Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 168 of 427
Found at i:46769145 original size:80 final size:81
Alignment explanation
Indices: 46769009--46769176 Score: 209
Period size: 80 Copynumber: 2.1 Consensus size: 81
46768999 CTCGATTTAC
*
46769009 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATAAGT-AAATTACCAA
1 AAAATTACTAAAATACCCGTGGTTTACAAAATTACCAAAATACCCTCAATAAGTAAAATTACCAA
*
46769073 AATACCCCT-AGTTTGT
66 AATACCACTGA-TTTGT
** * * *
46769089 AAAATTACTAAAATACCCGTGGTTTGTAAAATTAGCAAAATACCC-CTAGCT-TGTAAAATTACC
1 AAAATTACTAAAATACCCGTGGTTTACAAAATTACCAAAATACCCTC-A-ATAAGTAAAATTACC
46769152 AAAATACCACTGATTTGT
64 AAAATACCACTGATTTGT
*
46769170 GAAATTA
1 AAAATTA
46769177 TCGAAATACT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 1 0.01
80 44 0.58
81 30 0.39
82 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCGTGGTTTACAAAATTACCAAAATACCCTCAATAAGTAAAATTACCAA
AATACCACTGATTTGT
Found at i:46769196 original size:81 final size:80
Alignment explanation
Indices: 46769063--46769215 Score: 186
Period size: 81 Copynumber: 1.9 Consensus size: 80
46769053 CTCAATAAGT
* *
46769063 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCGTGGTTTGTAAAATTAGCAAA
1 AAATTACCAAAATACCACTAGTTTGTAAAATTACTAAAATACCCGTGATTTGTAAAA-TAGCAAA
46769128 ATACCCCTAGCTTGTA
65 ATACCCCTAGCTTGTA
* * * * *
46769144 AAATTACCAAAATACCACT-GATTTGTGAAATTA-TCGAAATACTC-TCGATTTGTAAAATATCG
1 AAATTACCAAAATACCACTAG-TTTGTAAAATTACT-AAAATACCCGT-GATTTGTAAAATAGCA
46769206 AAATACCCCT
63 AAATACCCCT
46769216 GTAGGGTAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
80 16 0.26
81 46 0.74
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (80 bp):
AAATTACCAAAATACCACTAGTTTGTAAAATTACTAAAATACCCGTGATTTGTAAAATAGCAAAA
TACCCCTAGCTTGTA
Found at i:46769245 original size:27 final size:27
Alignment explanation
Indices: 46769204--46769393 Score: 245
Period size: 27 Copynumber: 7.0 Consensus size: 27
46769194 TGTAAAATAT
46769204 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
46769231 TGAAATAACCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** * *
46769258 TAAAATACCCCTATAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
46769285 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
46769312 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
46769339 CGAAATACCCCTGCAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
46769366 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
46769393 C
1 C
46769394 ATTTTGCCCT
Statistics
Matches: 141, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:46769636 original size:25 final size:25
Alignment explanation
Indices: 46769595--46769689 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
46769585 AGGAAGTACT
*
46769595 AAAAGGGCTATGCCCCAGTTTAACG
1 AAAAGGGCTTTGCCCCAGTTTAACG
* *
46769620 AAAAGGGCTTTGTCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTAACG
* *
46769645 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTAACG
46769670 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46769690 ATTAAAAAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTAACG
Found at i:46769691 original size:24 final size:25
Alignment explanation
Indices: 46769595--46769702 Score: 137
Period size: 25 Copynumber: 4.4 Consensus size: 25
46769585 AGGAAGTACT
* * *
46769595 AAAAGGGCTATGCCCCAGTTTAACG
1 AAAAGGGCTTTGCCCCAGTTTATCA
* * *
46769620 AAAAGGGCTTTGTCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
46769645 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
46769670 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
46769694 AAAAAGGCT
1 AAAAGGGCT
46769703 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 13 0.17
25 62 0.83
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:46772977 original size:27 final size:27
Alignment explanation
Indices: 46772955--46773341 Score: 293
Period size: 27 Copynumber: 14.4 Consensus size: 27
46772945 AGAATTACTG
* ** *
46772955 AAATACCCTTGGTTTACAAAATT-CCT
1 AAATACCCTTGATTTGTAAAATTACCA
* * **
46772981 GAATACCCTCGATTTACAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * *
46773008 AAATACCCTCGATTAGCAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
46773035 AAATATCCC-T-ATTTTGTAAAATTACCA
1 AAATA-CCCTTGA-TTTGTAAAATTACCA
* * * *
46773062 AAATACCATTAATTTATGAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
** * *
46773089 AAATACCCTTGACCTGTAAAATTATCG
1 AAATACCCTTGATTTGTAAAATTACCA
* * *
46773116 AAATACCCTCGACTTGTAAAATTACCT
1 AAATACCCTTGATTTGTAAAATTACCA
*
46773143 AAATACCCTCGATTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* *
46773170 AAATACCCTTGATTTGGAAAATTACCG
1 AAATACCCTTGATTTGTAAAATTACCA
*
46773197 AAATACCCTTGATTTGGAAAATTA-CA
1 AAATACCCTTGATTTGTAAAATTACCA
* * ** *
46773223 GAAATACCCCTAATTTACAAAATTACAA
1 -AAATACCCTTGATTTGTAAAATTACCA
* *** *
46773251 AAATACCCTTAACTTCCAAAAATTA-TA
1 AAATACCCTTGA-TTTGTAAAATTACCA
* * *
46773278 CAAATACCATTG-GTTGCAAAATTACCA
1 -AAATACCCTTGATTTGTAAAATTACCA
* *
46773305 AAATACCCTT-AGTTTGTAGATTTACCA
1 AAATACCCTTGA-TTTGTAAAATTACCA
*
46773332 AAACACCCTT
1 AAATACCCTT
46773342 ATAGGGTGAA
Statistics
Matches: 295, Mismatches: 54, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
26 41 0.14
27 231 0.78
28 23 0.08
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTACCA
Found at i:46773629 original size:41 final size:41
Alignment explanation
Indices: 46773579--46773699 Score: 161
Period size: 41 Copynumber: 3.0 Consensus size: 41
46773569 CGGGGGAAGA
* *
46773579 AATTGAGGATCGCATGGTTGCTTGATGACTGTGGATCCACC
1 AATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCACC
* * * *
46773620 GATTAAGGATCGCATAGTTGCTTGACGACTTTTGATCCACC
1 AATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCACC
* * *
46773661 AATTAAGGATCGCATGGTTGCTTAACAACCGTGGATCCA
1 AATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCA
46773700 TCAGTGGCTT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (41 bp):
AATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCACC
Found at i:46773892 original size:22 final size:22
Alignment explanation
Indices: 46773840--46773904 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
46773830 GCCAATTATT
*
46773840 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
46773862 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
46773884 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
46773905 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:46779156 original size:27 final size:26
Alignment explanation
Indices: 46779126--46779310 Score: 90
Period size: 27 Copynumber: 6.8 Consensus size: 26
46779116 TATAGGGTAG
* *
46779126 AATTACTGCAATACCCTTGGTTTATAA
1 AATTACT-AAATACCCTTGGTTTACAA
* *
46779153 AATTAATAAATGCCCTTGGTTTACAA
1 AATTACTAAATACCCTTGGTTTACAA
* * *
46779179 AATTACCAAAATACCC-TCGATTAGCAA
1 AATTA-CTAAATACCCTTGGTTTA-CAA
* * *
46779206 AATTATCAAAATACCC-TCGATTAGCAA
1 AATTA-CTAAATACCCTTGGTTTA-CAA
* * *
46779233 AATTACAAAAATACCTTTGACTTT-CAAA
1 AATTAC-TAAATACCCTTG-GTTTAC-AA
* *
46779261 AATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACT--AAATACCCTTGGTTTACAA
* *
46779288 AATTATCGAAATACCCTTAGTTT
1 AATTA-CTAAATACCCTTGGTTT
46779311 TTAAATTTAC
Statistics
Matches: 127, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
26 27 0.21
27 79 0.62
28 19 0.15
29 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (26 bp):
AATTACTAAATACCCTTGGTTTACAA
Found at i:46779288 original size:55 final size:53
Alignment explanation
Indices: 46779151--46779292 Score: 135
Period size: 54 Copynumber: 2.6 Consensus size: 53
46779141 CTTGGTTTAT
* * *
46779151 AAAATTA-ATAAATGCCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGC
1 AAAATTATA-AAATACCCTTGGTTTGCAAAATTACAAAAATACCCTCGATTAGC
* * * * * *
46779204 AAAATTATCAAAATACCCTCGATTAGCAAAATTACAAAAATACCTTTGACTT-TC
1 AAAATTAT-AAAATACCCTTGGTTTGCAAAATTACAAAAATACCCTCGA-TTAGC
*
46779258 AAAAATTATAGAAATACCATTGGTTTGCAAAATTA
1 -AAAATTATA-AAATACCCTTGGTTTGCAAAATTA
46779293 TCGAAATACC
Statistics
Matches: 71, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
53 7 0.10
54 33 0.46
55 31 0.44
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (53 bp):
AAAATTATAAAATACCCTTGGTTTGCAAAATTACAAAAATACCCTCGATTAGC
Found at i:46779615 original size:41 final size:41
Alignment explanation
Indices: 46779570--46779692 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 41
46779560 GGGGGAAGAA
46779570 ATTGAGGATCGCATGGTTGTTTGACGACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGTTTGACGACTGTGGATCCACCG
* * *
46779611 ATTGAGGATCGCATGGTT-TCTTGATGACCGTGGATCTACCG
1 ATTGAGGATCGCATGGTTGT-TTGACGACTGTGGATCCACCG
* *
46779652 ATTAAGGATCGCATGGTTGCTTGACGA-TCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGTTTGACGACT-GTGGATCCACCG
46779693 GTGGCTTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.01
41 70 0.99
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGTTTGACGACTGTGGATCCACCG
Found at i:46779882 original size:22 final size:23
Alignment explanation
Indices: 46779833--46779891 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
46779823 AATTATTCTG
*
46779833 ATTATGGCTTTGTGCCAACCTAC
1 ATTATGGCTATGTGCCAACCTAC
*
46779856 A-TATGGCTCTGTGCCAACCTA-
1 ATTATGGCTATGTGCCAACCTAC
*
46779877 ATTATGTCTATGTGC
1 ATTATGGCTATGTGC
46779892 TAAACATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (23 bp):
ATTATGGCTATGTGCCAACCTAC
Found at i:46780338 original size:32 final size:32
Alignment explanation
Indices: 46780291--46780354 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
46780281 GCATATGGGT
* *
46780291 TTGATTCTGATATGGGCTAGGCCCAACTGATA
1 TTGATTCTAAGATGGGCTAGGCCCAACTGATA
*
46780323 TTGATTCTAAGATGGGCTAGGCCCAATTGATA
1 TTGATTCTAAGATGGGCTAGGCCCAACTGATA
46780355 CTGTGATGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (32 bp):
TTGATTCTAAGATGGGCTAGGCCCAACTGATA
Found at i:46792181 original size:336 final size:337
Alignment explanation
Indices: 46791566--46792182 Score: 805
Period size: 336 Copynumber: 1.8 Consensus size: 337
46791556 CGACTAATAA
* ** *
46791566 AATTGTAACACCCCGTACCCGAGACCGCTGCCGGATTCGGACACGAGGGGTTAACGGGCTTAAAC
1 AATTGTAACACCCCGAACCCGAGACCGCTGCCGGATTCGGACACGAGGGGTTAACAAGCTCAAAC
* * * **
46791631 CACTCATTTTCACAGTCCATTTTAAAAATTTCCAGGCAGTTGGCTAACTGCGTCACTGTCACCTT
66 CACTCATTTGCACAG-CCAATTTAAAAATTTCCAGGCAGCTGGAAAACTGCGTCACTGTCACCTT
* * * * *
46791696 AAAAATCATATCTTGAGTTCCAAAACTTGAAAATCAGTTTCGTAATTTTTTCTTGAAACTAGACT
130 AAAAATCATATCTCGAGTTCCAAAACTGGAAAATCAGTTTCGTAAATTTTCCCTGAAACTAGACT
* * *
46791761 CATATGTACATCTACATATTTTTTTATAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGT
195 CATATATACATCCACATATTTATTTATAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGT
* *
46791826 TAAAGTCTCCCCTGTTACAGGTGTGACTACACTGACCTTCATGCATTACGACCTAGATATCTCCC
260 TAAAGTCACCCATGTTACAGGTGTGACTACACTGACCTTCATGCATTACGACCTAGATATCTCCC
46791891 TGTACAGGGCTTC
325 TGTACAGGGCTTC
*
46791904 AATTGTAACACCCCGAACCCGAGACCGTTGCCGG-TGTCGGACACGAGGGGTTAACAAGC-CAAG
1 AATTGTAACACCCCGAACCCGAGACCGCTGCCGGAT-TCGGACACGAGGGGTTAACAAGCTCAA-
* * * * * *
46791967 TCCACAT-ATTTGCCCA-CCAATTT-GACATTTCCAGTCAGGCTGGAAAACTGCGTCACTGTCGC
64 ACCAC-TCATTTGCACAGCCAATTTAAAAATTTCCAGGCA-GCTGGAAAACTGCGTCACTGTCAC
* * * **
46792029 CTTAAAAATCATATCTCGAGTTTCAAAACTCGGAAACT-GGTTTCGTAAATTTTCCCTGAATTTA
127 CTTAAAAATCATATCTCGAGTTCCAAAACT-GGAAAATCAGTTTCGTAAATTTTCCCTGAAACTA
* ** * * *
46792093 GACTCATATATCCATCCATGTATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTAT
191 GACTCATATATACATCCACATATTTATTTATAGAATTTTTGGTCAGGCCAATTAGTACAGTTTAT
46792158 TAGTTAAAGTCACCCATGTTACAGG
256 TAGTTAAAGTCACCCATGTTACAGG
46792183 GATAGACTGC
Statistics
Matches: 237, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
335 11 0.05
336 153 0.65
337 8 0.03
338 64 0.27
339 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (337 bp):
AATTGTAACACCCCGAACCCGAGACCGCTGCCGGATTCGGACACGAGGGGTTAACAAGCTCAAAC
CACTCATTTGCACAGCCAATTTAAAAATTTCCAGGCAGCTGGAAAACTGCGTCACTGTCACCTTA
AAAATCATATCTCGAGTTCCAAAACTGGAAAATCAGTTTCGTAAATTTTCCCTGAAACTAGACTC
ATATATACATCCACATATTTATTTATAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTT
AAAGTCACCCATGTTACAGGTGTGACTACACTGACCTTCATGCATTACGACCTAGATATCTCCCT
GTACAGGGCTTC
Found at i:46793433 original size:40 final size:40
Alignment explanation
Indices: 46793384--46793532 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
46793374 ATCACGATTT
*
46793384 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
46793424 GCACGAATGCCTTCGGGTCTTAGCCCGGATA-AATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
46793463 GCATAAATGTCC-TC-GGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
46793502 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
46793533 TAATTTCCAG
Statistics
Matches: 90, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
38 17 0.19
39 28 0.31
40 45 0.50
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:46793491 original size:78 final size:80
Alignment explanation
Indices: 46793396--46793572 Score: 202
Period size: 78 Copynumber: 2.2 Consensus size: 80
46793386 ACAAATGCCT
* * *
46793396 TCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATA-AAT
1 TCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAAT
* **
46793458 TACTAGCATAAATGTCC
64 TACCAGCATAAACATCC
*
46793475 TC-GGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATT
1 TCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATT
* * *
46793538 TCCAGCATTAACATCT
65 ACCAGCATAAACATCC
46793554 TCGGGACTTAGCCCGGATA
1 TCGGGACTTAGCCCGGATA
46793573 TCATTCAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
76 1 0.01
77 4 0.05
78 44 0.54
79 18 0.22
80 15 0.18
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
TCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTA
CCAGCATAAACATCC
Found at i:46807070 original size:40 final size:41
Alignment explanation
Indices: 46807025--46807191 Score: 182
Period size: 40 Copynumber: 4.2 Consensus size: 41
46807015 CGGAATATAA
*
46807025 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
46807065 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
46807105 CCGGATATAA-CCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
46807145 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
46807184 CCGGATAT
1 CCGGATAT
46807192 CATTCAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
39 16 0.15
40 93 0.85
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:46810986 original size:43 final size:43
Alignment explanation
Indices: 46810905--46810988 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
46810895 ATACCGTACA
** **
46810905 ATGCCAATGTCCCAGACGTTGTCTTACATGTAGCCACATATTG
1 ATGCCAATGTCCCAGACAATGTCTTACATGTAAACACATATTG
*
46810948 ATGCCACTGTCCCAGACAATGTCTTAC-TCGTAAACACATAT
1 ATGCCAATGTCCCAGACAATGTCTTACAT-GTAAACACATAT
46810989 GGAAATCACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAATGTCTTACATGTAAACACATATTG
Found at i:46820287 original size:11 final size:11
Alignment explanation
Indices: 46820271--46820331 Score: 90
Period size: 11 Copynumber: 5.7 Consensus size: 11
46820261 ATAAACACGA
46820271 AAAATAATATT
1 AAAATAATATT
46820282 AAAATAAT-TT
1 AAAATAATATT
*
46820292 TAAATAATATT
1 AAAATAATATT
46820303 AAAATAAT-TT
1 AAAATAATATT
*
46820313 TAAATAATATT
1 AAAATAATATT
46820324 AAAATAAT
1 AAAATAAT
46820332 TTTATGACCT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
10 18 0.41
11 26 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
AAAATAATATT
Found at i:46820296 original size:21 final size:21
Alignment explanation
Indices: 46820272--46820335 Score: 128
Period size: 21 Copynumber: 3.0 Consensus size: 21
46820262 TAAACACGAA
46820272 AAATAATATTAAAATAATTTT
1 AAATAATATTAAAATAATTTT
46820293 AAATAATATTAAAATAATTTT
1 AAATAATATTAAAATAATTTT
46820314 AAATAATATTAAAATAATTTT
1 AAATAATATTAAAATAATTTT
46820335 A
1 A
46820336 TGACCTCATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATATTAAAATAATTTT
Found at i:46824801 original size:21 final size:20
Alignment explanation
Indices: 46824756--46824801 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
46824746 TTGTTGGAAT
*
46824756 GGTT-AATTTAATTTGTTTA
1 GGTTGAATTTAATTCGTTTA
*
46824775 GCTTGAATTTAATTCGTGTTA
1 GGTTGAATTTAATTCGT-TTA
46824796 GGTTGA
1 GGTTGA
46824802 TTGCATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 11 0.50
21 8 0.36
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (20 bp):
GGTTGAATTTAATTCGTTTA
Found at i:46826153 original size:43 final size:43
Alignment explanation
Indices: 46826105--46826226 Score: 181
Period size: 43 Copynumber: 2.8 Consensus size: 43
46826095 GTTACCGAGA
* *
46826105 TGTGATTACATGTAAGACCATATATGGGACATTGGTATTGTAT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
* *
46826148 TGTGATTACATGTAAGACCATGTATGGAACATTGGCATTTTAT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
* * *
46826191 TGTGATTACGTGGAAGACCATGTCTGGGACATTGGC
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGC
46826227 TGTAACACCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
Found at i:46828806 original size:28 final size:27
Alignment explanation
Indices: 46828756--46828808 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
46828746 CTATTCAGAA
* *
46828756 ATCAGTGTTAACTGGGCCTTAGCCCAT
1 ATCAGTATTAACTGGGCCATAGCCCAT
46828783 ATCAGTATTAATCTGGGCCATAGCCC
1 ATCAGTATTAA-CTGGGCCATAGCCC
46828809 TATTACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTGGGCCATAGCCCAT
Found at i:46828941 original size:19 final size:20
Alignment explanation
Indices: 46828898--46828943 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
46828888 ATTGGGTCTT
46828898 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
46828918 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
46828937 GCCCATA
1 GCCCATA
46828944 ATAAAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:46834445 original size:28 final size:27
Alignment explanation
Indices: 46834395--46834508 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 27
46834385 CTATTCAGAA
*
46834395 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
46834422 ATCAGTATTAATCTGGGCCATAGCCC-T
1 ATCAGTATTAATCTGGGCC-TAGCCCAT
* *
46834449 ATTACAATATCAGAGCATACTGGGCCTAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCTAGCCCAT
* *
46834483 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCC-TAGCCC
46834509 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCAGTATTAATCTGGGCCTAGCCCAT
Found at i:46834450 original size:62 final size:60
Alignment explanation
Indices: 46834372--46834516 Score: 177
Period size: 61 Copynumber: 2.4 Consensus size: 60
46834362 TCAAACTTTA
* * *
46834372 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAGTATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAGTATCAAT
* *
46834434 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
46834495 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
46834517 GTCGAGATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
61 39 0.53
62 31 0.42
63 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAAT
Found at i:46834580 original size:19 final size:20
Alignment explanation
Indices: 46834537--46834582 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
46834527 ATTGGGTCTT
46834537 GCCCATATTAACACAATTGG
1 GCCCATATTAACACAATTGG
* * *
46834557 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAATTGG
46834576 GCCCATA
1 GCCCATA
46834583 ATAAAATAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAATTGG
Found at i:46837698 original size:27 final size:27
Alignment explanation
Indices: 46837668--46837721 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46837658 TCATACAACC
* *
46837668 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
46837695 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
46837722 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:46840295 original size:27 final size:27
Alignment explanation
Indices: 46840265--46840442 Score: 230
Period size: 27 Copynumber: 6.6 Consensus size: 27
46840255 TAGTTTACCA
46840265 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
*
46840292 AATTACTGTTTTACCCTCGATTGACAG
1 AATTACTGTTTTACCCTCGATTTACAG
* *
46840319 AATTACTATTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
* * *
46840346 AATTACTATTTTACCCTTGATTTACAA
1 AATTACTGTTTTACCCTCGATTTACAG
* * *
46840373 AATTATTGTTTTACCTTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAG
* * *
46840400 AATTACCGTTTTACCCTCGATTTATAA
1 AATTACTGTTTTACCCTCGATTTACAG
**
46840427 AATTACCATTTTACCC
1 AATTACTGTTTTACCC
46840443 CTAGCGTGTT
Statistics
Matches: 133, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTACAG
Found at i:46840402 original size:81 final size:81
Alignment explanation
Indices: 46840264--46840442 Score: 259
Period size: 81 Copynumber: 2.2 Consensus size: 81
46840254 TTAGTTTACC
* * *
46840264 AAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTGACAGAATTACTATT
1 AAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTGACAGAATTACCATT
46840329 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
* * * * * * *
46840345 GAATTACTATTTTACCCTTGATTTACAAAATTATTGTTTTACCTTCGATTTATAGAATTACCGTT
1 AAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTGACAGAATTACCATT
46840410 TTACCCTCGATTTATA
66 TTACCCTCGATTTATA
*
46840426 AAATTACCATTTTACCC
1 AAATTACTATTTTACCC
46840443 CTAGCGTGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.42
Consensus pattern (81 bp):
AAATTACTATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTGACAGAATTACCATT
TTACCCTCGATTTATA
Found at i:46840462 original size:81 final size:79
Alignment explanation
Indices: 46840264--46840470 Score: 200
Period size: 81 Copynumber: 2.5 Consensus size: 79
46840254 TTAGTTTACC
** * * * *
46840264 AAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTGACAGAATTACTATT
1 AAATTACCATTTTACCCTAGATTTA-A-AATGATTGTTTTACCCTCGATTGACAGAATTACCATT
46840329 TTACCCTCGATTTATA
64 TTACCCTCGATTTATA
* * * * * * * *
46840345 GAATTACTATTTTACCCTTGATTTACAAAATTATTGTTTTACCTTCGATTTATAGAATTACCGTT
1 AAATTACCATTTTACCCTAGATTT--AAAATGATTGTTTTACCCTCGATTGACAGAATTACCATT
46840410 TTACCCTCGATTTATA
64 TTACCCTCGATTTATA
* *
46840426 AAATTACCATTTTACCCCTAGCGTGTT-AAATGATTGTTTTGCCCT
1 AAATTACCATTTTA-CCCTAG-AT-TTAAAATGATTGTTTTACCCT
46840471 TGTGGGCAAG
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
81 95 0.90
82 6 0.06
83 2 0.02
84 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.43
Consensus pattern (79 bp):
AAATTACCATTTTACCCTAGATTTAAAATGATTGTTTTACCCTCGATTGACAGAATTACCATTTT
ACCCTCGATTTATA
Found at i:46840987 original size:25 final size:25
Alignment explanation
Indices: 46840959--46841022 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
46840949 CATTCACATT
* *
46840959 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
46840984 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
46841009 CTGATTCTGATTCT
1 CTGATTCTGATTCT
46841023 CATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:46840995 original size:6 final size:6
Alignment explanation
Indices: 46840956--46841043 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
46840946 TTGCATTCAC
* * *
46840956 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
46841006 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
46841044 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:46842090 original size:30 final size:30
Alignment explanation
Indices: 46842054--46842114 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
46842044 AGCTCAAGTA
46842054 ACCAAAATATCTCAATTGAAGACATTAACT
1 ACCAAAATATCTCAATTGAAGACATTAACT
46842084 ACCAAAATATCTCAATTGAAGACATTAACT
1 ACCAAAATATCTCAATTGAAGACATTAACT
46842114 A
1 A
46842115 TAATTAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.26
Consensus pattern (30 bp):
ACCAAAATATCTCAATTGAAGACATTAACT
Found at i:46845189 original size:8 final size:8
Alignment explanation
Indices: 46845176--46845204 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
46845166 GGACTTATTC
46845176 ATCATATA
1 ATCATATA
46845184 ATCATATA
1 ATCATATA
46845192 ATCATATA
1 ATCATATA
46845200 ATCAT
1 ATCAT
46845205 TATTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (8 bp):
ATCATATA
Found at i:46847335 original size:46 final size:46
Alignment explanation
Indices: 46847224--46847343 Score: 158
Period size: 46 Copynumber: 2.6 Consensus size: 46
46847214 TGTGTGTGCT
46847224 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAATGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACATTATGAAATGCC
*
46847271 AGTGTAAGACATGTCTGGGACATGCATC-G-GCATTGA-GACGAGA-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACATT-ATGA--A-ATGCC
46847317 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
46847344 TATAACAGCT
Statistics
Matches: 68, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
44 6 0.09
45 1 0.01
46 32 0.47
47 29 0.43
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACATTATGAAATGCC
Found at i:46848515 original size:30 final size:29
Alignment explanation
Indices: 46848479--46848543 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
46848469 AATCGGAAGT
*
46848479 TTTGGCACTAAGTGTGCAATTTAAACTAGC
1 TTTGGCACTAAGTGTGCAATCT-AACTAGC
*
46848509 TTTGGCACTAAGTGTGCGATCTAACTAGC
1 TTTGGCACTAAGTGTGCAATCTAACTAGC
46848538 TTTGGC
1 TTTGGC
46848544 TATTTGAGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCAATCTAACTAGC
Found at i:46849074 original size:2 final size:2
Alignment explanation
Indices: 46849067--46849092 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46849057 ATGTTTTGTG
46849067 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
46849093 TTAGCCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46850025 original size:49 final size:51
Alignment explanation
Indices: 46849898--46850025 Score: 149
Period size: 49 Copynumber: 2.6 Consensus size: 51
46849888 TGTGTCTGTA
*
46849898 TAAGACCATGTCTAGGACATGGCATCGG-CACGAATATGTGAAAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACGAATATGTGAAAGCTAGTG
* ** * *
46849948 TAAGACCGTGTCTGGGACATGGTGTCGGCCTCG-AT-T-TCGATAG-TCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCACGAATATGT-GAAAGCT-AGTG
46849997 TAAGACCATGTCTGGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
46850026 ATTATACCCT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
48 2 0.03
49 35 0.53
50 26 0.39
51 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (51 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCACGAATATGTGAAAGCTAGTG
Found at i:46852694 original size:40 final size:40
Alignment explanation
Indices: 46852600--46852749 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
46852590 AATTGAATGA
* * * *
46852600 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GA-A-AT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACATAC
* * *
46852638 TATACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TAT-CCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46852680 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46852719 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46852750 ACATGCTTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
38 6 0.07
39 29 0.32
40 50 0.55
41 5 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46852763 original size:40 final size:39
Alignment explanation
Indices: 46852637--46852765 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 39
46852627 ATGCTGGAAA
* * *
46852637 TTATA-CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* * *
46852677 -TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GAC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
46852715 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
46852756 TTATATCCGG
1 TTATATCCGG
46852766 TTATATTCCG
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 3 0.04
40 64 0.89
41 2 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:46852764 original size:80 final size:79
Alignment explanation
Indices: 46852599--46852765 Score: 180
Period size: 80 Copynumber: 2.1 Consensus size: 79
46852589 AAATTGAATG
* *
46852599 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATACCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATACCGGGCTAAGACCCGAAGGCAA
*
46852664 TTGTGCTAGTGGCT
66 TTGTGCTAATGGCT
* * * * *
46852678 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATA-CCGGGCTAAGACCCGAAGG
*
46852741 CATTTGTGC-ACAT-GCTT
63 CAATTGTGCTA-ATGGC-T
46852758 ATATCCGG
1 ATATCCGG
46852766 TTATATTCCG
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
78 4 0.05
79 34 0.47
80 35 0.48
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATACCGGGCTAAGACCCGAAGGCAA
TTGTGCTAATGGCT
Found at i:46860498 original size:40 final size:40
Alignment explanation
Indices: 46860453--46860620 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46860443 CGGAATATAA
46860453 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46860493 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46860533 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
46860573 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46860613 CCGGATAT
1 CCGGATAT
46860621 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:46867698 original size:40 final size:40
Alignment explanation
Indices: 46867653--46867820 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
46867643 CGGAATATAA
46867653 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
46867693 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
46867733 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
46867773 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
46867813 CCGGATAT
1 CCGGATAT
46867821 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:46870292 original size:40 final size:40
Alignment explanation
Indices: 46870198--46870346 Score: 123
Period size: 39 Copynumber: 3.8 Consensus size: 40
46870188 AATTGAATGA
* * * *
46870198 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GA-A-AT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACATAC
* * *
46870236 TATACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TAT-CCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
46870278 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
46870317 TATCC-GGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
46870347 ACATGCTTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
38 6 0.07
39 50 0.56
40 30 0.33
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:46870360 original size:39 final size:38
Alignment explanation
Indices: 46870246--46870362 Score: 112
Period size: 39 Copynumber: 3.0 Consensus size: 38
46870236 TATACCGGGT
* * *
46870246 TAAGACCCGAAGGCAATTGTGCTAGTGGC-TACATCCGGGC
1 TAAGACCCGAAGGCATTTGTGC-AAT-GCTTATATCC-GGC
* * *
46870286 TAAGACCCGAAGGCATTCGTGCGA-GACATTCTATCCGGC
1 TAAGACCCGAAGGCATTTGTGCAATG-C-TTATATCCGGC
46870325 TAAGACCCGAAGGCATTTGTGCACATGCTTATATCCGG
1 TAAGACCCGAAGGCATTTGTGCA-ATGCTTATATCCGG
46870363 TTATATTCCG
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
37 1 0.02
38 1 0.02
39 33 0.52
40 27 0.43
41 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (38 bp):
TAAGACCCGAAGGCATTTGTGCAATGCTTATATCCGGC
Found at i:46874394 original size:2 final size:2
Alignment explanation
Indices: 46874387--46874428 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
46874377 AGTATAGTTG
* * *
46874387 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46874429 TCGGCCATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:46875103 original size:29 final size:29
Alignment explanation
Indices: 46875068--46875141 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
46875058 GTTGTGAGAT
* *
46875068 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
46875097 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
46875126 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46875142 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:46880584 original size:24 final size:24
Alignment explanation
Indices: 46880552--46880694 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
46880542 GAGGAAGTGA
46880552 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
46880576 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
46880600 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
46880623 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
46880647 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
46880671 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46880695 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
23 22 0.21
24 74 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:46880652 original size:47 final size:47
Alignment explanation
Indices: 46880552--46880680 Score: 186
Period size: 47 Copynumber: 2.7 Consensus size: 47
46880542 GAGGAAGTGA
* *
46880552 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAATTATC
*
46880600 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAATTATC
* *
46880647 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
46880681 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
47 41 0.55
48 29 0.39
49 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAATTATC
Found at i:46880668 original size:71 final size:72
Alignment explanation
Indices: 46880552--46880695 Score: 202
Period size: 71 Copynumber: 2.0 Consensus size: 72
46880542 GAGGAAGTGA
* * *
46880552 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
46880615 CCAGTTAT
65 CCAGTTAT
** * *
46880623 AAAAGGGCTTATGCCCCAATTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
46880688 CAGTTAT
66 CAGTTAT
46880695 A
1 A
46880696 TGATAAAGCA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
71 52 0.81
72 12 0.19
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:46880921 original size:31 final size:31
Alignment explanation
Indices: 46880886--46880949 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46880876 CGTTTACAGT
*
46880886 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
46880917 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
46880948 AA
1 AA
46880950 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:46881930 original size:29 final size:29
Alignment explanation
Indices: 46881895--46881968 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
46881885 GTTGTGAGAT
* *
46881895 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
46881924 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
46881953 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
46881969 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:46893970 original size:28 final size:28
Alignment explanation
Indices: 46893930--46893994 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
46893920 ATGTACTAGA
*
46893930 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
46893958 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
46893986 ATACCCCTA
1 ATACCCCTA
46893995 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:46894140 original size:28 final size:27
Alignment explanation
Indices: 46894100--46894187 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 27
46894090 GGAAGCGTCC
46894100 GGTGGCTA-TGCCACAAATTATCTGTTCT
1 GGTGGC-ACTGCCACAAA-TATCTGTTCT
* *
46894128 GGTGGCCCTGCCACATATATCTGTTCT
1 GGTGGCACTGCCACAAATATCTGTTCT
*
46894155 AGTGGCACTGCCACAAAATATCTGTATCT
1 GGTGGCACTGCCAC-AAATATCTGT-TCT
46894184 GGTG
1 GGTG
46894188 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
27 22 0.43
28 23 0.45
29 6 0.12
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
GGTGGCACTGCCACAAATATCTGTTCT
Found at i:46894159 original size:27 final size:27
Alignment explanation
Indices: 46894108--46894179 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
46894098 CCGGTGGCTA
* *
46894108 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAA-TATCTGTTCTAGTGGCAC
*
46894136 TGCCACATATATCTGTTCTAGTGGCAC
1 TGCCACAAATATCTGTTCTAGTGGCAC
46894163 TGCCACAAAATATCTGT
1 TGCCAC-AAATATCTGT
46894180 ATCTGGTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTAGTGGCAC
Found at i:46895309 original size:11 final size:10
Alignment explanation
Indices: 46895281--46895314 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
46895271 AGCCTGTAAG
46895281 TATTCTGAAT
1 TATTCTGAAT
*
46895291 TTTTCTGAAT
1 TATTCTGAAT
46895301 ATATTCTGAAT
1 -TATTCTGAAT
46895312 TAT
1 TAT
46895315 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:46899206 original size:49 final size:49
Alignment explanation
Indices: 46899149--46899408 Score: 301
Period size: 49 Copynumber: 5.1 Consensus size: 49
46899139 TATGATATAC
* *
46899149 ATATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
46899197 -TATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTATGAAAATGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGT---G-A--TG-AA-TG--TGAAAGTGT
*
46899255 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-G--TGT
* * *
46899308 ATATATATGCGATACGGCCTAATGGCCGATGTGAGGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
46899357 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATA-TGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
46899405 ATAT
1 ATAT
46899409 GTGGTAAAGC
Statistics
Matches: 183, Mismatches: 13, Indels: 32
0.80 0.06 0.14
Matches are distributed among these distances:
47 29 0.16
48 7 0.04
49 45 0.25
50 4 0.02
51 4 0.02
52 5 0.03
53 45 0.25
54 2 0.01
55 3 0.02
56 1 0.01
57 7 0.04
59 31 0.17
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:46899266 original size:106 final size:96
Alignment explanation
Indices: 46899149--46899408 Score: 306
Period size: 102 Copynumber: 2.6 Consensus size: 96
46899139 TATGATATAC
* * *
46899149 ATATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGC
46899214 CTAATGGCCGATGTGACGAATGTGAAAGTGTATGAAAATGT
66 CTAATGGCCGATGT---G-A-G-G-AA-TG--TGAAAATGT
*
46899255 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATATGCGA
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-G----TGTATATATGCGA
* *
46899320 TACGGCCTAATGGCCGATGTGAGGAATGTGAAAGTGT
60 TAAGGCCTAATGGCCGATGTGAGGAATGTGAAAATGT
*
46899357 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATA-TGTATAT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
46899409 GTGGTAAAGC
Statistics
Matches: 140, Mismatches: 8, Indels: 23
0.82 0.05 0.13
Matches are distributed among these distances:
95 6 0.04
101 2 0.01
102 50 0.36
104 2 0.01
105 2 0.01
106 41 0.29
107 4 0.03
108 2 0.01
109 1 0.01
112 30 0.21
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAAGGC
CTAATGGCCGATGTGAGGAATGTGAAAATGT
Found at i:46899315 original size:53 final size:52
Alignment explanation
Indices: 46899144--46899408 Score: 312
Period size: 59 Copynumber: 5.1 Consensus size: 52
46899134 ATATGTATGA
* * *
46899144 TATACATATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-G
1 TATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATG
* *
46899195 ----TGTATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTG
1 TATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TG
46899244 TATGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG
1 TAT----A--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAATG
* * *
46899303 TATATATATATATGCGATACGGCCTAATGGCCGATGTGAGGAATGTGAAA-G
1 TATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATG
* *
46899354 --TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGATATG
1 TATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATG
46899404 TATAT
1 TATAT
46899409 GTGGTAAAGC
Statistics
Matches: 182, Mismatches: 16, Indels: 31
0.79 0.07 0.14
Matches are distributed among these distances:
47 41 0.23
49 44 0.24
50 1 0.01
51 1 0.01
52 5 0.03
53 40 0.22
55 1 0.01
59 46 0.25
60 3 0.02
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.31
Consensus pattern (52 bp):
TATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATG
Found at i:46899410 original size:44 final size:45
Alignment explanation
Indices: 46899306--46899426 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 45
46899296 GAAAATGTAT
* *
46899306 ATATATATATGCGATACGGCCTAATGGCCGATGTGAGGAATGTGAA
1 ATATATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTG-A
*
46899352 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-
1 A---TATATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGA
* * * *
46899399 ATATGTATATGTGGTAAAGCCGAATGGC
1 ATATATATATGTGATAAGGCCTAATGGC
46899427 TAATGTGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
44 23 0.35
46 1 0.02
47 1 0.02
49 40 0.62
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (45 bp):
ATATATATATGTGATAAGGCCTAATGGCCGATGTGAGGAATGTGA
Found at i:46899530 original size:37 final size:36
Alignment explanation
Indices: 46899475--46899561 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
46899465 AACTTGGAAA
*
46899475 TATGTTCCGGGTGAGACCCGATGACTATGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
46899513 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
46899550 TATGTCCGGGTA
1 TATGTCCGGGTA
46899562 AGACTTCGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:46906016 original size:28 final size:28
Alignment explanation
Indices: 46905976--46906040 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
46905966 ATGTACTAGA
*
46905976 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
46906004 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
46906032 ATACCCCTA
1 ATACCCCTA
46906041 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:46906204 original size:27 final size:27
Alignment explanation
Indices: 46906147--46906235 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
46906137 GGAAGCGTCT
46906147 TGGTGGCTA-TGCCACAAATTATCTGTTC
1 TGGTGGC-ACTGCCACAAA-TATCTGTTC
* *
46906175 TGGTGGCCCTGCCACATATATCTGTTC
1 TGGTGGCACTGCCACAAATATCTGTTC
46906202 TGGTGGCACTGCCACAAAATATCTGTATC
1 TGGTGGCACTGCCAC-AAATATCTGT-TC
46906231 TGGTG
1 TGGTG
46906236 ACTCTATCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
TGGTGGCACTGCCACAAATATCTGTTC
Found at i:46906246 original size:29 final size:28
Alignment explanation
Indices: 46906158--46906246 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 28
46906148 GGTGGCTATG
* * * *
46906158 CCACAAATTATCTGTTCTGGTGGCCCTG
1 CCACAAAATATCTGTTCTGGTGACACTA
* * *
46906186 CCAC-ATATATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGACACTA
*
46906213 CCACAAAATATCTGTATCTGGTGACTCTA
1 CCACAAAATATCTGT-TCTGGTGACACTA
*
46906242 TCACA
1 CCACA
46906247 TTTTCTATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 24 0.47
28 13 0.25
29 14 0.27
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGACACTA
Found at i:46906260 original size:56 final size:55
Alignment explanation
Indices: 46906147--46906260 Score: 124
Period size: 55 Copynumber: 2.1 Consensus size: 55
46906137 GGAAGCGTCT
* * * *
46906147 TGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTACCACATATATCTATTC
* * *
46906202 TGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTATCACAT-TTTCTATATC
1 TGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTACCACATATATCTAT-TC
46906258 TGG
1 TGG
46906261 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.57
56 20 0.41
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (55 bp):
TGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTACCACATATATCTATTC
Found at i:46908247 original size:29 final size:29
Alignment explanation
Indices: 46908215--46908346 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
46908205 ATAGTGAATC
46908215 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
46908244 CGCACACTTAGTGCTATATAATTTTTAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
46908274 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
46908303 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
46908332 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46908347 GTACAATTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 71 0.72
30 28 0.28
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:46908356 original size:59 final size:59
Alignment explanation
Indices: 46908215--46908346 Score: 230
Period size: 59 Copynumber: 2.3 Consensus size: 59
46908205 ATAGTGAATC
*
46908215 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTTAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* *
46908274 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
46908332 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46908347 GTACAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 23 0.33
59 47 0.67
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:46911220 original size:21 final size:21
Alignment explanation
Indices: 46911196--46911253 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
46911186 GCTTCCATTG
* *
46911196 CTGCTTCCTCTGCCTCCCTCA
1 CTGCTGCCGCTGCCTCCCTCA
*
46911217 CTGCTGCCGCTGCCTCCCTCG
1 CTGCTGCCGCTGCCTCCCTCA
46911238 CTGCTGCTC-CTGCCTC
1 CTGCTGC-CGCTGCCTC
46911254 TCTCTAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.02, C:0.52, G:0.17, T:0.29
Consensus pattern (21 bp):
CTGCTGCCGCTGCCTCCCTCA
Found at i:46911676 original size:13 final size:14
Alignment explanation
Indices: 46911651--46911679 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46911641 TGATGAATTG
46911651 AATTAAACAATTAT
1 AATTAAACAATTAT
46911665 AATTAAAC-ATTAT
1 AATTAAACAATTAT
46911678 AA
1 AA
46911680 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:46914990 original size:12 final size:12
Alignment explanation
Indices: 46914975--46915000 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46914965 ATCATCCTTT
46914975 TCATCAGATTCA
1 TCATCAGATTCA
46914987 TCATCAGATTCA
1 TCATCAGATTCA
46914999 TC
1 TC
46915001 CCTTGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:46916709 original size:9 final size:9
Alignment explanation
Indices: 46916695--46917033 Score: 125
Period size: 9 Copynumber: 37.4 Consensus size: 9
46916685 AGGGATTATC
46916695 TTATGTAAA
1 TTATGTAAA
46916704 TTATGTAAGA
1 TTATGTAA-A
46916714 -TATGATATATA
1 TTATG-TA-A-A
46916725 TTTATGT--A
1 -TTATGTAAA
*
46916733 TTATGTAAG
1 TTATGTAAA
46916742 TTATGTAAA
1 TTATGTAAA
*
46916751 TTATGTAAG
1 TTATGTAAA
* * *
46916760 GTATTTATA
1 TTATGTAAA
* * *
46916769 TGATATATAT
1 TTATGTA-AA
46916779 TTATGT--A
1 TTATGTAAA
*
46916786 TTATGTAAG
1 TTATGTAAA
46916795 TTATGTAAA
1 TTATGTAAA
*
46916804 TTATGTAAG
1 TTATGTAAA
* * **
46916813 TAATTTATC
1 TTATGTAAA
46916822 TTATGTAAA
1 TTATGTAAA
46916831 TTATGTAAGA
1 TTATGTAA-A
*
46916841 -TATGATACGTCA
1 TTATG-TA---AA
46916853 TTATGT--A
1 TTATGTAAA
*
46916860 TTATGTAAG
1 TTATGTAAA
46916869 TTATGTAAA
1 TTATGTAAA
* *
46916878 CTATGTAAG
1 TTATGTAAA
* **
46916887 TTATTTATC
1 TTATGTAAA
46916896 TTATGTAAA
1 TTATGTAAA
46916905 TTATGTAAGA
1 TTATGTAA-A
46916915 -TATGATATATA
1 TTATG-TA-A-A
* *
46916926 TT-TATATA
1 TTATGTAAA
*
46916934 TTATGTAAG
1 TTATGTAAA
46916943 TTATGTAAA
1 TTATGTAAA
46916952 TTATGTAAGA
1 TTATGTAA-A
* **
46916962 -TATTTATC
1 TTATGTAAA
46916970 TTATGTAAA
1 TTATGTAAA
46916979 TTATGTAAGA
1 TTATGTAA-A
*
46916989 -TATG-ATA
1 TTATGTAAA
* *
46916996 -TATATATAT
1 TTATGTA-AA
46917005 TTATGT--A
1 TTATGTAAA
*
46917012 TTATGTAAG
1 TTATGTAAA
46917021 TTATGTAAA
1 TTATGTAAA
46917030 TTAT
1 TTAT
46917034 ATAAGATATG
Statistics
Matches: 239, Mismatches: 60, Indels: 62
0.66 0.17 0.17
Matches are distributed among these distances:
7 29 0.12
8 6 0.03
9 166 0.69
10 21 0.09
11 5 0.02
12 4 0.02
13 8 0.03
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (9 bp):
TTATGTAAA
Found at i:46916739 original size:29 final size:29
Alignment explanation
Indices: 46916703--46916799 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 29
46916693 TCTTATGTAA
46916703 ATTATGTAAGATATGATATATATTTATGT
1 ATTATGTAAGATATGATATATATTTATGT
*
46916732 ATTATGTAAGTTATG-TA-A-A-TTATGT
1 ATTATGTAAGATATGATATATATTTATGT
* **
46916757 A--AGGTATTTATATGATATATATTTATGT
1 ATTATGTA-AGATATGATATATATTTATGT
*
46916785 ATTATGTAAGTTATG
1 ATTATGTAAGATATG
46916800 TAAATTATGT
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
23 4 0.08
24 4 0.08
25 9 0.17
26 2 0.04
27 2 0.04
28 9 0.17
29 18 0.35
30 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (29 bp):
ATTATGTAAGATATGATATATATTTATGT
Found at i:46916755 original size:18 final size:18
Alignment explanation
Indices: 46916732--46916986 Score: 148
Period size: 18 Copynumber: 14.0 Consensus size: 18
46916722 ATATTTATGT
46916732 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
46916750 ATTATGTAAGGTATTTAT
1 ATTATGTAAGTTATGTAA
* * *
46916768 ATGATATATATTTATGT--
1 ATTATGTA-AGTTATGTAA
46916785 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
46916803 ATTATGTAAGTAATTTAT
1 ATTATGTAAGTTATGTAA
* *
46916821 CTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
*
46916839 GA-TATGATACGTCATTATGT--
1 -ATTATG-TAAG---TTATGTAA
46916859 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
* * *
46916877 ACTATGTAAGTTATTTAT
1 ATTATGTAAGTTATGTAA
* *
46916895 CTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
*
46916913 GA-TATG-ATA-TATATTTATA
1 -ATTATGTA-AGT-TATGTA-A
46916932 TATTATGTAAGTTATGTAA
1 -ATTATGTAAGTTATGTAA
* * *
46916951 ATTATGTAAGATATTTAT
1 ATTATGTAAGTTATGTAA
* *
46916969 CTTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
46916987 GATATGATAT
Statistics
Matches: 176, Mismatches: 43, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
16 13 0.07
17 8 0.05
18 119 0.68
19 14 0.08
20 14 0.08
21 2 0.01
22 6 0.03
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:46916778 original size:53 final size:53
Alignment explanation
Indices: 46916713--46916820 Score: 200
Period size: 53 Copynumber: 2.0 Consensus size: 53
46916703 ATTATGTAAG
46916713 ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGGT-ATTT
1 ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAA-GTAATTT
46916766 ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATTT
1 ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATTT
46916819 AT
1 AT
46916821 CTTATGTAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 2 0.04
53 52 0.96
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (53 bp):
ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATTT
Found at i:46916863 original size:74 final size:74
Alignment explanation
Indices: 46916766--46917038 Score: 424
Period size: 74 Copynumber: 3.6 Consensus size: 74
46916756 TAAGGTATTT
46916766 ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATTTATCTTATGTAAA
1 ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATTTATCTTATGTAAA
46916831 TTATGTAAG
66 TTATGTAAG
** * *
46916840 ATATGATACGTCA-TTATGTATTATGTAAGTTATGTAAACTATGTAAGTTATTTATCTTATGTAA
1 ATATGATATAT-ATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATTTATCTTATGTAA
46916904 ATTATGTAAG
65 ATTATGTAAG
*
46916914 ATATGATATATATTTATATATTATGTAAGTTATGTAAATTATGTAAG-ATATTTATCTTATGTAA
1 ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTA-ATTTATCTTATGTAA
46916978 ATTATGTAAG
65 ATTATGTAAG
*
46916988 ATATGATATATATATATTTATGTATTATGTAAGTTATGTAAATTATATAAG
1 ATATG----ATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAG
46917039 ATATGATATA
Statistics
Matches: 181, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
73 1 0.01
74 139 0.77
75 1 0.01
78 40 0.22
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (74 bp):
ATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAAGTAATTTATCTTATGTAAA
TTATGTAAG
Found at i:46919226 original size:2 final size:2
Alignment explanation
Indices: 46919221--46919257 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
46919211 ACACGGATAA
46919221 AT AT AT 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 AT AT AT A
46919258 CAACTCCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46920193 original size:18 final size:18
Alignment explanation
Indices: 46920158--46920192 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46920148 TAAAATTATT
*
46920158 TAATATATAATTTAAAAA
1 TAATATATAATTAAAAAA
46920176 TAATATA-AATTAAAAAA
1 TAATATATAATTAAAAAA
46920193 AATCACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATATATAATTAAAAAA
Found at i:46920362 original size:26 final size:26
Alignment explanation
Indices: 46920304--46920356 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
46920294 AGAATTAGAT
46920304 AAAATTTGAAATCTTGAAAATTATTA
1 AAAATTTGAAATCTTGAAAATTATTA
*
46920330 AAAATTTGAAATCTTTAAAATT-TTA
1 AAAATTTGAAATCTTGAAAATTATTA
46920355 AA
1 AA
46920357 TTATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
AAAATTTGAAATCTTGAAAATTATTA
Found at i:46920363 original size:17 final size:17
Alignment explanation
Indices: 46920307--46920364 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
46920297 ATTAGATAAA
*
46920307 ATTTGAAATCTTGAAAATT
1 ATTTAAAAT-TTG-AAATT
*
46920326 ATTAAAAATTTGAAA-T
1 ATTTAAAATTTGAAATT
* *
46920342 CTTTAAAATTTTAAATT
1 ATTTAAAATTTGAAATT
46920359 ATTTAA
1 ATTTAA
46920365 TATATATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 13 0.41
17 9 0.28
18 3 0.09
19 7 0.22
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:46920614 original size:15 final size:15
Alignment explanation
Indices: 46920590--46920635 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
46920580 AAACCATGTA
*
46920590 CCCTAAACCCTTAAC
1 CCCTAGACCCTTAAC
*
46920605 CCCTGGACCCTTAAC
1 CCCTAGACCCTTAAC
*
46920620 TCCTAGACCCTTAAC
1 CCCTAGACCCTTAAC
46920635 C
1 C
46920636 TTTAACCCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.26, C:0.46, G:0.07, T:0.22
Consensus pattern (15 bp):
CCCTAGACCCTTAAC
Found at i:46920766 original size:15 final size:14
Alignment explanation
Indices: 46920746--46920873 Score: 60
Period size: 14 Copynumber: 8.7 Consensus size: 14
46920736 TTTTAACTCA
46920746 TAAACCATAAACCCC
1 TAAACCATAAA-CCC
*
46920761 TAAACCTTAAACCC
1 TAAACCATAAACCC
** *
46920775 TAAACCCATAATTCA
1 TAAA-CCATAAACCC
* ***
46920790 TAAACCTTAAAATA
1 TAAACCATAAACCC
*
46920804 TTAACTCATCATAAACCC
1 TAAAC-C---ATAAACCC
46920822 TAAATCC-TAAACCC
1 TAAA-CCATAAACCC
* * *
46920836 TAAACTATATACTC
1 TAAACCATAAACCC
*
46920850 TAAACCATAAACCT
1 TAAACCATAAACCC
*
46920864 TAAACTATAA
1 TAAACCATAA
46920874 TGATAAGTAA
Statistics
Matches: 83, Mismatches: 23, Indels: 15
0.69 0.19 0.12
Matches are distributed among these distances:
13 1 0.01
14 52 0.63
15 21 0.25
18 8 0.10
19 1 0.01
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:46920785 original size:37 final size:37
Alignment explanation
Indices: 46920707--46920795 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
46920697 ATCACTAAGT
* ** * *
46920707 CATAAACCATAAACCCCTAAACCTTGAGATTTTAACT
1 CATAAACCATAAACCCCTAAACCTTGAAACCTAAACC
46920744 CATAAACCATAAACCCCTAAACCTT-AAACCCTAAACC
1 CATAAACCATAAACCCCTAAACCTTGAAA-CCTAAACC
**
46920781 CATAATTCATAAACC
1 CATAAACCATAAACC
46920796 TTAAAATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 2 0.05
37 42 0.95
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.22
Consensus pattern (37 bp):
CATAAACCATAAACCCCTAAACCTTGAAACCTAAACC
Found at i:46920793 original size:22 final size:22
Alignment explanation
Indices: 46920743--46920800 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
46920733 AGATTTTAAC
*
46920743 TCATAAACCATAAACCCCTAAA
1 TCATAAACCATAAACCCATAAA
* * * *
46920765 CCTTAAACCCTAAACCCATAAT
1 TCATAAACCATAAACCCATAAA
*
46920787 TCATAAACCTTAAA
1 TCATAAACCATAAA
46920801 ATATTAACTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TCATAAACCATAAACCCATAAA
Found at i:46921243 original size:41 final size:41
Alignment explanation
Indices: 46921153--46921317 Score: 197
Period size: 41 Copynumber: 4.0 Consensus size: 41
46921143 AAATGTTTTT
* * * **
46921153 GTGGCGCTTTTTGAAAAAACGCAGCTATAAATC-GAGCATTA
1 GTGGCG-TTTTTCAAAAAGCGCCGCTATAGGTCTGAGCATTA
*
46921194 GTAGCGTTTTTCAAAAAGCGCCGCTATAGGTCTGAGCATTA
1 GTGGCGTTTTTCAAAAAGCGCCGCTATAGGTCTGAGCATTA
* * *
46921235 GTGGCGTTTTTCAAAAAGTGCCCCTATAGGTCTGAGAATTA
1 GTGGCGTTTTTCAAAAAGCGCCGCTATAGGTCTGAGCATTA
* * * *
46921276 GCGGCGTTTTTAAAAAAGCACCGCTATAGGTTTGAGCATTA
1 GTGGCGTTTTTCAAAAAGCGCCGCTATAGGTCTGAGCATTA
46921317 G
1 G
46921318 CAACGCTTTT
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 21 0.20
41 85 0.80
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (41 bp):
GTGGCGTTTTTCAAAAAGCGCCGCTATAGGTCTGAGCATTA
Found at i:46921318 original size:41 final size:41
Alignment explanation
Indices: 46921160--46921338 Score: 184
Period size: 41 Copynumber: 4.4 Consensus size: 41
46921150 TTTGTGGCGC
* ** *
46921160 TTTTTGAAAAAA-CGCAGCTATAAATC-GAGCATTAGTAGCG
1 TTTTT-AAAAAAGCGCCGCTATAGGTCTGAGCATTAGCAGCG
* **
46921200 TTTTTCAAAAAGCGCCGCTATAGGTCTGAGCATTAGTGGCG
1 TTTTTAAAAAAGCGCCGCTATAGGTCTGAGCATTAGCAGCG
* * * * *
46921241 TTTTTCAAAAAGTGCCCCTATAGGTCTGAGAATTAGCGGCG
1 TTTTTAAAAAAGCGCCGCTATAGGTCTGAGCATTAGCAGCG
* * *
46921282 TTTTTAAAAAAGCACCGCTATAGGTTTGAGCATTAGCAACG
1 TTTTTAAAAAAGCGCCGCTATAGGTCTGAGCATTAGCAGCG
46921323 CTTTTTAAAAAA-CGCC
1 -TTTTTAAAAAAGCGCC
46921339 ACTAATTTTC
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
39 5 0.04
40 16 0.14
41 86 0.73
42 11 0.09
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (41 bp):
TTTTTAAAAAAGCGCCGCTATAGGTCTGAGCATTAGCAGCG
Found at i:46923213 original size:50 final size:50
Alignment explanation
Indices: 46923120--46923214 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
46923110 GGATTACAAC
* * *
46923120 TCGATGCCAATGCCATATCCTAGACATGTTCTTGCATGAGATCTCTTATG
1 TCGATGCCAATGCCATATCCCAGACATGGTCTTACATGAGATCTCTTATG
*
46923170 TCGATGCCAATGCCATGTCCCAGACATGGTCTTACAT-AGGATCTC
1 TCGATGCCAATGCCATATCCCAGACATGGTCTTACATGA-GATCTC
46923215 ATATCAACGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (50 bp):
TCGATGCCAATGCCATATCCCAGACATGGTCTTACATGAGATCTCTTATG
Found at i:46934805 original size:39 final size:40
Alignment explanation
Indices: 46934747--46934847 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
46934737 AAATTGAATG
* *
46934747 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
46934786 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
46934826 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
46934848 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:46934840 original size:40 final size:40
Alignment explanation
Indices: 46934747--46934929 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
46934737 AAATTGAATG
* * * * *
46934747 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46934786 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46934826 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
46934866 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
46934906 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46934930 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:46942908 original size:39 final size:40
Alignment explanation
Indices: 46942850--46942950 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
46942840 AAATTGAATG
* *
46942850 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
46942889 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
46942929 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
46942951 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:46942943 original size:40 final size:40
Alignment explanation
Indices: 46942850--46943032 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
46942840 AAATTGAATG
* * * * *
46942850 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46942889 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
46942929 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
46942969 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
46943009 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46943033 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:46945210 original size:45 final size:45
Alignment explanation
Indices: 46945161--46945269 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
46945151 GTATTTTTGA
* * *
46945161 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGTTTTCAC
1 GTAAGACCACGTCTGGGACGTTAGCATCGATATATGTGGTTACAC
**
46945206 GTAAGACCACGTCTGGGACGTTAGCATCGATATATGTGGTTACGT
1 GTAAGACCACGTCTGGGACGTTAGCATCGATATATGTGGTTACAC
*
46945251 GTAAGACCATGTCTGGGAC
1 GTAAGACCACGTCTGGGAC
46945270 ATCGACATCG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (45 bp):
GTAAGACCACGTCTGGGACGTTAGCATCGATATATGTGGTTACAC
Found at i:46945320 original size:41 final size:42
Alignment explanation
Indices: 46945251--46945329 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
46945241 GTGGTTACGT
* *
46945251 GTAAGACCATGTCTGGGACATCGACATCG-TATTAGATTCGA
1 GTAAGACCATGTCTAGGACATCGACATCGATATGAGATTCGA
* *
46945292 GTAAGACCCTGTCTAGGACAGT-GGCATCGATATGAGAT
1 GTAAGACCATGTCTAGGACA-TCGACATCGATATGAGAT
46945330 AGCATGTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 24 0.75
42 8 0.25
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (42 bp):
GTAAGACCATGTCTAGGACATCGACATCGATATGAGATTCGA
Found at i:46946268 original size:2 final size:2
Alignment explanation
Indices: 46946261--46946291 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
46946251 AAGTGATGTT
46946261 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46946292 GATTTTGAGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46963222 original size:40 final size:38
Alignment explanation
Indices: 46963116--46963263 Score: 131
Period size: 39 Copynumber: 3.8 Consensus size: 38
46963106 ATCACGATTT
*
46963116 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAAATGACTA
**
46963155 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAAATG--ACTA
* **
46963195 GCACAATTGCCTTCGGGTCTTAACCCGG-TATAATTTC-A
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA-AATGACTA
* * *
46963233 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
46963264 TCATTCAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
38 26 0.29
39 36 0.40
40 28 0.31
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAAATGACTA
Found at i:46971223 original size:80 final size:80
Alignment explanation
Indices: 46971139--46971287 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
46971129 TATGGTAACC
* * * *
46971139 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
46971203 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
46971219 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
46971284 CCGG
66 CCGG
46971288 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:46971229 original size:40 final size:38
Alignment explanation
Indices: 46971180--46971287 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
46971170 ATCACGATTT
*
46971180 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
46971220 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
46971260 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
46971288 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:46981048 original size:50 final size:50
Alignment explanation
Indices: 46980967--46981411 Score: 407
Period size: 50 Copynumber: 8.9 Consensus size: 50
46980957 TTCATTGTAA
*
46980967 GTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
46981017 GTCGCATGTGTAGTACTAAGTCCAGGCTACTA--TGCTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTG-TACCAGATTGA--TAG
* * * * * * *
46981067 ATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
46981117 GTCACATCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
46981167 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * ** ** *
46981218 ATCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACTC-G-TCAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTGA--TAG
* * * * * * *
46981269 ATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** * *
46981319 GTCATGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
46981369 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
46981412 GAGCTTCGGT
Statistics
Matches: 322, Mismatches: 62, Indels: 22
0.79 0.15 0.05
Matches are distributed among these distances:
48 5 0.02
49 8 0.02
50 220 0.68
51 84 0.26
52 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:46981317 original size:202 final size:200
Alignment explanation
Indices: 46980967--46981411 Score: 694
Period size: 202 Copynumber: 2.2 Consensus size: 200
46980957 TTCATTGTAA
* * * * * *
46980967 GTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGATCACATGTGTAGTA
*
46981032 CTAAGTCCAGGCTACTATGCTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTAC
66 CTAAGTCCAGGCTACTATGCTACCCGTCAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTAC
*
46981097 TACGTGTATCAGATGGTTAAGTCACATCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT
131 TACGTGTATCAGATGGTTAAGTCACATCTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATT
46981162 GATAG
196 GATAG
* * * *
46981167 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGATCACGTGTGTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAA--TAGATCACATGTGTAG
* *
46981231 TACTAAGTGCAGGCTACTATGCATACTCGTCAACTTCGATCACGTGTGTAGTACTAAGTGTAGGC
64 TACTAAGTCCAGGCTACTATGC-TACCCGTCAACTTCGATCACGTGTGTAGTACTAAGTGTAGGC
** * *
46981296 TACTACGTGTATCAGATGGTTAAGTCATGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAG
128 TACTACGTGTATCAGATGGTTAAGTCACATCTGTAGTACTAAGTGCAGGCTACTACATGTACCAG
46981361 ATTGATAG
193 ATTGATAG
46981369 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
46981412 GAGCTTCGGT
Statistics
Matches: 221, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
199 3 0.01
200 37 0.17
201 33 0.15
202 148 0.67
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (200 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGATCACATGTGTAGTA
CTAAGTCCAGGCTACTATGCTACCCGTCAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCTAC
TACGTGTATCAGATGGTTAAGTCACATCTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATT
GATAG
Found at i:46987858 original size:40 final size:39
Alignment explanation
Indices: 46987791--46987942 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
46987781 AAATTGAATG
* * * * *
46987791 ATATCCGGGCTAAGCCCCAAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
46987831 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
46987871 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
46987911 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
46987943 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 86 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:46987956 original size:40 final size:39
Alignment explanation
Indices: 46987829--46987958 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
46987819 ATGCTGGAAA
* *
46987829 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
46987869 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
46987909 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
46987949 TTATATCCGG
1 TTATATCCGG
46987959 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:46993047 original size:23 final size:24
Alignment explanation
Indices: 46992999--46993048 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
46992989 ACTTAGCGAT
*
46992999 TCTAGATCTAACAATTATTCTATG
1 TCTAGATCTAACAATTACTCTATG
46993023 TCTAGATCTAACAA-TACTCTATG
1 TCTAGATCTAACAATTACTCTATG
46993046 TCT
1 TCT
46993049 TGAGAGCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (24 bp):
TCTAGATCTAACAATTACTCTATG
Found at i:46998772 original size:40 final size:40
Alignment explanation
Indices: 46998713--46998920 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
46998703 CAATTGAATG
* * * *
46998713 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
46998753 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
46998793 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
46998833 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
46998873 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
46998913 ATATCCGG
1 ATATCCGG
46998921 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:46998851 original size:80 final size:80
Alignment explanation
Indices: 46998714--46998920 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
46998704 AATTGAATGA
* * ** * * *
46998714 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
46998779 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
46998792 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
46998857 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
46998874 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
46998921 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:47007053 original size:40 final size:40
Alignment explanation
Indices: 47006850--47007055 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
47006840 CAATTGAATG
* * ** **
47006850 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* **
47006890 ATAT--GGGTTAAGACCCGAAGGCAATT-GTGC-TAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAT-GTGGTT
* * *
47006928 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
47006968 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
47007008 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
47007048 ATATCCGG
1 ATATCCGG
47007056 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
38 27 0.20
39 6 0.04
40 105 0.76
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:47015909 original size:43 final size:43
Alignment explanation
Indices: 47015821--47015975 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
47015811 CAATGCCATA
* ** * * * *
47015821 TCCCAGATATGGTCTTACATGTTATCGC-ATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCTCAATA-CAACGCCAATG
* * *
47015864 TCCCAGACAGGGTCTTACATGAAATC-GATTAACAACGCCAATG
1 TCCCAGACATGGTCTTACATGAAATCTCAAT-ACAACGCCAATG
* * * *
47015907 TCCCAAACATGGTATTACA-CATAATCTCAATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGA-AATCTCAATACAACGCCAATG
*
47015950 TCCCAGACATGGTCTTACATGTAATC
1 TCCCAGACATGGTCTTACATGAAATC
47015976 ACATCTCGGT
Statistics
Matches: 87, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.01
43 83 0.95
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCTCAATACAACGCCAATG
Found at i:47020272 original size:27 final size:27
Alignment explanation
Indices: 47020242--47020301 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
47020232 TTATATTAAT
*
47020242 ATAATTTTAATGTGTCTAGTTTAGGAC
1 ATAATTTTAATGTGTCTAGTGTAGGAC
47020269 ATAATTTTAATGTGTCTAGTGTAGGAC
1 ATAATTTTAATGTGTCTAGTGTAGGAC
47020296 A-AATTT
1 ATAATTT
47020302 ATTAGCTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
ATAATTTTAATGTGTCTAGTGTAGGAC
Found at i:47022259 original size:40 final size:40
Alignment explanation
Indices: 47022132--47022261 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
47022122 ATGCTGGAAA
* *
47022132 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
47022172 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
* *
47022212 TTCTATCCGGGCTAAGACTCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
47022252 TTATATCCGG
1 TTATATCCGG
47022262 TTGTATTCCA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:47024742 original size:21 final size:21
Alignment explanation
Indices: 47024696--47024741 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
47024686 ATTGAAGTGT
* *
47024696 AAAAATTAGGAAATAGTTAAA
1 AAAAATTACGAAATAATTAAA
47024717 AAAAATTACGAAA-AATTAAA
1 AAAAATTACGAAATAATTAAA
47024737 AAAAA
1 AAAAA
47024742 AAGAAAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAAATTACGAAATAATTAAA
Found at i:47026513 original size:49 final size:47
Alignment explanation
Indices: 47026401--47026576 Score: 140
Period size: 49 Copynumber: 3.6 Consensus size: 47
47026391 TAATGCCAAT
* * * * *
47026401 GCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAACCAAGTCGAC
* * *
47026448 GCCATGTCCTAGACATGGTCTTACACTGACT-ATCGAAACCGAGGTTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC--AACC-AAGTCGAC
* * * ** *
47026497 GCCATGTCCCAGACATGGTCTTACATTAGCTCTCA-CATATTCGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-G-ACTCATCA-A-CCAAGTCGAC
*
47026547 GCTATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
47026577 ACCTCTATAC
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
46 3 0.03
47 28 0.27
48 3 0.03
49 32 0.31
50 31 0.30
51 4 0.04
52 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAACCAAGTCGAC
Found at i:47026569 original size:99 final size:96
Alignment explanation
Indices: 47026401--47026576 Score: 246
Period size: 99 Copynumber: 1.8 Consensus size: 96
47026391 TAATGCCAAT
* *
47026401 GCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCTAGACATGG
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
47026466 TCTTACACTGACTATCGAAACCGAGGTTGAC
66 TCTTACACTGACTATCGAAACCGAGGTTGAC
* * ** *
47026497 GCCATGTCCCAGACATGGTCTTACATTAGCTC-TCACATATTCGTGTCGATGCTATGTCCCAGAC
1 GCCATGTCCCAAACATGGTCTTACACTAGCTCATC-C--A-TCAAGTCGATGCCATGTCCCAGAC
47026561 ATGGTCTTACACTGAC
62 ATGGTCTTACACTGAC
47026577 ACCTCTATAC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.03
96 30 0.43
98 1 0.01
99 36 0.52
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (96 bp):
GCCATGTCCCAAACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACTATCGAAACCGAGGTTGAC
Found at i:47032926 original size:27 final size:27
Alignment explanation
Indices: 47032896--47032982 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
47032886 TTATATTAAT
*
47032896 ATAATTTTAATGTGTCTAGTTTAGAAC
1 ATAATTTTAATGTGTCTAGTTTAGGAC
47032923 ATAATTTTAATGTGTCTAGTTTAGGAC
1 ATAATTTTAATGTGTCTAGTTTAGGAC
*
47032950 ATAATTTTAATGTGTCTAGTGTAGGAC
1 ATAATTTTAATGTGTCTAGTTTAGGAC
47032977 A-AATTT
1 ATAATTT
47032983 ATTAGCTGCT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
26 5 0.09
27 53 0.91
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (27 bp):
ATAATTTTAATGTGTCTAGTTTAGGAC
Found at i:47036130 original size:27 final size:27
Alignment explanation
Indices: 47036100--47036161 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
47036090 CCATTGCAAG
*
47036100 ATTCACCACAGAGGCTATCCCTTTATA
1 ATTCACCACAAAGGCTATCCCTTTATA
* * * *
47036127 ATTCGCCACAAAGGCTTTTCTTTTATA
1 ATTCACCACAAAGGCTATCCCTTTATA
*
47036154 TTTCACCA
1 ATTCACCA
47036162 TAAAAGTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.35
Consensus pattern (27 bp):
ATTCACCACAAAGGCTATCCCTTTATA
Found at i:47045547 original size:2 final size:2
Alignment explanation
Indices: 47045531--47045569 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
47045521 TTAATGGATA
* *
47045531 AT AT AT GT AT GT 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 AT AT AT AT A
47045570 GACATGAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47060084 original size:6 final size:6
Alignment explanation
Indices: 47060071--47060128 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
47060061 TTTTCTCGAC
* * *
47060071 TTTC-T TTTCTT TTTCTT TTTCATT CTT-TT TTTCTT GTTCTT TTTCTC
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT
*
47060118 TTGCTT TTTCT
1 TTTCTT TTTCT
47060129 AGAGACTCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
5 8 0.19
6 30 0.71
7 4 0.10
ACGTcount: A:0.02, C:0.19, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:47060125 original size:24 final size:23
Alignment explanation
Indices: 47060070--47060128 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 23
47060060 CTTTTCTCGA
*
47060070 CTTTCTTTTCTTTTTCTTTTTCATT
1 CTTT-TTTTCTTGTTCTTTTTCA-T
47060095 CTTTTTTTCTTGTTCTTTTTC-T
1 CTTTTTTTCTTGTTCTTTTTCAT
47060117 CTTGCTTTTTCT
1 CTT--TTTTTCT
47060129 AGAGACTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 4 0.13
24 23 0.74
25 4 0.13
ACGTcount: A:0.02, C:0.20, G:0.03, T:0.75
Consensus pattern (23 bp):
CTTTTTTTCTTGTTCTTTTTCAT
Found at i:47063616 original size:79 final size:80
Alignment explanation
Indices: 47063456--47063678 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 80
47063446 TCGAATGATG
* * * *
47063456 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
47063520 TGTGCGAGTTACTAAA
65 GGTGCGAGTTACTAAA
*
47063536 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
47063598 TGGTGCGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
* * * * *
47063615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
47063679 TGAACGAGTA
Statistics
Matches: 126, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.55
80 48 0.38
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:47063679 original size:119 final size:120
Alignment explanation
Indices: 47063456--47063680 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
47063446 TCGAATGATG
* *
47063456 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
47063521 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
* * **
47063576 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
47063638 TTGTGCGAGTTATTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
47063681 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
118 2 0.02
119 71 0.77
120 19 0.21
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:47063687 original size:40 final size:40
Alignment explanation
Indices: 47063456--47063680 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
47063446 TCGAATGATG
* * *
47063456 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
47063496 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47063536 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47063576 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
47063615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47063656 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47063681 AACGAGTAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47063702 original size:79 final size:79
Alignment explanation
Indices: 47063463--47063713 Score: 280
Period size: 79 Copynumber: 3.2 Consensus size: 79
47063453 ATGTCCGGGC
* * *
47063463 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
47063526 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
*
47063543 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
47063605 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * * **
47063622 TAAGTCCCGAAGGCATTTGTGCGAGTTATTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
47063687 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
47063701 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
47063714 TACGTGATTC
Statistics
Matches: 148, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
78 1 0.01
79 83 0.56
80 56 0.38
81 8 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Done.