Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 83 of 132
Found at i:24545245 original size:21 final size:22
Alignment explanation
Indices: 24545216--24545258 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
24545206 TATTGATTAT
*
24545216 AAATAGGTTTAA-TAAAGGTTAA
1 AAATAGG-TTAATTAAAGCTTAA
24545238 AAAT-GGTTAATTAAAGCTTAA
1 AAATAGGTTAATTAAAGCTTAA
24545259 TGATGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (22 bp):
AAATAGGTTAATTAAAGCTTAA
Found at i:24553147 original size:12 final size:12
Alignment explanation
Indices: 24553130--24553154 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24553120 ATTAAAGAAT
24553130 TAATAGAATTCA
1 TAATAGAATTCA
24553142 TAATAGAATTCA
1 TAATAGAATTCA
24553154 T
1 T
24553155 CATGATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAGAATTCA
Found at i:24569879 original size:12 final size:12
Alignment explanation
Indices: 24569862--24569889 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24569852 AGAATAGGGA
24569862 AATAGGAAAATC
1 AATAGGAAAATC
24569874 AATAGGAAAATC
1 AATAGGAAAATC
24569886 AATA
1 AATA
24569890 TAATGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.07, G:0.14, T:0.18
Consensus pattern (12 bp):
AATAGGAAAATC
Found at i:24574491 original size:15 final size:15
Alignment explanation
Indices: 24574459--24574506 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
24574449 GGATCTCCCA
24574459 ATCTTCATAG-TATCC
1 ATCTTCATAGATAT-C
24574474 ATCTTCATAGATATC
1 ATCTTCATAGATATC
* * *
24574489 ATCATCAGAGATGTC
1 ATCTTCATAGATATC
24574504 ATC
1 ATC
24574507 AGTGTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 26 0.90
16 3 0.10
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.35
Consensus pattern (15 bp):
ATCTTCATAGATATC
Found at i:24589040 original size:13 final size:13
Alignment explanation
Indices: 24589022--24589046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24589012 AGAGAAGCAT
24589022 CAAAGAAGAAGGA
1 CAAAGAAGAAGGA
24589035 CAAAGAAGAAGG
1 CAAAGAAGAAGG
24589047 GAAGAAGAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.32, T:0.00
Consensus pattern (13 bp):
CAAAGAAGAAGGA
Found at i:24599008 original size:24 final size:24
Alignment explanation
Indices: 24598975--24599021 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24598965 ATTCATCTAT
*
24598975 TATTAATTTGCTCTGACA-TTTTA
1 TATTAATTTGCACTGACAGTTTTA
24598998 TATTACATTTGCACTGACAGTTTT
1 TATTA-ATTTGCACTGACAGTTTT
24599022 TACTCTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.49
Consensus pattern (24 bp):
TATTAATTTGCACTGACAGTTTTA
Found at i:24600860 original size:20 final size:21
Alignment explanation
Indices: 24600835--24600874 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24600825 ATCATTTTTA
*
24600835 GCATTTT-TAACTTAGTGATT
1 GCATTTTCTAACTCAGTGATT
24600855 GCATTTTCTAACTCAGTGAT
1 GCATTTTCTAACTCAGTGAT
24600875 GCTCGATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGATT
Found at i:24609938 original size:3 final size:3
Alignment explanation
Indices: 24609930--24609955 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24609920 AAAGAAACGC
24609930 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
24609956 AACCCATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24611056 original size:20 final size:21
Alignment explanation
Indices: 24611031--24611069 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24611021 TGCATTTTTA
*
24611031 GCATTTT-TAACTTAGTGACT
1 GCATTTTCTAACTCAGTGACT
24611051 GCATTTTCTAACTCAGTGA
1 GCATTTTCTAACTCAGTGA
24611070 TGCTAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGACT
Found at i:24613462 original size:10 final size:8
Alignment explanation
Indices: 24613440--24613480 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
24613430 GAAAAGGGAT
*
24613440 TGAGAGGA
1 TGAGAGAA
24613448 TGAGAGAA
1 TGAGAGAA
24613456 TGAGAGAA
1 TGAGAGAA
24613464 TGAGAGAA
1 TGAGAGAA
24613472 TGA-AGAA
1 TGAGAGAA
24613479 TG
1 TG
24613481 TTGAGTGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.46, C:0.00, G:0.39, T:0.15
Consensus pattern (8 bp):
TGAGAGAA
Found at i:24615708 original size:23 final size:23
Alignment explanation
Indices: 24615619--24615709 Score: 92
Period size: 23 Copynumber: 4.0 Consensus size: 23
24615609 TGGAATTTTG
* * *
24615619 TGATGCCTTTGTGGTGCATTATG
1 TGATGCCTTTGTGGCGCATTCTA
*
24615642 TGATGCCTTTTTGGCGCATTCTA
1 TGATGCCTTTGTGGCGCATTCTA
* ** **
24615665 TGATTCCTTAATGGAACATTCTA
1 TGATGCCTTTGTGGCGCATTCTA
*
24615688 TGATGCCTTTGTGGCGTATTCT
1 TGATGCCTTTGTGGCGCATTCT
24615710 GATATCTACC
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (23 bp):
TGATGCCTTTGTGGCGCATTCTA
Found at i:24618245 original size:25 final size:25
Alignment explanation
Indices: 24618217--24618354 Score: 210
Period size: 25 Copynumber: 5.6 Consensus size: 25
24618207 TTACACTTTA
*
24618217 ATCACATTAACACATACAAGCATAT
1 ATCACATTAACACATATAAGCATAT
*
24618242 ATCACATTAACACCTATAAGCATAT
1 ATCACATTAACACATATAAGCATAT
*
24618267 ATCACATT-A-ACATATAAGCGTAT
1 ATCACATTAACACATATAAGCATAT
24618290 ATCACATTAACACATATAAGCATAT
1 ATCACATTAACACATATAAGCATAT
* *
24618315 ATCACATTAACACATAT-GGTATAT
1 ATCACATTAACACATATAAGCATAT
24618339 ATCACATTAACACATA
1 ATCACATTAACACATA
24618355 CGTACTTACC
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 20 0.19
24 23 0.22
25 61 0.59
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (25 bp):
ATCACATTAACACATATAAGCATAT
Found at i:24618293 original size:48 final size:48
Alignment explanation
Indices: 24618217--24618354 Score: 188
Period size: 48 Copynumber: 2.8 Consensus size: 48
24618207 TTACACTTTA
* * *
24618217 ATCACATTAACACATACAAGCATATATCACATTAACACCTATAAGCATAT
1 ATCACATT-A-ACATATAAGCGTATATCACATTAACACATATAAGCATAT
24618267 ATCACATTAACATATAAGCGTATATCACATTAACACATATAAGCATAT
1 ATCACATTAACATATAAGCGTATATCACATTAACACATATAAGCATAT
* *
24618315 ATCACATTAACACATATG-GTATATATCACATTAACACATA
1 ATCACATTAACATATAAGCG--TATATCACATTAACACATA
24618355 CGTACTTACC
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
47 1 0.01
48 52 0.64
49 20 0.25
50 8 0.10
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (48 bp):
ATCACATTAACATATAAGCGTATATCACATTAACACATATAAGCATAT
Found at i:24624675 original size:20 final size:20
Alignment explanation
Indices: 24624596--24624687 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 20
24624586 AGCTTAGAGC
*
24624596 TATTTTGACTTGTTTGAAAAA
1 TATTTTGACTTGTTT-AAAAT
*
24624617 TATTTTGA--AGTATTAAAAT
1 TATTTTGACTTGT-TTAAAAT
* *
24624636 GATTTTGACTTAG-TTCAAAT
1 TATTTTGACTT-GTTTAAAAT
24624656 TATTTTGACTTGTTTAAAAT
1 TATTTTGACTTGTTTAAAAT
* *
24624676 AATTTTAACTTG
1 TATTTTGACTTG
24624688 ATTTTAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
19 14 0.25
20 34 0.60
21 8 0.14
22 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (20 bp):
TATTTTGACTTGTTTAAAAT
Found at i:24626464 original size:25 final size:25
Alignment explanation
Indices: 24626386--24626467 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
24626376 TCTTTAATCG
*
24626386 CATTAACACATACAAGCATATATCA
1 CATTAACACATATAAGCATATATCA
* * ** *
24626411 CATAAATAGTTATAAGCATGTATCA
1 CATTAACACATATAAGCATATATCA
24626436 CATTAACACATATAAGCATATATCA
1 CATTAACACATATAAGCATATATCA
24626461 CATTAAC
1 CATTAAC
24626468 TGTAACACTA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (25 bp):
CATTAACACATATAAGCATATATCA
Found at i:24627342 original size:22 final size:22
Alignment explanation
Indices: 24627314--24627362 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24627304 AAGTCAAACT
*
24627314 GTTGATCGGTCGTTGACCGACC
1 GTTGATCGATCGTTGACCGACC
*
24627336 GTTGATCGATCGTTGATCGACC
1 GTTGATCGATCGTTGACCGACC
*
24627358 ATTGA
1 GTTGA
24627363 CTTTGACCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (22 bp):
GTTGATCGATCGTTGACCGACC
Found at i:24628761 original size:25 final size:25
Alignment explanation
Indices: 24628732--24628845 Score: 167
Period size: 25 Copynumber: 4.6 Consensus size: 25
24628722 ATAGGGGGTT
* * *
24628732 ACATTAACACGTATAAACATACATC
1 ACATTAACACATATAAGCATATATC
*
24628757 ACATTAATACATATAAGCATATATC
1 ACATTAACACATATAAGCATATATC
*
24628782 ACATTAACACCTATAAGCATATAT-
1 ACATTAACACATATAAGCATATATC
24628806 ATCATTAACACATATAAGCATATATC
1 A-CATTAACACATATAAGCATATATC
24628832 ACATTAACACATAT
1 ACATTAACACATAT
24628846 GTACTTACCG
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
24 1 0.01
25 78 0.98
26 1 0.01
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (25 bp):
ACATTAACACATATAAGCATATATC
Found at i:24628842 original size:8 final size:9
Alignment explanation
Indices: 24628732--24628845 Score: 50
Period size: 8 Copynumber: 13.7 Consensus size: 9
24628722 ATAGGGGGTT
24628732 ACAT-TAAC
1 ACATATAAC
*
24628740 ACGTATAA-
1 ACATATAAC
* *
24628748 ACATACATC
1 ACATATAAC
*
24628757 ACAT-TAAT
1 ACATATAAC
24628765 ACATATAA-
1 ACATATAAC
* *
24628773 GCATATATC
1 ACATATAAC
24628782 ACAT-TAAC
1 ACATATAAC
*
24628790 ACCTATAA-
1 ACATATAAC
*
24628798 GCATATATA-
1 ACATATA-AC
*
24628807 TCAT-TAAC
1 ACATATAAC
24628815 ACATATAA-
1 ACATATAAC
* *
24628823 GCATATATC
1 ACATATAAC
24628832 ACAT-TAAC
1 ACATATAAC
24628840 ACATAT
1 ACATAT
24628846 GTACTTACCG
Statistics
Matches: 76, Mismatches: 20, Indels: 19
0.66 0.17 0.17
Matches are distributed among these distances:
7 1 0.01
8 48 0.63
9 27 0.36
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (9 bp):
ACATATAAC
Found at i:24639858 original size:403 final size:403
Alignment explanation
Indices: 24639109--24639918 Score: 1291
Period size: 403 Copynumber: 2.0 Consensus size: 403
24639099 TAGGGTTGCC
** *
24639109 AAGATGAGAAAATAAAGAGTTATGGTCACATCTGAATAATTAAACAAAGAATTGAATGAAAACAC
1 AAGATGAGAAAATAAAGAGTTATGGTCACATCAAAATAATTAAACAAAGAATCGAATGAAAACAC
* *
24639174 AAGATAATAAGTAGAAGGTTAGGCTAACAAGTAATGATGAAGATCCAAGCAATTGAGAGTGTTTT
66 AAGATAATAAGCAGAAGGTTAGGCTAACAAGTAATGATGAAGATCCAAGCAATTGAGAGTGCTTT
* ** * * * *
24639239 GGATCAATCTTAAAGGGAAAAGAAGTTGTTGAATTTAGATATAAACATAAGAAATAAAACAAATT
131 GGATCAATCTTAAAGGGAAAAGAAGCTACTGAATTCAGATATAAACATAAAAAACAAAAAAAATT
* *
24639304 AGTTTTTGATTAATTAAATGAAAAATAAATCAAAGAACAAAGAAAGAAAGGGACAGCTAAGGAGT
196 AGTTTTTGATTAATTAAATGAAAAAGAAATCAAAGAACAAAGAAAGAAAGGGACAGCTAAAGAGT
* * *
24639369 TTAAGAATGAGTAGAATAGGGTTTCTTGAAAGAGAAGAACTCATTCTTGTACCCTAAAGAAGCCT
261 CTAAGAATGAGTAGAAAAGGGTTTCTTGAAAGAGAAGAAATCATTCTTGTACCCTAAAGAAGCCT
*
24639434 CTAATCAAATTTGAAACAAAATAACAAAAATAATTTATTAGAATGAAAAATTAGACTAAAGCAAA
326 CTAATCAAATTTGAAACAAAATAACAAAAATAATTTATTAGAATGAAAAATTAGACTAAA-AAAA
*
24639499 TTGTTTTGTGACAA
390 TTGTTTTGTGAAAA
*
24639513 AAGATGAGAAAATAAAGAGTTATTGTCA-AGTCAAAATAATTAAACAAAGAATCGAATGAAAACA
1 AAGATGAGAAAATAAAGAGTTATGGTCACA-TCAAAATAATTAAACAAAGAATCGAATGAAAACA
* * *
24639577 CAAGATAATAAGCAGAAGGTTAGGCTAATAAGT-ATGATGAATATCTAAGCAATTGAGAGTGCTT
65 CAAGATAATAAGCAGAAGGTTAGGCTAACAAGTAATGATGAAGATCCAAGCAATTGAGAGTGCTT
24639641 TGGATCAATCTTAAAGGGAAAAGAAGCTACTGAATTCAGATATAAACATAAAAAACAAAAAAAAT
130 TGGATCAATCTTAAAGGGAAAAGAAGCTACTGAATTCAGATATAAACATAAAAAACAAAAAAAAT
* * * * *
24639706 TAGTTTTTGTTTAATTAAATGTAAAAGACATCAAAGAACAAAGAAAGAAAGGGGCGGCTAAAGAG
195 TAGTTTTTGATTAATTAAATGAAAAAGAAATCAAAGAACAAAGAAAGAAAGGGACAGCTAAAGAG
* * * *
24639771 TCTAAGAATGAGTAGAAAAGGGTTTCTTGGAAGAGAAGAAATCGTTCTTGTATCCTAATGAAGCC
260 TCTAAGAATGAGTAGAAAAGGGTTTCTTGAAAGAGAAGAAATCATTCTTGTACCCTAAAGAAGCC
*
24639836 TCTAATCAAATTTGATACAAAATAACAAAAATAATTTATTAGAATGAAAAATTAGACTAAAAAAA
325 TCTAATCAAATTTGAAACAAAATAACAAAAATAATTTATTAGAATGAAAAATTAGACTAAAAAAA
24639901 TTGTTTTGTGAAAA
390 TTGTTTTGTGAAAA
24639915 AAGA
1 AAGA
24639919 ATTCAGATAA
Statistics
Matches: 372, Mismatches: 33, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
402 20 0.05
403 263 0.71
404 89 0.24
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (403 bp):
AAGATGAGAAAATAAAGAGTTATGGTCACATCAAAATAATTAAACAAAGAATCGAATGAAAACAC
AAGATAATAAGCAGAAGGTTAGGCTAACAAGTAATGATGAAGATCCAAGCAATTGAGAGTGCTTT
GGATCAATCTTAAAGGGAAAAGAAGCTACTGAATTCAGATATAAACATAAAAAACAAAAAAAATT
AGTTTTTGATTAATTAAATGAAAAAGAAATCAAAGAACAAAGAAAGAAAGGGACAGCTAAAGAGT
CTAAGAATGAGTAGAAAAGGGTTTCTTGAAAGAGAAGAAATCATTCTTGTACCCTAAAGAAGCCT
CTAATCAAATTTGAAACAAAATAACAAAAATAATTTATTAGAATGAAAAATTAGACTAAAAAAAT
TGTTTTGTGAAAA
Found at i:24641324 original size:169 final size:169
Alignment explanation
Indices: 24641045--24641385 Score: 682
Period size: 169 Copynumber: 2.0 Consensus size: 169
24641035 TTCCATTGCC
24641045 CACTTGTTGGGCCTTGATGCTTGCATCATCCCCCTTATTCAAAAATATTCGTCCTTGAATCTGAA
1 CACTTGTTGGGCCTTGATGCTTGCATCATCCCCCTTATTCAAAAATATTCGTCCTTGAATCTGAA
24641110 ACATCAAAGGGAGATAGATCATTTGCATTTTTTATTTGAATATACTGGTGTGATTACATGGTAGT
66 ACATCAAAGGGAGATAGATCATTTGCATTTTTTATTTGAATATACTGGTGTGATTACATGGTAGT
24641175 ATCTGTTCATACTTTCTTAACCCTTTGACAACGTACACA
131 ATCTGTTCATACTTTCTTAACCCTTTGACAACGTACACA
24641214 CACTTGTTGGGCCTTGATGCTTGCATCATCCCCCTTATTCAAAAATATTCGTCCTTGAATCTGAA
1 CACTTGTTGGGCCTTGATGCTTGCATCATCCCCCTTATTCAAAAATATTCGTCCTTGAATCTGAA
24641279 ACATCAAAGGGAGATAGATCATTTGCATTTTTTATTTGAATATACTGGTGTGATTACATGGTAGT
66 ACATCAAAGGGAGATAGATCATTTGCATTTTTTATTTGAATATACTGGTGTGATTACATGGTAGT
24641344 ATCTGTTCATACTTTCTTAACCCTTTGACAACGTACACA
131 ATCTGTTCATACTTTCTTAACCCTTTGACAACGTACACA
24641383 CAC
1 CAC
24641386 CTTGCACACA
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 172 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (169 bp):
CACTTGTTGGGCCTTGATGCTTGCATCATCCCCCTTATTCAAAAATATTCGTCCTTGAATCTGAA
ACATCAAAGGGAGATAGATCATTTGCATTTTTTATTTGAATATACTGGTGTGATTACATGGTAGT
ATCTGTTCATACTTTCTTAACCCTTTGACAACGTACACA
Found at i:24647927 original size:6 final size:6
Alignment explanation
Indices: 24647916--24647940 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24647906 TAGTAGTACA
24647916 ACCTCG ACCTCG ACCTCG ACCTCG A
1 ACCTCG ACCTCG ACCTCG ACCTCG A
24647941 TCGTGACCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.48, G:0.16, T:0.16
Consensus pattern (6 bp):
ACCTCG
Found at i:24650860 original size:253 final size:253
Alignment explanation
Indices: 24650412--24650918 Score: 987
Period size: 253 Copynumber: 2.0 Consensus size: 253
24650402 GCTTTCGCCG
24650412 TCAACTTTGTCGCTGCACTTGATCTATTAGTGTGACTCTCTTAATTCTCCTCTTTTTAGAGTATG
1 TCAACTTTGTCGCTGCACTTGATCTATTAGTGTGACTCTCTTAATTCTCCTCTTTTTAGAGTATG
24650477 CACACTATCACTATAGCCTTTGCTTATTTGATTGATTAATAATTTCTTCATTCACATGCTCCTCT
66 CACACTATCACTATAGCCTTTGCTTATTTGATTGATTAATAATTTCTTCATTCACATGCTCCTCT
24650542 ATTTATAAGAGCTTTGCCACACCTTTTTCATGTCAGATCCGGATTTCAAGGGATCCTTCTAGTGC
131 ATTTATAAGAGCTTTGCCACACCTTTTTCATGTCAGATCCGGATTTCAAGGGATCCTTCTAGTGC
24650607 TTCTCTTAGATCTACAAATCTGGTTTTGTTGTAGAAAAATCTAATATTGCAAGAGCAT
196 TTCTCTTAGATCTACAAATCTGGTTTTGTTGTAGAAAAATCTAATATTGCAAGAGCAT
*
24650665 TCAACTTTGTCGCTGCACTTGATCTGTTAGTGTGACTCTCTTAATTCTCCTCTTTTTAGAGTATG
1 TCAACTTTGTCGCTGCACTTGATCTATTAGTGTGACTCTCTTAATTCTCCTCTTTTTAGAGTATG
*
24650730 CACACTATCACTATAGCCTTTGCTTATTTTATTGATTAATAATTTCTTCATTCACATGCTCCTCT
66 CACACTATCACTATAGCCTTTGCTTATTTGATTGATTAATAATTTCTTCATTCACATGCTCCTCT
*
24650795 ATTTATAAGAGCTTTGCCACACCTTTTTCATGTCAGATTCGGATTTCAAGGGATCCTTCTAGTGC
131 ATTTATAAGAGCTTTGCCACACCTTTTTCATGTCAGATCCGGATTTCAAGGGATCCTTCTAGTGC
24650860 TTCTCTTAGATCTACAAATCTGGTTTTGTTGTAGAAAAATCTAATATTGCAAGAGCAT
196 TTCTCTTAGATCTACAAATCTGGTTTTGTTGTAGAAAAATCTAATATTGCAAGAGCAT
24650918 T
1 T
24650919 TTGTAGCAAC
Statistics
Matches: 251, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
253 251 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (253 bp):
TCAACTTTGTCGCTGCACTTGATCTATTAGTGTGACTCTCTTAATTCTCCTCTTTTTAGAGTATG
CACACTATCACTATAGCCTTTGCTTATTTGATTGATTAATAATTTCTTCATTCACATGCTCCTCT
ATTTATAAGAGCTTTGCCACACCTTTTTCATGTCAGATCCGGATTTCAAGGGATCCTTCTAGTGC
TTCTCTTAGATCTACAAATCTGGTTTTGTTGTAGAAAAATCTAATATTGCAAGAGCAT
Found at i:24658910 original size:37 final size:39
Alignment explanation
Indices: 24658850--24658957 Score: 143
Period size: 37 Copynumber: 2.9 Consensus size: 39
24658840 TTGATTCACA
* * *
24658850 GGCACAAAGCCTACTAGGTACAAAGTCCGAATATGC-T-
1 GGCACGAAGCCTACTAGGCACAAAGTCCGAATATACATC
*
24658887 GGCATGAAGCCTACTAGGCACAAAGTCC-AA-ATACATC
1 GGCACGAAGCCTACTAGGCACAAAGTCCGAATATACATC
*
24658924 GGCACGAAGCCTACTAGGCACAAAGCCCGAATAT
1 GGCACGAAGCCTACTAGGCACAAAGTCCGAATAT
24658958 TTAGATGTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
35 3 0.05
36 3 0.05
37 51 0.84
38 2 0.03
39 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.21, T:0.16
Consensus pattern (39 bp):
GGCACGAAGCCTACTAGGCACAAAGTCCGAATATACATC
Found at i:24658949 original size:16 final size:16
Alignment explanation
Indices: 24658893--24658950 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
24658883 TGCTGGCATG
24658893 AAGCCTACTAGGCACA
1 AAGCCTACTAGGCACA
* *
24658909 AAGTCCAAATACATCGGCACG
1 AAG-CC---TAC-TAGGCACA
24658930 AAGCCTACTAGGCACA
1 AAGCCTACTAGGCACA
24658946 AAGCC
1 AAGCC
24658951 CGAATATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 14 0.42
17 5 0.15
20 5 0.15
21 9 0.27
ACGTcount: A:0.38, C:0.31, G:0.19, T:0.12
Consensus pattern (16 bp):
AAGCCTACTAGGCACA
Found at i:24660694 original size:2 final size:2
Alignment explanation
Indices: 24660687--24660715 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24660677 TTTAGTTCAC
24660687 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 T
24660716 CTTCTTCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24668186 original size:23 final size:23
Alignment explanation
Indices: 24668160--24668204 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24668150 CACACGAACA
*
24668160 TCACATGA-TACACCACATAGGCT
1 TCAC-TGATTACACCACAAAGGCT
*
24668183 TCACTGATTACGCCACAAAGGC
1 TCACTGATTACACCACAAAGGC
24668205 CTTACAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (23 bp):
TCACTGATTACACCACAAAGGCT
Found at i:24677410 original size:17 final size:16
Alignment explanation
Indices: 24677367--24677399 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
24677357 TTAGCTATCA
24677367 TATTAATTAAATTAAT
1 TATTAATTAAATTAAT
24677383 TATTAAATTAAATTAAT
1 TATT-AATTAAATTAAT
24677400 CTGATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTAATTAAATTAAT
Found at i:24701430 original size:19 final size:18
Alignment explanation
Indices: 24701399--24701434 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
24701389 TTTATAAATA
24701399 TAAAATTTGAAATTTTAT
1 TAAAATTTGAAATTTTAT
*
24701417 TAAATATTTTAAATTTTA
1 TAAA-ATTTGAAATTTTA
24701435 AAAAAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TAAAATTTGAAATTTTAT
Found at i:24701557 original size:53 final size:53
Alignment explanation
Indices: 24701455--24701558 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
24701445 ACCTCCGTCA
* * ** *
24701455 GACACAATCGGCACGTTGGTGCCCTGGATGTGTTGGATCATCGGACACAATTG
1 GACACAATCAGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACACAATTG
*
24701508 GACACCATCAGCACCTTGGTG-CCTAGGATGTGCGGGAGCATCTGG-CACAAT
1 GACACAATCAGCACCTTGGTGCCCT-GGATGTGCGGGAGCATC-GGACACAAT
24701559 CGGAAGCTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.07
53 38 0.88
54 2 0.05
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (53 bp):
GACACAATCAGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACACAATTG
Found at i:24701669 original size:86 final size:86
Alignment explanation
Indices: 24701513--24702885 Score: 1159
Period size: 86 Copynumber: 16.1 Consensus size: 86
24701503 AATTGGACAC
* * * * * *
24701513 CATCAGCACCTTGGTGCCTAGGATGTGCGGGAGCATCTGG-CACAATCGG-AAGCTAAGGTCAAT
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATC-GGACACCATCGGTAA-CTTAGGCCGAT
*
24701576 GGAGGTGCGGGACCATCGGGAAG
64 GGTGGTGCGGGACCATCGGGAAG
* * *** * *
24701599 TATCGGTACCTTGGTGCCTTCCATATGCGGGAGCATCAGG-CACCATCGGTAACTTAGGCCGATG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATC-GGACACCATCGGTAACTTAGGCCGATG
*
24701663 GTGGTGCGGGACCATCGAGAAG
65 GTGGTGCGGGACCATCGGGAAG
* *
24701685 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGTATCGGACACCATCGGTAACTTAGGCCGATAG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
* *
24701750 TGGTGTGGGACCATTGGGAAG
66 TGGTGCGGGACCATCGGGAAG
* *
24701771 CATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
* * *
24701836 TGGTGCGGGACAATCGAGAAC
66 TGGTGCGGGACCATCGGGAAG
* * * *
24701857 CATCGG-A---T-GTG-C-GGGA-GCAT-CGGGCACCATCGG-TA--AT---T-A---AGGCCGA
1 CATCGGCACCTTGGTGCCTAGGATG--TGCGAG-AGCATCGGACACCATCGGTAACTTAGGCCGA
*
24701903 TGGTGGTGTGGGACCATCGGGAAG
63 TGGTGGTGCGGGACCATCGGGAAG
* ** * *** * * * *
24701927 TATCAACACCATGGTGCCTTCTATGTGCG-GCAGCA-CTAGACACCATCGATAACTAAGGTCGAT
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAG-AGCATC-GGACACCATCGGTAACTTAGGCCGAT
* *
24701990 GGTGGTACGGGACCATCGAGAAG
64 GGTGGTGCGGGACCATCGGGAAG
* * *
24702013 CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAAGCCGATAG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
* *
24702078 TGGTACGAGACCATCGGGAAG
66 TGGTGCGGGACCATCGGGAAG
* * ** * *
24702099 CATCGGCACATTGGTGCCTCGGATGTGCGAGAGCATCGGGGACCATCGATAA-TTAAGGCTGATG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTT-AGGCCGATG
* **
24702163 GTGGTGTGGGACCATCGAAAAG
65 GTGGTGCGGGACCATCGGGAAG
* * * ** ** ** *
24702185 TATCGGTACCATGGTGCCTTCGATGTGC-AGAAGCATTAGACACCATCGACAACTAAGGCCGATG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAG-AGCATCGGACACCATCGGTAACTTAGGCCGATG
24702249 GTGGTGCGGGACCATCGGGAAG
65 GTGGTGCGGGACCATCGGGAAG
* * * * * *
24702271 TATCAGTACCTTGGTGGTGTCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGACCGA
1 CATCGGCACC-T--TGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGA
***
24702336 TGGTGGTGCAAAACCATCGGGAAAG
63 TGGTGGTGCGGGACCATCGGG-AAG
* * * * * *
24702361 CATCGGCACATTGGTGCCTCGGATGTGCGGGAGCATCGGGCACCATCGGTAACTAAGGCCGATGA
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
* * *
24702426 TGGTGTGGGACCATTGTGAAG
66 TGGTGCGGGACCATCGGGAAG
* * * ** * ** *
24702447 TATCGGTACCATGGTGCCTTTGATGTGC-AGGAGCATAGGACACCATCGAAAACTAAGGCCGATG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGA-GAGCATCGGACACCATCGGTAACTTAGGCCGATG
* * *
24702511 GTGTTACGGGACCATCGAGAAG
65 GTGGTGCGGGACCATCGGGAAG
* * * * * * *
24702533 TATCGACACCTTGGTGCCTTGGATGTTCGAGAGCATCGAACACCATCGGTAACTTAGGCTGATGA
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
* **
24702598 TGGCGCGGGACCATCGAAAAG
66 TGGTGCGGGACCATCGGGAAG
* * * * * * * * *
24702619 CATCGGTACCTTGGTGCCTCGAATGTGTGAGAGCATCGGGCACCATCGATAACTAAGGCTGATAG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
*
24702684 TGGTGCAGGACCATC-GGAAG
66 TGGTGCGGGACCATCGGGAAG
* * * * * *
24702704 CATCGGCACCTTGGTGCCTCGGATGTGTG-GTAGCATCGG-CGACCATCGGCAACTAAGGTCGAC
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAG-AGCATCGGAC-ACCATCGGTAACTTAGGCCGAT
* * *
24702767 GGTGGCGCGGGACTATCGGGATG
64 GGTGGTGCGGGACCATCGGGAAG
* * * ** * * * *
24702790 CATTGACACCATGGTGCCTTCGATGTGCGGGAGCATCGGACACCATCAGCAACTAAGGCCGATGG
1 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
24702855 TGGTGCGGGACCATCGGGAAG
66 TGGTGCGGGACCATCGGGAAG
* *
24702876 TATCGACACC
1 CATCGGCACC
24702886 AATTTACCCG
Statistics
Matches: 1039, Mismatches: 206, Indels: 84
0.78 0.16 0.06
Matches are distributed among these distances:
70 30 0.03
71 1 0.00
73 1 0.00
74 2 0.00
75 4 0.00
76 8 0.01
77 6 0.01
78 2 0.00
79 9 0.01
80 9 0.01
81 3 0.00
82 2 0.00
83 1 0.00
84 2 0.00
85 75 0.07
86 747 0.72
87 67 0.06
89 59 0.06
90 11 0.01
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (86 bp):
CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGG
TGGTGCGGGACCATCGGGAAG
Found at i:24701671 original size:43 final size:42
Alignment explanation
Indices: 24701624--24701862 Score: 146
Period size: 43 Copynumber: 5.5 Consensus size: 42
24701614 GCCTTCCATA
24701624 TGCGGGAGCATCAGGCACCATCGGTAACTTAGGCCGATGGTGG
1 TGCGGGAGCATC-GGCACCATCGGTAACTTAGGCCGATGGTGG
* * * * * * *
24701667 TGCGGGACCATCGAGAAGCATCGGCACCTTGGTGCCTA-GGAT-G
1 TGCGGGAGCATCG-GCACCATCGGTAACTTAG-GCCGATGG-TGG
* * *
24701710 TGCGAGAGTATCGGACACCATCGGTAACTTAGGCCGATAGTGG
1 TGCGGGAGCATCGG-CACCATCGGTAACTTAGGCCGATGGTGG
* * * * * ** * * *
24701753 TGTGGGACCATTGGGAAGCATCGACACCTTGGTGCC-TTGGAT-G
1 TGCGGGAGCA-TCGGCACCATCGGTAACTTAG-GCCGATGG-TGG
*
24701796 TGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATGGTGG
1 TGCGGGAGCATCGG-CACCATCGGTAACTTAGGCCGATGGTGG
*
24701839 TGCGGGA-CAATCGAGAACCATCGG
1 TGCGGGAGC-ATCG-GCACCATCGG
24701863 ATGTGCGGGA
Statistics
Matches: 139, Mismatches: 43, Indels: 28
0.66 0.20 0.13
Matches are distributed among these distances:
42 15 0.11
43 111 0.80
44 13 0.09
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.20
Consensus pattern (42 bp):
TGCGGGAGCATCGGCACCATCGGTAACTTAGGCCGATGGTGG
Found at i:24701807 original size:172 final size:172
Alignment explanation
Indices: 24701513--24702885 Score: 1328
Period size: 172 Copynumber: 8.1 Consensus size: 172
24701503 AATTGGACAC
* * * * * *
24701513 CATCAGCACCTTGGTGCCTAGGATGTGCGGGAGCATCTGG-CACAATCGG-AAGCTAAGGTCAAT
1 CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATC-GGACACCATCGGTAA-CTAAGGCCGAT
* * ** ** * *
24701576 GGAGGTGCGGGACCATCGGGAAGTATCGGTACCTTGGTGCCTTCCATATGCGGGAGCATCAGG-C
64 GGTGGTGCGGGACCATCGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATC-GGAC
* *
24701640 ACCATCGGTAACTTAGGCCGATGGTGGTGCGGGACCATCGAGAAG
128 ACCATCGATAACTAAGGCCGATGGTGGTGCGGGACCATCGAGAAG
* * * *
24701685 CATCGGCACCTTGGTGCCTAGGATGTGCGAGAGTATCGGACACCATCGGTAACTTAGGCCGATAG
1 CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTAAGGCCGATGG
* *
24701750 TGGTGTGGGACCATTGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACC
66 TGGTGCGGGACCATCGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACC
* * *
24701815 ATCGGTAACTTAGGCCGATGGTGGTGCGGGACAATCGAG-A-
131 ATCGATAACTAAGGCCGATGGTGGTGCGGGACCATCGAGAAG
* * *
24701855 -A-C--CA------T--C--GGATGTGCGGGAGCATCGGGCACCATCGGTAATTAAGGCCGATGG
1 CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTAAGGCCGATGG
* * * * ** *
24701906 TGGTGTGGGACCATCGGGAAGTATCAACACCATGGTGCCTTCTATGTGCG-GCAGCA-CTAGACA
66 TGGTGCGGGACCATCGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGAG-AGCATC-GGACA
* *
24701969 CCATCGATAACTAAGGTCGATGGTGGTACGGGACCATCGAGAAG
129 CCATCGATAACTAAGGCCGATGGTGGTGCGGGACCATCGAGAAG
*
24702013 CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAA-GCCGATA
1 CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAAC-TAAGGCCGATG
* * * * * **
24702077 GTGGTACGAGACCATCGGGAAGCATCGGCACATTGGTGCCTCGGATGTGCGAGAGCATCGGGGAC
65 GTGGTGCGGGACCATCGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACAC
* * * *
24702142 CATCGATAATTAAGGCTGATGGTGGTGTGGGACCATCGAAAAG
130 CATCGATAACTAAGGCCGATGGTGGTGCGGGACCATCGAGAAG
* * * * ** **
24702185 TATCGGTACCATGGTGCCTTCGATGTGC-AGAAGCATTAGACACCATCGACAACTAAGGCCGATG
1 CATCGGCACCTTGGTGCCTTGGATGTGCGAG-AGCATCGGACACCATCGGTAACTAAGGCCGATG
* * *
24702249 GTGGTGCGGGACCATCGGGAAGTATCAGTAC-CTTGGTGGTGTCTTGGATGTGCGAGAGCATCGG
65 GTGGTGCGGGACCATCGGGAAGCATC-G-ACACCT--TGGTGCCTTGGATGTGCGAGAGCATCGG
* * * *** *
24702313 ACACCATCGGTAACTTAGACCGATGGTGGTGCAAAACCATCGGGAAAG
126 ACACCATCGATAACTAAGGCCGATGGTGGTGCGGGACCATCGAG-AAG
* * * * *
24702361 CATCGGCACATTGGTGCCTCGGATGTGCGGGAGCATCGGGCACCATCGGTAACTAAGGCCGATGA
1 CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTAAGGCCGATGG
* * * * ** * * *
24702426 TGGTGTGGGACCATTGTGAAGTATCGGTACCATGGTGCCTTTGATGTGC-AGGAGCATAGGACAC
66 TGGTGCGGGACCATCGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGA-GAGCATCGGACAC
* * *
24702490 CATCGAAAACTAAGGCCGATGGTGTTACGGGACCATCGAGAAG
130 CATCGATAACTAAGGCCGATGGTGGTGCGGGACCATCGAGAAG
* * * * * * *
24702533 TATCGACACCTTGGTGCCTTGGATGTTCGAGAGCATCGAACACCATCGGTAACTTAGGCTGATGA
1 CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTAAGGCCGATGG
* ** ** * * * *
24702598 TGGCGCGGGACCATCGAAAAGCATCGGTACCTTGGTGCCTCGAATGTGTGAGAGCATCGGGCACC
66 TGGTGCGGGACCATCGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACC
* * *
24702663 ATCGATAACTAAGGCTGATAGTGGTGCAGGACCATCG-GAAG
131 ATCGATAACTAAGGCCGATGGTGGTGCGGGACCATCGAGAAG
* * * * *
24702704 CATCGGCACCTTGGTGCCTCGGATGTGTG-GTAGCATCGG-CGACCATCGGCAACTAAGGTCGAC
1 CATCGGCACCTTGGTGCCTTGGATGTGCGAG-AGCATCGGAC-ACCATCGGTAACTAAGGCCGAT
* * * * * * *
24702767 GGTGGCGCGGGACTATCGGGATGCATTGACACCATGGTGCCTTCGATGTGCGGGAGCATCGGACA
64 GGTGGTGCGGGACCATCGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACA
* *
24702832 CCATC-AGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAG
129 CCATCGA-TAACTAAGGCCGATGGTGGTGCGGGACCATCGAGAAG
* *
24702876 TATCGACACC
1 CATCGGCACC
24702886 AATTTACCCG
Statistics
Matches: 978, Mismatches: 184, Indels: 78
0.79 0.15 0.06
Matches are distributed among these distances:
155 2 0.00
156 127 0.13
157 1 0.00
158 1 0.00
159 1 0.00
160 2 0.00
162 2 0.00
166 2 0.00
168 2 0.00
169 1 0.00
170 4 0.00
171 145 0.15
172 484 0.49
173 68 0.07
174 1 0.00
175 59 0.06
176 75 0.08
177 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (172 bp):
CATCGGCACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTAAGGCCGATGG
TGGTGCGGGACCATCGGGAAGCATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACC
ATCGATAACTAAGGCCGATGGTGGTGCGGGACCATCGAGAAG
Found at i:24701875 original size:70 final size:70
Alignment explanation
Indices: 24701791--24701921 Score: 210
Period size: 70 Copynumber: 1.9 Consensus size: 70
24701781 TTGGTGCCTT
24701791 GGATGTGCGAGAGCATCGGACACCATCGGTAACTT-AGGCCGATGGTGGTGCGGGACAATCGAGA
1 GGATGTGCGAGAGCATCGGACACCATCGGTAA-TTAAGGCCGATGGTGGTGCGGGACAATCGAGA
24701855 ACCATC
65 ACCATC
* * * *
24701861 GGATGTGCGGGAGCATCGGGCACCATCGGTAATTAAGGCCGATGGTGGTGTGGGACCATCG
1 GGATGTGCGAGAGCATCGGACACCATCGGTAATTAAGGCCGATGGTGGTGCGGGACAATCG
24701922 GGAAGTATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
69 2 0.04
70 54 0.96
ACGTcount: A:0.23, C:0.21, G:0.37, T:0.18
Consensus pattern (70 bp):
GGATGTGCGAGAGCATCGGACACCATCGGTAATTAAGGCCGATGGTGGTGCGGGACAATCGAGAA
CCATC
Found at i:24701878 original size:27 final size:27
Alignment explanation
Indices: 24701838--24701889 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
24701828 GCCGATGGTG
24701838 GTGCGGGACAATCGAGAACCATCGGAT
1 GTGCGGGACAATCGAGAACCATCGGAT
* *
24701865 GTGCGGGAGC-ATCGGGCACCATCGG
1 GTGCGGGA-CAATCGAGAACCATCGG
24701890 TAATTAAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.23, C:0.25, G:0.38, T:0.13
Consensus pattern (27 bp):
GTGCGGGACAATCGAGAACCATCGGAT
Found at i:24701990 original size:156 final size:156
Alignment explanation
Indices: 24701705--24702167 Score: 459
Period size: 156 Copynumber: 2.9 Consensus size: 156
24701695 TTGGTGCCTA
* *
24701705 GGATGTGCGAGAGTATCGGACACCATCGGTAACTTAGGCCGATAGTGGTGTGGGACCATTGGGAA
1 GGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATAGTGGTGTGGGACCATCGGGAA
* * * * * *
24701770 GCATCGACACCTTGGTGCCTTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATG
66 GCATCAACACCATGGTGCCTTCGATGTGCGAGAGCATCAGACACCATCGATAACTAAGGCCGATG
*
24701835 GTGGTGCGGGACAATCGAGAACCATC
131 GTGGTACGGGACAATCGAGAACCATC
* * *
24701861 GGATGTGCGGGAGCATCGGGCACCATCGGTAA-TTAAGGCCGATGGTGGTGTGGGACCATCGGGA
1 GGATGTGCGAGAGCATCGGACACCATCGGTAACTT-AGGCCGATAGTGGTGTGGGACCATCGGGA
* * *
24701925 AGTATCAACACCATGGTGCCTTCTATGTGCG-GCAGCA-CTAGACACCATCGATAACTAAGGTCG
65 AGCATCAACACCATGGTGCCTTCGATGTGCGAG-AGCATC-AGACACCATCGATAACTAAGGCCG
*
24701988 ATGGTGGTACGGGACCATCGAGAAGCATCGGCACCTTGGTGCC
128 ATGGTGGTACGGGACAATCGAG-A--A-C--CA------T--C
* ** *
24702031 TTGGATGTGCGAGAGCATCGGACACCATCGGTAACTTAAGCCGATAGTGGTACGAGACCATCGGG
1 --GGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATAGTGGTGTGGGACCATCGGG
** * ** * *
24702096 AAGCATCGGCA-CATTGGTGCC-TCGGATGTGCGAGAGCATCGGGGACCATCGATAATTAAGGCT
64 AAGCATCAACACCA-TGGTGCCTTC-GATGTGCGAGAGCATCAGACACCATCGATAACTAAGGCC
24702159 GATGGTGGT
127 GATGGTGGT
24702168 GTGGGACCAT
Statistics
Matches: 250, Mismatches: 33, Indels: 32
0.79 0.10 0.10
Matches are distributed among these distances:
155 4 0.02
156 126 0.50
157 1 0.00
159 1 0.00
160 1 0.00
162 2 0.01
168 1 0.00
170 1 0.00
171 4 0.02
172 105 0.42
173 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (156 bp):
GGATGTGCGAGAGCATCGGACACCATCGGTAACTTAGGCCGATAGTGGTGTGGGACCATCGGGAA
GCATCAACACCATGGTGCCTTCGATGTGCGAGAGCATCAGACACCATCGATAACTAAGGCCGATG
GTGGTACGGGACAATCGAGAACCATC
Found at i:24704011 original size:14 final size:14
Alignment explanation
Indices: 24703992--24704018 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24703982 TCATATACCA
24703992 AGGGTTGCATCTAT
1 AGGGTTGCATCTAT
24704006 AGGGTTGCATCTA
1 AGGGTTGCATCTA
24704019 CAGCAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (14 bp):
AGGGTTGCATCTAT
Found at i:24720767 original size:33 final size:33
Alignment explanation
Indices: 24720730--24720792 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
24720720 AGCCTTGTGG
*
24720730 AACAAACCACCTTATAAACAAGAAACAAAGTAT
1 AACAAACCACCTTAAAAACAAGAAACAAAGTAT
* * *
24720763 AACAAGCCACCTTAAAAATAAGGAACAAAG
1 AACAAACCACCTTAAAAACAAGAAACAAAG
24720793 AGGAGGCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.57, C:0.21, G:0.10, T:0.13
Consensus pattern (33 bp):
AACAAACCACCTTAAAAACAAGAAACAAAGTAT
Found at i:24729621 original size:43 final size:43
Alignment explanation
Indices: 24729401--24729614 Score: 223
Period size: 43 Copynumber: 5.0 Consensus size: 43
24729391 TCTGGAACCT
** *
24729401 CATCATCAAATAAACCAAAGTAAATATACTGGCACATATAGTG
1 CATCATCGGATAAACCAAAGTAAATATACTGGCACACATAGTG
* * ** * * *
24729444 CATCATTGAATAAACCTTAGCAAATATACTGACACACATAGCG
1 CATCATCGGATAAACCAAAGTAAATATACTGGCACACATAGTG
* * *
24729487 CATCATCGGATAAACAAAAGTAAATATACTGGCTCACGTAGTG
1 CATCATCGGATAAACCAAAGTAAATATACTGGCACACATAGTG
* * * *
24729530 CATAATCGGATAAA-TAGAAGTAAATGTATTGGCACACATAGTG
1 CATCATCGGATAAACCA-AAGTAAATATACTGGCACACATAGTG
* ** *
24729573 CTTCATAAGATAAACCAAAGTAAATATACTGGCACATATAGT
1 CATCATCGGATAAACCAAAGTAAATATACTGGCACACATAGT
24729615 ATTTCATCGA
Statistics
Matches: 137, Mismatches: 32, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
42 1 0.01
43 135 0.99
44 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (43 bp):
CATCATCGGATAAACCAAAGTAAATATACTGGCACACATAGTG
Found at i:24729636 original size:86 final size:86
Alignment explanation
Indices: 24729401--24729637 Score: 251
Period size: 86 Copynumber: 2.8 Consensus size: 86
24729391 TCTGGAACCT
* * ** *
24729401 CATCATCAA-ATAAACCAAAGTAAATATACTGGCACATATAGTGCATCATTGAATAAACCTTAGC
1 CATCAT-AAGATAAACCAAAGTAAATATACTGGCACATATAGTGCATCATCGAATAAATCGAAGT
24729465 AAATATACTGACACACATAGCG
65 AAATATACTGACACACATAGCG
** * * ** * * *
24729487 CATCATCGGATAAACAAAAGTAAATATACTGGCTCACGTAGTGCATAATCGGATAAATAGAAGTA
1 CATCATAAGATAAACCAAAGTAAATATACTGGCACATATAGTGCATCATCGAATAAATCGAAGTA
* * * *
24729552 AATGTATTGGCACACATAGTG
66 AATATACTGACACACATAGCG
* *** *
24729573 CTTCATAAGATAAACCAAAGTAAATATACTGGCACATATAGTATTTCATCGAAAAAATCGAAGTA
1 CATCATAAGATAAACCAAAGTAAATATACTGGCACATATAGTGCATCATCGAATAAATCGAAGTA
24729638 GAAACCCGTA
Statistics
Matches: 118, Mismatches: 32, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
86 118 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (86 bp):
CATCATAAGATAAACCAAAGTAAATATACTGGCACATATAGTGCATCATCGAATAAATCGAAGTA
AATATACTGACACACATAGCG
Found at i:24730828 original size:10 final size:10
Alignment explanation
Indices: 24730813--24730850 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
24730803 AAATTAAATG
24730813 AATTAACCAA
1 AATTAACCAA
*
24730823 AATTAACCAG
1 AATTAACCAA
24730833 AATTAACCAA
1 AATTAACCAA
24730843 AATTAACC
1 AATTAACC
24730851 GAATTGGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (10 bp):
AATTAACCAA
Found at i:24730835 original size:20 final size:19
Alignment explanation
Indices: 24730802--24730855 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
24730792 AACCAAATTA
**
24730802 AAAATTAAATGAATTAACC
1 AAAATTAACCGAATTAACC
24730821 AAAATTAACCAGAATTAACC
1 AAAATTAACC-GAATTAACC
24730841 AAAATTAACCGAATT
1 AAAATTAACCGAATT
24730856 GGTGATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.24
Consensus pattern (19 bp):
AAAATTAACCGAATTAACC
Found at i:24738812 original size:20 final size:20
Alignment explanation
Indices: 24738774--24738812 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24738764 AGTTAACAAG
* *
24738774 ATCAATCACATACATTAAAC
1 ATCAATAACATACAATAAAC
*
24738794 ATCAATAACATTCAATAAA
1 ATCAATAACATACAATAAA
24738813 TCAACAAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.26
Consensus pattern (20 bp):
ATCAATAACATACAATAAAC
Found at i:24741058 original size:16 final size:15
Alignment explanation
Indices: 24741037--24741097 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 15
24741027 TTAATCACTT
24741037 TAATATTAAATTAACA
1 TAATATTAAATTAA-A
*
24741053 TAATATT-AATCAAGA
1 TAATATTAAATTAA-A
*
24741068 TAAATATTAGATTAAA
1 T-AATATTAAATTAAA
24741084 TTTAATATTAAATT
1 --TAATATTAAATT
24741098 TTATTGAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 7 0.19
16 14 0.39
17 14 0.39
18 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATATTAAATTAAA
Found at i:24741182 original size:20 final size:18
Alignment explanation
Indices: 24741135--24741213 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
24741125 CAAGATAAAC
24741135 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
24741152 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
24741172 ATTAAATTAATAAATACT
1 ATTAAATTAATATTTAAT
*
24741190 ATTAAAATAAGTA-TTAA-
1 ATTAAATTAA-TATTTAAT
24741207 ATTAAAT
1 ATTAAAT
24741214 ATAAATTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
17 14 0.29
18 15 0.31
19 5 0.10
20 15 0.31
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:24742841 original size:51 final size:51
Alignment explanation
Indices: 24742763--24742943 Score: 319
Period size: 51 Copynumber: 3.5 Consensus size: 51
24742753 TAAACAAAAG
*
24742763 GGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCCTTTATGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
24742814 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAATA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAA-A
*
24742866 -GTCCGATGACTAACTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
*
24742916 GGTCCGATGACTAAGTGTCATTGTGAGT
1 GGTCCGATGACTAAGTGTCATCGTGAGT
24742944 TTATACATTC
Statistics
Matches: 124, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
50 1 0.01
51 122 0.98
52 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAA
Found at i:24745040 original size:27 final size:27
Alignment explanation
Indices: 24744961--24745061 Score: 104
Period size: 27 Copynumber: 3.8 Consensus size: 27
24744951 AAAGAGTTTA
24744961 GCTCTTACGAGCCTA-AA-CAG-ATGTATC
1 GCTCTTACGAGCC-AGAATCAGAAT-TA-C
* *
24744988 GCTCTTACAAGCCAG-A-CAAAATTAC
1 GCTCTTACGAGCCAGAATCAGAATTAC
* *
24745013 GCTCTTGCGAGCTAGAATCAGAATTAC
1 GCTCTTACGAGCCAGAATCAGAATTAC
24745040 GCTCTTACGAGCCAGAATCAGA
1 GCTCTTACGAGCCAGAATCAGA
24745062 TTATCTTCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
25 13 0.21
26 7 0.11
27 42 0.68
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (27 bp):
GCTCTTACGAGCCAGAATCAGAATTAC
Found at i:24748971 original size:16 final size:16
Alignment explanation
Indices: 24748927--24748972 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
24748917 GGGGAATGTG
24748927 TAAA-AAATAT-AAATA
1 TAAATAAATATGAAA-A
*
24748942 TAAATAGATATGAAAA
1 TAAATAAATATGAAAA
*
24748958 TAAATAAATGTGAAA
1 TAAATAAATATGAAA
24748973 TAATAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 19 0.73
17 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
TAAATAAATATGAAAA
Found at i:24749872 original size:150 final size:143
Alignment explanation
Indices: 24749537--24750020 Score: 489
Period size: 150 Copynumber: 3.3 Consensus size: 143
24749527 TATTTTTCTT
**
24749537 AAAAATCAAAAAATTTATTTCGAAATAGTTAAAAAAATTAAAA-TTTGTTTAAAAATTTAAACTT
1 AAAAATCAAAACTTTTATTTC-AAATAGTTAAAAAAA-TAAAACTTTG-TTAAAAATTTAAACTT
* *
24749601 TTCTCTTTAAAATGAC-AAAAAACATATTTTTA-TTTTAAAAATCTAAAC--T-TTTTTTTTAAA
63 TTCT-TTTAAAATGCCTAAAAAACAAATTTTTATTTTTAAAAATCTAAACTTTCTTTTTTTTAAA
* ***
24749661 AATTCACTACTTTACTT
127 AAATCACTACTTTAAAA
* * * * * *
24749678 AAAAATCAAAATTTTTATTTTGAAATAATTAAAAAAAATCAAACTTTGTTAAAAAATTAAATTTT
1 AAAAATCAAAACTTTTA-TTTCAAATAGTT-AAAAAAATAAAACTTTGTTAAAAATTTAAA-CTT
* *
24749743 TTCTTTTAAAATTCCTAGAAAAACAAATTTTTATTTTTAAAAACCTAAACTTTCCTTTTTTTTAA
63 TTCTTTTAAAATGCCTA-AAAAACAAATTTTTATTTTTAAAAATCTAAACTTT-CTTTTTTTT--
*
24749808 AAAAAATCATTACTTTAGAAA
124 AAAAAATCACTACTTTA-AAA
* * *
24749829 AAAAATTAAAACTTTTATTTCAAAGTAGTTAAAATAATAAAACTTTATTTAAAAATTTAAACTTT
1 AAAAATCAAAACTTTTATTTCAAA-TAGTTAAAAAAATAAAACTTT-GTTAAAAATTTAAACTTT
* * **
24749894 TCTTTTAAAATGCCTAAAAAATAAATTTTTATTTTTAAAAATCTAAACTTT-TCTTTTAAAAAAA
64 TCTTTTAAAATGCCTAAAAAACAAATTTTTATTTTTAAAAATCTAAACTTTCTTTTTTTTAAAAA
***
24749958 ATCACTACTTCT-CTT
129 ATCACTACTT-TAAAA
* *
24749973 AAAAGTCAAAACTTTTATTTCGAAATAGTTAACAAAAATCTAAACTTT
1 AAAAATCAAAACTTTTATTTC-AAATAGTTAA-AAAAAT-AAAACTTT
24750021 TCCAAGATCA
Statistics
Matches: 284, Mismatches: 39, Indels: 35
0.79 0.11 0.10
Matches are distributed among these distances:
141 47 0.17
142 21 0.07
143 14 0.05
144 41 0.14
145 22 0.08
146 9 0.03
147 5 0.02
148 8 0.03
149 33 0.12
150 53 0.19
151 31 0.11
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (143 bp):
AAAAATCAAAACTTTTATTTCAAATAGTTAAAAAAATAAAACTTTGTTAAAAATTTAAACTTTTC
TTTTAAAATGCCTAAAAAACAAATTTTTATTTTTAAAAATCTAAACTTTCTTTTTTTTAAAAAAT
CACTACTTTAAAA
Found at i:24749940 original size:22 final size:22
Alignment explanation
Indices: 24749908--24749956 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
24749898 TTAAAATGCC
*
24749908 TAAAAAA--TAAATTTTTATTT
1 TAAAAAATCTAAACTTTTATTT
* *
24749928 TTAAAAATCTAAACTTTTCTTT
1 TAAAAAATCTAAACTTTTATTT
24749950 TAAAAAA
1 TAAAAAA
24749957 AATCACTACT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
22 17 0.74
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAAAATCTAAACTTTTATTT
Found at i:24750538 original size:11 final size:11
Alignment explanation
Indices: 24750524--24750550 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24750514 GATAGGCCCA
24750524 AAAAAGAAAAG
1 AAAAAGAAAAG
24750535 AAAAAGAAAAG
1 AAAAAGAAAAG
24750546 AAAAA
1 AAAAA
24750551 AAGACATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:24750993 original size:42 final size:41
Alignment explanation
Indices: 24750966--24751569 Score: 663
Period size: 42 Copynumber: 14.5 Consensus size: 41
24750956 TTTACGCCTA
* * * *
24750966 GGCCTTTAAATGTAATGAATAGTAAATGGACCTCCACACAT
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
24751007 GGGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
*
24751049 GGACCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTT
1 GG-CCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
*
24751091 GGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* ** ** *
24751133 GGGCTTCTAAATGGGATGAAAAGTAAATGGTTCTCCACACTT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
*
24751175 GGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* * *
24751217 AGGCCTCTAAATGCGATGAAAAGTAAATAGACCTTCACACCT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* * **
24751259 GGCCTCCAAATGCGATGTTAAGTAAATGGACCTCCACA-CT
1 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* * * * * * *
24751299 AGACCTTTACATGCGATGAAAAGTATATGAACCTCCACAACT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* * *
24751341 AGACCTCTAAATGCGATGAAAAGTAAATGGACCTTCACACCT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
** * * *
24751383 GGGCCTCTAAATGTGATGAAAAGTAAATTGTCCTCCACACTT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* *
24751425 GGGTCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* * *
24751467 GGGCCTCTAAATGCGATGAAAAGTAAATGAACCTCTACACCT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* * * *
24751509 GGGCCCCTAAATGTAATGAAAATTAAATGGACCT-CACACTT
1 -GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
* *
24751550 GGGCCTTTCAATGCAATGAA
1 -GGCCTCTAAATGCAATGAA
24751570 TGCTTTCCTT
Statistics
Matches: 493, Mismatches: 65, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
40 2 0.00
41 86 0.17
42 403 0.82
43 2 0.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (41 bp):
GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACCT
Found at i:24751067 original size:84 final size:84
Alignment explanation
Indices: 24750966--24751569 Score: 784
Period size: 84 Copynumber: 7.2 Consensus size: 84
24750956 TTTACGCCTA
* ** * * *
24750966 GGCCTTTAAATGTAATGAATAGTAAATGGACCTCCACACATGGGCCTCTAAATGCAATGAAAAGT
1 GGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
24751031 AAATGGACCTCCACACCTG
66 AAATGGACCTCCACACCTG
* *
24751050 GACCTCTAAATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
1 GGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
24751115 AAATGGACCTCCACACCTG
66 AAATGGACCTCCACACCTG
* * **
24751134 GGCTTCTAAATGGGATGAAAAGTAAATGGTTCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
1 GGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
*
24751199 AAATGGACCTCCACACCTA
66 AAATGGACCTCCACACCTG
* * * * **
24751218 GGCCTCTAAATGCGATGAAAAGTAAATAGACCTTCACACCT-GGCCTCCAAATGCGATGTTAAGT
1 GGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
*
24751282 AAATGGACCTCCACA-CTA
66 AAATGGACCTCCACACCTG
* * * * * * *
24751300 GACCTTTACATGCGATGAAAAGTATATGAACCTCCACAAC-TAGACCTCTAAATGCGATGAAAAG
1 GGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCAC-ACTTGGGCCTCTAAATGCGATGAAAAG
*
24751364 TAAATGGACCTTCACACCTG
65 TAAATGGACCTCCACACCTG
* * * *
24751384 GGCCTCTAAATGTGATGAAAAGTAAATTGTCCTCCACACTTGGGTCTCTAAATGCGATGAAAAGT
1 GGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
24751449 AAATGGACCTCCACACCTG
66 AAATGGACCTCCACACCTG
* * * * ** *
24751468 GGCCTCTAAATGCGATGAAAAGTAAATGAACCTCTACACCTGGGCCCCTAAATGTAATGAAAATT
1 GGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
*
24751533 AAATGGACCT-CACACTTG
66 AAATGGACCTCCACACCTG
* * *
24751551 GGCCTTTCAATGCAATGAA
1 GGCCTCTAAATGCGATGAA
24751570 TGCTTTCCTT
Statistics
Matches: 453, Mismatches: 63, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
82 34 0.08
83 95 0.21
84 324 0.72
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (84 bp):
GGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGT
AAATGGACCTCCACACCTG
Found at i:24751110 original size:126 final size:126
Alignment explanation
Indices: 24750962--24751569 Score: 808
Period size: 126 Copynumber: 4.8 Consensus size: 126
24750952 TACCTTTACG
* ** * * *
24750962 CCTAGGCCTTTAAATGTAATGAATAGTAAATGGACCTCCACACATGGGCCTCTAAATGCAATGAA
1 CCTAGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCGATGAA
* * *
24751027 AAGTAAATGGACCTCCACACCTGGACCTCTAAATGCAATGAAAAGTAAATGGACCTCCACA
66 AAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACA
* * * *
24751088 CTTGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTGGGCTTCTAAATGGGATGAA
1 CCTAGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCGATGAA
**
24751153 AAGTAAATGGTTCTCCACACTTGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACA
66 AAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACA
* * * **
24751214 CCTAGGCCTCTAAATGCGATGAAAAGTAAATAGACCTTCACACCT-GGCCTCCAAATGCGATGTT
1 CCTAGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCGATGAA
* * * * * *
24751278 AAGTAAATGGACCTCCACAC-TAGACCTTTACATGCGATGAAAAGTATATGAACCTCCACA
66 AAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACA
* * * *
24751338 ACTAGACCTCTAAATGCGATGAAAAGTAAATGGACCTTCACACCTGGGCCTCTAAATGTGATGAA
1 CCTAGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCGATGAA
* * *
24751403 AAGTAAATTGTCCTCCACACTTGGGTCTCTAAATGCGATGAAAAGTAAATGGACCTCCACA
66 AAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACA
* * * * **
24751464 CCTGGGCCTCTAAATGCGATGAAAAGTAAATGAACCTCTACACCTGGGCCCCTAAATGTAATGAA
1 CCTAGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCGATGAA
* * * *
24751529 AATTAAATGGACCT-CACACTTGGGCCTTTCAATGCAATGAA
66 AAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAA
24751570 TGCTTTCCTT
Statistics
Matches: 417, Mismatches: 63, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
124 76 0.18
125 88 0.21
126 253 0.61
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (126 bp):
CCTAGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATGCGATGAA
AAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACA
Found at i:24752006 original size:19 final size:19
Alignment explanation
Indices: 24751981--24752028 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
24751971 TCTCTCAATA
*
24751981 TTTTTTTCTTCTTTTTTTTG
1 TTTTTTTC-TCTTTTTTGTG
24752001 TTTTTTTCTCTTTTTTGTG
1 TTTTTTTCTCTTTTTTGTG
24752020 TTTTTTTCT
1 TTTTTTTCT
24752029 TGATTTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.83
Consensus pattern (19 bp):
TTTTTTTCTCTTTTTTGTG
Found at i:24752009 original size:17 final size:18
Alignment explanation
Indices: 24751983--24752029 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
24751973 TCTCAATATT
24751983 TTTTTCTTCTTTTTTT-TG
1 TTTTT-TTCTTTTTTTGTG
24752001 TTTTTTTCTCTTTTTTGTG
1 TTTTTTTCT-TTTTTTGTG
24752020 TTTTTTTCTT
1 TTTTTTTCTT
24752030 GATTTAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTGTG
Found at i:24754588 original size:17 final size:16
Alignment explanation
Indices: 24754562--24754596 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
24754552 TATATTTCTT
*
24754562 TTCTTTTTTCTCTTTTC
1 TTCTTCTTTCT-TTTTC
24754579 TTCTTCTTTCTTTTTC
1 TTCTTCTTTCTTTTTC
24754595 TT
1 TT
24754597 TCATTTTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTCTTTCTTTTTC
Found at i:24757571 original size:12 final size:13
Alignment explanation
Indices: 24757539--24757572 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
24757529 AAGGAAACAA
*
24757539 ATAAAAGTAAAAG
1 ATAAAAATAAAAG
24757552 ATAAAAATAAAAG
1 ATAAAAATAAAAG
24757565 A-AAAAATA
1 ATAAAAATA
24757573 CGTTGACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
ATAAAAATAAAAG
Found at i:24776052 original size:14 final size:14
Alignment explanation
Indices: 24776026--24776059 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
24776016 AGTTAAGTCC
24776026 AAGAATAAACAAAT
1 AAGAATAAACAAAT
24776040 AAGAA-AAATCAAAT
1 AAGAATAAA-CAAAT
24776054 AAGAAT
1 AAGAAT
24776060 CAGAGTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (14 bp):
AAGAATAAACAAAT
Found at i:24778380 original size:185 final size:184
Alignment explanation
Indices: 24778041--24778404 Score: 505
Period size: 185 Copynumber: 2.0 Consensus size: 184
24778031 ATCGGCTAGT
* *
24778041 TGTGGCGACATTAGTACAAAAAAAGATAAAAATAACAAGAATTTAAACTAAACTACAATGAGTTA
1 TGTGGCGACATTAGTACAAAAAAAGAAAAAAATAACAAGAATTTAAACTAAACAACAATGAGTTA
* * * *
24778106 GAAAATATAAAAACTAAGTATTAAATGCTTATAATGCATGCTAAATAAGATACAAAAGAGACAAT
66 GAAAATATAAAAACTAAATATGAAATGCCTATAATGCATGCTAAATAAGATACAAAAGACACAAT
* * * *
24778171 TAAAACATCAATTTAGGGAGAAAATATATGTCATTTGTAATGTTATCAGCTGCA
131 TAAAACATCAATATAGGGAGAAAATAGATGTCATTTATAATGCTATCAGCTGCA
* * * * * *
24778225 TGTGGTGACATTAGTGCACCAAAGAGAAAAAAATAACAAGAATTTAAGCTAAACAATAATGAGTT
1 TGTGGCGACATTAGTACA-AAAAAAGAAAAAAATAACAAGAATTTAAACTAAACAACAATGAGTT
* * * *
24778290 AGAAAATATAAATACTAAATATGAAATGCCTATCATGCATGCTAAATATGGTACAAAAGACACAA
65 AGAAAATATAAAAACTAAATATGAAATGCCTATAATGCATGCTAAATAAGATACAAAAGACACAA
* *
24778355 TTAATACA-CAAATATAGGGAGAAAATAGGTGTCATTTATAATGCTATCAG
130 TTAAAACATC-AATATAGGGAGAAAATAGATGTCATTTATAATGCTATCAG
24778405 TGCCCATTTT
Statistics
Matches: 156, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
184 17 0.11
185 139 0.89
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (184 bp):
TGTGGCGACATTAGTACAAAAAAAGAAAAAAATAACAAGAATTTAAACTAAACAACAATGAGTTA
GAAAATATAAAAACTAAATATGAAATGCCTATAATGCATGCTAAATAAGATACAAAAGACACAAT
TAAAACATCAATATAGGGAGAAAATAGATGTCATTTATAATGCTATCAGCTGCA
Found at i:24784053 original size:37 final size:38
Alignment explanation
Indices: 24783961--24784056 Score: 122
Period size: 38 Copynumber: 2.6 Consensus size: 38
24783951 AATAACATCC
* ** *
24783961 AAATTTGCGCCCAAAACTACCGTCGCATGAGCACTTCA
1 AAATTTGCACCCAAAACTGTCGCCGCATGAGCACTTCA
* *
24783999 AAATTTGCATCCAAAACTGTCGCCGCATGAGCACTTCC
1 AAATTTGCACCCAAAACTGTCGCCGCATGAGCACTTCA
*
24784037 ACA-TTGCACCCAAAACTGTC
1 AAATTTGCACCCAAAACTGTC
24784057 ATCGTAGGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
37 16 0.32
38 34 0.68
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (38 bp):
AAATTTGCACCCAAAACTGTCGCCGCATGAGCACTTCA
Found at i:24784131 original size:38 final size:37
Alignment explanation
Indices: 24784083--24784154 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
24784073 TGGAATGTAC
* *
24784083 CCAAGACTATCGCTGCATAAATATTCTTCGAATTGCAT
1 CCAAAACTATCGCTACATAAATATTCTTC-AATTGCAT
*
24784121 CCAAAACTATCGCTACATAAGTATTCTTCAATTG
1 CCAAAACTATCGCTACATAAATATTCTTCAATTG
24784155 TACCAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (37 bp):
CCAAAACTATCGCTACATAAATATTCTTCAATTGCAT
Found at i:24787093 original size:23 final size:20
Alignment explanation
Indices: 24787052--24787096 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 20
24787042 ATTAGAAAAT
24787052 TAAATAAATTAATGCACAAA
1 TAAATAAATTAATGCACAAA
24787072 TAAATAAATCTAATATGCACAAA
1 TAAATAAAT-T-A-ATGCACAAA
24787095 TA
1 TA
24787097 CTAAAAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 1 0.05
22 1 0.05
23 11 0.50
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAATAAATTAATGCACAAA
Found at i:24788618 original size:43 final size:43
Alignment explanation
Indices: 24788562--24788702 Score: 239
Period size: 43 Copynumber: 3.3 Consensus size: 43
24788552 TTATGAGAAA
24788562 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTT-TCCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCT-CCAC
*
24788605 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTCTCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
* *
24788648 AAGCGCCGCTAAAGGCCATGTTCATTAGCGGCGCTTTCTCCAA
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
24788691 AAGCGCCGCTAA
1 AAGCGCCGCTAA
24788703 TATAACAGAT
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
43 92 0.99
44 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
Found at i:24789030 original size:11 final size:11
Alignment explanation
Indices: 24789014--24789051 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
24789004 TTCCTTCGCT
24789014 TGCCTCGCTGC
1 TGCCTCGCTGC
24789025 TGCCTC-C-GC
1 TGCCTCGCTGC
24789034 TTGCCTCGCTGC
1 -TGCCTCGCTGC
24789046 TGCCTC
1 TGCCTC
24789052 CTCTTTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.08
10 7 0.29
11 13 0.54
12 2 0.08
ACGTcount: A:0.00, C:0.47, G:0.24, T:0.29
Consensus pattern (11 bp):
TGCCTCGCTGC
Found at i:24789047 original size:24 final size:21
Alignment explanation
Indices: 24789000--24789052 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
24788990 CTTGTAGCCT
* *
24789000 CTGCTTCCTTCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
24789021 CTGCTGCCTCCGCTTGCCTCG
1 CTGCTGCCTCCGCTTGCCTCG
24789042 CTGCTGCCTCC
1 CTGCTGCCTCC
24789053 TCTTTAAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.21, T:0.32
Consensus pattern (21 bp):
CTGCTGCCTCCGCTTGCCTCG
Found at i:24789128 original size:66 final size:66
Alignment explanation
Indices: 24789042--24789195 Score: 229
Period size: 66 Copynumber: 2.3 Consensus size: 66
24789032 GCTTGCCTCG
* * * *
24789042 CTGCTGCCTCCTCTTTAAGTTGTAGGTGGAGTTCTTCATATTTTTTTTGAA-ACTCTGCTTCTCT
1 CTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAACA-TCTACTTCTCT
24789106 CA
65 CA
* *
24789108 CTGCAGCCTCCTCTTTAAGTTTTAGATGGAGTTCATCATATTTTTTTTGAGCATCTACTTCTCTC
1 CTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAACATCTACTTCTCTC
*
24789173 G
66 A
24789174 CTGCAGCCTCCTCTTTAAGTTG
1 CTGCAGCCTCCTCTTTAAGTTG
24789196 AGCAATTTGC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 78 0.99
67 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (66 bp):
CTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAACATCTACTTCTCTC
A
Found at i:24794332 original size:29 final size:31
Alignment explanation
Indices: 24794266--24794326 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
24794256 TTTAAATTTA
24794266 AAAATATATATTAGTGACAACATTTTACTTT
1 AAAATATATATTAGTGACAACATTTTACTTT
24794297 AAAATATATATTAGTGACAACATTTTACTT
1 AAAATATATATTAGTGACAACATTTTACTT
24794327 AAATATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
AAAATATATATTAGTGACAACATTTTACTTT
Found at i:24794395 original size:4 final size:4
Alignment explanation
Indices: 24794346--24794427 Score: 60
Period size: 4 Copynumber: 20.0 Consensus size: 4
24794336 GGTTCTTTTT
* * * * *
24794346 ATTA ATTA AATA ATTA AATA TTTA ATTTA GTATA ATTA AATA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA AT-TA ATTA ATTA ATTA ATTA
*
24794396 ATCA ATTA A--A ATTA ATTA ATTA TATATA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA -AT-TA ATTA
24794428 TTTACGAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
2 2 0.03
4 46 0.77
5 10 0.17
6 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:24794412 original size:30 final size:29
Alignment explanation
Indices: 24794346--24794414 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
24794336 GGTTCTTTTT
* * *
24794346 ATTAATTAAATAATTAAATATTTAATTTA
1 ATTAATTAAATAATTAAATAATCAATTAA
* *
24794375 GTATAATTAAATAATTAATTAATCAATTAAA
1 AT-TAATTAAATAATTAAATAATCAATT-AA
24794406 ATTAATTAA
1 ATTAATTAA
24794415 TTATATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 1 0.03
30 29 0.91
31 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (29 bp):
ATTAATTAAATAATTAAATAATCAATTAA
Found at i:24794470 original size:22 final size:22
Alignment explanation
Indices: 24794347--24794484 Score: 92
Period size: 22 Copynumber: 6.4 Consensus size: 22
24794337 GTTCTTTTTA
24794347 TTAATT-AA-ATAATTAAATAT
1 TTAATTAAATATAATTAAATAT
* * *
24794367 TTAATTTAGTATAATTAAATAA
1 TTAATTAAATATAATTAAATAT
*
24794389 TTAATT-AAT-CAATTAAA-A-
1 TTAATTAAATATAATTAAATAT
* *
24794407 TTAATTAATTAT-ATATAATTAT
1 TTAATTAAATATAAT-TAAATAT
***
24794429 TTACGAAAATATTTTAAATTAAATAT
1 TTAATTAAATA---T-AATTAAATAT
*
24794455 TTAATTAAATATAATTAAATAA
1 TTAATTAAATATAATTAAATAT
24794477 TTAATTAA
1 TTAATTAA
24794485 TACTGTTTAC
Statistics
Matches: 90, Mismatches: 16, Indels: 22
0.70 0.12 0.17
Matches are distributed among these distances:
18 6 0.07
19 5 0.06
20 16 0.18
21 4 0.04
22 41 0.46
23 1 0.01
25 1 0.01
26 14 0.16
27 2 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
TTAATTAAATATAATTAAATAT
Found at i:24794471 original size:10 final size:11
Alignment explanation
Indices: 24794445--24794484 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
24794435 AAATATTTTA
24794445 AATTAAATATTT
1 AATTAAATA-TT
24794457 AATTAAATA-T
1 AATTAAATATT
24794467 AATTAAATAATT
1 AATTAAAT-ATT
24794479 AATTAA
1 AATTAA
24794485 TACTGTTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 1 0.04
12 16 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTAAATATT
Found at i:24794479 original size:18 final size:18
Alignment explanation
Indices: 24794456--24794899 Score: 141
Period size: 18 Copynumber: 24.6 Consensus size: 18
24794446 ATTAAATATT
24794456 TAATTAAATATAATTAAA
1 TAATTAAATATAATTAAA
*
24794474 TAATT-AAT-TAA-T-AC
1 TAATTAAATATAATTAAA
** * *
24794488 TGTTTACAAT-TAAATACA
1 TAATTA-AATATAATTAAA
* *
24794506 TAATTAAACATAATTAAT
1 TAATTAAATATAATTAAA
* * *
24794524 TAATTTAATTTAATT-AT
1 TAATTAAATATAATTAAA
* *
24794541 TCACTTTAATATAAATTAAA
1 T-AATTAAATAT-AATTAAA
*
24794561 TAATTAAATAT-TTTAAA
1 TAATTAAATATAATTAAA
24794578 TTAATTATTTAAT-TAATTTAAAA
1 -TAATTA---AATATAA-TT-AAA
* * *
24794601 TATTTACAAT-TAAATACA
1 TAATTA-AATATAATTAAA
*
24794619 TAATTAAACATAATTAAA
1 TAATTAAATATAATTAAA
* **
24794637 TAATTTAATATAATTATT
1 TAATTAAATATAATTAAA
* *
24794655 TAGTTTAATATAATTAAA
1 TAATTAAATATAATTAAA
*
24794673 TAATTAAATAT-TTTAAA
1 TAATTAAATATAATTAAA
*
24794690 TTAATTATTTAAT-TAATTGATAC
1 -TAATTA---AATATAATT-A-AA
** * *
24794713 TGTTTATAAT-TAAATACA
1 TAATTA-AATATAATTAAA
*
24794731 TAATTAAACATAATTAAA
1 TAATTAAATATAATTAAA
* **
24794749 TAATTTAATATAATTATT
1 TAATTAAATATAATTAAA
* *
24794767 TACTTTAATATAATTAAA
1 TAATTAAATATAATTAAA
** **
24794785 TTTTTTAAAT-TAATTATT
1 -TAATTAAATATAATTAAA
* *
24794803 TAATT-AAT-TGA-T-AC
1 TAATTAAATATAATTAAA
* * *
24794817 TATTTACAAT-TAAATACA
1 TAATTA-AATATAATTAAA
*
24794835 TAATTAAACATAATTAAA
1 TAATTAAATATAATTAAA
* **
24794853 TAATTTAATATAATTATT
1 TAATTAAATATAATTAAA
* * *
24794871 TAGTTTAATATAATTACA
1 TAATTAAATATAATTAAA
24794889 TAATTAAATAT
1 TAATTAAATAT
24794900 TTTAAATTAA
Statistics
Matches: 311, Mismatches: 85, Indels: 60
0.68 0.19 0.13
Matches are distributed among these distances:
14 8 0.03
15 2 0.01
16 19 0.06
17 29 0.09
18 191 0.61
19 20 0.06
20 18 0.06
21 8 0.03
22 12 0.04
23 4 0.01
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (18 bp):
TAATTAAATATAATTAAA
Found at i:24794577 original size:104 final size:106
Alignment explanation
Indices: 24794456--24794922 Score: 577
Period size: 112 Copynumber: 4.3 Consensus size: 106
24794446 ATTAAATATT
* *
24794456 TAATTAAATATAATTAAAT-A-A-TTAATTAATACTGTTTACAATTAAATACATAATTAAACATA
1 TAATTAAATAT-TTTAAATAATATTTAATTAATACTATTTACAATTAAATACATAATTAAACATA
* * *
24794518 ATTAATTAATTTAATTTAATTATTCACTTTAATATAAATTAAA
65 ATTAAATAATTTAATATAATTATTTACTTTAATAT-AATTAAA
*
24794561 TAATTAAATATTTTAAATTAATTATTTAATTAATTTAAAATATTTACAATTAAATACATAATTAA
1 TAATTAAATATTTTAAA-TAA-TATTTAATTAA--T--ACTATTTACAATTAAATACATAATTAA
*
24794626 ACATAATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAA
60 ACATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAA
* *
24794673 TAATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTATAATTAAATACATAATTAA
1 TAATTAAATATTTTAAA-TAA-TATTTAATT-A---ATACTATTTACAATTAAATACATAATTAA
24794738 ACATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAA
60 ACATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAA
** * * * * *
24794785 TTTTTTAA-A--TTAATTATTTAATTAATTGATACTATTTACAATTAAATACATAATTAAACATA
1 TAATTAAATATTTTAAATA-ATATTTAATTAATACTATTTACAATTAAATACATAATTAAACATA
* *
24794847 ATTAAATAATTTAATATAATTATTTAGTTTAATATAATTACA
65 ATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAA
24794889 TAATTAAATATTTTAAATTAAATATTTAATTAAT
1 TAATTAAATATTTTAAA-T-AATATTTAATTAAT
24794923 TGATACTAAA
Statistics
Matches: 314, Mismatches: 29, Indels: 35
0.83 0.08 0.09
Matches are distributed among these distances:
104 82 0.26
105 13 0.04
106 1 0.00
107 4 0.01
108 22 0.07
109 13 0.04
111 2 0.01
112 113 0.36
113 62 0.20
114 1 0.00
116 1 0.00
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (106 bp):
TAATTAAATATTTTAAATAATATTTAATTAATACTATTTACAATTAAATACATAATTAAACATAA
TTAAATAATTTAATATAATTATTTACTTTAATATAATTAAA
Found at i:24794578 original size:22 final size:22
Alignment explanation
Indices: 24794552--24794693 Score: 62
Period size: 22 Copynumber: 6.4 Consensus size: 22
24794542 CACTTTAATA
24794552 TAAATTAAATAATTAAATATTT
1 TAAATTAAATAATTAAATATTT
* * *
24794574 TAAATTAATTATTTAATTAATTT
1 TAAATTAAATAATTAAAT-ATTT
* ** * **
24794597 AAAATATTTACAATTAAATA-CA
1 TAAAT-TAAATAATTAAATATTT
*
24794619 T-AATTAAACATAATTAAATAATT
1 TAAATT-AA-ATAATTAAATATTT
**
24794642 T-AA-T--ATAATTATTTAGTTT
1 TAAATTAAATAATTAAATA-TTT
24794661 AATATAATTAAATAATTAAATATTT
1 --TA-AATTAAATAATTAAATATTT
24794686 TAAATTAA
1 TAAATTAA
24794694 TTATTTAATT
Statistics
Matches: 84, Mismatches: 23, Indels: 26
0.63 0.17 0.20
Matches are distributed among these distances:
18 9 0.11
19 2 0.02
20 1 0.01
21 4 0.05
22 32 0.38
23 16 0.19
24 8 0.10
25 3 0.04
26 9 0.11
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (22 bp):
TAAATTAAATAATTAAATATTT
Found at i:24794582 original size:32 final size:32
Alignment explanation
Indices: 24794546--24794644 Score: 78
Period size: 37 Copynumber: 3.0 Consensus size: 32
24794536 ATTATTCACT
24794546 TTAATATAAATTAAATAATTAAATATTTTAAA
1 TTAATATAAATTAAATAATTAAATATTTTAAA
* *
24794578 TTAAT-T-ATTTAATTAATTTAAA-ATATTTACAA
1 TTAATATAAATTAAATAA-TTAAATAT-TTTA-AA
* *
24794610 TTAAATACATAATTAAACATAATTAAATAATTTAA
1 TT-AATATA-AATT-AA-ATAATTAAATATTTTAA
24794645 TATAATTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
30 10 0.20
31 10 0.20
32 9 0.18
33 3 0.06
36 4 0.08
37 11 0.22
38 4 0.08
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (32 bp):
TTAATATAAATTAAATAATTAAATATTTTAAA
Found at i:24794623 original size:58 final size:56
Alignment explanation
Indices: 24794445--24794923 Score: 237
Period size: 54 Copynumber: 8.6 Consensus size: 56
24794435 AAATATTTTA
**
24794445 AATTAAATATTTAATTAAATATAATTAAATAATTAA-TTAATACTGTTTACAATTAAATACAT
1 AATTAAATA-TT--TTAAAT-TAATTATTTAATTAATTTAA-A-TGTTTA-AATTAAATACAT
* ** * *
24794507 AATTAAACA---T-AATTAATTAATTTAATTTAATTATTCA-CTTT-AATATAAATTAAAT
1 AATTAAATATTTTAAATTAATT-ATTTAA-TTAATT-TAAATGTTTAAAT-TAAA-TACAT
*
24794562 AATTAAATATTTTAAATTAATTATTTAATTAATTTAAAATATTTACAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTT-AAATGTTTA-AATTAAATACAT
* * * * *
24794620 AATTAAACATAATTAAA-TAATTTAATATAATT-ATTT--A-GTTT-AATATAATTAAAT
1 AATTAAATAT-TTTAAATTAA-TT-ATTTAATTAATTTAAATGTTTAAAT-TAAATACAT
* *
24794674 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTATAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* * * *
24794732 AATTAAACA---T-AATTAAATAATTTAATATAA-TT--A--TTT-ACTTTAAT--AT
1 AATTAAATATTTTAAATT-AATTATTTAAT-TAATTTAAATGTTTAAATTAAATACAT
* * * *
24794778 AATTAAATTTTTTAAATTAATTATTTAATTAATTGATACTATTTACAATTAAATACAT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTTA-AATGTTTA-AATTAAATACAT
* * * *
24794836 AATTAAACATAATTAAA-TAATTTAATATAATT-ATTT--A-GTTT-AATATAATTACAT
1 AATTAAATAT-TTTAAATTAA-TT-ATTTAATTAATTTAAATGTTTAAAT-TAAATACAT
*
24794890 AATTAAATATTTTAAATTAAATATTTAATTAATT
1 AATTAAATATTTTAAATTAATTATTTAATTAATT
24794924 GATACTAAAG
Statistics
Matches: 319, Mismatches: 50, Indels: 105
0.67 0.11 0.22
Matches are distributed among these distances:
46 9 0.03
48 9 0.03
49 12 0.04
50 7 0.02
52 14 0.04
53 28 0.09
54 55 0.17
55 40 0.13
56 16 0.05
57 13 0.04
58 55 0.17
59 36 0.11
60 17 0.05
62 8 0.03
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (56 bp):
AATTAAATATTTTAAATTAATTATTTAATTAATTTAAATGTTTAAATTAAATACAT
Found at i:24794737 original size:112 final size:112
Alignment explanation
Indices: 24794503--24794930 Score: 683
Period size: 112 Copynumber: 3.9 Consensus size: 112
24794493 ACAATTAAAT
* * *
24794503 ACATAATTAAACATAATTAATTAATTTAATTTAATTATTCACTTTAATATAAATTAAATAATTAA
1 ACATAATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATAT-AATTAAATAATTAA
* * *
24794568 ATATTTTAAATTAATTATTTAATTAATTTAAAATATTTACAATTAAAT
65 ATATTTTAAATTAATTATTTAATTAATTGATACTATTTACAATTAAAT
*
24794616 ACATAATTAAACATAATTAAATAATTTAATATAATTATTTAGTTTAATATAATTAAATAATTAAA
1 ACATAATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAA
* *
24794681 TATTTTAAATTAATTATTTAATTAATTGATACTGTTTATAATTAAAT
66 TATTTTAAATTAATTATTTAATTAATTGATACTATTTACAATTAAAT
24794728 ACATAATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAATT--A-AA-T---
1 ACATAATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAA
24794786 T-TTTTAAATTAATTATTTAATTAATTGATACTATTTACAATTAAAT
66 TATTTTAAATTAATTATTTAATTAATTGATACTATTTACAATTAAAT
* *
24794832 ACATAATTAAACATAATTAAATAATTTAATATAATTATTTAGTTTAATATAATTACATAATTAAA
1 ACATAATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAA
*
24794897 TATTTTAAATTAAATATTTAATTAATTGATACTA
66 TATTTTAAATTAATTATTTAATTAATTGATACTA
24794931 AAGGTAAATC
Statistics
Matches: 293, Mismatches: 14, Indels: 17
0.90 0.04 0.05
Matches are distributed among these distances:
104 96 0.33
105 1 0.00
106 1 0.00
107 2 0.01
108 2 0.01
109 2 0.01
110 1 0.00
111 1 0.00
112 141 0.48
113 46 0.16
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (112 bp):
ACATAATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAATTAAATAATTAAA
TATTTTAAATTAATTATTTAATTAATTGATACTATTTACAATTAAAT
Found at i:24794870 original size:216 final size:222
Alignment explanation
Indices: 24794445--24794929 Score: 757
Period size: 216 Copynumber: 2.2 Consensus size: 222
24794435 AAATATTTTA
** *
24794445 AATTAAATATTTAATTAAATATAATTAAATAATTAATTAATACTGTTTACAATTAAATACATAAT
1 AATTAAATA-TT--TTAAAT-TAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAAT
* *
24794510 TAAACATAATTAATTAATTTAATTTAATTATTCACTTTAATATAAATTAAATAATTAAATATTTT
62 TAAACATAATTAAATAATTTAATATAATTATTCACTTTAATATAAATT-AATAATT--ATATTTT
*
24794575 AAATTAATTATTTAATTAATTTAAAATATTTACAATTAAATACATAATTAAACATAATTAAATAA
124 AAATTAATTATTTAATTAATTGAAAATATTTACAATTAAATACATAATTAAACATAATTAAATAA
24794640 TTTAATATAATTATTTAGTTTAATATAATTAAAT
189 TTTAATATAATTATTTAGTTTAATATAATTAAAT
*
24794674 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTATAATTAAATACATAATTAAA
1 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
*
24794739 CATAATTAAATAATTTAATATAATTATTTACTTTAATAT-AATT-A-AA-T-T-TTTTAAATTAA
66 CATAATTAAATAATTTAATATAATTATTCACTTTAATATAAATTAATAATTATATTTTAAATTAA
* *
24794798 TTATTTAATTAATTGATACTATTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATA
131 TTATTTAATTAATTGAAAATATTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATA
*
24794863 TAATTATTTAGTTTAATATAATTACAT
196 TAATTATTTAGTTTAATATAATTAAAT
*
24794890 AATTAAATATTTTAAATTAAATATTTAATTAATTGATACT
1 AATTAAATATTTTAAATTAATTATTTAATTAATTGATACT
24794930 AAAGGTAAAT
Statistics
Matches: 244, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
216 138 0.57
217 1 0.00
220 1 0.00
221 2 0.01
222 1 0.00
224 4 0.02
225 80 0.33
226 6 0.02
228 2 0.01
229 9 0.04
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (222 bp):
AATTAAATATTTTAAATTAATTATTTAATTAATTGATACTGTTTACAATTAAATACATAATTAAA
CATAATTAAATAATTTAATATAATTATTCACTTTAATATAAATTAATAATTATATTTTAAATTAA
TTATTTAATTAATTGAAAATATTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATA
TAATTATTTAGTTTAATATAATTAAAT
Found at i:24802904 original size:25 final size:25
Alignment explanation
Indices: 24802876--24802923 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24802866 GCAATATATT
* * *
24802876 TAATTTTTTTAACTTATTTATTTTG
1 TAATTTATTTAACTAATCTATTTTG
24802901 TAATTTATTTAACTAATCTATTT
1 TAATTTATTTAACTAATCTATTT
24802924 AGGAATAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (25 bp):
TAATTTATTTAACTAATCTATTTTG
Found at i:24804310 original size:17 final size:17
Alignment explanation
Indices: 24804288--24804322 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24804278 GCTAATGAAG
24804288 CAAGTCTATAACCACTT
1 CAAGTCTATAACCACTT
* *
24804305 CAAGTCTGTAGCCACTT
1 CAAGTCTATAACCACTT
24804322 C
1 C
24804323 TGACTAGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (17 bp):
CAAGTCTATAACCACTT
Found at i:24818655 original size:15 final size:15
Alignment explanation
Indices: 24818635--24818665 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24818625 CATAGCTCAT
24818635 GTATGTCGCGGCACA
1 GTATGTCGCGGCACA
24818650 GTATGTCGCGGCACA
1 GTATGTCGCGGCACA
24818665 G
1 G
24818666 AAATCAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (15 bp):
GTATGTCGCGGCACA
Found at i:24819744 original size:21 final size:21
Alignment explanation
Indices: 24819718--24819757 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24819708 GATACCTGAT
*
24819718 AAAAGGTATCGATACTTTTGA
1 AAAAGGTATCCATACTTTTGA
24819739 AAAAGGTATCCATACTTTT
1 AAAAGGTATCCATACTTTT
24819758 TGTCATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
AAAAGGTATCCATACTTTTGA
Found at i:24822918 original size:28 final size:28
Alignment explanation
Indices: 24822878--24823033 Score: 147
Period size: 28 Copynumber: 5.6 Consensus size: 28
24822868 AGATAAAAAA
*
24822878 TAACACTCTTTCGAGCTAGAATACAGAG
1 TAACGCTCTTTCGAGCTAGAATACAGAG
* * *
24822906 TAACACTCTTTCGAGCCAGAGTACAGAG
1 TAACGCTCTTTCGAGCTAGAATACAGAG
** *
24822934 -AACCGCTCTTTTAAGCTAGAATACAAAG
1 TAA-CGCTCTTTCGAGCTAGAATACAGAG
* * *
24822962 TAATGCTCTTTCGAGCCA-AAGTCCAGAG
1 TAACGCTCTTTCGAGCTAGAA-TACAGAG
*
24822990 TAACGCTTTTTCGAGCTA-AAGTACAGAG
1 TAACGCTCTTTCGAGCTAGAA-TACAGAG
* *
24823018 TAATGCTCTTTTGAGC
1 TAACGCTCTTTCGAGC
24823034 CGGAGTCCAC
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
27 4 0.04
28 98 0.94
29 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (28 bp):
TAACGCTCTTTCGAGCTAGAATACAGAG
Found at i:24823041 original size:56 final size:57
Alignment explanation
Indices: 24822886--24823042 Score: 196
Period size: 56 Copynumber: 2.8 Consensus size: 57
24822876 AATAACACTC
** *
24822886 TTTCGAGCTAGAATACAGAGTAACACTCTTTCGAGCCAGAGTACAGAGAACCGCTCT
1 TTTCGAGCTAGAATACAGAGTAATGCTCTTTCGAGCCAGAGTCCAGAGAACCGCTCT
* * *
24822943 TTT-AAGCTAGAATACAAAGTAATGCTCTTTCGAGCCAAAGTCCAGAGTAA-CGCT-T
1 TTTCGAGCTAGAATACAGAGTAATGCTCTTTCGAGCCAGAGTCCAGAG-AACCGCTCT
* *
24822998 TTTCGAGCTA-AAGTACAGAGTAATGCTCTTTTGAGCCGGAGTCCA
1 TTTCGAGCTAGAA-TACAGAGTAATGCTCTTTCGAGCCAGAGTCCA
24823043 CCACGTACTT
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
55 6 0.07
56 75 0.87
57 5 0.06
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (57 bp):
TTTCGAGCTAGAATACAGAGTAATGCTCTTTCGAGCCAGAGTCCAGAGAACCGCTCT
Found at i:24830784 original size:12 final size:11
Alignment explanation
Indices: 24830757--24830796 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
24830747 TTAGAAATGG
*
24830757 AAAATGAGAAA
1 AAAAAGAGAAA
24830768 AAAAAGAGAAA
1 AAAAAGAGAAA
24830779 AGAAAAGAAGAAA
1 A-AAAAG-AGAAA
24830792 AAAAA
1 AAAAA
24830797 TGTTTGCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 9 0.35
13 6 0.23
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAAAGAGAAA
Found at i:24849354 original size:78 final size:78
Alignment explanation
Indices: 24849225--24849381 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
24849215 CATGTTCCCT
24849225 GTTATGAAAATACGGATGCAATTCTTGGCCACTAGGATCATACCGACCCTAAATGTCTCTAACAT
1 GTTATGAAAATACGGATGCAATTCTTGGCCACTAGGATCATACCGACCCTAAATGTCTCTAACAT
24849290 TAATACTTTTCGA
66 TAATACTTTTCGA
* *
24849303 GTTATGAAAATATGGATGCAATTCTTGGCCACTAGGATCATACCGGCCCTAAATGTCTCTAACAT
1 GTTATGAAAATACGGATGCAATTCTTGGCCACTAGGATCATACCGACCCTAAATGTCTCTAACAT
24849368 TAATACTTTTCGA
66 TAATACTTTTCGA
24849381 G
1 G
24849382 CCATTTAATT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (78 bp):
GTTATGAAAATACGGATGCAATTCTTGGCCACTAGGATCATACCGACCCTAAATGTCTCTAACAT
TAATACTTTTCGA
Found at i:24852178 original size:22 final size:22
Alignment explanation
Indices: 24852150--24852203 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
24852140 AATGTGTGAG
24852150 TTGTACAGCTGGTATAACCAAA
1 TTGTACAGCTGGTATAACCAAA
24852172 TTGTACAGCTGGTATAACCAAA
1 TTGTACAGCTGGTATAACCAAA
24852194 TTGTACAGCT
1 TTGTACAGCT
24852204 AGAGGATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (22 bp):
TTGTACAGCTGGTATAACCAAA
Found at i:24860343 original size:42 final size:42
Alignment explanation
Indices: 24860291--24860383 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
24860281 AAAAGGAGTT
* * *
24860291 GTTTATGAGTGTTATTTAGGAATAAAATTATATTTGGGTTTA
1 GTTTTTGAGTGTTATTTAAGAATAAAATTATACTTGGGTTTA
* *
24860333 GTTTTTGAGTGTTTTTTAAGAATTAAATTATACTTGGGTTTA
1 GTTTTTGAGTGTTATTTAAGAATAAAATTATACTTGGGTTTA
24860375 GTTTGTTGA
1 GTTT-TTGA
24860384 TGGGTTTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.27, C:0.01, G:0.22, T:0.51
Consensus pattern (42 bp):
GTTTTTGAGTGTTATTTAAGAATAAAATTATACTTGGGTTTA
Found at i:24860392 original size:42 final size:42
Alignment explanation
Indices: 24860305--24860393 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
24860295 ATGAGTGTTA
* * **
24860305 TTTAGGAATAAAATTATATTTGGGTTTAGTTTTTGAGTGTTT
1 TTTAAGAATAAAATTATACTTGGGTTTAGTTTTTGAGTGGGT
*
24860347 TTTAAGAATTAAATTATACTTGGGTTTAGTTTGTTGA-TGGGT
1 TTTAAGAATAAAATTATACTTGGGTTTAGTTT-TTGAGTGGGT
24860389 TTTAA
1 TTTAA
24860394 ATATTACGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 37 0.90
43 4 0.10
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.51
Consensus pattern (42 bp):
TTTAAGAATAAAATTATACTTGGGTTTAGTTTTTGAGTGGGT
Found at i:24869823 original size:16 final size:16
Alignment explanation
Indices: 24869802--24869832 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24869792 ATAATGTGAA
24869802 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
24869818 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
24869833 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:24870771 original size:37 final size:37
Alignment explanation
Indices: 24870681--24870777 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
24870671 GGACATGTTC
* * *
24870681 ATGCAGCGACATTCCTGGATGCAATTGAAGAATACTT
1 ATGCAGCGACAATCTTGGATGCAATTGAAGAATATTT
* * *
24870718 ATGTAGCGATAGTCTTGGATGCAATTGAAGAATATTT
1 ATGCAGCGACAATCTTGGATGCAATTGAAGAATATTT
* *
24870755 ATGCAGTGACAATCTTGGGTGCA
1 ATGCAGCGACAATCTTGGATGCA
24870778 TTTCGGAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (37 bp):
ATGCAGCGACAATCTTGGATGCAATTGAAGAATATTT
Found at i:24875182 original size:37 final size:37
Alignment explanation
Indices: 24875140--24875236 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
24875130 AGACATGTTC
* *
24875140 ATGCAGTGACATTCTTGGGTGCAATTGAAGAATACTT
1 ATGCAGTGACAGTCTTGGGTGCAAGTGAAGAATACTT
* * * *
24875177 ATGCAGTGATAGTCCTGGATGCAAGTGAAGAATATTT
1 ATGCAGTGACAGTCTTGGGTGCAAGTGAAGAATACTT
* *
24875214 ATGGAGCGACAGTCTTGGGTGCA
1 ATGCAGTGACAGTCTTGGGTGCA
24875237 TTCCAGAAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (37 bp):
ATGCAGTGACAGTCTTGGGTGCAAGTGAAGAATACTT
Found at i:24888309 original size:17 final size:18
Alignment explanation
Indices: 24888287--24888324 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
24888277 TACTATTCTT
24888287 TTTCTAA-CTTTTATTGA
1 TTTCTAATCTTTTATTGA
24888304 TTTCTAATCTTTTATTGA
1 TTTCTAATCTTTTATTGA
24888322 TTT
1 TTT
24888325 TCTTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTCTAATCTTTTATTGA
Found at i:24889617 original size:18 final size:18
Alignment explanation
Indices: 24889586--24889637 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
24889576 GCGCAACCTT
* *
24889586 ACCAGATACGATCACAGA
1 ACCAGATGCAATCACAGA
* *
24889604 ACCAGATGCAATCATATA
1 ACCAGATGCAATCACAGA
* *
24889622 ATCAGATGCAACCACA
1 ACCAGATGCAATCACA
24889638 AGTTTGAATG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.15
Consensus pattern (18 bp):
ACCAGATGCAATCACAGA
Found at i:24895736 original size:18 final size:17
Alignment explanation
Indices: 24895713--24895761 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
24895703 GTATTGAAGC
* *
24895713 AAAAGAATAAGAGAAGAG
1 AAAAGAAGAAGA-AAAAG
24895731 AAAAGAAGAAGAAAAAG
1 AAAAGAAGAAGAAAAAG
24895748 AAGAAGAAGAAGAA
1 AA-AAGAAGAAGAA
24895762 TACGTTGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.21
18 22 0.79
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (17 bp):
AAAAGAAGAAGAAAAAG
Found at i:24895741 original size:3 final size:3
Alignment explanation
Indices: 24895715--24895761 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
24895705 ATTGAAGCAA
* *
24895715 AAG AAT AAG -AG AAG -AG AA- AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
24895760 AA
1 AA
24895762 TACGTTGCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:24896214 original size:17 final size:17
Alignment explanation
Indices: 24896167--24896204 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
24896157 TTTTCTCTAG
*
24896167 TTGTCATTACATTTTAA
1 TTGTCACTACATTTTAA
24896184 TTGTCACTACATTTTAA
1 TTGTCACTACATTTTAA
24896201 TTGT
1 TTGT
24896205 TCTCACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (17 bp):
TTGTCACTACATTTTAA
Found at i:24903946 original size:14 final size:13
Alignment explanation
Indices: 24903921--24903977 Score: 57
Period size: 14 Copynumber: 4.4 Consensus size: 13
24903911 CTCAAACACA
24903921 TTTTTT-TTTCTT
1 TTTTTTCTTTCTT
24903933 TTTCTTTCTTTCTT
1 TTT-TTTCTTTCTT
24903947 TTTTTTCAATTT-TT
1 TTTTTTC--TTTCTT
*
24903961 TGTTTTC-TTCTT
1 TTTTTTCTTTCTT
24903973 TTTTT
1 TTTTT
24903978 ATGAGAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 2 0.05
12 9 0.24
13 7 0.18
14 17 0.45
15 3 0.08
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTCTT
Found at i:24904896 original size:6 final size:6
Alignment explanation
Indices: 24904887--24904913 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24904877 TAATAATAAT
24904887 AATCAA AATCAA AATCAA AATCAA AAT
1 AATCAA AATCAA AATCAA AATCAA AAT
24904914 ATAAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (6 bp):
AATCAA
Found at i:24904919 original size:6 final size:6
Alignment explanation
Indices: 24904910--24904986 Score: 122
Period size: 6 Copynumber: 12.8 Consensus size: 6
24904900 ATCAAAATCA
24904910 AAATAT AAATAT AAATAT AAATAT AAATA- AAACTA- AAATTAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAA-TAT AAA-TAT AAATAT
24904958 AAATAT AAATAT AAATAT AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATA
24904987 AATTAAATTA
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
5 3 0.04
6 62 0.91
7 3 0.04
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:24904919 original size:18 final size:18
Alignment explanation
Indices: 24904887--24904979 Score: 90
Period size: 18 Copynumber: 5.2 Consensus size: 18
24904877 TAATAATAAT
24904887 AATCAAAATCA-AAATCA-A
1 AATCAAAAT-ATAAAT-ATA
24904905 AATCAAAATATAAATATA
1 AATCAAAATATAAATATA
24904923 AAT-ATAAATATAAATA-A
1 AATCA-AAATATAAATATA
24904940 AA-CTAAAATTATAAATATA
1 AATC-AAAA-TATAAATATA
24904959 AAT-ATAAATATAAATATA
1 AATCA-AAATATAAATATA
24904977 AAT
1 AAT
24904980 ATAAATAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 18
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.14
18 51 0.77
19 6 0.09
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AATCAAAATATAAATATA
Found at i:24905054 original size:14 final size:13
Alignment explanation
Indices: 24905037--24905079 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
24905027 TTTTTATTTT
24905037 TAAAAAAAATAACA
1 TAAAAAAAATAA-A
24905051 TAAAAGTAAAATAAA
1 TAAAA--AAAATAAA
24905066 TAAATAAAAATAAA
1 TAAA-AAAAATAAA
24905080 AACACTCGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.50
15 5 0.19
16 8 0.31
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (13 bp):
TAAAAAAAATAAA
Found at i:24905072 original size:19 final size:20
Alignment explanation
Indices: 24905037--24905081 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
24905027 TTTTTATTTT
*
24905037 TAAAAAAAATAACATAAAAG
1 TAAAAAAAATAACATAAAAA
*
24905057 TAAAATAAATAA-ATAAAAA
1 TAAAAAAAATAACATAAAAA
24905076 TAAAAA
1 TAAAAA
24905082 CACTCGGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (20 bp):
TAAAAAAAATAACATAAAAA
Found at i:24913972 original size:42 final size:43
Alignment explanation
Indices: 24913771--24913994 Score: 290
Period size: 43 Copynumber: 5.3 Consensus size: 43
24913761 TATCTATATA
*
24913771 TAGCGGCGTTTGT-GGAAAAACGCCACTAAAGACCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTCTT
*
24913813 TAGCGGCGTTTGTGGGAACAGCGCCACTAAAGACCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTCTT
* ** * *
24913856 TAGCGGCGTTTGTGGGAAAAGCGTCGGTAAATAACATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTCTT
* *
24913899 TAGCGGCGTTTGTGGGAAAAACGTCACTAAAGACCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTCTT
* * * * ** *
24913942 TAGCGACGTTTAT-GGAAAAGTGCCGCTAAAGATTATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTCTT
24913984 TAGCGGCGTTT
1 TAGCGGCGTTT
24913995 TTCCTCATAA
Statistics
Matches: 158, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
42 45 0.28
43 113 0.72
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGACCATGTTCTT
Found at i:24915272 original size:32 final size:29
Alignment explanation
Indices: 24915193--24915272 Score: 79
Period size: 32 Copynumber: 2.6 Consensus size: 29
24915183 GAATCCCAAA
* *
24915193 AAATTTAAGTACCAACTTAAAAAAAATGTT
1 AAATTT-AGTACCAAATTAAAAAAAATGTC
*
24915223 AAGTTTAGGTACCAAATTAGAAAAAAAGTGTC
1 AAATTTA-GTACCAAATTA-AAAAAAA-TGTC
*
24915255 AAATTTGAGTACTAAATT
1 AAATTT-AGTACCAAATT
24915273 TGACCAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
29 1 0.02
30 15 0.37
31 7 0.17
32 17 0.41
33 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (29 bp):
AAATTTAGTACCAAATTAAAAAAAATGTC
Found at i:24915290 original size:90 final size:89
Alignment explanation
Indices: 24915139--24915318 Score: 215
Period size: 90 Copynumber: 2.0 Consensus size: 89
24915129 TTAAAAAAAA
* * *
24915139 TTAGGTACCAAATTAAAAAAAGGGTCAAATTCAGGTTCTAAATTGAATCCCAAAAAATTTAAGTA
1 TTAGGTACCAAATTAAAAAAAGGGTCAAATTCAGGTACTAAATTGAATCCAAAAAAATTTAACTA
* *
24915204 CCAACTTA-AAAAAAATGTTAAGT
66 CCAAATTATAAAAAAATGTCAAGT
* *
24915227 TTAGGTACCAAATTAGAAAAAAAGTGTCAAATT-TGAGTACTAAATTTG-A-CCAAAAAAAATTT
1 TTAGGTACCAAATT--AAAAAAAGGGTCAAATTCAG-GTACTAAA-TTGAATCC-AAAAAAATTT
*
24915289 AACTATCAAATTATAAAAAAATGTCAAGT
61 AACTACCAAATTATAAAAAAATGTCAAGT
24915318 T
1 T
24915319 CATTTACCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
88 14 0.18
89 3 0.04
90 43 0.55
91 18 0.23
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (89 bp):
TTAGGTACCAAATTAAAAAAAGGGTCAAATTCAGGTACTAAATTGAATCCAAAAAAATTTAACTA
CCAAATTATAAAAAAATGTCAAGT
Found at i:24915421 original size:6 final size:6
Alignment explanation
Indices: 24915410--24915446 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
24915400 CTCAGCAGCC
* *
24915410 TGTTAT TGTTAT TGTTAT TGTTAT TATTAT TATTAT T
1 TGTTAT TGTTAT TGTTAT TGTTAT TGTTAT TGTTAT T
24915447 TTAAATCTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.68
Consensus pattern (6 bp):
TGTTAT
Found at i:24920164 original size:23 final size:23
Alignment explanation
Indices: 24920137--24920187 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
24920127 TGAAAATTGG
*
24920137 GTTGATTTATGAAAAATCCTAAC
1 GTTGATTTATAAAAAATCCTAAC
* *
24920160 GTTGATTTCTAAAAAATTCTAAC
1 GTTGATTTATAAAAAATCCTAAC
24920183 GTTGA
1 GTTGA
24920188 AGGTGTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (23 bp):
GTTGATTTATAAAAAATCCTAAC
Found at i:24923299 original size:15 final size:15
Alignment explanation
Indices: 24923279--24923314 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24923269 CTAGAGTTGT
24923279 GAACACCCATATTGC
1 GAACACCCATATTGC
**
24923294 GAACACTGATATTGC
1 GAACACCCATATTGC
24923309 GAACAC
1 GAACAC
24923315 TAGTGTTACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (15 bp):
GAACACCCATATTGC
Found at i:24923315 original size:15 final size:15
Alignment explanation
Indices: 24923287--24923315 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24923277 GTGAACACCC
24923287 ATATTGCGAACACTG
1 ATATTGCGAACACTG
24923302 ATATTGCGAACACT
1 ATATTGCGAACACT
24923316 AGTGTTACGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (15 bp):
ATATTGCGAACACTG
Found at i:24940136 original size:26 final size:26
Alignment explanation
Indices: 24940105--24940158 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
24940095 ACATCAATCT
24940105 TTGTCTCATAATCAAGCATCAACAAA
1 TTGTCTCATAATCAAGCATCAACAAA
*
24940131 TTGTCTCATAATCATGCATCAACAAA
1 TTGTCTCATAATCAAGCATCAACAAA
24940157 TT
1 TT
24940159 CATGTTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (26 bp):
TTGTCTCATAATCAAGCATCAACAAA
Found at i:24941174 original size:22 final size:24
Alignment explanation
Indices: 24941121--24941174 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
24941111 AGCTTTCATT
*
24941121 TATTAAAACATACTTACGAAAAAAA
1 TATTGAAACATACTTA-GAAAAAAA
24941146 TGATTGAAACATACTT-GAAAAAAA
1 T-ATTGAAACATACTTAGAAAAAAA
24941170 T-TTGA
1 TATTGA
24941175 GCAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 4 0.15
24 9 0.33
25 1 0.04
26 13 0.48
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (24 bp):
TATTGAAACATACTTAGAAAAAAA
Found at i:24943307 original size:21 final size:21
Alignment explanation
Indices: 24943282--24943329 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
24943272 TTATTAACAT
*
24943282 AACAATTAAAATTAAAATTAA
1 AACAATTAAAATGAAAATTAA
** *
24943303 AACAACAAAAATGAAACTTAA
1 AACAATTAAAATGAAAATTAA
24943324 AA-AATT
1 AACAATT
24943330 TTTAAAACCT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (21 bp):
AACAATTAAAATGAAAATTAA
Found at i:24945063 original size:86 final size:86
Alignment explanation
Indices: 24944956--24945149 Score: 273
Period size: 86 Copynumber: 2.3 Consensus size: 86
24944946 AAAAGGACCA
* **
24944956 ATGACGAGGATCCTGTGATTGTCACGGATTCTTTTGTCATTGCGAGTATTAAATGAGAAATGAAT
1 ATGACGAAGATCCTGCAATTGTCACGGATTCTTTTGTCATTGCGAGTATTAAATGAGAAATGAAT
*
24945021 CCTATACGGATTAAAGGTCTG
66 CCTATACGGATTAAAGGTCAG
* * * * *
24945042 ATGAC-AAGGATCTTGCAATTGTCATGGATTCTTTTTTCATTGTGAGTATTAAATGAGAAATGAT
1 ATGACGAA-GATCCTGCAATTGTCACGGATTCTTTTGTCATTGCGAGTATTAAATGAGAAATGAA
*
24945106 TCGTATACGGATTAAAGGTCAG
65 TCCTATACGGATTAAAGGTCAG
*
24945128 ATGACGAAGATCCTGCATTTGT
1 ATGACGAAGATCCTGCAATTGT
24945150 TGTAGATCTC
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 1 0.01
86 91 0.97
87 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (86 bp):
ATGACGAAGATCCTGCAATTGTCACGGATTCTTTTGTCATTGCGAGTATTAAATGAGAAATGAAT
CCTATACGGATTAAAGGTCAG
Found at i:24952020 original size:598 final size:599
Alignment explanation
Indices: 24950884--24952084 Score: 2377
Period size: 598 Copynumber: 2.0 Consensus size: 599
24950874 GAGTATCTCT
24950884 GGTAAAAGTTCATTGGAATAGACACGGGCTAAAAGAGGCGACATGGGAGACAGAGGCTTCGATGC
1 GGTAAAAGTTCATTGGAATAGACACGGGCTAAAAGAGGCGACATGGGAGACAGAGGCTTCGATGC
24950949 GATAATAGTACCTTAGTCTGTTTACCGGTAAGAAATTTCAGGATGAAATTTACCTAAGGGGAGAG
66 GATAATAGTACCTTAGTCTGTTTACCGGTAAGAAATTTCAGGATGAAATTTACCTAAGGGGAGAG
*
24951014 TTGTAATAGCCAGATTTTTAGTGGTGATGGAAATAGTAATTTTGGGATCACAACTCCAACGAGTC
131 TTGTAATAGCCAGATTTTTAGAGGTGATGGAAATAGTAATTTTGGGATCACAACTCCAACGAGTC
24951079 GAGTCGTAAATTTATTTTTTTAATATTTATGACTTCTATGACATCTATTAAAATTTGGTTGTGAA
196 GAGTCGTAAATTTATTTTTTTAATATTTATGACTTCTATGACATCTATTAAAATTTGGTTGTGAA
24951144 ATCATAATGATTAGGTGATTAATTAAATAGGAAGGATTAAATTGTAAATGGTGCAAAAGTAGAGT
261 ATCATAATGATTAGGTGATTAATTAAATAGGAAGGATTAAATTGTAAATGGTGCAAAAGTAGAGT
24951209 TATAAAGGTAGAAGGATCAAAAGAATAAATTAACCTAAAGTATTAAAGTGGGTGACTTATCATGA
326 TATAAAGGTAGAAGGATCAAAAGAATAAATTAACCTAAAGTATTAAAGTGGGTGACTTATCATGA
24951274 GATATGTGGATTATAAGTAGGATTAATTAAGTTAAATGAGTGATTAGTAAAACTAATTATGAAAG
391 GATATGTGGATTATAAGTAGGATTAATTAAGTTAAATGAGTGATTAGTAAAACTAATTATGAAAG
24951339 TCCAAATATTTACAAAATCGTCATTGACTATATATATGAAATTAAAATATAAAAATGGCATATTT
456 TCCAAATATTTACAAAATCGTCATTGACTATATATATGAAATTAAAATATAAAAATGGCATATTT
24951404 CCACCTATTTCTTCATATTCTCCATGGTAAGACTAAGAAAAACTAGGGCTTTCCATTGTTAACTT
521 CCACCTATTTCTTCATATTCTCCATGGTAAGACTAAGAAAAACTAGGGCTTTCCATTGTTAACTT
24951469 GTGAGCTTGATTTA
586 GTGAGCTTGATTTA
24951483 GGTAAAAGTTCATTGGAATAGACACGGGCTAAAAGAGGCGACATGGGAGACAGAGGCTTCGATGC
1 GGTAAAAGTTCATTGGAATAGACACGGGCTAAAAGAGGCGACATGGGAGACAGAGGCTTCGATGC
24951548 GATAATAGTACCTTAGTCTGTTTACCGGTAAGAAATTTCAGGATGAAATTTACCTAAGGGGAGAG
66 GATAATAGTACCTTAGTCTGTTTACCGGTAAGAAATTTCAGGATGAAATTTACCTAAGGGGAGAG
*
24951613 TTGTAATAGCCAGATTTTTAGAGGTGATGGAAATAGTAATTTTGGGATCATAACTCCAACGAGTC
131 TTGTAATAGCCAGATTTTTAGAGGTGATGGAAATAGTAATTTTGGGATCACAACTCCAACGAGTC
24951678 GAGTCGTAAA-TTATTTTTTTAATATTTATGACTTCTATGACATCTATTAAAATTTGGTTGTGAA
196 GAGTCGTAAATTTATTTTTTTAATATTTATGACTTCTATGACATCTATTAAAATTTGGTTGTGAA
24951742 ATCATAATGATTAGGTGATTAATTAAATAGGAAGGATTAAATTGTAAATGGTGCAAAAGTAGAGT
261 ATCATAATGATTAGGTGATTAATTAAATAGGAAGGATTAAATTGTAAATGGTGCAAAAGTAGAGT
24951807 TATAAAGGTAGAAGGATCAAAAGAATAAATTAACCTAAAGTATTAAAGTGGGTGACTTATCATGA
326 TATAAAGGTAGAAGGATCAAAAGAATAAATTAACCTAAAGTATTAAAGTGGGTGACTTATCATGA
24951872 GATATGTGGATTATAAGTAGGATTAATTAAGTTAAATGAGTGATTAGTAAAACTAATTATGAAAG
391 GATATGTGGATTATAAGTAGGATTAATTAAGTTAAATGAGTGATTAGTAAAACTAATTATGAAAG
24951937 TCCAAATATTTACAAAATCGTCATTGACTATATATATGAAATTAAAATATAAAAATGGCATATTT
456 TCCAAATATTTACAAAATCGTCATTGACTATATATATGAAATTAAAATATAAAAATGGCATATTT
24952002 CCACCTATTTCTTCATATTCTCCATGGTAAGACTAAGAAAAACTAGGGCTTTCCATTGTTAACTT
521 CCACCTATTTCTTCATATTCTCCATGGTAAGACTAAGAAAAACTAGGGCTTTCCATTGTTAACTT
24952067 GTGAGCTTGATTTA
586 GTGAGCTTGATTTA
24952081 GGTA
1 GGTA
24952085 TTTTTGTAAC
Statistics
Matches: 600, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
598 397 0.66
599 203 0.34
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (599 bp):
GGTAAAAGTTCATTGGAATAGACACGGGCTAAAAGAGGCGACATGGGAGACAGAGGCTTCGATGC
GATAATAGTACCTTAGTCTGTTTACCGGTAAGAAATTTCAGGATGAAATTTACCTAAGGGGAGAG
TTGTAATAGCCAGATTTTTAGAGGTGATGGAAATAGTAATTTTGGGATCACAACTCCAACGAGTC
GAGTCGTAAATTTATTTTTTTAATATTTATGACTTCTATGACATCTATTAAAATTTGGTTGTGAA
ATCATAATGATTAGGTGATTAATTAAATAGGAAGGATTAAATTGTAAATGGTGCAAAAGTAGAGT
TATAAAGGTAGAAGGATCAAAAGAATAAATTAACCTAAAGTATTAAAGTGGGTGACTTATCATGA
GATATGTGGATTATAAGTAGGATTAATTAAGTTAAATGAGTGATTAGTAAAACTAATTATGAAAG
TCCAAATATTTACAAAATCGTCATTGACTATATATATGAAATTAAAATATAAAAATGGCATATTT
CCACCTATTTCTTCATATTCTCCATGGTAAGACTAAGAAAAACTAGGGCTTTCCATTGTTAACTT
GTGAGCTTGATTTA
Found at i:24962472 original size:23 final size:23
Alignment explanation
Indices: 24962445--24962490 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24962435 TCATACATTA
24962445 TCATCTCACATCATTCAAGATTT
1 TCATCTCACATCATTCAAGATTT
24962468 TCATCTCACATCATTCAAGATTT
1 TCATCTCACATCATTCAAGATTT
24962491 ATGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.39
Consensus pattern (23 bp):
TCATCTCACATCATTCAAGATTT
Found at i:24963172 original size:24 final size:24
Alignment explanation
Indices: 24963145--24963190 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
24963135 CGGCACAAAA
24963145 TCTTCTTCATTTTCT-TT-TTCCTTT
1 TCTTC-TC-TTTTCTCTTCTTCCTTT
24963169 TCTTCTCTTTTCTCTTCTTCCT
1 TCTTCTCTTTTCTCTTCTTCCT
24963191 CTTCAACACC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.30
23 4 0.20
24 10 0.50
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTCTCTTTTCTCTTCTTCCTTT
Found at i:24977351 original size:20 final size:21
Alignment explanation
Indices: 24977323--24977364 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
24977313 TATTGATTAT
*
24977323 AAATAGGTTTAA-TAAAGGTTA
1 AAATAGG-TTAATTAAAGCTTA
24977344 AAAT-GGTTAATTAAAGCTTA
1 AAATAGGTTAATTAAAGCTTA
24977364 A
1 A
24977365 TGAAGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (21 bp):
AAATAGGTTAATTAAAGCTTA
Found at i:24986095 original size:11 final size:11
Alignment explanation
Indices: 24986079--24986108 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
24986069 AAGCTGCCCC
24986079 AAAGAAAAAAG
1 AAAGAAAAAAG
24986090 AAAGAAAAAAG
1 AAAGAAAAAAG
24986101 AAA-AAAAA
1 AAAGAAAAA
24986109 CAAACTCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:24986629 original size:24 final size:22
Alignment explanation
Indices: 24986602--24986656 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
24986592 GGAAGAGAAC
*
24986602 GAAGAAAAGAAGGAGGAGGAAAAG
1 GAAGAAAA-AAGAAGGA-GAAAAG
*
24986626 GAAGAAGGAAAAGAAGGAGAGAAG
1 GAAGAA--AAAAGAAGGAGAAAAG
24986650 GAAGAAA
1 GAAGAAA
24986657 TTTTTATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
24 17 0.63
25 7 0.26
26 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (22 bp):
GAAGAAAAAAGAAGGAGAAAAG
Done.