Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 188 of 310
Found at i:61362967 original size:409 final size:404
Alignment explanation
Indices: 61362120--61362995 Score: 1276
Period size: 409 Copynumber: 2.2 Consensus size: 404
61362110 TTAGTAAAGC
* *
61362120 AGAAATTGAAAATACCTCAACGTGCCCT-AAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGAATT
*
61362181 ---TTTTGGAAACATGAATTGAAAAATAAAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCA
65 TTTTTTTGAAAACATGAATTGAAAAATAAAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCA
61362243 ACTCACCTCTCGCAATATGAGTTGATTTTGGAAACATGAATTGAAAAATAAAAATTGAAAATACC
130 ACTCACCTCTCGCAATATGAGTTGATTTTGGAAACATGAATTGAAAAATAAAAATTGAAAATACC
*
61362308 TCAGCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAA
195 TCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAA
* *
61362373 ATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
260 ATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG--
* *
61362438 AAGCATAAACGGAAATTGAAAATACCTCGGCATGCCCTGAGGCTCAACTCACCTCTCCCAATATG
323 AA-CATAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCCCAATATG
61362503 AGTTGATTTTTGAAAAAT
387 AGTTGATTTTTGAAAAAT
** *
61362521 AGAAATTGAAGTTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAA-TT
* *
61362586 TTTTTTTGAAAGACA-GAAATTGAAAAATAGAAATTGAAAATACCTCAGCATGTGAGCTGATGCT
65 TTTTTTTGAAA-ACATG-AATTGAAAAATAAAAATTGAAAATACCTCAGCATGTGAGCTGAGGCT
** *
61362650 CAACTCACCTCTCGCAATATGAGTTGATTTTGGAAACA-GAAATTG-AAGTTAGAAATTGAAAAT
128 CAACTCACCTCTCGCAATATGAGTTGATTTTGGAAACATG-AATTGAAAAATAAAAATTGAAAAT
*
61362713 ACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAAGC
192 ACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAGC
*
61362778 AGAAATTAAAAATACCTCAGCGTGTCTCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTT
256 AGAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTT
* *
61362843 TG-A-A-AAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
321 TGAACATAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCCCAATAT
61362905 GAGTTGATTTTTTTGAAAAAT
386 GAGTTGA--TTTTTGAAAAAT
* * * * * * *
61362926 ATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCATCTCTCACAAAACGAGTT-A
1 AGAAATTG--AAAATACCTCAGCGTGT--CCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA
61362990 ATTTTT
62 ATTTTT
61362996 GACAAACAGA
Statistics
Matches: 427, Mismatches: 30, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
401 53 0.12
402 2 0.00
403 61 0.14
404 1 0.00
405 19 0.04
406 1 0.00
407 19 0.04
408 75 0.18
409 196 0.46
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (404 bp):
AGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
TTTTTTGAAAACATGAATTGAAAAATAAAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTGGAAACATGAATTGAAAAATAAAAATTGAAAATACCT
CAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAA
TTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAC
ATAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCCCAATATGAGTT
GATTTTTGAAAAAT
Found at i:61363143 original size:86 final size:86
Alignment explanation
Indices: 61362991--61363156 Score: 255
Period size: 86 Copynumber: 1.9 Consensus size: 86
61362981 AACGAGTTAA
** *
61362991 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTAACCTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTGACAAACAGAAATTGAAAAAACCTCAACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAA
61363056 TATGAGTTGATCTTTTTTATTTT
65 TATGAGTTGAT-TTTTTTATTTT
*
61363079 TTTTTGA-AAGACAGAAATTGAAAAAACCTCAACGTGT-CTTGAGGCTCAACTCACCTCTCGCAA
1 TTTTTGACAA-ACAGAAATTGAAAAAACCTCAACGTGTACCTGAGGCTCAACTCACCTCTCGCAA
61363142 TATGAGTTGATTTTT
65 TATGAGTTGATTTTT
61363157 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
85 4 0.05
86 36 0.49
87 2 0.03
88 31 0.42
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (86 bp):
TTTTTGACAAACAGAAATTGAAAAAACCTCAACGTGTACCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTTTATTTT
Found at i:61375512 original size:29 final size:30
Alignment explanation
Indices: 61375446--61375512 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
61375436 ATTTAGAGTT
* *
61375446 AAAATGTAATTTAAGAAAAGTTTAAGGGTC
1 AAAATGAAATTAAAGAAAAGTTTAAGGGTC
* *
61375476 TAAGTGAAATTAAAG-AAAGTTTAAGGGTC
1 AAAATGAAATTAAAGAAAAGTTTAAGGGTC
61375505 AAAATGAA
1 AAAATGAA
61375513 TTTTTTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.49, C:0.03, G:0.21, T:0.27
Consensus pattern (30 bp):
AAAATGAAATTAAAGAAAAGTTTAAGGGTC
Found at i:61382230 original size:57 final size:57
Alignment explanation
Indices: 61382130--61382246 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 57
61382120 GTCATTATTC
* * * **
61382130 ACATTTTGACAACATAAATATGCGCATTAAGAGATATTATGACAGTAGCTGTAAATT
1 ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
* * *
61382187 ACATTTGGACAGCATAAATATGCACATTAAGATACATTTTGACAACAGCTGTAAATT
1 ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
61382244 ACA
1 ACA
61382247 AGTGCAAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (57 bp):
ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
Found at i:61384229 original size:36 final size:36
Alignment explanation
Indices: 61384182--61384259 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
61384172 TGAAAAAGAA
*
61384182 AACTAAAAAAAATAGAGGAGATAGAACATTTTTTTC
1 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
61384218 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
1 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
61384254 AACTAA
1 AACTAA
61384260 TATTTAGGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.27
Consensus pattern (36 bp):
AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
Found at i:61384577 original size:27 final size:27
Alignment explanation
Indices: 61384522--61384578 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
61384512 TAGTTTAGCC
****
61384522 AATAAATAAATACAAATAGAACTTCAA
1 AATAAATAAATACAAATAGAAAAGAAA
*
61384549 AATAAATAAATACAAATATAAAAGAAA
1 AATAAATAAATACAAATAGAAAAGAAA
61384576 AAT
1 AAT
61384579 CGAATCGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (27 bp):
AATAAATAAATACAAATAGAAAAGAAA
Found at i:61390652 original size:18 final size:18
Alignment explanation
Indices: 61390629--61390666 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
61390619 AATATATATT
61390629 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
61390647 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
61390665 AA
1 AA
61390667 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:61390659 original size:13 final size:13
Alignment explanation
Indices: 61390643--61390667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61390633 CAAGTACCCA
61390643 ACCCAACCCAATT
1 ACCCAACCCAATT
61390656 ACCCAACCCAAT
1 ACCCAACCCAAT
61390668 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:61390725 original size:5 final size:6
Alignment explanation
Indices: 61390692--61390732 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
61390682 ATAATTTAAT
*
61390692 AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
61390733 CATATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:61392887 original size:16 final size:16
Alignment explanation
Indices: 61392866--61392898 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
61392856 TCGCTTATTA
*
61392866 ATTATAAATTCATTTC
1 ATTATAAAGTCATTTC
61392882 ATTATAAAGTCATTTC
1 ATTATAAAGTCATTTC
61392898 A
1 A
61392899 CAATAGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTATAAAGTCATTTC
Found at i:61394460 original size:15 final size:15
Alignment explanation
Indices: 61394440--61394471 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
61394430 TTTAATTTAG
61394440 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
61394455 AAGATAAATATATAT
1 AAGATAAATATAAAT
61394470 AA
1 AA
61394472 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:61394496 original size:37 final size:37
Alignment explanation
Indices: 61394446--61394526 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
61394436 TTAGAAGATA
61394446 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
61394483 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
*
61394520 AAAATAA
1 AATATAA
61394527 TATATATCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (37 bp):
AATATAAATAAGATAAATATATATAAATTATTATTTT
Found at i:61396512 original size:39 final size:39
Alignment explanation
Indices: 61396458--61396536 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
61396448 GATATGACTG
* *
61396458 TCTTAAATTTGTTATTTTGCTTGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
61396497 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
61396536 T
1 T
61396537 TCTGTCAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (39 bp):
TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
Found at i:61396891 original size:2 final size:2
Alignment explanation
Indices: 61396884--61396931 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
61396874 CCATTAATTT
* * *
61396884 TA TA TA TA TA TA CA TA TA TA TA CA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61396926 TA TA TA
1 TA TA TA
61396932 GAATAAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:61396903 original size:14 final size:14
Alignment explanation
Indices: 61396884--61396931 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
61396874 CCATTAATTT
* *
61396884 TATATATATATACA
1 TATATATACATATA
61396898 TATATATACATATA
1 TATATATACATATA
61396912 TATATATACATATA
1 TATATATACATATA
61396926 TATATA
1 TATATA
61396932 GAATAAATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATATACATATA
Found at i:61398704 original size:9 final size:9
Alignment explanation
Indices: 61398681--61398781 Score: 85
Period size: 9 Copynumber: 10.6 Consensus size: 9
61398671 ATTGATCATT
*
61398681 ACTTAAATA
1 ACTTACATA
*
61398690 AATTACATA
1 ACTTACATA
61398699 ACTTACATA
1 ACTTACATA
* *
61398708 ACTCATATA
1 ACTTACATA
61398717 ACTTACATA
1 ACTTACATA
*
61398726 ATTTACATAACA
1 ACTTACAT---A
61398738 ACTTACATA
1 ACTTACATA
*
61398747 ACTCACATA
1 ACTTACATA
*
61398756 ACGTACATAACA
1 ACTTACAT---A
61398768 ACTTACATA
1 ACTTACATA
61398777 ACTTA
1 ACTTA
61398782 ACTAATACAT
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
9 57 0.78
12 16 0.22
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:61398742 original size:21 final size:21
Alignment explanation
Indices: 61398698--61398757 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
61398688 TAAATTACAT
*
61398698 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
61398716 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
61398737 AACTTACATAACTCACATAAC
1 AACTTACATAACTCACATAAC
61398758 GTACATAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.34
20 3 0.09
21 20 0.57
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:61398755 original size:30 final size:30
Alignment explanation
Indices: 61398714--61398779 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
61398704 CATAACTCAT
* **
61398714 ATAACTTACATAATTTACATAACAACTTAC
1 ATAACTCACATAACGTACATAACAACTTAC
61398744 ATAACTCACATAACGTACATAACAACTTAC
1 ATAACTCACATAACGTACATAACAACTTAC
61398774 ATAACT
1 ATAACT
61398780 TAACTAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.29
Consensus pattern (30 bp):
ATAACTCACATAACGTACATAACAACTTAC
Found at i:61398780 original size:39 final size:40
Alignment explanation
Indices: 61398692--61398781 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
61398682 CTTAAATAAA
* * **
61398692 TTACATAACTTACATAACTCATATAACTTACATAATTTAC
1 TTACATAACTTACATAACTCACATAACGTACATAATCAAC
* *
61398732 ATA-ACAACTTACATAACTCACATAACGTACATAA-CAAC
1 TTACATAACTTACATAACTCACATAACGTACATAATCAAC
61398770 TTACATAACTTA
1 TTACATAACTTA
61398782 ACTAATACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 4 0.10
39 35 0.85
40 2 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (40 bp):
TTACATAACTTACATAACTCACATAACGTACATAATCAAC
Found at i:61404722 original size:43 final size:43
Alignment explanation
Indices: 61404675--61404771 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
61404665 ACTGGGCAAA
*
61404675 TTAGCGGCGTTTTTTAAAAAAGCGCCGCGAAAAGTCCCAGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCAGCGAAAAGTCCCAGTCT
* * * * *
61404718 TTAGCGGTGTTTTTTAAAAAAGTGCAGCTAAAAGTCTCGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCAGCGAAAAGTCCCAGTCT
*
61404761 TTAGCAGCGTT
1 TTAGCGGCGTT
61404772 ACATATAGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCAGCGAAAAGTCCCAGTCT
Found at i:61406260 original size:12 final size:10
Alignment explanation
Indices: 61406226--61406380 Score: 65
Period size: 10 Copynumber: 15.6 Consensus size: 10
61406216 CTTATCAAAC
61406226 TATAAAAATA
1 TATAAAAATA
61406236 T-TAAAAAATA
1 TAT-AAAAATA
61406246 TATAAAAAT-
1 TATAAAAATA
*
61406255 TGATATAAATA
1 T-ATAAAAATA
*
61406266 T-TATAAATA
1 TATAAAAATA
*
61406275 TTATAAAAATC
1 -TATAAAAATA
*
61406286 TA-ATAAAT-
1 TATAAAAATA
61406294 TATAAAAA-A
1 TATAAAAATA
*
61406303 TATATAACATA
1 TATA-AAAATA
* * *
61406314 TTTAAAATTT
1 TATAAAAATA
**
61406324 TATAAAAACG
1 TATAAAAATA
*
61406334 TATGAAAAT-
1 TATAAAAATA
* *
61406343 TCTATAAAATT
1 TATA-AAAATA
61406354 TATAAAAA-A
1 TATAAAAATA
*
61406363 GTATTAAAATTA
1 -TA-TAAAAATA
61406375 TATAAA
1 TATAAA
61406381 CCTATAAAAA
Statistics
Matches: 109, Mismatches: 21, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
8 2 0.02
9 25 0.23
10 59 0.54
11 22 0.20
12 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (10 bp):
TATAAAAATA
Found at i:61406267 original size:30 final size:29
Alignment explanation
Indices: 61406231--61406309 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
61406221 CAAACTATAA
61406231 AAATATTAAAAAATATATAAAAAT-TGATAT
1 AAATATTAAAAAATATATAAAAATCT-A-AT
*
61406261 AAATATT-ATAAATATTATAAAAATCTAAT
1 AAATATTAAAAAATA-TATAAAAATCTAAT
61406290 AAAT-TATAAAAAATATATAA
1 AAATAT-TAAAAAATATATAA
61406310 CATATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
28 1 0.02
29 18 0.42
30 23 0.53
31 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (29 bp):
AAATATTAAAAAATATATAAAAATCTAAT
Found at i:61406315 original size:48 final size:50
Alignment explanation
Indices: 61406226--61406331 Score: 130
Period size: 48 Copynumber: 2.2 Consensus size: 50
61406216 CTTATCAAAC
* *
61406226 TATAAAAATATTAAAAAATATATAAAAATTGATATAAATA-TTATAAATAT
1 TATAAAAATACTAAAAAATATATAAAAAATGATATAAATATTTA-AAATAT
* *
61406276 TATAAAAAT-CTAATAAAT-TATAAAAAAT-ATATAACATATTTAAAATTT
1 TATAAAAATACTAAAAAATATATAAAAAATGATATAA-ATATTTAAAATAT
61406324 TATAAAAA
1 TATAAAAA
61406332 CGTATGAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
47 6 0.12
48 25 0.50
49 10 0.20
50 9 0.18
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (50 bp):
TATAAAAATACTAAAAAATATATAAAAAATGATATAAATATTTAAAATAT
Found at i:61406356 original size:30 final size:31
Alignment explanation
Indices: 61406316--61406380 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
61406306 ATAACATATT
* *
61406316 TAAAATTTTATAAAAACGTATGAAAATTCTA
1 TAAAATTTTATAAAAAAGTATGAAAATTATA
*
61406347 TAAAA-TTTATAAAAAAGTATTAAAATTATA
1 TAAAATTTTATAAAAAAGTATGAAAATTATA
61406377 TAAA
1 TAAA
61406381 CCTATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (31 bp):
TAAAATTTTATAAAAAAGTATGAAAATTATA
Found at i:61406375 original size:19 final size:19
Alignment explanation
Indices: 61406347--61406399 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
61406337 GAAAATTCTA
*
61406347 TAAAATTTATAAAAAAGTAT
1 TAAAA-TTATAAAAAACTAT
* *
61406367 TAAAATTATATAAACCTAT
1 TAAAATTATAAAAAACTAT
*
61406386 AAAAATTA-AAAAAA
1 TAAAATTATAAAAAA
61406400 TCATAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAATTATAAAAAACTAT
Found at i:61406977 original size:19 final size:20
Alignment explanation
Indices: 61406955--61407002 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
61406945 ATAAGTGTTT
61406955 ATAATTTTTTAT-AATTCTA
1 ATAATTTTTTATAAATTCTA
* * *
61406974 ATAAGTTTATATAAATTTTA
1 ATAATTTTTTATAAATTCTA
61406994 AT-ATTTTTT
1 ATAATTTTTT
61407003 TGAAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
ATAATTTTTTATAAATTCTA
Found at i:61410635 original size:221 final size:220
Alignment explanation
Indices: 61410252--61410685 Score: 859
Period size: 221 Copynumber: 2.0 Consensus size: 220
61410242 GTCCTGTATT
61410252 GGCTGGAAGTGGCTTATTCGATGCTGTAATAAGCGGAAAAGGAGGCCATGCAGCCATTCCTCAAC
1 GGCTGGAAGTGGCTTATTCGATGCTGTAATAAGCGGAAAAGGAGGCCATGCAGCCATTCCTCAAC
61410317 ATTCAATAGACCCGATTTTGGCAGCCTCTAACGTTGTAGTCAGCCTACAACATCTTGTTTCACGA
66 ATTCAATAGACCCGATTTTGGCAGCCTCTAACGTTGTAGTCAGCCTACAACATCTTGTTTCACGA
61410382 GAAGCTGATCCATTGGATTCCCAGGTACATTTCTTCCATTATCTCTAAGCCTTTTATCCCTTGCT
131 GAAGCTGATCCATTGGATTCCCAGGTACATTTCTTCCATTATCTCTAAGCCTTTTATCCCTTGCT
61410447 CCCTATGCATATTAAGAANCTTTATG
196 CCCTATGCATATTAAGAA-CTTTATG
61410473 GGCTGGAAGTGGCTTATTCGATGCTGTAATAAGCGGAAAAGGAGGCCATGCAGCCATTCCTCAAC
1 GGCTGGAAGTGGCTTATTCGATGCTGTAATAAGCGGAAAAGGAGGCCATGCAGCCATTCCTCAAC
61410538 ATTCAATAGACCCGATTTTGGCAGCCTCTAACGTTGTAGTCAGCCTACAACATCTTGTTTCACGA
66 ATTCAATAGACCCGATTTTGGCAGCCTCTAACGTTGTAGTCAGCCTACAACATCTTGTTTCACGA
61410603 GAAGCTGATCCATTGGATTCCCAGGTACATTTCTTCCATTATCTCTAAGCCTTTTATCCCTTGCT
131 GAAGCTGATCCATTGGATTCCCAGGTACATTTCTTCCATTATCTCTAAGCCTTTTATCCCTTGCT
61410668 CCCTATGCATATTAAGAA
196 CCCTATGCATATTAAGAA
61410686 ATGATTTGGC
Statistics
Matches: 213, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 213 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (220 bp):
GGCTGGAAGTGGCTTATTCGATGCTGTAATAAGCGGAAAAGGAGGCCATGCAGCCATTCCTCAAC
ATTCAATAGACCCGATTTTGGCAGCCTCTAACGTTGTAGTCAGCCTACAACATCTTGTTTCACGA
GAAGCTGATCCATTGGATTCCCAGGTACATTTCTTCCATTATCTCTAAGCCTTTTATCCCTTGCT
CCCTATGCATATTAAGAACTTTATG
Found at i:61411808 original size:29 final size:31
Alignment explanation
Indices: 61411757--61411818 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
61411747 AGTCTATATC
*
61411757 TTTATAATTTTTGAAGGATTAAATTA-AATT
1 TTTATAATTTTTGAAGGATTAAAGTATAATT
*
61411787 TTTATAA-TTTT-AAGAGTTTAAAGTATAATT
1 TTTATAATTTTTGAAG-GATTAAAGTATAATT
61411817 TT
1 TT
61411819 ATCTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 3 0.11
29 12 0.43
30 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (31 bp):
TTTATAATTTTTGAAGGATTAAAGTATAATT
Found at i:61414527 original size:23 final size:24
Alignment explanation
Indices: 61414487--61414537 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
61414477 TTTTTTTTAT
*
61414487 TTTTTATTTTCATAATTTATATAA
1 TTTTTAATTTCATAATTTATATAA
* *
61414511 TTTTTAATTTCAT-ATTTTTATTA
1 TTTTTAATTTCATAATTTATATAA
61414534 TTTT
1 TTTT
61414538 GTATTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTAATTTCATAATTTATATAA
Found at i:61423023 original size:43 final size:44
Alignment explanation
Indices: 61422945--61423028 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 44
61422935 TATGTAAAAT
* * *
61422945 AAAATATGTGATAATTATACATTTAAAAAGTTTATAATTTAACA
1 AAAATATGTAATAATTACACATTTAAAAAGATTATAATTTAACA
* *
61422989 AAAAT-TGTAATAATTACATATTTAAAATA-ATTATACTTTA
1 AAAATATGTAATAATTACACATTTAAAA-AGATTATAATTTA
61423029 GTTTATAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 28 0.82
44 6 0.18
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (44 bp):
AAAATATGTAATAATTACACATTTAAAAAGATTATAATTTAACA
Found at i:61426341 original size:44 final size:45
Alignment explanation
Indices: 61426175--61426347 Score: 168
Period size: 49 Copynumber: 3.7 Consensus size: 45
61426165 GGGATAAGAT
* * *
61426175 GTCGACGCCATGTCCTAGACATGGTCTTACACTGGCTAACACATCAAA
1 GTCGACGCCATGTCCCAGACA-GGTCTTACACT-G-AAACACAACAAA
* ** * *
61426223 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAA
1 GTCGACGCCATGTCCCAGACAGGTCTTACACTGA--AACACA-A-CAAA
* * *
61426272 GCCAATGCCATGTCCCAGACAGGTCTTACACTGAAACACAAC-AA
1 GTCGACGCCATGTCCCAGACAGGTCTTACACTGAAACACAACAAA
*
61426316 GTTGACGCCATGTCCCAGACAGGTCTTACACT
1 GTCGACGCCATGTCCCAGACAGGTCTTACACT
61426348 AGCTTGTAAT
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 30 0.29
45 1 0.01
46 2 0.02
47 17 0.16
48 19 0.18
49 35 0.34
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (45 bp):
GTCGACGCCATGTCCCAGACAGGTCTTACACTGAAACACAACAAA
Found at i:61426395 original size:48 final size:46
Alignment explanation
Indices: 61426324--61426538 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
61426314 AAGTTGACGC
*
61426324 CATGTCCCAGACAGGTCTTACACTAGCTTGTAATCTCGAGGCCCGATG
1 CATGT-CCAGACATGTCTTACACTAGCTTGTAATCTCGAGG-CCGATG
* * ** * *
61426372 CATGTCCTAGAAATGTCTTACACTAGC-TCTCGTCTCAATGCCGATG
1 CATGTCC-AGACATGTCTTACACTAGCTTGTAATCTCGAGGCCGATG
*
61426418 CATGTTCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGATG
1 CATG-TCCAGACATGTCTTACACTAGCTTGTA-ATCTCGAGGCCGATG
* * * *
61426466 CATGTCCAAGACATGTCTTACACTGGCTCTCATAA--T-GTGGTCGATG
1 CATGTCC-AGACATGTCTTACACTAGCT-T-GTAATCTCGAGGCCGATG
61426512 CATGTCCCAGACATGTCTTACACTAGC
1 CATGT-CCAGACATGTCTTACACTAGC
61426539 ACACATATCA
Statistics
Matches: 141, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
46 58 0.41
47 21 0.15
48 58 0.41
49 2 0.01
50 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCAGACATGTCTTACACTAGCTTGTAATCTCGAGGCCGATG
Found at i:61426547 original size:94 final size:94
Alignment explanation
Indices: 61426324--61426538 Score: 294
Period size: 94 Copynumber: 2.3 Consensus size: 94
61426314 AAGTTGACGC
* *
61426324 CATGTCCCAGACAGGTCTTACACTAGCTTGTA-ATCTCGAGGCCCGATGCATGTCCTAGAAATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCCGATGCATGTCCAAGAAATGT
*
61426388 CTTACACTAGCTCTCGTCTCAATGCCGATG
66 CTTACACTAGCTCTCG-ATCAATGCCGATG
* * *
61426418 CATGTTCCAGACATGTCTTACACTGGCTTGTATATCTCGAGG-CCGATGCATGTCCAAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCCGATGCATGTCCAAGAAATGT
* *
61426482 CTTACACTGGCTCTC-AT-AATGTGGTCGATG
66 CTTACACTAGCTCTCGATCAA--T-GCCGATG
61426512 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
61426539 ACACATATCA
Statistics
Matches: 107, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 1 0.01
94 94 0.88
95 9 0.08
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCCGATGCATGTCCAAGAAATGT
CTTACACTAGCTCTCGATCAATGCCGATG
Found at i:61427749 original size:14 final size:14
Alignment explanation
Indices: 61427714--61427740 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61427704 CTCACAATCA
61427714 CTAAAATTAATTCG
1 CTAAAATTAATTCG
61427728 CTAAAATTAATTC
1 CTAAAATTAATTC
61427741 ATCAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (14 bp):
CTAAAATTAATTCG
Found at i:61432208 original size:23 final size:24
Alignment explanation
Indices: 61432166--61432215 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
61432156 AACACTGACG
* *
61432166 TGAGTTAATCTTTTGCTTGTTTAAT
1 TGAGTTAA-CTTTTGATTGTTAAAT
61432191 TGAGTTAA-TTTTGATTGTTAAAT
1 TGAGTTAACTTTTGATTGTTAAAT
61432214 TG
1 TG
61432216 TCTTCCTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
25 8 0.35
ACGTcount: A:0.24, C:0.04, G:0.18, T:0.54
Consensus pattern (24 bp):
TGAGTTAACTTTTGATTGTTAAAT
Found at i:61434485 original size:17 final size:17
Alignment explanation
Indices: 61434463--61434507 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
61434453 AGAGAAAAAC
61434463 CAAAAATAAAAAATAAA
1 CAAAAATAAAAAATAAA
*
61434480 CAAAAA-CAAAAATAAA
1 CAAAAATAAAAAATAAA
**
61434496 TTAAAATAAAAA
1 CAAAAATAAAAA
61434508 CCAATAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (17 bp):
CAAAAATAAAAAATAAA
Found at i:61436292 original size:24 final size:22
Alignment explanation
Indices: 61436265--61436314 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
61436255 TTTGTAAATC
61436265 TATTATGTGTATTATATCTTCTCA
1 TATTATGTGTATTAT-TCTT-TCA
* * *
61436289 TATTTTTTTTATTATTCTTTCA
1 TATTATGTGTATTATTCTTTCA
61436311 TATT
1 TATT
61436315 TTATATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 7 0.30
23 4 0.17
24 12 0.52
ACGTcount: A:0.22, C:0.10, G:0.04, T:0.64
Consensus pattern (22 bp):
TATTATGTGTATTATTCTTTCA
Found at i:61436314 original size:22 final size:23
Alignment explanation
Indices: 61436274--61436326 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
61436264 CTATTATGTG
* *
61436274 TATTATATCTTCTCATATTTTTTT
1 TATTAT-TCTTCTCATATTTTATA
61436298 TATTATTCTT-TCATATTTTATA
1 TATTATTCTTCTCATATTTTATA
61436320 TATTATT
1 TATTATT
61436327 TAAGTTATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 17 0.63
23 4 0.15
24 6 0.22
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTATTCTTCTCATATTTTATA
Found at i:61436989 original size:16 final size:16
Alignment explanation
Indices: 61436968--61437000 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
61436958 AATAAATCGT
61436968 ATTTTTGAAGGTATAA
1 ATTTTTGAAGGTATAA
61436984 ATTTTTGAAGGTATAA
1 ATTTTTGAAGGTATAA
61437000 A
1 A
61437001 GGATCGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (16 bp):
ATTTTTGAAGGTATAA
Found at i:61438228 original size:41 final size:41
Alignment explanation
Indices: 61438183--61438260 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
61438173 GTGTCGGTCT
* *
61438183 TTATTGCGGACATGCATGCCCGATTCAAGTATAAAGTATCC
1 TTATTGAGGACATGCAAGCCCGATTCAAGTATAAAGTATCC
* * *
61438224 TTATTGAGTACATGCAAGCTCGATTCAAGTGTAAAGT
1 TTATTGAGGACATGCAAGCCCGATTCAAGTATAAAGT
61438261 GTCGTACCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
TTATTGAGGACATGCAAGCCCGATTCAAGTATAAAGTATCC
Found at i:61439945 original size:21 final size:20
Alignment explanation
Indices: 61439916--61439979 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
61439906 ATAGATAATT
61439916 TAAATGAAATGAGAAAAAAA
1 TAAATGAAATGAGAAAAAAA
*
61439936 TAAATTGAAATGAACAAAAATAATA
1 TAAA-TGAAATG-A-GAAAA-AA-A
*
61439961 TAAATGAACTGAGAAAAAA
1 TAAATGAAATGAGAAAAAA
61439980 TTTAAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.11
21 9 0.25
22 5 0.14
23 5 0.14
24 8 0.22
25 5 0.14
ACGTcount: A:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (20 bp):
TAAATGAAATGAGAAAAAAA
Found at i:61440009 original size:28 final size:27
Alignment explanation
Indices: 61439975--61440091 Score: 95
Period size: 28 Copynumber: 4.4 Consensus size: 27
61439965 TGAACTGAGA
*
61439975 AAAAATTTAAATTTACAAGGAAAGAAAG
1 AAAAATTTAAATTTA-AATGAAAGAAAG
* *
61440003 ATAAATTTAAA-TGAAATG--AG---G
1 AAAAATTTAAATTTAAATGAAAGAAAG
*
61440024 AAAAATTTAAATTTAAAAGAAATGAGAA-
1 AAAAATTTAAATTTAAATGAAA-GA-AAG
*
61440052 AAAAATTTAAATTAAAAATGAAAGAAAG
1 AAAAATTTAAATT-TAAATGAAAGAAAG
*
61440080 ATAAATTTAAAT
1 AAAAATTTAAAT
61440092 GAAATGAGGA
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
21 11 0.16
22 5 0.07
24 3 0.04
25 1 0.01
26 3 0.04
27 4 0.06
28 36 0.51
29 7 0.10
ACGTcount: A:0.62, C:0.01, G:0.12, T:0.26
Consensus pattern (27 bp):
AAAAATTTAAATTTAAATGAAAGAAAG
Found at i:61440028 original size:49 final size:47
Alignment explanation
Indices: 61439876--61440196 Score: 231
Period size: 49 Copynumber: 6.6 Consensus size: 47
61439866 GATAAAGGGT
* * * *
61439876 ATGAGAAAAAAATGAAAATTACATGGAAAGATAGATAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTTA-AAGGAAAGAAAGATAATTTAAATGAA
* * *
61439924 ATGAGAAAAAAA-TAAATTGAAATGAACA-AAA-ATAATATAAATGAA
1 ATGAGAAAAAAATTAAATTTAAAGGAA-AGAAAGATAATTTAAATGAA
* *
61439969 CTGAGAAAAAATTTAAATTTACAAGGAAAGAAAGATAAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTTA-AAGGAAAGAAAGAT-AATTTAAATGAA
* * * * * *
61440018 ATGAGGAAAAATTTAAATTTAAAAGAAATGAGAAAAAAATTTAAATTAAAA
1 ATGAGAAAAAAATTAAATTTAAAGGAAA-GA-AAGATAATTTAAA-T-GAA
** **
61440069 ATGAAAGAAAGATAAATTTAAATGAAATGAGGAAA-AAATCTAATTTAAATGAA
1 ATG--AGAAA-A-AAA-TTAAATTTAA--AGGAAAGAAAGATAATTTAAATGAA
* * **
61440122 ATGAGAAAAAAATT-AATTTGCATGGAAAGATTGATAATTTAAATGAA
1 ATGAGAAAAAAATTAAATTT-AAAGGAAAGAAAGATAATTTAAATGAA
*
61440169 ATGAGGAAAAAAATT-AATTTAAATGAAA
1 ATGA-GAAAAAAATTAAATTTAAAGGAAA
61440197 TGAGAAAAAA
Statistics
Matches: 215, Mismatches: 38, Indels: 41
0.73 0.13 0.14
Matches are distributed among these distances:
45 23 0.11
46 19 0.09
47 40 0.19
48 38 0.18
49 43 0.20
50 5 0.02
51 10 0.05
53 9 0.04
54 2 0.01
55 12 0.06
56 9 0.04
58 5 0.02
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (47 bp):
ATGAGAAAAAAATTAAATTTAAAGGAAAGAAAGATAATTTAAATGAA
Found at i:61440040 original size:27 final size:27
Alignment explanation
Indices: 61440004--61440218 Score: 158
Period size: 27 Copynumber: 8.4 Consensus size: 27
61439994 GAAAGAAAGA
61440004 TAAATTTAAATGAAATGAGGAAAAATT
1 TAAATTTAAATGAAATGAGGAAAAATT
* *
61440031 TAAATTTAAAAGAAATGAGAAAAAAATT
1 TAAATTTAAATGAAATGAG-GAAAAATT
**
61440059 TAAA-TT-AA--AAATGA--AAGAAAGA
1 TAAATTTAAATGAAATGAGGAA-AAATT
*
61440081 TAAATTTAAATGAAATGAGGAAAAAATC
1 TAAATTTAAATGAAATGAGG-AAAAATT
* *
61440109 T-AATTTAAATGAAATGAGAAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAATT
* *
61440135 T-AA-TT---TG-CAT--GGAAAGATT
1 TAAATTTAAATGAAATGAGGAAAAATT
* *
61440154 GATAATTTAAATGAAATGAGGAAAAAAAT
1 TA-AATTTAAATGAAATGAGG-AAAAATT
*
61440183 T-AATTTAAATGAAATGA-GAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAATT
61440208 TAAATTTAAAT
1 TAAATTTAAAT
61440219 AAAAAATAAT
Statistics
Matches: 150, Mismatches: 18, Indels: 41
0.72 0.09 0.20
Matches are distributed among these distances:
19 6 0.04
21 6 0.04
22 11 0.07
23 2 0.01
24 8 0.05
25 12 0.08
26 28 0.19
27 53 0.35
28 17 0.11
29 7 0.05
ACGTcount: A:0.58, C:0.01, G:0.13, T:0.27
Consensus pattern (27 bp):
TAAATTTAAATGAAATGAGGAAAAATT
Found at i:61440218 original size:21 final size:20
Alignment explanation
Indices: 61440187--61440309 Score: 78
Period size: 21 Copynumber: 6.0 Consensus size: 20
61440177 AAAAATTAAT
61440187 TTAAATGAAATGAGAAAAAA
1 TTAAATGAAATGAGAAAAAA
* *
61440207 TTAAATTTAAAT-AAAAAATAA
1 TTAAA-TGAAATGAGAAAA-AA
61440228 TATAAATGAAATGAGAAATAAAA
1 T-TAAATGAAATGAG-AA-AAAA
*
61440251 TAAAATTG-AA--A-AAAAAA
1 TTAAA-TGAAATGAGAAAAAA
61440268 TCTAAATGAAATGA-AATAAAA
1 T-TAAATGAAATGAGAA-AAAA
* *
61440289 TAGAAATGAAATGACAAAAAA
1 T-TAAATGAAATGAGAAAAAA
61440310 AAAAGTGAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
17 7 0.09
18 7 0.09
20 14 0.17
21 33 0.40
22 12 0.15
23 7 0.09
24 2 0.02
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (20 bp):
TTAAATGAAATGAGAAAAAA
Found at i:61440236 original size:42 final size:40
Alignment explanation
Indices: 61440175--61440289 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 40
61440165 TGAAATGAGG
* * *
61440175 AAAAAAATTAATTTAAATGAAATGAGAAAAAATTAAATTT
1 AAAAAAAATAATATAAATGAAATGAGAAAAAATTAAAATT
*
61440215 AAATAAAAAATAATATAAATGAAATGAGAAATAAAATAAAATT
1 -AA-AAAAAATAATATAAATGAAATGAGAAA-AAATTAAAATT
* *
61440258 GAAAAAAA-AATCTAAATGAAATGA-AATAAAAT
1 AAAAAAAATAATATAAATGAAATGAGAA-AAAAT
61440290 AGAAATGAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
39 5 0.08
40 16 0.25
41 8 0.12
42 26 0.41
43 9 0.14
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (40 bp):
AAAAAAAATAATATAAATGAAATGAGAAAAAATTAAAATT
Found at i:61440240 original size:74 final size:75
Alignment explanation
Indices: 61439951--61440251 Score: 347
Period size: 77 Copynumber: 4.1 Consensus size: 75
61439941 TGAAATGAAC
* * *
61439951 AAAAA-TAATATAAATGAACTGAG-AAAAAATTTAAATTTACAAGGAAAGAAAGATAAATTTAAA
1 AAAAATTAATTTAAATGAAATGAGAAAAAAATTTAAATTTA-AATGAAAGAAAGATAAATTTAAA
61440014 TGAAATGAGGA
65 TGAAATGAGGA
* * *
61440025 AAAATTTAAATTTAAAAGAAATGAGAAAAAAATTTAAATTAAAAATGAAAGAAAGATAAATTTAA
1 AAAAATT-AATTTAAATGAAATGAGAAAAAAATTTAAATT-TAAATGAAAGAAAGATAAATTTAA
61440090 ATGAAATGAGGA
64 ATGAAATGAGGA
** **
61440102 AAAAATCTAATTTAAATGAAATGAGAAAAAAA-TT-AATTTGCATGGAAAGATTGAT-AATTTAA
1 AAAAAT-TAATTTAAATGAAATGAGAAAAAAATTTAAATTTAAAT-GAAAGAAAGATAAATTTAA
61440164 ATGAAATGAGGAA
64 ATGAAATGAGG-A
*
61440177 AAAAATTAATTTAAATGAAATGAG-AAAAAA-TTAAATTTAAAT--AA-AAA-AT-AATATAAAT
1 AAAAATTAATTTAAATGAAATGAGAAAAAAATTTAAATTTAAATGAAAGAAAGATAAATTTAAAT
*
61440235 GAAATGAGAA
66 GAAATGAGGA
61440245 ATAAAAT
1 A-AAAAT
61440252 AAAATTGAAA
Statistics
Matches: 199, Mismatches: 19, Indels: 23
0.83 0.08 0.10
Matches are distributed among these distances:
68 2 0.01
69 23 0.12
70 1 0.01
71 2 0.01
73 8 0.04
74 49 0.25
75 21 0.11
76 16 0.08
77 75 0.38
78 2 0.01
ACGTcount: A:0.60, C:0.01, G:0.13, T:0.26
Consensus pattern (75 bp):
AAAAATTAATTTAAATGAAATGAGAAAAAAATTTAAATTTAAATGAAAGAAAGATAAATTTAAAT
GAAATGAGGA
Found at i:61440524 original size:16 final size:16
Alignment explanation
Indices: 61440505--61440546 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
61440495 TAACAAATTT
61440505 AAAATTTAAAT-TGACA
1 AAAATTTAAATATGA-A
61440521 AAAA-TTAAATATGAA
1 AAAATTTAAATATGAA
61440536 AAAATTTAAAT
1 AAAATTTAAAT
61440547 GACCTCGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (16 bp):
AAAATTTAAATATGAA
Found at i:61440528 original size:15 final size:15
Alignment explanation
Indices: 61440505--61440546 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
61440495 TAACAAATTT
*
61440505 AAAATTTAAAT-TGA
1 AAAAATTAAATATGA
61440519 CAAAAATTAAATATGA
1 -AAAAATTAAATATGA
61440535 AAAAATTTAAAT
1 AAAAA-TTAAAT
61440547 GACCTCGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (15 bp):
AAAAATTAAATATGA
Found at i:61440630 original size:15 final size:16
Alignment explanation
Indices: 61440571--61440627 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
61440561 GACTACTTTT
61440571 AATTAATATGAAAAAA
1 AATTAATATGAAAAAA
* *
61440587 TATGAAATGAATTGAAAAAA
1 AAT-TAAT--A-TGAAAAAA
61440607 AATTAATATGAAAAAA
1 AATTAATATGAAAAAA
*
61440623 TATTA
1 AATTA
61440628 TATTAGGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
16 14 0.44
17 4 0.12
19 4 0.12
20 10 0.31
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (16 bp):
AATTAATATGAAAAAA
Found at i:61440871 original size:17 final size:17
Alignment explanation
Indices: 61440846--61440884 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
61440836 GAAAGATAGA
* *
61440846 AAATTTAAATGAAATGT
1 AAATGTAAATGAAATGC
61440863 AAATGTAAATGAAATGC
1 AAATGTAAATGAAATGC
61440880 AAATG
1 AAATG
61440885 AAACTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.15, T:0.28
Consensus pattern (17 bp):
AAATGTAAATGAAATGC
Found at i:61441013 original size:13 final size:13
Alignment explanation
Indices: 61440988--61441021 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
61440978 CGGCCTTACA
*
61440988 TTCAATGTTTTTT
1 TTCAATTTTTTTT
61441001 TT-AATTTTTTTT
1 TTCAATTTTTTTT
61441013 TTCAATTTT
1 TTCAATTTT
61441022 ACCCTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (13 bp):
TTCAATTTTTTTT
Found at i:61443103 original size:3 final size:3
Alignment explanation
Indices: 61443089--61443537 Score: 88
Period size: 3 Copynumber: 150.7 Consensus size: 3
61443079 AGTAAGTAAC
* * * * * *
61443089 AAT AAA AAT AAT AAT AAT AGT AAT AA- AA- AAT GAT AAT AGT GAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
61443135 AGT AAT AAT AAT AAT TAT AGGA- AAT CAT AGT ACATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT A-A-T AAT AAT AAT AAT
** * * **
61443183 ATAT GTT AAT ATAT AAA AAT AGGA- AAT GAT AAT -AT GGT AA- AA- AAT
1 A-AT AAT AAT A-AT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
61443228 AAT AAT AAT AAT AAT AAC AAA AAT AGT AAC AAT AGT ATGT GA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
** * * * * *
61443273 AAT AAT TGT AA- AAA AAT AAT AGT AAT AAT TAT ATT GAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * *
61443318 AAC AAT AAT ACT AAT AAT AAT AGT AGT AA- AA- AAT AA- AA- AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
61443361 AAA AAT AAT AAT AAT AGT AGT AAA AAT GAC AAT AA- AAT AA- GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *** *
61443407 AAT AAT GAT AAA AAT AAA AAT AAA AAT AGT AAT AAT GGC AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
61443455 ACCAT AAT AA- AAG AAA AAGA AAT AAT AAC ATGT AAAT AAT AAT AAC
1 A--AT AAT AAT AAT AAT AA-T AAT AAT AAT A-AT -AAT AAT AAT AAT
* * * *
61443501 AAT AAT -AT ATT TAT AAT AAT AAT AGT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61443538 AATTAACTAA
Statistics
Matches: 313, Mismatches: 104, Indels: 58
0.66 0.22 0.12
Matches are distributed among these distances:
2 32 0.10
3 256 0.82
4 17 0.05
5 8 0.03
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:61443504 original size:26 final size:26
Alignment explanation
Indices: 61443475--61443524 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
61443465 AAGAAAAAGA
61443475 AATAATAACATGTA-AATAATAATAAC
1 AATAAT-ACATGTATAATAATAATAAC
* *
61443501 AATAATATATTTATAATAATAATA
1 AATAATACATGTATAATAATAATA
61443525 GTAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
AATAATACATGTATAATAATAATAAC
Found at i:61444257 original size:22 final size:24
Alignment explanation
Indices: 61444213--61444257 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
61444203 TCCACGTCCT
*
61444213 CTAAGATTTACAAAATCATATCTC
1 CTAAGATTTACAAAATCAAATCTC
*
61444237 CTAAGA-TTAC-ATATCAAATCT
1 CTAAGATTTACAAAATCAAATCT
61444258 ACGATTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (24 bp):
CTAAGATTTACAAAATCAAATCTC
Found at i:61450179 original size:88 final size:88
Alignment explanation
Indices: 61450026--61450309 Score: 428
Period size: 88 Copynumber: 3.2 Consensus size: 88
61450016 TAAGATCTGT
* * * * * *
61450026 GATTTATAGCTTCGATCTAATCGGCTGAAACTTTAATGAGATACGAATGGTGGCTTCGAGGCTCT
1 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACGAATGGTGGCTTCGAGCCTCT
61450091 TCAGTGCCATTTCAGGGAGAAGA
66 TCAGTGCCATTTCAGGGAGAAGA
* * *
61450114 GATTTGTTGCTTCGATCTACTCCGTTGGAACTTCAATGAGATACTAATGGTGGCTTCGAGCCTCT
1 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACGAATGGTGGCTTCGAGCCTCT
*
61450179 TCAGTGCCATTTCAGGGAGAAGG
66 TCAGTGCCATTTCAGGGAGAAGA
* * *
61450202 GATTTATAGCTTTGATCTACTCCGCTGGAACTTCAAGGAGATACGAATGGTGGCTTCGAGCCTCT
1 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACGAATGGTGGCTTCGAGCCTCT
*
61450267 CCAGTGCCATTTCAGGGAG-A-A
66 TCAGTGCCATTTCAGGGAGAAGA
61450288 GATTTGTAGCTTCGATCTACTC
1 GATTTGTAGCTTCGATCTACTC
61450310 TGCTACTGCT
Statistics
Matches: 176, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
86 20 0.11
87 1 0.01
88 155 0.88
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (88 bp):
GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAATGAGATACGAATGGTGGCTTCGAGCCTCT
TCAGTGCCATTTCAGGGAGAAGA
Found at i:61450491 original size:44 final size:44
Alignment explanation
Indices: 61450432--61450931 Score: 165
Period size: 44 Copynumber: 11.5 Consensus size: 44
61450422 TAAATTCAGC
* *
61450432 CTGTTACCTTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
* * * *** * *
61450476 CTATTTCCCTACTGCTTA-GGGTGATAA-GATC-TGTAAATT-TAGC
1 CTGTTTCCCTACTGCTTAGGGGT-TTAAGGCTCAT-TGCCTTCGA-T
* *
61450519 CTGTTACCCTATTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
* * * *** *
61450563 CTGTTTCCCTACTACTTA-GGGTGATAA-GATC-TGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGT-TTAAGGCTCAT-TGCCTTCGA-T
* * * * *
61450606 CTGTTACCCTACTACTTAGGGTTTTAAGGC-CTATCGCATTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTC-ATTGCCTTCGAT
* *** *
61450650 CTGTTTCCCTACTGCTTA-GGGTGTTAA-GATC-TGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGT-TTAAGGCTCAT-TGCCTTCGA-T
* * * * * * *
61450693 CTGTTACCTTATTACTTAGGGGTTTAAGGCCCATCGCCTTCAAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
* * * * * *** *
61450737 TTGTTTCCCTACTACTGAGGGGGTTAA-GATC-TATAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCAT-TGCCTTCGA-T
* * * *
61450780 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCATCGCCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
** * * *** *
61450824 CTGTTTCCCTACTATTTAGGGGGTTAA-GATC-TGTAAATTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCAT-TGCCTTCGA-T
* * * * * *
61450867 CTGTTACTCTACTGCTTAAGGGTTTAAGGCCCATCGCTTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
*
61450911 CTATTTCCCTACTGCTTAGGG
1 CTGTTTCCCTACTGCTTAGGG
61450932 TGATAAGATC
Statistics
Matches: 312, Mismatches: 111, Indels: 66
0.64 0.23 0.13
Matches are distributed among these distances:
42 10 0.03
43 138 0.44
44 154 0.49
45 10 0.03
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (44 bp):
CTGTTTCCCTACTGCTTAGGGGTTTAAGGCTCATTGCCTTCGAT
Found at i:61450537 original size:43 final size:43
Alignment explanation
Indices: 61450482--61451068 Score: 187
Period size: 43 Copynumber: 13.5 Consensus size: 43
61450472 CGATCTATTT
* *
61450482 CCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * * *** * * *
61450525 CCCTATTGCTTAGGG-GTTTAAGGCTCAT-T-GCCTTCGATCTGTTT
1 CCCTACTACTTAGGGTG-TTAA-GATC-TGTAAATTTAG-CCTGTTA
* *
61450569 CCCTACTACTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* ** * ** * * *
61450612 CCCTACTACTTAGGGTTTTAAGGCCTATCGCA-TTCGATCTGTTT
1 CCCTACTACTTAGGGTGTTAAGATCTGT-AAATTTAG-CCTGTTA
* *
61450656 CCCTACTGCTTAGGGTGTTAAGATCTGTAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * *
61450699 CCTTATTACTTAGGG-GTTTAAGGCCCATC-GCCTTCAATTT-G--T-TT-
1 CCCTACTACTTAGGGTG-TTAA-G---ATCTG---TAAATTTAGCCTGTTA
* * * *
61450743 CCCTACTACTGAGGGGGTTAAGATCTATAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * ** **** * * *
61450786 CCCTACTGCTTAGGG-GTTTAAGACCCATCGCCTTCGATCTGTTT
1 CCCTACTACTTAGGGTG-TTAAGATCTGTAAATTTAG-CCTGTTA
* * *
61450830 CCCTACTATTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * ** ** *** * * * *
61450873 CTCTACTGCTTAAGGGT-TTAAGGCCCATCGCTTTCGATCTATTT
1 CCCTACTACTT-AGGGTGTTAAGATCTGTAAATTTAG-CCTGTTA
* * * *
61450917 CCCTACTGCTTAGGGTGATAAGATCAGTAAATTTAGCATGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * * * * * * *
61450960 CCCTACTGCTTAGGG-GTTTAAGGTCTATCACTTTCGATCTACTT-
1 CCCTACTACTTAGGGTG-TTAAGATCTGTAAATTTAG-CCT-GTTA
* * * *
61451004 CCCTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTA
1 CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
* * *
61451047 CCCTATTGCTTAGGGAGTTAAG
1 CCCTACTACTTAGGGTGTTAAG
61451069 GCTTATGAAT
Statistics
Matches: 379, Mismatches: 129, Indels: 72
0.65 0.22 0.12
Matches are distributed among these distances:
38 5 0.01
39 1 0.00
40 3 0.01
41 1 0.00
42 9 0.02
43 180 0.47
44 160 0.42
45 9 0.02
46 2 0.01
47 3 0.01
48 1 0.00
49 5 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (43 bp):
CCCTACTACTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTA
Found at i:61450547 original size:87 final size:87
Alignment explanation
Indices: 61450312--61451070 Score: 1004
Period size: 87 Copynumber: 8.7 Consensus size: 87
61450302 ATCTACTCTG
* * * * *
61450312 CTACTGCTTAGGGAGATAGGAT-GGTAAATTCAGCCTGTCACCCTACTACTTAGAGGG-TTAAGG
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG-GGGTTTAAGG
*
61450375 CCCATCGCCATCGATCTGTTTCC
65 CCCATCGCCTTCGATCTGTTTCC
* * *
61450398 CTACTACTTAGGGTGATAAGAT-GGTAAATTCAGCCTGTTACCTTACTGCTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* * *
61450462 TCATTGCCTTCGATCTATTTCC
66 CCATCGCCTTCGATCTGTTTCC
* *
61450484 CTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* *
61450549 TCATTGCCTTCGATCTGTTTCC
66 CCATCGCCTTCGATCTGTTTCC
* * *
61450571 CTACTACTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGTTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* *
61450636 CTATCGCATTCGATCTGTTTCC
66 CCATCGCCTTCGATCTGTTTCC
* * * *
61450658 CTACTGCTTAGGGTGTTAAGATCTGTAAATTCAGCCTGTTACCTTATTACTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* *
61450723 CCATCGCCTTCAATTTGTTTCC
66 CCATCGCCTTCGATCTGTTTCC
* * * * * *
61450745 CTACTACTGAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGAC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
61450810 CCATCGCCTTCGATCTGTTTCC
66 CCATCGCCTTCGATCTGTTTCC
** * * * *
61450832 CTACTATTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACTCTACTGCTTAAGGGTTTAAGGC
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* *
61450897 CCATCGCTTTCGATCTATTTCC
66 CCATCGCCTTCGATCTGTTTCC
* * * *
61450919 CTACTGCTTAGGGTGATAAGATCAGTAAATTTAGCATGTTACCCTACTGCTTAGGGGTTTAAGGT
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
* * * **
61450984 CTATCACTTTCGATCTACTTCC
66 CCATCGCCTTCGATCTGTTTCC
* *
61451006 CTACTGCTTAGGGTGATAAGATCTATAAATTCAGCCTGTTACCCTATTGCTTAGGGAG-TTAAGG
1 CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGG-GTTTAAGG
61451070 C
65 C
61451071 TTATGAATTC
Statistics
Matches: 599, Mismatches: 71, Indels: 5
0.89 0.11 0.01
Matches are distributed among these distances:
85 3 0.01
86 93 0.16
87 502 0.84
88 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (87 bp):
CTACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
CCATCGCCTTCGATCTGTTTCC
Found at i:61451031 original size:44 final size:43
Alignment explanation
Indices: 61450903--61451033 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 43
61450893 AGGCCCATCG
61450903 CTTTCGATCTATTTCCCTACTGCTTAGGGTGATAAGATC-AGTAA
1 CTTTCGATCTA-TTCCCTACTGCTTAGGGTGATAAGATCTA-TAA
* * * * * * *
61450947 ATTTAGCATGT-TACCCTACTGCTTAGGG-GTTTAAGGTCTATCA
1 CTTTCG-ATCTATTCCCTACTGCTTAGGGTG-ATAAGATCTATAA
61450990 CTTTCGATCTACTTCCCTACTGCTTAGGGTGATAAGATCTATAA
1 CTTTCGATCTA-TTCCCTACTGCTTAGGGTGATAAGATCTATAA
61451034 ATTCAGCCTG
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
42 4 0.06
43 28 0.42
44 31 0.46
45 4 0.06
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (43 bp):
CTTTCGATCTATTCCCTACTGCTTAGGGTGATAAGATCTATAA
Found at i:61451241 original size:66 final size:66
Alignment explanation
Indices: 61451135--61451263 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
61451125 ATGTTTATGC
*
61451135 CAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATGTG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATGTG
61451200 T
66 T
* *
61451201 CAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAATTAGATGTGTTATGAATG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATG
61451264 ATATATGAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (66 bp):
CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAATGTG
T
Found at i:61459070 original size:4 final size:4
Alignment explanation
Indices: 61459061--61459089 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
61459051 AGCAAACGTG
61459061 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
61459090 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:61467110 original size:28 final size:28
Alignment explanation
Indices: 61467078--61467131 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
61467068 AGAAACTCTA
*
61467078 ATCTACAATCCATTACAAAAAAACTCCC
1 ATCTACAATCCACTACAAAAAAACTCCC
* *
61467106 ATCTATAATCCACTATAAAAAAACTC
1 ATCTACAATCCACTACAAAAAAACTC
61467132 ATTTGATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (28 bp):
ATCTACAATCCACTACAAAAAAACTCCC
Found at i:61467454 original size:44 final size:44
Alignment explanation
Indices: 61467362--61467456 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 44
61467352 ACCAAATTTT
* *
61467362 TTTTTTACTAGTGTAGTGCCGGCCATTAGAAGGCCAAAACCATT
1 TTTTTTACTACTGTAGTGCCGGCCATTAGAAGGCCAAAACCATA
* * * * *
61467406 TTTTTTACTACTTTGGTGCCGGCCATTAGAAGGCTAGAACCGTA
1 TTTTTTACTACTGTAGTGCCGGCCATTAGAAGGCCAAAACCATA
61467450 TTTTTTA
1 TTTTTTA
61467457 AAAAATCCTG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (44 bp):
TTTTTTACTACTGTAGTGCCGGCCATTAGAAGGCCAAAACCATA
Found at i:61470969 original size:25 final size:25
Alignment explanation
Indices: 61470941--61470998 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
61470931 AATTTGATAT
*
61470941 TTCAGCAGAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
61470966 TTCAGCAAAGAAGGCATTGTTGAGA
1 TTCAGCAAAGAAGGCATTGTTGAGA
61470991 TTC-GCAAA
1 TTCAGCAAA
61470999 CTCAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (25 bp):
TTCAGCAAAGAAGGCATTGTTGAGA
Found at i:61471714 original size:20 final size:22
Alignment explanation
Indices: 61471684--61471725 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
61471674 AAAATAATAA
61471684 AATAGTTATATACTAT-TTTTT
1 AATAGTTATATACTATGTTTTT
*
61471705 AATA-TTATATATTATGTTTTT
1 AATAGTTATATACTATGTTTTT
61471726 TATTCATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
AATAGTTATATACTATGTTTTT
Found at i:61471815 original size:24 final size:23
Alignment explanation
Indices: 61471748--61471928 Score: 65
Period size: 22 Copynumber: 7.7 Consensus size: 23
61471738 TTTTAATAAT
* *
61471748 AATTATA-TTAAGAATGTTATTA
1 AATTATATTTAATAATATTATTA
* *
61471770 AATTATATATT-ATTATCTTTATTA
1 AATTATAT-TTAATAAT-ATTATTA
61471794 AATTATATTTAATAATAATTATATTA
1 AATTATATTTAATAAT-A-T-TATTA
* * *
61471820 AAATATGATTAAATTAT-TTATT-
1 AATTAT-ATTTAATAATATTATTA
** * * *
61471842 TTTTATTATTAAATTATATTTAATAA
1 AATTA-TATTTAATAATA-TT-ATTA
*
61471868 TAATTATA-TTAA-AATATGATTA
1 -AATTATATTTAATAATATTATTA
*
61471890 AATTATTTATTT--T-TTATTATTA
1 AATTA--TATTTAATAATATTATTA
61471912 AATTATATTTAATAATA
1 AATTATATTTAATAATA
61471929 ATCCTATTAT
Statistics
Matches: 117, Mismatches: 22, Indels: 39
0.66 0.12 0.22
Matches are distributed among these distances:
20 5 0.04
21 5 0.04
22 35 0.30
23 15 0.13
24 28 0.24
25 6 0.05
26 12 0.10
27 11 0.09
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:61471937 original size:59 final size:59
Alignment explanation
Indices: 61471739--61471930 Score: 314
Period size: 59 Copynumber: 3.2 Consensus size: 59
61471729 TCATTCATAT
* * *
61471739 TTTAATAATAATTATATTAAGAATGTTATTAAATTATATATTATTATCT-TTATTAAATTATA
1 TTTAATAATAATTATATTAA-AATATGATTAAATTATTTATT-TT-T-TATTATTAAATTATA
61471801 TTTAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTTATTATTAAATTATA
1 TTTAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTTATTATTAAATTATA
61471860 TTTAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTTATTATTAAATTATA
1 TTTAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTTATTATTAAATTATA
61471919 TTTAATAATAAT
1 TTTAATAATAAT
61471931 CCTATTATAA
Statistics
Matches: 126, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
58 1 0.01
59 85 0.67
60 2 0.02
61 18 0.14
62 20 0.16
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (59 bp):
TTTAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTTATTATTAAATTATA
Found at i:61472129 original size:16 final size:16
Alignment explanation
Indices: 61472108--61472159 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
61472098 TGAATTACTG
61472108 ATTATAGCTCTATTTC
1 ATTATAGCTCTATTTC
*
61472124 ATTATAGCTTTA-TTC
1 ATTATAGCTCTATTTC
* * *
61472139 AATTACAGCCCTATTCC
1 -ATTATAGCTCTATTTC
61472156 ATTA
1 ATTA
61472160 CAGTGAACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 3 0.10
16 24 0.83
17 2 0.07
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTATAGCTCTATTTC
Found at i:61473223 original size:17 final size:17
Alignment explanation
Indices: 61473203--61473236 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61473193 AAATTTAGGT
61473203 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
61473220 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
61473237 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:61473494 original size:113 final size:113
Alignment explanation
Indices: 61473296--61473508 Score: 338
Period size: 113 Copynumber: 1.9 Consensus size: 113
61473286 GTTGGACTAA
* * ** *
61473296 CACGTACGATTACCGTTAGAGAGATAACGGAACTTAACGGTAGAGTGATCACTTTGTAACAAAAT
1 CACGTACGATTACCGTTAGAGAGATAACAGAACTTAACGGAAGAGTGATCACTTCATAAAAAAAT
*
61473361 AGTAACATAAGTGACTAAAACGTAACATTTCAAACTCAGTGAGACTGC
66 AATAACATAAGTGACTAAAACGTAACATTTCAAACTCAGTGAGACTGC
* *
61473409 CACGTAGGATTACCGTTA-AGGAGATAACAGAACTTAACGGAAGAGTGGTCACTTCATAAAAAAA
1 CACGTACGATTACCGTTAGA-GAGATAACAGAACTTAACGGAAGAGTGATCACTTCATAAAAAAA
61473473 TAATAACATAAGTGACTAAAACGTAACATTTCAAAC
65 TAATAACATAAGTGACTAAAACGTAACATTTCAAAC
61473509 ATAAGTGACT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 1 0.01
113 90 0.99
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (113 bp):
CACGTACGATTACCGTTAGAGAGATAACAGAACTTAACGGAAGAGTGATCACTTCATAAAAAAAT
AATAACATAAGTGACTAAAACGTAACATTTCAAACTCAGTGAGACTGC
Found at i:61478205 original size:5 final size:5
Alignment explanation
Indices: 61478195--61478229 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
61478185 ATAGAAGATA
* *
61478195 TTATT TTATT TTGTT TTATT TTGTT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
61478230 ATTTTAGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:61478213 original size:10 final size:10
Alignment explanation
Indices: 61478198--61478226 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
61478188 GAAGATATTA
61478198 TTTTATTTTG
1 TTTTATTTTG
61478208 TTTTATTTTG
1 TTTTATTTTG
61478218 TTTTATTTT
1 TTTTATTTT
61478227 ATTATTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:61479170 original size:19 final size:19
Alignment explanation
Indices: 61479123--61479162 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
61479113 TATTTTGTTA
61479123 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
61479142 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
61479161 TT
1 TT
61479163 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:61507192 original size:33 final size:33
Alignment explanation
Indices: 61507152--61507236 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
61507142 GGCAATATAT
* *
61507152 GTGTAAGACCATAGCTAGGTTATGGCATCC-TGA
1 GTGTAAGACCATAGCTAGGATATGGCA-CCACGA
* *
61507185 -TGATAAGACCATATCTGGGATATGGCACCACGA
1 GTG-TAAGACCATAGCTAGGATATGGCACCACGA
*
61507218 GTGTAAGACCATGGCTAGG
1 GTGTAAGACCATAGCTAGG
61507237 CCATGACAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
32 4 0.10
33 36 0.86
34 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (33 bp):
GTGTAAGACCATAGCTAGGATATGGCACCACGA
Found at i:61507341 original size:45 final size:45
Alignment explanation
Indices: 61507292--61507402 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
61507282 ACCAGAAATA
* * *
61507292 AGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAGACG
1 AGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAACG
* * * *
61507337 AGTAAGGCTATAGTTGAAAGACGCTATGACATCGCGATTCAAATG
1 AGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAACG
* *
61507382 TGTAAGACCATGGTTGAAAGA
1 AGTAAGACCATAGTTGAAAGA
61507403 TACCATGGCA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGACGCTATGACATCACGATTCAAACG
Found at i:61507432 original size:46 final size:46
Alignment explanation
Indices: 61507377--61507542 Score: 296
Period size: 46 Copynumber: 3.6 Consensus size: 46
61507367 ATCGCGATTC
61507377 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
61507423 AAATGTGTAAGATCATGGTTGAAAGATACCATGGAAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
**
61507469 AAATGTGTAAGACCATGGTTGAAAGATACGTTGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
61507515 AAATGTGTAAGACCATGGTTGAAAGATA
1 AAATGTGTAAGACCATGGTTGAAAGATA
61507543 GGGAATGGAT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 114 1.00
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:61507491 original size:21 final size:21
Alignment explanation
Indices: 61507467--61507538 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
61507457 AAACATGATA
61507467 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
** * *
61507488 TGAAA-GATACGTTGGCAACATGAT
1 TGAAATG-T--GTAAG-ACCATGGT
61507512 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
61507534 TGAAA
1 TGAAA
61507539 GATAGGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 6 0.16
23 6 0.16
24 6 0.16
25 6 0.16
26 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:61508092 original size:46 final size:45
Alignment explanation
Indices: 61508042--61508218 Score: 205
Period size: 46 Copynumber: 3.9 Consensus size: 45
61508032 TGTCATAGCG
* * *
61508042 TCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCTGTCACGTTG-CATGGTA
* * * *
61508088 TCTTTCAACCATGGTTTTATTCATTTCCCCGTCATGTTGCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTT-TCTGTCACGTTGCATGGTA
* *
61508134 TCTTTCAACCATAGTCTTATTCA-TTTCATGTCACGTTACCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTC-TGTCACGTT-GCATGGTA
*
61508180 TCTTTTAACCATGGTCTTATTCA-TTTCATGTCACGTTGC
1 TCTTTCAACCATGGTCTTATTCATTTTC-TGTCACGTTGC
61508219 GTGTGTTTAG
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.01
45 10 0.09
46 93 0.82
47 9 0.08
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (45 bp):
TCTTTCAACCATGGTCTTATTCATTTTCTGTCACGTTGCATGGTA
Found at i:61514286 original size:4 final size:4
Alignment explanation
Indices: 61514273--61514329 Score: 84
Period size: 4 Copynumber: 15.0 Consensus size: 4
61514263 AAGACTTGAG
61514273 AATT -ATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AA--
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT
*
61514318 AATT AAAT AATT
1 AATT AATT AATT
61514330 GAAGTTCGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 3 0.06
4 43 0.90
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:61515900 original size:16 final size:16
Alignment explanation
Indices: 61515879--61515909 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61515869 CTAAGTTCGT
61515879 AAATATTAATAATATC
1 AAATATTAATAATATC
61515895 AAATATTAATAATAT
1 AAATATTAATAATAT
61515910 TTACAAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATTAATAATATC
Found at i:61519059 original size:11 final size:11
Alignment explanation
Indices: 61519043--61519110 Score: 52
Period size: 11 Copynumber: 6.2 Consensus size: 11
61519033 ATTTAAAAAT
61519043 ATTTTTATATA
1 ATTTTTATATA
*
61519054 ATTTTTATCTA
1 ATTTTTATATA
*
61519065 ATATTTA-ATA
1 ATTTTTATATA
*
61519075 CTTTTTATACT-
1 ATTTTTATA-TA
*
61519086 TTTATTTAT-TA
1 ATT-TTTATATA
61519097 ATTTTTTATATA
1 A-TTTTTATATA
61519109 AT
1 AT
61519111 CATCTTAACC
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
10 8 0.18
11 25 0.57
12 11 0.25
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTTTATATA
Found at i:61520827 original size:58 final size:58
Alignment explanation
Indices: 61520757--61520872 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
61520747 TTCTATTCAT
61520757 TGATCATACATGTCAAGTTTATAGTAAAAAAATTTTTAACTATTCATTTTATATAAAA
1 TGATCATACATGTCAAGTTTATAGTAAAAAAATTTTTAACTATTCATTTTATATAAAA
*
61520815 TGATCATACATGTCAAGTTTATAGTAAAAAAATTTTTAACTATTTATTTTATATAAAA
1 TGATCATACATGTCAAGTTTATAGTAAAAAAATTTTTAACTATTCATTTTATATAAAA
61520873 AAATTCAACC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (58 bp):
TGATCATACATGTCAAGTTTATAGTAAAAAAATTTTTAACTATTCATTTTATATAAAA
Found at i:61520842 original size:29 final size:29
Alignment explanation
Indices: 61520757--61520843 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
61520747 TTCTATTCAT
61520757 TGATCATACATGTCAAGTTTATAGTAAAA
1 TGATCATACATGTCAAGTTTATAGTAAAA
** ** *
61520786 AAATTTTTAACTAT-TC-ATTTTATA-TAAAA
1 TGA-TCAT-AC-ATGTCAAGTTTATAGTAAAA
61520815 TGATCATACATGTCAAGTTTATAGTAAAA
1 TGATCATACATGTCAAGTTTATAGTAAAA
61520844 AAATTTTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 9 0.21
29 12 0.29
30 9 0.21
31 4 0.10
32 2 0.05
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (29 bp):
TGATCATACATGTCAAGTTTATAGTAAAA
Found at i:61520871 original size:29 final size:30
Alignment explanation
Indices: 61520774--61520877 Score: 92
Period size: 29 Copynumber: 3.6 Consensus size: 30
61520764 ACATGTCAAG
*
61520774 TTTATAGTAAAAAAATTTTTAACTATTCAT
1 TTTATAGTAAAAAAATTTTTAACTATTAAT
** ** *
61520804 TTTATA-TAAAATGA-TCAT-AC-ATGTCAAG
1 TTTATAGTAAAAAAATTTTTAACTAT-T-AAT
*
61520832 TTTATAGTAAAAAAATTTTTAACTATTTAT
1 TTTATAGTAAAAAAATTTTTAACTATTAAT
61520862 TTTATA-TAAAAAAATT
1 TTTATAGTAAAAAAATT
61520878 CAACCATTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
26 2 0.04
27 3 0.05
28 9 0.16
29 22 0.39
30 15 0.27
31 3 0.05
32 2 0.04
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (30 bp):
TTTATAGTAAAAAAATTTTTAACTATTAAT
Found at i:61525764 original size:216 final size:216
Alignment explanation
Indices: 61525387--61525823 Score: 847
Period size: 216 Copynumber: 2.0 Consensus size: 216
61525377 AGGTAACTTA
*
61525387 AAATTTTTATTCCACCAGGGACATACATTGATCTTTCTTATTCCTTAAATGGTATACCATTAGCC
1 AAATTTTTATTCCACCAGGGACATACATTGATCTTTCTTATTCCTTAAATGGTATACCATAAGCC
61525452 ATATCAGCTCAATGTCATTATTACCAGGCCATAAGTCGATGACTTCAATTCAACTATGTTGCTCC
66 ATATCAGCTCAATGTCATTATTACCAGGCCATAAGTCGATGACTTCAATTCAACTATGTTGCTCC
* *
61525517 AAGTCTTATTTTTTCTTGAAGTACCCATGTTGGACAGATATCCAAACAAAGGCATGGGTGTATGA
131 AAGTCTTAATTTTTCTTGAAGTACACATGTTGGACAGATATCCAAACAAAGGCATGGGTGTATGA
61525582 CCATCCAAAGGCACTCCAAAT
196 CCATCCAAAGGCACTCCAAAT
61525603 AAATTTTTATTCCACCAGGGACATACATTGATCTTTCTTATTCCTTAAATGGTATACCATAAGCC
1 AAATTTTTATTCCACCAGGGACATACATTGATCTTTCTTATTCCTTAAATGGTATACCATAAGCC
61525668 ATATCAGCTCAATGTCATTATTACCAGGCCATAAGTCGATGACTTCAATTCAACTATGTTGCTCC
66 ATATCAGCTCAATGTCATTATTACCAGGCCATAAGTCGATGACTTCAATTCAACTATGTTGCTCC
61525733 AAGTCTTAATTTTTCTTGAAGTACACATGTTGGACAGATATCCAAACAAAGGCATGGGTGTATGA
131 AAGTCTTAATTTTTCTTGAAGTACACATGTTGGACAGATATCCAAACAAAGGCATGGGTGTATGA
61525798 CCATCCAAAGGCACTCCAAAT
196 CCATCCAAAGGCACTCCAAAT
61525819 AAATT
1 AAATT
61525824 GGAGAACTTT
Statistics
Matches: 218, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
216 218 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (216 bp):
AAATTTTTATTCCACCAGGGACATACATTGATCTTTCTTATTCCTTAAATGGTATACCATAAGCC
ATATCAGCTCAATGTCATTATTACCAGGCCATAAGTCGATGACTTCAATTCAACTATGTTGCTCC
AAGTCTTAATTTTTCTTGAAGTACACATGTTGGACAGATATCCAAACAAAGGCATGGGTGTATGA
CCATCCAAAGGCACTCCAAAT
Found at i:61527332 original size:23 final size:23
Alignment explanation
Indices: 61527306--61527349 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
61527296 ATTTATTTTA
*
61527306 ATTTTTTATTATAAAA-AGTAAGT
1 ATTTTATATT-TAAAATAGTAAGT
61527329 ATTTTATATTTAAAATAGTAA
1 ATTTTATATTTAAAATAGTAA
61527350 AAATAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
ATTTTATATTTAAAATAGTAAGT
Found at i:61533273 original size:44 final size:44
Alignment explanation
Indices: 61533045--61533967 Score: 409
Period size: 44 Copynumber: 20.5 Consensus size: 44
61533035 CTTCGATCCA
* * * *
61533045 CTCCACTG-AAATTCAGAGAGATATGACTT-GTAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATCTG
** * * ** * * * *
61533088 CTCTGCCGCAACTTCAGGGGGACGAGATTTA-TGGTTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATCTG
* *
61533132 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA----TTA-G-TAGCTTCAATCTG
* * * * * *
61533182 AC-CTACTGCAACTTCAGAGG-TATAGGATTCA-TCA-TTTTAATCCG
1 -CTCCACTGCAACTTCAG-GGAGATAAGATT-AGT-AGCTTCAATCTG
** *
61533226 CTCCACAACAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
* * * *
61533270 CTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
* * * *
61533314 CTCCACTGCAACTTCAGGGAGATAAGGTTTGCAGCTTTAAT-TG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
* * * *
61533357 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTATGGTAGATTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA----TTA--GTAGCTTCAATCTG
* * * * * * *
61533407 AC-CTATTGCAACTTCAGAGG-TATAGGATTCA-TCA-TTTTAATCCG
1 -CTCCACTGCAACTTCAG-GGAGATAAGATT-AGT-AGCTTCAATCTG
61533451 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
* * * * * *
61533495 CTACATTGCAACTTCAGAGAGATAAGATTGGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
* * * * * *
61533539 CTCCACTGCAACTTTAGGGAGATAAGGTTGGTTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTG
* * *
61533584 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAGATTTAAT-TCG
1 CTCCACTGCAACTTCAGGGAGATAAGA----TTA--GTAGCTTCAATCT-G
* * * * * * **
61533634 AC-CTACTGCAACTTCAGAGG-TATAGGATTCA-TCGTTTTAATCCA
1 -CTCCACTGCAACTTCAG-GGAGATAAGATT-AGTAGCTTCAATCTG
* * * *
61533678 CTCCACTGCAACTTTAGGAAGATAGGATTAGTAGGTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
* * * *
61533722 CTCCACTGCAACTTTAGGGAGATAAGGTT--T-GATAT-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TCAATCTG
* * * * * * *
61533763 CTCTACTACAACTTCAGAGAGATAA-AATATGTTAGCTTTAATATA
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-G-TAGCTTCAATCTG
* *
61533808 TTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTCAACCTACT-
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTCAA--T-CTG
* * * * *
61533854 CTACTTCAACTTCAACTTCAGGGAAATAAGGTTTGTTA-CTTCAACCTG
1 CT-C--C-ACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTG
* * * * * *
61533902 CTCTACTGCAACTTCAGAGAGATAAGGTTTGTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
*
61533946 CTCCACTACAACTTCAGGGAGA
1 CTCCACTGCAACTTCAGGGAGA
61533968 AGATTCGCCA
Statistics
Matches: 670, Mismatches: 144, Indels: 131
0.71 0.15 0.14
Matches are distributed among these distances:
40 1 0.00
41 28 0.04
42 2 0.00
43 46 0.07
44 376 0.56
45 65 0.10
46 9 0.01
47 14 0.02
48 2 0.00
49 15 0.02
50 101 0.15
51 11 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTG
Found at i:61533436 original size:225 final size:227
Alignment explanation
Indices: 61533130--61533839 Score: 1036
Period size: 225 Copynumber: 3.1 Consensus size: 227
61533120 GGTTTTAGTC
* *
61533130 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGATAGATTTAATCTGACCTACTGCAACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACT
**
61533195 TCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACAACAACTTCAGGGAGATAGGATTAGTAG
66 TCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAG
61533260 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAA
131 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAA
*
61533325 CTTCAGGGAGATAAGGTTTG-CAGCTTTAAT-
196 CTTCAGGGAGATAAGGTTTGTTAGCTTTAATA
* *
61533355 TGCTCCACTGCAACTTCAGAGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTATTGCAACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACT
*
61533420 TCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAG
66 TCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAG
* *
61533485 CTTCAATCTGCTACATTGCAACTTC-AGAGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCA
131 CTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTGGTATCTTCAACCTGCTCCACTGCA
* * * * *
61533549 ACTTTAGGGAGATAAGGTTGGTTATCTTTAGTC
195 ACTTCAGGGAGATAAGGTTTGTTAGCTTTAATA
* *
61533582 TGCTCCACTGCAACTTTAGGGAGATAAGACTTGTTATGGTAGATTTAATTCGACCTACTGCAACT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACT
* * * *
61533647 TCAGAGGTATAGGATTCATCGTTTTAATCCACTCCACTGCAACTTTAGGAAGATAGGATTAGTAG
66 TCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAG
* * * * * * * * * *
61533712 GTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTG-AT-AT-GATCTGCTCTACTACAA
131 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAA
* ** *
61533774 CTTCAGAGAGATAAAATATGTTAGCTTTAATA
196 CTTCAGGGAGATAAGGTTTGTTAGCTTTAATA
**
61533806 TATTCCACTGCAACTTCAGGGAGATAAGACTTGT
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
61533840 ATCTTCAACC
Statistics
Matches: 434, Mismatches: 47, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
224 69 0.16
225 202 0.47
226 9 0.02
227 153 0.35
228 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (227 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACT
TCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAG
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAA
CTTCAGGGAGATAAGGTTTGTTAGCTTTAATA
Found at i:61533896 original size:50 final size:50
Alignment explanation
Indices: 61533816--61533917 Score: 143
Period size: 50 Copynumber: 2.0 Consensus size: 50
61533806 TATTCCACTG
* *
61533816 CAACTTCAGGGAGATAAGACTTGTATCTTCAACCTACTCTACTTCAACTT
1 CAACTTCAGGGAAATAAGACTTGTATCTTCAACCTACTCTACTGCAACTT
** *
61533866 CAACTTCAGGGAAATAAGGTTTGT-TACTTCAACCTGCTCTACTGCAACTT
1 CAACTTCAGGGAAATAAGACTTGTAT-CTTCAACCTACTCTACTGCAACTT
61533916 CA
1 CA
61533918 GAGAGATAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.02
50 45 0.98
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (50 bp):
CAACTTCAGGGAAATAAGACTTGTATCTTCAACCTACTCTACTGCAACTT
Found at i:61534860 original size:6 final size:5
Alignment explanation
Indices: 61534851--61534929 Score: 60
Period size: 5 Copynumber: 16.0 Consensus size: 5
61534841 TTGGCCTCTC
*
61534851 CTTTCT CTTTT CTTTT CTTTTT CTTCTT CTTTT -TTTCT TTTTT CTTTT
1 CTTT-T CTTTT CTTTT C-TTTT CTT-TT CTTTT CTTT-T CTTTT CTTTT
* *
61534899 TTTTT C-TTT -TTTC CTTTT -TTTT CTTTT -TTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
61534930 TAAAATAAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
4 16 0.26
5 28 0.46
6 17 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
CTTTT
Found at i:61534886 original size:25 final size:23
Alignment explanation
Indices: 61534858--61534930 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 23
61534848 CTCCTTTCTC
61534858 TTTTCTTTTCTTTTTCTTCTTCTTT
1 TTTTCTTTTCTTTTT-TT-TTCTTT
61534883 TTTTCTTTTTTCTTTTTTTTTCTTT
1 TTTTC--TTTTCTTTTTTTTTCTTT
* *
61534908 TTTCCTTTT-TTTTCTTTT-TTT
1 TTTTCTTTTCTTTTTTTTTCTTT
61534929 TT
1 TT
61534931 AAAATAAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 5 0.11
22 8 0.18
23 4 0.09
25 15 0.34
26 2 0.05
27 10 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (23 bp):
TTTTCTTTTCTTTTTTTTTCTTT
Found at i:61534888 original size:32 final size:33
Alignment explanation
Indices: 61534852--61534930 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
61534842 TGGCCTCTCC
61534852 TTTCTCTTTTCTTTTCTTTTTC-TTCTT-CTTTT
1 TTTCTCTTTTCTTTT-TTTTTCTTTCTTCCTTTT
* *
61534884 TTTCTTTTTTCTTTTTTTTTCTTTTTTCCTTTT
1 TTTCTCTTTTCTTTTTTTTTCTTTCTTCCTTTT
61534917 TTT-TCTTTT-TTTTT
1 TTTCTCTTTTCTTTTT
61534931 AAAATAAAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 11 0.26
32 23 0.55
33 8 0.19
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (33 bp):
TTTCTCTTTTCTTTTTTTTTCTTTCTTCCTTTT
Found at i:61534907 original size:17 final size:17
Alignment explanation
Indices: 61534856--61534927 Score: 99
Period size: 17 Copynumber: 4.1 Consensus size: 17
61534846 CTCTCCTTTC
*
61534856 TCTTTTCTTTTCTTTTTCT
1 TCTTTTTTTTTC-TTTT-T
61534875 TCTTCTTTTTTTCTTTTT
1 TCTT-TTTTTTTCTTTTT
61534893 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
*
61534910 TCCTTTTTTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
61534927 T
1 T
61534928 TTTAAAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 30 0.60
18 5 0.10
19 8 0.16
20 7 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TCTTTTTTTTTCTTTTT
Found at i:61534917 original size:7 final size:6
Alignment explanation
Indices: 61534852--61534930 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
61534842 TGGCCTCTCC
*
61534852 TTTCTCT TTTC-T TTTCTT TTTCTT CTTCTTTT TTTCTT TTT-TCT TTT-TT
1 TTTCT-T TTTCTT TTTCTT TTTCTT -TT-TCTT TTTCTT TTTCT-T TTTCTT
*
61534901 TTTCTT TTT-TCC TTT-TT TTTCTT TTT-TT TT
1 TTTCTT TTTCT-T TTTCTT TTTCTT TTTCTT TT
61534931 AAAATAAAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
5 18 0.30
6 32 0.52
7 8 0.13
8 3 0.05
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:61534930 original size:37 final size:37
Alignment explanation
Indices: 61534856--61534927 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
61534846 CTCTCCTTTC
*
61534856 TCTTTTCTTTTCTTTTTCTTCTTCTTTTTTTCTTTTT
1 TCTTTTCTTTTCTTTTTCTCCTTCTTTTTTTCTTTTT
*
61534893 TCTTTTTTTTTCTTTTT-TCC-T-TTTTTTTCTTTTT
1 TCTTTTCTTTTCTTTTTCTCCTTCTTTTTTTCTTTTT
61534927 T
1 T
61534928 TTTAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 14 0.42
35 1 0.03
36 2 0.06
37 16 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (37 bp):
TCTTTTCTTTTCTTTTTCTCCTTCTTTTTTTCTTTTT
Found at i:61538106 original size:32 final size:32
Alignment explanation
Indices: 61538046--61538148 Score: 122
Period size: 32 Copynumber: 3.2 Consensus size: 32
61538036 AAATAATTAA
*
61538046 TTGAAATATTTCAC--AT-AACATAATGATAT
1 TTGAAATATTTCACATATAAAAATAATGATAT
61538075 TTGAAATATTTCACATATAAAAATAATGATAT
1 TTGAAATATTTCACATATAAAAATAATGATAT
* * * *
61538107 TTTAAATATTTTAAATATAAAAAAATAATGATAC
1 TTGAAATATTTCACATAT--AAAAATAATGATAT
61538141 TTGAAATA
1 TTGAAATA
61538149 ATTATTTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
29 14 0.22
31 2 0.03
32 27 0.43
34 20 0.32
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (32 bp):
TTGAAATATTTCACATATAAAAATAATGATAT
Found at i:61538249 original size:15 final size:15
Alignment explanation
Indices: 61538218--61538260 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
61538208 ATTTCACATA
61538218 TAAAAATTATATT-TAT
1 TAAAAA-TA-ATTATAT
61538234 TAAAAATAATTATAT
1 TAAAAATAATTATAT
*
61538249 TTAAAATAATTA
1 TAAAAATAATTA
61538261 ATTGATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 3 0.12
15 16 0.64
16 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATAATTATAT
Found at i:61538262 original size:19 final size:18
Alignment explanation
Indices: 61538222--61538273 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
61538212 CACATATAAA
61538222 AATTATATTTATTAAAAAT
1 AATTATATTTA-TAAAAAT
61538241 AATTATATTTA-AAATAATT
1 AATTATATTTATAAA-AA-T
61538260 AATTGAT-TTTATAA
1 AATT-ATATTTATAA
61538274 TATTAGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.10
18 2 0.07
19 20 0.69
20 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTATATTTATAAAAAT
Found at i:61538311 original size:108 final size:110
Alignment explanation
Indices: 61538127--61538340 Score: 274
Period size: 108 Copynumber: 2.0 Consensus size: 110
61538117 TTAAATATAA
* * * *
61538127 AAAAATAATGATACTTGAAATAATTATTTGATTTTATAATATTAGAATCTATCATACTCACGATG
1 AAAAATAATGATACTTAAAATAATTAATTGATTTTATAATATTAGAATCTATCATACTCACAATA
** * *
61538192 TAGGTG-GAAAAA-AAATATTTCACATATAAAAATTATATTTATT
66 TACATGAAAAAAACAAATATTTAACATATAAAAATTATATTTATT
* * *
61538235 AAAAATAATTATATTTAAAATAATTAATTGATTTTATAATATTAGAATTTA-CAATAC-CAACAA
1 AAAAATAATGATACTTAAAATAATTAATTGATTTTATAATATTAGAATCTATC-ATACTC-ACAA
61538298 TATACATGAAAAAAACTAAATATTTAACATATAAAAATTATAT
64 TATACATGAAAAAAAC-AAATATTTAACATATAAAAATTATAT
61538341 ATAAAGAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
107 2 0.02
108 58 0.64
109 5 0.06
111 25 0.28
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.37
Consensus pattern (110 bp):
AAAAATAATGATACTTAAAATAATTAATTGATTTTATAATATTAGAATCTATCATACTCACAATA
TACATGAAAAAAACAAATATTTAACATATAAAAATTATATTTATT
Found at i:61538405 original size:28 final size:28
Alignment explanation
Indices: 61538374--61538427 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
61538364 TTAGTTGATT
61538374 TAAAAAAAATATATTTAACATAATTATA
1 TAAAAAAAATATATTTAACATAATTATA
*
61538402 TAAATAAAATATATTTAACATAATTA
1 TAAAAAAAATATATTTAACATAATTA
61538428 GTTGAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
TAAAAAAAATATATTTAACATAATTATA
Found at i:61550352 original size:19 final size:21
Alignment explanation
Indices: 61550328--61550371 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
61550318 CATCATTTCT
*
61550328 AGAAGCCCA-AAG-GCTAAAC
1 AGAAGCACATAAGTGCTAAAC
61550347 AGAAGCACATAAGTGCTAAAC
1 AGAAGCACATAAGTGCTAAAC
61550368 AGAA
1 AGAA
61550372 ACTCATAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 3 0.14
21 11 0.50
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.09
Consensus pattern (21 bp):
AGAAGCACATAAGTGCTAAAC
Found at i:61550407 original size:21 final size:20
Alignment explanation
Indices: 61550363--61550471 Score: 78
Period size: 21 Copynumber: 5.2 Consensus size: 20
61550353 ACATAAGTGC
*
61550363 TAAACAGAAACTCAT-AGGGT
1 TAAAC-GAAACTCATAAGAGT
*
61550383 TGAACGAAAGCTCATAAGAGT
1 TAAACGAAA-CTCATAAGAGT
* * *
61550404 TGAACGGAAACCCATAAGGGT
1 TAAAC-GAAACTCATAAGAGT
* *
61550425 TAAACAAAAGCTCAATAA-AGC
1 TAAACGAAA-CTC-ATAAGAGT
*
61550446 TAAACGAAAACTCATATGAGT
1 TAAACG-AAACTCATAAGAGT
61550467 TAAAC
1 TAAAC
61550472 AGAAGCTCGT
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
19 4 0.06
20 15 0.21
21 40 0.57
22 11 0.16
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (20 bp):
TAAACGAAACTCATAAGAGT
Found at i:61550435 original size:42 final size:42
Alignment explanation
Indices: 61550342--61550493 Score: 137
Period size: 42 Copynumber: 3.6 Consensus size: 42
61550332 GCCCAAAGGC
* * * *
61550342 TAAACAGAAGCACATAAGTGCTAAACAGAAACTCAT-AGGGT
1 TAAACAAAAGCTCATAAGAGCTAAACGGAAACTCATAAGGGT
* * * * *
61550383 TGAACGAAAGCTCATAAGAGTTGAACGGAAACCCATAAGGGT
1 TAAACAAAAGCTCATAAGAGCTAAACGGAAACTCATAAGGGT
* * *
61550425 TAAACAAAAGCTCAATAA-AGCTAAACGAAAACTCATATGAGT
1 TAAACAAAAGCTC-ATAAGAGCTAAACGGAAACTCATAAGGGT
* * * *
61550467 TAAACAGAAGCTCGTGAGCGCTAAACG
1 TAAACAAAAGCTCATAAGAGCTAAACG
61550494 AAAAGTAAAC
Statistics
Matches: 87, Mismatches: 21, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
41 29 0.33
42 54 0.62
43 4 0.05
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (42 bp):
TAAACAAAAGCTCATAAGAGCTAAACGGAAACTCATAAGGGT
Found at i:61559734 original size:43 final size:43
Alignment explanation
Indices: 61559673--61559759 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
61559663 CTATCCCTCT
*
61559673 TCCGATTCTCACGCTTGTATTCAATGCATACTGCCGGAAGAGG
1 TCCGATTCTCACGCTTGTATTCAACGCATACTGCCGGAAGAGG
61559716 TCCGATTCTCACGCTTGTATTCAACGCATACTGCCGGAAGAGG
1 TCCGATTCTCACGCTTGTATTCAACGCATACTGCCGGAAGAGG
61559759 T
1 T
61559760 TCCTGCCCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (43 bp):
TCCGATTCTCACGCTTGTATTCAACGCATACTGCCGGAAGAGG
Found at i:61570901 original size:26 final size:24
Alignment explanation
Indices: 61570858--61570926 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 24
61570848 GGCACATCGC
* *
61570858 AGCTCTTATGAGCATCCCG-TTATA
1 AGCTCTTGTGAGCTTCCCGATTA-A
61570882 TAGCTCTTCGTGAGCTTCCCGATTAA
1 -AGCTCTT-GTGAGCTTCCCGATTAA
61570908 AGGCTCTTTGTGAGCTTCC
1 A-GCTC-TTGTGAGCTTCC
61570927 AATTAGTGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 8 0.21
26 25 0.66
27 5 0.13
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (24 bp):
AGCTCTTGTGAGCTTCCCGATTAA
Found at i:61573627 original size:7 final size:7
Alignment explanation
Indices: 61573615--61573645 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
61573605 TAATTTTCAC
61573615 TATAAAA
1 TATAAAA
61573622 TATAAAA
1 TATAAAA
61573629 TATAAAA
1 TATAAAA
61573636 TATAATAA
1 TATAA-AA
61573644 TA
1 TA
61573646 ATAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TATAAAA
Found at i:61573634 original size:14 final size:15
Alignment explanation
Indices: 61573615--61573663 Score: 64
Period size: 14 Copynumber: 3.1 Consensus size: 15
61573605 TAATTTTCAC
61573615 TATAAAATATAA-AA
1 TATAAAATATAATAA
61573629 TATAAAATATAATAA
1 TATAAAATATAATAA
61573644 TAATAATAATAATAATAA
1 T-ATAA-AAT-ATAATAA
61573662 TA
1 TA
61573664 ATAATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.39
15 3 0.10
16 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAAATATAATAA
Found at i:61573645 original size:3 final size:3
Alignment explanation
Indices: 61573637--61573670 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
61573627 AATATAAAAT
61573637 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
61573671 ATTGTGATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:61578958 original size:27 final size:27
Alignment explanation
Indices: 61578917--61579018 Score: 154
Period size: 27 Copynumber: 3.8 Consensus size: 27
61578907 TAGTATTAGC
61578917 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
* *
61578944 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
61578971 GCCTATCTAGG-AGGCGCCAATGGTGGT
1 GCCTATCT-GGAAGGCGCCAATGGTGGT
61578998 GCCATAT-TGGAAGGCGCCAAT
1 GCC-TATCTGGAAGGCGCCAAT
61579019 ACTGTGATTT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.03
27 62 0.90
28 5 0.07
ACGTcount: A:0.20, C:0.22, G:0.36, T:0.23
Consensus pattern (27 bp):
GCCTATCTGGAAGGCGCCAATGGTGGT
Found at i:61582004 original size:22 final size:21
Alignment explanation
Indices: 61581940--61582014 Score: 95
Period size: 20 Copynumber: 3.7 Consensus size: 21
61581930 ATAAGATTGC
*
61581940 AATATTCATAC--AAAATTAC
1 AATATTCATACAAAAAATTAA
*
61581959 AATATTCATA-AAAAAATTAT
1 AATATTCATACAAAAAATTAA
61581979 AATATTCATACAAAAAAGTTAA
1 AATATTCATACAAAAAA-TTAA
61582001 AATATTC-TACAAAA
1 AATATTCATACAAAA
61582015 TTCTAATCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.20
20 17 0.34
21 13 0.26
22 10 0.20
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.31
Consensus pattern (21 bp):
AATATTCATACAAAAAATTAA
Found at i:61582299 original size:27 final size:27
Alignment explanation
Indices: 61582223--61582288 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
61582213 GCAGAGGACA
*
61582223 CCATTGGCGCCTCTCCATGAGGCTCCT
1 CCATTGGCGCCTCTGCATGAGGCTCCT
*
61582250 TCATTGGCGCCTCTGCATGAGGCTCCT
1 CCATTGGCGCCTCTGCATGAGGCTCCT
61582277 CCATTGGCGCCT
1 CCATTGGCGCCT
61582289 ACTAGGTAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.11, C:0.38, G:0.24, T:0.27
Consensus pattern (27 bp):
CCATTGGCGCCTCTGCATGAGGCTCCT
Found at i:61582949 original size:18 final size:18
Alignment explanation
Indices: 61582928--61582962 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
61582918 ACAAAATAAA
61582928 TTTATATTATA-ATATTAT
1 TTTA-ATTATATATATTAT
61582946 TTTAATTATATATATTA
1 TTTAATTATATATATTA
61582963 ATTAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATTATATATATTAT
Found at i:61586140 original size:11 final size:11
Alignment explanation
Indices: 61586116--61586156 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
61586106 ATCTCGAAAT
61586116 AAATT-TATATA
1 AAATTGTATA-A
61586127 AAATTGTATAA
1 AAATTGTATAA
*
61586138 AAATTATAT-A
1 AAATTGTATAA
61586148 AAATTGTAT
1 AAATTGTAT
61586157 TTAGTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 9 0.33
11 14 0.52
12 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
AAATTGTATAA
Found at i:61586150 original size:10 final size:10
Alignment explanation
Indices: 61586114--61586152 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
61586104 ATATCTCGAA
*
61586114 ATAAATTTAT
1 ATAAAATTAT
*
61586124 ATAAAATTGT
1 ATAAAATTAT
61586134 ATAAAAATTAT
1 AT-AAAATTAT
61586145 ATAAAATT
1 ATAAAATT
61586153 GTATTTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (10 bp):
ATAAAATTAT
Found at i:61586589 original size:30 final size:30
Alignment explanation
Indices: 61586527--61586590 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
61586517 AATTTAATTG
* *
61586527 TTTTATTTTGAAGCAAATAAGACTACTTTT
1 TTTTATTTTGAAGCAAATAAGACTAATATT
* *
61586557 TTTTATTTTGGAGCAAATAAGATTAATATT
1 TTTTATTTTGAAGCAAATAAGACTAATATT
61586587 TTTT
1 TTTT
61586591 TGAGTTTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (30 bp):
TTTTATTTTGAAGCAAATAAGACTAATATT
Found at i:61587354 original size:22 final size:21
Alignment explanation
Indices: 61587315--61587355 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
61587305 CATGTCTTTC
*
61587315 TTTTATAAAAATATATAAACT
1 TTTTATAAAAATACATAAACT
*
61587336 TTTTATTAAATATACATAAA
1 TTTTA-TAAAAATACATAAA
61587356 GATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTATAAAAATACATAAACT
Found at i:61587734 original size:24 final size:26
Alignment explanation
Indices: 61587693--61587761 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
61587683 TTACGGATTC
*
61587693 AAATAATTTTAAATTTTATAA-GTTAT
1 AAATAATTTT-AATTTTATAATGTAAT
61587719 AAAT-ATTTTAATTTTA-AATGTAAT
1 AAATAATTTTAATTTTATAATGTAAT
* * *
61587743 AATTCATTTTACTTTTATA
1 AAATAATTTTAATTTTATA
61587762 CAATAACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 2 0.05
24 14 0.38
25 16 0.43
26 5 0.14
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (26 bp):
AAATAATTTTAATTTTATAATGTAAT
Found at i:61594546 original size:29 final size:30
Alignment explanation
Indices: 61594487--61594544 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
61594477 TCCGAGCCTT
*
61594487 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
61594517 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
61594545 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:61594995 original size:50 final size:50
Alignment explanation
Indices: 61594882--61595123 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
61594872 ATTTGGGTAA
* * *
61594882 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
61594938 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
61594988 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
61595038 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
61595088 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
61595124 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Done.