATCCCAGACATGGTCTTATACAGGACCTCATTTCGATGCCAATGCCATATCCCAGATA
TGGTCTTACATGGGATCTCAATACTGATGCCA
Found at i:53281876 original size:48 final size:48
Alignment explanation
Indices: 53281696--53281876 Score: 204
Period size: 48 Copynumber: 3.8 Consensus size: 48
53281686 AACAGTGTCG
* * * * *
53281696 ATGCCATGTTCCAGACATGGTCTTATACGGGACCTC-TTATCGATGCCA
1 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATT-TCGATGCCA
* *
53281744 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCA-TACTGATGCCA
1 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATTTC-GATGCCA
** **
53281792 ATGCCATATCCCAGATATGGTCTTATACAGGATCTCATTTCGATGCTG
1 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATTTCGATGCCA
* * *
53281840 ATGCCATATCCTAGGTATGGTCTTATATGGTATCTCA
1 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCA
53281877 ATACTCACAT
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 109 0.97
49 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (48 bp):
ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATTTCGATGCCA
Found at i:53286853 original size:26 final size:26
Alignment explanation
Indices: 53286772--53286854 Score: 68
Period size: 25 Copynumber: 3.3 Consensus size: 26
53286762 GTGAGGTTGC
*
53286772 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGTAGGCTACT
* *
53286798 ACGTGTA-T-C--AGATGGTTAGGCCAC-
1 ATGTGTAGTACTAAG-T-G-TAGGCTACT
*
53286822 GTGTGTAGTACTAAGTGTAGGCTACT
1 ATGTGTAGTACTAAGTGTAGGCTACT
53286848 ATGTGTA
1 ATGTGTA
53286855 CCGGATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 16
0.65 0.11 0.25
Matches are distributed among these distances:
22 2 0.05
23 1 0.02
24 7 0.17
25 15 0.36
26 14 0.33
27 1 0.02
28 2 0.05
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGTAGGCTACT
Found at i:53286893 original size:49 final size:49
Alignment explanation
Indices: 53286773--53286944 Score: 245
Period size: 49 Copynumber: 3.5 Consensus size: 49
53286763 TGAGGTTGCA
* * ** *
53286773 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGCCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
* *
53286823 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
53286872 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
53286921 TGTGTAGTACTATGTGCAGGCTAC
1 TGTGTAGTACTAAGTGCAGGCTAC
53286945 CATGCGTACC
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 74 0.67
50 36 0.33
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:53292865 original size:40 final size:40
Alignment explanation
Indices: 53292699--53292883 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
53292689 TTCGAATGAT
* * *
53292699 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
53292739 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
53292779 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
53292819 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
* *
53292860 A-CCGGGCTATGTCCCGAAGACATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
53292884 AGCCATATCC
Statistics
Matches: 119, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 110 0.92
41 8 0.07
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:53292877 original size:80 final size:80
Alignment explanation
Indices: 53292699--53292878 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 80
53292689 TTCGAATGAT
* *
53292699 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
53292764 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
53292779 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
53292840 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
53292860 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
53292879 ACATTAGCCA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
79 2 0.02
80 75 0.89
81 7 0.08
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:53295129 original size:21 final size:21
Alignment explanation
Indices: 53295090--53295129 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
53295080 TAGTGCATGA
*
53295090 AACATTTGGTGAGCTAATTTT
1 AACATTTGGTGAGCCAATTTT
53295111 AACATTT-GTGAGCCCAATT
1 AACATTTGGTGAG-CCAATT
53295130 GCGAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
AACATTTGGTGAGCCAATTTT
Found at i:53300097 original size:39 final size:39
Alignment explanation
Indices: 53300043--53300186 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
53300033 GAATGTTCGA
53300043 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
53300082 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
53300121 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
53300160 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
53300187 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:53300133 original size:78 final size:79
Alignment explanation
Indices: 53300044--53300226 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
53300034 AATGTTCGAG
53300044 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
53300108 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
53300122 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
53300187 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
53300201 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53300227 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:53307149 original size:40 final size:40
Alignment explanation
Indices: 53306983--53307167 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
53306973 TTCGAATGAT
* * *
53306983 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
53307023 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
53307063 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
53307103 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
* *
53307144 A-CCGGGCTATGTCCCGAAGACATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
53307168 AGCCATATCC
Statistics
Matches: 119, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 110 0.92
41 8 0.07
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:53307161 original size:80 final size:80
Alignment explanation
Indices: 53306983--53307162 Score: 199
Period size: 80 Copynumber: 2.2 Consensus size: 80
53306973 TTCGAATGAT
* *
53306983 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
53307048 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
53307063 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
53307124 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
53307144 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
53307163 ACATTAGCCA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
79 2 0.02
80 75 0.89
81 7 0.08
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:53309416 original size:21 final size:21
Alignment explanation
Indices: 53309377--53309416 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
53309367 TAGTGCATGA
*
53309377 AACATTTGGTGAGCTAATTTT
1 AACATTTGGTGAGCCAATTTT
53309398 AACATTT-GTGAGCCCAATT
1 AACATTTGGTGAG-CCAATT
53309417 GCGAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
AACATTTGGTGAGCCAATTTT
Found at i:53314614 original size:50 final size:49
Alignment explanation
Indices: 53314438--53314669 Score: 250
Period size: 49 Copynumber: 4.7 Consensus size: 49
53314428 TCTATTGTGA
* * * *
53314438 GGTCATGTGTGTAGTACTAAGTGCAGGATGCTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * *
53314487 GGTCGCATGTGTAGTACTAAGTGCAGGTTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
53314537 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGCATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
53314587 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATA-CTGAATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
* *
53314637 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
53314670 TACGTACCAG
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 72 0.47
50 44 0.29
51 36 0.24
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:53321539 original size:40 final size:40
Alignment explanation
Indices: 53321431--53321640 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
53321421 CGGGATTTAA
* * * * *
53321431 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
53321471 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53321511 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53321551 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53321591 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53321631 CCGGATATAT
1 CCGGATATAT
53321641 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:53328758 original size:40 final size:40
Alignment explanation
Indices: 53328650--53328859 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
53328640 CGGGATTTAA
* * * * *
53328650 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
53328690 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53328730 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53328770 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53328810 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53328850 CCGGATATAT
1 CCGGATATAT
53328860 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:53329902 original size:13 final size:13
Alignment explanation
Indices: 53329884--53329908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53329874 CCGAATATTG
53329884 AAGAAAAAAAGAA
1 AAGAAAAAAAGAA
53329897 AAGAAAAAAAGA
1 AAGAAAAAAAGA
53329909 GTTTTAGGGT
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:53330695 original size:44 final size:44
Alignment explanation
Indices: 53330643--53330768 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 44
53330633 GGCTATATAA
* **
53330643 GGCACTAAGTGTGC-GATACCAACTTAGCTTCGGCTAACTGAAAT
1 GGCACTAAGTGTACGGA-ACCATTTTAGCTTCGGCTAACTGAAAT
* * *
53330687 GGCACTAAGTGTTCGGAATCATTTTAGCTTTGGCTAACTGAAAT
1 GGCACTAAGTGTACGGAACCATTTTAGCTTCGGCTAACTGAAAT
*
53330731 GACACTAAGTGTACGGAACCATTTTAGCTTCGGCTAAC
1 GGCACTAAGTGTACGGAACCATTTTAGCTTCGGCTAAC
53330769 CCTTACAACA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 70 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (44 bp):
GGCACTAAGTGTACGGAACCATTTTAGCTTCGGCTAACTGAAAT
Found at i:53337310 original size:12 final size:12
Alignment explanation
Indices: 53337293--53337327 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
53337283 ACAGGTTTGG
53337293 CATGGCCTAGCA
1 CATGGCCTAGCA
*
53337305 CATGGCCTGGCA
1 CATGGCCTAGCA
*
53337317 CATGGGCTAGC
1 CATGGCCTAGC
53337328 CACACGGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.17
Consensus pattern (12 bp):
CATGGCCTAGCA
Found at i:53343245 original size:46 final size:48
Alignment explanation
Indices: 53343100--53343412 Score: 258
Period size: 46 Copynumber: 6.6 Consensus size: 48
53343090 GGGTTATTGT
* *
53343100 GAGCTAGTGTAAGACC-TGTCTGGGACATGCATCGGCCAT-ATTATG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGA-GATGTA
* * * * *
53343146 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGACACG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGATGTA
*
53343194 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTA
** *
53343241 -AGCTAGTGTAAGA-CATGTCTGAAACATGCATCAG-CTATGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGATGTA
* * * * *
53343286 G-TC-AGTGTAAGACCATGTCTGGGACATAGAAAT-GGCATGGATATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-G-CATCGGCCTTGAGATGT-A
* *
53343334 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTTGA-AT-TCGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGATGT--A
* * *
53343383 TAGTTAGTGTCAGACCATGTCTGGGACATG
1 GAGCTAGTGTAAGACCATGTCTGGGACATG
53343413 GAATCAGCAT
Statistics
Matches: 217, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
44 9 0.04
45 15 0.07
46 74 0.34
47 28 0.13
48 28 0.13
49 33 0.15
50 30 0.14
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTA
Found at i:53346141 original size:28 final size:28
Alignment explanation
Indices: 53346109--53346165 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
53346099 ATGGGATAAG
53346109 TAAAGTTACTCAAAATTCATAGAGTGCC
1 TAAAGTTACTCAAAATTCATAGAGTGCC
53346137 TAAAGTTACTCAAAATTCATAGAGTGCC
1 TAAAGTTACTCAAAATTCATAGAGTGCC
53346165 T
1 T
53346166 GTATGAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (28 bp):
TAAAGTTACTCAAAATTCATAGAGTGCC
Found at i:53349830 original size:46 final size:44
Alignment explanation
Indices: 53349615--53349823 Score: 160
Period size: 46 Copynumber: 4.5 Consensus size: 44
53349605 ATTGTGAGCT
* *
53349615 AGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAG-A-T-CC
1 AGTGTAAGACATGTCTGGGACATGCATCG---GC--TATGAGAAGTGTC
* *
53349661 AGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGAGAGAT-
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAGA--AGTG-TC
* * * *
53349709 AGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGAAGT--GTC
*
53349755 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGAAGTGTC
53349799 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
53349824 GAATCGGGAC
Statistics
Matches: 133, Mismatches: 14, Indels: 33
0.74 0.08 0.18
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 12 0.09
45 18 0.14
46 57 0.43
47 26 0.20
48 15 0.11
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGAAGTGTC
Found at i:53352535 original size:40 final size:40
Alignment explanation
Indices: 53352490--53352657 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53352480 CGGAATATAA
53352490 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53352530 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53352570 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
53352610 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53352650 CCGGATAT
1 CCGGATAT
53352658 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53368907 original size:39 final size:40
Alignment explanation
Indices: 53368860--53369003 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
53368850 AATGTTCGAG
53368860 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
53368899 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* ** *
53368938 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
53368978 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
53369004 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:53370856 original size:39 final size:39
Alignment explanation
Indices: 53370813--53370923 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
53370803 GTGCGAATTG
53370813 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
53370852 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
53370891 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTG
53370924 GCGGGTTACC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 52 0.78
40 15 0.22
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:53375276 original size:39 final size:39
Alignment explanation
Indices: 53375229--53375411 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
53375219 AATGTTCGAG
53375229 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
53375268 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
53375307 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
53375346 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
53375386 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53375412 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:53379969 original size:37 final size:37
Alignment explanation
Indices: 53379875--53380013 Score: 153
Period size: 37 Copynumber: 3.8 Consensus size: 37
53379865 CGAGGCGTGG
*
53379875 GTTA-ATATCCGGGCTAAG-CCGAAGGCAAT-TGCGA
1 GTTACATATCCGGGCTAAGCCCGAAGGCATTGTGCGA
*
53379909 GTTATATATCCGGGCTAAGCCCGAAGGCATTGTGCAGA
1 GTTACATATCCGGGCTAAGCCCGAAGGCATTGTGC-GA
*
53379947 GTTAC-TATCCGGG-TAAGTCCCGAAGGCTTTGTGCGA
1 GTTACATATCCGGGCTAAG-CCCGAAGGCATTGTGCGA
* *
53379983 GTTACCTATAACCGGGCTATGTCCCGAAGGC
1 GTTA-C-ATATCCGGGCTAAG-CCCGAAGGC
53380014 GATTTGACGA
Statistics
Matches: 91, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.04
35 14 0.15
36 20 0.22
37 27 0.30
38 6 0.07
39 7 0.08
40 13 0.14
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (37 bp):
GTTACATATCCGGGCTAAGCCCGAAGGCATTGTGCGA
Found at i:53380010 original size:40 final size:38
Alignment explanation
Indices: 53379875--53380052 Score: 151
Period size: 40 Copynumber: 4.7 Consensus size: 38
53379865 CGAGGCGTGG
* *
53379875 GTTAATAT-CCGGGCTAAG--CCGAAGGCAAT-TGCGA
1 GTTACTATACCGGGCTAAGTCCCGAAGGCATTGTGCGA
53379909 GTTA-TATATCCGGGCTAAG-CCCGAAGGCATTGTGCAGA
1 GTTACTATA-CCGGGCTAAGTCCCGAAGGCATTGTGC-GA
*
53379947 GTTACTAT-CCGGG-TAAGTCCCGAAGGCTTTGTGCGA
1 GTTACTATACCGGGCTAAGTCCCGAAGGCATTGTGCGA
*
53379983 GTTACCTATAACCGGGCTATGTCCCGAAGGCGATT-TGACGA
1 GTTA-CTAT-ACCGGGCTAAGTCCCGAAGGC-ATTGTG-CGA
* * *
53380024 G-TAGCTATATCCGGACTAAATTCCGAAGG
1 GTTA-CTATA-CCGGGCTAAGTCCCGAAGG
53380053 TACTTGGTTG
Statistics
Matches: 121, Mismatches: 9, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
33 3 0.02
34 4 0.03
35 10 0.08
36 20 0.17
37 27 0.22
38 6 0.05
39 9 0.07
40 36 0.30
41 6 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
GTTACTATACCGGGCTAAGTCCCGAAGGCATTGTGCGA
Found at i:53386257 original size:38 final size:38
Alignment explanation
Indices: 53386119--53386334 Score: 278
Period size: 38 Copynumber: 5.6 Consensus size: 38
53386109 ATGATGTCCG
* *
53386119 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AATCC
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCC
53386157 GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCC
53386197 GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCC
53386237 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
53386275 GGGTAAGTCCGAAGGCATTTGTGCGAG-TACTATAA-CC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AATCC
* *
53386312 GGGCTATGTCCCGAAGGTATTTG
1 -GGCTAAGT-CCGAAGGCATTTG
53386335 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
37 7 0.04
38 67 0.41
39 36 0.22
40 55 0.33
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:53394296 original size:61 final size:61
Alignment explanation
Indices: 53394205--53394319 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 61
53394195 GGGCTAAGTC
*
53394205 CCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTCGGACTT
1 CCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTCGGACTT
* *
53394266 CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGT
1 CCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGT
53394320 GCGAGTTACT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
61 43 0.86
62 7 0.14
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (61 bp):
CCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTGTCGGACTT
Found at i:53394310 original size:40 final size:39
Alignment explanation
Indices: 53394265--53394398 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 39
53394255 TTGTCGGACT
53394265 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAG
1 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAG
**
53394304 ATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG
1 -TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAG
* * *
53394344 TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG
1 T-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAG
*
53394384 TCCCGAAGGTATTTG
1 T-CCGAAGGCATTTG
53394399 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 83 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAG
Found at i:53394405 original size:80 final size:79
Alignment explanation
Indices: 53394266--53394421 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
53394256 TGTCGGACTT
* **
53394266 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
53394330 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
53394346 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
53394409 TATATCCGGTTAA
64 TAAATCCGGTTAA
53394422 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:53394412 original size:40 final size:40
Alignment explanation
Indices: 53394266--53394417 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
53394256 TGTCGGACTT
** * *
53394266 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGCTAAG-TC
** * *
53394306 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGCTAAGTC
** *
53394346 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGCTAAGTC
* *
53394386 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
53394418 TTAAACTCCG
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 95 0.95
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGCTAAGTC
Found at i:53407525 original size:20 final size:21
Alignment explanation
Indices: 53407487--53407525 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
53407477 AATGGTCATG
*
53407487 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
*
53407508 GATGA-TTATGAGTCACTT
1 GATGATTTAAGAGTCACTT
53407526 GTTGTTTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:53408123 original size:28 final size:28
Alignment explanation
Indices: 53408038--53408133 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 28
53408028 TTACTATGAG
* *
53408038 TGTGATTGGACCTGACGGGCCATATGAAA
1 TGTGATTGGGCCTGATGGGCCATAT-AAA
* * *
53408067 -GTGATTGGGCTTGATGGGTCATATGAA
1 TGTGATTGGGCCTGATGGGCCATATAAA
*
53408094 TGTGATTGGGCCCGATGGGCCATATAAA
1 TGTGATTGGGCCTGATGGGCCATATAAA
*
53408122 TGAGA-TGGGCCT
1 TGTGATTGGGCCT
53408134 AAAGGGGCCA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
27 8 0.15
28 47 0.85
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (28 bp):
TGTGATTGGGCCTGATGGGCCATATAAA
Found at i:53412346 original size:2 final size:2
Alignment explanation
Indices: 53412339--53412366 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
53412329 GCTCTTGCAC
53412339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53412367 GTGTTTGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53413015 original size:80 final size:80
Alignment explanation
Indices: 53412868--53413067 Score: 267
Period size: 80 Copynumber: 2.5 Consensus size: 80
53412858 CTCGAATGAT
* * * * * * *
53412868 ATCCGGGCTAGGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGCAT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGCTACTAAATCCAGACTAAGATCCGAAGGCAT
53412933 TTGTGCGAGTTACTAA
65 TTGTGCGAGTTACTAA
* *
53412949 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCTGAAGGCAT
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCAGACTAAGATCCGAAGGCAT
53413013 TTGTGCGAGTTACTAA
65 TTGTGCGAGTTACTAA
* **
53413029 ATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTA
53413068 TAACCGGGCT
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 77 0.74
81 25 0.24
82 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCAGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTAA
Found at i:53413089 original size:40 final size:40
Alignment explanation
Indices: 53412904--53413067 Score: 249
Period size: 40 Copynumber: 4.1 Consensus size: 40
53412894 GTGCTAAGCG
*
53412904 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
53412944 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
* *
53412984 ACTAAATCCAGACTAAGATCTGAAGGCATTTGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
* ** *
53413024 ACTAAATTCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCT
1 ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTT
53413064 ACTA
1 ACTA
53413068 TAACCGGGCT
Statistics
Matches: 114, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 113 0.99
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (40 bp):
ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
Found at i:53420182 original size:40 final size:40
Alignment explanation
Indices: 53419991--53420154 Score: 260
Period size: 40 Copynumber: 4.1 Consensus size: 40
53419981 GTGCTAAGCG
*
53419991 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
53420031 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
53420071 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
* * *
53420111 ACTAAATCCGG-GTGAAG-TCCCAAAGGCATTTGTGCGAGCT
1 ACTAAATCCGGACT-AAGAT-CCGAAGGCATTTGTGCGAGTT
53420151 ACTA
1 ACTA
53420155 TAACCGGGCT
Statistics
Matches: 118, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 2 0.02
40 116 0.98
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
Found at i:53420189 original size:80 final size:80
Alignment explanation
Indices: 53419955--53420161 Score: 276
Period size: 80 Copynumber: 2.6 Consensus size: 80
53419945 CTCGAATGAT
* * * * * *
53419955 ATCCGGGCTAGGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGCAT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGCTACTATAACCGGACTAAGATCCGAAGGCAT
53420020 TTGTGCGAGTTACTAA
65 TTGTGCGAGTTACTAA
*
53420036 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGATCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGACTAAGATCCGAAGGCA
53420099 TTTGTGCGAGTTACTAA
64 TTTGTGCGAGTTACTAA
* *
53420116 ATCCGG-GTGAAGTCCCAAAGGCATTTGTGCGAGCTACTATAACCGG
1 ATCCGGACT-AAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGG
53420162 GCTATGTCCC
Statistics
Matches: 111, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.03
80 80 0.72
81 27 0.24
82 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTAA
Found at i:53420201 original size:80 final size:80
Alignment explanation
Indices: 53419966--53420189 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 80
53419956 TCCGGGCTAG
* * * * * **
53419966 GTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
1 GTCCCAAAGGCATTTGTGC-GAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTT
*
53420031 ACTAAATCCGGACT-AA
65 ACTAAATCCGG-GTGAA
* * **
53420047 GAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTT
1 G-TCCCAAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTT
53420111 ACTAAATCCGGGTGAA
65 ACTAAATCCGGGTGAA
* * *
53420127 GTCCCAAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGT
1 GTCCCAAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGT
53420190 AGCTATATCC
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
79 3 0.02
80 103 0.82
81 18 0.14
82 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
GTCCCAAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTA
CTAAATCCGGGTGAA
Found at i:53426039 original size:28 final size:28
Alignment explanation
Indices: 53425986--53426088 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 28
53425976 ATTGTATGAC
* * * *
53425986 TATGAGTGTGACTGGGCCCGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
53426014 TATCAAAGTGATTGGGCCTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
53426042 TATGTATGTGATTGGG-CTCGATGGGCCA
1 TATGAATGTGATTGGGCCT-GATGGGCCA
*
53426070 TATGAATGAGATTGGGCCT
1 TATGAATGTGATTGGGCCT
53426089 AAAGGGGCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 2 0.03
28 58 0.94
29 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.35, T:0.26
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:53427340 original size:17 final size:18
Alignment explanation
Indices: 53427307--53427340 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53427297 TTCAAAGAAG
53427307 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
53427325 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
53427341 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:53436290 original size:93 final size:93
Alignment explanation
Indices: 53436161--53436332 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
53436151 GCCCATAAGT
* * *
53436161 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53436226 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
53436254 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53436319 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
53436333 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53436328 original size:46 final size:46
Alignment explanation
Indices: 53436153--53436328 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
53436143 TGTAACCCGC
* * * *
53436153 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
53436199 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
53436249 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
53436292 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53436329 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:53436347 original size:46 final size:45
Alignment explanation
Indices: 53436204--53436347 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
53436194 CGCATCCATA
* *
53436204 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
53436252 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
53436297 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
53436343 AGTGA
1 AGTGA
53436348 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:53440465 original size:10 final size:10
Alignment explanation
Indices: 53440448--53440485 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
53440438 TGCTGTAGCG
53440448 AATAAAATAT
1 AATAAAATAT
*
53440458 ATTAAAATAT
1 AATAAAATAT
53440468 AATAAAATAT
1 AATAAAATAT
53440478 AATAAAAT
1 AATAAAAT
53440486 CTTACCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AATAAAATAT
Found at i:53441613 original size:18 final size:19
Alignment explanation
Indices: 53441569--53441615 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
53441559 AAAGGTTAGT
**
53441569 AATGTAAATTGTTAAATAA
1 AATGTAAATTAATAAATAA
53441588 AA-GATAAATTAATAAA-AA
1 AATG-TAAATTAATAAATAA
53441606 AATGTAAATT
1 AATGTAAATT
53441616 TTCTTCATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (19 bp):
AATGTAAATTAATAAATAA
Found at i:53443070 original size:33 final size:33
Alignment explanation
Indices: 53443007--53443068 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
53442997 TTTTGGGTCA
* *
53443007 TATAGCATGTATAGGGACTTTGGTCATTTTGGT
1 TATAGCATGTATAGGGAATTTGGCCATTTTGGT
* *
53443040 TATAGCTTG-ATAGTGAATTTGGCCATTTT
1 TATAGCATGTATAGGGAATTTGGCCATTTT
53443069 TGTTGGCCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 17 0.68
33 8 0.32
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.44
Consensus pattern (33 bp):
TATAGCATGTATAGGGAATTTGGCCATTTTGGT
Found at i:53447857 original size:29 final size:29
Alignment explanation
Indices: 53447793--53447910 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
53447783 TACATACATG
* *
53447793 CATATGGCCTA-CTAGGCCCAATCTTATT
1 CATATGGCCCATCTAGGCCCAATCATATT
*
53447821 CAAATGGCCCATCT-GGCCCAATTCATATT
1 CATATGGCCCATCTAGGCCCAA-TCATATT
* * *
53447850 CTTATGGCCCA-CTATGCCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAA-TCATATT
53447879 CATATGGCCCAT-TAGGCCCAATCATATT
1 CATATGGCCCATCTAGGCCCAATCATATT
53447907 -ATAT
1 CATAT
53447911 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.05
28 24 0.32
29 48 0.63
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (29 bp):
CATATGGCCCATCTAGGCCCAATCATATT
Found at i:53447869 original size:57 final size:57
Alignment explanation
Indices: 53447795--53447906 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
53447785 CATACATGCA
* **
53447795 TATGGCCTACTAGGCCCAA-TCTTATTCAAATGGCCCATCT-GGCCCAATTCATATTCT
1 TATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCAT-TAGGCCCAA-TCATATTCT
* *
53447852 TATGGCCCACTATGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCATATT
1 TATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCATTAGGCCCAATCATATT
53447907 ATATTCATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 25 0.52
58 23 0.48
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCATTAGGCCCAATCATATTCT
Found at i:53448012 original size:19 final size:18
Alignment explanation
Indices: 53447979--53448015 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
53447969 TGGGCTCAAC
53447979 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
53447997 AGCCCATTCTGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
53448016 GGCCAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.38, G:0.16, T:0.27
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:53448135 original size:8 final size:8
Alignment explanation
Indices: 53448122--53448172 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
53448112 GTAGCCCAAC
53448122 TTTCGGCT
1 TTTCGGCT
53448130 TTTCGGCAT
1 TTTCGGC-T
53448139 TTT-GGCT
1 TTTCGGCT
*
53448146 TTTCGACT
1 TTTCGGCT
*
53448154 TTTCGGCA
1 TTTCGGCT
*
53448162 TTTCAGCT
1 TTTCGGCT
53448170 TTT
1 TTT
53448173 GCCGATTCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 4 0.11
8 28 0.78
9 4 0.11
ACGTcount: A:0.08, C:0.22, G:0.20, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:53448170 original size:24 final size:24
Alignment explanation
Indices: 53448122--53448172 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
53448112 GTAGCCCAAC
* **
53448122 TTTCGGCTTTTCGGCATTTTGGCT
1 TTTCGACTTTTCGGCATTTCAGCT
53448146 TTTCGACTTTTCGGCATTTCAGCT
1 TTTCGACTTTTCGGCATTTCAGCT
53448170 TTT
1 TTT
53448173 GCCGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.22, G:0.20, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCGGCATTTCAGCT
Found at i:53460525 original size:24 final size:24
Alignment explanation
Indices: 53460498--53460558 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
53460488 TATTATGTTT
53460498 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
53460522 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
53460546 GCACACATAGTGC
1 GCACACATAGTGC
53460559 ATTTGAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:53462944 original size:29 final size:28
Alignment explanation
Indices: 53462912--53463014 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53462902 GGGACGAGAT
* *
53462912 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53462941 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53462970 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53462999 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53463015 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53470978 original size:29 final size:28
Alignment explanation
Indices: 53470945--53471047 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53470935 GGGACGAGAT
* *
53470945 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53470974 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53471003 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53471032 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53471048 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53481710 original size:2 final size:2
Alignment explanation
Indices: 53481703--53481732 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
53481693 TCATCCACGA
53481703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53481733 TTGTAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53492519 original size:26 final size:26
Alignment explanation
Indices: 53492490--53492539 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
53492480 GAAAATGATG
*
53492490 TGAATGAATGAACACCAATGGGCAGA
1 TGAATGAATAAACACCAATGGGCAGA
*
53492516 TGAATGAATAAACTCCAATGGGCA
1 TGAATGAATAAACACCAATGGGCA
53492540 TACAGTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (26 bp):
TGAATGAATAAACACCAATGGGCAGA
Found at i:53494718 original size:30 final size:30
Alignment explanation
Indices: 53494663--53494719 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
53494653 CTTTTGAAAA
* *
53494663 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACACCAAATTTTTAG
53494693 TATTTACAAAAAGAG-CAACCAAATTTT
1 TATTTACAAAAAGAGAC-ACCAAATTTT
53494720 GAAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGACACCAAATTTTTAG
Found at i:53497216 original size:27 final size:25
Alignment explanation
Indices: 53497178--53497255 Score: 102
Period size: 27 Copynumber: 3.0 Consensus size: 25
53497168 TATACCGGTG
53497178 GCTCTGCCACAAATATCTGTTCTGGT
1 GCTCTGCCAC-AATATCTGTTCTGGT
*
53497204 CGCTCTGCCACAATATCTATATCTGGT
1 -GCTCTGCCACAATATCTGT-TCTGGT
*
53497231 GACTCTGTCACAATATCTGTTCTGG
1 G-CTCTGCCACAATATCTGTTCTGG
53497256 CAGCCATGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 14 0.30
27 32 0.70
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.35
Consensus pattern (25 bp):
GCTCTGCCACAATATCTGTTCTGGT
Found at i:53505139 original size:48 final size:48
Alignment explanation
Indices: 53505063--53505160 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
53505053 TAGGGTTATG
* ***
53505063 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGAACATACATGGGACATGGCATTGGCATCGATA
*
53505111 TGTGATCCCATGTAAGAACATACATGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGAACATACATGGGACATGGCATTGGCATCGATA
53505159 TG
1 TG
53505161 AGACATCATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGAACATACATGGGACATGGCATTGGCATCGATA
Found at i:53507025 original size:27 final size:27
Alignment explanation
Indices: 53506956--53507025 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
53506946 CTTAAGAGTG
* * *
53506956 TGCCACGAAGGCATTCCTTACAGAGTT
1 TGCCACAAAGGTATTCCTTACAAAGTT
*
53506983 TGCCACAAA-TTAATTCCTTACAAAGTT
1 TGCCACAAAGGT-ATTCCTTACAAAGTT
*
53507010 TGCCATAAAGGTATTC
1 TGCCACAAAGGTATTC
53507026 GTTCATGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (27 bp):
TGCCACAAAGGTATTCCTTACAAAGTT
Found at i:53509720 original size:40 final size:40
Alignment explanation
Indices: 53509661--53509868 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
53509651 CAATTGAATG
* * * *
53509661 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
53509701 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
53509741 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
53509781 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
53509821 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
53509861 ATATCCGG
1 ATATCCGG
53509869 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:53509799 original size:80 final size:80
Alignment explanation
Indices: 53509663--53509868 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
53509653 ATTGAATGAT
* * ** * * *
53509663 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
53509727 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
53509743 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
53509808 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
53509823 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
53509869 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:53517767 original size:40 final size:40
Alignment explanation
Indices: 53517708--53517915 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
53517698 CAATTGAATG
* * * *
53517708 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
53517748 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
53517788 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
53517828 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
53517868 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
53517908 ATATCCGG
1 ATATCCGG
53517916 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:53517846 original size:80 final size:80
Alignment explanation
Indices: 53517710--53517915 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
53517700 ATTGAATGAT
* * ** * * *
53517710 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
53517774 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
53517790 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
53517855 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
53517870 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
53517916 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:53521276 original size:31 final size:31
Alignment explanation
Indices: 53521235--53521298 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
53521225 CCTTTTCATA
* *
53521235 TTTCATATTTCATAACATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
53521266 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
53521297 TT
1 TT
53521299 ACAGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:53521544 original size:24 final size:24
Alignment explanation
Indices: 53521492--53521681 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
53521482 GCTTTATCAT
*
53521492 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
53521517 ATAACTGGGGAAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
53521541 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
53521564 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
53521588 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
53521612 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
53521636 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53521659 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53521682 TCACTTCCTC
Statistics
Matches: 151, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 43 0.28
24 96 0.64
25 12 0.08
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:53521568 original size:47 final size:48
Alignment explanation
Indices: 53521491--53521682 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
53521481 TGCTTTATCA
* * *
53521491 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
53521540 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
53521587 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
53521635 GATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
53521682 T
1 T
53521683 CACTTCCTCC
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 69 0.52
48 50 0.38
49 13 0.10
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:53521592 original size:71 final size:72
Alignment explanation
Indices: 53521492--53521682 Score: 280
Period size: 71 Copynumber: 2.7 Consensus size: 72
53521482 GCTTTATCAT
* * *
53521492 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
53521556 GCCC-TTTA
64 GCCCTTTTA
* * *
53521564 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
53521629 CCTTTTG
66 CCTTTTA
53521636 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
53521683 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 75 0.69
72 33 0.31
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:53521761 original size:20 final size:20
Alignment explanation
Indices: 53521736--53521798 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
53521726 GAACATCTCG
*
53521736 TGTGCATATCATACAAATCA
1 TGTGCATATCATACATATCA
*
53521756 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
53521776 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
53521796 TGT
1 TGT
53521799 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:53523121 original size:27 final size:27
Alignment explanation
Indices: 53523030--53523113 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
53523020 GGGCATATTC
*
53523030 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
53523057 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
53523084 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
53523111 GTC
1 GTC
53523114 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:53523130 original size:27 final size:26
Alignment explanation
Indices: 53523030--53523123 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
53523020 GGGCATATTC
*
53523030 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
53523057 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
53523084 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
53523111 GTCTTTTTACCTA
1 GTCACTTTACCTA
53523124 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:53523205 original size:27 final size:27
Alignment explanation
Indices: 53523175--53523282 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
53523165 GTAAATCTAC
53523175 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
**
53523202 AAACCAATTGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
53523228 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
53523258 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
53523283 ACAAATTGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
26 1 0.02
27 39 0.61
28 7 0.11
29 16 0.25
30 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:53523288 original size:27 final size:27
Alignment explanation
Indices: 53523258--53523364 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
53523248 GTAACTTTGT
53523258 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
53523285 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* **
53523312 AAACCAGTAGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
53523339 AAA-CTAGGGGTATTTTGGTAATTTTA
1 AAATC-AGGGGTATTTTGGTAATTTTA
53523365 TTGATCGAGG
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.03
27 63 0.95
28 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:53523510 original size:81 final size:81
Alignment explanation
Indices: 53523393--53523565 Score: 292
Period size: 81 Copynumber: 2.1 Consensus size: 81
53523383 GTAATTTCAT
* *
53523393 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*
53523458 AAATAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* *
53523474 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*
53523539 AAACGGTAATTCTGTA
66 AAACAGTAATTCTGTA
53523555 AATCGAGGGTA
1 AATCGAGGGTA
53523566 CTTTGGCAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:53523576 original size:27 final size:27
Alignment explanation
Indices: 53523393--53523565 Score: 258
Period size: 27 Copynumber: 6.4 Consensus size: 27
53523383 GTAATTTCAT
*
53523393 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
53523420 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
53523447 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
53523474 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
53523501 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
53523528 AATCGAGGGTGAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
53523555 AATCGAGGGTA
1 AATCGAGGGTA
53523566 CTTTGGCAAT
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 130 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:53523585 original size:81 final size:81
Alignment explanation
Indices: 53523393--53523589 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
53523383 GTAATTTCAT
* * ** *
53523393 AATCGAGGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGCAATTCTACAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*
53523458 AAATAGTAATTCTGTA
66 AAACAGTAATTCTGTA
* * *
53523474 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGCAATTCTACAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
*
53523539 AAACGGTAATTCTGTA
66 AAACAGTAATTCTGTA
*** *
53523555 AATCGAGGGTACTTTGGCAATTTTACAAATTGAGG
1 AATCGAGGGTAAAATGGCAATTCTACAAATTGAGG
53523590 ACATTTTAGT
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 104 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGCAATTCTACAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:53527792 original size:47 final size:47
Alignment explanation
Indices: 53527738--53527900 Score: 218
Period size: 47 Copynumber: 3.5 Consensus size: 47
53527728 TTAGGATTTT
** **
53527738 ATGTGATGAATGTGAATGTGTATATATGTGATTCGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
53527785 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * *
53527832 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
53527879 ATGTGATAAATGTGAGCATGTA
1 ATGTGATGAATGTGAACATGTA
53527901 ACACCCCGAA
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:53529401 original size:45 final size:40
Alignment explanation
Indices: 53529248--53529462 Score: 270
Period size: 40 Copynumber: 5.2 Consensus size: 40
53529238 CGGGATTTAA
* * * * *
53529248 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
53529288 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53529328 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53529368 CCGGATATATCAACTCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGG--ATAT--A-TCAACTCGCACGAATGCCTTCGGGTCTTAGC
53529413 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
53529453 CCGGATATAT
1 CCGGATATAT
53529463 TCCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.01
40 107 0.70
41 1 0.01
42 4 0.03
43 4 0.03
44 1 0.01
45 35 0.23
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:53529482 original size:20 final size:21
Alignment explanation
Indices: 53529457--53529504 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
53529447 CTTAGCCCGG
53529457 ATATATTCCAATGTT-CTTAC
1 ATATATTCCAATGTTACTTAC
*
53529477 ATATATTTCAATGTTCACTTAC
1 ATATATTCCAATGTT-ACTTAC
53529499 ATATAT
1 ATATAT
53529505 ATCAATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.56
22 11 0.44
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (21 bp):
ATATATTCCAATGTTACTTAC
Found at i:53529497 original size:22 final size:22
Alignment explanation
Indices: 53529457--53529515 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
53529447 CTTAGCCCGG
*
53529457 ATATATTCCAATGTT--CTTAC
1 ATATATTTCAATGTTCACTTAC
53529477 ATATATTTCAATGTTCACTTAC
1 ATATATTTCAATGTTCACTTAC
* *
53529499 ATATATATCAATATTCA
1 ATATATTTCAATGTTCA
53529516 AGACACGTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 14 0.41
22 20 0.59
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (22 bp):
ATATATTTCAATGTTCACTTAC
Found at i:53541024 original size:38 final size:39
Alignment explanation
Indices: 53540980--53541082 Score: 154
Period size: 38 Copynumber: 2.6 Consensus size: 39
53540970 AATGTTCGAG
* *
53540980 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
*
53541018 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
*
53541057 TGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
53541083 CTTTGTGCGG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 30 0.51
39 20 0.34
40 9 0.15
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTA
Found at i:53546268 original size:40 final size:39
Alignment explanation
Indices: 53546223--53546429 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
53546213 CGGAATACAA
*
53546223 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
53546263 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
53546303 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
53546342 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
53546382 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
53546422 CCGGATAT
1 CCGGATAT
53546430 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
38 1 0.01
39 30 0.21
40 109 0.78
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:53546412 original size:79 final size:81
Alignment explanation
Indices: 53546223--53546427 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 81
53546213 CGGAATACAA
* * *
53546223 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAA
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
53546286 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* * * * *
53546303 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG-CCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
53546365 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * * *
53546382 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT
53546428 ATCATTCAAT
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
79 60 0.57
80 42 0.40
81 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:53549091 original size:40 final size:40
Alignment explanation
Indices: 53548865--53549063 Score: 278
Period size: 40 Copynumber: 5.0 Consensus size: 40
53548855 TTCGAATGAT
* * * *
53548865 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAT
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAA
*
53548905 ATCCGGACTAAGATCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
53548945 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
53548985 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
** *
53549025 ATCCGGTTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
53549064 TAACCGGGCT
Statistics
Matches: 149, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 140 0.94
41 8 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:53549109 original size:80 final size:80
Alignment explanation
Indices: 53548873--53549112 Score: 258
Period size: 80 Copynumber: 3.0 Consensus size: 80
53548863 ATATCCGGGC
* * ** *
53548873 TAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCA
1 TAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTAAATCCGGACTAAGATCCGAAGGCATTTGAACG
**
53548936 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGGTT
* **
53548953 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGA
53549017 GTTACTAAATCCGGTT
65 GTTACTAAATCCGGTT
* * *
53549033 TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACG
1 TAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACG
*
53549096 AG-TAGCTATATCCGGTT
64 AGTTA-CTAAATCCGGTT
53549113 AAACTCCGAA
Statistics
Matches: 141, Mismatches: 12, Indels: 14
0.84 0.07 0.08
Matches are distributed among these distances:
79 4 0.03
80 126 0.89
81 11 0.08
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG
TTACTAAATCCGGTT
Found at i:53549109 original size:120 final size:120
Alignment explanation
Indices: 53548863--53549110 Score: 274
Period size: 120 Copynumber: 2.1 Consensus size: 120
53548853 TCTTCGAATG
* *
53548863 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCA
* **
53548928 TTTGTGCAAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
66 TTTGTGCAAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACT
* * * **
53548983 AAATCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGTTTAAG-TCCCGAAG
1 ATATCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAG
* * * *
53549045 GCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAG-TAGCT
63 GCATTTGTGCAAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA-CT
53549103 ATATCCGG
1 ATATCCGG
53549111 TTAAACTCCG
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
119 4 0.04
120 93 0.87
121 10 0.09
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (120 bp):
ATATCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCA
TTTGTGCAAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACT
Found at i:53562119 original size:26 final size:26
Alignment explanation
Indices: 53562089--53562138 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
53562079 GAAAATGGTG
53562089 TGAATGAATG-AACACCAATGGGCAGA
1 TGAATGAA-GAAACACCAATGGGCAGA
*
53562115 TGAATGAAGAAACTCCAATGGGCA
1 TGAATGAAGAAACACCAATGGGCA
53562139 TACAATGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (26 bp):
TGAATGAAGAAACACCAATGGGCAGA
Found at i:53567782 original size:67 final size:67
Alignment explanation
Indices: 53567703--53567852 Score: 239
Period size: 67 Copynumber: 2.2 Consensus size: 67
53567693 ACAGAATTTA
* *
53567703 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAATACAGATAT-TGTGGCTAACCCACCAGA
1 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAA-ACAAATATATGTGGCGAACCCACCAGA
53567767 TTG
65 TTG
** *
53567770 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAACAAATATATGTGGCGAGGCCACTAGAT
1 CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAACAAATATATGTGGCGAACCCACCAGAT
53567835 TG
66 TG
53567837 CAGCGAGGCTGCCAGA
1 CAGCGAGGCTGCCAGA
53567853 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
66 7 0.09
67 70 0.91
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAAAACAAATATATGTGGCGAACCCACCAGAT
TG
Found at i:53571059 original size:16 final size:16
Alignment explanation
Indices: 53571040--53571070 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53571030 GACAAATCCC
*
53571040 GAAAAGCTGAAATGCT
1 GAAAAGCTAAAATGCT
53571056 GAAAAGCTAAAATGC
1 GAAAAGCTAAAATGC
53571071 CAAAAAGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.23, T:0.16
Consensus pattern (16 bp):
GAAAAGCTAAAATGCT
Found at i:53571340 original size:29 final size:29
Alignment explanation
Indices: 53571298--53571354 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
53571288 CATGACTGTG
53571298 AATGTGATATGGGCCAAATGGGCCATATA
1 AATGTGATATGGGCCAAATGGGCCATATA
* *
53571327 AATGTGATTTGGGCCTAATGGGCCATAT
1 AATGTGATATGGGCCAAATGGGCCATAT
53571355 GAATAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
AATGTGATATGGGCCAAATGGGCCATATA
Found at i:53576648 original size:16 final size:15
Alignment explanation
Indices: 53576607--53576648 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
53576597 GATGTATTAA
*
53576607 TAAAGGTTAAAATAG
1 TAAAGATTAAAATAG
53576622 TAAA-ATGTAAAATAAG
1 TAAAGAT-TAAAAT-AG
53576638 TAAAGATTAAA
1 TAAAGATTAAA
53576649 TAAAACAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 10 0.43
16 10 0.43
17 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (15 bp):
TAAAGATTAAAATAG
Found at i:53580557 original size:68 final size:67
Alignment explanation
Indices: 53580485--53580634 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
53580475 CATCATGTGT
* * * *
53580485 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
53580547 ATGTAG
62 ATGTAG
** * *
53580553 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
53580618 AG
66 AG
53580620 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
53580635 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:53580590 original size:64 final size:64
Alignment explanation
Indices: 53580509--53580692 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
53580499 AGACATTATG
* *
53580509 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53580573 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53580638 AA
63 AA
* * * *
53580640 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
53580693 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53583981 original size:2 final size:2
Alignment explanation
Indices: 53583969--53584006 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
53583959 ACTTCAACAC
* *
53583969 AT AT TT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53584007 CCCTTTCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53585560 original size:64 final size:64
Alignment explanation
Indices: 53585481--53585607 Score: 254
Period size: 64 Copynumber: 2.0 Consensus size: 64
53585471 TCATGCACAA
53585481 ACAAAAATTCACATTACTTACCACGCTTTCATATACACAAATTTAACTATATATATATATATAT
1 ACAAAAATTCACATTACTTACCACGCTTTCATATACACAAATTTAACTATATATATATATATAT
53585545 ACAAAAATTCACATTACTTACCACGCTTTCATATACACAAATTTAACTATATATATATATATA
1 ACAAAAATTCACATTACTTACCACGCTTTCATATACACAAATTTAACTATATATATATATATA
53585608 GCATACCATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (64 bp):
ACAAAAATTCACATTACTTACCACGCTTTCATATACACAAATTTAACTATATATATATATATAT
Found at i:53587493 original size:43 final size:42
Alignment explanation
Indices: 53587397--53587558 Score: 166
Period size: 43 Copynumber: 3.8 Consensus size: 42
53587387 TCGAGATATG
* * * *
53587397 ATTACTTGTAAGACCAAGTCTGGGACATTGGCATTGTATTGAG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT-AT
*
53587440 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTAT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTAT
* * * *
53587482 AATTTCATGTAAGACCTTGTCTGGGATAGTGGCATCGATATGTAT
1 -ATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT-TAT
* * *
53587527 -TTACATTTAAGACCATATCTGGGATA-TGGCAT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCAT
53587559 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
42 7 0.07
43 90 0.87
44 3 0.03
45 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (42 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTAT
Found at i:53591961 original size:15 final size:15
Alignment explanation
Indices: 53591941--53591996 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
53591931 GTATCTTGGG
53591941 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
53591956 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
53591971 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
53591986 TTTCTTTATTC
1 TTTCTTTATTC
53591997 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:53594431 original size:46 final size:46
Alignment explanation
Indices: 53594380--53594504 Score: 196
Period size: 46 Copynumber: 2.7 Consensus size: 46
53594370 GGTTGAGCAT
* * * *
53594380 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
53594426 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
53594472 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53594505 GGGGCGGGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:53610289 original size:29 final size:26
Alignment explanation
Indices: 53610238--53610315 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
53610228 TATTTATTAT
53610238 TTTTATTTTCACTTT--TA-TA-TTTA
1 TTTTATTTTC-CTTTAATACTATTTTA
*
53610261 -TTTATCTT-CTTTAAGTACT-TTTTA
1 TTTTATTTTCCTTTAA-TACTATTTTA
*
53610285 TTTTATTTTCCTTTAATACTATTTCA
1 TTTTATTTTCCTTTAATACTATTTTA
53610311 TTTTA
1 TTTTA
53610316 GGTTTTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 4 0.09
22 7 0.16
23 2 0.05
24 5 0.11
25 11 0.25
26 15 0.34
ACGTcount: A:0.22, C:0.12, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTTATTTTCCTTTAATACTATTTTA
Found at i:53610304 original size:25 final size:29
Alignment explanation
Indices: 53610250--53610315 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 29
53610240 TTATTTTCAC
53610250 TTTTATATTTATTTATCTTCTTTAAGTACT-
1 TTTTAT-TTTATTTATC-TCTTTAAGTACTA
53610280 TTTTATTTTATTT-TC-CTTTAA-TACTA
1 TTTTATTTTATTTATCTCTTTAAGTACTA
*
53610306 TTTCATTTTA
1 TTTTATTTTA
53610316 GGTTTTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
25 4 0.12
26 15 0.44
28 2 0.06
29 7 0.21
30 6 0.18
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTTATTTTATTTATCTCTTTAAGTACTA
Found at i:53614147 original size:27 final size:26
Alignment explanation
Indices: 53614112--53614220 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 26
53614102 AGCATGGCTG
* *
53614112 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
53614138 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
53614166 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
53614193 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
53614220 C
1 C
53614221 TAGGATGCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:53614176 original size:54 final size:54
Alignment explanation
Indices: 53614112--53614220 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
53614102 AGCATGGCTG
* *
53614112 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
53614166 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
53614220 C
1 C
53614221 TAGGATGCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:53614363 original size:26 final size:26
Alignment explanation
Indices: 53614327--53614378 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
53614317 CAAAAGTAAC
* **
53614327 CCTATGGGTATAATGGTAATTTTCCA
1 CCTAGGGGTATAACAGTAATTTTCCA
53614353 CCTAGGGGTATAACAGTAATTTTCCA
1 CCTAGGGGTATAACAGTAATTTTCCA
53614379 TACATAGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTATAACAGTAATTTTCCA
Found at i:53614402 original size:28 final size:26
Alignment explanation
Indices: 53614332--53614391 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
53614322 GTAACCCTAT
** *
53614332 GGGTATAATGGTAATTTTCCACCTAG
1 GGGTATAACAGTAATTTTCCACATAG
53614358 GGGTATAACAGTAATTTTCCATACATAG
1 GGGTATAACAGTAATTTTCC--ACATAG
53614386 GGGTAT
1 GGGTAT
53614392 TCAAGTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 18 0.62
28 11 0.38
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (26 bp):
GGGTATAACAGTAATTTTCCACATAG
Found at i:53619328 original size:43 final size:43
Alignment explanation
Indices: 53619278--53619395 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
53619268 TATATTGAGA
* *
53619278 TTACGTGTAAGACCATATCTGGGACATTGGCTTCG-TAT-TAT
1 TTACGTGTAAGACCATATCTGGGACAGTGGCATCGATATGTAT
* * * *
53619319 AATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGATATGTAT
1 --TTACGTGTAAGACCATATCTGGGACAGTGGCATCGATATGTAT
* *
53619364 TTACATGTAAGACCATATCTGGGATA-TGGCAT
1 TTACGTGTAAGACCATATCTGGGACAGTGGCAT
53619396 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
42 6 0.10
43 49 0.80
44 3 0.05
45 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATATCTGGGACAGTGGCATCGATATGTAT
Found at i:53627928 original size:57 final size:57
Alignment explanation
Indices: 53627858--53627967 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
53627848 AAATTCACAT
* * *
53627858 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCTATTAGGCCCAAACC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATT-ATATGGCCCATTAGGCCCAAACC
* * *
53627915 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTTATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTATATGGCCCATTAGGCCCA
53627968 GACACATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 38 0.83
58 8 0.17
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTATATGGCCCATTAGGCCCAAACC
Found at i:53627933 original size:29 final size:28
Alignment explanation
Indices: 53627867--53627980 Score: 115
Period size: 28 Copynumber: 4.0 Consensus size: 28
53627857 TACCTGTATC
* *
53627867 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
* * *
53627895 TGGCCTATTAGGCCCAAACCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
*
53627924 TGGCCCATTAGGCCCAAATCACATTTTA
1 TGGCCCATTAGGCCCAAATCACATTATA
* *
53627952 TGGCCCGTTAGGCCCAGA-CACATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
53627980 T
1 T
53627981 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 6 0.08
28 35 0.49
29 29 0.41
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:53628208 original size:16 final size:16
Alignment explanation
Indices: 53628187--53628222 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
53628177 GTAGCCAAAC
53628187 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
*
53628203 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
53628219 TTTC
1 TTTC
53628223 GGCATTTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:53628230 original size:16 final size:16
Alignment explanation
Indices: 53628187--53628233 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
53628177 GTAGCCAAAC
* *
53628187 TTTCAGCTTTTCGACA
1 TTTCAGCATTTCGGCA
*
53628203 TTTCAGCTTTTCGGCA
1 TTTCAGCATTTCGGCA
*
53628219 TTTCGGCATTTCGGC
1 TTTCAGCATTTCGGC
53628234 TTTTGCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.43
Consensus pattern (16 bp):
TTTCAGCATTTCGGCA
Found at i:53628232 original size:8 final size:8
Alignment explanation
Indices: 53628195--53628233 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
53628185 ACTTTCAGCT
*
53628195 TTTCGACA
1 TTTCGGCA
* *
53628203 TTTCAGCT
1 TTTCGGCA
53628211 TTTCGGCA
1 TTTCGGCA
53628219 TTTCGGCA
1 TTTCGGCA
53628227 TTTCGGC
1 TTTCGGC
53628234 TTTTGCCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.41
Consensus pattern (8 bp):
TTTCGGCA
Done.