Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 187 of 318
Found at i:58367874 original size:11 final size:11
Alignment explanation
Indices: 58367858--58367905 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 11
58367848 GGAGAAGAAG
58367858 TTGGGGGAAAT
1 TTGGGGGAAAT
*
58367869 TTGGGGGAGAAGAAG
1 TT-GGGG-G-A-AAT
58367884 TTGGGGGAAAT
1 TTGGGGGAAAT
58367895 TTGGGGGAAAT
1 TTGGGGGAAAT
58367906 CGGGGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 15 0.48
12 5 0.16
13 2 0.06
14 5 0.16
15 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (11 bp):
TTGGGGGAAAT
Found at i:58368215 original size:28 final size:28
Alignment explanation
Indices: 58368183--58368240 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
58368173 AATCAAAACT
*
58368183 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
58368211 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
58368239 CT
1 CT
58368241 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:58368241 original size:21 final size:21
Alignment explanation
Indices: 58368217--58368260 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
58368207 ATCCCTATAA
* *
58368217 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
58368238 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
58368259 CC
1 CC
58368261 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:58368494 original size:7 final size:7
Alignment explanation
Indices: 58368482--58368508 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
58368472 CCCTAAGTAT
58368482 TAACCCC
1 TAACCCC
58368489 TAACCCC
1 TAACCCC
58368496 TAACCCC
1 TAACCCC
58368503 TAACCC
1 TAACCC
58368509 TTAAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:58368528 original size:21 final size:22
Alignment explanation
Indices: 58368497--58368540 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
58368487 CCTAACCCCT
* *
58368497 AACCCCTAACCCTTAAATCATA
1 AACCCCTAACCATTAAACCATA
58368519 AACCCC-AACCATTAAACCATA
1 AACCCCTAACCATTAAACCATA
58368540 A
1 A
58368541 TACATAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCATTAAACCATA
Found at i:58368850 original size:40 final size:41
Alignment explanation
Indices: 58368614--58368834 Score: 293
Period size: 41 Copynumber: 5.4 Consensus size: 41
58368604 AACCCTAAAG
* * *
58368614 TTTTTAGCGGCGTTTTACCAAAAGCGCCGTTAAATTCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCT-AATGCTCTGA
*
58368656 TTTTTAGCGGCGTTTTACCAAAAGCGCCGGTAATGCTCTGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* *
58368697 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATACTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* *
58368738 TTTTTAGCGGCGCTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
* *** *
58368779 TTCTTAGCGGCGGTTTTGGTAAAA-CGCCGCTATTGCTCTG-
1 TTTTTAGCGGC-GTTTTACCAAAAGCGCCGCTAATGCTCTGA
58368819 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
58368835 TGGTAAAACG
Statistics
Matches: 160, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 5 0.03
40 10 0.06
41 107 0.67
42 38 0.24
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGA
Found at i:58368861 original size:40 final size:40
Alignment explanation
Indices: 58368782--58368862 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
58368772 GCTCTTATTC
** *
58368782 TTAGCGGCGGTTTTGGTAAAACGCCGCTATTGCTCTGTTT
1 TTAGCGGCGGTTTTGGTAAAACGCCGCTAAAGCTATGTTT
*
58368822 TTAGCGGCGTTTTTGGTAAAACGCCGCTAAAGAC-ATGTTT
1 TTAGCGGCGGTTTTGGTAAAACGCCGCTAAAG-CTATGTTT
58368862 T
1 T
58368863 CCTGTAGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (40 bp):
TTAGCGGCGGTTTTGGTAAAACGCCGCTAAAGCTATGTTT
Found at i:58384191 original size:40 final size:40
Alignment explanation
Indices: 58384087--58384270 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
58384077 GCTACTCGTT
* *
58384087 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
58384127 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
58384166 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
58384206 CGAATGCCTTC-GGATCTTAG-TCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
58384246 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58384271 CATCATTCGA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 58 0.46
40 68 0.54
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58384231 original size:79 final size:79
Alignment explanation
Indices: 58384087--58384270 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 79
58384077 GCTACTCGTT
* *
58384087 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAATGCCTTCGGGACTTAACCCGG
* *
58384151 ATTTAGTAAC-TCGCA
64 ATATAGTAACTTAGCA
* **
58384166 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGAATGCCTTC-GGATCTT-AGTC
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCC
*
58384228 GGATATAGTCACTTAGCA
62 GGATATAGTAACTTAGCA
58384246 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
58384271 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 62 0.69
80 25 0.28
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCA
Found at i:58390126 original size:29 final size:29
Alignment explanation
Indices: 58390093--58390164 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
58390083 GTGACGAGAT
*
58390093 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
58390122 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
58390151 CGGCACT--GTGTGCG
1 TGGCACTAAGTGTGCG
58390165 AGCTCGAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 6 0.15
29 33 0.85
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:58397944 original size:29 final size:29
Alignment explanation
Indices: 58397911--58397984 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
58397901 GTGACGAGAT
58397911 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
58397940 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58397969 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58397985 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58398000 original size:29 final size:29
Alignment explanation
Indices: 58397968--58398043 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
58397958 CTGGAAATAT
* *
58397968 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
58397997 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
58398026 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
58398044 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:58398011 original size:58 final size:58
Alignment explanation
Indices: 58397911--58398043 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
58397901 GTGACGAGAT
* * * * * *
58397911 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
58397969 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
58398027 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
58398044 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:58405803 original size:28 final size:29
Alignment explanation
Indices: 58405741--58405804 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
58405731 GTGACGAGAT
** *
58405741 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
58405770 TGGCACTAAGTGTGCAAGCT-GAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
58405798 CGGCACT
1 CGGCACT
58405805 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Found at i:58410301 original size:46 final size:46
Alignment explanation
Indices: 58410234--58410408 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
58410224 TGTAACCCGC
* *
58410234 CCATAAGTGAACTTGGACTCAACTCAACGAGATCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACAT
* *
58410280 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCACAT
* * *
58410330 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACAT
58410373 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
58410409 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 61 0.56
47 26 0.24
48 1 0.01
49 1 0.01
50 7 0.06
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCACAT
Found at i:58410355 original size:93 final size:93
Alignment explanation
Indices: 58410242--58410412 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
58410232 GCCCATAAGT
* *
58410242 GAACTTGGACTCAACTCAACGAGATCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
58410307 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
58410335 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
58410400 CGAGTTCGGATGC
66 CGAGCTCGGATGC
58410413 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGATCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:58410428 original size:46 final size:45
Alignment explanation
Indices: 58410239--58410428 Score: 142
Period size: 46 Copynumber: 4.1 Consensus size: 45
58410229 CCCGCCCATA
* *
58410239 AGTGAACTTGGACTCAACTCAACGAGATCGG--GCATTC-ACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC--TCAACATCC-T
* *
58410284 AAGTGAACTCGGACTCAACTCAATGAGCTCGGATGC-CTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATC-CT
* *** *
58410334 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-T
58410377 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CATCCT
58410424 AGTGA
1 AGTGA
58410429 CATGTCACTT
Statistics
Matches: 114, Mismatches: 15, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
45 1 0.01
46 64 0.56
47 28 0.25
48 8 0.07
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCT
Found at i:58418822 original size:28 final size:28
Alignment explanation
Indices: 58418775--58418839 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
58418765 AAATTAACCC
58418775 TAGGGGTATAAAAGTCATTTTGCACACA
1 TAGGGGTATAAAAGTCATTTTGCACACA
** * *
58418803 TAGGGGTATAATGGTGATTTTGCATACA
1 TAGGGGTATAAAAGTCATTTTGCACACA
58418831 TAGGGGTAT
1 TAGGGGTAT
58418840 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAAGTCATTTTGCACACA
Found at i:58419923 original size:12 final size:13
Alignment explanation
Indices: 58419904--58419936 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58419894 GGGTTCGGCT
58419904 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
58419917 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
58419929 ATGGAGAA
1 ATGGAGAA
58419937 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:58422777 original size:40 final size:40
Alignment explanation
Indices: 58422717--58422881 Score: 172
Period size: 40 Copynumber: 4.1 Consensus size: 40
58422707 CGGGATTCAA
* ** *
58422717 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
58422757 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
58422797 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
58422837 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCG-GGTCTTAGC
58422878 CCGG
1 CCGG
58422882 GTATCATTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 88 0.84
41 15 0.14
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:58422864 original size:80 final size:81
Alignment explanation
Indices: 58422717--58422881 Score: 199
Period size: 80 Copynumber: 2.0 Consensus size: 81
58422707 CGGGATTCAA
* * ** * *
58422717 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
*
58422782 CCTTCG-GGTCTTAGC
66 CCTTCGAGGACTTAGC
** * * *
58422797 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
58422861 GCCTTCGAGGACTTAGC
65 GCCTTCGAGGACTTAGC
58422878 CCGG
1 CCGG
58422882 GTATCATTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 57 0.80
81 14 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGGACTTAGC
Found at i:58430882 original size:40 final size:40
Alignment explanation
Indices: 58430822--58430985 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
58430812 CGGGATTCAA
* ** *
58430822 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
58430862 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
58430902 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
58430942 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
58430982 CCGG
1 CCGG
58430986 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:58430969 original size:80 final size:80
Alignment explanation
Indices: 58430822--58430985 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
58430812 CGGGATTCAA
* * ** * *
58430822 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
58430887 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * *
58430902 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
58430966 GCCTTCGAGACTTAGC
65 GCCTTCGAGACTTAGC
58430982 CCGG
1 CCGG
58430986 GTATCATTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Found at i:58435338 original size:26 final size:26
Alignment explanation
Indices: 58435309--58435383 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
58435299 TTGGGGCGTT
* *
58435309 ACAGATATTGTGGTAGAGCCACTAGA
1 ACAGATATTGTGGCAGAGCCACCAGA
58435335 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATAT-TGTGGCAGAGCCACCAGA
* * *
58435362 TCAGGTAATTGTGGCATAGCCA
1 ACAGAT-ATTGTGGCAGAGCCA
58435384 ACAGGACGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 8 0.19
27 32 0.76
28 2 0.05
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (26 bp):
ACAGATATTGTGGCAGAGCCACCAGA
Found at i:58437022 original size:26 final size:26
Alignment explanation
Indices: 58436986--58437067 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
58436976 TGACATGCAC
*
58436986 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
58437012 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
58437038 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58437064 ATCA
1 ATCA
58437068 ATTTTTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58441827 original size:2 final size:2
Alignment explanation
Indices: 58441820--58441848 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
58441810 TCTATTACAA
58441820 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58441849 CCAAATCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:58447112 original size:64 final size:63
Alignment explanation
Indices: 58447031--58447214 Score: 167
Period size: 67 Copynumber: 2.8 Consensus size: 63
58447021 AGACATTATG
* *
58447031 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTG-TACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
58447095 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAATAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
58447160 AA
62 AA
* * * *
58447162 AT-TGGCTAGGTCACATGGGTCGTATTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGT-GTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
58447215 CGAACTATAT
Statistics
Matches: 95, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 24 0.25
65 1 0.01
66 19 0.20
67 32 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58450580 original size:27 final size:28
Alignment explanation
Indices: 58450523--58450592 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
58450513 AAATTTGTAC
**
58450523 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
58450551 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
58450578 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58450593 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:58450601 original size:27 final size:27
Alignment explanation
Indices: 58450523--58450604 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
58450513 AAATTTGTAC
* *
58450523 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
58450551 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
58450578 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
58450605 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:58458551 original size:27 final size:28
Alignment explanation
Indices: 58458494--58458563 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
58458484 AAATTTGTAC
**
58458494 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
58458522 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
58458549 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58458564 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:58458572 original size:27 final size:27
Alignment explanation
Indices: 58458494--58458575 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
58458484 AAATTTGTAC
* *
58458494 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
58458522 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
58458549 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
58458576 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:58462829 original size:17 final size:17
Alignment explanation
Indices: 58462807--58462839 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
58462797 TTAATTTAAA
58462807 TAAATAAAATTCTCAAT
1 TAAATAAAATTCTCAAT
*
58462824 TAAATAAATTTCTCAA
1 TAAATAAAATTCTCAA
58462840 CCTAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATAAAATTCTCAAT
Found at i:58464851 original size:25 final size:25
Alignment explanation
Indices: 58464823--58464870 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58464813 TTATACCATG
* * *
58464823 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
58464848 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
58464871 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:58464939 original size:20 final size:20
Alignment explanation
Indices: 58464914--58464972 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
58464904 TAAATATGGT
*
58464914 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
58464934 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
58464954 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
58464973 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:58465050 original size:24 final size:24
Alignment explanation
Indices: 58465023--58465141 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
58465013 GAGGAAGTGA
*
58465023 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
58465047 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
58465070 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
58465094 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58465118 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
58465142 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:58465092 original size:47 final size:48
Alignment explanation
Indices: 58465023--58465141 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
58465013 GAGGAAGTGA
58465023 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
58465070 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
58465118 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
58465142 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:58465368 original size:31 final size:31
Alignment explanation
Indices: 58465333--58465427 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
58465323 CGTTTACAGT
58465333 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58465364 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
58465395 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58465426 AA
1 AA
58465428 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58472327 original size:25 final size:25
Alignment explanation
Indices: 58472299--58472346 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
58472289 TTATACCATG
* * *
58472299 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
58472324 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
58472347 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:58472413 original size:18 final size:18
Alignment explanation
Indices: 58472390--58472446 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
58472380 TAAATATGGT
*
58472390 ATGTATGAGATGCACATG
1 ATGTATGATATGCACATG
58472408 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
58472426 ATATGTATGATATGCACATG
1 --ATGTATGATATGCACATG
58472446 A
1 A
58472447 GGTAATCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 18 0.50
20 18 0.50
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (18 bp):
ATGTATGATATGCACATG
Found at i:58472433 original size:20 final size:20
Alignment explanation
Indices: 58472389--58472446 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
58472379 ATAAATATGG
*
58472389 TATGTATGAGATGCACATG-
1 TATGTATGATATGCACATGA
58472408 -ATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
58472427 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
58472447 GGTAATCATA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 17 0.47
20 19 0.53
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:58472596 original size:47 final size:47
Alignment explanation
Indices: 58472498--58472637 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 47
58472488 AGGAAGTGAA
58472498 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-TC
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATTC
*
58472545 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTC
*
58472592 AAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
58472638 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
46 33 0.38
47 43 0.49
48 11 0.13
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTC
Found at i:58472613 original size:23 final size:24
Alignment explanation
Indices: 58472497--58472637 Score: 200
Period size: 23 Copynumber: 6.0 Consensus size: 24
58472487 GAGGAAGTGA
*
58472497 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
58472521 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
*
58472544 CAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
58472567 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58472591 GAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
58472614 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
58472638 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
23 61 0.57
24 38 0.36
25 8 0.07
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:58472883 original size:30 final size:31
Alignment explanation
Indices: 58472829--58472892 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
58472819 CGTTTACAGT
58472829 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58472860 AAAGGCTTCGGCCCAGT-ATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58472890 AAA
1 AAA
58472893 ATATGAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58472898 original size:16 final size:16
Alignment explanation
Indices: 58472877--58472907 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
58472867 TCGGCCCAGT
58472877 ATATGAAATATGAAAA
1 ATATGAAATATGAAAA
58472893 ATATGAAATATGAAA
1 ATATGAAATATGAAA
58472908 TGAGGGCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (16 bp):
ATATGAAATATGAAAA
Found at i:58475158 original size:28 final size:28
Alignment explanation
Indices: 58475085--58475187 Score: 116
Period size: 28 Copynumber: 3.7 Consensus size: 28
58475075 ATTGCATGAC
* *
58475085 TATGAAAGTGATTGGGCCTGACGGTCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
58475113 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* ** ** *
58475141 TATGAATGTGATCAGGCCCAATGAGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* *
58475169 TATGAATGAGATTGGGCCT
1 TATGAAAGTGATTGGGCCT
58475188 AAAGCGGCCA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGATGGGCCA
Found at i:58478039 original size:40 final size:40
Alignment explanation
Indices: 58477994--58478160 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58477984 CGGAATATAA
58477994 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58478034 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58478074 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
58478114 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58478153 CCGGATAT
1 CCGGATAT
58478161 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58486038 original size:40 final size:40
Alignment explanation
Indices: 58485993--58486160 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
58485983 CGGAATATAA
58485993 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58486033 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
58486073 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
58486113 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
58486153 CCGGATAT
1 CCGGATAT
58486161 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:58491364 original size:18 final size:16
Alignment explanation
Indices: 58491341--58491379 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 16
58491331 TATTTTATGC
58491341 AAAAGAAAGGAAATAAAT
1 AAAAGAAA-GAAA-AAAT
58491359 AAAAGAAAGAAAAAAT
1 AAAAGAAAGAAAAAAT
58491375 AAAAG
1 AAAAG
58491380 GGTAATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (16 bp):
AAAAGAAAGAAAAAAT
Found at i:58492857 original size:40 final size:40
Alignment explanation
Indices: 58492802--58493049 Score: 347
Period size: 40 Copynumber: 6.2 Consensus size: 40
58492792 TGAATGATAC
* * *
58492802 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
58492842 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
58492882 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
58492922 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
58492962 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
58493002 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
58493042 CC-GGCTAA
1 CCGGGCTAA
58493050 ATTCCGAAGA
Statistics
Matches: 188, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 5 0.03
40 181 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:58493011 original size:120 final size:120
Alignment explanation
Indices: 58492798--58493029 Score: 385
Period size: 120 Copynumber: 1.9 Consensus size: 120
58492788 CATTTGAATG
* *
58492798 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
* * *
58492863 TTTGTGCGAGTTGTTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTTGCT
* *
58492918 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
58492982 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
65 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
58493030 TTGTGGTTAT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
120 102 0.98
121 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (120 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTTGCT
Found at i:58496824 original size:13 final size:13
Alignment explanation
Indices: 58496806--58496830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58496796 TTATCTATAT
58496806 ATGTACCTTGACA
1 ATGTACCTTGACA
58496819 ATGTACCTTGAC
1 ATGTACCTTGAC
58496831 TTAGACCTAG
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:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTACCTTGACA
Found at i:58500149 original size:40 final size:40
Alignment explanation
Indices: 58500053--58500243 Score: 247
Period size: 40 Copynumber: 4.8 Consensus size: 40
58500043 CGAATGGTGT
* * * * * *
58500053 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
58500094 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
58500134 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
58500174 CCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
58500214 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
58500244 ATCACTATAA
Statistics
Matches: 133, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 109 0.82
41 24 0.18
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:58500258 original size:40 final size:39
Alignment explanation
Indices: 58500053--58500271 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 39
58500043 CGAATGGTGT
* * *
58500053 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
58500093 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* *
58500134 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* *
58500174 CCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
58500213 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
58500254 CCGGGC-AATGTCCCGAAG
1 CCGGGCTAA-GTCCCGAAG
58500272 ACAATCGAGC
Statistics
Matches: 157, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 6 0.04
40 120 0.76
41 31 0.20
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58500284 original size:120 final size:121
Alignment explanation
Indices: 58500059--58500286 Score: 300
Period size: 120 Copynumber: 1.9 Consensus size: 121
58500049 GTGTCCGGGC
* *
58500059 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
* * * * * * *
58500124 GTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCAGGT
66 ATCACCAAAACCGGGTCAAGTCCCGAAGACAATCGAGCGAGTTACCAAAACCAGGT
* *
58500180 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAATTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAATTGTGCG
* *
58500243 AATCACTATAACCGGG-CAATGTCCCGAAGACAATCGAGCGAGTT
65 AATCACCAAAACCGGGTCAA-GTCCCGAAGACAATCGAGCGAGTT
58500287 GCTATATCCG
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 68 0.74
121 21 0.23
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (121 bp):
TAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATTGTGCGA
ATCACCAAAACCGGGTCAAGTCCCGAAGACAATCGAGCGAGTTACCAAAACCAGGT
Found at i:58500292 original size:40 final size:40
Alignment explanation
Indices: 58500101--58500297 Score: 110
Period size: 40 Copynumber: 4.9 Consensus size: 40
58500091 AATCCGGGTC
* * * * * * *
58500101 AATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTT
1 AATTCCCGAAGACAATCGAGCGAGTTACTATAACCGGGCT
* * * * * * * * *
58500141 AAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCAGGTT
1 AATTCCCGAAGACAATCGAGCGAGTTACTATAACCGGGCT
* * * * *
58500181 AAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCT
1 AATTCCCGAAGACAATCGAGCGAGTTACTATAA-CCGGGCT
* * * * *
58500221 AATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGC-
1 AATTCCCGAAGACAATCGAGCGAGTTACTATAACCGGGCT
* *
58500260 AATGTCCCGAAGACAATCGAGCGAGTTGCTATATCCGG
1 AAT-TCCCGAAGACAATCGAGCGAGTTACTATAACCGG
58500298 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 5 0.04
40 131 0.95
41 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
AATTCCCGAAGACAATCGAGCGAGTTACTATAACCGGGCT
Found at i:58504069 original size:40 final size:40
Alignment explanation
Indices: 58504007--58504307 Score: 317
Period size: 40 Copynumber: 7.5 Consensus size: 40
58503997 CCAGCATGAT
* *
58504007 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
58504047 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
58504087 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
58504127 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
58504167 TGCTCTTCGGAACTTAG-CCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCACGAA
** * * * * *
58504206 TTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
1 -TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCACGAA
** * **
58504247 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAA
*
58504287 TGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
58504308 GTATCATTCA
Statistics
Matches: 229, Mismatches: 24, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
39 22 0.10
40 203 0.89
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:58506263 original size:37 final size:37
Alignment explanation
Indices: 58506213--58506303 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
58506203 TTATTACGAA
58506213 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
58506250 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
58506287 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
58506304 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:58506398 original size:48 final size:48
Alignment explanation
Indices: 58506343--58506542 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
58506333 TGTTACAACA
*
58506343 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
58506391 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
58506439 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
58506487 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
58506535 TTCACATT
1 TTCACATT
58506543 CATCACATCG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:58506642 original size:47 final size:47
Alignment explanation
Indices: 58506534--58506960 Score: 701
Period size: 47 Copynumber: 9.0 Consensus size: 47
58506524 CACACATATG
* *
58506534 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
* **
58506583 CTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
*
58506630 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
* *
58506679 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
58506726 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
*
58506773 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
* *
58506822 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
58506869 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
58506916 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
58506961 ATCTCCTACA
Statistics
Matches: 356, Mismatches: 18, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
47 233 0.65
49 123 0.35
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
Found at i:58506652 original size:96 final size:96
Alignment explanation
Indices: 58506534--58506959 Score: 707
Period size: 96 Copynumber: 4.5 Consensus size: 96
58506524 CACACATATG
*
58506534 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
58506599 TCAGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
58506630 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
58506695 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
* *
58506726 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
* *
58506789 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TCGGCCATTAGGCCTTATCAC--ATATATACTC
* * * *
58506822 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
58506885 TTGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
58506916 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
58506960 CATCTCCTAC
Statistics
Matches: 315, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
94 88 0.28
96 227 0.72
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTC
Found at i:58506795 original size:143 final size:143
Alignment explanation
Indices: 58506535--58506959 Score: 796
Period size: 143 Copynumber: 3.0 Consensus size: 143
58506525 ACACATATGT
* *
58506535 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACAT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACAT
**
58506600 CAGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATC
64 TGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATC
58506665 ACATATATATACACC
129 ACATATATATACACC
58506680 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
58506745 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
66 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
58506810 ATATATATACACC
131 ATATATATACACC
58506823 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
58506888 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
66 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
58506953 ATATATA
131 ATATATA
58506960 CATCTCCTAC
Statistics
Matches: 276, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
143 240 0.87
145 36 0.13
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (143 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
ATATATATACACC
Found at i:58510642 original size:40 final size:40
Alignment explanation
Indices: 58510593--58510893 Score: 326
Period size: 40 Copynumber: 7.5 Consensus size: 40
58510583 CCAGCATGAT
* *
58510593 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
58510633 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
58510673 TGCTCTTCGGAATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
58510713 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
58510753 TGCTCTTCGGAACTTAG-CCGGATATAACCACAAGCAC-AA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCACTAGCACGAA
** * * * * *
58510792 TTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAA
1 -TGCTCTTCGGAACTTAGCCCGGATACATC-ACT-AGCACGAA
** * **
58510833 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAA
*
58510873 TGC-CTTCGGGACTTAGCCCGG
1 TGCTCTTCGGAACTTAGCCCGG
58510894 GTATCATTCA
Statistics
Matches: 231, Mismatches: 22, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
39 22 0.10
40 205 0.89
41 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:58512846 original size:37 final size:37
Alignment explanation
Indices: 58512796--58512886 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
58512786 TTATTACGAA
58512796 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
58512833 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
58512870 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
58512887 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:58512981 original size:48 final size:48
Alignment explanation
Indices: 58512926--58513125 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
58512916 TGTTACAACA
*
58512926 TTCACATTAGCCATTCGGCTTTACCACACATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
58512974 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
58513022 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
58513070 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
58513118 TTCACATT
1 TTCACATT
58513126 CATCACATCG
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:58513225 original size:47 final size:47
Alignment explanation
Indices: 58513117--58513496 Score: 607
Period size: 47 Copynumber: 8.0 Consensus size: 47
58513107 CACACATATG
*
58513117 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
* *
58513166 CTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
* *
58513213 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
*
58513262 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
58513309 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
* *
58513356 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
*
58513405 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
*
58513452 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58513497 ATTGATGTTT
Statistics
Matches: 309, Mismatches: 18, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 186 0.60
49 123 0.40
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTC
Found at i:58513235 original size:96 final size:94
Alignment explanation
Indices: 58513117--58513496 Score: 607
Period size: 96 Copynumber: 4.0 Consensus size: 94
58513107 CACACATATG
*
58513117 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACG
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACCTTCACATTCATCACA
58513182 TCGGCCATTAGGCCTTATCACATATATACTC
64 TCGGCCATTAGGCCTTATCACATATATACTC
*
58513213 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACCTTCACATTCATCACA
58513278 TCGGCCATTAGGCCTTATCACATATATACTC
64 TCGGCCATTAGGCCTTATCACATATATACTC
* * * *
58513309 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
*
58513374 GGCCATTAGGCCTTATCACATATATATACAC
66 GGCCATTAGGCCTTATCAC--ATATATACTC
* * * *
58513405 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
58513470 GGCCATTAGGCCTTATCACATATATAC
66 GGCCATTAGGCCTTATCACATATATAC
58513497 ATTGATGTTT
Statistics
Matches: 274, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
94 52 0.19
96 222 0.81
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (94 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACTC
Found at i:58513378 original size:143 final size:143
Alignment explanation
Indices: 58513118--58513496 Score: 704
Period size: 143 Copynumber: 2.6 Consensus size: 143
58513108 ACACATATGT
* * *
58513118 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACGT
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACAT
*
58513183 CGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATC
64 TGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATC
58513248 ACATATATATACACC
129 ACATATATATACACC
58513263 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
58513328 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
66 GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
58513393 ATATATATACACC
131 ATATATATACACC
58513406 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
1 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
58513471 GCCATTAGGCCTTATCACATATATAC
66 GCCATTAGGCCTTATCACATATATAC
58513497 ATTGATGTTT
Statistics
Matches: 230, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
143 194 0.84
145 36 0.16
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (143 bp):
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTG
GCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC
ATATATATACACC
Found at i:58514274 original size:71 final size:71
Alignment explanation
Indices: 58514193--58514356 Score: 294
Period size: 71 Copynumber: 2.3 Consensus size: 71
58514183 GAGATGTATC
*
58514193 CCATGTAGACAAGAGAGTTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58514258 -AGGACA
66 CA-GACA
*
58514264 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58514329 CAGACA
66 CAGACA
58514335 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58514357 AGACAAATCG
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
71 89 0.99
72 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
CAGACA
Found at i:58514629 original size:47 final size:47
Alignment explanation
Indices: 58514576--58514675 Score: 200
Period size: 47 Copynumber: 2.1 Consensus size: 47
58514566 GTATATACAA
58514576 ATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
1 ATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
58514623 ATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
1 ATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
58514670 ATATAC
1 ATATAC
58514676 ATCTCCTACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (47 bp):
ATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAT
Found at i:58519738 original size:39 final size:39
Alignment explanation
Indices: 58519690--58519813 Score: 158
Period size: 39 Copynumber: 3.2 Consensus size: 39
58519680 TTTAACCCAG
**
58519690 ATATTTTTCTAGCACGTAGCCTGCGGACCTCAAGTCCGA
1 ATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCGA
* * * *
58519729 ATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCGG
1 ATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCGA
* * * *
58519768 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTTCGG
1 ATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCGA
58519807 ATATTTT
1 ATATTTT
58519814 CAATCTCATA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (39 bp):
ATATTTTTCTAGCATATAGCCTGCGGACCTCAAGTCCGA
Found at i:58521624 original size:23 final size:23
Alignment explanation
Indices: 58521594--58521641 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
58521584 ATCACCTAAG
58521594 CTGAAAATTTAAGCAAAAATTTC
1 CTGAAAATTTAAGCAAAAATTTC
58521617 CTGAAAATTTAAGCAAAAATTTC
1 CTGAAAATTTAAGCAAAAATTTC
58521640 CT
1 CT
58521642 TCTTCCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (23 bp):
CTGAAAATTTAAGCAAAAATTTC
Found at i:58530720 original size:17 final size:18
Alignment explanation
Indices: 58530687--58530720 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
58530677 ATCAAAGAAG
58530687 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
58530705 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
58530721 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:58536669 original size:23 final size:23
Alignment explanation
Indices: 58536643--58536691 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
58536633 TAATCATTTA
58536643 TGGTGTATT-TTGTATAGCCTATG
1 TGGTGTATTCTT-TATAGCCTATG
* *
58536666 TGGTGTATTCTTTATGGCCTTTG
1 TGGTGTATTCTTTATAGCCTATG
58536689 TGG
1 TGG
58536692 CAAATTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.12, C:0.10, G:0.29, T:0.49
Consensus pattern (23 bp):
TGGTGTATTCTTTATAGCCTATG
Found at i:58538946 original size:93 final size:93
Alignment explanation
Indices: 58538787--58538957 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58538777 GGATGGTTGA
* *
58538787 GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
58538852 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
58538880 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
58538945 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58538958 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58538960 original size:46 final size:46
Alignment explanation
Indices: 58538791--58538962 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
58538781 GGTTGAGCAT
* * * *
58538791 CCGAACTCGCTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
58538837 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
58538882 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
58538930 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58538963 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:58540996 original size:40 final size:40
Alignment explanation
Indices: 58540934--58541107 Score: 271
Period size: 40 Copynumber: 4.4 Consensus size: 40
58540924 AAGCCAAGTA
* * * *
58540934 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
58540973 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58541013 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58541053 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58541093 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
58541108 GCTAGTCCGG
Statistics
Matches: 126, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.10
40 114 0.90
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58549010 original size:39 final size:40
Alignment explanation
Indices: 58548932--58549108 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
58548922 AAGCCAAGTA
* * * *
58548932 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
58548971 CCTTCGGGACTTAGCCCGGATATAGTAACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58549010 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
58549050 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58549090 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58549109 TTATCATCCA
Statistics
Matches: 127, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 51 0.40
40 76 0.60
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58549062 original size:79 final size:80
Alignment explanation
Indices: 58548932--58549108 Score: 254
Period size: 79 Copynumber: 2.2 Consensus size: 80
58548922 AAGCCAAGTA
* * * *
58548932 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACTTAGCCCGGATA-TA
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
58548995 GTAACT-GCACAAATG
65 GTAACTAGCACAAATG
58549010 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
* *
58549074 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
58549090 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58549109 TTATCATCCA
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
78 14 0.16
79 48 0.54
80 27 0.30
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTAGCACAAATG
Found at i:58550917 original size:25 final size:25
Alignment explanation
Indices: 58550889--58550938 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
58550879 GAGCTAGTGT
*
58550889 AAGACCATGTTTGGGACATGGCATC
1 AAGACCATGTTTGGAACATGGCATC
58550914 AAGACCATGTTTGGAACATGGCATC
1 AAGACCATGTTTGGAACATGGCATC
58550939 GGCATTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (25 bp):
AAGACCATGTTTGGAACATGGCATC
Found at i:58550964 original size:73 final size:73
Alignment explanation
Indices: 58550841--58550987 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 73
58550831 GAGCCAGTGT
* * * *
58550841 AAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCTAGTGTAAGACCATGTTTGGGAC
1 AAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGAGTAAGACCATGTCTAGGAC
58550906 ATGGCATC
66 ATGGCATC
*
58550914 AAGACCATGTTTGGAACATGGCATCGGCATTGTTAT-ATGAGCCAGAGTAAGACCATGTCTAGGA
1 AAGACCATGTTTGGAACATGGCATCGACATTGTTATGA-GAGCCAGAGTAAGACCATGTCTAGGA
58550978 CATGGCATC
65 CATGGCATC
58550987 A
1 A
58550988 GAACCGATGT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
72 1 0.01
73 67 0.99
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (73 bp):
AAGACCATGTTTGGAACATGGCATCGACATTGTTATGAGAGCCAGAGTAAGACCATGTCTAGGAC
ATGGCATC
Found at i:58555005 original size:40 final size:39
Alignment explanation
Indices: 58554961--58555178 Score: 226
Period size: 40 Copynumber: 5.5 Consensus size: 39
58554951 GCTCGATTGT
* * *
58554961 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* *
58555001 CTTC-GGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
58555040 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
58555080 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
58555120 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
58555161 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
58555179 ACACCATTCG
Statistics
Matches: 154, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 28 0.18
40 98 0.64
41 25 0.16
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:58555044 original size:79 final size:79
Alignment explanation
Indices: 58554935--58555179 Score: 253
Period size: 79 Copynumber: 3.1 Consensus size: 79
58554925 TGGAATTTAA
* * * * * * *
58554935 CCGGATATAGCAACTCGCTCGATTGTCTTCGGGACATTGCCCGGTTATAGTGATTCGCACAATTG
1 CCGGATTTAGTAACTCGCACGAATGCCTTCGGGACATTGCCCGGTT-TAGTAATTCGCACAAATG
*
58555000 CCTTC-GGAATTAGC
65 CCTTCGGGACTTAGC
* * *
58555014 CCGGATTTAGTAACTCGCACGAATGCCTTCGGGAC-TTAACCCGGTTTTGGTAACTCGCACAAAT
1 CCGGATTTAGTAACTCGCACGAATGCCTTCGGGACATT-GCCCGG-TTTAGTAATTCGCACAAAT
*
58555078 GCCTTCGGGACTTAAC
64 GCCTTCGGGACTTAGC
* * * * *
58555094 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAA
1 CCGGATTTAGTAACTCGCACGAATGCCTTCGGGACATTG-CCCGG-TTTAGT-AATTCGCACAAA
*
58555158 AGCCTTCGGGACTTAGC
63 TGCCTTCGGGACTTAGC
58555175 CCGGA
1 CCGGA
58555180 CACCATTCGA
Statistics
Matches: 136, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 2 0.01
79 54 0.40
80 52 0.38
81 28 0.21
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
CCGGATTTAGTAACTCGCACGAATGCCTTCGGGACATTGCCCGGTTTAGTAATTCGCACAAATGC
CTTCGGGACTTAGC
Found at i:58555127 original size:80 final size:81
Alignment explanation
Indices: 58554988--58555179 Score: 253
Period size: 80 Copynumber: 2.4 Consensus size: 81
58554978 GTTATAGTGA
* * * *
58554988 TTCGCACAATTGCCTTC-GGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* *
58555052 ACCCGGTTTTGGTAAC
66 ACCCGGATTTAGTAAC
* * * *
58555068 -TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTG
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
*
58555132 ACCCGGATTTAGTCAC
66 ACCCGGATTTAGTAAC
* *
58555148 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTCGCACAAATGCCTTCGGGACTTAGCCCGGA
58555180 CACCATTCGA
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 15 0.16
80 53 0.56
81 27 0.28
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (81 bp):
TTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTA
ACCCGGATTTAGTAAC
Found at i:58557675 original size:29 final size:29
Alignment explanation
Indices: 58557633--58557692 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
58557623 TCGATAAGAT
58557633 TTAATTTCATATTTTATTCAACCTCAAAA
1 TTAATTTCATATTTTATTCAACCTCAAAA
*
58557662 TTAATTTCATATTTTATTCAACCTCTAAA
1 TTAATTTCATATTTTATTCAACCTCAAAA
58557691 TT
1 TT
58557693 TAGACTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAATTTCATATTTTATTCAACCTCAAAA
Found at i:58560547 original size:80 final size:80
Alignment explanation
Indices: 58560463--58560611 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
58560453 TATGGTAACC
* * * *
58560463 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
58560527 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
58560543 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
58560608 CCGG
66 CCGG
58560612 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:58560553 original size:40 final size:38
Alignment explanation
Indices: 58560504--58560611 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
58560494 ATCACGATTT
*
58560504 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
58560544 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
58560584 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
58560612 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:58563131 original size:40 final size:40
Alignment explanation
Indices: 58563025--58563208 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
58563015 TGCTGGAAAT
* * * * * **
58563025 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
58563065 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
58563105 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
58563143 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
58563184 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
58563209 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:58574559 original size:14 final size:15
Alignment explanation
Indices: 58574540--58574568 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58574530 TAAATATTAT
58574540 GTTAATTAA-TTAAA
1 GTTAATTAAGTTAAA
58574554 GTTAATTAAGTTAAA
1 GTTAATTAAGTTAAA
58574569 TCGTTGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (15 bp):
GTTAATTAAGTTAAA
Found at i:58575359 original size:34 final size:34
Alignment explanation
Indices: 58575316--58575383 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
58575306 CTTACTAAAA
*
58575316 TATTTTATATTATGTAAGAATTTTTTTTAAATCC
1 TATTTTATATTATGTAAGAATTGTTTTTAAATCC
58575350 TATTTTATATTATGTAAGAATTGTTTTTAAATCC
1 TATTTTATATTATGTAAGAATTGTTTTTAAATCC
58575384 ATCTATATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.06, G:0.07, T:0.54
Consensus pattern (34 bp):
TATTTTATATTATGTAAGAATTGTTTTTAAATCC
Found at i:58576345 original size:20 final size:19
Alignment explanation
Indices: 58576294--58576345 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
58576284 AATTTGAAAG
58576294 GGAA-AAAATT-AAAAAAA
1 GGAATAAAATTAAAAAAAA
*
58576311 GTAATAAAATATAAAAAAAA
1 GGAATAAAAT-TAAAAAAAA
*
58576331 GGAATCCAAATTAAA
1 GGAAT-AAAATTAAA
58576346 GATTAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.11
18 5 0.18
19 1 0.04
20 15 0.54
21 4 0.14
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.17
Consensus pattern (19 bp):
GGAATAAAATTAAAAAAAA
Found at i:58582127 original size:21 final size:20
Alignment explanation
Indices: 58582103--58582153 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
58582093 ACATGGCCTG
58582103 ATCACACGGC-CGTGCCTCT
1 ATCACACGGCACGTGCCTCT
* *
58582122 GCATCAGACGGGCATGTGCCTCT
1 --ATCACAC-GGCACGTGCCTCT
58582145 ATCACACGG
1 ATCACACGG
58582154 TCATTTGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.08
21 12 0.48
22 3 0.12
23 8 0.32
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
ATCACACGGCACGTGCCTCT
Found at i:58590880 original size:40 final size:38
Alignment explanation
Indices: 58590831--58590938 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
58590821 ATCACGATTT
*
58590831 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
58590871 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
58590911 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
58590939 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:58590898 original size:80 final size:80
Alignment explanation
Indices: 58590790--58590938 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
58590780 TATGGTAACC
* * * *
58590790 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
58590854 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
58590870 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
58590935 CCGG
66 CCGG
58590939 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:58592792 original size:26 final size:25
Alignment explanation
Indices: 58592732--58592792 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
58592722 CTCGCTTGTG
58592732 AATTTAGCACTTCCAGTGCTCATGT
1 AATTTAGCACTTCCAGTGCTCATGT
* ** *
58592757 --TTTAACACTTTTAGTGTTCATGAT
1 AATTTAGCACTTCCAGTGCTCATG-T
58592781 AATTTAGCACTT
1 AATTTAGCACTT
58592793 ATGTGCACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
23 18 0.64
24 1 0.04
26 9 0.32
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (25 bp):
AATTTAGCACTTCCAGTGCTCATGT
Found at i:58592888 original size:11 final size:11
Alignment explanation
Indices: 58592874--58592903 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
58592864 GAATGGTATA
58592874 TGAATGATAAG
1 TGAATGATAAG
58592885 TGAATGATAAG
1 TGAATGATAAG
58592896 TGAATGAT
1 TGAATGAT
58592904 GAAAGTATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (11 bp):
TGAATGATAAG
Found at i:58596236 original size:28 final size:28
Alignment explanation
Indices: 58596171--58596271 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
58596161 ATAGTGAATC
*
58596171 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
58596200 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58596228 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
58596258 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58596272 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58604179 original size:28 final size:28
Alignment explanation
Indices: 58604114--58604214 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
58604104 ATAGTGAATC
*
58604114 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
58604143 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58604171 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
58604201 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58604215 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58612120 original size:28 final size:28
Alignment explanation
Indices: 58612055--58612155 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
58612045 ATAGTGAATC
*
58612055 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
58612084 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58612112 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
58612142 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58612156 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58620053 original size:28 final size:28
Alignment explanation
Indices: 58619988--58620088 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
58619978 ATAGTGAATC
*
58619988 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
58620017 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58620045 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
58620075 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58620089 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58623047 original size:46 final size:46
Alignment explanation
Indices: 58622820--58623044 Score: 290
Period size: 46 Copynumber: 4.9 Consensus size: 46
58622810 TTTGACATGA
* * * * * *
58622820 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** **
58622866 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
58622912 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
58622958 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATTAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
58623004 TGCCATGGTATATTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
58623045 TAGAGAGCAC
Statistics
Matches: 158, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 154 0.97
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:58633160 original size:17 final size:17
Alignment explanation
Indices: 58633138--58633180 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
58633128 ATTTCATTTA
**
58633138 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
58633155 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
58633172 AAAT-TCAAT
1 AAATGTCAAT
58633181 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:58658927 original size:39 final size:39
Alignment explanation
Indices: 58658884--58659015 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
58658874 ATGATTGTGT
* *
58658884 GTATTGTGGTATATGCTTGAATGTTATGTGATTATATGA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* * *
58658923 GTATTGTGATGTATGCTTAAAAGCTATGTGATTATATGA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* *
58658962 GTATTGTGATATATGCTTAAATGTTACGTGATTATATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* *
58659001 GTAATGTAATATATG
1 GTATTGTGATATATG
58659016 TGTACAAGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.44
Consensus pattern (39 bp):
GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
Found at i:58659030 original size:16 final size:16
Alignment explanation
Indices: 58658994--58659031 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
58658984 GTTACGTGAT
*
58658994 TATATGTGTAATGTAA
1 TATATGTGTAAAGTAA
58659010 TATATGTGTACAAGTAA
1 TATATGTGTA-AAGTAA
58659027 -ATATG
1 TATATG
58659032 ATTACCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (16 bp):
TATATGTGTAAAGTAA
Found at i:58661531 original size:42 final size:42
Alignment explanation
Indices: 58661464--58661674 Score: 242
Period size: 42 Copynumber: 5.0 Consensus size: 42
58661454 AGGAGCACAT
* * * * **
58661464 TCACTCAAGCTCGTATGGGGGGCTTCGTTGATACACAGCTTG
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
* ** *
58661506 TCATTTAAGCTCATGTGGGGAGCTTCACCAATACACAACTTG
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
* * ** *
58661548 TCACTTCAGCTCACGTGGGGAGCTTCGTTGATACACAGCTTA
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
* * *
58661590 TCACTTAAGCTCATTTAGGGAGCTTCACTGATACATAGCTTG
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
* *
58661632 TCATTTAAGCTCATGTGAGGAGCTTCACTGATACACAGCTTG
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
58661674 T
1 T
58661675 AAAACCATTT
Statistics
Matches: 137, Mismatches: 32, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 137 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (42 bp):
TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
Found at i:58663936 original size:26 final size:23
Alignment explanation
Indices: 58663879--58663926 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
58663869 TATGCTAAAT
58663879 CATCATTAATAATTGGTTGTTCC
1 CATCATTAATAATTGGTTGTTCC
58663902 CATCATTAATAATTGGTTGTTCC
1 CATCATTAATAATTGGTTGTTCC
58663925 CA
1 CA
58663927 GTTTGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (23 bp):
CATCATTAATAATTGGTTGTTCC
Found at i:58665520 original size:25 final size:25
Alignment explanation
Indices: 58665483--58665533 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
58665473 TAATGAATTC
58665483 TATCATTACAGATAGAAAATATTTA
1 TATCATTACAGATAGAAAATATTTA
*
58665508 TATCATTATAGATAGAAAATATTTA
1 TATCATTACAGATAGAAAATATTTA
58665533 T
1 T
58665534 CTTATTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (25 bp):
TATCATTACAGATAGAAAATATTTA
Found at i:58671343 original size:7 final size:7
Alignment explanation
Indices: 58671331--58671361 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
58671321 GATAAATTAT
58671331 TTTTTTA
1 TTTTTTA
58671338 TTTTTTA
1 TTTTTTA
58671345 TTTTTTA
1 TTTTTTA
58671352 TTTTTTA
1 TTTTTTA
58671359 TTT
1 TTT
58671362 AATTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:58672541 original size:3 final size:3
Alignment explanation
Indices: 58672533--58672581 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
58672523 AAACATAGCC
58672533 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
58672581 T
1 T
58672582 TAGCCCCATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:58673044 original size:2 final size:2
Alignment explanation
Indices: 58673037--58673066 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
58673027 AGAAATTGGA
58673037 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
58673067 TATCTTAATT
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:58676130 original size:465 final size:465
Alignment explanation
Indices: 58675337--58676265 Score: 1515
Period size: 465 Copynumber: 2.0 Consensus size: 465
58675327 CAGAGGCTCC
* * *
58675337 TCAGCTTCTGCAACAATAAAAATTCAACTTAATAAAGATTATTGACAATTAAACATCAAGTGCAC
1 TCAGATTCTGCAACAATAAAAATTCAACTTAATAAAGAGTATTGACAATTAAACATCAAGTACAC
* * *
58675402 AAGAGTAACGAAGTACGAGGGGAAACATTTACCTTTTACTTTCATTAACAAACTATTGTACGATG
66 AAGACTAACGAAGTACGAGGGAAAACATTTACCTTATACTTTCATTAACAAACTATTGTACGATG
* * * *
58675467 ACAAAAGTTCTGCCTCTTTTTCCTTCCATCTGTCTTCTTTGGCTTGATAATCCTCTATCTTAAGC
131 ACAAAAGTTCTGCCTCTTTTTCCTCCCATCTGTCCTCTTTGGCTTGATAACCCGCTATCTTAAGC
58675532 CTCATTTCTCTGCATGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCTTTG
196 CTCATTTCTCTGCATGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCTTTG
*
58675597 AGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTTCCA
261 AGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTCCCA
* * ** * *
58675662 TCTCTTTTTTCTCTTCAGCAAGTAGAGACAAAGCATTTTTTGCAGTAGTTAATGTGTCTTCAAGT
326 TCTCGTTTTTCTCTCCAGCAAGTAGAGACAAAGCATTTTTCACAGTAGTCAATGCGTCTTCAAGT
* *
58675727 AATTTCATAGTTGCTTGGGCCACTGCTAACTTGCCAGCCAGGATGCTCA-CCTCTTCCTTCACTT
391 AATTTCATAGTTGCTCGGGCCACTGCTAACTTGCCAGCCAGGACGCT-AGCCTCTTCCTTCACTT
58675791 CCCTCAACTCG
455 CCCTCAACTCG
*
58675802 TCAGATTCTGCAACAATAAAAATTCAACTTAATAAAGAGTATTGACAATTGAACATCAAGTACAC
1 TCAGATTCTGCAACAATAAAAATTCAACTTAATAAAGAGTATTGACAATTAAACATCAAGTACAC
* * ** *
58675867 AAGACTAATGAGGTGGGA-GGAAAACATTTACCCTTAT-CTTTCATTAACAAACTATTGTATGAT
66 AAGACTAACGAAGTACGAGGGAAAACATTTA-CCTTATACTTTCATTAACAAACTATTGTACGAT
*
58675930 GACAAAAGTTCTGCCTTTTTTTTACC-CCCATCTGTCCTCTTTGGCTTGATAACCCGCTATCTTA
130 GACAAAAGTTCTGCC-TCTTTTT-CCTCCCATCTGTCCTCTTTGGCTTGATAACCCGCTATCTTA
58675994 AGCCTCATTTCTCTGCATGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCT
193 AGCCTCATTTCTCTGCATGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCT
58676059 TTGAGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTC
258 TTGAGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTC
* * * *
58676124 CCATCTCGTTTTTCTCTCCAGCAAGTTGAGCCAAATCATTTTTCACTGTAGTCAATGCGTCTTCA
323 CCATCTCGTTTTTCTCTCCAGCAAGTAGAGACAAAGCATTTTTCACAGTAGTCAATGCGTCTTCA
*
58676189 AGTAATTTCATAGTTGCTCGGGCCTCTGCTAACTTGCCAGCCAGGACGCTAGCCTCTTCCTTCAC
388 AGTAATTTCATAGTTGCTCGGGCCACTGCTAACTTGCCAGCCAGGACGCTAGCCTCTTCCTTCAC
58676254 TTCCCTCAACTC
453 TTCCCTCAACTC
58676266 TTGTTCAGTC
Statistics
Matches: 429, Mismatches: 31, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
464 52 0.12
465 375 0.87
466 2 0.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (465 bp):
TCAGATTCTGCAACAATAAAAATTCAACTTAATAAAGAGTATTGACAATTAAACATCAAGTACAC
AAGACTAACGAAGTACGAGGGAAAACATTTACCTTATACTTTCATTAACAAACTATTGTACGATG
ACAAAAGTTCTGCCTCTTTTTCCTCCCATCTGTCCTCTTTGGCTTGATAACCCGCTATCTTAAGC
CTCATTTCTCTGCATGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCTTTG
AGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTCCCA
TCTCGTTTTTCTCTCCAGCAAGTAGAGACAAAGCATTTTTCACAGTAGTCAATGCGTCTTCAAGT
AATTTCATAGTTGCTCGGGCCACTGCTAACTTGCCAGCCAGGACGCTAGCCTCTTCCTTCACTTC
CCTCAACTCG
Found at i:58681920 original size:51 final size:50
Alignment explanation
Indices: 58681865--58681960 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
58681855 AAAAATCATA
* * *
58681865 AAAAATT-TATTAATATTAT-AAAATATTAAAAATTTATATAAATTTTGCTTT
1 AAAAATTATA-TAAGATTATAAAAATA-T-AAAACTTATAAAAATTTTGCTTT
*
58681916 AAAAATTATATAAGCTTATAAAAATATAAAACTTATAAAAATTTT
1 AAAAATTATATAAGATTATAAAAATATAAAACTTATAAAAATTTT
58681961 AATAAATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
50 16 0.41
51 15 0.38
52 8 0.21
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (50 bp):
AAAAATTATATAAGATTATAAAAATATAAAACTTATAAAAATTTTGCTTT
Found at i:58681952 original size:17 final size:18
Alignment explanation
Indices: 58681915--58682052 Score: 86
Period size: 19 Copynumber: 7.4 Consensus size: 18
58681905 AATTTTGCTT
*
58681915 TAAAAATTATATAAGCTTA
1 TAAAAATTATA-AAACTTA
58681934 TAAAAA-TATAAAACTTA
1 TAAAAATTATAAAACTTA
* *
58681951 TAAAAATTTTAATAAATTA
1 TAAAAATTATAA-AACTTA
* *
58681970 TAAAAATTAAAAAAC-CA
1 TAAAAATTATAAAACTTA
* *
58681987 -AACATATTATAAATA-TTT
1 TAA-AAATTATAAA-ACTTA
*
58682005 TAAAAATTTATAAAAACCTA
1 TAAAAA-TTAT-AAAACTTA
* *
58682025 TAAATATTTTAAAAACTTA
1 TAAAAATTAT-AAAACTTA
58682044 TAACAAATT
1 TAA-AAATT
58682053 CAAGTAAATT
Statistics
Matches: 91, Mismatches: 18, Indels: 19
0.71 0.14 0.15
Matches are distributed among these distances:
16 2 0.02
17 21 0.23
18 13 0.14
19 42 0.46
20 13 0.14
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.35
Consensus pattern (18 bp):
TAAAAATTATAAAACTTA
Found at i:58681967 original size:10 final size:9
Alignment explanation
Indices: 58681915--58682080 Score: 88
Period size: 10 Copynumber: 17.7 Consensus size: 9
58681905 AATTTTGCTT
58681915 TAAAAATTA
1 TAAAAATTA
**
58681924 TATAAGCTTA
1 TA-AAAATTA
58681934 TAAAAA-TA
1 TAAAAATTA
*
58681942 TAAAACTTA
1 TAAAAATTA
*
58681951 TAAAAATTT
1 TAAAAATTA
58681960 TAATAAATTA
1 TAA-AAATTA
58681970 TAAAAATTA
1 TAAAAATTA
**
58681979 -AAAAACCA
1 TAAAAATTA
*
58681987 -AACATATTA
1 TAA-AAATTA
* *
58681996 TAAATATTT
1 TAAAAATTA
58682005 TAAAAATTTA
1 TAAAAA-TTA
*
58682015 TAAAAACCTA
1 TAAAAA-TTA
* *
58682025 TAAATATTT
1 TAAAAATTA
58682034 TAAAAACTTA
1 TAAAAA-TTA
58682044 TAACAAATTCA
1 TAA-AAATT-A
*
58682055 -AGTAAATTA
1 TA-AAAATTA
58682064 TAAACAATTTA
1 TAAA-AA-TTA
58682075 TAAAAA
1 TAAAAA
58682081 AAAAATTATT
Statistics
Matches: 119, Mismatches: 25, Indels: 25
0.70 0.15 0.15
Matches are distributed among these distances:
8 15 0.13
9 43 0.36
10 50 0.42
11 11 0.09
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:58686122 original size:2 final size:2
Alignment explanation
Indices: 58686117--58686147 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58686107 ACACACACTC
58686117 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58686148 CCATTCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58686398 original size:40 final size:40
Alignment explanation
Indices: 58686327--58686559 Score: 326
Period size: 40 Copynumber: 5.8 Consensus size: 40
58686317 TATCTAGCAC
* * *
58686327 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
58686366 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* * *
58686406 AGCCTACGGGTCTTTAAGCCCGGATACGATTCCCGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* **
58686446 AGCTTGCGGGTCTTTAAGCTTGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* *
58686486 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* *
58686526 AGCCTGCGGGTCTTTAAGCCCGAATACCATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
58686560 CATCAAATAA
Statistics
Matches: 173, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 16 0.09
40 157 0.91
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:58690738 original size:40 final size:38
Alignment explanation
Indices: 58690694--58690788 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 38
58690684 TACGGTACCC
*
58690694 CTTGGTGTGTAGGGTTGAATGGGTTGATTTTATCCCCATA
1 CTTGGTGTGTAGGGTTGAATGGGTTGATCTTAT-CCC-TA
* * *
58690734 CTTGGTATGTAGGGCTGAGTGGGTTGATCTTATCCCTA
1 CTTGGTGTGTAGGGTTGAATGGGTTGATCTTATCCCTA
* *
58690772 CATGGTGTGTTGGGTTG
1 CTTGGTGTGTAGGGTTG
58690789 GACGGAGATG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 15 0.32
39 3 0.06
40 29 0.62
ACGTcount: A:0.15, C:0.13, G:0.34, T:0.39
Consensus pattern (38 bp):
CTTGGTGTGTAGGGTTGAATGGGTTGATCTTATCCCTA
Found at i:58699631 original size:10 final size:9
Alignment explanation
Indices: 58699618--58699778 Score: 76
Period size: 10 Copynumber: 16.6 Consensus size: 9
58699608 TTTTCAAAAA
58699618 TTTATAACTT
1 TTTATAA-TT
58699628 TTTATAACTT
1 TTTATAA-TT
* *
58699638 ATTATATTTT
1 TTTATA-ATT
58699648 TTTATAAGTT
1 TTTATAA-TT
*
58699658 TTTATGATTT
1 TTTAT-AATT
* *
58699668 TTTCTAAGT
1 TTTATAATT
58699677 TTTATAATT
1 TTTATAATT
58699686 TTTCAT-ATT
1 TTT-ATAATT
58699695 TTTATTATATT
1 TTTA-TA-ATT
58699706 TTT-TAGGATT
1 TTTATA--ATT
*
58699716 GTTAATAAGTT
1 -TTTATAA-TT
*
58699727 TTTATAATG
1 TTTATAATT
*
58699736 TTCATAATTT
1 TTTATAA-TT
*
58699746 TTTATTATT
1 TTTATAATT
58699755 TTT-TAAAGTT
1 TTTAT-AA-TT
*
58699765 TTTATAAAT
1 TTTATAATT
58699774 TTTAT
1 TTTAT
58699779 CTATGTTTTT
Statistics
Matches: 116, Mismatches: 20, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
8 2 0.02
9 40 0.34
10 60 0.52
11 12 0.10
12 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:58699709 original size:49 final size:49
Alignment explanation
Indices: 58699621--58699759 Score: 140
Period size: 49 Copynumber: 2.8 Consensus size: 49
58699611 TCAAAAATTT
* * * * *
58699621 ATAACTTTTTATAACTTATT-ATATTTTTTTATAAGTTTTTATGATTTTTT
1 ATAAGTTTTTATAA-TTATTCATATTTTTTTAT-ATTTTTTAGGATTGTTA
* *
58699671 CTAAG-TTTTATAATTTTTCATATTTTTATTATATTTTTTAGGATTGTTA
1 ATAAGTTTTTATAATTATTCATATTTTT-TTATATTTTTTAGGATTGTTA
* *
58699720 ATAAGTTTTTATAA-TGTTCATAATTTTTTATTATTTTTTA
1 ATAAGTTTTTATAATTATTCATATTTTTTTA-TATTTTTTA
58699760 AAGTTTTTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
48 7 0.09
49 53 0.71
50 15 0.20
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (49 bp):
ATAAGTTTTTATAATTATTCATATTTTTTTATATTTTTTAGGATTGTTA
Found at i:58699776 original size:19 final size:19
Alignment explanation
Indices: 58699720--58699776 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
58699710 AGGATTGTTA
*
58699720 ATAAGTTTTTATAATGTTC
1 ATAAGTTTTTATAATTTTC
* *
58699739 ATAATTTTTTATTATTTT-
1 ATAAGTTTTTATAATTTTC
*
58699757 TTAAAGTTTTTATAAATTTT
1 AT-AAGTTTTTAT-AATTTT
58699777 ATCTATGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 24 0.80
20 5 0.17
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (19 bp):
ATAAGTTTTTATAATTTTC
Found at i:58699870 original size:11 final size:11
Alignment explanation
Indices: 58699854--58699972 Score: 58
Period size: 9 Copynumber: 11.3 Consensus size: 11
58699844 ATATCATAAG
*
58699854 TTTTTATGATT
1 TTTTTATAATT
58699865 TTTTTATAA--
1 TTTTTATAATT
58699874 TTTTTATAA--
1 TTTTTATAATT
** * *
58699883 CATTTGTGATT
1 TTTTTATAATT
58699894 TTTTTATAAGTT
1 TTTTTATAA-TT
*
58699906 TTTGTAT--TT
1 TTTTTATAATT
58699915 TTTTTATAATT
1 TTTTTATAATT
*
58699926 TTGTCTA-AATAT
1 TT-TTTATAAT-T
58699938 TTTTTATAA--
1 TTTTTATAATT
*
58699947 TTTTTATAATC
1 TTTTTATAATT
*
58699958 CTTTTATAAATT
1 TTTTTAT-AATT
58699970 TTT
1 TTT
58699973 AATATTTTAA
Statistics
Matches: 81, Mismatches: 16, Indels: 21
0.69 0.14 0.18
Matches are distributed among these distances:
9 31 0.38
11 29 0.36
12 21 0.26
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (11 bp):
TTTTTATAATT
Done.