Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 79 of 279
Found at i:26156453 original size:6 final size:6
Alignment explanation
Indices: 26156444--26156472 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
26156434 TTTTAATTTT
26156444 AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAAT
26156473 CACTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:26160035 original size:13 final size:13
Alignment explanation
Indices: 26160014--26160046 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
26160004 AAACTTTATT
*
26160014 ATTATTATTTTTA
1 ATTAATATTTTTA
26160027 ATTAATATTTTTA
1 ATTAATATTTTTA
26160040 ATTAATA
1 ATTAATA
26160047 AATATTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTAATATTTTTA
Found at i:26160693 original size:15 final size:15
Alignment explanation
Indices: 26160673--26160703 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
26160663 TAGAAAATAC
26160673 AAATGAGCTTAGAAG
1 AAATGAGCTTAGAAG
26160688 AAATGAGCTTAGAAG
1 AAATGAGCTTAGAAG
26160703 A
1 A
26160704 GGAATCGACC
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:0.48, C:0.06, G:0.26, T:0.19
Consensus pattern (15 bp):
AAATGAGCTTAGAAG
Found at i:26161456 original size:20 final size:20
Alignment explanation
Indices: 26161427--26161465 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26161417 ATATAATGTA
*
26161427 GAAAAATTTAAAATTTATTT
1 GAAAAATTTAAAAATTATTT
*
26161447 GAAAATTTTAAAAATTATT
1 GAAAAATTTAAAAATTATT
26161466 ACAAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
GAAAAATTTAAAAATTATTT
Found at i:26162226 original size:19 final size:19
Alignment explanation
Indices: 26162198--26162268 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 19
26162188 AATTTATTTA
26162198 TTTTATTCTATTTTCTAA-AT
1 TTTTA-TCTATTTT-TAATAT
26162218 TTTTATCTA-TTTTAATAT
1 TTTTATCTATTTTTAATAT
*
26162236 TTTTATTTA-TTTTAATAAT
1 TTTTATCTATTTTTAAT-AT
26162255 TTTTAAT-TATTTTT
1 TTTT-ATCTATTTTT
26162269 TGCTACACGT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
17 3 0.07
18 20 0.43
19 12 0.26
20 11 0.24
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATCTATTTTTAATAT
Found at i:26162239 original size:18 final size:18
Alignment explanation
Indices: 26162198--26162259 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
26162188 AATTTATTTA
26162198 TTTTATTCTATTTTCTAA-AT
1 TTTTA-TCTA-TTT-TAATAT
26162218 TTTTATCTATTTTAATAT
1 TTTTATCTATTTTAATAT
*
26162236 TTTTATTTATTTTAATAAT
1 TTTTATCTATTTTAAT-AT
26162255 TTTTA
1 TTTTA
26162260 ATTATTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
17 3 0.08
18 20 0.51
19 11 0.28
20 5 0.13
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATCTATTTTAATAT
Found at i:26162258 original size:10 final size:10
Alignment explanation
Indices: 26162227--26162268 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
26162217 TTTTTATCTA
26162227 TTTTAA-TAT
1 TTTTAATTAT
*
26162236 TTTTATTTA-
1 TTTTAATTAT
*
26162245 TTTTAATAAT
1 TTTTAATTAT
26162255 TTTTAATTAT
1 TTTTAATTAT
26162265 TTTT
1 TTTT
26162269 TGCTACACGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 12 0.44
10 15 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:26162721 original size:29 final size:29
Alignment explanation
Indices: 26162688--26162748 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
26162678 TTTTTTATGT
26162688 TTAAATTGAATATTCAAAATTAGTAAGAA
1 TTAAATTGAATATTCAAAATTAGTAAGAA
26162717 TTAAATTGAATATTCAAAATTAGTAAGAA
1 TTAAATTGAATATTCAAAATTAGTAAGAA
26162746 TTA
1 TTA
26162749 TTCTTAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (29 bp):
TTAAATTGAATATTCAAAATTAGTAAGAA
Found at i:26167535 original size:46 final size:44
Alignment explanation
Indices: 26167381--26167550 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 44
26167371 TTTGTGTGCT
** * *
26167381 AGTGTAAGACATGTCTGGGACATGCATCACCCACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-AATG-AAGCC
* * * ** * * *
26167427 AATCTAAGATCATGTCTGGGACATGTCATTGGTATTAAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCAA-ATGA-AGCC
26167475 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAAATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AAATG-AAGCC
26167521 AGTGTAAGACATGTCTGGGA-ATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
26167551 TACGAGATGT
Statistics
Matches: 98, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
45 10 0.10
46 38 0.39
47 34 0.35
48 16 0.16
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAATGAAGCC
Found at i:26173965 original size:83 final size:83
Alignment explanation
Indices: 26173826--26173990 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 83
26173816 CATGAACTTA
*
26173826 CCTCGATACTTGTTTGTAAACAATAAAAATCTATTAATCCCGAACTTTTTCCTTTCCTCGATCTA
1 CCTCGATACTTGTTTGTAAACAATAAAAATCTATTAATCCCAAACTTTTTCCTTTCCTCGATCTA
26173891 GCTTCGTATTTGAATCTC
66 GCTTCGTATTTGAATCTC
26173909 CCTCGATACTTGTTTGTAAACAATAAAAATCTATTAATCCCAAACTTTTTCCTTTCCTCGATCTA
1 CCTCGATACTTGTTTGTAAACAATAAAAATCTATTAATCCCAAACTTTTTCCTTTCCTCGATCTA
26173974 GCTTCGTATTTGAATCT
66 GCTTCGTATTTGAATCT
26173991 TCTGGATCTA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (83 bp):
CCTCGATACTTGTTTGTAAACAATAAAAATCTATTAATCCCAAACTTTTTCCTTTCCTCGATCTA
GCTTCGTATTTGAATCTC
Found at i:26180606 original size:21 final size:21
Alignment explanation
Indices: 26180582--26180646 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
26180572 AAGTCTAGCT
26180582 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
*
26180603 GAAGC-C-TGAAG-GCT-AACT
1 GAAGCACAT-AAGTGCTAAACG
26180621 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
26180642 GAAGC
1 GAAGC
26180647 TAACTGAAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 8 0.22
21 13 0.35
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:26180623 original size:39 final size:38
Alignment explanation
Indices: 26180564--26180695 Score: 161
Period size: 39 Copynumber: 3.6 Consensus size: 38
26180554 ATCGTGATCT
* *
26180564 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAAC
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
*
26180602 GGAAGCCTGAAGGCTAACTGAAGCACATAAGTGCTAAAC
1 -GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
*
26180641 ---G---GAA-GCTAACTGAAGCACATAAGTGTTAAAC
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
26180672 AGAAGCCCGAAGGCTAACTGAAGC
1 -GAAGCCCGAAGGCTAACTGAAGC
26180696 TCATCAAAGC
Statistics
Matches: 81, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
31 26 0.32
32 3 0.04
35 2 0.02
38 3 0.04
39 47 0.58
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.15
Consensus pattern (38 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC
Found at i:26180652 original size:31 final size:31
Alignment explanation
Indices: 26180614--26180677 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
26180604 AAGCCTGAAG
*
26180614 GCTAACTGAAGCACATAAGTGCTAAACGGAA
1 GCTAACTGAAGCACATAAGTGCTAAACAGAA
*
26180645 GCTAACTGAAGCACATAAGTGTTAAACAGAA
1 GCTAACTGAAGCACATAAGTGCTAAACAGAA
26180676 GC
1 GC
26180678 CCGAAGGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (31 bp):
GCTAACTGAAGCACATAAGTGCTAAACAGAA
Found at i:26189877 original size:300 final size:300
Alignment explanation
Indices: 26189329--26189921 Score: 1132
Period size: 300 Copynumber: 2.0 Consensus size: 300
26189319 ATTTATGGAT
26189329 TTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCATAGTTGTGTTCATTGATGACATCTT
1 TTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCATAGTTGTGTTCATTGATGACATCTT
26189394 GGTCTATTCAAGAGATGAGACTGAACATGCTGAACACCTGAGACTGGTGTTGAAAATTTTGCGGG
66 GGTCTATTCAAGAGATGAGACTGAACATGCTGAACACCTGAGACTGGTGTTGAAAATTTTGCGGG
26189459 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
131 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
26189524 CATGTGGTATCCGCATCGGGTATTCGAGTTGACCCGAACAAAATTTCAGCCATACTTAACTGGAA
196 CATGTGGTATCCGCATCGGGTATTCGAGTTGACCCGAACAAAATTTCAGCCATACTTAACTGGAA
*
26189589 GCCTCCAAGAAATATTACCGAAGTTCGGAGCTTCCTGGGA
261 GCCTCCAAGAAATATTACCGAAGTCCGGAGCTTCCTGGGA
26189629 TTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCATAGTTGTGTTCATTGATGACATCTT
1 TTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCATAGTTGTGTTCATTGATGACATCTT
26189694 GGTCTATTCAAGAGATGAGACTGAACATGCTGAACACCTGAGACTGGTGTTGAAAATTTTGCGGG
66 GGTCTATTCAAGAGATGAGACTGAACATGCTGAACACCTGAGACTGGTGTTGAAAATTTTGCGGG
26189759 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
131 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
* * *
26189824 CATGTGGTATCCGCATCGGGTATTCGAGTTGACCCGAGCAAAATTTTAGCCATACTTATCTGGAA
196 CATGTGGTATCCGCATCGGGTATTCGAGTTGACCCGAACAAAATTTCAGCCATACTTAACTGGAA
* *
26189889 GCCTCCGAGAAATGTTACCGAAGTCCGGAGCTT
261 GCCTCCAAGAAATATTACCGAAGTCCGGAGCTT
26189922 TCTAGGGCTC
Statistics
Matches: 287, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
300 287 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (300 bp):
TTGATGAATCGGATCTTCAGACCATATTTGGATCGGTTCATAGTTGTGTTCATTGATGACATCTT
GGTCTATTCAAGAGATGAGACTGAACATGCTGAACACCTGAGACTGGTGTTGAAAATTTTGCGGG
ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
CATGTGGTATCCGCATCGGGTATTCGAGTTGACCCGAACAAAATTTCAGCCATACTTAACTGGAA
GCCTCCAAGAAATATTACCGAAGTCCGGAGCTTCCTGGGA
Found at i:26202868 original size:41 final size:41
Alignment explanation
Indices: 26202697--26202856 Score: 177
Period size: 41 Copynumber: 3.9 Consensus size: 41
26202687 GGGTCTAAAT
26202697 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * *
26202738 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * *
26202778 CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAA
26202819 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
26202857 GAATCGGGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
39 5 0.05
40 33 0.33
41 57 0.57
42 2 0.02
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:26202878 original size:41 final size:41
Alignment explanation
Indices: 26202711--26202878 Score: 132
Period size: 41 Copynumber: 4.1 Consensus size: 41
26202701 GCTTGGTCTC
*
26202711 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTTC-
1 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTT-GATTCT
* * * *
26202752 GAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTT-AGTTCC
1 GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTGA-TTCT
* * * *
26202792 GAAGGGCCTTCGAGCCAGTGGTCTAAT--CCGAGCTTG-GTCT
1 GAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTGATTCT
* * **
26202832 CGAAGGGCTTTTGAGCCAGTGCTAAGAATCGGGCTTGATTCT
1 -GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTGATTCT
26202874 GAAGG
1 GAAGG
26202879 ATGTTTGTGC
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
39 7 0.07
40 32 0.32
41 55 0.55
42 3 0.03
43 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (41 bp):
GAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTGATTCT
Found at i:26205499 original size:43 final size:43
Alignment explanation
Indices: 26205451--26205820 Score: 731
Period size: 43 Copynumber: 8.6 Consensus size: 43
26205441 CCGGCATTAC
26205451 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
26205494 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
26205537 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
26205580 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
26205623 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
26205666 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
26205709 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
26205752 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
26205795 GCCTGCTAGGCACGAAGGCCCAAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
26205821 TAATACCAGC
Statistics
Matches: 326, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 326 1.00
ACGTcount: A:0.30, C:0.35, G:0.26, T:0.09
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:26206736 original size:40 final size:40
Alignment explanation
Indices: 26205818--26206720 Score: 1665
Period size: 40 Copynumber: 22.7 Consensus size: 40
26205808 GAAGGCCCAA
* * * ** *
26205818 ATATAATACCAGCACTAGGCCTGTAGGATTTAA--CCCTG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26205856 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26205896 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26205936 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26205976 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206016 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206056 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206096 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206136 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206176 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206216 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206256 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206296 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206336 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206376 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206416 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206456 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206496 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206536 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206576 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
26206616 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
* *
26206656 ATATATTACCAGCACGAAGCGTGCAGGATTTAA--CCCGG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
*
26206694 ATATAATT-CCAGCA-TATAGCCTGCGGG
1 ATAT-ATTACCAGCACGA-AGCCTGCGGG
26206721 TCTTTAGGCC
Statistics
Matches: 850, Mismatches: 11, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
37 1 0.00
38 51 0.06
39 3 0.00
40 795 0.94
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAAGTCCCGG
Found at i:26210351 original size:40 final size:40
Alignment explanation
Indices: 26210274--26210494 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
26210264 ACCCAAGTAT
* *
26210274 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
** *
26210313 CTTCGGGTCTTAGCTTGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
26210353 CTTCGAGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
**
26210393 CTTCGGGTCTTAGCCCGGATATAGAAACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
26210433 CTTTGGATCTTAGTCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* **
26210473 CTTTGGGAGTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
26210495 CATTCGAATA
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
38 1 0.01
39 11 0.07
40 140 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:26218305 original size:40 final size:40
Alignment explanation
Indices: 26218228--26218448 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
26218218 ACCCAAGTAT
* *
26218228 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
** *
26218267 CTTCGGGTCTTAGCTTGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
26218307 CTTCGAGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
** *
26218347 CTTCGGGTCTTAGCCCGGATATAGAAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
26218387 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
26218427 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
26218449 CATTCGAATA
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
38 1 0.01
39 11 0.07
40 139 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:26246786 original size:13 final size:13
Alignment explanation
Indices: 26246768--26246794 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26246758 GCTCGGCAGG
26246768 GACACGCCTGTGT
1 GACACGCCTGTGT
26246781 GACACGCCTGTGT
1 GACACGCCTGTGT
26246794 G
1 G
26246795 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:26278492 original size:20 final size:18
Alignment explanation
Indices: 26278464--26278518 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
26278454 GTCAAATTTT
26278464 AATATATATTATAGATATA
1 AATATATATTATAGATA-A
*
26278483 GATCATATATATATA-ATAA
1 AAT-ATATAT-TATAGATAA
26278502 AATATATATTAGTAGAT
1 AATATATATTA-TAGAT
26278519 TGTTTAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 2 0.07
18 8 0.27
19 7 0.23
20 9 0.30
21 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (18 bp):
AATATATATTATAGATAA
Found at i:26278931 original size:52 final size:52
Alignment explanation
Indices: 26278868--26278973 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
26278858 GATGCACCGT
*
26278868 TCCCATTAGTGTATAAGTCTTATGTGCTAACTATAAATAATAACATGATATA
1 TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGATATA
26278920 TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGATATA
1 TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGATATA
26278972 TC
1 TC
26278974 ATCATTAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (52 bp):
TCCCATTAGTGTATAAGTCTTATGTACTAACTATAAATAATAACATGATATA
Found at i:26284730 original size:26 final size:26
Alignment explanation
Indices: 26284701--26284751 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
26284691 GTGTCGAAAC
*
26284701 ATATTTCTCTTTTCTTTCTTCCCTTT
1 ATATTTCTCTTTTCATTCTTCCCTTT
*
26284727 ATATTTCTCTTTTCATTCTTTCCTT
1 ATATTTCTCTTTTCATTCTTCCCTT
26284752 CTAAATCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.10, C:0.25, G:0.00, T:0.65
Consensus pattern (26 bp):
ATATTTCTCTTTTCATTCTTCCCTTT
Found at i:26287518 original size:23 final size:23
Alignment explanation
Indices: 26287492--26287550 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
26287482 TAAACACCAC
*
26287492 ATGGTGTGTAGGGATGGTCAGAT
1 ATGGTGTGTAGGGATGGTCAGAG
*
26287515 ATGGTGTGTAGGGATGGTCGGAG
1 ATGGTGTGTAGGGATGGTCAGAG
26287538 ATGGTGTGTAGGG
1 ATGGTGTGTAGGG
26287551 GCTAGGGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.19, C:0.03, G:0.49, T:0.29
Consensus pattern (23 bp):
ATGGTGTGTAGGGATGGTCAGAG
Found at i:26287640 original size:35 final size:35
Alignment explanation
Indices: 26287589--26287658 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
26287579 CTGACTCCAT
**
26287589 ATCTGTATCTGTATCTG-AGATGGGCTAAGGCCCAA
1 ATCTGTATCTAAATCTGTA-ATGGGCTAAGGCCCAA
*
26287624 ATCTGTATCTAAATCTGTAATGGGCTTAGGCCCAA
1 ATCTGTATCTAAATCTGTAATGGGCTAAGGCCCAA
26287659 GACTATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (35 bp):
ATCTGTATCTAAATCTGTAATGGGCTAAGGCCCAA
Found at i:26290978 original size:46 final size:46
Alignment explanation
Indices: 26290928--26291281 Score: 345
Period size: 46 Copynumber: 7.6 Consensus size: 46
26290918 TGGTTGAGCA
26290928 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
26290974 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
26291019 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
26291067 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
26291112 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
26291160 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
26291205 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
26291253 CCCGAGCTCGTTGAGTTGAGTCCAAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
26291282 GCTGATGGGC
Statistics
Matches: 253, Mismatches: 28, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 9 0.04
46 110 0.43
47 84 0.33
48 9 0.04
50 14 0.06
51 6 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:26291045 original size:47 final size:47
Alignment explanation
Indices: 26290976--26291235 Score: 306
Period size: 47 Copynumber: 5.6 Consensus size: 47
26290966 TGCGAATGTC
26290976 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
* * * *
26291023 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATT
26291069 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
* * * *
26291116 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATT
26291162 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
26291209 CGAACTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
26291236 ACTTATGGAT
Statistics
Matches: 179, Mismatches: 16, Indels: 36
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 6 0.03
46 56 0.31
47 83 0.46
48 6 0.03
50 10 0.06
51 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATT
Found at i:26291089 original size:93 final size:93
Alignment explanation
Indices: 26290925--26291282 Score: 671
Period size: 93 Copynumber: 3.8 Consensus size: 93
26290915 GGATGGTTGA
*
26290925 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
26290990 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
26291018 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
26291083 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
26291111 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
26291176 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
26291204 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
26291269 TGAGTCCAAGTTCG
66 TGAGTCCGAGTTCG
26291283 CTGATGGGCA
Statistics
Matches: 260, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 260 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:26320835 original size:44 final size:43
Alignment explanation
Indices: 26320731--26320855 Score: 169
Period size: 44 Copynumber: 2.8 Consensus size: 43
26320721 ACCGAATCTG
* * **
26320731 GCATTTCGCCTACTAGGCTTGAAAGCCTAAATAGTATCTCACCA
1 GCATTTAGCCTACTAGGC-TCAAAGCCCGAATAGTATCTCACCA
* *
26320775 GCATTTTGCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCA
1 GCATTTAGCCTACTAGGCTCAAAGCCCGAATAGTATCTCACCA
26320818 GCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 GCATT-TAGCCTACTAGGCTCAAA-GCCCGAATAGTAT
26320856 TGTGCGATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
43 27 0.38
44 32 0.44
45 13 0.18
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
GCATTTAGCCTACTAGGCTCAAAGCCCGAATAGTATCTCACCA
Found at i:26327522 original size:88 final size:88
Alignment explanation
Indices: 26327359--26327570 Score: 295
Period size: 88 Copynumber: 2.4 Consensus size: 88
26327349 CATTCATTGC
* *
26327359 CATTTCGCCTACTAGGCTCGAAGCCCG-ATA-TCATTTCACCGACATTATAGCCTGCTAGGCTCT
1 CATTTCGCCTACTAGGCTCGAAGCCCGAATAGT-ATCTCACCGACATTATAGCCTGCTAGGCGCT
26327422 AAAGCCCAAATAGTATCTCACCGG
65 AAAGCCCAAATAGTATCTCACCGG
* *
26327446 CATTTCGCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATAGCCTGCTAGGCGC-A
1 CATTTCGCCTACTAGGCTCGAAGCCCGAATAGTATCTCACCGACATTATAGCCTGCTAGGCGCTA
* *
26327510 AAGGCCCGAATAGTATCTCACTGG
66 AA-GCCCAAATAGTATCTCACCGG
* *
26327534 CATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 CATT-TCGCCTACTAGGCTCGAA-GCCCGAATAGTAT
26327571 TGTGCGATAT
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
87 29 0.26
88 53 0.48
89 16 0.14
90 13 0.12
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (88 bp):
CATTTCGCCTACTAGGCTCGAAGCCCGAATAGTATCTCACCGACATTATAGCCTGCTAGGCGCTA
AAGCCCAAATAGTATCTCACCGG
Found at i:26327536 original size:45 final size:44
Alignment explanation
Indices: 26327365--26327570 Score: 265
Period size: 45 Copynumber: 4.7 Consensus size: 44
26327355 TTGCCATTTC
* * * *
26327365 GCCTACTAGGCTCGAAGCCCG-ATA-TCATTTCACCGACATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGT-ATCTCACCGGCATTATA
* *
26327408 GCCTGCTAGGCTCTAAAGCCCAAATAGTATCTCACCGGCATT-TC
1 GCCTGCTAGGCTC-AAAGCCCGAATAGTATCTCACCGGCATTATA
*
26327452 GCCTGCTAGGCTCGAAGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
* *
26327496 GCCTGCTAGGCGCAAAGGCCCGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACCGGCATTATA
*
26327541 GCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTAT
26327571 TGTGCGATAT
Statistics
Matches: 144, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
43 38 0.26
44 35 0.24
45 70 0.49
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:26328944 original size:56 final size:56
Alignment explanation
Indices: 26328834--26329004 Score: 209
Period size: 56 Copynumber: 3.1 Consensus size: 56
26328824 TATTACAGTT
* * * * *
26328834 TTACTCACACACGCATATCGTAA-CATATATCGATGCCAACGTAGTAAATGTGGTC
1 TTACTCACACACACATATCGGAATCACATATCGATGCCAACGTACTAAACGTGGTC
* * *
26328889 TTACTCACACACACATATCGGAATTACATATCGATGCCAATGTATTAAACGTGGTC
1 TTACTCACACACACATATCGGAATCACATATCGATGCCAACGTACTAAACGTGGTC
** * * * *
26328945 TTACTTGCACACACATATCAGAATCACATATCGATGGCAACGTCCCAAACGTGGTC
1 TTACTCACACACACATATCGGAATCACATATCGATGCCAACGTACTAAACGTGGTC
26329001 TTAC
1 TTAC
26329005 ACGTAATCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
55 21 0.21
56 78 0.79
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (56 bp):
TTACTCACACACACATATCGGAATCACATATCGATGCCAACGTACTAAACGTGGTC
Found at i:26329014 original size:43 final size:43
Alignment explanation
Indices: 26328966--26329107 Score: 207
Period size: 43 Copynumber: 3.3 Consensus size: 43
26328956 CACATATCAG
26328966 AATCACATATCGATGGCAACGTCCCAAACGTGGTCTTACACGT
1 AATCACATATCGATGGCAACGTCCCAAACGTGGTCTTACACGT
* *
26329009 AATCACATATCGATGCCAACGT-CCAAGACGTGGTCTTACACGG
1 AATCACATATCGATGGCAACGTCCCAA-ACGTGGTCTTACACGT
* * *
26329052 AATCACATATCGAT-GCTAACGTCCTAGACATGGTCTTACACGT
1 AATCACATATCGATGGC-AACGTCCCAAACGTGGTCTTACACGT
26329095 AATCACATATCGA
1 AATCACATATCGA
26329108 AAATCCTATG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
42 5 0.06
43 82 0.92
44 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
AATCACATATCGATGGCAACGTCCCAAACGTGGTCTTACACGT
Found at i:26332153 original size:43 final size:44
Alignment explanation
Indices: 26332105--26332223 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 44
26332095 AAAGCTCGTA
26332105 CAATGCCAACATCCCAGACGTGGTCTTACATGTAA-TC-AAATAT
1 CAATGCCAACATCCCAGACGTGGTCTTACATGTAAGTCTAAA-AT
* *
26332148 CAATGCC-ACTATCCCAGACAG-GGTCTTACACGTAAGTCTCAAAT
1 CAATGCCAAC-ATCCCAGAC-GTGGTCTTACATGTAAGTCTAAAAT
* * *
26332192 CGATGCCAACGTCCCAGACATGGTCTTACATG
1 CAATGCCAACATCCCAGACGTGGTCTTACATG
26332224 AAATTACATA
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 29 0.45
44 29 0.45
45 4 0.06
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (44 bp):
CAATGCCAACATCCCAGACGTGGTCTTACATGTAAGTCTAAAAT
Found at i:26339494 original size:40 final size:40
Alignment explanation
Indices: 26339457--26339641 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
26339447 GCTACTCGTT
*
26339457 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
26339497 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
26339537 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
26339576 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
26339617 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26339642 CATCATTCGA
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.61
41 15 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:26339568 original size:79 final size:81
Alignment explanation
Indices: 26339459--26339641 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
26339449 TACTCGTTCA
* *
26339459 AATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
26339522 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
26339539 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
26339602 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
26339618 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
26339642 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 30 0.33
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:26342403 original size:23 final size:23
Alignment explanation
Indices: 26342371--26342414 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
26342361 AAAATTTAAA
* *
26342371 TATAATTAAACATTAGTAACTAT
1 TATAAATAAACATTAATAACTAT
*
26342394 TATAAATAAATATTAATAACT
1 TATAAATAAACATTAATAACT
26342415 CTTGGGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TATAAATAAACATTAATAACTAT
Found at i:26343516 original size:33 final size:31
Alignment explanation
Indices: 26343474--26343571 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 31
26343464 TAATACAATA
26343474 CATTAACTATTTTTTTTTTTGGTTCTTA-GACAG
1 CATTAACTATTTTTTTTTTT--TTCTTACG-CAG
* *
26343507 CATTAACTATTTTTTGTTATTTCTTACGCAG
1 CATTAACTATTTTTTTTTTTTTCTTACGCAG
* *
26343538 CATTAACTGTTTTTTTTTTTCTTTCTTATGCAG
1 CATTAACT-ATTTTTTTTTT-TTTCTTACGCAG
26343571 C
1 C
26343572 CCCTTTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
31 17 0.30
32 9 0.16
33 30 0.54
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.55
Consensus pattern (31 bp):
CATTAACTATTTTTTTTTTTTTCTTACGCAG
Found at i:26343531 original size:31 final size:29
Alignment explanation
Indices: 26343474--26343560 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 29
26343464 TAATACAATA
26343474 CATTAACTATTTTTTTTTTTGGTTCTTA-GACAG
1 CATTAACTA--TTTTTTTTT--TTCTTACG-CAG
26343507 CATTAACTATTTTTTGTTATTTCTTACGCAG
1 CATTAACTATTTTTT-TT-TTTCTTACGCAG
*
26343538 CATTAACTGTTTTTTTTTTTCTT
1 CATTAACTATTTTTTTTTTTCTT
26343561 TCTTATGCAG
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
29 6 0.12
30 2 0.04
31 29 0.58
32 3 0.06
33 10 0.20
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.57
Consensus pattern (29 bp):
CATTAACTATTTTTTTTTTTCTTACGCAG
Found at i:26346120 original size:17 final size:17
Alignment explanation
Indices: 26346100--26346133 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26346090 AGGTTAAGGT
26346100 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
26346117 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
26346134 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:26374495 original size:20 final size:20
Alignment explanation
Indices: 26374472--26374511 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
26374462 AAATGCTAAA
**
26374472 AGAGGCACTGAAGTGCAATC
1 AGAGGCACCAAAGTGCAATC
26374492 AGAGGCACCAAAGTGCAATC
1 AGAGGCACCAAAGTGCAATC
26374512 CCGTACAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.28, T:0.12
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAATC
Found at i:26376383 original size:24 final size:24
Alignment explanation
Indices: 26376285--26376384 Score: 146
Period size: 24 Copynumber: 4.2 Consensus size: 24
26376275 AGTCTGTCAA
26376285 GAGAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGTTGATAAGG
*
26376309 GATAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGTTGATAAGG
* * *
26376333 AATAGGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGTTGATAAGG
* *
26376357 GAGAGGATTTAGGAGATGATTAGG
1 GAGAGGATTTAGGAGTTGATAAGG
26376381 GAGA
1 GAGA
26376385 ACAGTGTTGG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.35, C:0.01, G:0.39, T:0.25
Consensus pattern (24 bp):
GAGAGGATTTAGGAGTTGATAAGG
Found at i:26377832 original size:27 final size:27
Alignment explanation
Indices: 26377792--26377902 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
26377782 AGGAAGCGTC
* * *
26377792 CTGGTGGCTATGCCACAACTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
*
26377819 CTGGTGGCTCTGCCA-AATATATATGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
26377846 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
26377873 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
26377899 CTGG
1 CTGG
26377903 CAGCCGTGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 16 0.21
27 56 0.75
28 3 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:26383916 original size:29 final size:29
Alignment explanation
Indices: 26383883--26383941 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
26383873 GAAACTTTAG
26383883 TTAATTTTAGTTCCATAGGAAAAAGGGGT
1 TTAATTTTAGTTCCATAGGAAAAAGGGGT
26383912 TTAATTTTAGTTCCATAGGAAAAAGGGGT
1 TTAATTTTAGTTCCATAGGAAAAAGGGGT
26383941 T
1 T
26383942 CTGCTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.36
Consensus pattern (29 bp):
TTAATTTTAGTTCCATAGGAAAAAGGGGT
Found at i:26384253 original size:24 final size:24
Alignment explanation
Indices: 26384154--26384254 Score: 166
Period size: 24 Copynumber: 4.2 Consensus size: 24
26384144 AAGTCTGTCA
26384154 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
26384178 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
* *
26384202 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGTTGATAAG
*
26384226 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAGGATTTAGGAGTTGATAAG
26384250 GGAGA
1 GGAGA
26384255 ACAGTGTTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.33, C:0.01, G:0.41, T:0.26
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGTTGATAAG
Found at i:26386174 original size:46 final size:46
Alignment explanation
Indices: 26386121--26386257 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
26386111 TATATATACA
* * * *
26386121 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
26386167 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
**
26386213 CATCTCATACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
26386258 ATACACTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:26386374 original size:47 final size:48
Alignment explanation
Indices: 26386253--26386378 Score: 148
Period size: 51 Copynumber: 2.6 Consensus size: 48
26386243 GGCTTCGCCA
* *
26386253 CATATATACAC-TTCCACGTTCATCACATTGGCCATTCGGCCTTATCACG
1 CATATATACACATT-CACATTCATCACATTGGCCATTCGGCCTCAT-ACG
* ** *
26386302 CATATATATACAGGTTCACATTCATCACATTTTCCATTCGGCCTCAT-CT
1 CATATATACACA--TTCACATTCATCACATTGGCCATTCGGCCTCATACG
26386351 CATATATACACATTCACATTCATCACAT
1 CATATATACACATTCACATTCATCACAT
26386379 AAAATCCTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
47 16 0.24
49 22 0.33
51 27 0.40
52 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (48 bp):
CATATATACACATTCACATTCATCACATTGGCCATTCGGCCTCATACG
Found at i:26388631 original size:43 final size:43
Alignment explanation
Indices: 26388574--26388656 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
26388564 TCTATCACTC
*
26388574 TTCCTTCTTTTAATTATTCTTTCTTCCATAATATAAAGCCTCT
1 TTCCTTATTTTAATTATTCTTTCTTCCATAATATAAAGCCTCT
*
26388617 TTCCTTATTTTAATTATTCTTTCTTTCATAATATAAAGCC
1 TTCCTTATTTTAATTATTCTTTCTTCCATAATATAAAGCC
26388657 ATTAACTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.02, T:0.52
Consensus pattern (43 bp):
TTCCTTATTTTAATTATTCTTTCTTCCATAATATAAAGCCTCT
Found at i:26389614 original size:27 final size:27
Alignment explanation
Indices: 26389574--26389684 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
26389564 AGGAAGCGTC
* * *
26389574 CTGGTGGCTATGCCACAACTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
26389601 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGTT
26389628 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* * *
26389655 CTGCTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
26389681 CTGG
1 CTGG
26389685 CAGTCGTGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:26399451 original size:19 final size:19
Alignment explanation
Indices: 26399415--26399453 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26399405 TTTTCATCAT
* *
26399415 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
26399434 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
26399453 A
1 A
26399454 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:26399964 original size:28 final size:29
Alignment explanation
Indices: 26399891--26399978 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
26399881 AGCATGGCTG
* * * *
26399891 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
26399918 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
26399947 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
26399975 CCAG
1 CCAG
26399979 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:26400156 original size:28 final size:28
Alignment explanation
Indices: 26400084--26400148 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
26400074 AAATTAACCC
*
26400084 TAGGGGTATAA-ATGTCATTTTGCATACA
1 TAGGGGTATAATA-GTAATTTTGCATACA
*
26400112 TAGGGGTGTAATAGTAATTTTGCATACA
1 TAGGGGTATAATAGTAATTTTGCATACA
26400140 TAGGGGTAT
1 TAGGGGTAT
26400149 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATAGTAATTTTGCATACA
Found at i:26407265 original size:19 final size:19
Alignment explanation
Indices: 26407229--26407267 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
26407219 TTTTCATCAT
* *
26407229 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
26407248 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
26407267 A
1 A
26407268 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:26407756 original size:28 final size:29
Alignment explanation
Indices: 26407708--26407770 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
26407698 GTGACAGAGT
*
26407708 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGATACAGATAATTTGTGGCA-TAGC
26407737 CACCAGA-ACAGATAATTTGTGGCATAGC
1 CACCAGATACAGATAATTTGTGGCATAGC
26407765 CACCAG
1 CACCAG
26407771 GACGCTTCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (29 bp):
CACCAGATACAGATAATTTGTGGCATAGC
Found at i:26407923 original size:28 final size:28
Alignment explanation
Indices: 26407876--26407940 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
26407866 AAATTAACCC
*
26407876 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
26407904 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
26407932 TAGGGGTAT
1 TAGGGGTAT
26407941 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:26410853 original size:27 final size:27
Alignment explanation
Indices: 26410815--26410877 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
26410805 AGAATTAAAT
* *
26410815 CGTAAGTAAGTCCATAGTATTTCAATA
1 CGTAAATAAGTCCACAGTATTTCAATA
26410842 CGTAAATAAGTCCACAGTATTTCAATA
1 CGTAAATAAGTCCACAGTATTTCAATA
*
26410869 CATAAATAA
1 CGTAAATAA
26410878 ATTTCTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (27 bp):
CGTAAATAAGTCCACAGTATTTCAATA
Found at i:26428081 original size:47 final size:47
Alignment explanation
Indices: 26427983--26428152 Score: 149
Period size: 47 Copynumber: 3.6 Consensus size: 47
26427973 GTGCCAATGC
* *
26427983 CATGTCCCAGACATGGTCTTACA-TTG-ACTATCATCTC-GTAGCAGATG
1 CATGTCCCAGACATGGTCTTACACTAGCAC--TC-TCTCAGTAGCCGATG
*
26428030 CATGTCCCAGACAT-GTCCTACACTAGCACTCGTCTCAGT-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACTC-TCTCAGTAGCCGATG
* * * * *
26428076 CCATGTCCTAGACATGGTCTTACACTTGC-TTC-CATAATGTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCACTCTC-TCA-GTAGCCGATG
26428124 CATGTCCCAGACAT-GTCTTACACTAGCAC
1 CATGTCCCAGACATGGTCTTACACTAGCAC
26428153 ACACAAGTGA
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
45 1 0.01
46 33 0.32
47 48 0.47
48 20 0.20
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCACTCTCTCAGTAGCCGATG
Found at i:26428133 original size:94 final size:94
Alignment explanation
Indices: 26427972--26428152 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 94
26427962 ATATCGATAA
*
26427972 AGTGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCATCTCGTAGCAGATGCATGTCC
1 AGTGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCATATCGTAGCAGATGCATGTCC
26428037 CAGACATGTCCTACACTAGCACTCGTCTC
66 CAGACATGTCCTACACTAGCACTCGTCTC
* * * *
26428066 AGTGCCGATGCCATGTCCTAGACATGGTCTTACACTTG-CT-TCCATAAT-GTGGCCGATGCATG
1 AGTGCCAATGCCATGTCCCAGACATGGTCTTACA-TTGACTAT-CAT-ATCGTAGCAGATGCATG
*
26428128 TCCCAGACATGTCTTACACTAGCAC
63 TCCCAGACATGTCCTACACTAGCAC
26428153 ACACAAGTGA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
93 1 0.01
94 73 0.94
95 4 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
AGTGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCATATCGTAGCAGATGCATGTCC
CAGACATGTCCTACACTAGCACTCGTCTC
Found at i:26435774 original size:21 final size:21
Alignment explanation
Indices: 26435721--26435774 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
26435711 AAAACAGGGC
* *
26435721 ACACGCCCGTATGGAGGGGTA
1 ACACGCCCGTGTGGAAGGGTA
*
26435742 ACATGCCCGTGTGGAAGGGTA
1 ACACGCCCGTGTGGAAGGGTA
*
26435763 ACACGCCTGTGT
1 ACACGCCCGTGT
26435775 CCCCTACCCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.35, T:0.19
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGTA
Found at i:26436933 original size:46 final size:46
Alignment explanation
Indices: 26436852--26436968 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
26436842 GTGCCAATGC
26436852 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGATG
* * *
26436899 CATGTCCCAGGCATGTCTTACATTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCCGATG
* *
26436945 TATATCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
26436969 AGCACTCGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
45 2 0.03
46 46 0.75
47 13 0.21
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGATG
Found at i:26437434 original size:30 final size:30
Alignment explanation
Indices: 26437389--26437447 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
26437379 TTTTACATCT
* *
26437389 TTGGTAAAATGACCATTTTTCCCCTAGGCC
1 TTGGCAAAATAACCATTTTTCCCCTAGGCC
26437419 TTGGCAAAATAACCATTTTTCCCCTAGGC
1 TTGGCAAAATAACCATTTTTCCCCTAGGC
26437448 TCGAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
TTGGCAAAATAACCATTTTTCCCCTAGGCC
Found at i:26443841 original size:42 final size:42
Alignment explanation
Indices: 26443740--26443895 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 42
26443730 GCTCGTACAG
* * * * *
26443740 TGCCAACGTTCTAGACATGGTCTTACATGTAATCAAATATCGA
1 TGCCAACGTCCCAGACAGGGTCTTACACGTAATCAAGTA-CGA
*
26443783 TGCC-ACTATCCCAGACAGGGTCTTACACG-AATTCAAGTACGA
1 TGCCAAC-GTCCCAGACAGGGTCTTACACGTAA-TCAAGTACGA
* * *
26443825 TGCCAACGTCCTAGACATGGTCTAACACGTAAATCATAAGT-CGA
1 TGCCAACGTCCCAGACAGGGTCTTACACGT-AATC--AAGTACGA
26443869 TGCCAACGTCCCAGAC-GTGGTCTTACA
1 TGCCAACGTCCCAGACAG-GGTCTTACA
26443896 TGATAACACA
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 29 0.32
43 31 0.34
44 28 0.30
45 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
TGCCAACGTCCCAGACAGGGTCTTACACGTAATCAAGTACGA
Found at i:26447651 original size:17 final size:17
Alignment explanation
Indices: 26447629--26447661 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26447619 CCAAACGAGC
26447629 ATTTTAAAAAAATTATA
1 ATTTTAAAAAAATTATA
*
26447646 ATTTTAACAAAATTAT
1 ATTTTAAAAAAATTAT
26447662 CTTTCATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTAAAAAAATTATA
Found at i:26452516 original size:24 final size:24
Alignment explanation
Indices: 26452488--26452539 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
26452478 CCAAACTCAC
26452488 TTTTTATCTCACTTTCGTTTTCAA
1 TTTTTATCTCACTTTCGTTTTCAA
26452512 TTTTTATCTCACTTTCGTTTTCAA
1 TTTTTATCTCACTTTCGTTTTCAA
26452536 TTTT
1 TTTT
26452540 CTTTTCTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTATCTCACTTTCGTTTTCAA
Found at i:26453177 original size:4 final size:4
Alignment explanation
Indices: 26453170--26453198 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
26453160 ATGGAAAAGA
26453170 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
26453199 CCTCACCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:26454365 original size:11 final size:11
Alignment explanation
Indices: 26454349--26454382 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
26454339 TAGACATCCT
26454349 TTGAAGCTTCC
1 TTGAAGCTTCC
*
26454360 TTGAAGGTTCC
1 TTGAAGCTTCC
*
26454371 TTGAAGTTTCC
1 TTGAAGCTTCC
26454382 T
1 T
26454383 AGCATGGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (11 bp):
TTGAAGCTTCC
Found at i:26455182 original size:40 final size:42
Alignment explanation
Indices: 26455118--26455196 Score: 101
Period size: 40 Copynumber: 1.9 Consensus size: 42
26455108 AATTAAAATA
**
26455118 AAATAGCATCAAGCTCAATAAGCTAGGATT-GAGCTGAAGTG
1 AAATAGCATCAAGCTCAATAAGCTAAAATTCGAGCTGAAGTG
*
26455159 AAATAG-ATCAAG-TACAATGAGCTAAAATTCGAGCTGAA
1 AAATAGCATCAAGCT-CAATAAGCTAAAATTCGAGCTGAA
26455197 TCAAGCTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.03
40 18 0.55
41 14 0.42
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (42 bp):
AAATAGCATCAAGCTCAATAAGCTAAAATTCGAGCTGAAGTG
Found at i:26462823 original size:284 final size:284
Alignment explanation
Indices: 26462313--26462881 Score: 1084
Period size: 284 Copynumber: 2.0 Consensus size: 284
26462303 ATTTGACCAA
26462313 TTTCTAAGTTATGTACAAAAATTGGACATGGATGGAATTTTGGGAAAGTTTAGTTGTAAGGGTAT
1 TTTCTAAGTTATGTACAAAAATTGGACATGGATGGAATTTTGGGAAAGTTTAGTTGTAAGGGTAT
26462378 TTTGGTCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCTT
66 TTTGGTCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCTT
* * *
26462443 CACCATGGACGTGTATACCAAGGGATACTCCATGGCTAGGGTTTTCAAGCTTCCCAAGCTCAGTT
131 CACCATGGACGTGTATACCAAGGGAGACTCCATGGATAGGGTTTTCAAGCTTCCCAAGCTCAATT
26462508 GTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTA
196 GTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTA
*
26462573 GCTTATGCTAGCAATAATTCAACC
261 ACTTATGCTAGCAATAATTCAACC
26462597 TTTCTAAGTTATGTACAAAAATTGGACATGGATGGAATTTTGGGAAAGTTTAGTTGTAAGGGTAT
1 TTTCTAAGTTATGTACAAAAATTGGACATGGATGGAATTTTGGGAAAGTTTAGTTGTAAGGGTAT
26462662 TTTGGTCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCTT
66 TTTGGTCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCTT
* *
26462727 CACCATGGACGTGTATACCAAGGGAGGCTCCATGGATAGGGTTTTCAAGCTTTCCAAGCTCAATT
131 CACCATGGACGTGTATACCAAGGGAGACTCCATGGATAGGGTTTTCAAGCTTCCCAAGCTCAATT
26462792 GTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTA
196 GTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTA
26462857 ACTTATGCTAGCAATAATTCAACC
261 ACTTATGCTAGCAATAATTCAACC
26462881 T
1 T
26462882 AGGGTTCATA
Statistics
Matches: 279, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
284 279 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (284 bp):
TTTCTAAGTTATGTACAAAAATTGGACATGGATGGAATTTTGGGAAAGTTTAGTTGTAAGGGTAT
TTTGGTCATTTAGGGGTAAAATGAATTAAAATACAAAATTAAAAGCCAATTTTGCTCATCTTCTT
CACCATGGACGTGTATACCAAGGGAGACTCCATGGATAGGGTTTTCAAGCTTCCCAAGCTCAATT
GTAAGTCCGTTCTAACCCCGTTTTTCAAGTTCTTTACGTTTTTGGAGTCCCGGTAACTTGATTTA
ACTTATGCTAGCAATAATTCAACC
Found at i:26465654 original size:40 final size:40
Alignment explanation
Indices: 26465609--26465800 Score: 204
Period size: 40 Copynumber: 4.8 Consensus size: 40
26465599 TATAACCACA
* ** *
26465609 AGCACAAATGCTTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
26465649 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * ** *
26465689 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
26465729 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * *
26465769 AGCACAATTGCCTTCGGGACTTAGCCCAGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
26465801 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 120 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:26465733 original size:80 final size:79
Alignment explanation
Indices: 26465590--26465801 Score: 280
Period size: 80 Copynumber: 2.7 Consensus size: 79
26465580 TCTTCGAAAT
* * * * * * * * *
26465590 TTAGCCGGATATAACCACAAGCACAAATGCTTTCGGGTCTTAGCCCGGATTTAGTAACTCGCACA
1 TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACCCGCACA
26465655 AATGCCTTCGGATC
66 AATGCCTTCGGATC
*
26465669 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACCCGCAC
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACCCGCAC
*
26465734 AAATGCCTTCGGGTC
65 AAATGCCTTCGGATC
* * *
26465749 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCAGATAT
1 TTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAT
26465802 CATTCAAATG
Statistics
Matches: 116, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 4 0.03
80 112 0.97
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
TTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACCCGCACA
AATGCCTTCGGATC
Found at i:26469924 original size:27 final size:27
Alignment explanation
Indices: 26469868--26469976 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
26469858 AGCACGACTG
* *
26469868 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
26469894 CCAGAACAGATAATTGTGGCAGAGCCC
1 CCAGAACAGATAATTGTGGCAGAGCCA
26469921 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
26469948 CCAGATCAGATAGTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
26469975 CC
1 CC
26469977 GGGACGCTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.21
27 57 0.78
28 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:26469952 original size:54 final size:53
Alignment explanation
Indices: 26469868--26469973 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 53
26469858 AGCACGACTG
*
26469868 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAGAGCCC
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCC
* * * *
26469921 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAGTTGTGGCATAGCC
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCC
26469974 ACCGGGACGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 12 0.26
54 35 0.74
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAGAGCCC
Found at i:26471415 original size:25 final size:24
Alignment explanation
Indices: 26471382--26471438 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
26471372 AACTCTTGCT
*
26471382 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-A
26471408 CCTTATCAGCTCCTAAATCTTCTA
1 CCTTATCAGCTCCTAAATCTTCTA
26471432 CCTTATC
1 CCTTATC
26471439 CCCTCCTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 7 0.23
25 19 0.63
26 4 0.13
ACGTcount: A:0.21, C:0.37, G:0.05, T:0.37
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTA
Found at i:26471444 original size:24 final size:25
Alignment explanation
Indices: 26471382--26471445 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
26471372 AACTCTTGCT
* *
26471382 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCA
*
26471408 CCTTATCAGCTCCTAAATCTTCT-A
1 CCTTATCACCTCCTAAATCTTCTCA
*
26471432 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
26471446 TACTCAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 12 0.34
25 19 0.54
26 4 0.11
ACGTcount: A:0.19, C:0.41, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCA
Found at i:26477741 original size:27 final size:27
Alignment explanation
Indices: 26477687--26477797 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
26477677 AGCACGACTG
* *
26477687 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
26477713 CCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
26477740 CCAGAATAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
26477767 CCAGATCAGATAGTTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
26477794 CCAG
1 CCAG
26477798 GATGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 57 0.78
28 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:26477769 original size:54 final size:53
Alignment explanation
Indices: 26477687--26477797 Score: 159
Period size: 54 Copynumber: 2.1 Consensus size: 53
26477677 AGCACGACTG
*
26477687 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
* * * * *
26477740 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAGTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
26477794 CCAG
1 CCAG
26477798 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 11 0.22
54 40 0.78
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
Found at i:26478902 original size:17 final size:17
Alignment explanation
Indices: 26478880--26478930 Score: 102
Period size: 17 Copynumber: 3.0 Consensus size: 17
26478870 TCATTTTAAA
26478880 ATTTACACAGTTCATTT
1 ATTTACACAGTTCATTT
26478897 ATTTACACAGTTCATTT
1 ATTTACACAGTTCATTT
26478914 ATTTACACAGTTCATTT
1 ATTTACACAGTTCATTT
26478931 TAAAATTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTACACAGTTCATTT
Found at i:26480273 original size:40 final size:39
Alignment explanation
Indices: 26480199--26480423 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 39
26480189 AACCCAAGTA
* *
26480199 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
* *
26480238 CCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
26480278 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
*
26480321 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
* * *
26480361 CCTTTGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
26480401 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
26480424 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 13 0.08
40 112 0.68
41 2 0.01
43 36 0.22
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:26480319 original size:83 final size:80
Alignment explanation
Indices: 26480199--26480423 Score: 353
Period size: 83 Copynumber: 2.8 Consensus size: 80
26480189 AACCCAAGTA
* * *
26480199 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
26480263 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
26480278 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
26480343 TAGTCACTAGCACAAATG
63 TAGTCACTAGCACAAATG
* *
26480361 CCTTTGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
26480424 CATCCGAATA
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 13 0.10
80 45 0.34
81 1 0.01
82 1 0.01
83 73 0.55
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:26482610 original size:24 final size:25
Alignment explanation
Indices: 26482549--26482612 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
26482539 AACTCTTGCT
* *
26482549 CCTTGATCAGCTCTTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
26482575 CCTTATCACCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
26482599 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
26482613 TACTCAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 14 0.40
25 17 0.49
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.03, T:0.38
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:26502912 original size:137 final size:137
Alignment explanation
Indices: 26502664--26502938 Score: 514
Period size: 137 Copynumber: 2.0 Consensus size: 137
26502654 CTCAAAGCTC
* *
26502664 GATGGTTGTCCATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTTAGAGAAGCTGC
1 GATGGTTGTCCATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTCAAAGAAGCTGC
26502729 AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGCAAGACCTAGAAAACTACGGATCT
66 AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGCAAGACCTAGAAAACTACGGATCT
26502794 CAGAAAT
131 CAGAAAT
*
26502801 GATGGTTGTCTATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTCAAAGAAGCTGC
1 GATGGTTGTCCATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTCAAAGAAGCTGC
*
26502866 AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGTAAGACCTAGAAAACTACGGATCT
66 AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGCAAGACCTAGAAAACTACGGATCT
26502931 CAGAAAT
131 CAGAAAT
26502938 G
1 G
26502939 TTCTTAGACT
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (137 bp):
GATGGTTGTCCATTAGTCCAAAAAAAAGGAACATTCTTACACAGAAGCTTAGTCAAAGAAGCTGC
AATCAACGAGAACCCCTCAACAAACCGTCGATAATAACCCGCAAGACCTAGAAAACTACGGATCT
CAGAAAT
Found at i:26505965 original size:20 final size:20
Alignment explanation
Indices: 26505940--26505995 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
26505930 TATATACCAA
*
26505940 TTTAATCCATTTCAATCAAC
1 TTTAATTCATTTCAATCAAC
*
26505960 TTTAATTCATTTCAATCAAT
1 TTTAATTCATTTCAATCAAC
*
26505980 TTTAATTCAATTCAAT
1 TTTAATTCATTTCAAT
26505996 ACCAAAGTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTAATTCATTTCAATCAAC
Found at i:26506762 original size:25 final size:26
Alignment explanation
Indices: 26506734--26506800 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
26506724 TTGTTTTATC
26506734 AATATTATATAATATATATTTA-C-TT
1 AATATTATATAATATAT-TTTATCTTT
*
26506759 AATAATTAACATAATATATTTTATCTTT
1 AAT-ATT-ATATAATATATTTTATCTTT
26506787 AAT-TTATAT-ATATA
1 AATATTATATAATATA
26506801 CTTCATAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
24 5 0.14
25 6 0.17
26 9 0.25
27 11 0.31
28 5 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
AATATTATATAATATATTTTATCTTT
Found at i:26512514 original size:26 final size:26
Alignment explanation
Indices: 26512468--26512520 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
26512458 TCAAACATGC
*
26512468 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
26512494 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
26512520 A
1 A
26512521 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:26514039 original size:26 final size:26
Alignment explanation
Indices: 26514008--26514115 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
26513998 TGAAATGCCC
*
26514008 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
26514034 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
26514060 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
26514086 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
26514112 ATCA
1 ATCA
26514116 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:26525999 original size:29 final size:29
Alignment explanation
Indices: 26525964--26526037 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
26525954 GTTGTGAGAT
*
26525964 TGGCACTAAGTGTGC-AGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGA-G-TTGAAAGTACA
*
26525993 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
26526022 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
26526038 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 5 0.12
29 35 0.85
30 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:26528575 original size:32 final size:32
Alignment explanation
Indices: 26528534--26528634 Score: 193
Period size: 32 Copynumber: 3.2 Consensus size: 32
26528524 TGTTATTTTA
26528534 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
1 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
26528566 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
1 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
*
26528598 CTTAAGTTTGTTTATCGAATTACTAAACTAAC
1 CTTAAGTTTGTTTATTGAATTACTAAACTAAC
26528630 CTTAA
1 CTTAA
26528635 CTATTAACAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (32 bp):
CTTAAGTTTGTTTATTGAATTACTAAACTAAC
Found at i:26536908 original size:24 final size:24
Alignment explanation
Indices: 26536875--26536950 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 24
26536865 TCTCTCTCAC
26536875 TTTTTC-CTTTCTTTTTTTCAATT
1 TTTTTCTCTTTCTTTTTTTCAATT
* * *
26536898 TTTTTCTCTTTATCTTTTTCACTCT
1 TTTTTCTCTTTCTTTTTTTCAAT-T
26536923 TTTTT-TCTTGTACTTTTTCTTTCAATT
1 TTTTTCTCTT-T-C-TTTT-TTTCAATT
26536950 T
1 T
26536951 CACTTGATCT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
23 6 0.15
24 17 0.41
25 7 0.17
27 5 0.12
28 6 0.15
ACGTcount: A:0.09, C:0.18, G:0.01, T:0.71
Consensus pattern (24 bp):
TTTTTCTCTTTCTTTTTTTCAATT
Found at i:26541471 original size:11 final size:10
Alignment explanation
Indices: 26541448--26541481 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
26541438 TATATGTATG
26541448 TATCATGGCA
1 TATCATGGCA
26541458 TATCATGTGCA
1 TATCATG-GCA
26541469 TATCATGGCA
1 TATCATGGCA
26541479 TAT
1 TAT
26541482 TATGTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (10 bp):
TATCATGGCA
Found at i:26541494 original size:21 final size:21
Alignment explanation
Indices: 26541449--26541494 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
26541439 ATATGTATGT
* *
26541449 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGTACAA
*
26541470 ATCATGGCATATTATGTACAA
1 ATCATGGCATATCATGTACAA
26541491 ATCA
1 ATCA
26541495 GTATCACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATCATGGCATATCATGTACAA
Found at i:26548769 original size:31 final size:31
Alignment explanation
Indices: 26548733--26548844 Score: 172
Period size: 31 Copynumber: 3.6 Consensus size: 31
26548723 CTCATAATAT
*
26548733 ACTGGGCCGAAGCTTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
*
26548764 ACTGGGCCGAAGCCTATT-CATTATTCATATC
1 ACTGGGCCGAAGCCT-TTACATTATTCATACC
*
26548795 ACTGGGCTGAAGCCTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
*
26548826 ACTGGGTCGAAGCCTTTAC
1 ACTGGGCCGAAGCCTTTAC
26548845 TGTAAACGGT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
30 2 0.03
31 69 0.95
32 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATTCATACC
Found at i:26549065 original size:25 final size:25
Alignment explanation
Indices: 26549052--26549157 Score: 121
Period size: 25 Copynumber: 4.2 Consensus size: 25
26549042 GGAGGCCTAG
26549052 CCTTTTTTAATAACTGGGGCAAAGC
1 CCTTTTTTAATAACTGGGGCAAAGC
26549077 CCTTTTTTAATAACTGGGGCAAAGC
1 CCTTTTTTAATAACTGGGGCAAAGC
*
26549102 CCTTTTCGGT-A-AACTGGGGCAAAGC
1 CCTTTT--TTAATAACTGGGGCAAAGC
* *
26549127 CCTTTTCGGT-A-AACTGGGGCATAGC
1 CCTTTT--TTAATAACTGGGGCAAAGC
26549152 CCTTTT
1 CCTTTT
26549158 GCATTTCCTC
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 75 0.97
26 1 0.01
27 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTTTTTTAATAACTGGGGCAAAGC
Found at i:26549227 original size:11 final size:10
Alignment explanation
Indices: 26549204--26549237 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
26549194 TATATGTATG
26549204 TATCATGGCA
1 TATCATGGCA
26549214 TATCATGTGCA
1 TATCATG-GCA
26549225 TATCATGGCA
1 TATCATGGCA
26549235 TAT
1 TAT
26549238 TATGTACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (10 bp):
TATCATGGCA
Found at i:26549250 original size:21 final size:21
Alignment explanation
Indices: 26549205--26549250 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
26549195 ATATGTATGT
* *
26549205 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGTACAA
*
26549226 ATCATGGCATATTATGTACAA
1 ATCATGGCATATCATGTACAA
26549247 ATCA
1 ATCA
26549251 GTATCACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATCATGGCATATCATGTACAA
Found at i:26553466 original size:21 final size:22
Alignment explanation
Indices: 26553422--26553472 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
26553412 TTACCTACAT
26553422 TTAAACACATTAAATTGAACTTA
1 TTAAACACATTAAA-TGAACTTA
* *
26553445 TTAAACACATTTAA-GCACTTA
1 TTAAACACATTAAATGAACTTA
*
26553466 TTGAACA
1 TTAAACA
26553473 TGCACTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.48
23 13 0.52
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (22 bp):
TTAAACACATTAAATGAACTTA
Found at i:26556951 original size:56 final size:54
Alignment explanation
Indices: 26556832--26556988 Score: 172
Period size: 56 Copynumber: 2.8 Consensus size: 54
26556822 CATGACATAG
* * *
26556832 CACGCCTCTCAACAGGGCTACATATGAGCACTCGGACCTAGCATGCATCACAATAC
1 CACGCCTCTCAACAGGGCTACATA--AGCTCTCGGACCTAGCATGTACCACAATAC
* * *
26556888 CACGCCTCTGAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTA-
1 CACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCATGTACCAC--AA-TAC
* * * *
26556944 CATGCCTCTCAACGGGGCTACACAAGCTCTTGGACCTAGCATGTA
1 CACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCATGTA
26556989 TCATGTCATC
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 20 0.24
56 63 0.74
57 2 0.02
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCTCGGACCTAGCATGTACCACAATAC
Found at i:26559112 original size:9 final size:9
Alignment explanation
Indices: 26559098--26559122 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26559088 TAAAGACTCA
26559098 AACTAAATT
1 AACTAAATT
26559107 AACTAAATT
1 AACTAAATT
26559116 AACTAAA
1 AACTAAA
26559123 ATCAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (9 bp):
AACTAAATT
Found at i:26562242 original size:42 final size:42
Alignment explanation
Indices: 26562195--26562277 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
26562185 CCTTAAAGTG
26562195 TGTTTTGGACTAAATTGAA-CAATTAGATGATTAAATAAGTTT
1 TGTTTTGGACTAAATTGAATCAA-TAGATGATTAAATAAGTTT
*
26562237 TGTTTTGGACTAAATTGAATGAATAGATGATTAAATAAGTT
1 TGTTTTGGACTAAATTGAATCAATAGATGATTAAATAAGTT
26562278 AATTTTGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.40
Consensus pattern (42 bp):
TGTTTTGGACTAAATTGAATCAATAGATGATTAAATAAGTTT
Found at i:26562534 original size:40 final size:41
Alignment explanation
Indices: 26562490--26562573 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 41
26562480 TTCAAATATA
* * *
26562490 TATATATGGCACTTAGTGTGCGA-TTCAAGATAGCTTCGGC
1 TATATATGGCACTTAATGTGCGAGATCAAGATAGCTTCAGC
*
26562530 TATATATGGCACTTAATGTGCGAGATCGAGATAGCTTCAGC
1 TATATATGGCACTTAATGTGCGAGATCAAGATAGCTTCAGC
26562571 TAT
1 TAT
26562574 GTGTGCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 22 0.56
41 17 0.44
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (41 bp):
TATATATGGCACTTAATGTGCGAGATCAAGATAGCTTCAGC
Found at i:26565955 original size:46 final size:45
Alignment explanation
Indices: 26565862--26565947 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
26565852 TACATTTCAC
* *
26565862 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
26565908 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
26565948 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:26567301 original size:25 final size:25
Alignment explanation
Indices: 26567273--26567394 Score: 172
Period size: 25 Copynumber: 4.8 Consensus size: 25
26567263 CTCTTTTAAT
26567273 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
26567298 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
**
26567323 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* * *
26567348 AACTAGGGTATAAGCCTTTTTCGGTA
1 AACTGGGGCA-AAGCCCTTTTCGGTA
*
26567374 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
26567395 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 56 0.64
26 31 0.36
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:26572350 original size:13 final size:13
Alignment explanation
Indices: 26572332--26572361 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
26572322 ACTATAATAA
26572332 ACAAGGTAAAATG
1 ACAAGGTAAAATG
26572345 ACAAGGTAAAATG
1 ACAAGGTAAAATG
26572358 ACAA
1 ACAA
26572362 AATCAAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.20, T:0.13
Consensus pattern (13 bp):
ACAAGGTAAAATG
Found at i:26572700 original size:64 final size:64
Alignment explanation
Indices: 26572622--26572748 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
26572612 ATGATTTGTT
* *
26572622 GAGTATATTTCATACGAACTAACTAGGCTTTATAGTTTACTTGGTTTATTTTTCTATGTTTTAA
1 GAGTAAATTTCATACGAACTAACTAGGCTTTATAGTTTACTTGATTTATTTTTCTATGTTTTAA
*
26572686 GAGTAAATTTCATACGAACTTACTAGGCTTTATAGTTTACTTGATTTATTTTTCTATGTTTTA
1 GAGTAAATTTCATACGAACTAACTAGGCTTTATAGTTTACTTGATTTATTTTTCTATGTTTTA
26572749 TAGTCTTTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (64 bp):
GAGTAAATTTCATACGAACTAACTAGGCTTTATAGTTTACTTGATTTATTTTTCTATGTTTTAA
Found at i:26576249 original size:40 final size:39
Alignment explanation
Indices: 26576189--26576299 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
26576179 CTCGGTATCG
*
26576189 CACACTTAGTGCCTCA--TATAGCTGAAGCTATACCATTTCA
1 CACACTTAGTG-CT-ATTTATAGCTGAAGCTATACCA-ATCA
* *** *
26576229 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCTGAAGCTA-TACCAATCA
26576269 CACACTTAGTGCTATTTATAGCTGAAGCTAT
1 CACACTTAGTGCTATTTATAGCTGAAGCTAT
26576300 TTTGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 55 0.90
41 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (39 bp):
CACACTTAGTGCTATTTATAGCTGAAGCTATACCAATCA
Found at i:26576300 original size:40 final size:40
Alignment explanation
Indices: 26576229--26576320 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
26576219 TACCATTTCA
26576229 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
*
26576269 CACACTTAGTGCTATTTATAGCTGAAGCTATTTTGAATCG
1 CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
*
26576309 CAGACTTAGTGC
1 CACACTTAGTGC
26576321 CAAATGCAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (40 bp):
CACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCG
Found at i:26583743 original size:40 final size:40
Alignment explanation
Indices: 26583695--26583783 Score: 169
Period size: 40 Copynumber: 2.2 Consensus size: 40
26583685 AGCATCACAG
26583695 ACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCGCAC
1 ACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCGCAC
*
26583735 ACTTAGTGCTATTTATAGTCGAAGCTATTTTGAATCGCAC
1 ACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCGCAC
26583775 ACTTAGTGC
1 ACTTAGTGC
26583784 CAAATGCAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (40 bp):
ACTTAGTGCTATTTATAGCCGAAGCTATTTTGAATCGCAC
Found at i:26591820 original size:21 final size:22
Alignment explanation
Indices: 26591796--26591836 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
26591786 TACCTCATTC
*
26591796 TTTCCTTTCT-TTTTTTTCTAA
1 TTTCCTTTCTCTTTCTTTCTAA
*
26591817 TTTCTTTTCTCTTTCTTTCT
1 TTTCCTTTCTCTTTCTTTCT
26591837 CACTTTTCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCCTTTCTCTTTCTTTCTAA
Found at i:26595176 original size:38 final size:38
Alignment explanation
Indices: 26595093--26595206 Score: 117
Period size: 38 Copynumber: 3.0 Consensus size: 38
26595083 TTAAAACATG
* * * **
26595093 TATTAAAGATGTTCACACTAGGACATAATTAAAGACAGA
1 TATTAATGATGTTCA-ATTATGACATAATTAAAGACTCA
*
26595132 -AATAATGATGTTCAGATTATGACATAATTAAA-ACTCA
1 TATTAATGATGTTCA-ATTATGACATAATTAAAGACTCA
*
26595169 TATTAATGTTG-TCAAGTTATGACATAATTAAAGACTCA
1 TATTAATGATGTTCAA-TTATGACATAATTAAAGACTCA
26595207 AACTAAATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.02
37 22 0.35
38 40 0.63
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (38 bp):
TATTAATGATGTTCAATTATGACATAATTAAAGACTCA
Found at i:26595221 original size:9 final size:9
Alignment explanation
Indices: 26595207--26595231 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26595197 TAAAGACTCA
26595207 AACTAAATT
1 AACTAAATT
26595216 AACTAAATT
1 AACTAAATT
26595225 AACTAAA
1 AACTAAA
26595232 ATCGAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (9 bp):
AACTAAATT
Found at i:26595381 original size:20 final size:20
Alignment explanation
Indices: 26595345--26595382 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26595335 TGCAGTGTGA
* *
26595345 AAAATTCTATATTTTTCTAT
1 AAAATTCTAAATGTTTCTAT
26595365 AAAATTCTAAATGTTTCT
1 AAAATTCTAAATGTTTCT
26595383 GATTTAGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAATTCTAAATGTTTCTAT
Found at i:26596225 original size:20 final size:20
Alignment explanation
Indices: 26596200--26596237 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26596190 GGGACTAAAA
* *
26596200 TGAAAAGTTGTAAAATTTGG
1 TGAAAAATTCTAAAATTTGG
26596220 TGAAAAATTCTAAAATTT
1 TGAAAAATTCTAAAATTT
26596238 TATGAATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.37
Consensus pattern (20 bp):
TGAAAAATTCTAAAATTTGG
Found at i:26596243 original size:20 final size:20
Alignment explanation
Indices: 26596199--26596243 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
26596189 AGGGACTAAA
* *
26596199 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
26596219 GTGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
26596239 ATGAA
1 ATGAA
26596244 TACATGTGCT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:26601690 original size:28 final size:27
Alignment explanation
Indices: 26601628--26601728 Score: 112
Period size: 28 Copynumber: 3.7 Consensus size: 27
26601618 CTCGATTTAC
**
26601628 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTAATTTGT
26601655 AAAATTACTAAAATACCTCCTAATTTGT
1 AAAATTACTAAAATACC-CCTAATTTGT
* * * *
26601683 AAAATTACTGAAATACCCTTGACTTGT
1 AAAATTACTAAAATACCCCTAATTTGT
* *
26601710 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
26601729 TCGATTTATA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 24 0.38
28 39 0.62
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTAATTTGT
Found at i:26601744 original size:55 final size:54
Alignment explanation
Indices: 26601614--26601744 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 54
26601604 ATTACTGTTT
* ** *
26601614 TACCCTCGATTTACAAAATTACTAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAA
* * * * *
26601668 TA-CCTCCTAATTTGTAAAATTACTGAAATACCCTTGACTTGTAAAAATTACCAAAG
1 TACCCT-C-GATTTATAAAATTACTAAAATACCCCTGACTTGT-AAAATTACCAAAA
*
26601724 TACCCTCGATTTATAGAATTA
1 TACCCTCGATTTATAAAATTA
26601745 TTGTTTTACC
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
53 3 0.05
54 3 0.05
55 38 0.62
56 14 0.23
57 3 0.05
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAAAA
Found at i:26601805 original size:27 final size:27
Alignment explanation
Indices: 26601533--26601815 Score: 169
Period size: 27 Copynumber: 10.4 Consensus size: 27
26601523 ATTACCAAAG
* * *
26601533 TACCCTCGATTTACAGAATTACTATTC
1 TACCCTCGATTTATAAAATTACTATTT
* *
26601560 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTATTT
* *
26601587 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTATTT
* ***
26601614 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTATTT
* * ***
26601641 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACTATTT
* * **
26601668 TA-CCTCCTAATTTGTAAAATTACTGA-AA
1 TACCCT-C-GATTTATAAAATTACT-ATTT
* * ***
26601696 TACCCTTGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TATAAAATTACTATTT
* * *
26601724 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACTATTT
* * *
26601751 TACCTTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTATTT
* **
26601778 TACCCTTGATTTATAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTATTT
*
26601805 TACTCTCGATT
1 TACCCTCGATT
26601816 GTGAAATTAC
Statistics
Matches: 206, Mismatches: 41, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.02
27 157 0.76
28 39 0.19
29 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTATTT
Found at i:26601998 original size:27 final size:27
Alignment explanation
Indices: 26601614--26602000 Score: 197
Period size: 27 Copynumber: 14.3 Consensus size: 27
26601604 ATTACTGTTT
* ** *
26601614 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * *
26601641 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* * **
26601668 TACCTCCTAATTTGTAAAATTACTGAAA
1 TACC-CTTGATTTGTAAAATTACCAAAA
* *
26601696 TACCCTTGACTTGTAAAAATTACCAAAG
1 TACCCTTGATTTGT-AAAATTACCAAAA
* * * ******
26601724 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTTGATTTGTAAAATTACCAAAA
** * * ***
26601751 TA-CCTTCGATTTACAGAATTACTATTT
1 TACCCTT-GATTTGTAAAATTACCAAAA
* ****
26601778 TACCCTTGATTTATAAAATTACCGTTT
1 TACCCTTGATTTGTAAAATTACCAAAA
* * * **
26601805 TACTCTCGA-TTGTGAAATTACTGAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* ** *
26601831 TACCCCT-ATAGGGTAGAATTACCAAAA
1 TACCCTTGAT-TTGTAAAATTACCAAAA
* *
26601858 CACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAA
* * *
26601885 TACCATTGGTTTGTGAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
26601912 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* ** *
26601939 TACCCCTGATTTACAAAATTACAAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* *
26601966 TACCCTTGATTTGTAGATTTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
*
26601993 CACCCTTG
1 TACCCTTG
26602001 TAAGATGAAA
Statistics
Matches: 278, Mismatches: 74, Indels: 16
0.76 0.20 0.04
Matches are distributed among these distances:
25 1 0.00
26 18 0.06
27 209 0.75
28 50 0.18
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTGTAAAATTACCAAAA
Found at i:26602827 original size:20 final size:20
Alignment explanation
Indices: 26602802--26602868 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
26602792 GATATGATAT
*
26602802 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
26602822 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
26602842 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
26602862 ACATGAT
1 ACATGAT
26602869 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:26602997 original size:52 final size:50
Alignment explanation
Indices: 26602918--26603029 Score: 188
Period size: 52 Copynumber: 2.2 Consensus size: 50
26602908 GAGGAAGTGC
*
26602918 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAA-GGATT-TGCCCCAGTTTACCG
*
26602970 GAAAGGGCTTATGCCCCAGTTTATTGAAAAGGATTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGATTTGCCCCAGTTTACCG
26603020 AAAAGGGCTT
1 AAAAGGGCTT
26603030 TGCACAAGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 24 0.42
51 4 0.07
52 29 0.51
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGATTTGCCCCAGTTTACCG
Found at i:26603039 original size:25 final size:26
Alignment explanation
Indices: 26602918--26603029 Score: 156
Period size: 26 Copynumber: 4.4 Consensus size: 26
26602908 GAGGAAGTGC
**
26602918 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
26602944 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
26602970 GAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
26602996 AAAA-GGATT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
26603020 AAAAGGGCTT
1 AAAAGGGCTT
26603030 TGCACAAGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
24 17 0.23
25 8 0.11
26 50 0.67
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Done.