Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 36 of 182
Found at i:13684873 original size:10 final size:10
Alignment explanation
Indices: 13684810--13684874 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
13684800 TTTTAATTTT
13684810 TTTTAAAGTAA
1 TTTTAAA-TAA
13684821 -TTTATAATAA
1 TTTTA-AATAA
*
13684831 TTTTAAA-AC
1 TTTTAAATAA
*
13684840 TTTT-TATAA
1 TTTTAAATAA
*
13684849 TTCTAAATAA
1 TTTTAAATAA
13684859 TTTTTAAATAA
1 -TTTTAAATAA
13684870 TTTTA
1 TTTTA
13684875 TCTTTTATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
8 1 0.02
9 9 0.21
10 18 0.42
11 15 0.35
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:13689387 original size:13 final size:13
Alignment explanation
Indices: 13689366--13689397 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13689356 CATATATAAG
*
13689366 GGCACAAGATATA
1 GGCAAAAGATATA
13689379 GGCAAAAGATATA
1 GGCAAAAGATATA
13689392 GGCAAA
1 GGCAAA
13689398 GTCATGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.25, T:0.12
Consensus pattern (13 bp):
GGCAAAAGATATA
Found at i:13692160 original size:15 final size:15
Alignment explanation
Indices: 13692140--13692173 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13692130 ATGTAATTTT
*
13692140 ATTTATCTGAGTTAA
1 ATTTATCTAAGTTAA
*
13692155 ATTTATCTAATTTAA
1 ATTTATCTAAGTTAA
13692170 ATTT
1 ATTT
13692174 TAAAATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTTATCTAAGTTAA
Found at i:13693136 original size:25 final size:27
Alignment explanation
Indices: 13693108--13693158 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
13693098 AATTTAGTAA
* *
13693108 AATTATATTTTTATT-TTTT-AATTTT
1 AATTAAATTATTATTATTTTGAATTTT
13693133 AATTAAATTATTATTATTTTGAATTT
1 AATTAAATTATTATTATTTTGAATTT
13693159 AAAAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 4 0.18
27 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
AATTAAATTATTATTATTTTGAATTTT
Found at i:13696460 original size:6 final size:6
Alignment explanation
Indices: 13696449--13696478 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
13696439 ATGAAGATAA
13696449 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
13696479 AAAAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:13696807 original size:24 final size:25
Alignment explanation
Indices: 13696761--13696809 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13696751 TAAAAAAACA
**
13696761 TTTTATCATAAAAATTTTGGAAAAT
1 TTTTATCATAAAAAAATTGGAAAAT
13696786 TTTTATCATAAAAAAATT-GAAAAT
1 TTTTATCATAAAAAAATTGGAAAAT
13696810 GGGGGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (25 bp):
TTTTATCATAAAAAAATTGGAAAAT
Found at i:13703488 original size:24 final size:24
Alignment explanation
Indices: 13703431--13703489 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
13703421 AGATAATTAT
*
13703431 ATAAAAAATTTCAATAAATATAAA
1 ATAAAAAAATTCAATAAATATAAA
* *
13703455 ATATATAAAATT-ATTAAATATTAAA
1 ATA-AAAAAATTCAATAAATA-TAAA
13703480 ATAAAAAAAT
1 ATAAAAAAAT
13703490 ATTTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAAAAAAATTCAATAAATATAAA
Found at i:13704776 original size:72 final size:72
Alignment explanation
Indices: 13704700--13704842 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 72
13704690 ATGCCAAAAC
*
13704700 AGCAAAGCAGAGCAGCAACAGACTGCATGCTCAAACCAGAAAACAAATCCCAGCTAACCAAGAAA
1 AGCAAAGCAGAGCAGCAACAGACTGCATGCTCAAACCAGAAAACAAATCCCAGCAAACCAAGAAA
13704765 CAACAGT
66 CAACAGT
* *
13704772 AGCAAAGCAGAGCAGCAATAGACTGCATGCTCAAACCAGAAAACAAATCCCATCAAACCAAGAAA
1 AGCAAAGCAGAGCAGCAACAGACTGCATGCTCAAACCAGAAAACAAATCCCAGCAAACCAAGAAA
13704837 CAACAG
66 CAACAG
13704843 CCTGCACCAC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.08
Consensus pattern (72 bp):
AGCAAAGCAGAGCAGCAACAGACTGCATGCTCAAACCAGAAAACAAATCCCAGCAAACCAAGAAA
CAACAGT
Found at i:13725929 original size:232 final size:232
Alignment explanation
Indices: 13725523--13725990 Score: 927
Period size: 232 Copynumber: 2.0 Consensus size: 232
13725513 GCCCCCACTT
13725523 ACATATGTAAAATGCCATACTTAATACTGACCAACCTACTCAAACTAAATAAGGCAGTCTTGTTG
1 ACATATGTAAAATGCCATACTTAATACTGACCAACCTACTCAAACTAAATAAGGCAGTCTTGTTG
13725588 AGAATTTATACTGGTGCAAGTCAAGACAGGGAAACGGTGCAAGACTAGAAAGCAAGCAACTCCAT
66 AGAATTTATACTGGTGCAAGTCAAGACAGGGAAACGGTGCAAGACTAGAAAGCAAGCAACTCCAT
13725653 CTCATATTTCATGGTAATTGCTTTATAAATAATATTCCCATACGCACCTTGCATCTGTTAGCGAC
131 CTCATATTTCATGGTAATTGCTTTATAAATAATATTCCCATACGCACCTTGCATCTGTTAGCGAC
13725718 ATTTATGGCATCTGAGGGCCGTGCATCCACAATTATG
196 ATTTATGGCATCTGAGGGCCGTGCATCCACAATTATG
13725755 ACATATGTAAAATGCCATACTTAATACTGACCAACCTACTCAAACTAAATAAGGCAGTCTTGTTG
1 ACATATGTAAAATGCCATACTTAATACTGACCAACCTACTCAAACTAAATAAGGCAGTCTTGTTG
*
13725820 AGATTTTATACTGGTGCAAGTCAAGACAGGGAAACGGTGCAAGACTAGAAAGCAAGCAACTCCAT
66 AGAATTTATACTGGTGCAAGTCAAGACAGGGAAACGGTGCAAGACTAGAAAGCAAGCAACTCCAT
13725885 CTCATATTTCATGGTAATTGCTTTATAAATAATATTCCCATACGCACCTTGCATCTGTTAGCGAC
131 CTCATATTTCATGGTAATTGCTTTATAAATAATATTCCCATACGCACCTTGCATCTGTTAGCGAC
13725950 ATTTATGGCATCTGAGGGCCGTGCATCCACAATTATG
196 ATTTATGGCATCTGAGGGCCGTGCATCCACAATTATG
13725987 ACAT
1 ACAT
13725991 CATTTTCCCC
Statistics
Matches: 235, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
232 235 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (232 bp):
ACATATGTAAAATGCCATACTTAATACTGACCAACCTACTCAAACTAAATAAGGCAGTCTTGTTG
AGAATTTATACTGGTGCAAGTCAAGACAGGGAAACGGTGCAAGACTAGAAAGCAAGCAACTCCAT
CTCATATTTCATGGTAATTGCTTTATAAATAATATTCCCATACGCACCTTGCATCTGTTAGCGAC
ATTTATGGCATCTGAGGGCCGTGCATCCACAATTATG
Found at i:13727651 original size:20 final size:18
Alignment explanation
Indices: 13727610--13727654 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
13727600 TATACACATT
13727610 AAAAAATATAAAAATTAA
1 AAAAAATATAAAAATTAA
*
13727628 AAAATATATATAAAATCTAGA
1 AAAAAATATA-AAAAT-TA-A
13727649 AAAAAA
1 AAAAAA
13727655 ACATCATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 9 0.41
19 5 0.23
20 2 0.09
21 6 0.27
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAAATATAAAAATTAA
Found at i:13727801 original size:25 final size:27
Alignment explanation
Indices: 13727750--13727802 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
13727740 GCAAAAAAAT
*
13727750 AAAAATTATAAAAAATGTATTTCTAAA
1 AAAAATTATAAAAAATGTATTTATAAA
* *
13727777 AAAAATTA-AAAATAT-TTTTTATAAA
1 AAAAATTATAAAAAATGTATTTATAAA
13727802 A
1 A
13727803 GTCAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
AAAAATTATAAAAAATGTATTTATAAA
Found at i:13728358 original size:23 final size:21
Alignment explanation
Indices: 13728311--13728366 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
13728301 ATATATAAAC
*
13728311 AAATGTTTAAAATATTTTTTAT
1 AAAT-TTTAAAATATTATTTAT
13728333 AAAATTTTAAAATATATAATTT-T
1 -AAATTTTAAAATAT-T-ATTTAT
13728356 AAATTTTAAAA
1 AAATTTTAAAA
13728367 ATCTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 21 0.70
23 6 0.20
24 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATTTTAAAATATTATTTAT
Found at i:13728414 original size:19 final size:19
Alignment explanation
Indices: 13728356--13728414 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
13728346 ATATAATTTT
*
13728356 AAATTTTA-AAAATCTAAA
1 AAATTTTATAAAAACTAAA
* * *
13728374 ATAA-TATATAAAAATTAGA
1 A-AATTTTATAAAAACTAAA
13728393 AAATTTTATAAAAACTAAA
1 AAATTTTATAAAAACTAAA
13728412 AAA
1 AAA
13728415 GTATTTAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (19 bp):
AAATTTTATAAAAACTAAA
Found at i:13728423 original size:19 final size:18
Alignment explanation
Indices: 13728356--13728423 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
13728346 ATATAATTTT
13728356 AAAT-TTTAAAAATCTAAA
1 AAATATTTAAAAA-CTAAA
* * *
13728374 ATAATATATAAAAATTAGA
1 A-AATATTTAAAAACTAAA
*
13728393 AAATTTTATAAAAACTAAA
1 AAATATT-TAAAAACTAAA
13728412 AAAGTATTTAAA
1 AAA-TATTTAAA
13728424 TTTTAAGTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 5 0.13
19 23 0.61
20 10 0.26
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATATTTAAAAACTAAA
Found at i:13729103 original size:21 final size:21
Alignment explanation
Indices: 13729079--13729119 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13729069 AGGGGAATTA
* *
13729079 CTTGGATTTTTATAAAGAAAT
1 CTTGGAGTTTTACAAAGAAAT
*
13729100 CTTGGGGTTTTACAAAGAAA
1 CTTGGAGTTTTACAAAGAAA
13729120 AATTATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (21 bp):
CTTGGAGTTTTACAAAGAAAT
Found at i:13732418 original size:21 final size:21
Alignment explanation
Indices: 13732368--13732434 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
13732358 GACTGCGGGT
*
13732368 TGTAACTTGGAGAGGTAGGG-C
1 TGTAACTTGGTGAGGT-GGGAC
* * *
13732389 TATAGCTTGGTGATGTGGGAC
1 TGTAACTTGGTGAGGTGGGAC
*
13732410 TGTAACTTGGTGAGGTTGGAC
1 TGTAACTTGGTGAGGTGGGAC
13732431 TGTA
1 TGTA
13732435 CCCAGGAGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 3 0.08
21 34 0.92
ACGTcount: A:0.21, C:0.09, G:0.39, T:0.31
Consensus pattern (21 bp):
TGTAACTTGGTGAGGTGGGAC
Found at i:13732484 original size:42 final size:42
Alignment explanation
Indices: 13732438--13732644 Score: 168
Period size: 42 Copynumber: 4.9 Consensus size: 42
13732428 GACTGTACCC
* *
13732438 AGGAGAAGTAGGGCTATAAGCGGGTGAAGTAGGGCTGTATGA
1 AGGAGATGTAGGGCTATAAGCAGGTGAAGTAGGGCTGTATGA
* * * *
13732480 AGGAGATGTGGGGCTATAGGAAGGTGAAGTAGGGCTGTACGA
1 AGGAGATGTAGGGCTATAAGCAGGTGAAGTAGGGCTGTATGA
* * * * *
13732522 AGGAGATGTTGGGCTGTATG-ACGGAGATGT-GGGACTGTATGA
1 AGGAGATGTAGGGCTATAAGCA-GGTGAAGTAGGG-CTGTATGA
* * * * * * *
13732564 TGGAGAAGTGGGGCTATATGCAGGTGAAGTTGGGCTATATGC
1 AGGAGATGTAGGGCTATAAGCAGGTGAAGTAGGGCTGTATGA
* * * *
13732606 TGGTGATGTAGGGCTATATA-CGGGTGAAGTGGGGCTGTA
1 AGGAGATGTAGGGCTATA-AGCAGGTGAAGTAGGGCTGTA
13732645 GCTAGGTGAA
Statistics
Matches: 133, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
41 4 0.03
42 125 0.94
43 4 0.03
ACGTcount: A:0.26, C:0.08, G:0.43, T:0.24
Consensus pattern (42 bp):
AGGAGATGTAGGGCTATAAGCAGGTGAAGTAGGGCTGTATGA
Found at i:13732509 original size:63 final size:63
Alignment explanation
Indices: 13732438--13732623 Score: 192
Period size: 63 Copynumber: 3.0 Consensus size: 63
13732428 GACTGTACCC
* *
13732438 AGGAGAAGTAGGGCTATAAGCGGGTGAAGTAGGGCTGTATGAAGGAGATGTGGGGCTATAGGA
1 AGGAGAAGTAGGGCTATAAGCAGGTGAAGTTGGGCTGTATGAAGGAGATGTGGGGCTATAGGA
* * * * * * * * * *
13732501 AGGTGAAGTAGGGCTGTACGAAGGAGATGTTGGGCTGTATGACGGAGATGTGGGACTGTATGA
1 AGGAGAAGTAGGGCTATAAGCAGGTGAAGTTGGGCTGTATGAAGGAGATGTGGGGCTATAGGA
* * * * ** * *
13732564 TGGAGAAGTGGGGCTATATGCAGGTGAAGTTGGGCTATATGCTGGTGATGTAGGGCTATA
1 AGGAGAAGTAGGGCTATAAGCAGGTGAAGTTGGGCTGTATGAAGGAGATGTGGGGCTATA
13732624 TACGGGTGAA
Statistics
Matches: 96, Mismatches: 27, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
63 96 1.00
ACGTcount: A:0.26, C:0.08, G:0.42, T:0.24
Consensus pattern (63 bp):
AGGAGAAGTAGGGCTATAAGCAGGTGAAGTTGGGCTGTATGAAGGAGATGTGGGGCTATAGGA
Found at i:13732592 original size:21 final size:21
Alignment explanation
Indices: 13732437--13732665 Score: 122
Period size: 21 Copynumber: 10.9 Consensus size: 21
13732427 GGACTGTACC
* * *
13732437 CAGGAGAAGTAGGGCTATAAG
1 CAGGTGAAGTGGGGCTATATG
* * *
13732458 CGGGTGAAGTAGGGCTGTATG
1 CAGGTGAAGTGGGGCTATATG
* * * *
13732479 AAGGAGATGTGGGGCTATAGG
1 CAGGTGAAGTGGGGCTATATG
* * * *
13732500 AAGGTGAAGTAGGGCTGTACG
1 CAGGTGAAGTGGGGCTATATG
* * * * *
13732521 AAGGAGATGTTGGGCTGTATG
1 CAGGTGAAGTGGGGCTATATG
* * * *
13732542 -ACGGAGATGTGGGACTGTATG
1 CA-GGTGAAGTGGGGCTATATG
*
13732563 -ATGGAGAAGTGGGGCTATATG
1 CA-GGTGAAGTGGGGCTATATG
*
13732584 CAGGTGAAGTTGGGCTATATG
1 CAGGTGAAGTGGGGCTATATG
* * * *
13732605 CTGGTGATGTAGGGCTATATA
1 CAGGTGAAGTGGGGCTATATG
* *
13732626 CGGGTGAAGTGGGGCTGTA-G
1 CAGGTGAAGTGGGGCTATATG
*
13732646 CTAGGTGAAGTGGGACTATA
1 C-AGGTGAAGTGGGGCTATA
13732666 GCTGGGGGAT
Statistics
Matches: 165, Mismatches: 40, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
20 2 0.01
21 162 0.98
22 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.42, T:0.24
Consensus pattern (21 bp):
CAGGTGAAGTGGGGCTATATG
Found at i:13732698 original size:63 final size:62
Alignment explanation
Indices: 13732505--13732707 Score: 157
Period size: 63 Copynumber: 3.2 Consensus size: 62
13732495 ATAGGAAGGT
* * * * * * *
13732505 GAAGTAGGGCTGTACGAAGGAGATGTTGGGCTGTATGAC-GGAGATGTGGGACTGTATGA-TGGA
1 GAAGTGGGGCTGTATGCAGGTGAAGTTGGGCTATATG-CTGGGGATGTGGGACTGTA--ACTGGA
* * * * *
13732568 GAAGTGGGGCTATATGCAGGTGAAGTTGGGCTATATGCTGGTGATGTAGGG-CTATATACGGGT
1 GAAGTGGGGCTGTATGCAGGTGAAGTTGGGCTATATGCTGGGGATGT-GGGACTGTA-ACTGGA
13732631 GAAGTGGGGCTGTA-GCTAGGTGAAG-TGGGACTATA-GCTGGGGGATGTGGGACTGTAACTTGG
1 GAAGTGGGGCTGTATGC-AGGTGAAGTTGGG-CTATATGCT-GGGGATGTGGGACTGTAAC-TGG
13732693 A
62 A
* *
13732694 GAAGTAGGACTGTA
1 GAAGTGGGGCTGTA
13732708 ACTTGGAGAT
Statistics
Matches: 113, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
62 16 0.14
63 94 0.83
64 3 0.03
ACGTcount: A:0.24, C:0.09, G:0.42, T:0.25
Consensus pattern (62 bp):
GAAGTGGGGCTGTATGCAGGTGAAGTTGGGCTATATGCTGGGGATGTGGGACTGTAACTGGA
Found at i:13732703 original size:21 final size:21
Alignment explanation
Indices: 13732679--13732761 Score: 103
Period size: 21 Copynumber: 4.0 Consensus size: 21
13732669 GGGGGATGTG
13732679 GGACTGTAACTTGGAGAAGTA
1 GGACTGTAACTTGGAGAAGTA
*
13732700 GGACTGTAACTTGGAGATGTA
1 GGACTGTAACTTGGAGAAGTA
* *
13732721 GGGCTGTAACTTGGAGAGGTA
1 GGACTGTAACTTGGAGAAGTA
* * * *
13732742 GGGCTATAGCTTGGTGAAGT
1 GGACTGTAACTTGGAGAAGT
13732762 TGGAGAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.27, C:0.10, G:0.37, T:0.27
Consensus pattern (21 bp):
GGACTGTAACTTGGAGAAGTA
Found at i:13732755 original size:42 final size:42
Alignment explanation
Indices: 13732634--13732755 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
13732624 TACGGGTGAA
* * * * * * *
13732634 GTGGGGCTGTAGCTAGGTGAAGTGGGACTATAGCTGGGGGAT
1 GTGGGACTGTAACTTGGAGAAGTAGGACTATAGCTTGGAGAT
* *
13732676 GTGGGACTGTAACTTGGAGAAGTAGGACTGTAACTTGGAGAT
1 GTGGGACTGTAACTTGGAGAAGTAGGACTATAGCTTGGAGAT
* *
13732718 GTAGGG-CTGTAACTTGGAGAGGTAGGGCTATAGCTTGG
1 GT-GGGACTGTAACTTGGAGAAGTAGGACTATAGCTTGG
13732756 TGAAGTTGGA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
42 63 0.95
43 3 0.05
ACGTcount: A:0.23, C:0.10, G:0.42, T:0.25
Consensus pattern (42 bp):
GTGGGACTGTAACTTGGAGAAGTAGGACTATAGCTTGGAGAT
Found at i:13732872 original size:42 final size:41
Alignment explanation
Indices: 13732826--13732970 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 41
13732816 TGGTGAGCTA
** *
13732826 GGACTGTAAGTAGGTGATGTGGGGCTGTAACCAGGAGAGGTG
1 GGACTGTAACCAGGTGATGT-GGACTGTAACCAGGAGAGGTG
* * *
13732868 GGACTGTACCCAGGAGATGTAGGACTGTAACCAGGAGAGGTA
1 GGACTGTAACCAGGTGATGT-GGACTGTAACCAGGAGAGGTG
* *
13732910 GGACTGTAACCAGGTGATGATGGACTGTATCCAGGAGATGATG
1 GGACTGTAACCAGGTGATG-TGGACTGTAACCAGGAGA-GGTG
*
13732953 GG-CTGTAACCAGGGGATG
1 GGACTGTAACCAGGTGATG
13732971 ACGTAGGAGA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 83 0.94
43 5 0.06
ACGTcount: A:0.27, C:0.14, G:0.39, T:0.20
Consensus pattern (41 bp):
GGACTGTAACCAGGTGATGTGGACTGTAACCAGGAGAGGTG
Found at i:13732970 original size:21 final size:21
Alignment explanation
Indices: 13732850--13732971 Score: 133
Period size: 21 Copynumber: 5.8 Consensus size: 21
13732840 TGATGTGGGG
*
13732850 CTGTAACCAGGAGA-GGTGGGA
1 CTGTAACCAGGAGATGAT-GGA
*
13732871 CTGTACCCAGGAGATG-TAGGA
1 CTGTAACCAGGAGATGAT-GGA
*
13732892 CTGTAACCAGGAGA-GGTAGGA
1 CTGTAACCAGGAGATGAT-GGA
*
13732913 CTGTAACCAGGTGATGATGGA
1 CTGTAACCAGGAGATGATGGA
* *
13732934 CTGTATCCAGGAGATGATGGG
1 CTGTAACCAGGAGATGATGGA
*
13732955 CTGTAACCAGGGGATGA
1 CTGTAACCAGGAGATGA
13732972 CGTAGGAGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
20 1 0.01
21 84 0.95
22 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.37, T:0.19
Consensus pattern (21 bp):
CTGTAACCAGGAGATGATGGA
Found at i:13739434 original size:16 final size:16
Alignment explanation
Indices: 13739413--13739445 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13739403 CTCAGGATCT
13739413 AATTTTGTCGGAAAGA
1 AATTTTGTCGGAAAGA
*
13739429 AATTTTTTCGGAAAGA
1 AATTTTGTCGGAAAGA
13739445 A
1 A
13739446 GCCCTCCTCC
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:0.06, G:0.21, T:0.33
Consensus pattern (16 bp):
AATTTTGTCGGAAAGA
Found at i:13747387 original size:26 final size:27
Alignment explanation
Indices: 13747336--13747392 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
13747326 GCCTAAGCCA
*
13747336 CCACGTCAGCTACCATGTCAGCACGT-
1 CCACGTCAGCTACCACGTCAGCACGTG
* **
13747362 CCACGTCAGCTGCCACGTCATTACGTG
1 CCACGTCAGCTACCACGTCAGCACGTG
13747389 CCAC
1 CCAC
13747393 ATCATCACGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.21, C:0.40, G:0.19, T:0.19
Consensus pattern (27 bp):
CCACGTCAGCTACCACGTCAGCACGTG
Found at i:13747392 original size:15 final size:15
Alignment explanation
Indices: 13747372--13747439 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
13747362 CCACGTCAGC
*
13747372 TGCCACGTCATTACG
1 TGCCACGTCATCACG
*
13747387 TGCCACATCATCACG
1 TGCCACGTCATCACG
13747402 T-CCACGTCAGT-AC-
1 TGCCACGTCA-TCACG
* * *
13747415 TGCCACATCATCCCT
1 TGCCACGTCATCACG
13747430 TGCCACGTCA
1 TGCCACGTCA
13747440 GCCAGTGGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
13 2 0.05
14 17 0.40
15 24 0.56
ACGTcount: A:0.22, C:0.40, G:0.15, T:0.24
Consensus pattern (15 bp):
TGCCACGTCATCACG
Found at i:13747435 original size:29 final size:30
Alignment explanation
Indices: 13747372--13747440 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
13747362 CCACGTCAGC
*
13747372 TGCCACGTCATTACGTGCCACATCATCACG
1 TGCCACGTCAGTACGTGCCACATCATCACG
* *
13747402 T-CCACGTCAGTAC-TGCCACATCATCCCT
1 TGCCACGTCAGTACGTGCCACATCATCACG
13747430 TGCCACGTCAG
1 TGCCACGTCAG
13747441 CCAGTGGTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 14 0.40
29 20 0.57
30 1 0.03
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.23
Consensus pattern (30 bp):
TGCCACGTCAGTACGTGCCACATCATCACG
Found at i:13748749 original size:17 final size:15
Alignment explanation
Indices: 13748710--13748752 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
13748700 ATCACCATTT
13748710 ATTTTTATTTTTAAA
1 ATTTTTATTTTTAAA
*
13748725 ATGATTTATGTTTTATAA
1 AT-TTTTAT-TTTTA-AA
13748743 ATTTTTATTT
1 ATTTTTATTT
13748753 CCTTAAAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 2 0.09
16 7 0.30
17 10 0.43
18 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (15 bp):
ATTTTTATTTTTAAA
Found at i:13749009 original size:121 final size:121
Alignment explanation
Indices: 13748857--13749076 Score: 302
Period size: 121 Copynumber: 1.8 Consensus size: 121
13748847 AAAAAAACAA
* * * *
13748857 ACGTGGTTTCCCTTCTTAGCTCATAGCTTTTAAATCTCTTCAATT-TCCTTTTTTATTCCCTTAA
1 ACGTGGCTTCCCTTCTTAGCTCACAGCTTTTAAA-CCCTTCAATTGCCCTTTTTTATTCCCTTAA
* * *
13748921 TAATAT-ATATTTTACTAATTTACTTTTAAAATCTTTTAAATTTAAATTGACATAGTT
65 TAAT-TGATATTTTACCAATTTACCTATAAAATCTTTTAAATTTAAATTGACATAGTT
* * *
13748978 ACGTGGCTTCCCTTCTTAG-TCCACATCTTTTAAACCCTTTAATTGCCCTTTTTTATTCCTTTAA
1 ACGTGGCTTCCCTTCTTAGCT-CACAGCTTTTAAACCCTTCAATTGCCCTTTTTTATTCCCTTAA
13749042 TAATTGATATTTTACCAATTTACCTATAAAATCTT
65 TAATTGATATTTTACCAATTTACCTATAAAATCTT
13749077 AAATTCAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
120 10 0.12
121 76 0.88
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.48
Consensus pattern (121 bp):
ACGTGGCTTCCCTTCTTAGCTCACAGCTTTTAAACCCTTCAATTGCCCTTTTTTATTCCCTTAAT
AATTGATATTTTACCAATTTACCTATAAAATCTTTTAAATTTAAATTGACATAGTT
Found at i:13750136 original size:20 final size:20
Alignment explanation
Indices: 13750098--13750136 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13750088 TCCTCACAAT
** *
13750098 TTTGTAAGAGTTTTGGTAAA
1 TTTGTAAGAAATTTAGTAAA
13750118 TTTGTAAGAAATTTAGTAA
1 TTTGTAAGAAATTTAGTAA
13750137 TATCGTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (20 bp):
TTTGTAAGAAATTTAGTAAA
Found at i:13751309 original size:29 final size:28
Alignment explanation
Indices: 13751228--13751373 Score: 105
Period size: 29 Copynumber: 4.9 Consensus size: 28
13751218 AAATTGAATC
* * *
13751228 TAAAAACAAGTTTAGGTGCCAAATTAGG
1 TAAAAAAAAGTTTAGGTACCAAATTGGG
* * *
13751256 AAAAAAATGCCAAGTTCAAGTACCAAATTGGG
1 TAAAAAA----AAGTTTAGGTACCAAATTGGG
**
13751288 TTAAAAAAAAGTTTAGGTACCAAATTAAG
1 -TAAAAAAAAGTTTAGGTACCAAATTGGG
* *
13751317 -AAAAAGTGTCAAGTTTAGTTACCAAATTGGG
1 TAAAAA----AAAGTTTAGGTACCAAATTGGG
13751348 TCAAAAAAAAGTTTAGGTACCAAATT
1 T-AAAAAAAAGTTTAGGTACCAAATT
13751374 AAGAAAAAGT
Statistics
Matches: 90, Mismatches: 17, Indels: 21
0.70 0.13 0.16
Matches are distributed among these distances:
27 5 0.06
28 5 0.06
29 34 0.38
31 18 0.20
32 17 0.19
33 11 0.12
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.25
Consensus pattern (28 bp):
TAAAAAAAAGTTTAGGTACCAAATTGGG
Found at i:13751334 original size:31 final size:31
Alignment explanation
Indices: 13751296--13751391 Score: 110
Period size: 31 Copynumber: 3.2 Consensus size: 31
13751286 GGTTAAAAAA
13751296 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
* ** *
13751327 AAGTTTAGTTACCAAATTGGGTCAAAAA----A
1 AAGTTTAGGTACCAAATTAAG--AAAAAGTGTC
13751356 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
13751387 AAGTT
1 AAGTT
13751392 CATATTAAGC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
27 5 0.10
29 18 0.35
31 23 0.45
33 5 0.10
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.27
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAAGAAAAAGTGTC
Found at i:13751354 original size:60 final size:60
Alignment explanation
Indices: 13751229--13751393 Score: 242
Period size: 60 Copynumber: 2.7 Consensus size: 60
13751219 AATTGAATCT
* * * * * *
13751229 AAAAACAAGTTTAGGTGCCAAATTAGGAAAAAAATGCCAAGTTCAAGTACCAAATTGGGTT
1 AAAAAAAAGTTTAGGTACCAAATTAAG-AAAAAGTGTCAAGTTCAAGTACCAAATTGGGTC
*
13751290 AAAAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTT-TAGTTACCAAATTGGGTC
1 AAAAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAAG-TACCAAATTGGGTC
13751350 AAAAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCA
1 AAAAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCA
13751394 TATTAAGCCT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
59 2 0.02
60 68 0.72
61 24 0.26
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (60 bp):
AAAAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAAGTACCAAATTGGGTC
Found at i:13752034 original size:20 final size:20
Alignment explanation
Indices: 13752011--13752057 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
13752001 AATGGACTAA
13752011 TTTGTAAAAAAATC-AGTAAT
1 TTTGTAAAAAAATCGA-TAAT
13752031 TTTGTAAAAAAATCGATAAT
1 TTTGTAAAAAAATCGATAAT
13752051 TTTGTAA
1 TTTGTAA
13752058 GAAATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTGTAAAAAAATCGATAAT
Found at i:13753167 original size:21 final size:18
Alignment explanation
Indices: 13753107--13753160 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 18
13753097 GTCTTTATAT
13753107 AATATC-CAAATACAAAA
1 AATATCTCAAATACAAAA
*
13753124 AATATCTCAAATACATTATA
1 AATATCTCAAATACA--AAA
13753144 AATATCTTCAAATACAA
1 AATATC-TCAAATACAA
13753161 CACAAATGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.19
18 8 0.25
19 1 0.03
20 8 0.25
21 9 0.28
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (18 bp):
AATATCTCAAATACAAAA
Found at i:13754471 original size:26 final size:26
Alignment explanation
Indices: 13754431--13754480 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
13754421 AGTTCGTGTG
13754431 AGCTAGGTTCACGAGCTCCCCTTGCA
1 AGCTAGGTTCACGAGCTCCCCTTGCA
*
13754457 AGCTAGGTTCCCGAGCTCCCCTTG
1 AGCTAGGTTCACGAGCTCCCCTTG
13754481 TTGTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.36, G:0.24, T:0.24
Consensus pattern (26 bp):
AGCTAGGTTCACGAGCTCCCCTTGCA
Found at i:13756273 original size:2 final size:2
Alignment explanation
Indices: 13756266--13756305 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13756256 CAACAATTAC
13756266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13756306 TGGTGTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13758732 original size:25 final size:24
Alignment explanation
Indices: 13758679--13758733 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
13758669 TTGTGTATTG
* *
13758679 AATAGAATTTGAATTTTGAATTATT
1 AATATAATTTGAATTTTAAATTA-T
13758704 AATATAATTTGATATTTATAAATTA-
1 AATATAATTTGA-ATTT-TAAATTAT
13758729 AATAT
1 AATAT
13758734 GTAAGATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 16 0.62
26 4 0.15
27 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (24 bp):
AATATAATTTGAATTTTAAATTAT
Found at i:13768642 original size:18 final size:19
Alignment explanation
Indices: 13768619--13768656 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13768609 TAAATAAATC
13768619 ATTAAAA-TATTTATAAAA
1 ATTAAAAGTATTTATAAAA
*
13768637 ATTAAAAGTATTTTTAAAA
1 ATTAAAAGTATTTATAAAA
13768656 A
1 A
13768657 GTTCAACCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
ATTAAAAGTATTTATAAAA
Found at i:13774219 original size:6 final size:6
Alignment explanation
Indices: 13774205--13774237 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
13774195 CACTAATCTC
*
13774205 TCTCCT TCTCTT TCTCTT TCTCTT TCTCTT TCT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCTCTT TCT
13774238 TTGGCTGCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
TCTCTT
Found at i:13781496 original size:56 final size:56
Alignment explanation
Indices: 13781430--13781551 Score: 226
Period size: 56 Copynumber: 2.2 Consensus size: 56
13781420 ACATACGACA
*
13781430 CCTAATAGCAACTTACCACCTATTCTAAAGATCGTTGTTCATCATTATCATGACTC
1 CCTAAAAGCAACTTACCACCTATTCTAAAGATCGTTGTTCATCATTATCATGACTC
*
13781486 CCTAAAAGCAACTTACCACCTATTCTAAAGATCGTTGTTTATCATTATCATGACTC
1 CCTAAAAGCAACTTACCACCTATTCTAAAGATCGTTGTTCATCATTATCATGACTC
13781542 CCTAAAAGCA
1 CCTAAAAGCA
13781552 CAATTCTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (56 bp):
CCTAAAAGCAACTTACCACCTATTCTAAAGATCGTTGTTCATCATTATCATGACTC
Found at i:13784898 original size:16 final size:17
Alignment explanation
Indices: 13784869--13784900 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13784859 ATATTTGTTA
13784869 TTTTAATTTGATATTTT
1 TTTTAATTTGATATTTT
13784886 TTTTAATTT-ATATTT
1 TTTTAATTTGATATTT
13784901 AAACTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTAATTTGATATTTT
Found at i:13784933 original size:27 final size:24
Alignment explanation
Indices: 13784882--13784933 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 24
13784872 TAATTTGATA
*
13784882 TTTTTTTTAATTTATATTTAAACT
1 TTTTTTTTAATTTATATCTAAACT
*
13784906 TTTTTTATCTAATTTGATATCTGAACT
1 TTTTTT-T-TAATTT-ATATCTAAACT
13784933 T
1 T
13784934 GACATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 6 0.26
25 1 0.04
26 6 0.26
27 10 0.43
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTTTTTAATTTATATCTAAACT
Found at i:13784950 original size:31 final size:33
Alignment explanation
Indices: 13784905--13784975 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
13784895 ATATTTAAAC
13784905 TTTTTTTATCTAATTTGATA-TCTGAACTTGACA
1 TTTTTTTATCTAATTTGATACT-TGAACTTGACA
* *
13784938 TTTTTTT-T-TAATTTGGTACTTGAATTTGACA
1 TTTTTTTATCTAATTTGATACTTGAACTTGACA
*
13784969 ATTTTTT
1 TTTTTTT
13784976 CCTAAGTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 25 0.74
32 2 0.06
33 7 0.21
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (33 bp):
TTTTTTTATCTAATTTGATACTTGAACTTGACA
Found at i:13784986 original size:32 final size:31
Alignment explanation
Indices: 13784927--13784988 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
13784917 ATTTGATATC
** *
13784927 TGAACTTGACATTTTTTTTTAATTTGGTACT
1 TGAACTTGACATTTTTTCCTAAGTTGGTACT
*
13784958 TGAATTTGACAATTTTTTCCTAAGTTGGTAC
1 TGAACTTGAC-ATTTTTTCCTAAGTTGGTAC
13784989 CTAAGCCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (31 bp):
TGAACTTGACATTTTTTCCTAAGTTGGTACT
Found at i:13795162 original size:21 final size:21
Alignment explanation
Indices: 13795124--13795163 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13795114 ATTTTAAAAG
*
13795124 ATTTAAACTTTCTATTTTTTA
1 ATTTAAAATTTCTATTTTTTA
*
13795145 ATTTAAAATTT-TAGTTTTT
1 ATTTAAAATTTCTATTTTTT
13795164 GTTATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTAAAATTTCTATTTTTTA
Found at i:13796457 original size:13 final size:13
Alignment explanation
Indices: 13796441--13796465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13796431 AATTAAATTT
13796441 AAAATATTTTTTA
1 AAAATATTTTTTA
13796454 AAAATATTTTTT
1 AAAATATTTTTT
13796466 TGGTACAAAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAAATATTTTTTA
Found at i:13796500 original size:55 final size:53
Alignment explanation
Indices: 13796423--13796525 Score: 145
Period size: 55 Copynumber: 1.9 Consensus size: 53
13796413 AAATTAGTAA
* *
13796423 AAATAAAAAATTAAATTTAAAATATTTTTTAAAA-ATATTTTTTTGGTACAAAT
1 AAATAAAAAATTAAATTTAAAATATATTTTAAAATA-AATTTTTTGGTACAAAT
*
13796476 AAATAATAAAGTTAAAATTTAAAATATATTTTAAAATAAATTTTTTGGTA
1 AAATAA-AAAATT-AAATTTAAAATATATTTTAAAATAAATTTTTTGGTA
13796526 TCAGTTGGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
53 6 0.14
54 5 0.11
55 32 0.73
56 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (53 bp):
AAATAAAAAATTAAATTTAAAATATATTTTAAAATAAATTTTTTGGTACAAAT
Found at i:13801336 original size:12 final size:13
Alignment explanation
Indices: 13801310--13801338 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13801300 ATTAATATAT
13801310 TAAAATTAGAAAG
1 TAAAATTAGAAAG
13801323 TAAAATTA-AAAG
1 TAAAATTAGAAAG
13801335 TAAA
1 TAAA
13801339 GCTTGAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (13 bp):
TAAAATTAGAAAG
Found at i:13806139 original size:14 final size:14
Alignment explanation
Indices: 13806120--13806146 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13806110 AGTGGTTCAA
13806120 GGAACAGCTGTGAC
1 GGAACAGCTGTGAC
13806134 GGAACAGCTGTGA
1 GGAACAGCTGTGA
13806147 GTGCTCGAAG
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:0.30, C:0.19, G:0.37, T:0.15
Consensus pattern (14 bp):
GGAACAGCTGTGAC
Found at i:13811817 original size:24 final size:24
Alignment explanation
Indices: 13811790--13811845 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
13811780 AGCCAACACA
13811790 AGCCCAGAATGATTAGCTCTTACG
1 AGCCCAGAATGATTAGCTCTTACG
*
13811814 AGCCTAGAATGATTAGCTCTTACG
1 AGCCCAGAATGATTAGCTCTTACG
13811838 AGCCCAGA
1 AGCCCAGA
13811846 TAGAGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (24 bp):
AGCCCAGAATGATTAGCTCTTACG
Found at i:13814570 original size:15 final size:16
Alignment explanation
Indices: 13814550--13814589 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
13814540 TTGTGTTGAG
*
13814550 AAAATTATTTAA-TTA
1 AAAATTAATTAATTTA
13814565 AAAATTAATTAATTTA
1 AAAATTAATTAATTTA
*
13814581 AAAAATAAT
1 AAAATTAAT
13814590 GTTCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTAATTAATTTA
Found at i:13818293 original size:4 final size:4
Alignment explanation
Indices: 13818286--13818315 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13818276 TATGTATGGA
13818286 TGGG TGGG TGGG TGGG TGGG TGGG TGGG TG
1 TGGG TGGG TGGG TGGG TGGG TGGG TGGG TG
13818316 AGTGAGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.73, T:0.27
Consensus pattern (4 bp):
TGGG
Found at i:13819484 original size:6 final size:6
Alignment explanation
Indices: 13819472--13819523 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
13819462 TCCGTATACC
* *
13819472 CCATTG GCATTG GCATTG CCATTG CCATTG CCATTG CCATTG CCATTG
1 CCATTG CCATTG CCATTG CCATTG CCATTG CCATTG CCATTG CCATTG
13819520 CCAT
1 CCAT
13819524 AGGCTTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (6 bp):
CCATTG
Found at i:13820068 original size:6 final size:6
Alignment explanation
Indices: 13820059--13820086 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13820049 ACTCTGGTTC
13820059 TGGCTG TGGCTG TGGCTG TGGCTG TGGC
1 TGGCTG TGGCTG TGGCTG TGGCTG TGGC
13820087 AGTGACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.50, T:0.32
Consensus pattern (6 bp):
TGGCTG
Found at i:13822943 original size:8 final size:8
Alignment explanation
Indices: 13822928--13822961 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
13822918 TATTATTTCG
13822928 TAAT-TTT
1 TAATATTT
13822935 TAATATTT
1 TAATATTT
13822943 TAATATTT
1 TAATATTT
*
13822951 TAATAATT
1 TAATATTT
13822959 TAA
1 TAA
13822962 CCATTATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TAATATTT
Found at i:13838762 original size:33 final size:33
Alignment explanation
Indices: 13838725--13838788 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
13838715 GTTTTAAAAA
*
13838725 TATAAATTCTAAAT-GATTTTATGGTTTTTTTTT
1 TATAAATTCTAAATAGATTTTA-GATTTTTTTTT
* * *
13838758 TATAATTTTTAAATATATTTTAGATTTTTTT
1 TATAAATTCTAAATAGATTTTAGATTTTTTT
13838789 ATAAATTTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 20 0.77
34 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (33 bp):
TATAAATTCTAAATAGATTTTAGATTTTTTTTT
Found at i:13838838 original size:20 final size:19
Alignment explanation
Indices: 13838754--13838841 Score: 79
Period size: 20 Copynumber: 4.5 Consensus size: 19
13838744 TATGGTTTTT
*
13838754 TTTTTATAATTTTTAAATA
1 TTTTTATAATTTTTATATA
* * *
13838773 TATTTTAGATTTTTTTATAAA
1 T-TTTTATA-ATTTTTATATA
* *
13838794 TTTCCTATAACTTTTATAT-
1 TTT-TTATAATTTTTATATA
13838813 TTTTTATAATATTTTATATA
1 TTTTTATAAT-TTTTATATA
13838833 TTTTTATAA
1 TTTTTATAA
13838842 GGCTAATTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.09
19 12 0.23
20 24 0.45
21 12 0.23
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTTATAATTTTTATATA
Found at i:13839594 original size:50 final size:51
Alignment explanation
Indices: 13839539--13839639 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 51
13839529 TTGTTTTTAT
*
13839539 AAATAAAAGAGTTATTAATTAAAAAGACGAATTAAAAA-TAAAAAACTTAA
1 AAATAAAAGAGTTATTAATTAAAAAGACGAATTAAAAACAAAAAAACTTAA
* * * * * **
13839589 AAATAATATATTTATTAATTATAAATATTAATTAAAAACAAAAAAACTTAA
1 AAATAAAAGAGTTATTAATTAAAAAGACGAATTAAAAACAAAAAAACTTAA
13839640 GAGCAAATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
50 31 0.74
51 11 0.26
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (51 bp):
AAATAAAAGAGTTATTAATTAAAAAGACGAATTAAAAACAAAAAAACTTAA
Found at i:13840072 original size:25 final size:26
Alignment explanation
Indices: 13840043--13840096 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
13840033 ATATTTTAAT
*
13840043 TTTTACATTTTCAAAAT-TATATATA
1 TTTTACATTTTCAAAATATACATATA
* * *
13840068 TTTTAGATTTTTAATATATACATATA
1 TTTTACATTTTCAAAATATACATATA
13840094 TTT
1 TTT
13840097 AAAATCTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTACATTTTCAAAATATACATATA
Found at i:13840512 original size:16 final size:16
Alignment explanation
Indices: 13840491--13840521 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13840481 TTAATTTTTA
13840491 TTTTAAAATTTTATTG
1 TTTTAAAATTTTATTG
*
13840507 TTTTAAATTTTTATT
1 TTTTAAAATTTTATT
13840522 TAAAAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTAAAATTTTATTG
Found at i:13859580 original size:27 final size:27
Alignment explanation
Indices: 13859509--13859582 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
13859499 ACACGTCATG
* * * *
13859509 AAAGAATAACCTTTGTGACGAACTTTG
1 AAAGAATAGCCTTTGTGGCGAACTCTA
*
13859536 AAAGAAAAGCCTTTGTGGCGAACTCTA
1 AAAGAATAGCCTTTGTGGCGAACTCTA
13859563 AAAGAATAGCCTTTGTGGCG
1 AAAGAATAGCCTTTGTGGCG
13859583 TGTCTTAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAGAATAGCCTTTGTGGCGAACTCTA
Found at i:13860383 original size:2 final size:2
Alignment explanation
Indices: 13860376--13860400 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13860366 CTTACTTATT
13860376 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
13860401 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13861252 original size:3 final size:3
Alignment explanation
Indices: 13861246--13861283 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
13861236 ATAAGGTTTT
*
13861246 TTG TTG TTG TTG TTT TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
13861284 CAGGTTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:13865796 original size:184 final size:184
Alignment explanation
Indices: 13865487--13866410 Score: 1848
Period size: 184 Copynumber: 5.0 Consensus size: 184
13865477 CATCTCCACC
13865487 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
1 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
13865552 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
66 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
13865617 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
131 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
13865671 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
1 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
13865736 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
66 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
13865801 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
131 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
13865855 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
1 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
13865920 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
66 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
13865985 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
131 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
13866039 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
1 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
13866104 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
66 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
13866169 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
131 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
13866223 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
1 CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
13866288 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
66 AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
13866353 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
131 CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
13866407 CTTG
1 CTTG
13866411 GCTATCTGGT
Statistics
Matches: 740, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 740 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (184 bp):
CTTGAAATATTAAGTTACTTAAGAAACTAAATTTGTTACCAACATCAGGCTCTAGGACTCAAAGA
AAGAGTAATATCTTGGAAGACCTTAAGCCTCTTATCAGTTTTCTTTGGAAACATCCTTTGAGTCA
CTGCTTCGTTTGCTGGGCCTAGAACTGCTGCTGCAATGATAGCCTCATCAAAGT
Found at i:13868411 original size:16 final size:16
Alignment explanation
Indices: 13868378--13868419 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13868368 AAATAATTTT
* *
13868378 AATAAAAATATGGGAAA
1 AATAAAAA-ATAGCAAA
13868395 AATAAAAAATAGCAAA
1 AATAAAAAATAGCAAA
13868411 AA-AAAAAAT
1 AATAAAAAAT
13868420 TAAGAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 7 0.30
16 8 0.35
17 8 0.35
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (16 bp):
AATAAAAAATAGCAAA
Found at i:13874044 original size:31 final size:31
Alignment explanation
Indices: 13874004--13874074 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
13873994 AAAATTTTAA
* * * *
13874004 AATTAAAAAAATATAAAGATTAAAATTGACC
1 AATTTAAAAAATACAAAAACTAAAATTGACC
* *
13874035 AATTTAAAAAGTACAAAAACTAAAATTGATC
1 AATTTAAAAAATACAAAAACTAAAATTGACC
*
13874066 AAATTAAAA
1 AATTTAAAA
13874075 TAAAGGACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.62, C:0.07, G:0.06, T:0.25
Consensus pattern (31 bp):
AATTTAAAAAATACAAAAACTAAAATTGACC
Found at i:13884316 original size:18 final size:18
Alignment explanation
Indices: 13884279--13884314 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13884269 TCATGTAAAA
13884279 AAATTAAAATAAAATTTT
1 AAATTAAAATAAAATTTT
*
13884297 AAATATAAAATAATATTT
1 AAAT-TAAAATAAAATTT
13884315 AATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTAAAATAAAATTTT
Found at i:13893041 original size:16 final size:16
Alignment explanation
Indices: 13893022--13893056 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
13893012 TCATACATTC
13893022 ATACATACATATATAT
1 ATACATACATATATAT
13893038 ATACATACATATATAT
1 ATACATACATATATAT
13893054 ATA
1 ATA
13893057 TAAACGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
ATACATACATATATAT
Found at i:13893046 original size:20 final size:20
Alignment explanation
Indices: 13893021--13893058 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13893011 TTCATACATT
13893021 CATACATACATATATATATA
1 CATACATACATATATATATA
*
13893041 CATACATATATATATATA
1 CATACATACATATATATA
13893059 AACGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (20 bp):
CATACATACATATATATATA
Found at i:13904470 original size:18 final size:18
Alignment explanation
Indices: 13904440--13904474 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13904430 AATAAAAAAT
13904440 ATCTCATTTTCATAATTA
1 ATCTCATTTTCATAATTA
13904458 ATCT-ATTTCTCATAATT
1 ATCTCATTT-TCATAATT
13904475 TTTTGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.51
Consensus pattern (18 bp):
ATCTCATTTTCATAATTA
Found at i:13907380 original size:20 final size:21
Alignment explanation
Indices: 13907347--13907385 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13907337 TTGAATTAAT
*
13907347 TTTTTATTTGAAAAAAAACAC
1 TTTTTATTTAAAAAAAAACAC
13907368 TTTTT-TTTAAAAAAAAAC
1 TTTTTATTTAAAAAAAAAC
13907386 TTGTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (21 bp):
TTTTTATTTAAAAAAAAACAC
Found at i:13913667 original size:35 final size:34
Alignment explanation
Indices: 13913628--13913706 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
13913618 AATTTGATTA
* * *
13913628 AATTTAATTTATGTATTTTTGA-ATTGATAAATTTT
1 AATTTTATTTATAT-TTTTTAAGATTGA-AAATTTT
* *
13913663 AATTTTTTTTATATTTTTTAAGATTTAAAATTTT
1 AATTTTATTTATATTTTTTAAGATTGAAAATTTT
13913697 AATTTTATTT
1 AATTTTATTT
13913707 TAACTTAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 22 0.59
35 15 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (34 bp):
AATTTTATTTATATTTTTTAAGATTGAAAATTTT
Found at i:13926317 original size:15 final size:16
Alignment explanation
Indices: 13926285--13926333 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
13926275 AAATTTGGTG
* * *
13926285 TTTTATTTTTCATAAT
1 TTTTATATTTAATTAT
13926301 TTTTATATTT-ATTAT
1 TTTTATATTTAATTAT
13926316 TTTTA-ATTTAATT-T
1 TTTTATATTTAATTAT
13926330 TTTT
1 TTTT
13926334 CTCATTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 9 0.30
15 12 0.40
16 9 0.30
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATATTTAATTAT
Found at i:13926332 original size:14 final size:15
Alignment explanation
Indices: 13926285--13926351 Score: 50
Period size: 16 Copynumber: 4.4 Consensus size: 15
13926275 AAATTTGGTG
* *
13926285 TTTTATTTTTCATAAT
1 TTTTATATTT-ATTAT
13926301 TTTTATATTTATTAT
1 TTTTATATTTATTAT
13926316 TTTTA-ATTTAATT-T
1 TTTTATATTT-ATTAT
*
13926330 TTTTCTCATTTA-TACT
1 TTTTAT-ATTTATTA-T
13926346 TTTTAT
1 TTTTAT
13926352 TTAAATTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 10 0.24
15 13 0.31
16 19 0.45
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTATATTTATTAT
Found at i:13936133 original size:99 final size:99
Alignment explanation
Indices: 13935958--13936155 Score: 342
Period size: 99 Copynumber: 2.0 Consensus size: 99
13935948 TTCCTAAGAA
* *
13935958 ATGAGATTGAAATAGAGAACCTTGAAGGGTTTAGAGAGTGATGGAAGAAGAAGAAGTCATCGTTT
1 ATGAGATTAAAATAGAGAACCTTGAAGGGTTGAGAGAGTGATGGAAGAAGAAGAAGTCATCGTTT
13936023 GATTCAAAATCCAAGTGGAGAAGTAGCCATGGTT
66 GATTCAAAATCCAAGTGGAGAAGTAGCCATGGTT
* *
13936057 ATGAGATTAAAATAGAGAACCTTGAAGGGTTGGGAGAGTGATGGAAGAAGAAGAAGTCATGGTTT
1 ATGAGATTAAAATAGAGAACCTTGAAGGGTTGAGAGAGTGATGGAAGAAGAAGAAGTCATCGTTT
* *
13936122 GGTTCAGAATCCAAGTGGAGAAGTAGCCATGGTT
66 GATTCAAAATCCAAGTGGAGAAGTAGCCATGGTT
13936156 TGGTTCAAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (99 bp):
ATGAGATTAAAATAGAGAACCTTGAAGGGTTGAGAGAGTGATGGAAGAAGAAGAAGTCATCGTTT
GATTCAAAATCCAAGTGGAGAAGTAGCCATGGTT
Found at i:13936265 original size:17 final size:17
Alignment explanation
Indices: 13936240--13936293 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
13936230 TTAGATGGAA
*
13936240 AAATGGGGAAGAAGATG
1 AAATTGGGAAGAAGATG
13936257 AAATTGGGAAAGAA-AT-
1 AAATTGGG-AAGAAGATG
13936273 -AA-TGGAGAAGAAGATG
1 AAATTGG-GAAGAAGATG
13936289 AAATT
1 AAATT
13936294 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 11
0.71 0.02 0.26
Matches are distributed among these distances:
14 8 0.27
15 5 0.17
17 11 0.37
18 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (17 bp):
AAATTGGGAAGAAGATG
Found at i:13936327 original size:19 final size:21
Alignment explanation
Indices: 13936299--13936391 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 21
13936289 AAATTAAAAA
13936299 TTAAAATTA-TTT-AATAATT
1 TTAAAATTATTTTAAATAATT
*
13936318 TTAAATTTATTTTAGAATAATT
1 TTAAAATTATTTTA-AATAATT
* * *
13936340 TT--AATAATTTTATAT-TTT
1 TTAAAATTATTTTAAATAATT
*
13936358 TTAAAAAATAATTTT-AATAATT
1 TT--AAAATTATTTTAAATAATT
13936380 TTAAAATTATTT
1 TTAAAATTATTT
13936392 GTTGATGTGG
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
18 4 0.07
19 10 0.17
20 20 0.34
21 2 0.03
22 22 0.38
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTAAAATTATTTTAAATAATT
Found at i:13936343 original size:31 final size:32
Alignment explanation
Indices: 13936308--13936391 Score: 118
Period size: 31 Copynumber: 2.7 Consensus size: 32
13936298 ATTAAAATTA
* *
13936308 TTTAATAATTTTAAATTTATTT-TAGAATAAT
1 TTTAATAATTTTAAATTTATTTAAAAAATAAT
*
13936339 TTTAATAATTTTATATTT-TTTAAAAAATAAT
1 TTTAATAATTTTAAATTTATTTAAAAAATAAT
*
13936370 TTTAATAATTTTAAAATTATTT
1 TTTAATAATTTTAAATTTATTT
13936392 GTTGATGTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.07
31 40 0.87
32 3 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (32 bp):
TTTAATAATTTTAAATTTATTTAAAAAATAAT
Found at i:13941395 original size:21 final size:21
Alignment explanation
Indices: 13941370--13941409 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13941360 TTGGAACCTA
*
13941370 TGTTATTTTTTGGTCCAATCT
1 TGTTAGTTTTTGGTCCAATCT
13941391 TGTTAGTTTTTGGTCCAAT
1 TGTTAGTTTTTGGTCCAAT
13941410 ATGGTACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.17, T:0.55
Consensus pattern (21 bp):
TGTTAGTTTTTGGTCCAATCT
Found at i:13943230 original size:21 final size:20
Alignment explanation
Indices: 13943206--13943265 Score: 57
Period size: 25 Copynumber: 2.7 Consensus size: 20
13943196 GAGTATACAT
13943206 ATTTTTTAAAATTTATTTTCA
1 ATTTTTTAAAATTTATTTT-A
13943227 ATTTTTTGAGAAATATTTATTTTA
1 ATTTTTT---AAA-ATTTATTTTA
*
13943251 ATATTTTTAATATTT
1 AT-TTTTTAAAATTT
13943266 TTAATGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
21 11 0.33
22 2 0.06
24 6 0.18
25 14 0.42
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTTTAAAATTTATTTTA
Found at i:13943260 original size:9 final size:9
Alignment explanation
Indices: 13943246--13943270 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13943236 GAAATATTTA
13943246 TTTTAATAT
1 TTTTAATAT
13943255 TTTTAATAT
1 TTTTAATAT
13943264 TTTTAAT
1 TTTTAAT
13943271 GTAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAATAT
Found at i:13943301 original size:11 final size:11
Alignment explanation
Indices: 13943285--13943335 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
13943275 TATATATATT
13943285 TAAAAATTATA
1 TAAAAATTATA
*
13943296 TAAAAA-TATTT
1 TAAAAATTA-TA
13943307 TCAAAAATTATA
1 T-AAAAATTATA
*
13943319 TAAAAATAATA
1 TAAAAATTATA
13943330 TAAAAA
1 TAAAAA
13943336 ATTTAATACG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 2 0.06
11 23 0.68
12 7 0.21
13 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:13943312 original size:23 final size:23
Alignment explanation
Indices: 13943278--13943335 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
13943268 AATGTAATAT
13943278 ATATATTTAAAAATTATATAAAA
1 ATATATTTAAAAATTATATAAAA
13943301 ATAT-TTTCAAAAATTATATAAAA
1 ATATATTT-AAAAATTATATAAAA
*
13943324 ATA-ATATAAAAA
1 ATATATTTAAAAA
13943336 ATTTAATACG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
ATATATTTAAAAATTATATAAAA
Found at i:13951022 original size:2 final size:2
Alignment explanation
Indices: 13951015--13951042 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13951005 ATAATGATGA
13951015 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13951043 GCATGTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13952500 original size:3 final size:3
Alignment explanation
Indices: 13952492--13952522 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13952482 GATCGATTGT
13952492 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13952523 GGGATATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13959248 original size:2 final size:2
Alignment explanation
Indices: 13959241--13959268 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13959231 CTTTAGTAGC
13959241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13959269 GAAGTGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13963672 original size:38 final size:40
Alignment explanation
Indices: 13963604--13963682 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
13963594 AAATTTTAGG
*
13963604 AGATTAAAATTAAATTATTTATACTCTTAAGA-ATTTAAA
1 AGATTAAAATTAAATTATTTATACTCTTAAGAGAATTAAA
* *
13963643 AGATT-AAATTAAA-TATTTATTATTTTTAAGAGAATTAAA
1 AGATTAAAATTAAATTATTTA-TACTCTTAAGAGAATTAAA
13963682 A
1 A
13963683 TGTAATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 6 0.17
38 17 0.49
39 12 0.34
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (40 bp):
AGATTAAAATTAAATTATTTATACTCTTAAGAGAATTAAA
Found at i:13975407 original size:26 final size:26
Alignment explanation
Indices: 13975371--13975435 Score: 112
Period size: 26 Copynumber: 2.4 Consensus size: 26
13975361 TGTTATCATC
13975371 AGAGAAAAGAAAGCAGAATAGAACAA
1 AGAGAAAAGAAAGCAGAATAGAACAA
13975397 AGAGAAAAGAAAGCAGAATAGAACAA
1 AGAGAAAAGAAAGCAGAATAGAACAA
13975423 AGAAGAAGAAGAA
1 AG-AGAA-AAGAA
13975436 GAAATGGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 28 0.76
27 4 0.11
28 5 0.14
ACGTcount: A:0.66, C:0.06, G:0.25, T:0.03
Consensus pattern (26 bp):
AGAGAAAAGAAAGCAGAATAGAACAA
Found at i:13981091 original size:5 final size:6
Alignment explanation
Indices: 13981073--13981098 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13981063 TAAAGATTTA
13981073 TTGTTT TTGTTT TTGTTT TTGTTT TT
1 TTGTTT TTGTTT TTGTTT TTGTTT TT
13981099 AACTCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTGTTT
Found at i:13982901 original size:21 final size:22
Alignment explanation
Indices: 13982867--13982918 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
13982857 TAGTAATTGT
*
13982867 TAAT-TTTTTGTTTTA-TTTAA
1 TAATATTTTTATTTTATTTTAA
13982887 TAATATTTTTATTTTATTTTAA
1 TAATATTTTTATTTTATTTTAA
*
13982909 TTA-ATTTTTA
1 TAATATTTTTA
13982919 ACAGAGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 17 0.61
22 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TAATATTTTTATTTTATTTTAA
Found at i:13985966 original size:52 final size:53
Alignment explanation
Indices: 13985885--13986014 Score: 183
Period size: 53 Copynumber: 2.5 Consensus size: 53
13985875 AAAGGGGTCT
* *
13985885 GATGACTAAGTGTCATCGTGAGTAAATG-AATCCTTTACGGA-TTATGAGGCCC
1 GATGACTAAGTGTCATCGTGAGTATATGAAATCCTTTACGGATTTA-AAGGCCC
* *
13985937 GATGACTAAGTGTCATCGTGAGTATATGAAATCCTTTATGGATTTAAAGGTCC
1 GATGACTAAGTGTCATCGTGAGTATATGAAATCCTTTACGGATTTAAAGGCCC
**
13985990 GATGACTCTGTGTCATCGTGAGTAT
1 GATGACTAAGTGTCATCGTGAGTAT
13986015 TAAATGAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
52 27 0.39
53 40 0.57
54 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (53 bp):
GATGACTAAGTGTCATCGTGAGTATATGAAATCCTTTACGGATTTAAAGGCCC
Found at i:13988013 original size:23 final size:23
Alignment explanation
Indices: 13987982--13988034 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
13987972 AAAATAATTA
*
13987982 TTAAACTATTCGAAAATTCTTAT
1 TTAAACTATTAGAAAATTCTTAT
* * *
13988005 TTAAGCTATTAGAAAGTTTTTAT
1 TTAAACTATTAGAAAATTCTTAT
*
13988028 TTTAACT
1 TTAAACT
13988035 CATTGGACTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (23 bp):
TTAAACTATTAGAAAATTCTTAT
Found at i:13988963 original size:22 final size:22
Alignment explanation
Indices: 13988935--13989038 Score: 64
Period size: 22 Copynumber: 5.0 Consensus size: 22
13988925 CAGCAAATGA
13988935 TTTTAAAATTATTAAAATTATT
1 TTTTAAAATTATTAAAATTATT
13988957 TTTTAAAA-TA-T-AAA--A-T
1 TTTTAAAATTATTAAAATTATT
* *
13988973 TGTTAAAATTATTTTTAAA-T-TT
1 TTTTAAAATTA--TTAAAATTATT
* *
13988995 ATTTAAAATTATTAAATTTATTT
1 TTTTAAAATTATTAAAATTA-TT
* *
13989018 TTTTGAAA-TAATAAAATTATT
1 TTTTAAAATTATTAAAATTATT
13989039 AAATAATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 21
0.68 0.10 0.23
Matches are distributed among these distances:
16 8 0.13
17 3 0.05
19 3 0.05
20 6 0.10
21 8 0.13
22 27 0.43
23 8 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTAAAATTATTAAAATTATT
Found at i:13989026 original size:23 final size:23
Alignment explanation
Indices: 13988991--13989035 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13988981 TTATTTTTAA
* *
13988991 ATTTATTTAAAATTATTAAATTT
1 ATTTATTTAAAATAATAAAATTT
* *
13989014 ATTTTTTTGAAATAATAAAATT
1 ATTTATTTAAAATAATAAAATT
13989036 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTATTTAAAATAATAAAATTT
Found at i:13989042 original size:31 final size:29
Alignment explanation
Indices: 13988938--13989041 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 29
13988928 CAAATGATTT
13988938 TAAAATTATTAAAATTATTTTTTAAA-ATA
1 TAAAATTATTAAAATTATTTTTTAAATA-A
* *
13988967 TAAAATTGTTAAAATTA-TTTTTAAATTTATT
1 TAAAATTATTAAAATTATTTTTTAAA--TA-A
*
13988998 TAAAATTATTAAATTTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTA-TTTTTT-AAATAA
13989029 TAAAATTATTAAA
1 TAAAATTATTAAA
13989042 TAATTTTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.12
29 16 0.25
31 30 0.47
32 2 0.03
33 5 0.08
34 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTTTTTAAATAA
Found at i:13989049 original size:60 final size:60
Alignment explanation
Indices: 13988936--13989050 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
13988926 AGCAAATGAT
* *
13988936 TTTAAAATTATTAAAATTATTTTTTAAAATATAAAATTGTTAAAATTATTTTTAAATTTA
1 TTTAAAATTATTAAAATTATTTTTTAAAATATAAAATTATTAAAATTAATTTTAAATTTA
* *
13988996 TTTAAAATTATTAAATTTATTTTTTTGAAATAATAAAATTATT-AAA-TAATTTTAA
1 TTTAAAATTATTAAAATTA-TTTTTTAAAAT-ATAAAATTATTAAAATTAATTTTAA
13989051 TTTTCAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 26 0.53
61 13 0.27
62 10 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (60 bp):
TTTAAAATTATTAAAATTATTTTTTAAAATATAAAATTATTAAAATTAATTTTAAATTTA
Found at i:13990128 original size:28 final size:30
Alignment explanation
Indices: 13990077--13990145 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 30
13990067 ATTGGAAATT
*
13990077 AAAATTATTTAATAATTTTATTAT-TTCAAAA
1 AAAATAATTTAATAA-TTTATTATATT-AAAA
**
13990108 AAAATAATTTAATAA-TT-TTATATTTTAA
1 AAAATAATTTAATAATTTATTATATTAAAA
13990136 AAAATAATTT
1 AAAATAATTT
13990146 TAAAATCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 16 0.47
29 4 0.12
31 14 0.41
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
AAAATAATTTAATAATTTATTATATTAAAA
Found at i:13990138 original size:30 final size:31
Alignment explanation
Indices: 13990077--13990139 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13990067 ATTGGAAATT
*
13990077 AAAATTATTTAATAATTTTATTATTTCAAAA
1 AAAATAATTTAATAATTTTATTATTTCAAAA
*
13990108 AAAATAATTTAATAATTTTA-TATTTTAAAA
1 AAAATAATTTAATAATTTTATTATTTCAAAA
13990138 AA
1 AA
13990140 TAATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
AAAATAATTTAATAATTTTATTATTTCAAAA
Found at i:13995620 original size:23 final size:23
Alignment explanation
Indices: 13995594--13995639 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
13995584 CAAACACTTT
*
13995594 TAAATAAACAATTAATAGAATCA
1 TAAAAAAACAATTAATAGAATCA
*
13995617 TAAAAAAATAATTAATAGAATCA
1 TAAAAAAACAATTAATAGAATCA
13995640 GTTGGTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAAAAACAATTAATAGAATCA
Found at i:13996727 original size:11 final size:11
Alignment explanation
Indices: 13996711--13996739 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
13996701 GTTGGGTTGG
13996711 GTTTTGGATGA
1 GTTTTGGATGA
13996722 GTTTTGGATGA
1 GTTTTGGATGA
13996733 GTTTTGG
1 GTTTTGG
13996740 GTATTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (11 bp):
GTTTTGGATGA
Found at i:13999510 original size:38 final size:37
Alignment explanation
Indices: 13999446--13999529 Score: 107
Period size: 38 Copynumber: 2.3 Consensus size: 37
13999436 TTTTTTATTT
13999446 TATATTA-TTTCAATTTTTTTATTTTTAATTAATAAA
1 TATATTATTTTCAATTTTTTTATTTTTAATTAATAAA
* * * *
13999482 TATATTATTTTTAAGTTTTTTTATTTTTAGTTGATAAC
1 TATATTATTTTCAA-TTTTTTTATTTTTAATTAATAAA
*
13999520 TTTATTATTT
1 TATATTATTT
13999530 ATAAAATCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 7 0.17
37 5 0.12
38 29 0.71
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (37 bp):
TATATTATTTTCAATTTTTTTATTTTTAATTAATAAA
Found at i:14000591 original size:18 final size:19
Alignment explanation
Indices: 14000570--14000611 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
14000560 TTTTTTCTAT
14000570 TTTTCCTATATTTT-TAAG
1 TTTTCCTATATTTTCTAAG
** *
14000588 TTTTTTTTTATTTTCTAAG
1 TTTTCCTATATTTTCTAAG
14000607 TTTTC
1 TTTTC
14000612 AACCAATCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTCCTATATTTTCTAAG
Found at i:14000591 original size:19 final size:19
Alignment explanation
Indices: 14000569--14000610 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
14000559 ATTTTTTCTA
14000569 TTTTTCCTATATTTT-TAAG
1 TTTTT-CTATATTTTCTAAG
* *
14000588 TTTTTTTTTATTTTCTAAG
1 TTTTTCTATATTTTCTAAG
14000607 TTTT
1 TTTT
14000611 CAACCAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTCTATATTTTCTAAG
Found at i:14004840 original size:26 final size:24
Alignment explanation
Indices: 14004789--14004848 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 24
14004779 TTAGGTTGAA
14004789 TTATTTTAGATAAATTCAAATAATTT
1 TTATTTT--ATAAATTCAAATAATTT
*
14004815 TAGTATTTTATAAATTATAAAT-ATTT
1 T--TATTTTATAAATT-CAAATAATTT
14004841 TTATTTTA
1 TTATTTTA
14004849 AACTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
24 7 0.23
26 13 0.43
27 4 0.13
28 6 0.20
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (24 bp):
TTATTTTATAAATTCAAATAATTT
Found at i:14005252 original size:91 final size:91
Alignment explanation
Indices: 14004945--14005220 Score: 552
Period size: 91 Copynumber: 3.0 Consensus size: 91
14004935 TACTAAAAAA
14004945 ATAATTTTTTAGTTGAATGTTGTAATTTTAATTTAAAAAACTATTTTGTCAAGATTCAATCTATT
1 ATAATTTTTTAGTTGAATGTTGTAATTTTAATTTAAAAAACTATTTTGTCAAGATTCAATCTATT
14005010 AGATTATTTACATTTTCCATTTAAAT
66 AGATTATTTACATTTTCCATTTAAAT
14005036 ATAATTTTTTAGTTGAATGTTGTAATTTTAATTTAAAAAACTATTTTGTCAAGATTCAATCTATT
1 ATAATTTTTTAGTTGAATGTTGTAATTTTAATTTAAAAAACTATTTTGTCAAGATTCAATCTATT
14005101 AGATTATTTACATTTTCCATTTAAAT
66 AGATTATTTACATTTTCCATTTAAAT
14005127 ATAATTTTTTAGTTGAATGTTGTAATTTTAATTTAAAAAACTATTTTGTCAAGATTCAATCTATT
1 ATAATTTTTTAGTTGAATGTTGTAATTTTAATTTAAAAAACTATTTTGTCAAGATTCAATCTATT
14005192 AGATTATTTACATTTTCCATTTAAAT
66 AGATTATTTACATTTTCCATTTAAAT
14005218 ATA
1 ATA
14005221 TATGATGAAT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 185 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (91 bp):
ATAATTTTTTAGTTGAATGTTGTAATTTTAATTTAAAAAACTATTTTGTCAAGATTCAATCTATT
AGATTATTTACATTTTCCATTTAAAT
Found at i:14006621 original size:308 final size:308
Alignment explanation
Indices: 14006063--14006988 Score: 1825
Period size: 308 Copynumber: 3.0 Consensus size: 308
14006053 GTTCTGGTGA
14006063 GGCTTTGTTAAGGGGTCAAGTCAAGACTCTGTTGCAGAAGGTTGAAGAGGAGGCTGAGGTTTCAA
1 GGCTTTGTTAAGGGGTCAAGTCAAGACTCTGTTGCAGAAGGTTGAAGAGGAGGCTGAGGTTTCAA
14006128 AAGTTCCATTGGAGAGCCGTCCTTTTGTTCATCTTCAATCCCCAATGGCACTTGTGGCCCCCACT
66 AAGTTCCATTGGAGAGCCGTCCTTTTGTTCATCTTCAATCCCCAATGGCACTTGTGGCCCCCACT
14006193 CCTGCAAATACACCCGAGGTCTCTGATCTTTCTGAGGAGTTGACATTGGGTTCAATGTTGATGGA
131 CCTGCAAATACACCCGAGGTCTCTGATCTTTCTGAGGAGTTGACATTGGGTTCAATGTTGATGGA
14006258 TTTTCCTGTTGTCGAAGAAGAGTTGGACATATCTGAGGTTAGTTTTTTTACTCCCCCATTGCATG
196 TTTTCCTGTTGTCGAAGAAGAGTTGGACATATCTGAGGTTAGTTTTTTTACTCCCCCATTGCATG
14006323 ATGTCTTTTTTATTTCGTGATTGAATTACTGGACTTAACAAATACTTT
261 ATGTCTTTTTTATTTCGTGATTGAATTACTGGACTTAACAAATACTTT
14006371 GGCTTTGTTAAGGGGTCAAGTCAAGACTCTGTTGCAGAAGGTTGAAGAGGAGGCTGAGGTTTCAA
1 GGCTTTGTTAAGGGGTCAAGTCAAGACTCTGTTGCAGAAGGTTGAAGAGGAGGCTGAGGTTTCAA
14006436 AAGTTCCATTGGAGAGCCGTCCTTTTGTTCATCTTCAATCCCCAATGGCACTTGTGGCCCCCACT
66 AAGTTCCATTGGAGAGCCGTCCTTTTGTTCATCTTCAATCCCCAATGGCACTTGTGGCCCCCACT
14006501 CCTGCAAATACACCCGAGGTCTCTGATCTTTCTGAGGAGTTGACATTGGGTTCAATGTTGATGGA
131 CCTGCAAATACACCCGAGGTCTCTGATCTTTCTGAGGAGTTGACATTGGGTTCAATGTTGATGGA
14006566 TTTTCCTGTTGTCGAAGAAGAGTTGGACATATCTGAGGTTAGTTTTTTTACTCCCCCATTGCATG
196 TTTTCCTGTTGTCGAAGAAGAGTTGGACATATCTGAGGTTAGTTTTTTTACTCCCCCATTGCATG
14006631 ATGTCTTTTTTATTTCGTGATTGAATTACTGGACTTAACAAATACTTT
261 ATGTCTTTTTTATTTCGTGATTGAATTACTGGACTTAACAAATACTTT
14006679 GGCTTTGTTAAGGGGTCAAGTCAAGACTCTGTTGCAGAAGGTTGAAGAGGAGGCTGAGGTTTCAA
1 GGCTTTGTTAAGGGGTCAAGTCAAGACTCTGTTGCAGAAGGTTGAAGAGGAGGCTGAGGTTTCAA
14006744 AAGTTCCATTGGAGAGCCGTCCTTTTGTTCATCTTCAATCCCCAATGGCACTTGTGGCCCCCACT
66 AAGTTCCATTGGAGAGCCGTCCTTTTGTTCATCTTCAATCCCCAATGGCACTTGTGGCCCCCACT
*
14006809 CCTGCAAATACACCCGAGGTCTCTGATCTTTCTGAGGAGTTAACATTGGGTTCAATGTTGATGGA
131 CCTGCAAATACACCCGAGGTCTCTGATCTTTCTGAGGAGTTGACATTGGGTTCAATGTTGATGGA
* *
14006874 TTTTCCTGTTGTCGAAGAAGAGTTGAACATATCTGAGGTCAGTTTTTTTACTCCCCCATTGCATG
196 TTTTCCTGTTGTCGAAGAAGAGTTGGACATATCTGAGGTTAGTTTTTTTACTCCCCCATTGCATG
14006939 ATGTCTTTTTTATTTCGTGATTGAATTACTGGACTTAACAAATACTTT
261 ATGTCTTTTTTATTTCGTGATTGAATTACTGGACTTAACAAATACTTT
14006987 GG
1 GG
14006989 TATGTAATAC
Statistics
Matches: 615, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
308 615 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (308 bp):
GGCTTTGTTAAGGGGTCAAGTCAAGACTCTGTTGCAGAAGGTTGAAGAGGAGGCTGAGGTTTCAA
AAGTTCCATTGGAGAGCCGTCCTTTTGTTCATCTTCAATCCCCAATGGCACTTGTGGCCCCCACT
CCTGCAAATACACCCGAGGTCTCTGATCTTTCTGAGGAGTTGACATTGGGTTCAATGTTGATGGA
TTTTCCTGTTGTCGAAGAAGAGTTGGACATATCTGAGGTTAGTTTTTTTACTCCCCCATTGCATG
ATGTCTTTTTTATTTCGTGATTGAATTACTGGACTTAACAAATACTTT
Found at i:14009758 original size:27 final size:27
Alignment explanation
Indices: 14009711--14009774 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
14009701 AAATATTCTC
* *
14009711 TAAATTAAT-AAATATTAATTTTTCGA
1 TAAATTAATAAAATACTAATTTATCGA
*
14009737 TAAATTAATAAAATACTCATTTATCGA
1 TAAATTAATAAAATACTAATTTATCGA
*
14009764 TAAACTAATAA
1 TAAATTAATAA
14009775 CCTCGATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (27 bp):
TAAATTAATAAAATACTAATTTATCGA
Found at i:14011610 original size:13 final size:13
Alignment explanation
Indices: 14011592--14011697 Score: 56
Period size: 13 Copynumber: 8.1 Consensus size: 13
14011582 TCTATATCCT
*
14011592 TATAAATATTTCA
1 TATAAACATTTCA
14011605 TATAAACATTTCA
1 TATAAACATTTCA
*
14011618 -AGTAACCATTTCA
1 TA-TAAACATTTCA
* *
14011631 TAT-ATCTATTCCCA
1 TATAAAC-ATT-TCA
* * *
14011645 AATAAGCATTTCG
1 TATAAACATTTCA
* *
14011658 TATAACCATTTCT
1 TATAAACATTTCA
14011671 TAT-AACATATTCA
1 TATAAACAT-TTCA
* *
14011684 TTTAAATATTTCA
1 TATAAACATTTCA
14011697 T
1 T
14011698 TCTTACCATT
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
12 7 0.10
13 50 0.70
14 12 0.17
15 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.42
Consensus pattern (13 bp):
TATAAACATTTCA
Found at i:14012690 original size:19 final size:19
Alignment explanation
Indices: 14012667--14012712 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
14012657 GTTCAATTTT
14012667 TTTTTTAATAA-ATAATTA
1 TTTTTTAATAAGATAATTA
* * *
14012685 TATTTTAAAAAGATATTTA
1 TTTTTTAATAAGATAATTA
14012704 TTTTTTAAT
1 TTTTTTAAT
14012713 TGAATTAGGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTTAATAAGATAATTA
Found at i:14036731 original size:16 final size:16
Alignment explanation
Indices: 14036710--14036743 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14036700 AGCTAAATTT
14036710 TTTTTTTAAATATCTA
1 TTTTTTTAAATATCTA
* *
14036726 TTTTTTTTAATATTTA
1 TTTTTTTAAATATCTA
14036742 TT
1 TT
14036744 ACTATACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTTAAATATCTA
Found at i:14045691 original size:21 final size:20
Alignment explanation
Indices: 14045655--14045698 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
14045645 GAAAAAAGTG
14045655 TTTTTAATATTATATTAATT
1 TTTTTAATATTATATTAATT
*
14045675 TTTTTGAATGATT-TATTGATT
1 TTTTT-AAT-ATTATATTAATT
14045696 TTT
1 TTT
14045699 ATAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 13 0.62
22 3 0.14
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTTAATATTATATTAATT
Found at i:14047602 original size:2 final size:2
Alignment explanation
Indices: 14047595--14047619 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14047585 TAAATTTAAA
14047595 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14047620 CTTAAATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14047784 original size:32 final size:32
Alignment explanation
Indices: 14047748--14047830 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
14047738 CATAACAACG
* *
14047748 AAATAGTAGCAAAATAGTGAAAAACAA-CAAGA
1 AAATAGTAACAAAATAGT-AAAAAAAATCAAGA
* *
14047780 AAATAGTAACAAAACAATAAAAAAAATCAAGA
1 AAATAGTAACAAAATAGTAAAAAAAATCAAGA
*
14047812 AAATAGTAAAAAAATAGTA
1 AAATAGTAACAAAATAGTA
14047831 GTCATTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 7 0.16
32 36 0.84
ACGTcount: A:0.67, C:0.07, G:0.11, T:0.14
Consensus pattern (32 bp):
AAATAGTAACAAAATAGTAAAAAAAATCAAGA
Found at i:14051409 original size:2 final size:2
Alignment explanation
Indices: 14051402--14051429 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14051392 TCCTCCACCC
14051402 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14051430 AGTGAGAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14054541 original size:11 final size:11
Alignment explanation
Indices: 14054525--14054582 Score: 64
Period size: 11 Copynumber: 5.1 Consensus size: 11
14054515 GCCAAAACTC
14054525 ATTTTAAATTT
1 ATTTTAAATTT
14054536 ATTTTAAATTT
1 ATTTTAAATTT
*
14054547 AAATTT-AATTT
1 -ATTTTAAATTT
*
14054558 AAGTTTAAATTT
1 -ATTTTAAATTT
14054570 ATTTTCAAATTT
1 ATTTT-AAATTT
14054582 A
1 A
14054583 AAATAAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
11 25 0.61
12 16 0.39
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:14054547 original size:6 final size:6
Alignment explanation
Indices: 14054527--14054584 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
14054517 CAAAACTCAT
* * *
14054527 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTAAG TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
14054572 TTTCAAA TTTAAA
1 TTT-AAA TTTAAA
14054585 ATAAATAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 13 0.31
6 25 0.60
7 4 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:14054549 original size:17 final size:17
Alignment explanation
Indices: 14054527--14054584 Score: 89
Period size: 17 Copynumber: 3.4 Consensus size: 17
14054517 CAAAACTCAT
14054527 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
14054544 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
14054561 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
14054579 TTTAAA
1 TTTAAA
14054585 ATAAATAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:14054596 original size:34 final size:34
Alignment explanation
Indices: 14054527--14054596 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
14054517 CAAAACTCAT
* * *
14054527 TTTAAATTTATTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATATAAATAAAG
14054561 TTTAAATTTATTTTCAAATTTAAA-ATAAATAAAG
1 TTTAAATTTATTTT-AAATTTAAATATAAATAAAG
14054595 TT
1 TT
14054597 CAATTACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 23 0.72
35 9 0.28
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATATAAATAAAG
Done.