Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold45
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: 1930935
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 50924 characters in sequence are not A, C, G, or T
File 3 of 7
Found at i:479500 original size:44 final size:45
Alignment explanation
Indices: 479450--479644 Score: 141
Period size: 44 Copynumber: 4.4 Consensus size: 45
479440 TAGATCACAT
479450 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACT-AAG-TAAG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACTAAAGAT-AG
* * * * *
479494 CAGGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTAAAGATGG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACTAAAGATAG
* * * * * **
479539 C-GGATTTTACCTCCCTGAGGTTACAGTGGAGTAGATTGAAGCCA-
1 CAGG-TCTTATCTCCCTGAGGTTACAGTGGAGCAGACTAAAGATAG
* * * * * *
479583 CTA-ATCCTATCTCTCTGAGGTTACAGCGGAGCAGATTAAA-ATAA
1 C-AGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACTAAAGATAG
* *
479627 CAGATCTTATCTCTCTGA
1 CAGGTCTTATCTCCCTGA
479645 AGTCGCAGCA
Statistics
Matches: 116, Mismatches: 28, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
43 2 0.02
44 80 0.69
45 33 0.28
46 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (45 bp):
CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACTAAAGATAG
Found at i:479758 original size:24 final size:24
Alignment explanation
Indices: 479731--479802 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
479721 TGCAAGCCCC
479731 ATGTCCCTGACTTTGCAGTGGAGT
1 ATGTCCCTGACTTTGCAGTGGAGT
*
479755 ATGTCCCTGACTTTGCAGTGGGGT
1 ATGTCCCTGACTTTGCAGTGGAGT
* *
479779 ATGTCCTTGACTTAGCAGTGGAGT
1 ATGTCCCTGACTTTGCAGTGGAGT
479803 GGATTGGAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (24 bp):
ATGTCCCTGACTTTGCAGTGGAGT
Found at i:481127 original size:25 final size:23
Alignment explanation
Indices: 481067--481145 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 23
481057 ATTTTAATAA
481067 TTTAATTAT-TATTAATTTATTT
1 TTTAATTATATATTAATTTATTT
*
481089 TTTAATTTTCATATGTAA-TTATTTT
1 TTTAATTAT-ATAT-TAATTTA-TTT
481114 TTTAATCTATATATATGTATATTTATTT
1 TTTAA--T-TATATAT-TA-ATTTATTT
481142 TTTA
1 TTTA
481146 TGTACATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
22 8 0.17
24 6 0.13
25 11 0.24
27 8 0.17
28 10 0.22
29 3 0.07
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (23 bp):
TTTAATTATATATTAATTTATTT
Found at i:481174 original size:20 final size:21
Alignment explanation
Indices: 481137--481176 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
481127 TATGTATATT
**
481137 TATTTTTTATGTACATATTTA
1 TATTTTTTAACTACATATTTA
481158 TATTTTTTAACTA-ATATTT
1 TATTTTTTAACTACATATTT
481177 TTCTCATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTTTTAACTACATATTTA
Found at i:482354 original size:24 final size:24
Alignment explanation
Indices: 482327--482376 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
482317 TCTAGAATAG
*
482327 TTAGAATTTATTAGTATAATATAT
1 TTAGAATTTATTAGCATAATATAT
* *
482351 TTAGCATTTATTAGCATAATTTAT
1 TTAGAATTTATTAGCATAATATAT
482375 TT
1 TT
482377 GACCTATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
TTAGAATTTATTAGCATAATATAT
Found at i:485256 original size:17 final size:17
Alignment explanation
Indices: 485231--485267 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
485221 GACATTGAGA
* *
485231 CATCTAATCATATTTAC
1 CATCAAATCATACTTAC
485248 CATCAAATCATACTTAC
1 CATCAAATCATACTTAC
485265 CAT
1 CAT
485268 TCCAAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (17 bp):
CATCAAATCATACTTAC
Found at i:488618 original size:20 final size:21
Alignment explanation
Indices: 488573--488619 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
488563 ATATATTCCG
*
488573 ACACATATCAATCACATATAA
1 ACACATATCAATCACATACAA
* *
488594 GCACATAT-AATTACATACAA
1 ACACATATCAATCACATACAA
488614 ACACAT
1 ACACAT
488620 TTAGTCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.23
Consensus pattern (21 bp):
ACACATATCAATCACATACAA
Found at i:513372 original size:342 final size:342
Alignment explanation
Indices: 512747--513423 Score: 1165
Period size: 342 Copynumber: 2.0 Consensus size: 342
512737 TTCCTAATCA
* *
512747 TTTTGTCTCTCACTTTGGAACCAACTAGTTCCAATCTAACTGAAGTGGAATCAAATTCCAACTAT
1 TTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCTAACTGAAGTGGAATCAAATTCCAACTAG
* *
512812 TTATAATTCAGCTGCTAAAATTTTCTAATCTCCCATTGGAGTCCCACAATTTACTAGTCCTTTCA
66 TTATAATTCAGCCGCTAAAATTTTCTAACCTCCCATTGGAGTCCCACAATTTACTAGTCCTTTCA
* * *
512877 ATTTAATCCTAGCTTTCCCAACTTTCGGGGTAATTAGGATAATCGGGAGTTACACACTCTCACTG
131 ATTTAATCCTAGCTTTCCCAACATTCGGGGTAATTAGGATAACCAGGAGTTACACACTCTCACTG
* *
512942 TACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAAGATGGAACAAGGAGGAGATCAAGG
196 CACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAAGATGCAACAAGGAGGAGATCAAGG
513007 TGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGACAAACT
261 TGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGACAAACT
513072 GATTGAAAAGATAATGT
326 GATTGAAAAGATAATGT
* *
513089 TTTTGTCTCTCACTTTGGAACCAGCAAGTTCCAATCTAACTGAAGTGGAATCAAATTCCAGCTAG
1 TTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCTAACTGAAGTGGAATCAAATTCCAACTAG
* * ** *
513154 TTATAATTTAGCCGCTAAAATTTTCTAGCCTCTTATTGGAGTCCCGCAATTTACTAGTCCTTTCA
66 TTATAATTCAGCCGCTAAAATTTTCTAACCTCCCATTGGAGTCCCACAATTTACTAGTCCTTTCA
* *
513219 ATTTAATCCTAGCTTTCCCAACATTCGGGGTAATTAGGGTAACCAGGAGTTTCACACTCTCACTG
131 ATTTAATCCTAGCTTTCCCAACATTCGGGGTAATTAGGATAACCAGGAGTTACACACTCTCACTG
*
513284 CACCAATTTTTGATACAAAGTATAACAAAGGAGGAAGACAAGATGCAACAAGGAGGAGATCAAGG
196 CACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAAGATGCAACAAGGAGGAGATCAAGG
* *
513349 TGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAGAGGACAGACT
261 TGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGACAAACT
513414 GATTGAAAAG
326 GATTGAAAAG
513424 GTAAATGCTT
Statistics
Matches: 314, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
342 314 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (342 bp):
TTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCTAACTGAAGTGGAATCAAATTCCAACTAG
TTATAATTCAGCCGCTAAAATTTTCTAACCTCCCATTGGAGTCCCACAATTTACTAGTCCTTTCA
ATTTAATCCTAGCTTTCCCAACATTCGGGGTAATTAGGATAACCAGGAGTTACACACTCTCACTG
CACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAAGATGCAACAAGGAGGAGATCAAGG
TGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGACAAACT
GATTGAAAAGATAATGT
Found at i:516667 original size:2 final size:2
Alignment explanation
Indices: 516662--516692 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
516652 GAAAACACAC
516662 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
516693 AGGATATGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:517888 original size:2 final size:2
Alignment explanation
Indices: 517881--517909 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
517871 ATGAAAAACA
517881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
517910 AGGCTTAATC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:519212 original size:15 final size:14
Alignment explanation
Indices: 519192--519224 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
519182 TTTGTGTACC
519192 CTTTTCAATAATTTT
1 CTTTTCAAT-ATTTT
519207 CTTTTCAATATTTT
1 CTTTTCAATATTTT
519221 -TTTT
1 CTTTT
519225 GGACGGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTTCAATATTTT
Found at i:520108 original size:41 final size:41
Alignment explanation
Indices: 519967--520113 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 41
519957 ACAGTGTTAC
*
519967 CGGCGTTTTCCCCATAAACGCCACAAAAGGTAAAACAATAG
1 CGGCGTTTTACCCATAAACGCCACAAAAGGTAAAACAATAG
* * *** * * *
520008 CAGTGTTTTTTGCATCAATGCCACAAAAGGTTAAAAACAATTG
1 CGGCGTTTTACCCATAAACGCCACAAAAGG-T-AAAACAATAG
* * * * *
520051 CGGCATTTTTA-TCATAAACGCCTCTAAAGGTAAAGCAATAG
1 CGGC-GTTTTACCCATAAACGCCACAAAAGGTAAAACAATAG
520092 CGGCGTTTTACCCATAAACGCC
1 CGGCGTTTTACCCATAAACGCC
520114 GCGAATACTT
Statistics
Matches: 81, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
40 5 0.06
41 45 0.56
42 2 0.02
43 25 0.31
44 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (41 bp):
CGGCGTTTTACCCATAAACGCCACAAAAGGTAAAACAATAG
Found at i:523953 original size:24 final size:25
Alignment explanation
Indices: 523906--523964 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
523896 TTGAATTCAA
* * **
523906 TTTATTTCTTATATATTTTTATA-G
1 TTTATTACTTATATAATTGAATAGG
523930 TTTATTACTTATATAATTGAATAGG
1 TTTATTACTTATATAATTGAATAGG
523955 TTTATTACTT
1 TTTATTACTT
523965 CAATTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (25 bp):
TTTATTACTTATATAATTGAATAGG
Found at i:524061 original size:10 final size:10
Alignment explanation
Indices: 524039--524076 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
524029 GACTATAAAT
524039 ATATATGAAAA
1 ATAT-TGAAAA
*
524050 ATATTTAAAA
1 ATATTGAAAA
524060 ATATTGAAAA
1 ATATTGAAAA
524070 ATATTGA
1 ATATTGA
524077 TACACCTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 21 0.84
11 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (10 bp):
ATATTGAAAA
Found at i:524069 original size:20 final size:21
Alignment explanation
Indices: 524034--524074 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
524024 ATTTAGACTA
*
524034 TAAATATATATGAAAAATATT
1 TAAAAATATATGAAAAATATT
524055 TAAAAATAT-TGAAAAATATT
1 TAAAAATATATGAAAAATATT
524075 GATACACCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (21 bp):
TAAAAATATATGAAAAATATT
Found at i:526403 original size:49 final size:49
Alignment explanation
Indices: 526348--526726 Score: 459
Period size: 49 Copynumber: 7.6 Consensus size: 49
526338 AAGGAAATAT
*
526348 AATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATTAAAACAG
1 AATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAACAG
*
526397 AATTTAATTATTATTATTTAAAAGAGTTTTAAATAAA-AGATAATTAAATTC--
1 AATTT-A--ATTATTATTTAAAAGAGTTTTAAATAAATA-ATAATTAAA-ACAG
* ** *
526448 TATTTAATTATTATTTAAAAGAGTTTTGGATAAATAATAATTAAAACAT
1 AATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAACAG
*
526497 AATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATTAAAACAG
1 AATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAACAG
*
526546 AATTTAATTATTATTATTTAAAAGAGTTTTAAATAAA-AGATAATTAAATTC--
1 AATTT-A--ATTATTATTTAAAAGAGTTTTAAATAAATA-ATAATTAAA-ACAG
* ** *
526597 TATTTAATTATTATTTAAAAGAGTTTTGGATAAATAATAATTAAAACAT
1 AATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAACAG
* *
526646 AATTTAATTATTATTTAAAAGAGTTTTAAGTAAA-AGATAA-TAAAATAG
1 AATTTAATTATTATTTAAAAGAGTTTTAAATAAATA-ATAATTAAAACAG
526694 AATTTAAATTATTATTTAAAAGAGTTTTTAAAT
1 AATTT-AATTATTATTTAAAAGAG-TTTTAAAT
526727 TTCAAGATAA
Statistics
Matches: 288, Mismatches: 23, Indels: 37
0.83 0.07 0.11
Matches are distributed among these distances:
47 2 0.01
48 82 0.28
49 109 0.38
50 11 0.04
51 10 0.03
52 72 0.25
53 2 0.01
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (49 bp):
AATTTAATTATTATTTAAAAGAGTTTTAAATAAATAATAATTAAAACAG
Found at i:526507 original size:100 final size:97
Alignment explanation
Indices: 526349--526726 Score: 455
Period size: 100 Copynumber: 3.8 Consensus size: 97
526339 AGGAAATATA
*
526349 ATTTAATTATTATTTAAAAGAGTTTTATATAAATA-ATAATTAAAACAGAATTTAATTATTATTA
1 ATTTAATTATTATTTAAAAGAGTTTTAAATAAA-AGATAATTAAAACAGAATTT-A--ATTATTA
*
526413 TTTAAAAGAGTTTTAAATAAA-AGATAATTAAATTC-T
62 TTTAAAAGAGTTTTAAATAAATA-ATAATTAAA-ACAT
** *
526449 ATTTAATTATTATTTAAAAGAGTTTTGGATAAATA-ATAATTAAAACATAATTTAATTATTATTT
1 ATTTAATTATTATTTAAAAGAGTTTTAAATAAA-AGATAATTAAAACAGAATTTAATTATTATTT
* *
526513 AAAAGAGTTTTATATAAATAATAATTAAAACAGA
65 AAAAGAGTTTTAAATAAATAATAATTAAAACA-T
* *
526547 ATTTAATTATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAATTC--TATTTAATTATTA
1 ATTT-A--ATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAA-ACAGAATTTAATTATTA
**
526610 TTTAAAAGAGTTTTGGATAAATAATAATTAAAACAT
62 TTTAAAAGAGTTTTAAATAAATAATAATTAAAACAT
* *
526646 AATTTAATTATTATTTAAAAGAGTTTTAAGTAAAAGATAA-TAAAATAGAATTTAAATTATTATT
1 -ATTTAATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAAACAGAATTT-AATTATTATT
526710 TAAAAGAGTTTTTAAAT
64 TAAAAGAG-TTTTAAAT
526727 TTCAAGATAA
Statistics
Matches: 246, Mismatches: 19, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
96 5 0.02
97 73 0.30
98 23 0.09
99 9 0.04
100 100 0.41
101 35 0.14
102 1 0.00
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (97 bp):
ATTTAATTATTATTTAAAAGAGTTTTAAATAAAAGATAATTAAAACAGAATTTAATTATTATTTA
AAAGAGTTTTAAATAAATAATAATTAAAACAT
Found at i:526511 original size:149 final size:149
Alignment explanation
Indices: 526346--526726 Score: 691
Period size: 149 Copynumber: 2.6 Consensus size: 149
526336 ATAAGGAAAT
526346 ATAATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATTAAAACAGAATTTAATTATTAT
1 ATAATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATTAAAACAGAATTTAATTATTAT
526411 TATTTAAAAGAGTTTTAAATAAAAGATAATTAAATTCTATTTAATTATTATTTAAAAGAGTTTTG
66 TATTTAAAAGAGTTTTAAATAAAAGATAATTAAATTCTATTTAATTATTATTTAAAAGAGTTTTG
526476 GATAAATAATAATTAAAAC
131 GATAAATAATAATTAAAAC
526495 ATAATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATTAAAACAGAATTTAATTATTAT
1 ATAATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATTAAAACAGAATTTAATTATTAT
526560 TATTTAAAAGAGTTTTAAATAAAAGATAATTAAATTCTATTTAATTATTATTTAAAAGAGTTTTG
66 TATTTAAAAGAGTTTTAAATAAAAGATAATTAAATTCTATTTAATTATTATTTAAAAGAGTTTTG
526625 GATAAATAATAATTAAAAC
131 GATAAATAATAATTAAAAC
*
526644 ATAATTTAATTATTATTTAAAAGAGTTTTA-AGTAAA-AGATAA-TAAAATAGAATTTAA--ATT
1 ATAATTTAATTATTATTTAAAAGAGTTTTATA-TAAATA-ATAATTAAAACAGAATTTAATTATT
526704 ATTATTTAAAAGAGTTTTTAAAT
64 ATTATTTAAAAGAG-TTTTAAAT
526727 TTCAAGATAA
Statistics
Matches: 228, Mismatches: 1, Indels: 8
0.96 0.00 0.03
Matches are distributed among these distances:
146 17 0.07
147 8 0.04
148 16 0.07
149 187 0.82
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (149 bp):
ATAATTTAATTATTATTTAAAAGAGTTTTATATAAATAATAATTAAAACAGAATTTAATTATTAT
TATTTAAAAGAGTTTTAAATAAAAGATAATTAAATTCTATTTAATTATTATTTAAAAGAGTTTTG
GATAAATAATAATTAAAAC
Found at i:528377 original size:12 final size:12
Alignment explanation
Indices: 528360--528385 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
528350 AAGAAGCTAG
528360 GTTAAATTGTAA
1 GTTAAATTGTAA
528372 GTTAAATTGTAA
1 GTTAAATTGTAA
528384 GT
1 GT
528386 CATTCGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (12 bp):
GTTAAATTGTAA
Found at i:528611 original size:129 final size:129
Alignment explanation
Indices: 528361--528604 Score: 382
Period size: 129 Copynumber: 1.9 Consensus size: 129
528351 AGAAGCTAGG
* * **
528361 TTAAATTGTAAGTTAAATTGTAAGTCATTCGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
1 TTAAATGGTAAGTTAAATTCTAAGTCACACGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
* *
528426 TTCCGTGTTTTATAGTGAATCAGAAGCTCGTTTGGGTTGGAAGCTTGTCGAAGCTATTACTTGA
66 TTCCGTGTTTTATAGTGAATCAGAAGCTCATTCGGGTTGGAAGCTTGTCGAAGCTATTACTTGA
* * *
528490 TTAAATGGTAAGTTAAATTCTAAGTTACAGGAACTTACTAATCTTAAATGCTTACTCTGTGTTAC
1 TTAAATGGTAAGTTAAATTCTAAGTCACACGAACTTACTAAGCTTAAATGCTTACTCTGTGTTA-
*
528555 TTT-TGTGTTTTATAGTGAATCAGAAGCTCATTCGGGTTGGAAGCTTGTCG
65 TTTCCGTGTTTTATAGTGAATCAGAAGCTCATTCGGGTTGGAAGCTTGTCG
528605 GGGCTATATC
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
129 101 0.97
130 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.39
Consensus pattern (129 bp):
TTAAATGGTAAGTTAAATTCTAAGTCACACGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
TTCCGTGTTTTATAGTGAATCAGAAGCTCATTCGGGTTGGAAGCTTGTCGAAGCTATTACTTGA
Found at i:531429 original size:163 final size:163
Alignment explanation
Indices: 531083--531572 Score: 777
Period size: 163 Copynumber: 3.0 Consensus size: 163
531073 CCATGGCACG
* * * *
531083 AGCACCAGTTAGGGCTTATGCTATTCGCACAGGAGATGATGCTTCTGTGCTAGATGTTATTACTA
1 AGCACCAGTTAGGGCTTATGCTATTCGCACACGAGAGGATGCTTCTGTGCCAGATGTTATTACTG
* *
531148 GTACTTTTTCTAGTTTTTTATACTGATATTACTTCTTTGATT-ACTCTGGGATCCACTCATTCAT
66 GTACTTTTTCTA-TTTTTTATACTGATATTACTGCTTTGATTGA-TCCGGGATCCACTCATTCAT
531212 ATGTGTGCACGAATTTAGTGTCTAGTAAGAATTTA
129 ATGTGTGCACGAATTTAGTGTCTAGTAAGAATTTA
* *
531247 AGCACCAGTTAGGGCTTATGCTATTCGTACACGAGAGGATGCTTCTGCGCCAGATGTTATTACTG
1 AGCACCAGTTAGGGCTTATGCTATTCGCACACGAGAGGATGCTTCTGTGCCAGATGTTATTACTG
* * * *
531312 GTACTTTTTTTTATTTTTTATACTTATATTA-TGCTTTGATTGATCCGGGATCGAATCATTCATA
66 GTAC-TTTTTCTATTTTTTATACTGATATTACTGCTTTGATTGATCCGGGATCCACTCATTCATA
*
531376 TGTGTGCATGAATTTAGTGTCTAGTAAGAATTTA
130 TGTGTGCACGAATTTAGTGTCTAGTAAGAATTTA
* *
531410 AGCACCAGTTAGGGCTTATGCTATTTGCACACGAGAGGATGCCTCTGTGCCAGATGTTATTACTG
1 AGCACCAGTTAGGGCTTATGCTATTCGCACACGAGAGGATGCTTCTGTGCCAGATGTTATTACTG
*
531475 GTACTTTTTCTATTTTTTATACTGATATTACTGCTTTGATTGATCCAGGATCCACTCATTCATAT
66 GTACTTTTTCTATTTTTTATACTGATATTACTGCTTTGATTGATCCGGGATCCACTCATTCATAT
* *
531540 GTGTGCACGAATTTAATGTCTATTAAGAATTTA
131 GTGTGCACGAATTTAGTGTCTAGTAAGAATTTA
531573 CCTATTGAGT
Statistics
Matches: 298, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
162 24 0.08
163 186 0.62
164 81 0.27
165 7 0.02
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (163 bp):
AGCACCAGTTAGGGCTTATGCTATTCGCACACGAGAGGATGCTTCTGTGCCAGATGTTATTACTG
GTACTTTTTCTATTTTTTATACTGATATTACTGCTTTGATTGATCCGGGATCCACTCATTCATAT
GTGTGCACGAATTTAGTGTCTAGTAAGAATTTA
Found at i:536061 original size:25 final size:25
Alignment explanation
Indices: 536033--536139 Score: 124
Period size: 25 Copynumber: 4.3 Consensus size: 25
536023 CAGATACTCC
536033 ATAGCTCGTAAGAGCATACCGATTT
1 ATAGCTCGTAAGAGCATACCGATTT
* * *
536058 ATAGTTTGTAAGAGCATACCAATTT
1 ATAGCTCGTAAGAGCATACCGATTT
* * *
536083 ATAACTCTTAAAAGCATACCGATTT
1 ATAGCTCGTAAGAGCATACCGATTT
* ** *
536108 ATAGCTCATAAGAGCATATTGATCT
1 ATAGCTCGTAAGAGCATACCGATTT
536133 ATAGCTC
1 ATAGCTC
536140 AAATGAGCAT
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (25 bp):
ATAGCTCGTAAGAGCATACCGATTT
Found at i:536140 original size:25 final size:24
Alignment explanation
Indices: 536033--536176 Score: 92
Period size: 25 Copynumber: 5.8 Consensus size: 24
536023 CAGATACTCC
* *
536033 ATAGCTCGTAAGAGCATACCGATTT
1 ATAGCTCATAAGAGCATACTGA-TT
* ** **
536058 ATAGTTTGTAAGAGCATACCAATTT
1 ATAGCTCATAAGAGCATACTGA-TT
* * * *
536083 ATAACTCTTAAAAGCATACCGATTT
1 ATAGCTCATAAGAGCATACTGA-TT
*
536108 ATAGCTCATAAGAGCATATTGATCT
1 ATAGCTCATAAGAGCATACTGAT-T
*
536133 ATAGCTCA-AATGAGCATGCTGATT
1 ATAGCTCATAA-GAGCATACTGATT
* *
536157 CATAACTCATATGAGCATAC
1 -ATAGCTCATAAGAGCATAC
536177 GCGTACATGA
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
24 4 0.04
25 91 0.95
26 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (24 bp):
ATAGCTCATAAGAGCATACTGATT
Found at i:536749 original size:129 final size:129
Alignment explanation
Indices: 536517--536778 Score: 418
Period size: 129 Copynumber: 2.0 Consensus size: 129
536507 TTATACTTAC
536517 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
1 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
** * * *
536582 TTCTGTGTTATTTTCGTGTTTTATAGTGAACCCAAAGCTTGTCCGGGTTGGAAGCTTGTCGGAG
66 TTCCATGTTATTTTCGTGTTTTATAGTGAACCCAAAGCTCGTCCAGGTTGGAAACTTGTCGGAG
536646 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTA
1 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTT-
* ** * *
536711 C-TCCATGTTATTTTCGTGTTTTATAGTGAATCGGAAGCTCGTTCAGGTTGGAAACTTTTCGGAG
65 CTTCCATGTTATTTTCGTGTTTTATAGTGAACCCAAAGCTCGTCCAGGTTGGAAACTTGTCGGAG
536775 CTAT
1 CTAT
536779 ATCACTCTAT
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
129 121 0.99
130 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (129 bp):
CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
TTCCATGTTATTTTCGTGTTTTATAGTGAACCCAAAGCTCGTCCAGGTTGGAAACTTGTCGGAG
Found at i:552870 original size:40 final size:40
Alignment explanation
Indices: 552815--553043 Score: 291
Period size: 40 Copynumber: 5.8 Consensus size: 40
552805 GGTTTACTGG
* *
552815 AGTACAAACAGGGGCATGAGAGTGCAATCAGGGATACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
** **
552855 AGTACGGACAGGGGCACGAGAGTGTGATCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
552895 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
* * ** *
552935 AGTACAAATAGAGGCATAAGAGTGCAATCA-GGGTACAGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
* * ** *
552974 AGTACAAATATGGGCACGTCAGTGCAAGCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
553014 AGTACAAACAGGGGCACGTA-AGTGCAATCA
1 AGTACAAACAGGGGCACG-AGAGTGCAATCA
553044 TTCAATAATT
Statistics
Matches: 160, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 31 0.19
40 129 0.81
ACGTcount: A:0.36, C:0.18, G:0.33, T:0.13
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
Found at i:552886 original size:20 final size:20
Alignment explanation
Indices: 552863--552967 Score: 72
Period size: 20 Copynumber: 5.2 Consensus size: 20
552853 GAAGTACGGA
**
552863 CAGGGGCACGAGAGTGTGAT
1 CAGGGGCACGAGAGTGCAAT
* * *
552883 CAGGGGTACCGA-AGTACAAA
1 CAGGGGCA-CGAGAGTGCAAT
552903 CAGGGGCACGAGAGTGCAAT
1 CAGGGGCACGAGAGTGCAAT
* *
552923 CAGGGGTACCGA-AGTACAAAT
1 CAGGGGCA-CGAGAGTGC-AAT
* **
552944 -AGAGGCATAAGAGTGCAAT
1 CAGGGGCACGAGAGTGCAAT
552963 CAGGG
1 CAGGG
552968 TACAGAAGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
19 7 0.11
20 47 0.75
21 9 0.14
ACGTcount: A:0.34, C:0.17, G:0.36, T:0.12
Consensus pattern (20 bp):
CAGGGGCACGAGAGTGCAAT
Found at i:552908 original size:80 final size:79
Alignment explanation
Indices: 552815--553043 Score: 289
Period size: 79 Copynumber: 2.9 Consensus size: 79
552805 GGTTTACTGG
* * ** *
552815 AGTACAAACAGGGGCATGAGAGTGCAATCAGGGATACCGAAGTACGGACAGGGGCACGAGAGTGT
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGAGAGTGC
* *
552880 GATCAGGGGTACCGA
66 AATCA-GGGTACAGA
* * **
552895 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGAAGTACAAATAGAGGCATAAGAGTGC
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGAGAGTGC
552960 AATCAGGGTACAGA
66 AATCAGGGTACAGA
* * ** *
552974 AGTACAAATATGGGCACGTCAGTGCAAGCAGGGGTACCGAAGTACAAACAGGGGCACGTA-AGTG
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACG-AGAGTG
553038 CAATCA
65 CAATCA
553044 TTCAATAATT
Statistics
Matches: 128, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 67 0.52
80 61 0.48
ACGTcount: A:0.36, C:0.18, G:0.33, T:0.13
Consensus pattern (79 bp):
AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACGAGAGTGC
AATCAGGGTACAGA
Found at i:553027 original size:20 final size:20
Alignment explanation
Indices: 552883--553027 Score: 84
Period size: 20 Copynumber: 7.3 Consensus size: 20
552873 AGAGTGTGAT
552883 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * *
552903 CAGGGGCA-CGAGAGTGCAAT
1 CAGGGGTACCGA-AGTACAAA
552923 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * *
552943 TAGAGGCATA-AG-AGTGCAAT
1 CAG-GG-GTACCGAAGTACAAA
*
552963 CA-GGGTACAGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * * *
552982 TATGGGCA-CGTCAGTGCAAG
1 CAGGGGTACCG-AAGTACAAA
553002 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
553022 CAGGGG
1 CAGGGG
553028 CACGTAAGTG
Statistics
Matches: 89, Mismatches: 27, Indels: 18
0.66 0.20 0.13
Matches are distributed among these distances:
17 2 0.02
18 4 0.04
19 11 0.12
20 62 0.70
21 8 0.09
22 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.33, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:553036 original size:20 final size:20
Alignment explanation
Indices: 552973--553036 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
552963 CAGGGTACAG
* *
552973 AAGTACAAATATGGGCACGT
1 AAGTACAAACAGGGGCACGT
* * * *
552993 CAGTGCAAGCAGGGGTACCG-
1 AAGTACAAACAGGGGCA-CGT
553013 AAGTACAAACAGGGGCACGT
1 AAGTACAAACAGGGGCACGT
553033 AAGT
1 AAGT
553037 GCAATCATTC
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.14
Consensus pattern (20 bp):
AAGTACAAACAGGGGCACGT
Found at i:558696 original size:40 final size:40
Alignment explanation
Indices: 558652--558811 Score: 153
Period size: 40 Copynumber: 4.0 Consensus size: 40
558642 AGATGAAGAA
* * * *
558652 GTGCCCCTGTTTGTACTTTAATACCCCTGAATGCACATCT
1 GTGCCCCTGTTTGCACTTCAGTACCCCTGAATGCACATTT
* * *
558692 GTGCCGCTGTTTGTACTTCAGTACCCTTGAATGCACATTT
1 GTGCCCCTGTTTGCACTTCAGTACCCCTGAATGCACATTT
* * * **
558732 GTGTCCCTATTTGCACTACAGTGTCCCTGAATGCACATTT
1 GTGCCCCTGTTTGCACTTCAGTACCCCTGAATGCACATTT
* * * *
558772 GTTCCCCTGATTGCACTTCGGTCCCCCT-AATTGCAC-TTT
1 GTGCCCCTGTTTGCACTTCAGTACCCCTGAA-TGCACATTT
558811 G
1 G
558812 ATACCCTTGA
Statistics
Matches: 98, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
39 6 0.06
40 92 0.94
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.36
Consensus pattern (40 bp):
GTGCCCCTGTTTGCACTTCAGTACCCCTGAATGCACATTT
Found at i:558855 original size:20 final size:20
Alignment explanation
Indices: 558756--558860 Score: 77
Period size: 20 Copynumber: 5.2 Consensus size: 20
558746 ACTACAGTGT
* *
558756 CCCTGAATGCACATTT-GTTC
1 CCCTGATTGCAC-TTTGGTGC
* *
558776 CCCTGATTGCACTTCGGTCC
1 CCCTGATTGCACTTTGGTGC
* * *
558796 CCCTAATTGCACTTTGATAC
1 CCCTGATTGCACTTTGGTGC
* ** * *
558816 CCTTGATCACACATTCGTGC
1 CCCTGATTGCACTTTGGTGC
*
558836 TCCTGATTGCACTTTGGTGC
1 CCCTGATTGCACTTTGGTGC
558856 CCCTG
1 CCCTG
558861 TTATGCATCA
Statistics
Matches: 62, Mismatches: 22, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
19 2 0.03
20 60 0.97
ACGTcount: A:0.16, C:0.33, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCTGATTGCACTTTGGTGC
Found at i:576017 original size:4 final size:4
Alignment explanation
Indices: 575959--576001 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
575949 ATCTATCCTT
575959 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
576002 ACTAATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 35 0.92
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:576778 original size:16 final size:16
Alignment explanation
Indices: 576757--576787 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
576747 ATACCAATTT
576757 TTGGTTAATTCCCACC
1 TTGGTTAATTCCCACC
*
576773 TTGGTTACTTCCCAC
1 TTGGTTAATTCCCAC
576788 GGTTGTCAGG
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:0.16, C:0.32, G:0.13, T:0.39
Consensus pattern (16 bp):
TTGGTTAATTCCCACC
Found at i:580854 original size:25 final size:25
Alignment explanation
Indices: 580819--580900 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
580809 TTTCAACTTT
*
580819 TATGAGATTACCGATACTTAGCTCG
1 TATGAGCTTACCGATACTTAGCTCG
*
580844 TATGAGCTTACCGTTATAC--AACTCG
1 TATGAGCTTACCG--ATACTTAGCTCG
* * *
580869 AAGGAGCTTACCGTTA-TTCAGCTCG
1 TATGAGCTTACCGATACTT-AGCTCG
580894 TATGAGC
1 TATGAGC
580901 ATACATGTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
23 2 0.05
25 38 0.86
27 4 0.09
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (25 bp):
TATGAGCTTACCGATACTTAGCTCG
Found at i:583859 original size:48 final size:47
Alignment explanation
Indices: 583805--584131 Score: 349
Period size: 48 Copynumber: 6.8 Consensus size: 47
583795 AAAAAAAAAC
* * *
583805 AAAAAAAATTTTAGGTGCTGCCCTGTCAATGGCCGGCATCAGAATACG
1 AAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
* * *
583853 AAAAAAAAATTTGGGTG-TTGCCTTGTCAATGGCTGGCACCAGCATACG
1 -AAAAAAAATTTGGGTGCTGGCC-TGTCAATGGCCGGCACCAGAATACG
* * *
583901 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACCAGTAC-
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCA-GAATACG
*
583948 -AAAAAAATTTGGGTACTGGCCTGTCAATGGCCGGCACCAGCAATACG
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAG-AATACG
* * *
583995 AAAAAAAAATTGTGTGCTGGTCTGTCAATGGCCGGCACCA-ACAGTACG
1 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGA-A-TACG
*
584043 ACAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGTATACG
1 --AAAAAAAA--TTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
* * *
584094 AAAAAGAATTTTAGGTGCTAGCCT-TCTAATGGCCGGCA
1 AAAAA-AAATTTGGGTGCTGGCCTGTC-AATGGCCGGCA
584132 TCAAACTTTA
Statistics
Matches: 236, Mismatches: 27, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
46 42 0.18
47 38 0.16
48 99 0.42
49 13 0.06
50 10 0.04
51 4 0.02
52 30 0.13
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (47 bp):
AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
Found at i:584112 original size:100 final size:97
Alignment explanation
Indices: 583805--584131 Score: 377
Period size: 100 Copynumber: 3.4 Consensus size: 97
583795 AAAAAAAAAC
* *
583805 AAAAAAAATTTTAGGTGCTGCCCTGTCAATGGCCGGCATCAGA-A-TACGA-AAAAAAAATTTGG
1 AAAAAAAA-TTTAGGTGCTGGCCTGTCAATGGCCGGCACCA-ACAGTACGACAAAAAAAATTTGG
* * *
583867 GTG-TTGCCTTGTCAATGGCTGGCACCAGCATACG
64 GTGCTGGCC-TGTCAATGGCCGGCACCAGAATACG
* * *
583901 AAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACCAGT---AC-AAAAAAATTTGGGT
1 AAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCAACAGTACGACAAAAAAAATTTGGGT
*
583962 ACTGGCCTGTCAATGGCCGGCACCAGCAATACG
66 GCTGGCCTGTCAATGGCCGGCACCAG-AATACG
* *
583995 AAAAAAAAATT-GTGTGCTGGTCTGTCAATGGCCGGCACCAACAGTACGACAAAAAAAATTTTTG
1 AAAAAAAATTTAG-GTGCTGGCCTGTCAATGGCCGGCACCAACAGTACGACAAAAAAAA--TTTG
*
584059 GGTGCTGGCCTGTCAATGGCCGGCACCAGTATACG
63 GGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
* *
584094 AAAAAGAATTTTAGGTGCTAGCCT-TCTAATGGCCGGCA
1 AAAAA-AAATTTAGGTGCTGGCCTGTC-AATGGCCGGCA
584132 TCAAACTTTA
Statistics
Matches: 197, Mismatches: 19, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
93 34 0.17
94 48 0.24
95 29 0.15
96 9 0.05
97 2 0.01
98 7 0.04
99 12 0.06
100 55 0.28
101 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (97 bp):
AAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCAACAGTACGACAAAAAAAATTTGGGT
GCTGGCCTGTCAATGGCCGGCACCAGAATACG
Found at i:587448 original size:22 final size:22
Alignment explanation
Indices: 587391--587448 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
587381 CTTTTTTTCT
* *
587391 TTTCATTCAAAATTTATTTTAA
1 TTTCATTTAAATTTTATTTTAA
* *
587413 TTTCA-TTAATTTTTATTTTAG
1 TTTCATTTAAATTTTATTTTAA
587434 TTTCATTTAAATTTT
1 TTTCATTTAAATTTT
587449 CCTAATATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTCATTTAAATTTTATTTTAA
Found at i:587510 original size:36 final size:37
Alignment explanation
Indices: 587464--587534 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
587454 TATCAACGTA
* **
587464 ATTTAATTTTTTTC-ATCTATTTTTAAATTTTTTTAT
1 ATTTAATTTTTGTCAATCTAAATTTAAATTTTTTTAT
* *
587500 ATTTTATTTTTGTCAATTTAAATTTAAATTTTTTT
1 ATTTAATTTTTGTCAATCTAAATTTAAATTTTTTT
587535 TGAAAAAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 12 0.41
37 17 0.59
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (37 bp):
ATTTAATTTTTGTCAATCTAAATTTAAATTTTTTTAT
Found at i:587917 original size:5 final size:5
Alignment explanation
Indices: 587909--587979 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
587899 TTTTTTCAGG
* * *
587909 TCATT TCATT TTATTT TTATT TCATT TCATT CTAATT TCATT TCCATT
1 TCATT TCATT TCA-TT TCATT TCATT TCATT -TCATT TCATT T-CATT
* *
587957 ACCATT TCCCTT TCATT TCATT T
1 -TCATT T-CATT TCATT TCATT T
587980 AAAAAATATT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
5 32 0.60
6 21 0.40
ACGTcount: A:0.20, C:0.21, G:0.00, T:0.59
Consensus pattern (5 bp):
TCATT
Found at i:587925 original size:21 final size:21
Alignment explanation
Indices: 587896--587948 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
587886 TTTCAACCCT
*
587896 TTTTTTTTTCAGGTCATTTCA
1 TTTTATTTTCAGGTCATTTCA
* **
587917 TTTTATTTTTATTTCATTTCA
1 TTTTATTTTCAGGTCATTTCA
* *
587938 TTCTAATTTCA
1 TTTTATTTTCA
587949 TTTCCATTAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTATTTTCAGGTCATTTCA
Found at i:587930 original size:16 final size:16
Alignment explanation
Indices: 587911--587952 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
587901 TTTTCAGGTC
* * *
587911 ATTTCATTTTATTTTT
1 ATTTCATTTCATTCTA
587927 ATTTCATTTCATTCTA
1 ATTTCATTTCATTCTA
587943 ATTTCATTTC
1 ATTTCATTTC
587953 CATTACCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTCATTTCATTCTA
Found at i:587951 original size:21 final size:21
Alignment explanation
Indices: 587909--587952 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
587899 TTTTTTCAGG
* * *
587909 TCATTTCATTTTATTTTTATT
1 TCATTTCATTCTAATTTCATT
587930 TCATTTCATTCTAATTTCATT
1 TCATTTCATTCTAATTTCATT
587951 TC
1 TC
587953 CATTACCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (21 bp):
TCATTTCATTCTAATTTCATT
Found at i:588026 original size:19 final size:21
Alignment explanation
Indices: 587986--588028 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
587976 ATTTAAAAAA
*
587986 TATTTTTTTTCAATTTCAATT
1 TATTTTTTCTCAATTTCAATT
588007 TATTTTTTCTCAA-TTC-ATT
1 TATTTTTTCTCAATTTCAATT
588026 TAT
1 TAT
588029 ATTATGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 3 0.14
21 12 0.57
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTTTCTCAATTTCAATT
Found at i:591226 original size:48 final size:48
Alignment explanation
Indices: 591174--591326 Score: 175
Period size: 48 Copynumber: 3.1 Consensus size: 48
591164 CCTTTGAGAA
* *
591174 GCCAGCATAAAAAAAAAATTTT-GTACTGCTGATGCCAACCATTGACAG
1 GCCAGCATAAAAAAAAAATTTTCGTA-TACTGGTGCCAACCATTGACAG
* * * * * *
591222 GCCAGCACACAAAAAAAATTTTCATATATTGGTGGCATCCATTGACAAG
1 GCCAGCATAAAAAAAAAATTTTCGTATACTGGTGCCAACCATTGAC-AG
*
591271 G-CAGCACTCAAAAAAAAAATTTTCGTATACTGGTGCCGACCATTGACAG
1 GCCAGCA-T-AAAAAAAAAATTTTCGTATACTGGTGCCAACCATTGACAG
591320 GCCAGCA
1 GCCAGCA
591327 CCCAAAAAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
48 40 0.47
49 8 0.09
50 37 0.44
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (48 bp):
GCCAGCATAAAAAAAAAATTTTCGTATACTGGTGCCAACCATTGACAG
Found at i:597802 original size:18 final size:18
Alignment explanation
Indices: 597779--597813 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
597769 ATATATGATC
597779 GTATGAAT-TGTGATGTAA
1 GTATGAATATGT-ATGTAA
597797 GTATGAATATGTATGTA
1 GTATGAATATGTATGTA
597814 TTGACCCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
GTATGAATATGTATGTAA
Found at i:600630 original size:18 final size:18
Alignment explanation
Indices: 600607--600642 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
600597 CTATTGTGAA
600607 AGATTATGCAAATTGGAC
1 AGATTATGCAAATTGGAC
600625 AGATTATGCAAATTGGAC
1 AGATTATGCAAATTGGAC
600643 TTACGAGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
AGATTATGCAAATTGGAC
Found at i:601504 original size:243 final size:243
Alignment explanation
Indices: 601073--601560 Score: 940
Period size: 243 Copynumber: 2.0 Consensus size: 243
601063 AATTATCCTT
*
601073 TGAATTCAAAGTATATATGAGTATTTATATCGATTTCATAACTGGTTTGATATGCACTTAGGTAT
1 TGAATTCAAAGTATATATGAGTATATATATCGATTTCATAACTGGTTTGATATGCACTTAGGTAT
601138 TTAAGTATAATTGGCATGGCAATTTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
66 TTAAGTATAATTGGCATGGCAATTTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
601203 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
131 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
*
601268 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTTTAC
196 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
*
601316 TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
1 TGAATTCAAAGTATATATGAGTATATATATCGATTTCATAACTGGTTTGATATGCACTTAGGTAT
601381 TTAAGTATAATTGGCATGGCAATTTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
66 TTAAGTATAATTGGCATGGCAATTTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
*
601446 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTTTGTCATGAATGAT
131 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
601511 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
196 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
601559 TG
1 TG
601561 TTGTTATATG
Statistics
Matches: 241, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 241 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.38
Consensus pattern (243 bp):
TGAATTCAAAGTATATATGAGTATATATATCGATTTCATAACTGGTTTGATATGCACTTAGGTAT
TTAAGTATAATTGGCATGGCAATTTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
Found at i:603704 original size:4 final size:4
Alignment explanation
Indices: 603695--603746 Score: 54
Period size: 4 Copynumber: 12.8 Consensus size: 4
603685 TGCAATTTGG
*
603695 TTTA TTTA TTT- TTATT TTTA TTTA TTTA TCTTA TATTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TT-TA TTTA TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA
603744 TTT
1 TTT
603747 TTTGTGACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 5 0.12
4 27 0.64
5 10 0.24
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:603708 original size:10 final size:10
Alignment explanation
Indices: 603695--603748 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
603685 TGCAATTTGG
603695 TTTATTTATT
1 TTTATTTATT
603705 TTTATTT-TT
1 TTTATTTATT
603714 ATTTATTTA-T
1 -TTTATTTATT
*
603724 CTTATATTATT
1 TTTAT-TTATT
603735 TATTATTTATT
1 T-TTATTTATT
603746 TTT
1 TTT
603749 TGTGACTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.16
10 20 0.54
11 7 0.19
12 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTATT
Found at i:603740 original size:7 final size:7
Alignment explanation
Indices: 603696--603745 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
603686 GCAATTTGGT
603696 TTATTTA
1 TTATTTA
603703 TT-TTTA
1 TTATTTA
603709 TT-TTTA
1 TTATTTA
603715 TTTATTTA
1 -TTATTTA
*
603723 TCT-TATA
1 T-TATTTA
603730 TTATTTA
1 TTATTTA
603737 TTATTTA
1 TTATTTA
603744 TT
1 TT
603746 TTTTGTGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 11 0.30
7 21 0.57
8 5 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:614140 original size:46 final size:46
Alignment explanation
Indices: 614073--614261 Score: 369
Period size: 46 Copynumber: 4.1 Consensus size: 46
614063 AATTTGTGTG
614073 ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
1 ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
614119 ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
1 ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
614165 ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
1 ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
614211 ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
1 ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
*
614257 TTTAA
1 ATTAA
614262 GAAACCCTTA
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 142 1.00
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (46 bp):
ATTAAATTGTTTTAAACCTAATTCATCCCTATTACTTCACATAAAC
Found at i:621458 original size:153 final size:154
Alignment explanation
Indices: 621180--621491 Score: 486
Period size: 153 Copynumber: 2.0 Consensus size: 154
621170 GGTTATATGC
* *
621180 ACAATAAAATATTGTATAGTTAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTTGGCTAAT
1 ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTAGGCTAAT
* * *
621245 AAAGCTATGTATCAGATAAAGTTCCATTTAGGGGGAATTAACAGATTGCAATTAGAACCAATA-T
66 AAAGCCAAGTATCAGATAAAGTTCCATTTAGGGGGAATAAACAGATTGCAATTAGAACCAATACT
* *
621309 CTATGTCTATCAAAAATTTGCAAA
131 CTATGTCCATCAAAAAATTGCAAA
*
621333 ACAATAAAATATTGTATTGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTAGGCTAAT
1 ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTAGGCTAAT
*
621398 AAAGCCAAGTATCGGATCAAA-TTCCATTTA-GGGGAATAAAACAGATTGCAATTAGAACCAATA
66 AAAGCCAAGTATCAGAT-AAAGTTCCATTTAGGGGGAAT-AAACAGATTGCAATTAGAACCAATA
*
621461 TCTCTATGTCCATCAAAAAATTGCAAT
129 -CTCTATGTCCATCAAAAAATTGCAAA
621488 ACAA
1 ACAA
621492 CTTGTATAAT
Statistics
Matches: 145, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
152 7 0.05
153 109 0.75
154 3 0.02
155 26 0.18
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (154 bp):
ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTAGGCTAAT
AAAGCCAAGTATCAGATAAAGTTCCATTTAGGGGGAATAAACAGATTGCAATTAGAACCAATACT
CTATGTCCATCAAAAAATTGCAAA
Found at i:624219 original size:17 final size:17
Alignment explanation
Indices: 624197--624231 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
624187 ATCTACAAAT
624197 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
*
624214 CAAATCTTCTTAGATTA
1 CAAATCTTCTAAGATTA
624231 C
1 C
624232 TTCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:627585 original size:42 final size:41
Alignment explanation
Indices: 627534--627684 Score: 187
Period size: 42 Copynumber: 3.6 Consensus size: 41
627524 TAGTACTGTG
** * *
627534 AAAGGGGTTGCTGTGTGCTGATTCCCCGCATCATTGAATAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCCTTGAATAT
* *
627575 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGT
1 AAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCCTTGAATAT
* *
627618 GAAAGGGGTTGCTATGTGCTGATTCCCCGTATCCTTGATTAT
1 -AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCCTTGAATAT
627660 -AAGGTGGTTGCTAAGTGCTGATTCC
1 AAAGG-GGTTGCTAAGTGCTGATTCC
627685 ATCGTGTAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
40 4 0.04
41 24 0.25
42 32 0.33
43 31 0.32
44 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (41 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCCTTGAATAT
Found at i:633576 original size:51 final size:48
Alignment explanation
Indices: 633449--633682 Score: 222
Period size: 50 Copynumber: 4.7 Consensus size: 48
633439 GTGATGGTCA
* *
633449 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGCTCG--
1 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACC----GGATAGTTCGAT
* *
633499 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGAT
1 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTCGAT
*** * *
633548 CATGTGTGTAGTACTATGTGCAGGCTACTACGTGTGTTGGATA-TTAATGGT
1 CA--TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTT--CGAT
* * * *
633599 CATGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAGTTTGAT
1 CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTCGAT
*
633647 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CA--TGTGTAGTACTATGTGCAGGCTACTACGTGTA
633683 TCGAAGGGTG
Statistics
Matches: 154, Mismatches: 20, Indels: 20
0.79 0.10 0.10
Matches are distributed among these distances:
46 5 0.03
47 3 0.02
48 5 0.03
49 37 0.24
50 66 0.43
51 38 0.25
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (48 bp):
CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTCGAT
Found at i:633681 original size:99 final size:100
Alignment explanation
Indices: 633499--633681 Score: 287
Period size: 99 Copynumber: 1.8 Consensus size: 100
633489 TGATAGCTCG
* * * * *
633499 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCATGTGTGTAGTACTA
1 CATGTGTAGTACTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGATCACGTGTGTAGTACTA
*
633564 TGTGCAGGCTACTACGTGTGTTGGATATTAATGGT
66 TGTGAAGGCTACTACGTGTGTTGGATATTAATGGT
* *
633599 CATGTGTAGTACTATGTGCAGGCTACTACGTGAACCAGAAAG-TTTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGATCACGTGTGTAGTACTA
633663 TGTGAAGGCTACTACGTGT
66 TGTGAAGGCTACTACGTGT
633682 ATCGAAGGGT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
99 38 0.51
100 37 0.49
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (100 bp):
CATGTGTAGTACTATGTGCAGGCTACTACGCGAACCAGAAAGCTTCGATCACGTGTGTAGTACTA
TGTGAAGGCTACTACGTGTGTTGGATATTAATGGT
Found at i:633866 original size:16 final size:16
Alignment explanation
Indices: 633845--633876 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
633835 TGATTGAAAG
*
633845 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
633861 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
633877 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:645555 original size:15 final size:15
Alignment explanation
Indices: 645535--645563 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
645525 TTCCATTTTG
645535 TTCTATTCTGTTCTA
1 TTCTATTCTGTTCTA
645550 TTCTATTCTGTTCT
1 TTCTATTCTGTTCT
645564 GTTTGAATTA
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:0.10, C:0.21, G:0.07, T:0.62
Consensus pattern (15 bp):
TTCTATTCTGTTCTA
Found at i:653635 original size:17 final size:18
Alignment explanation
Indices: 653604--653642 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
653594 TCATATATTA
653604 ATTTTATCTATATTCTCT
1 ATTTTATCTATATTCTCT
653622 ATTTTATCTA-ATTCTCT
1 ATTTTATCTATATTCTCT
653639 ATTT
1 ATTT
653643 GTGTACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTATCTATATTCTCT
Found at i:656509 original size:42 final size:40
Alignment explanation
Indices: 656462--656559 Score: 97
Period size: 42 Copynumber: 2.4 Consensus size: 40
656452 GAAGTGGGAG
* *
656462 CACACGGCCGTGTCATAGACTGTATAACTCACTTACTTGGCT
1 CACACGGCCGTGTCA-A-ACCGTATAACTCACTGACTTGGCT
* * * *
656504 CACACGGCTGTGTGCCAACCCGTGTAACTCTCTGACTTGGCT
1 CACACGGCCGTGT--CAAACCGTATAACTCACTGACTTGGCT
*
656546 CACACAGCCGTGTC
1 CACACGGCCGTGTC
656560 GCAAGCTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
40 1 0.02
42 42 0.91
43 1 0.02
44 2 0.04
ACGTcount: A:0.20, C:0.33, G:0.21, T:0.26
Consensus pattern (40 bp):
CACACGGCCGTGTCAAACCGTATAACTCACTGACTTGGCT
Found at i:657087 original size:12 final size:12
Alignment explanation
Indices: 657070--657094 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
657060 TAAAAATAGC
657070 TTAGGAAAAAGT
1 TTAGGAAAAAGT
657082 TTAGGAAAAAGT
1 TTAGGAAAAAGT
657094 T
1 T
657095 ATAAAAATTA
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:0.00, G:0.24, T:0.28
Consensus pattern (12 bp):
TTAGGAAAAAGT
Found at i:660734 original size:40 final size:40
Alignment explanation
Indices: 660690--660789 Score: 91
Period size: 40 Copynumber: 2.5 Consensus size: 40
660680 TAAAGCTCAA
660690 TCAGGAACACGAGTGTGCAATCACG-GGCACCAGAGTGCAG
1 TCAGGAACACGAGTGTGCAATCA-GAGGCACCAGAGTGCAG
* * * *
660730 TCAGGGGAACA--AATGTACTATCAGAGGCACCAGAGTGCAT
1 TCA--GGAACACGAGTGTGCAATCAGAGGCACCAGAGTGCAG
*
660770 TCAGGAGCACG-GATGTGCAA
1 TCAGGAACACGAG-TGTGCAA
660790 ATAGGGACAC
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
38 5 0.11
39 1 0.02
40 34 0.74
42 6 0.13
ACGTcount: A:0.32, C:0.22, G:0.31, T:0.15
Consensus pattern (40 bp):
TCAGGAACACGAGTGTGCAATCAGAGGCACCAGAGTGCAG
Found at i:660815 original size:20 final size:20
Alignment explanation
Indices: 660790--660855 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
660780 GGATGTGCAA
660790 ATAGGGACACCGAAGTGTTC
1 ATAGGGACACCGAAGTGTTC
* * ** ***
660810 ATAGGGGCACAGTTGTGCAA
1 ATAGGGACACCGAAGTGTTC
*
660830 ACAGGGACACCGAAGTGTTC
1 ATAGGGACACCGAAGTGTTC
660850 ATAGGG
1 ATAGGG
660856 GCACAGTTGT
Statistics
Matches: 30, Mismatches: 16, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.33, T:0.18
Consensus pattern (20 bp):
ATAGGGACACCGAAGTGTTC
Found at i:660838 original size:40 final size:40
Alignment explanation
Indices: 660783--660928 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
660773 GGAGCACGGA
*
660783 TGTGCAAATAGGGACACCGAAGTGTTCATAGGGGCACAGT
1 TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
660823 TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
1 TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
* * * *
660863 TGTGCAAACAGGGACACCGAATTGTTTACAGGGGCATAGT
1 TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
* * * *
660903 TGTGAAAATAGGGACATCAAAGTGTT
1 TGTGCAAACAGGGACACCGAAGTGTT
660929 TTCAGGGGCA
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.21
Consensus pattern (40 bp):
TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
Found at i:660887 original size:22 final size:22
Alignment explanation
Indices: 660822--660887 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 22
660812 AGGGGCACAG
660822 TTGTGCAAACAGGGACACCGAA
1 TTGTGCAAACAGGGACACCGAA
* * * * *
660844 GTGTTC--ATAGGGGCA-C-AG
1 TTGTGCAAACAGGGACACCGAA
660862 TTGTGCAAACAGGGACACCGAA
1 TTGTGCAAACAGGGACACCGAA
660884 TTGT
1 TTGT
660888 TTACAGGGGC
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
18 5 0.17
19 1 0.03
20 14 0.47
21 1 0.03
22 9 0.30
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
TTGTGCAAACAGGGACACCGAA
Found at i:662434 original size:42 final size:41
Alignment explanation
Indices: 662360--662441 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 41
662350 TATAAAAAAA
662360 CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
1 CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
* *
662401 CTCATAAAAGCTCATGCTCTTAAAGGAGCACACAGAGTGAG
1 CTCACAAAAGCCCATGCTC-TAAAGGAGCACACAGAGTGAG
662442 ACTTATCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 17 0.45
42 21 0.55
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (41 bp):
CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
Found at i:662438 original size:95 final size:95
Alignment explanation
Indices: 662254--662632 Score: 458
Period size: 95 Copynumber: 4.0 Consensus size: 95
662244 TAGTTTGAGA
** * * * *
662254 TATCACAAATCTCACAAAAG-CTATGCTCTCAAGGAGCACACAGAGTGAGATGCTTACAAAAGCT
1 TATCACAAAAATCACAAAAGCCCATGCTCTAAAGGAGCACACACAGTGAG--GCTCACAAAAGCT
* * ** *
662318 CATGCTCTCAAAGGAGAACGTAGAGTGGGACT
64 CATGCTCTGAAAGGAGCACACAGAGTGAGACT
* * *
662350 TAT-AAAAAAACTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGGCTCATAAAAGCTC
1 TATCACAAAAA-TCACAAAAGCCCATGCTCTAAAGGAGCACACACAGTGAGGCTCACAAAAGCTC
*
662414 ATGCTCTTAAAGGAGCACACAGAGTGAGACT
65 ATGCTCTGAAAGGAGCACACAGAGTGAGACT
* ** ** *
662445 TATCACAAAAATCACAAAAGCGCATGCTCTTAAA-GAGCACGTACAGTGAGGCTCACAATTGTTC
1 TATCACAAAAATCACAAAAGCCCATGCTC-TAAAGGAGCACACACAGTGAGGCTCACAAAAGCTC
662509 ATGCTCTGAAAGGAGCACACAGAGTGAGACT
65 ATGCTCTGAAAGGAGCACACAGAGTGAGACT
* ** **
662540 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACGTACAGTGAGGCTCACAATTGCTCA
1 TATCACAAAAATCACAAAAGCCCATGCTCTAAAGGAGCACACACAGTGAGGCTCACAAAAGCTCA
*
662605 TGCTCTGAAAGGAGCCCACAGAGTGAGA
66 TGCTCTGAAAGGAGCACACAGAGTGAGA
662633 ATTAAGATTG
Statistics
Matches: 252, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
94 3 0.01
95 200 0.79
96 22 0.09
97 27 0.11
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (95 bp):
TATCACAAAAATCACAAAAGCCCATGCTCTAAAGGAGCACACACAGTGAGGCTCACAAAAGCTCA
TGCTCTGAAAGGAGCACACAGAGTGAGACT
Found at i:663532 original size:28 final size:28
Alignment explanation
Indices: 663474--663536 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
663464 GGCGAACCTT
* * * *
663474 CTTTGCCACATAGACTGGTGAACCCGAG
1 CTTTGCCAAATAGAATGGCGAACCCCAG
663502 CTTT-CCAAATAGAATGGCGAACCCCCAG
1 CTTTGCCAAATAGAATGGCGAA-CCCCAG
663530 C-TTGCCA
1 CTTTGCCA
663537 GACAGATTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (28 bp):
CTTTGCCAAATAGAATGGCGAACCCCAG
Found at i:663608 original size:52 final size:53
Alignment explanation
Indices: 663516--663632 Score: 173
Period size: 52 Copynumber: 2.2 Consensus size: 53
663506 CCAAATAGAA
* * *
663516 TGGCGAACCCCCAGCTTGCCAGACAGATTAGCGAAGCTGCCTCACAGTGAAAC
1 TGGCGAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAAC
* * *
663569 TTGTGAACCCCTAACTTGCCA-ACACATTAGCAAAGCTGCCTCACAGTGAAAC
1 TGGCGAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAAC
663621 TGGCGAACCCCC
1 TGGCGAACCCCC
663633 TTACCACTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
52 38 0.69
53 17 0.31
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.17
Consensus pattern (53 bp):
TGGCGAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAAC
Found at i:663724 original size:27 final size:27
Alignment explanation
Indices: 663693--663756 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
663683 CTTCTTTCGC
* *
663693 GAACACCCAGCTCGCCTAAATCTTGGT
1 GAACACCCAACTCACCTAAATCTTGGT
*
663720 GAACACCCAACTCACCTGAATCTTGGT
1 GAACACCCAACTCACCTAAATCTTGGT
*
663747 GAACCCCCAA
1 GAACACCCAA
663757 TTCGCCCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.19
Consensus pattern (27 bp):
GAACACCCAACTCACCTAAATCTTGGT
Found at i:677987 original size:20 final size:20
Alignment explanation
Indices: 677962--678005 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
677952 ACATGAAGCT
677962 CACTAATATTAAAACTATTA
1 CACTAATATTAAAACTATTA
* *
677982 CACTAATATTGAAACTATTG
1 CACTAATATTAAAACTATTA
678002 CACT
1 CACT
678006 CTTGTTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (20 bp):
CACTAATATTAAAACTATTA
Found at i:683543 original size:21 final size:21
Alignment explanation
Indices: 683515--683594 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
683505 ATTGGGTGGA
*
683515 TCAGCTCTTACGGGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
683536 TTAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
* *
683557 TCAGCTCTTATGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
*
683578 TCA--TCTTTCGAGCTTCT
1 TCAGCTCTTACGAGCTTCT
683595 CTTGGTGTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.22
21 40 0.78
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:710047 original size:22 final size:22
Alignment explanation
Indices: 710022--710072 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
710012 TGATTAGGTG
* *
710022 GTTGTATG-GTGGTTATATGGTT
1 GTTGT-TGTGTGGTGATATGGTA
710044 GTTGTTGTGTGGTGATATGGTA
1 GTTGTTGTGTGGTGATATGGTA
710066 GTTGTTG
1 GTTGTTG
710073 GATGGCGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.49
Consensus pattern (22 bp):
GTTGTTGTGTGGTGATATGGTA
Found at i:711236 original size:20 final size:20
Alignment explanation
Indices: 711213--711256 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
711203 TAATTTAGCC
711213 ATTTTT-ATTTTAATATTAAT
1 ATTTTTGATTTTAAT-TTAAT
*
711233 ATTTTTGTTTTTAATTTAAT
1 ATTTTTGATTTTAATTTAAT
711253 -TTTT
1 ATTTT
711257 AAATTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 11 0.50
21 7 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTTTGATTTTAATTTAAT
Found at i:714593 original size:16 final size:15
Alignment explanation
Indices: 714572--714601 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
714562 ACTATCTTTA
714572 TTTTTATTGTTATTTG
1 TTTTTATT-TTATTTG
714588 TTTTTATTTTATTT
1 TTTTTATTTTATTT
714602 TTCAGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTATTTG
Found at i:725991 original size:4 final size:4
Alignment explanation
Indices: 725982--726006 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
725972 TAACCAAGCA
725982 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
726007 AACGAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:733084 original size:23 final size:23
Alignment explanation
Indices: 733058--733109 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
733048 TAGATTTTTC
*
733058 CTAAATATTATCACTAAAGAATT
1 CTAAATATTATCACAAAAGAATT
*
733081 CTAAATATTATCACAAAATAATT
1 CTAAATATTATCACAAAAGAATT
*
733104 CAAAAT
1 CTAAAT
733110 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (23 bp):
CTAAATATTATCACAAAAGAATT
Found at i:738475 original size:370 final size:370
Alignment explanation
Indices: 737777--738527 Score: 1477
Period size: 370 Copynumber: 2.0 Consensus size: 370
737767 TTTTAAATAT
*
737777 TTAATATAAATTGTTTGTAAAGTTTAATTTAAATATATAAATCATATTTATAATTTATATAAATG
1 TTAATTTAAATTGTTTGTAAAGTTTAATTTAAATATATAAATCATATTTATAATTTATATAAATG
737842 ATGAGTGAATTTATAATTTGGCACCCAAACTAGATTTTGAAAAGCCAAAAGTTAGAAATTTTAAC
66 ATGAGTGAATTTATAATTTGGCACCCAAACTAGATTTTGAAAAGCCAAAAGTTAGAAATTTTAAC
737907 CTCTTAATTTTGCTTAAAAGGGCAGTTTGATAAGTTAAATTCGCTTGAAAAGTTGCCTATTTAAA
131 CTCTTAATTTTGCTTAAAAGGGCAGTTTGATAAGTTAAATTCGCTTGAAAAGTTGCCTATTTAAA
737972 GGCCTAAAGGTTACTTTAACATTAGTTTTGAAAAGTTACCTGAAAAATAGTTACACGAAAAATGT
196 GGCCTAAAGGTTACTTTAACATTAGTTTTGAAAAGTTACCTGAAAAATAGTTACACGAAAAATGT
738037 TGCTTGTGAAAAATGTGATTTAATATTTTAAGTGTTTGACAATATTTTAAAAAAAATGTTGTGAA
261 TGCTTGTGAAAAATGTGATTTAATATTTTAAGTGTTTGACAATATTTTAAAAAAAATGTTGTGAA
738102 AAGTTAAAATATTCATTTTAAATATGGTGTTGTAAAATAAAAAGA
326 AAGTTAAAATATTCATTTTAAATATGGTGTTGTAAAATAAAAAGA
738147 TTAATTTTAAATTGTTT-TAAAGTTTAATTTAAATATATAAATCATATTTATAATTTATATAAAT
1 TTAA-TTTAAATTGTTTGTAAAGTTTAATTTAAATATATAAATCATATTTATAATTTATATAAAT
738211 GATGAGTGAATTTATAATTTGGCACCCAAACTAGATTTTGAAAAGCCAAAAGTTAGAAATTTTAA
65 GATGAGTGAATTTATAATTTGGCACCCAAACTAGATTTTGAAAAGCCAAAAGTTAGAAATTTTAA
738276 CCTCTTAATTTTGCTTAAAAGGGCAGTTTGATAAGTTAAATTCGCTTGAAAAGTTGCCTATTTAA
130 CCTCTTAATTTTGCTTAAAAGGGCAGTTTGATAAGTTAAATTCGCTTGAAAAGTTGCCTATTTAA
738341 AGGCCTAAAGGTTACTTTAACATTAGTTTTGAAAAGTTACCTGAAAAATAGTTACACGAAAAATG
195 AGGCCTAAAGGTTACTTTAACATTAGTTTTGAAAAGTTACCTGAAAAATAGTTACACGAAAAATG
738406 TTGCTTGTGAAAAATGTGATTTAATATTTTAAGTGTTTGACAATATTTTAAAAAAAATGTTGTGA
260 TTGCTTGTGAAAAATGTGATTTAATATTTTAAGTGTTTGACAATATTTTAAAAAAAATGTTGTGA
738471 AAAGTTAAAATATTCATTTTAAATATGGTGTTGTAAAATAAAAAGA
325 AAAGTTAAAATATTCATTTTAAATATGGTGTTGTAAAATAAAAAGA
738517 TTAATTTAAAT
1 TTAATTTAAAT
738528 GATTTTTAAA
Statistics
Matches: 379, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
369 7 0.02
370 361 0.95
371 11 0.03
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (370 bp):
TTAATTTAAATTGTTTGTAAAGTTTAATTTAAATATATAAATCATATTTATAATTTATATAAATG
ATGAGTGAATTTATAATTTGGCACCCAAACTAGATTTTGAAAAGCCAAAAGTTAGAAATTTTAAC
CTCTTAATTTTGCTTAAAAGGGCAGTTTGATAAGTTAAATTCGCTTGAAAAGTTGCCTATTTAAA
GGCCTAAAGGTTACTTTAACATTAGTTTTGAAAAGTTACCTGAAAAATAGTTACACGAAAAATGT
TGCTTGTGAAAAATGTGATTTAATATTTTAAGTGTTTGACAATATTTTAAAAAAAATGTTGTGAA
AAGTTAAAATATTCATTTTAAATATGGTGTTGTAAAATAAAAAGA
Found at i:739317 original size:43 final size:43
Alignment explanation
Indices: 739234--739429 Score: 302
Period size: 43 Copynumber: 4.5 Consensus size: 43
739224 TTAACGGTGT
* *
739234 TTTTCCCACAAACGCCGGCTATATACCATGACCTTTAGCGGCGC
1 TTTTCCCACAAACGCC-GCTAAAGACCATGACCTTTAGCGGCGC
739278 TTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
1 TTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
*
739321 TTTTTCCCACAAACGCAGCTAAAGACCATGACCTTTAGCGGCGC
1 -TTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
* * * *
739365 TTTTTCCATAAACGCTGCTAAAGATCATGACCTTTAGCGGCGC
1 TTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
*
739408 TTTTCCCACAAACGCCGTTAAA
1 TTTTCCCACAAACGCCGCTAAA
739430 TAAAACACAT
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
43 82 0.59
44 58 0.41
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (43 bp):
TTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
Found at i:739355 original size:87 final size:87
Alignment explanation
Indices: 739233--739422 Score: 301
Period size: 87 Copynumber: 2.2 Consensus size: 87
739223 TTTAACGGTG
* * *
739233 TTTTTCCCACAAACGCCGGCTATATACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
1 TTTTTCCCACAAACG-CAGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
739298 AAGACCATGACCTTTAGCGGCGC
65 AAGACCATGACCTTTAGCGGCGC
* * *
739321 TTTTTCCCACAAACGCAGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCATAAACGCTGCTAA
1 TTTTTCCCACAAACGCAGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
*
739386 AGATCATGACCTTTAGCGGCGC
66 AGACCATGACCTTTAGCGGCGC
739408 -TTTTCCCACAAACGC
1 TTTTTCCCACAAACGC
739423 CGTTAAATAA
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 15 0.16
87 65 0.68
88 15 0.16
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (87 bp):
TTTTTCCCACAAACGCAGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
AGACCATGACCTTTAGCGGCGC
Found at i:742311 original size:21 final size:23
Alignment explanation
Indices: 742274--742325 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
742264 TCTTGGATGT
742274 GGGAAA-TTAGGGAATTTAGG-G
1 GGGAAAGTTAGGGAATTTAGGAG
* *
742295 GGGAAAGTT-GGGGATTTCGGAG
1 GGGAAAGTTAGGGAATTTAGGAG
*
742317 GGGAGAGTT
1 GGGAAAGTT
742326 TTATAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.27, C:0.02, G:0.48, T:0.23
Consensus pattern (23 bp):
GGGAAAGTTAGGGAATTTAGGAG
Found at i:744655 original size:7 final size:7
Alignment explanation
Indices: 744645--744677 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
744635 CTCTTAACAT
744645 CTAACCC
1 CTAACCC
744652 CTAA--C
1 CTAACCC
744657 CTAACCC
1 CTAACCC
744664 CTAACCC
1 CTAACCC
744671 CTAACCC
1 CTAACCC
744678 ATAAACCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.21
7 19 0.79
ACGTcount: A:0.30, C:0.55, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAACCC
Found at i:744662 original size:12 final size:12
Alignment explanation
Indices: 744645--744669 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
744635 CTCTTAACAT
744645 CTAACCCCTAAC
1 CTAACCCCTAAC
744657 CTAACCCCTAAC
1 CTAACCCCTAAC
744669 C
1 C
744670 CCTAACCCAT
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:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:744733 original size:14 final size:15
Alignment explanation
Indices: 744711--744744 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
744701 CTTAAACAAA
*
744711 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
744725 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
744740 AATCT
1 AATCT
744745 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:745140 original size:20 final size:19
Alignment explanation
Indices: 745099--745146 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
745089 AATTTTAATT
*
745099 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
* *
745118 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAAATAA
745138 AATACTAAA
1 AATA-TAAA
745147 GCCCCGAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:745297 original size:39 final size:39
Alignment explanation
Indices: 745249--745323 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
745239 TTTTGGAAAA
*
745249 CGCCGCTAAT-ATTGGATCTTTAGCGGCGTTTTTTTAAAG
1 CGCCACTAATGATT-GATCTTTAGCGGCGTTTTTTTAAAG
* *
745288 CGCCACTAATGCTTGATTTTTAGCGGCGTTTTTTTA
1 CGCCACTAATGATTGATCTTTAGCGGCGTTTTTTTA
745324 TCCAAATGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 30 0.94
40 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (39 bp):
CGCCACTAATGATTGATCTTTAGCGGCGTTTTTTTAAAG
Found at i:746277 original size:23 final size:23
Alignment explanation
Indices: 746249--746294 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
746239 CTAGTGGTAA
*
746249 CATGTGACAATCTCTCAGTATGT
1 CATGTGACAACCTCTCAGTATGT
746272 CATGTGACAACCTCTCAGTATGT
1 CATGTGACAACCTCTCAGTATGT
746295 TACGTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (23 bp):
CATGTGACAACCTCTCAGTATGT
Found at i:746301 original size:23 final size:23
Alignment explanation
Indices: 746252--746301 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
746242 GTGGTAACAT
* *
746252 GTGACAATCTCTCAGTATGTCAT
1 GTGACAACCTCTCAGTATGTCAC
*
746275 GTGACAACCTCTCAGTATGTTAC
1 GTGACAACCTCTCAGTATGTCAC
746298 GTGA
1 GTGA
746302 AAAATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
GTGACAACCTCTCAGTATGTCAC
Found at i:756582 original size:74 final size:74
Alignment explanation
Indices: 756489--756644 Score: 294
Period size: 74 Copynumber: 2.1 Consensus size: 74
756479 ATTTTTAACC
756489 TTTTATTTTTTTTAAAGAAGATAATAATATGGTTTGAGACTAAAGTATAATCTAAATATTATATA
1 TTTTA-TTTTTTTAAAGAAGATAATAATATGGTTTGAGACTAAAGTATAATCTAAATATTATATA
756554 TATTTATATA
65 TATTTATATA
756564 TTTTATTTTTTTAAAGAAGATAATAATATGGTTTGAGACTAAAGTATAATCTAAATATTATATAT
1 TTTTATTTTTTTAAAGAAGATAATAATATGGTTTGAGACTAAAGTATAATCTAAATATTATATAT
756629 ATTTATATA
66 ATTTATATA
756638 TCTTTAT
1 T-TTTAT
756645 CTCTAACTTT
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
74 70 0.88
75 10 0.12
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.47
Consensus pattern (74 bp):
TTTTATTTTTTTAAAGAAGATAATAATATGGTTTGAGACTAAAGTATAATCTAAATATTATATAT
ATTTATATA
Found at i:757427 original size:52 final size:53
Alignment explanation
Indices: 757366--757479 Score: 167
Period size: 53 Copynumber: 2.2 Consensus size: 53
757356 AAAATAACGG
* *
757366 TCATTTTTAATAT-TCTAACTTTTATAATAATACAATTAATCACATTAACTTT
1 TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
* * *
757418 TCATTTTTAATATCTTTAACTTTTATAATAACACAATTGATCACATCAAGTTT
1 TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
757471 TCATATTTT
1 TCAT-TTTT
757480 TTCATTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 13 0.24
53 38 0.69
54 4 0.07
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (53 bp):
TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
Found at i:757819 original size:17 final size:17
Alignment explanation
Indices: 757790--757830 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
757780 TATATACACT
757790 TATATATTTATATAT-AA
1 TATATATTTATAT-TCAA
757807 TATAT-TTTCATATTCAA
1 TATATATTT-ATATTCAA
757824 TATATAT
1 TATATAT
757831 AATATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 16 0.76
18 1 0.05
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATATTTATATTCAA
Found at i:762201 original size:18 final size:18
Alignment explanation
Indices: 762155--762202 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
762145 AAAAATTCAC
* *
762155 GACCGCGATACCTACAAT
1 GACCGCAATAGCTACAAT
762173 GACCGCAATAGCTACAAT
1 GACCGCAATAGCTACAAT
762191 GACCGCAATAGC
1 GACCGCAATAGC
762203 ATCTGTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (18 bp):
GACCGCAATAGCTACAAT
Found at i:762506 original size:65 final size:65
Alignment explanation
Indices: 762402--762607 Score: 169
Period size: 65 Copynumber: 3.0 Consensus size: 65
762392 GTTCACAGCT
* * ** *
762402 GATTTTTTTACGGTCCGCTGATTTATGGTCGCGACCCTCGATTTTCTAGTAGCTTGCTGACCTAC
1 GATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGACCTAC
* * * * * *
762467 GATTTTTTTATGGTCCGCTTATTTAAGATTGTGACCCTCGGTTTTCTAAAAACTTGTTGACCTAC
1 GATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGA-C--C
762532 GTTCAC
63 --T-AC
* * * * * *
762538 AATTGATTTTTTTACGGTTCGTTGATTTAAGATCGCGACCCTTGGTTTTCTAATAGCTTGCTGAC
1 ----GATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGAC
762603 CTAC
62 CTAC
762607 G
1 G
762608 TTCACAGTTG
Statistics
Matches: 110, Mismatches: 21, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
65 50 0.45
66 1 0.01
68 1 0.01
69 2 0.02
70 2 0.02
71 2 0.02
72 1 0.01
74 1 0.01
75 50 0.45
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (65 bp):
GATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGACCTAC
Found at i:762587 original size:140 final size:140
Alignment explanation
Indices: 762329--762607 Score: 355
Period size: 140 Copynumber: 2.0 Consensus size: 140
762319 CATAGTTGAT
** * * * *
762329 TTTTTTTATGGTTTGTTGATTTAAGATCGTGACCCTCAGTTTTCTAACAGTTCGCTAACTTATGT
1 TTTTTTTATGGTCCGTTGATTTAAGATCGTGACCCTCAGTTTTCTAAAACTTCGCTAACCTACGT
* * * *
762394 TCACAGCTGATTTTTTTACGGTCCGCTGATTTATGGTCGCGACCCTCGATTTTCTAGTAGCTTGC
66 TCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTTGC
762459 TGACCTACGA
131 TGACCTACGA
* * * *
762469 TTTTTTTATGGTCCGCTT-ATTTAAGATTGTGACCCTCGGTTTTCTAAAAACTT-GTTGACCTAC
1 TTTTTTTATGGTCCG-TTGATTTAAGATCGTGACCCTCAGTTTTCT-AAAACTTCGCTAACCTAC
* * * * *
762532 GTTCACAATTGATTTTTTTACGGTTCGTTGATTTAAGATCGCGACCCTTGGTTTTCTAATAGCTT
64 GTTCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTT
762597 GCTGACCTACG
129 GCTGACCTACG
762608 TTCACAGTTG
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
140 111 0.94
141 7 0.06
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (140 bp):
TTTTTTTATGGTCCGTTGATTTAAGATCGTGACCCTCAGTTTTCTAAAACTTCGCTAACCTACGT
TCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTTGC
TGACCTACGA
Found at i:762590 original size:75 final size:76
Alignment explanation
Indices: 762470--762705 Score: 323
Period size: 76 Copynumber: 3.1 Consensus size: 76
762460 GACCTACGAT
* * *
762470 TTTTTTATGGTCCGCTT-ATTTAAGATTGTGACCCTCGGTTTTCTAAAAACTTGTTGACCTACGT
1 TTTTTTATGGTCCG-TTGATTTAAGATCGCGACCCTCGGTTTTCTAATAACTTGTTGACCTACGT
*
762534 TCACAATTGAT-
65 TCACAGTTGATA
* * * * *
762545 TTTTTTACGGTTCGTTGATTTAAGATCGCGACCCTTGGTTTTCTAATAGCTTGCTGACCTACGTT
1 TTTTTTATGGTCCGTTGATTTAAGATCGCGACCCTCGGTTTTCTAATAACTTGTTGACCTACGTT
*
762610 CACAGTTGTTA
66 CACAGTTGATA
* * * *
762621 TTTTTTATGGTCCATTGATTTAATATCACGACCCTCGGTTTTCTAATAACTCGTTGACCTACGTT
1 TTTTTTATGGTCCGTTGATTTAAGATCGCGACCCTCGGTTTTCTAATAACTTGTTGACCTACGTT
762686 CACAGTTGATA
66 CACAGTTGATA
762697 TTTTTTATG
1 TTTTTTATG
762706 AATTAAGATC
Statistics
Matches: 139, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
74 2 0.01
75 62 0.45
76 75 0.54
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (76 bp):
TTTTTTATGGTCCGTTGATTTAAGATCGCGACCCTCGGTTTTCTAATAACTTGTTGACCTACGTT
CACAGTTGATA
Found at i:764697 original size:12 final size:12
Alignment explanation
Indices: 764680--764704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
764670 ATTTTATAAC
764680 ATAAATATTGTT
1 ATAAATATTGTT
764692 ATAAATATTGTT
1 ATAAATATTGTT
764704 A
1 A
764705 ATAGCCTTTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:766499 original size:134 final size:133
Alignment explanation
Indices: 766348--766613 Score: 356
Period size: 134 Copynumber: 2.0 Consensus size: 133
766338 CATATTTTGG
766348 ACATATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAA-T-ATTAA
1 ACATATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAATTAA
* *
766411 GATCTGAATATAACTTTTTGAAGTCAAGATTCGTCATCAGATATTTATTTTATATGAATATTTTA
66 -ATCTGAATATAAC-TTTTGAAGTCAAGATTCGTCAT-AGATATTTATTTTAAATGAATAGTTTA
766476 ATTCGA
128 ATTCGA
* * *
766482 ACATATATATATTATTAGATATTTAAACTATTTTTAATGATTATTTAAATCCAATAATTAGAATT
1 ACATATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATT--AATT
* * * ** * * *
766547 AAATTTGAGTATAGCTTTTGAAGTCTTGATTGGTTATAGATATTTATTTTAAATGAGTAGTTTAA
64 AAATCTGAATATAACTTTTGAAGTCAAGATTCGTCATAGATATTTATTTTAAATGAATAGTTTAA
766612 TT
129 TT
766614 TGAATTAATA
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
134 54 0.47
135 28 0.24
136 18 0.16
137 10 0.09
138 5 0.04
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.45
Consensus pattern (133 bp):
ACATATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAATTAA
ATCTGAATATAACTTTTGAAGTCAAGATTCGTCATAGATATTTATTTTAAATGAATAGTTTAATT
CGA
Found at i:769971 original size:34 final size:33
Alignment explanation
Indices: 769914--769984 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
769904 ATGCGGTTTG
*
769914 TACCGCGGGCGCTCCGCCCCGCACCCCTGGTCC
1 TACCACGGGCGCTCCGCCCCGCACCCCTGGTCC
* * *
769947 ATACCACGGGGGCTCCGCCTCGCACCCCTGTTCC
1 -TACCACGGGCGCTCCGCCCCGCACCCCTGGTCC
769981 TACC
1 TACC
769985 GTGGTAGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.10, C:0.51, G:0.24, T:0.15
Consensus pattern (33 bp):
TACCACGGGCGCTCCGCCCCGCACCCCTGGTCC
Found at i:770464 original size:12 final size:13
Alignment explanation
Indices: 770440--770468 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
770430 GAGCTATAAC
770440 TATTGCATTTATT
1 TATTGCATTTATT
770453 TATTGC-TTTATT
1 TATTGCATTTATT
770465 TATT
1 TATT
770469 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:770909 original size:22 final size:23
Alignment explanation
Indices: 770877--770929 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
770867 TCACCAAACT
*
770877 TTAGGAA-TTACATATGCTGTAA
1 TTAGGAAGTTACATATGATGTAA
770899 TTA-GAAGTTACATATGATGTAA
1 TTAGGAAGTTACATATGATGTAA
770921 TTAGGAAGT
1 TTAGGAAGT
770930 GTTGCTTACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.11
22 20 0.71
23 5 0.18
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.36
Consensus pattern (23 bp):
TTAGGAAGTTACATATGATGTAA
Found at i:788131 original size:30 final size:30
Alignment explanation
Indices: 788091--788170 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
788081 TGGTTGACCC
* *
788091 ATCCTTTTTCATAATTTGATAACCAAAGTT
1 ATCCCTTTTCATAATTTGATAACCAAAGCT
* * ** *
788121 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAACCAAAGCT
788151 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
788171 GGTCGTCACC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACCAAAGCT
Found at i:788163 original size:60 final size:60
Alignment explanation
Indices: 788089--788283 Score: 173
Period size: 60 Copynumber: 3.2 Consensus size: 60
788079 AATGGTTGAC
* *
788089 CCATCCTTTTTCATAATTTGATAACCAAAGTTATCCCTTTTCATAGTTCGATAGTCGAAG
1 CCATCCCTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATAGTTCGATAGTCGAAG
* ** *** * * * * *
788149 CTATCCCTTTTCATAATTTGATGGTCGTCA-CCACCCCTTTTCATTGTTCGATGGTCGTCA-
1 CCATCCCTTTTCATAATTTGAT-AACCAAAGCTATCCCTTTTCATAGTTCGATAGTCG-AAG
* **
788209 CCATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATA-TATCGATAG-CTGAAG
1 CCATCCCTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATAGT-TCGATAGTC-GAAG
*
788269 CCATCCTTTTTCATA
1 CCATCCCTTTTCATA
788284 GTTCGATGGT
Statistics
Matches: 104, Mismatches: 25, Indels: 12
0.74 0.18 0.09
Matches are distributed among these distances:
59 5 0.05
60 96 0.92
61 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (60 bp):
CCATCCCTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATAGTTCGATAGTCGAAG
Found at i:788187 original size:30 final size:30
Alignment explanation
Indices: 788153--788230 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
788143 TCGAAGCTAT
788153 CCCTTTTCATAATTTGATGGTCGTCACCAC
1 CCCTTTTCATAATTTGATGGTCGTCACCAC
** * *
788183 CCCTTTTCATTGTTCGATGGTCGTCACCAT
1 CCCTTTTCATAATTTGATGGTCGTCACCAC
788213 CCCTTTTCATAATTTGAT
1 CCCTTTTCATAATTTGAT
788231 AGCTGAAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (30 bp):
CCCTTTTCATAATTTGATGGTCGTCACCAC
Found at i:788216 original size:90 final size:90
Alignment explanation
Indices: 788121--788312 Score: 239
Period size: 90 Copynumber: 2.1 Consensus size: 90
788111 AACCAAAGTT
* * * *
788121 ATCCCTTTTCATAGTTCGATAG-TCGAAGCTATCCCTTTTCATA-ATTTGAT-GGTCGTCA-CCA
1 ATCCCTTTTCATAATTCGATAGCT-GAAGCTATCCCTTTTCATATA-TCGATAGCT-G-AAGCCA
*
788182 CCCCTTTTCATTGTTCGATGGTCGTCACC
62 CCCCTTTTCATAGTTCGATGGTCGTCACC
* * *
788211 ATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATATATCGATAGCTGAAGCCATCCT
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATATATCGATAGCTGAAGCCACCCC
*
788276 TTTTCATAGTTCGATGGTCTTCACC
66 TTTTCATAGTTCGATGGTCGTCACC
788301 ATCCCTTTTCAT
1 ATCCCTTTTCAT
788313 TGTTTATGGT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
89 1 0.01
90 84 0.94
91 4 0.04
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.39
Consensus pattern (90 bp):
ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATATATCGATAGCTGAAGCCACCCC
TTTTCATAGTTCGATGGTCGTCACC
Found at i:788245 original size:30 final size:31
Alignment explanation
Indices: 788209--788283 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
788199 ATGGTCGTCA
*
788209 CCATCCCTTTTCATAAT-TTGATAGCTGAAG
1 CCATCCCTTTTCATAATATCGATAGCTGAAG
*
788239 CTATCCCTTTTCAT-ATATCGATAGCTGAAG
1 CCATCCCTTTTCATAATATCGATAGCTGAAG
*
788269 CCATCCTTTTTCATA
1 CCATCCCTTTTCATA
788284 GTTCGATGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (31 bp):
CCATCCCTTTTCATAATATCGATAGCTGAAG
Found at i:788290 original size:30 final size:29
Alignment explanation
Indices: 788209--788399 Score: 122
Period size: 29 Copynumber: 6.5 Consensus size: 29
788199 ATGGTCGTCA
*
788209 CCATCCCTTTTCATAATTTGATAGCTGAAG
1 CCATCCCTTTTCAT-ATTCGATAGCTGAAG
*
788239 CTATCCCTTTTCATATATCGATAGCTGAAG
1 CCATCCCTTTTCATAT-TCGATAGCTGAAG
* * **
788269 CCATCCTTTTTCATAGTTCGATGGTCTTCA-
1 CCATCCCTTTTCATA-TTCGATAG-CTGAAG
** * *
788299 CCATCCCTTTTCAT-TGTTTATGGTCAT-CA-
1 CCATCCCTTTTCATAT-TCGATAG-C-TGAAG
* * *
788328 CTATCTCTTTTCATAATCGATAG-TCGAAG
1 CCATCCCTTTTCATATTCGATAGCT-GAAG
* * *
788357 CTATCCCTTTTCGTATTCGATAGCCGAAG
1 CCATCCCTTTTCATATTCGATAGCTGAAG
*
788386 CCATCGCTTTTCAT
1 CCATCCCTTTTCAT
788400 TTGTCGATGA
Statistics
Matches: 127, Mismatches: 24, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
26 1 0.01
28 2 0.02
29 62 0.49
30 58 0.46
31 4 0.03
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (29 bp):
CCATCCCTTTTCATATTCGATAGCTGAAG
Found at i:788305 original size:60 final size:59
Alignment explanation
Indices: 788121--788312 Score: 192
Period size: 60 Copynumber: 3.2 Consensus size: 59
788111 AACCAAAGTT
* *
788121 ATCCCTTTTCATAGTTCGATAGTCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATA-TTCGATAGTCGAAGCCATCCCTTTTCATAATTTGATGGTCTTCACC
* * * * * ** *
788181 ACCCCTTTTCATTGTTCGATGGTCGTCA-CCATCCCTTTTCATAATTTGATAG-CTGAAGCT
1 ATCCCTTTTCA-TATTCGATAGTCG-AAGCCATCCCTTTTCATAATTTGATGGTCTTCA-CC
* * *
788241 ATCCCTTTTCATATATCGATAG-CTGAAGCCATCCTTTTTCATAGTTCGATGGTCTTCACC
1 ATCCCTTTTCATAT-TCGATAGTC-GAAGCCATCCCTTTTCATAATTTGATGGTCTTCACC
788301 ATCCCTTTTCAT
1 ATCCCTTTTCAT
788313 TGTTTATGGT
Statistics
Matches: 104, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
59 6 0.06
60 93 0.89
61 5 0.05
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.39
Consensus pattern (59 bp):
ATCCCTTTTCATATTCGATAGTCGAAGCCATCCCTTTTCATAATTTGATGGTCTTCACC
Found at i:789212 original size:16 final size:15
Alignment explanation
Indices: 789186--789215 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
789176 TATCCTATTT
789186 TAATTACTTAATTAC
1 TAATTACTTAATTAC
789201 TAATTCACTTAATTA
1 TAATT-ACTTAATTA
789216 ACCTTGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTACTTAATTAC
Found at i:790999 original size:27 final size:27
Alignment explanation
Indices: 790937--791004 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
790927 CCAGAAGGCT
* * * * *
790937 TGGCGAGCTGGTATACGTCAGTAAGTC
1 TGGCGAGATGGTGTACGCCAGCAAGAC
* *
790964 TAGCAAGATGGTGTACGCCAGCAAGAC
1 TGGCGAGATGGTGTACGCCAGCAAGAC
790991 TGGCGAGATGGTGT
1 TGGCGAGATGGTGT
791005 TCTCTAATAG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (27 bp):
TGGCGAGATGGTGTACGCCAGCAAGAC
Found at i:812913 original size:18 final size:18
Alignment explanation
Indices: 812890--812926 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
812880 AGAGAATAAA
812890 ATGATGAGGATGAGAAAG
1 ATGATGAGGATGAGAAAG
* *
812908 ATGATGATGATGAGGAAG
1 ATGATGAGGATGAGAAAG
812926 A
1 A
812927 CATGGAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.19
Consensus pattern (18 bp):
ATGATGAGGATGAGAAAG
Found at i:818249 original size:21 final size:21
Alignment explanation
Indices: 818223--818286 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 21
818213 ACTTAAATCC
*
818223 TTTCTCTCAAATTCTCTCATA
1 TTTCTCTCAAATTCTCTCACA
818244 TTTCTCTCCAATATTCTCTCACA
1 TTTCTCT-CAA-ATTCTCTCACA
818267 TTTCTCTCAAATTC-CTCACA
1 TTTCTCTCAAATTCTCTCACA
818287 AATTCCTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 6 0.15
21 11 0.28
22 6 0.15
23 17 0.43
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTCTCTCAAATTCTCTCACA
Found at i:820114 original size:18 final size:18
Alignment explanation
Indices: 820091--820132 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
820081 GCCAAGTGCT
* *
820091 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
820109 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
820127 TTTCCT
1 TATCCT
820133 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:820418 original size:20 final size:20
Alignment explanation
Indices: 820373--820419 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
820363 TCAACACCGA
820373 CAACCAGATCCCCTACCGGAG
1 CAACCAGATCCCCTA-CGGAG
*
820394 GAACCAGAATCCCCT-CGGAG
1 CAACCAG-ATCCCCTACGGAG
820414 CAACCA
1 CAACCA
820420 AAACCCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 10 0.43
21 6 0.26
22 7 0.30
ACGTcount: A:0.32, C:0.40, G:0.19, T:0.09
Consensus pattern (20 bp):
CAACCAGATCCCCTACGGAG
Found at i:820601 original size:34 final size:32
Alignment explanation
Indices: 820558--820652 Score: 101
Period size: 34 Copynumber: 3.0 Consensus size: 32
820548 TATTGATGCC
*
820558 TATTACATGTAATAAAATAGAAATT-CTGTTATA
1 TATTTCATGTAATAAAATAGAAATTACT-TT-TA
*
820591 TTATTTCATGTAATAAAATAAAAATTTACTTTTA
1 -TATTTCATGTAATAAAATAGAAA-TTACTTTTA
820625 TATTT--T-TAATAAAATAGAAATTA-TTTTA
1 TATTTCATGTAATAAAATAGAAATTACTTTTA
820653 AATAAGGTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
28 5 0.09
29 3 0.05
30 13 0.23
31 1 0.02
33 5 0.09
34 23 0.41
35 4 0.07
36 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (32 bp):
TATTTCATGTAATAAAATAGAAATTACTTTTA
Found at i:820730 original size:111 final size:112
Alignment explanation
Indices: 820613--820814 Score: 334
Period size: 111 Copynumber: 1.8 Consensus size: 112
820603 ATAAAATAAA
* * *
820613 AATTTACTTTTATATTTTTAATAAAATAGAAATTATTTTAAATAAGGTAATATTTTAAATATTTC
1 AATTTACTTTAATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAATATTTTAAATATTTA
*
820678 TATATTATTTCATTT-AATAAAATATTGTTTTGAATAAAGTAATTGT
66 TATATTATTTCATTTCAAAAAAATATTGTTTTGAATAAAGTAATTGT
* * *
820724 AATTTACTTTAATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTGAGTATTTA
1 AATTTACTTTAATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAATATTTTAAATATTTA
820789 TATATTATTTCATTTCAAAAAAATAT
66 TATATTATTTCATTTCAAAAAAATAT
820815 AAATAATACA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
111 74 0.89
112 9 0.11
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (112 bp):
AATTTACTTTAATATTTTTAATAAAATAGAAATTATTTTAAATAAGGCAATATTTTAAATATTTA
TATATTATTTCATTTCAAAAAAATATTGTTTTGAATAAAGTAATTGT
Found at i:824042 original size:125 final size:125
Alignment explanation
Indices: 823820--824111 Score: 451
Period size: 125 Copynumber: 2.3 Consensus size: 125
823810 GGCCAAATAG
*
823820 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCAAC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
* **
823885 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAAGGTCTTCTTGAAATTAT-TTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTC-A
* * * *
823945 GAACTACTGTAGCAAAAGAGCGTCCACGAGGGACCTTTTTTCAGTACTTTTGCTGACAATGCATC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
*
824010 CTGCTTAAAGCGTTTTTGCCACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
* * *
824070 GTAACTACTATAGAAAAAAAGCGTCCACGTGGGAGCTTTTTT
1 G-AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTT
824112 AAATAAACAA
Statistics
Matches: 151, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
125 111 0.74
126 40 0.26
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (125 bp):
GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
Found at i:824347 original size:95 final size:96
Alignment explanation
Indices: 824144--824448 Score: 400
Period size: 96 Copynumber: 3.2 Consensus size: 96
824134 AATAACCCTA
* *
824144 AACCCCAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTATT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTA--
* *
824209 TTTTTTAAAAATTTATAATTAATTTACTCAAGT
64 ATTTTAAAAAATTTATAATTAATTTACTCAAGT
824242 AACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAAT
* *
824306 TTAAAAAAATTAATAATTAATTTACTCAAGT
66 TTTAAAAAATTTATAATTAATTTACTCAAGT
* * * * *
824337 AACCCTAAACCCTAAATTAATTGATTTTTTCCTTAAAAA-CCATAAGCAC-AGAACCTTAATCTA
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTTAA-CACTA-AACCCTAATCTA
* * * * **
824400 ATTTTGAAAATTTTATAATTAATTTAATTAAAA
64 ATTTTAAAAAATTTATAATTAATTTACTCAAGT
824433 AACCCTAAACCCTAAT
1 AACCCTAAACCCTAAT
824449 CCCTTATTTA
Statistics
Matches: 185, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
95 57 0.31
96 68 0.37
97 37 0.20
98 23 0.12
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAAT
TTTAAAAAATTTATAATTAATTTACTCAAGT
Found at i:824493 original size:7 final size:7
Alignment explanation
Indices: 824474--824522 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
824464 TTTTTCTTTA
824474 AAACCCT
1 AAACCCT
824481 -AACCCT
1 AAACCCT
824487 AAACCCT
1 AAACCCT
*
824494 AAACCCA
1 AAACCCT
*
824501 AAACCCA
1 AAACCCT
*
824508 AAATCCT
1 AAACCCT
824515 -AACCCT
1 AAACCCT
824521 AA
1 AA
824523 CACAGAGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:845635 original size:49 final size:49
Alignment explanation
Indices: 845578--845766 Score: 150
Period size: 49 Copynumber: 3.7 Consensus size: 49
845568 TAATAATATG
*
845578 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATGTAC-TA
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTA
* * * *
845627 CCAAAGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTA
* * * ** *
845677 CC-ATGCAATGTCCCAGACATGGTCTTACCTGGGACCTCTCATGATCTCAAGGATG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G-TA
* *
845732 CCAATGCCATGTCCCAGACATGGTCTTACACGGGA
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGA
845767 TCTCTTTACC
Statistics
Matches: 114, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
48 4 0.04
49 69 0.61
50 4 0.04
52 2 0.02
54 2 0.02
55 4 0.04
56 29 0.25
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (49 bp):
CCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTA
Found at i:854587 original size:8 final size:8
Alignment explanation
Indices: 854576--854609 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
854566 CTTTAATTGG
854576 CTAATTAC
1 CTAATTAC
854584 CTAATTAC
1 CTAATTAC
854592 CTAATTAC
1 CTAATTAC
854600 C-AA-TAC
1 CTAATTAC
854606 CTAA
1 CTAA
854610 CTTTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.16
7 4 0.16
8 17 0.68
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.32
Consensus pattern (8 bp):
CTAATTAC
Done.