Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 103 of 210
Found at i:30063106 original size:15 final size:15
Alignment explanation
Indices: 30063058--30063106 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
30063048 ACTAGCCAAT
30063058 TATTAATTGAGCAAC
1 TATTAATTGAGCAAC
* * *
30063073 TATTGACT-AGCCAAT
1 TATTAATTGAG-CAAC
30063088 TATTAATTGAGCAAC
1 TATTAATTGAGCAAC
30063103 TATT
1 TATT
30063107 GACTTACATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (15 bp):
TATTAATTGAGCAAC
Found at i:30066861 original size:11 final size:11
Alignment explanation
Indices: 30066845--30066882 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
30066835 CATGTCAGTT
*
30066845 TTTATCAAAGG
1 TTTATCAAAGA
30066856 TTTATCAAAGA
1 TTTATCAAAGA
*
30066867 TTTCTCAAAGA
1 TTTATCAAAGA
30066878 TTTAT
1 TTTAT
30066883 AAGCTATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (11 bp):
TTTATCAAAGA
Found at i:30069187 original size:25 final size:25
Alignment explanation
Indices: 30069158--30069216 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
30069148 TTTCACCCGA
*
30069158 GGTAAAATTACCATAATTTTATTGG
1 GGTAAAATTACCATAATTTTACTGG
30069183 GGTAAAATTACCATAATTTTACTGG
1 GGTAAAATTACCATAATTTTACTGG
30069208 GGTAAAATT
1 GGTAAAATT
30069217 GTGATGAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (25 bp):
GGTAAAATTACCATAATTTTACTGG
Found at i:30071046 original size:35 final size:36
Alignment explanation
Indices: 30070991--30071113 Score: 164
Period size: 35 Copynumber: 3.5 Consensus size: 36
30070981 GAATATGAAA
30070991 GTATGTTAATCATGCCATGTGACAATAAATAGAAGG
1 GTATGTTAATCATGCCATGTGACAATAAATAGAAGG
* * *
30071027 GTATGTT-TTCATGCCATGTGA-AAGTGAATATGAA-A
1 GTATGTTAATCATGCCATGTGACAA-TAAATA-GAAGG
30071062 GTATGTTAATCATGCCATGTGACAATAAATAGAAGG
1 GTATGTTAATCATGCCATGTGACAATAAATAGAAGG
*
30071098 GTATGTT-TTCATGCCA
1 GTATGTTAATCATGCCA
30071114 CATGTCAGAG
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
34 2 0.03
35 36 0.48
36 35 0.47
37 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (36 bp):
GTATGTTAATCATGCCATGTGACAATAAATAGAAGG
Found at i:30071049 original size:71 final size:71
Alignment explanation
Indices: 30070972--30071113 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
30070962 TGTTCACTGT
30070972 TGTGAAAGTGAATATGAAAGTATGTTAATCATGCCATGTGACAATAAATAGAAGGGTATGTTTTC
1 TGTGAAAGTGAATATGAAAGTATGTTAATCATGCCATGTGACAATAAATAGAAGGGTATGTTTTC
30071037 ATGCCA
66 ATGCCA
30071043 TGTGAAAGTGAATATGAAAGTATGTTAATCATGCCATGTGACAATAAATAGAAGGGTATGTTTTC
1 TGTGAAAGTGAATATGAAAGTATGTTAATCATGCCATGTGACAATAAATAGAAGGGTATGTTTTC
30071108 ATGCCA
66 ATGCCA
30071114 CATGTCAGAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.31
Consensus pattern (71 bp):
TGTGAAAGTGAATATGAAAGTATGTTAATCATGCCATGTGACAATAAATAGAAGGGTATGTTTTC
ATGCCA
Found at i:30071476 original size:10 final size:10
Alignment explanation
Indices: 30071458--30071503 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
30071448 CTATGACTAA
30071458 ATGTGATTAT
1 ATGTGATTAT
*
30071468 ATGTAATTAT
1 ATGTGATTAT
*
30071478 ATGTGCTTAT
1 ATGTGATTAT
30071488 ATGTGATTGAT
1 ATGTGATT-AT
30071499 ATGTG
1 ATGTG
30071504 TCAGAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:30078779 original size:39 final size:38
Alignment explanation
Indices: 30078694--30078780 Score: 88
Period size: 39 Copynumber: 2.2 Consensus size: 38
30078684 TTTTGGTACA
* *
30078694 ATAATTTTTATAAATTTTTTTACGAAATTTATATTTCT
1 ATAATTTTTATAAATTTTCTTACGAAATTTATAATTCT
* *
30078732 TTACATTTTGTAT-AATTTTCTTACG-ACTTTATAAAATTCT
1 ATA-ATTTT-TATAAATTTTCTTACGAAATTTAT--AATTCT
30078772 ATAATTTTT
1 ATAATTTTT
30078781 TTATATTTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
38 9 0.22
39 21 0.52
40 10 0.25
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.56
Consensus pattern (38 bp):
ATAATTTTTATAAATTTTCTTACGAAATTTATAATTCT
Found at i:30079055 original size:88 final size:88
Alignment explanation
Indices: 30078962--30079188 Score: 189
Period size: 89 Copynumber: 2.6 Consensus size: 88
30078952 AATTTTTAAT
30078962 AAAAAGCAGGGGCTTAATTACTTTTTTGAAAAAGTTTGAGGTTCTTTTTGAT-TCATTTTAAAAA
1 AAAAAGCAGGGGCTTAATTACTTTTTTGAAAAAGTTTGAGGTTCTTTTTGATGT-ATTTTAAAAA
*
30079026 CTCAAGTATCC-AATTGAGTGCAAA
65 CTCAAGTA-CCTAAATGAGTGCAAA
* ** * * * * *
30079050 AAAAAGTAGACGCTTAATTGTTCTTTTTT--TAAGGTTTGAGGGCTT-TTTTTTATGTATTTTGA
1 AAAAAGCAGGGGCTTAA-T-TACTTTTTTGAAAAAGTTTGA-GG-TTCTTTTTGATGTATTTTAA
** * * *
30079112 AAGTTTAAGTACCTAAATGTGTGTAAA
62 AAACTCAAGTACCTAAATGAGTGCAAA
* *
30079139 AAAAAGCTGGGGCTTAA-TAGCTTTTTTTGAAAAAGTTTGAGG-GCTTTTTG
1 AAAAAGCAGGGGCTTAATTA-C-TTTTTTGAAAAAGTTTGAGGTTCTTTTTG
30079189 CACCATTTAG
Statistics
Matches: 105, Mismatches: 23, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
86 1 0.01
87 1 0.01
88 35 0.33
89 49 0.47
90 19 0.18
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (88 bp):
AAAAAGCAGGGGCTTAATTACTTTTTTGAAAAAGTTTGAGGTTCTTTTTGATGTATTTTAAAAAC
TCAAGTACCTAAATGAGTGCAAA
Found at i:30079596 original size:59 final size:59
Alignment explanation
Indices: 30079529--30079681 Score: 182
Period size: 59 Copynumber: 2.6 Consensus size: 59
30079519 TTTTAATATG
* * *
30079529 ATTATTATTAAATATAATTAAATAATAAATAATAAATAATTTAATTATATT-TAAATACA
1 ATTATTATTAAATATAATTTAATAA-AAATAATAAATAATTTAATAACATTCTAAATACA
* * * * * *
30079588 ATTATTATTAAATACAATTTAAGAAAAATAGTATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTAAATACA
* *
30079647 ATTATTATTAAAATATGATTTAATAAAAATCATAA
1 ATTATTATT-AAATATAATTTAATAAAAATAATAA
30079682 TATATAATAT
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
58 21 0.27
59 37 0.48
60 19 0.25
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTCTAAATACA
Found at i:30080291 original size:42 final size:43
Alignment explanation
Indices: 30080226--30080319 Score: 154
Period size: 42 Copynumber: 2.2 Consensus size: 43
30080216 GGGGACACAC
*
30080226 GCCCATGTGCTGACACACAGCTGAGACACACGCCCGTGTCTCT
1 GCCCATGTGCTCACACACAGCTGAGACACACGCCCGTGTCTCT
*
30080269 GCCCATGTG-TCACACACGGCTGAGACACACGCCCGTGTCTCT
1 GCCCATGTGCTCACACACAGCTGAGACACACGCCCGTGTCTCT
*
30080311 GCCCGTGTG
1 GCCCATGTG
30080320 GATGAAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 39 0.81
43 9 0.19
ACGTcount: A:0.18, C:0.37, G:0.26, T:0.19
Consensus pattern (43 bp):
GCCCATGTGCTCACACACAGCTGAGACACACGCCCGTGTCTCT
Found at i:30081353 original size:24 final size:24
Alignment explanation
Indices: 30081310--30081481 Score: 75
Period size: 24 Copynumber: 7.0 Consensus size: 24
30081300 TCCGGGCTAT
* **
30081310 ATAACGAGAAGCTCATAAGAGCCA
1 ATAACGGGAAGCTCCGAAGAGCCA
*
30081334 ATAACGGGTAA-CTCCGAAGAGCTA
1 ATAACGGG-AAGCTCCGAAGAGCCA
* * *
30081358 TTAATGGGAAGCTCCGAATAGCCA
1 ATAACGGGAAGCTCCGAAGAGCCA
* * *
30081382 TATATCGAGAAG-TTC-AAGCGAGCC-
1 -ATAACGGGAAGCTCCGAA--GAGCCA
* *
30081406 ATATCGGGAAGCT-CTAGAGAGCCA
1 ATAACGGGAAGCTCCGA-AGAGCCA
* * * *
30081430 TTAATCAGGAAGCTCACAAAGAGCCT
1 ATAA-CGGGAAGCTC-CGAAGAGCCA
*
30081456 TTAATCGGGAAGCTCACGAAGAGCCA
1 ATAA-CGGGAAGCTC-CGAAGAGCCA
30081482 TATATCTAGA
Statistics
Matches: 113, Mismatches: 23, Indels: 22
0.72 0.15 0.14
Matches are distributed among these distances:
23 20 0.18
24 40 0.35
25 22 0.19
26 29 0.26
27 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (24 bp):
ATAACGGGAAGCTCCGAAGAGCCA
Found at i:30081416 original size:23 final size:23
Alignment explanation
Indices: 30081383--30081484 Score: 62
Period size: 26 Copynumber: 4.2 Consensus size: 23
30081373 GAATAGCCAT
* *
30081383 ATATCGAGAAGTTCAAGCGAGCC
1 ATATCGAGAAGCTCAAGAGAGCC
* *
30081406 ATATCGGGAAGCTCTAGAGAGCC
1 ATATCGAGAAGCTCAAGAGAGCC
*
30081429 ATTAATC-AGGAAGCTCACAAAGAGCC
1 A-T-ATCGA-GAAGCTCA-AGAGAGCC
* * *
30081455 TTTAATCGGGAAGCTCACGAAGAGCC
1 -AT-ATCGAGAAGCTCAAG-AGAGCC
30081481 ATAT
1 ATAT
30081485 ATCTAGACGC
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
23 20 0.33
24 3 0.05
25 11 0.18
26 26 0.43
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (23 bp):
ATATCGAGAAGCTCAAGAGAGCC
Found at i:30081459 original size:26 final size:26
Alignment explanation
Indices: 30081423--30081482 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
30081413 GAAGCTCTAG
30081423 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
30081449 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
30081475 AGAGCCAT
1 AGAGCCAT
30081483 ATATCTAGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:30081571 original size:24 final size:24
Alignment explanation
Indices: 30081544--30081625 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
30081534 ACAACCGATT
*
30081544 GGGATGCTCCGAAGAGCTATTAAC
1 GGGAAGCTCCGAAGAGCTATTAAC
* *
30081568 GGGAAGCTCAC-AAGAACCATATAAC
1 GGGAAGCTC-CGAAGAGCTAT-TAAC
* *
30081593 GGGAAGCT-CGAGAGGGCTAATAAC
1 GGGAAGCTCCGA-AGAGCTATTAAC
*
30081617 GGGACGCTC
1 GGGAAGCTC
30081626 TTTCGAGCTG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
23 1 0.02
24 27 0.60
25 17 0.38
ACGTcount: A:0.33, C:0.22, G:0.30, T:0.15
Consensus pattern (24 bp):
GGGAAGCTCCGAAGAGCTATTAAC
Found at i:30081800 original size:20 final size:20
Alignment explanation
Indices: 30081775--30081814 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
30081765 AGCAATTACA
30081775 TAATTC-ACATATACAATATT
1 TAATTCAACATATA-AATATT
30081795 TAATTCAAACATATAAATAT
1 TAATTC-AACATATAAATAT
30081815 GCATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATTCAACATATAAATATT
Found at i:30081974 original size:5 final size:5
Alignment explanation
Indices: 30081945--30081983 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
30081935 TAAATTTAAC
* *
30081945 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
30081984 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:30088738 original size:15 final size:15
Alignment explanation
Indices: 30088720--30088751 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30088710 CATTTCACTA
30088720 TTATGTATTTTATAT
1 TTATGTATTTTATAT
*
30088735 TTATGTCTTTTATAT
1 TTATGTATTTTATAT
30088750 TT
1 TT
30088752 TGCATGCATA
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:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTATTTTATAT
Found at i:30092492 original size:26 final size:26
Alignment explanation
Indices: 30092436--30092494 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
30092426 TATTTTCTCG
* *
30092436 AAATTTTACCAAGGGAAAAATCTTTA
1 AAATTTTACCAAGGGAAAAATCGTCA
*
30092462 AAATTTTACCAAGGGCAAAATCGTCA
1 AAATTTTACCAAGGGAAAAATCGTCA
*
30092488 CAATTTT
1 AAATTTT
30092495 CCTGGAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAAGGGAAAAATCGTCA
Found at i:30099103 original size:26 final size:26
Alignment explanation
Indices: 30099036--30099104 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
30099026 TTTTCAATAG
* *
30099036 TGCTCACACGAGCTATGAAATGAGTC
1 TGCTCACACGAGTTGTGAAATGAGTC
* *
30099062 TGCTCACACGATTTGTGAAATGGGTC
1 TGCTCACACGAGTTGTGAAATGAGTC
*
30099088 TGCTTACACGAGTTGTG
1 TGCTCACACGAGTTGTG
30099105 GGTCGAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (26 bp):
TGCTCACACGAGTTGTGAAATGAGTC
Found at i:30104973 original size:45 final size:46
Alignment explanation
Indices: 30104914--30105012 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 46
30104904 CATTTTCATT
* * *
30104914 TCCATTTTAGAGAAAACCACATTCATTTCTAAATG-ATTCAATTTC
1 TCCATTTCAAAGAAAACCACAATCATTTCTAAATGTATTCAATTTC
* * * *
30104959 TCCATTTCAAAGAAAACCATAATCATTTCTGAATGTTTTCCATTTC
1 TCCATTTCAAAGAAAACCACAATCATTTCTAAATGTATTCAATTTC
*
30105005 TCTATTTC
1 TCCATTTC
30105013 TATTCATTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
45 30 0.67
46 15 0.33
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.40
Consensus pattern (46 bp):
TCCATTTCAAAGAAAACCACAATCATTTCTAAATGTATTCAATTTC
Found at i:30107270 original size:20 final size:18
Alignment explanation
Indices: 30107247--30107287 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
30107237 GAGTTGAGAA
*
30107247 AATTATTTAATTGAAAATTT
1 AATTAATTAATT--AAATTT
30107267 AATTAATTAATTAAATTT
1 AATTAATTAATTAAATTT
30107285 AAT
1 AAT
30107288 AAATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AATTAATTAATTAAATTT
Found at i:30108241 original size:13 final size:13
Alignment explanation
Indices: 30108222--30108260 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
30108212 GTAAAATTTC
30108222 AAAATATTTTTTA
1 AAAATATTTTTTA
* *
30108235 TAAATATTTCTTAA
1 AAAATATTT-TTTA
30108249 AAAATATTTTTT
1 AAAATATTTTTT
30108261 TTCAAATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAATATTTTTTA
Found at i:30108400 original size:13 final size:14
Alignment explanation
Indices: 30108384--30108416 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30108374 ATAAAAATTC
30108384 TAAATTAAAAAAT-
1 TAAATTAAAAAATA
*
30108397 TAAATAAAAAAATA
1 TAAATTAAAAAATA
30108411 TAAATT
1 TAAATT
30108417 GGTTCAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATTAAAAAATA
Found at i:30111015 original size:27 final size:26
Alignment explanation
Indices: 30110959--30111016 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
30110949 AAATTGTATT
* * *
30110959 ATTTAAAAAGAAATAAAATTAACAAT
1 ATTTAAAAAAAAAGAAAATTAACAAA
30110985 ATTTAAAAAAAAAGATAAATATAA-AAA
1 ATTTAAAAAAAAAGA-AAAT-TAACAAA
30111012 ATTTA
1 ATTTA
30111017 TACACAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 13 0.48
27 11 0.41
28 3 0.11
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (26 bp):
ATTTAAAAAAAAAGAAAATTAACAAA
Found at i:30114211 original size:7 final size:8
Alignment explanation
Indices: 30114194--30114222 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30114184 CATCTTAATG
30114194 TTTTTATT
1 TTTTTATT
30114202 TTTTTATT
1 TTTTTATT
30114210 TTTTTATT
1 TTTTTATT
30114218 TTTTT
1 TTTTT
30114223 CTTTAAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTATT
Found at i:30114317 original size:24 final size:24
Alignment explanation
Indices: 30114290--30114347 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
30114280 TTTTTTCTTA
*
30114290 TATTATTATTCT-GAATTTCAC-ATG
1 TATTATTATT-TAAAATTT-ACTATG
30114314 TATTATTATTTAAAATTTACTATG
1 TATTATTATTTAAAATTTACTATG
30114338 TATTATTATT
1 TATTATTATT
30114348 ATTATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTATTATTTAAAATTTACTATG
Found at i:30114598 original size:17 final size:15
Alignment explanation
Indices: 30114570--30114617 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
30114560 GTCATTCCTG
30114570 TATAATATTTTTATC
1 TATAATATTTTTATC
30114585 TATATATATCTTTTAT-
1 TATA-ATAT-TTTTATC
*
30114601 TAAAATTATTTTTATC
1 TATAA-TATTTTTATC
30114617 T
1 T
30114618 CACATACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 11 0.39
16 11 0.39
17 6 0.21
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TATAATATTTTTATC
Found at i:30120467 original size:25 final size:25
Alignment explanation
Indices: 30120438--30120514 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
30120428 ATGGCCCAGC
*
30120438 ACACGGCCTGGCACATGAGCATGTG
1 ACACGGCCTGGCACACGAGCATGTG
* * *
30120463 ACACGACCTGGCACACGGGCGTGTG
1 ACACGGCCTGGCACACGAGCATGTG
*
30120488 ACACGGCCTGACACAC-AGGCATGTG
1 ACACGGCCTGGCACACGA-GCATGTG
30120513 AC
1 AC
30120515 CCTACTCAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.25, C:0.31, G:0.31, T:0.13
Consensus pattern (25 bp):
ACACGGCCTGGCACACGAGCATGTG
Found at i:30124503 original size:37 final size:36
Alignment explanation
Indices: 30124462--30124541 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 36
30124452 CGGGCCCTTA
* * ** * *
30124462 TCGTGTGGTCCACACGGTCTGTAAGAATCTCACATTG
1 TCGTGTGCTCCACACGGCCTACAAGAAT-ACACATGG
*
30124499 TCGTGTGCTTCACACGGCCTACAAGAATACACATGG
1 TCGTGTGCTCCACACGGCCTACAAGAATACACATGG
30124535 TCGTGTG
1 TCGTGTG
30124542 ACACTAGGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 13 0.36
37 23 0.64
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (36 bp):
TCGTGTGCTCCACACGGCCTACAAGAATACACATGG
Found at i:30143950 original size:4 final size:4
Alignment explanation
Indices: 30143943--30144000 Score: 50
Period size: 4 Copynumber: 14.5 Consensus size: 4
30143933 AAAGAGGGAG
* *
30143943 AAGA AAGA AAGA AAGA AAGAA AAGA GAAGA AA-A AAGA GA-A AAGA ACG-
1 AAGA AAGA AAGA AAGA AAG-A AAGA -AAGA AAGA AAGA AAGA AAGA AAGA
30143990 AAGA AGAGA AA
1 AAGA A-AGA AA
30144001 TTTGTTTTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
3 7 0.16
4 25 0.57
5 12 0.27
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:30143958 original size:21 final size:21
Alignment explanation
Indices: 30143926--30143981 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
30143916 CCGACAATAT
* *
30143926 AGAA-AAAAAAGAGGGAGAAG
1 AGAAGAAAAAAGAGAGAAAAG
*
30143946 A-AAGAAAGAAAGAAAGAAAAG
1 AGAAGAAA-AAAGAGAGAAAAG
30143967 AGAAGAAAAAAGAGA
1 AGAAGAAAAAAGAGA
30143982 AAAGAACGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 2 0.07
20 4 0.14
21 17 0.59
22 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AGAAGAAAAAAGAGAGAAAAG
Found at i:30143966 original size:17 final size:18
Alignment explanation
Indices: 30143946--30144000 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
30143936 GAGGGAGAAG
30143946 AAAGAAAGAAAGAA-AGA
1 AAAGAAAGAAAGAAGAGA
*
30143963 AAAGAGAAGAAAAAAGAGA
1 AAAGA-AAGAAAGAAGAGA
*
30143982 AAAGAACG-AAGAAGAGA
1 AAAGAAAGAAAGAAGAGA
30143999 AA
1 AA
30144001 TTTGTTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 15 0.45
18 10 0.30
19 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAAGAAGAGA
Found at i:30143969 original size:26 final size:29
Alignment explanation
Indices: 30143940--30143999 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 29
30143930 AAAAAAGAGG
*
30143940 GAGAAGAAAGAA-AG-AAAGAAAGAA-AA
1 GAGAAGAAAAAAGAGAAAAGAAAGAAGAA
*
30143966 GAGAAGAAAAAAGAGAAAAGAACGAAGAA
1 GAGAAGAAAAAAGAGAAAAGAAAGAAGAA
30143995 GAGAA
1 GAGAA
30144000 ATTTGTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 11 0.38
27 2 0.07
28 9 0.31
29 7 0.24
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (29 bp):
GAGAAGAAAAAAGAGAAAAGAAAGAAGAA
Found at i:30143970 original size:19 final size:19
Alignment explanation
Indices: 30143946--30143986 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
30143936 GAGGGAGAAG
*
30143946 AAAGA-AAGAAAGAA-AGA
1 AAAGAGAAGAAAAAAGAGA
30143963 AAAGAGAAGAAAAAAGAGA
1 AAAGAGAAGAAAAAAGAGA
30143982 AAAGA
1 AAAGA
30143987 ACGAAGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 8 0.38
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAGAGAAGAAAAAAGAGA
Found at i:30151111 original size:21 final size:20
Alignment explanation
Indices: 30151082--30151121 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
30151072 AAAATATGGA
*
30151082 TTTTTTTAGAACAAAAATAT
1 TTTTTTTAGAAAAAAAATAT
30151102 TTTTTATTAGAAAAAAAATA
1 TTTTT-TTAGAAAAAAAATA
30151122 GGGTGGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTTTTTAGAAAAAAAATAT
Found at i:30152847 original size:11 final size:11
Alignment explanation
Indices: 30152831--30152899 Score: 62
Period size: 10 Copynumber: 6.8 Consensus size: 11
30152821 ATTATTAACA
30152831 ATTATAAAAAT
1 ATTATAAAAAT
30152842 ATTAT-AAAAT
1 ATTATAAAAAT
30152852 -TTAT-AAAAT
1 ATTATAAAAAT
30152861 -TTATAAAAA-
1 ATTATAAAAAT
* *
30152870 ATTGTAATAA-
1 ATTATAAAAAT
30152880 ATTATTAAAAAT
1 ATTA-TAAAAAT
30152892 -TTATAAAA
1 ATTATAAAA
30152900 TTAATAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
9 13 0.26
10 24 0.48
11 13 0.26
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (11 bp):
ATTATAAAAAT
Found at i:30152864 original size:29 final size:28
Alignment explanation
Indices: 30152815--30152899 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 28
30152805 TCATACAAAG
30152815 TATAAAATTATTAACAA-TTATAAAAATAT
1 TATAAAATTATTAA-AATTTATAAAAA-AT
30152844 TATAAAATT-TATAAAATTTATAAAAAAT
1 TATAAAATTAT-TAAAATTTATAAAAAAT
*
30152872 TGTAATAAATTATTAAAAATTTATAAAA
1 TAT-A-AAATTATT-AAAATTTATAAAA
30152900 TTAATAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
28 7 0.14
29 22 0.45
30 6 0.12
31 14 0.29
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
TATAAAATTATTAAAATTTATAAAAAAT
Found at i:30152918 original size:30 final size:30
Alignment explanation
Indices: 30152850--30152929 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 30
30152840 ATATTATAAA
30152850 ATTTATAAAATTTATAAAAAATTGTAATAAATT
1 ATTTA-AAAATTTAT--AAAATTGTAATAAATT
30152883 A-TTAAAAATTTATAAAA-T-TAATAAATCAT
1 ATTTAAAAATTTATAAAATTGTAATAAAT--T
*
30152912 ATTTAAAATTTTATAAAA
1 ATTTAAAAATTTATAAAA
30152930 CACTTATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
27 8 0.19
28 1 0.02
29 6 0.14
30 15 0.35
31 9 0.21
32 3 0.07
33 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
ATTTAAAAATTTATAAAATTGTAATAAATT
Found at i:30152994 original size:9 final size:9
Alignment explanation
Indices: 30152934--30153001 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
30152924 ATAAAACACT
*
30152934 TATAAATAA
1 TATAAAAAA
30152943 TAT-AAAAA
1 TATAAAAAA
**
30152951 TCCAAAAAA
1 TATAAAAAA
* *
30152960 TCTAATAAA
1 TATAAAAAA
30152969 TCATAAAAAA
1 T-ATAAAAAA
* *
30152979 TGT-AAAAG
1 TATAAAAAA
30152987 TATAAAAAA
1 TATAAAAAA
30152996 TATAAA
1 TATAAA
30153002 TTATAAACTT
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
8 11 0.24
9 27 0.60
10 7 0.16
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (9 bp):
TATAAAAAA
Found at i:30153892 original size:12 final size:11
Alignment explanation
Indices: 30153865--30153889 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30153855 TTTTTTATAA
30153865 TTTATTACAAT
1 TTTATTACAAT
30153876 TTTATTACAAT
1 TTTATTACAAT
30153887 TTT
1 TTT
30153890 TATGAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATTACAAT
Found at i:30153948 original size:9 final size:8
Alignment explanation
Indices: 30153936--30154041 Score: 65
Period size: 8 Copynumber: 12.5 Consensus size: 8
30153926 ATCAAATATG
30153936 TTTTATTAA
1 TTTTA-TAA
*
30153945 TTTTATAT
1 TTTTATAA
30153953 TTTTATAA
1 TTTTATAA
30153961 TTTATAATAA
1 TTT-T-ATAA
30153971 TTTTTATAAA
1 -TTTTAT-AA
*
30153981 TTTTTATGA
1 -TTTTATAA
*
30153990 CTTT-T--
1 TTTTATAA
30153995 TTTTATAA
1 TTTTATAA
30154003 TTTTATAAA
1 TTTTAT-AA
*
30154012 TTTTTAAAA
1 -TTTTATAA
*
30154021 TTTTTAAAA
1 -TTTTATAA
30154030 TTTTATAA
1 TTTTATAA
30154038 TTTT
1 TTTT
30154042 TAAAAATTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 19
0.76 0.07 0.18
Matches are distributed among these distances:
5 3 0.04
6 1 0.01
7 1 0.01
8 32 0.40
9 22 0.27
10 19 0.23
11 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (8 bp):
TTTTATAA
Found at i:30154015 original size:21 final size:20
Alignment explanation
Indices: 30153952--30154016 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
30153942 TAATTTTATA
**
30153952 TTTTTATAA-TTTATAATAA
1 TTTTTATAATTTTATAATTT
*
30153971 TTTTTATAAATTTTTATGACTTT
1 TTTTTAT-AA-TTTTAT-AATTT
30153994 TTTTTATAATTTTATAAATTT
1 TTTTTATAATTTTAT-AATTT
30154015 TT
1 TT
30154017 AAAATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 7 0.19
20 2 0.05
21 12 0.32
22 7 0.19
23 9 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTATAATTTTATAATTT
Found at i:30154042 original size:9 final size:9
Alignment explanation
Indices: 30153817--30154064 Score: 107
Period size: 9 Copynumber: 26.0 Consensus size: 9
30153807 TAAATTACTT
30153817 TTTTTATAA
1 TTTTTATAA
30153826 --TTTATAA
1 TTTTTATAA
*
30153833 TTTTTCAATAG
1 TTTTT--ATAA
30153844 TTTTTATAA
1 TTTTTATAA
30153853 TTTTTTTTATAA
1 ---TTTTTATAA
*
30153865 TTTATTACAA
1 TTT-TTATAA
*
30153875 TTTTATTACAA
1 -TTT-TTATAA
30153886 TTTTTATGAA
1 TTTTTAT-AA
30153896 TTTTTATAA
1 TTTTTATAA
**
30153905 TCCTTATGAA
1 TTTTTAT-AA
*
30153915 ATTTTA-AA
1 TTTTTATAA
* * *
30153923 TATATCAAATA
1 T-TTTTATA-A
30153934 TGTTTTATTAA
1 T-TTTTA-TAA
30153945 -TTTTAT-A
1 TTTTTATAA
30153952 TTTTTATAA
1 TTTTTATAA
*
30153961 TTTATAATAA
1 TTT-TTATAA
30153971 TTTTTATAAA
1 TTTTTAT-AA
*
30153981 TTTTTATGACTTT
1 TTTTTAT-A---A
30153994 TTTTTATAA
1 TTTTTATAA
30154003 -TTTTATAAA
1 TTTTTAT-AA
*
30154012 TTTTTAAAA
1 TTTTTATAA
30154021 TTTTTA-AA
1 TTTTTATAA
*
30154029 ATTTTATAA
1 TTTTTATAA
*
30154038 TTTTTAAAA
1 TTTTTATAA
*
30154047 ATTTTA-AA
1 TTTTTATAA
30154055 TTTTTTATAA
1 -TTTTTATAA
30154065 GTTCTTTTAT
Statistics
Matches: 185, Mismatches: 27, Indels: 53
0.70 0.10 0.20
Matches are distributed among these distances:
7 8 0.04
8 24 0.13
9 63 0.34
10 48 0.26
11 24 0.13
12 11 0.06
13 7 0.04
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:30154061 original size:18 final size:17
Alignment explanation
Indices: 30154003--30154059 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 17
30153993 TTTTTTATAA
*
30154003 TTTTATAAATTTTTAAAAT
1 TTTTA-AAAATTTT-AAAT
30154022 TTTT-AAAATTTTATAAT
1 TTTTAAAAATTTTA-AAT
30154039 TTTTAAAAATTTTAAAT
1 TTTTAAAAATTTTAAAT
30154056 TTTT
1 TTTT
30154060 TATAAGTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 1 0.03
17 21 0.60
18 9 0.26
19 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAAAAATTTTAAAT
Found at i:30154303 original size:5 final size:5
Alignment explanation
Indices: 30154293--30154350 Score: 80
Period size: 5 Copynumber: 11.6 Consensus size: 5
30154283 TTCATAAGGT
* * * *
30154293 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATA ACATT ATATA
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
30154343 ATATG ATA
1 ATATG ATA
30154351 GAAATGCTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:30158308 original size:21 final size:21
Alignment explanation
Indices: 30158283--30158323 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30158273 GCTAGTTACT
30158283 AAAAA-TCCGAAAAAAACCAAA
1 AAAAAGTCC-AAAAAAACCAAA
*
30158304 AAAAAGTCCAAAAATACCAA
1 AAAAAGTCCAAAAAAACCAA
30158324 CACACTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.68, C:0.20, G:0.05, T:0.07
Consensus pattern (21 bp):
AAAAAGTCCAAAAAAACCAAA
Found at i:30162986 original size:6 final size:6
Alignment explanation
Indices: 30162975--30163009 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
30162965 TTGGGTTATT
* *
30162975 GGGTTA GGGTTA GGGTTA GGGTTA AGTTTA GGGTT
1 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GGGTT
30163010 TTAGTGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (6 bp):
GGGTTA
Found at i:30163192 original size:46 final size:46
Alignment explanation
Indices: 30163136--30163289 Score: 109
Period size: 46 Copynumber: 3.3 Consensus size: 46
30163126 GTTTATAGTT
30163136 TTTAA-TAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAA
1 TTTAATTAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAA
* * * * * *
30163181 TTTAATTAAAAATTATTTAAAAATCAGATAAGGGTTTAGAGTTA--AGGGT-T
1 TTTAATTAAAAATCAATT--AAAT----T-AGGGTTTAGGGTTACTTGAGTAA
** * *
30163231 TTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAA
1 TTTAATTAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAA
* *
30163277 ATTAATTATAAAT
1 TTTAATTAAAAAT
30163290 TTTTATAAAA
Statistics
Matches: 78, Mismatches: 20, Indels: 21
0.66 0.17 0.18
Matches are distributed among these distances:
43 12 0.15
44 1 0.01
45 8 0.10
46 19 0.24
48 8 0.10
50 13 0.17
51 3 0.04
52 1 0.01
53 13 0.17
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (46 bp):
TTTAATTAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAA
Found at i:30163265 original size:96 final size:96
Alignment explanation
Indices: 30163133--30163356 Score: 308
Period size: 96 Copynumber: 2.3 Consensus size: 96
30163123 CGTGTTTATA
* * *
30163133 GTTTTTAA-TAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTAT
1 GTTTTTAAGTAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAATT-T
*
30163197 TTA-AAAATCAGATAAGGGTTTAGAGTTAAGG
65 TTATAAAATCAGATAAGGGGTTAGAGTTAAGG
* *
30163228 GTTTTTAAGGAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTT
1 GTTTTTAAGTAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAATTTT
** * * *
30163293 TATAAAATTTGATTAGGGGTTAGTGTTTAGG
66 TATAAAATCAGATAAGGGGTTAGAGTTAAGG
*
30163324 GTTTTTAAGTAAAAACTCAAATAAATTAAGGTT
1 GTTTTTAAGTAAAAA-TCAAATAAATTAGGGTT
30163357 TGGGGTTCAG
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
95 12 0.11
96 85 0.75
97 16 0.14
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (96 bp):
GTTTTTAAGTAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAATTTT
TATAAAATCAGATAAGGGGTTAGAGTTAAGG
Found at i:30163893 original size:125 final size:125
Alignment explanation
Indices: 30163396--30163935 Score: 794
Period size: 126 Copynumber: 4.3 Consensus size: 125
30163386 TTGTTAATTT
* * *
30163396 AAAGAACCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT-AAAAATAATTTCAAGTAGACG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAATAATTTCGAGTAGACG
* * * *
30163460 TTTCTAAGTAAATAATGTAAAAAACGCTTTGAGCAGGATGCTTTGTCAACAGAAGTACTG
66 TTTCTAAGCAAATAGTGTAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
30163520 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTGGCTCTTGAAAAAATAATTTCGAGTAGAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTG-AAAAATAATTTCGAGTAGAC
* * *
30163585 GTTTCTGAGCAAATAGTGTCAAAAACGTTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
65 GTTTCTAAGCAAATAGTGTAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
30163646 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAATAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAA-AAATAATTTCGAGTAGAC
* * *
30163711 GTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAGAAGTACTA
65 GTTTCTAAGCAAATAGTGTAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
30163772 AAAAAAGCTCCCACGTGGACGTGCTTTTGCTACAGTGGCTTCTGAAAAATAATTTCGAGTAGACG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAATAATTTCGAGTAGACG
* * * * * *
30163837 TTTCTGAGCAAATAGCGTAAAAAATGCTTTAAGCAGAATGCTTTGTTAGTAGAAGTACTG
66 TTTCTAAGCAAATAGTGTAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* *
30163897 AAAGAAGCTCCTACGTGGACGCACTTTTGCTACAGTGGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGC
30163936 GCATGTTTGG
Statistics
Matches: 373, Mismatches: 40, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
124 39 0.10
125 106 0.28
126 228 0.61
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (125 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAAAAATAATTTCGAGTAGACG
TTTCTAAGCAAATAGTGTAAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:30167268 original size:21 final size:21
Alignment explanation
Indices: 30167222--30167261 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30167212 TTGTCTAGCT
* *
30167222 TCCGGCGGGGGTTGTGGTTGC
1 TCCGGCGGGGATTCTGGTTGC
30167243 TCCGGCGGGGATTCTGGTT
1 TCCGGCGGGGATTCTGGTT
30167262 CATCCGGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.20, G:0.47, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTCTGGTTGC
Found at i:30169380 original size:11 final size:11
Alignment explanation
Indices: 30169366--30169418 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
30169356 TTTAAATAGA
30169366 AATTTGAGAGG
1 AATTTGAGAGG
30169377 AATTTGAGAGG
1 AATTTGAGAGG
30169388 AATTTGAGA-G
1 AATTTGAGAGG
30169398 AATATT-AGAGAG
1 AAT-TTGAGAG-G
*
30169410 AAATTGAGA
1 AATTTGAGA
30169419 TAAAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
10 7 0.19
11 24 0.65
12 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.26
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:30170688 original size:23 final size:23
Alignment explanation
Indices: 30170632--30170688 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
30170622 AAAAAATTAA
* *
30170632 AATTTGAGTTAATTGAATCAAGT
1 AATTCGAGTTTATTGAATCAAGT
*
30170655 TATTCGAGTTTATTCGAAT-AAGT
1 AATTCGAGTTTATT-GAATCAAGT
30170678 AATTCGAGTTT
1 AATTCGAGTTT
30170689 CGAGTTTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (23 bp):
AATTCGAGTTTATTGAATCAAGT
Found at i:30171674 original size:15 final size:15
Alignment explanation
Indices: 30171648--30171687 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
30171638 GAAAAAATCT
* *
30171648 ACCCCGCCTCACCTC
1 ACCCCGCATCACCCC
*
30171663 ACCCTGCATCACCCC
1 ACCCCGCATCACCCC
30171678 ACCCCGCATC
1 ACCCCGCATC
30171688 CACTTTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.62, G:0.07, T:0.12
Consensus pattern (15 bp):
ACCCCGCATCACCCC
Found at i:30205724 original size:5 final size:5
Alignment explanation
Indices: 30205714--30205740 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30205704 TAAGTAAATC
30205714 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
30205741 AATAAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:30206798 original size:5 final size:5
Alignment explanation
Indices: 30206788--30206819 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
30206778 TAAGTAAATC
30206788 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
30206820 AATAAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:30212244 original size:26 final size:22
Alignment explanation
Indices: 30212195--30212241 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
30212185 ATTTCCAAAG
30212195 CAACTCAAACAAACATTAAAAT
1 CAACTCAAACAAACATTAAAAT
30212217 CAACTCAAACAAACATTAAAAT
1 CAACTCAAACAAACATTAAAAT
30212239 CAA
1 CAA
30212242 TCATTAGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (22 bp):
CAACTCAAACAAACATTAAAAT
Found at i:30216396 original size:44 final size:44
Alignment explanation
Indices: 30216322--30216478 Score: 149
Period size: 44 Copynumber: 3.6 Consensus size: 44
30216312 GGCATTACCT
* * * * *
30216322 GATTTCATATAAGACCATAACTGGGCTATGACATTGATATATGA
1 GATTACATGTAAGACCATATCTGGGATATGACATCGATATATGA
** *
30216366 GACTT-TTTGTAAGACCATATCTGGGATATGACATCGATATATGC
1 GA-TTACATGTAAGACCATATCTGGGATATGACATCGATATATGA
* * * *
30216410 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T-TATGT
1 GATTACATGTAAGACCATATCTGGGATA-TGACATCGATATATGA
* *
30216453 GATTTCATGTAAGACCATGTCTGGGA
1 GATTACATGTAAGACCATATCTGGGA
30216479 CATTCTGGGC
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
43 31 0.32
44 56 0.58
45 9 0.09
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (44 bp):
GATTACATGTAAGACCATATCTGGGATATGACATCGATATATGA
Found at i:30216471 original size:43 final size:45
Alignment explanation
Indices: 30216373--30216482 Score: 154
Period size: 43 Copynumber: 2.5 Consensus size: 45
30216363 TGAGACTTTT
* *
30216373 TGTAAGACCATATCTGGGATA-TGACATCGATATATGCGATTACA
1 TGTAAGACCATGTCTGGGACATTGACATCGATATATGCGATTACA
* * *
30216417 TGTAAGACCATGTCTGGGACATTGGCATCG-T-TATGTGATTTCA
1 TGTAAGACCATGTCTGGGACATTGACATCGATATATGCGATTACA
30216460 TGTAAGACCATGTCTGGGACATT
1 TGTAAGACCATGTCTGGGACATT
30216483 CTGGGCTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
43 33 0.55
44 20 0.33
45 7 0.12
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATTGACATCGATATATGCGATTACA
Found at i:30216531 original size:53 final size:53
Alignment explanation
Indices: 30216429--30216531 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 53
30216419 TAAGACCATG
* * ** *
30216429 TCTGGGACATTGGCATCGTTATGTGATTTCATGTAAGACCATGTCTGGGACAT
1 TCTGGGACATTGGCATCGATATGTAATAACATGTAAGACCATATCTGGGACAT
*
30216482 TCTGGG-CTATTGGCATCGATATGTAATAACATGTAAGACCATATTTGGGA
1 TCTGGGAC-ATTGGCATCGATATGTAATAACATGTAAGACCATATCTGGGA
30216532 TATAGCATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 1 0.02
53 42 0.98
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (53 bp):
TCTGGGACATTGGCATCGATATGTAATAACATGTAAGACCATATCTGGGACAT
Found at i:30227643 original size:9 final size:9
Alignment explanation
Indices: 30227631--30227655 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30227621 TAATAAATTA
30227631 TTATTATTG
1 TTATTATTG
30227640 TTATTATTG
1 TTATTATTG
30227649 TTATTAT
1 TTATTAT
30227656 CTTTTTGTTT
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:30227877 original size:2 final size:2
Alignment explanation
Indices: 30227870--30227914 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
30227860 AATTTAGTTT
* * *
30227870 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TG TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30227912 TA T
1 TA T
30227915 TTTTAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:30230354 original size:15 final size:16
Alignment explanation
Indices: 30230334--30230363 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30230324 AAAATTACAA
30230334 AAAAAATTTA-AAAAT
1 AAAAAATTTATAAAAT
30230349 AAAAAATTTATAAAA
1 AAAAAATTTATAAAA
30230364 ATTATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAAATTTATAAAAT
Found at i:30230373 original size:18 final size:19
Alignment explanation
Indices: 30230352--30230405 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
30230342 TAAAAATAAA
30230352 AAATTT-ATAAAAATTATT
1 AAATTTAATAAAAATTATT
*
30230370 AAATTTTAATAAAAA-AATT
1 AAA-TTTAATAAAAATTATT
30230389 AAATTTAATAAAAATTA
1 AAATTTAATAAAAATTA
30230406 GAATTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 14 0.45
19 10 0.32
20 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTTAATAAAAATTATT
Found at i:30230383 original size:19 final size:17
Alignment explanation
Indices: 30230367--30230420 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
30230357 TATAAAAATT
30230367 ATTAAATTTTAATAAAAAA
1 ATTAAATTTTAAT--AAAA
30230386 ATTAAA-TTTAATAAAA
1 ATTAAATTTTAATAAAA
*
30230402 ATTAGAATTTTTATAAAA
1 ATTA-AATTTTAATAAAA
30230420 A
1 A
30230421 CCGTAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 8 0.25
17 2 0.06
18 16 0.50
19 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
ATTAAATTTTAATAAAA
Found at i:30230420 original size:18 final size:16
Alignment explanation
Indices: 30230367--30230411 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
30230357 TATAAAAATT
30230367 ATTAAATTTTAATAAAAAA
1 ATTAAA-TTTAAT--AAAA
30230386 ATTAAATTTAATAAAA
1 ATTAAATTTAATAAAA
30230402 ATTAGAATTT
1 ATTA-AATTT
30230412 TTATAAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
17 5 0.20
18 6 0.24
19 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
ATTAAATTTAATAAAA
Found at i:30230631 original size:20 final size:20
Alignment explanation
Indices: 30230606--30230662 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
30230596 TACAATAATT
30230606 TTTATAATTTTTTTACGAAA
1 TTTATAATTTTTTTACGAAA
* **
30230626 TTTAT-ATTTCTTTAC-ATT
1 TTTATAATTTTTTTACGAAA
*
30230644 TTGTATAATTTTCTTACGA
1 TT-TATAATTTTTTTACGA
30230663 CTTTATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 13 0.45
21 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTATAATTTTTTTACGAAA
Found at i:30230684 original size:39 final size:38
Alignment explanation
Indices: 30230600--30230692 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 38
30230590 TTTTGGTACA
* **
30230600 ATAATTTTTATAATTTTTTTACGAAATTTATATTTCTT
1 ATAATTTTTATAATTTTCTTACGAAATTTATAAATCTT
*
30230638 -TACATTTTGTATAATTTTCTTACG-ACTTTATAAAATCTT
1 ATA-ATTTT-TATAATTTTCTTACGAAATTTAT-AAATCTT
30230677 ATAA-TTTTATAATTTT
1 ATAATTTTTATAATTTT
30230693 ATAATTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
37 11 0.23
38 14 0.30
39 20 0.43
40 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (38 bp):
ATAATTTTTATAATTTTCTTACGAAATTTATAAATCTT
Found at i:30230688 original size:8 final size:8
Alignment explanation
Indices: 30230675--30230727 Score: 70
Period size: 8 Copynumber: 6.2 Consensus size: 8
30230665 TTATAAAATC
30230675 TTATAATT
1 TTATAATT
30230683 TTATAATT
1 TTATAATT
30230691 TTATAATT
1 TTATAATT
*
30230699 TTTTATATT
1 TTATA-ATT
30230708 TCTATATATT
1 T-TATA-ATT
30230718 TTATAATT
1 TTATAATT
30230726 TT
1 TT
30230728 TTTTACAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 25 0.61
9 8 0.20
10 8 0.20
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (8 bp):
TTATAATT
Found at i:30230746 original size:8 final size:8
Alignment explanation
Indices: 30230675--30230791 Score: 69
Period size: 8 Copynumber: 14.1 Consensus size: 8
30230665 TTATAAAATC
*
30230675 TTATAATT
1 TTATATTT
*
30230683 TTATAATT
1 TTATATTT
30230691 TTATAATTTT
1 TTAT-A-TTT
30230701 TTATATTT
1 TTATATTT
*
30230709 CTATATATT
1 TTATAT-TT
*
30230718 TTATAATT
1 TTATATTT
30230726 TT-T-TTT
1 TTATATTT
**
30230732 ACA-ATTT
1 TTATATTT
30230739 TTATATTTT
1 TTATA-TTT
*
30230748 TTACGATTT
1 TTA-TATTT
30230757 TTATATTT
1 TTATATTT
*
30230765 TTAAATTTT
1 TTATA-TTT
30230774 TTAATATTT
1 TT-ATATTT
*
30230783 TAATATTT
1 TTATATTT
30230791 T
1 T
30230792 ATTAAAATTT
Statistics
Matches: 85, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
6 2 0.02
7 5 0.06
8 40 0.47
9 29 0.34
10 9 0.11
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.67
Consensus pattern (8 bp):
TTATATTT
Found at i:30230757 original size:30 final size:29
Alignment explanation
Indices: 30230697--30230758 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
30230687 AATTTTATAA
* *
30230697 TTTTTTATATTTCTATATATTTTATAATT
1 TTTTTTAAATTTCTATATATTTTACAATT
* * *
30230726 TTTTTTACAATTTTTATATTTTTTACGATT
1 TTTTTTA-AATTTCTATATATTTTACAATT
30230756 TTT
1 TTT
30230759 ATATTTTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (29 bp):
TTTTTTAAATTTCTATATATTTTACAATT
Found at i:30230790 original size:18 final size:18
Alignment explanation
Indices: 30230754--30230811 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 18
30230744 TTTTTTACGA
30230754 TTTTT-ATATTTTTAA-AT
1 TTTTTAATA-TTTTAATAT
30230771 TTTTTAATATTTTAATAT
1 TTTTTAATATTTTAATAT
*
30230789 TTTATTAAAATTTAATAATAT
1 TTT-TTAATATTT--TAATAT
30230810 TT
1 TT
30230812 ATAGCTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
17 11 0.31
18 8 0.23
19 8 0.23
21 8 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTAATATTTTAATAT
Found at i:30230846 original size:9 final size:9
Alignment explanation
Indices: 30230675--30230848 Score: 78
Period size: 9 Copynumber: 19.3 Consensus size: 9
30230665 TTATAAAATC
30230675 TTATAA-TT
1 TTATAATTT
30230683 TTATAA-TT
1 TTATAATTT
30230691 TTATAATTT
1 TTATAATTT
30230700 TT-TATATTT
1 TTATA-ATTT
*
30230709 CTAT-ATATT
1 TTATAAT-TT
30230718 TTATAATTTTTT
1 TTATAA---TTT
*
30230730 TTACAATTT
1 TTATAATTT
*
30230739 TTATATTTT
1 TTATAATTT
**
30230748 TTACGATTT
1 TTATAATTT
30230757 TTAT-ATTT
1 TTATAATTT
30230765 TTA-AATTT
1 TTATAATTT
*
30230773 TT-TAATAT
1 TTATAATTT
30230781 TT-TAATATT
1 TTATAAT-TT
*
30230790 TTATTAAAATT
1 TTA-T-AATTT
* *
30230801 TAATAATAT
1 TTATAATTT
**
30230810 TTATAGCTT
1 TTATAATTT
*
30230819 TTATTGA-TT
1 TTA-TAATTT
**
30230828 TTATTTTTT
1 TTATAATTT
30230837 TTATAATTT
1 TTATAATTT
30230846 TTA
1 TTA
30230849 ATAAAAACAG
Statistics
Matches: 125, Mismatches: 25, Indels: 31
0.69 0.14 0.17
Matches are distributed among these distances:
8 42 0.34
9 64 0.51
10 4 0.03
11 5 0.04
12 9 0.07
13 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:30231014 original size:92 final size:92
Alignment explanation
Indices: 30230857--30231074 Score: 284
Period size: 92 Copynumber: 2.4 Consensus size: 92
30230847 TAATAAAAAC
*
30230857 AGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGGTCTTTTGATGCATTTTGAAAGTTCAAGTA
1 AGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGGTCTTTTGATGCATTTTGAAAGTCCAAGTA
*
30230922 CCCAATTGAATGCAAAAAAAAAACAGT
66 CCCAAATGAATGCAAAAAAAAAACAGT
* * * *
30230949 AGGGGCTTAATTG-TTTTTTTGAAAAGGTTTGAGGGCTTTTTTTATGCATTTTGAAAGTCCAAGT
1 AGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGG-TCTTTTGATGCATTTTGAAAGTCCAAGT
*
30231013 ACCCAAATGAGTGCAAAAAAAAAAGCAG-
65 ACCCAAATGAATGCAAAAAAAAAA-CAGT
* *
30231041 A---GCTTAATTACTTCTTTTTTGAAAAAGTTTGAGG
1 AGGGGCTTAATTGC-T-TTTCTTGAAAAAGTTTGAGG
30231075 ACTTTCTTCA
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
89 8 0.07
91 21 0.19
92 80 0.71
93 3 0.03
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (92 bp):
AGGGGCTTAATTGCTTTTCTTGAAAAAGTTTGAGGGTCTTTTGATGCATTTTGAAAGTCCAAGTA
CCCAAATGAATGCAAAAAAAAAACAGT
Found at i:30231200 original size:12 final size:12
Alignment explanation
Indices: 30231177--30231208 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
30231167 ATTAAATGAA
30231177 ATTATCATTTACC
1 ATTAT-ATTTACC
30231190 ATTATATTTACC
1 ATTATATTTACC
30231202 ATTATAT
1 ATTATAT
30231209 CACTCAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTATATTTACC
Found at i:30231988 original size:112 final size:113
Alignment explanation
Indices: 30231764--30231995 Score: 263
Period size: 112 Copynumber: 2.1 Consensus size: 113
30231754 ATCTGAAGAT
* * * **
30231764 CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGTTTATGGAAAAATGCCGCTA
1 CAAAACGCATCGTTTTGCTCTTGATGTATACTAGAATTAGTGGCGCTTATCGAAAAACACCGCTA
* * *
30231829 AAGGAAGTATTAGCAGCGCATTGCCGAAAGCACTGCAAAAATCTTAAC
66 AAGGAAGTATTAGCAGCGCATTACCAAAAGCACCGCAAAAATCTTAAC
* * * ** *
30231877 TAAAACGCATCGTTTT-CTCTTGCTGTATATTAGCGTTAGTGGCGCTTA-CGAAAACCCACCGCT
1 CAAAACGCATCGTTTTGCTCTTGATGTATACTAGAATTAGTGGCGCTTATCGAAAA-ACACCGCT
* * * *
30231940 AAAGGAAGTATTAGCGGCGC-TTACCAAAAGCGCCGCAACATATGTTAAC
65 AAAGGAAGTATTAGCAGCGCATTACCAAAAGCACCGCAA-AAATCTTAAC
30231989 CAAAACG
1 CAAAACG
30231996 TAGAGTTTGG
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
111 19 0.19
112 64 0.65
113 15 0.15
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (113 bp):
CAAAACGCATCGTTTTGCTCTTGATGTATACTAGAATTAGTGGCGCTTATCGAAAAACACCGCTA
AAGGAAGTATTAGCAGCGCATTACCAAAAGCACCGCAAAAATCTTAAC
Found at i:30232596 original size:229 final size:228
Alignment explanation
Indices: 30232116--30232652 Score: 591
Period size: 229 Copynumber: 2.4 Consensus size: 228
30232106 GCGTTTAAGG
* * * *
30232116 GAAAACGCCGCTAAAGCATAATATTAGCGGCGTTTTGTGGGAAGCACCGCAAAATATCTTAACCA
1 GAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGAGAAGCACCGCAAAATATCTTAACCA
* * * *
30232181 AAATGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACGCCGCTAAGGC
66 AAACGCAGAGTTTTGTCATGAGGTATACTAGAATTAGTGGCGCAAAGGGAACAC-CCGCTAAAGC
* * * * * **
30232246 ATACTATTAGCGGCGTTTTTAGAGAAGCGCCGCAACATTTGGTAACCAAAACGCAACGTTTTTGT
130 ATACTATTAGCCGCGTTTTTAGAGAAGCGCCGCAAAATATAGTAACAAAAACGCAACGTTTAAGT
** *
30232311 CTTGATGTATACAGTTATTAGTGGCGCATATCAA
195 CTTGATGTATACAGGAATTAGTGGCGCACATCAA
* * * * * ** * *
30232345 AAAAT-GCCGTTAAATCATAGTATTAGCAGCGCTTGGCAAAAAGCACCGCAAAATATGC-TCACC
1 GAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGAGAAGCACCGCAAAATAT-CTTAACC
* * * **
30232408 AAAACGCAGAGTTTTTTCATGAGGTATATTAGACTTAGTGGCGCTTATGGGGGAACA-CCGCTAA
65 AAAACGCAGAGTTTTGTCATGAGGTATACTAGAATTAGTGGCGC--A-AAGGGAACACCCGCTAA
* * * * *
30232472 AGCATATTATTTGCCGCGCTTTTT-GAGAAGCGCCGTAAAATATATTAACAAAAACGCAGCGTTT
127 AGCATACTATTAGCCGCG-TTTTTAGAGAAGCGCCGCAAAATATAGTAACAAAAACGCAACGTTT
* *
30232536 AAGTCTTGATGTATACTGGAATTAGTGGCGTC-CA-CGA
191 AAGTCTTGATGTATACAGGAATTAGTGGCG-CACATCAA
* * *
30232573 GAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGGAAAATATCTTAACCA
1 GAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGAGAAGCACCGCAAAATATCTTAACCA
30232638 AAACGCAGAGTTTTG
66 AAACGCAGAGTTTTG
30232653 GTCTTAACCA
Statistics
Matches: 248, Mismatches: 52, Indels: 16
0.78 0.16 0.05
Matches are distributed among these distances:
228 90 0.36
229 144 0.58
230 7 0.03
231 7 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (228 bp):
GAAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTGTGAGAAGCACCGCAAAATATCTTAACCA
AAACGCAGAGTTTTGTCATGAGGTATACTAGAATTAGTGGCGCAAAGGGAACACCCGCTAAAGCA
TACTATTAGCCGCGTTTTTAGAGAAGCGCCGCAAAATATAGTAACAAAAACGCAACGTTTAAGTC
TTGATGTATACAGGAATTAGTGGCGCACATCAA
Found at i:30232657 original size:115 final size:115
Alignment explanation
Indices: 30232118--30232657 Score: 481
Period size: 115 Copynumber: 4.7 Consensus size: 115
30232108 GTTTAAGGGA
* * *
30232118 AAACGCCGCTAAAGCATAATATTAGCGGCG-TTTTGTGGGAAGCACCGCAAAATATCTTAACCAA
1 AAACGCCGCTAAAGCATAGTATTAGCGGCGCTTTT-TGAGAAGCGCCGCAAAATATCTTAACCAA
* * *
30232182 AATGCAGAG-TTTGGTCTTGAGGTATACTAGAATTAGTGGCGCA-A-AGGG
65 AACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCATATCGAG
* * * * **
30232230 AACACGCCGCTAAGGCATACTATTAGCGGCG-TTTTTAGAGAAGCGCCGCAACATTTGGTAACCA
1 AA-ACGCCGCTAAAGCATAGTATTAGCGGCGCTTTTT-GAGAAGCGCCGCAAAATATCTTAACCA
* * * * *
30232294 AAACGCA-ACGTTTTTGTCTTGATGTATAC-AGTTATTAGTGGCGCATATCAAA
64 AAACGCAGA-GTTTTGGTCTTGAGGTATACTAG-AATTAGTGGCGCATATCGAG
* * * * **** * * *
30232346 AAATGCCGTTAAATCATAGTATTAGCAGCGCTTGGCAAAAAGCACCGCAAAATATGC-TCACCAA
1 AAACGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATAT-CTTAACCAA
* * * * * * *
30232410 AACGCAGAGTTTT-TTCATGAGGTATATTAGACTTAGTGGCGCTTATGGGG
65 AACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCATATCGAG
* * * * * * * *
30232460 GAACACCGCTAAAGCATATTATTTGCCGCGCTTTTTGAGAAGCGCCGTAAAATATATTAACAAAA
1 AAACGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAA
* ** * * *
30232525 ACGCAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTC-CA-CGAG
66 ACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCG-CATATCGAG
*
30232574 AAATCGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGGAAAATATCTTAACCAA
1 AAA-CGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAA
30232639 AACGCAGAGTTTTGGTCTT
65 AACGCAGAGTTTTGGTCTT
30232658 AACCATGCAT
Statistics
Matches: 330, Mismatches: 83, Indels: 27
0.75 0.19 0.06
Matches are distributed among these distances:
112 4 0.01
113 60 0.18
114 111 0.34
115 149 0.45
116 6 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (115 bp):
AAACGCCGCTAAAGCATAGTATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAA
ACGCAGAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCATATCGAG
Found at i:30232741 original size:21 final size:20
Alignment explanation
Indices: 30232717--30232755 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
30232707 TTTGGTCTAT
*
30232717 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
30232738 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
30232756 ATGTGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:30233669 original size:14 final size:15
Alignment explanation
Indices: 30233650--30233684 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
30233640 ACACTTGTAT
*
30233650 GGATTTAGGGTTT-G
1 GGATTTAAGGTTTAG
30233664 GGATTTAAGGTTTAG
1 GGATTTAAGGTTTAG
30233679 GGATTT
1 GGATTT
30233685 TGAGGTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (15 bp):
GGATTTAAGGTTTAG
Found at i:30237147 original size:21 final size:21
Alignment explanation
Indices: 30237121--30237189 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
30237111 CAACAACTTA
* *
30237121 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
****
30237142 AAGCAGAGGTTATAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
*
30237163 AAGCAGAGGCCGCAGTGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
30237184 AAGCAG
1 AAGCAG
30237190 CGAGAGAAGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:30237194 original size:12 final size:12
Alignment explanation
Indices: 30237174--30237212 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30237164 AGCAGAGGCC
*
30237174 GCAGTGAGAGAA
1 GCAGCGAGAGAA
30237186 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* *
30237198 GTAGCGATAGAA
1 GCAGCGAGAGAA
30237210 GCA
1 GCA
30237213 AAGGTTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.13, G:0.38, T:0.08
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:30237705 original size:42 final size:41
Alignment explanation
Indices: 30237647--30237894 Score: 256
Period size: 42 Copynumber: 5.9 Consensus size: 41
30237637 TTTGTGAAAT
30237647 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACC
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-ACC
* * *
30237689 AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCC
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TACC
* *
30237731 TAAGAGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTACC
* * * * *
30237774 AAGCGCCGCTATATAACATTA-CTTTTAGCGGTGTTTTTTCC
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTACC
30237815 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTA--
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTACC
*
30237856 AGAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTTT
1 A-AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
30237895 TTTCTGTAAG
Statistics
Matches: 178, Mismatches: 18, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.03
41 40 0.22
42 89 0.50
43 38 0.21
44 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTACC
Found at i:30237740 original size:85 final size:84
Alignment explanation
Indices: 30237646--30237895 Score: 348
Period size: 85 Copynumber: 3.0 Consensus size: 84
30237636 GTTTGTGAAA
*
30237646 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATT
30237709 ACTTTTAGCGGCGTTTTCTTCC
64 ACTTTTAGCGGCGTTTT-TTCC
* * *
30237731 TAAGAGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCAAGCGCCGCTATATAACATTAC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATTAC
*
30237796 TTTTAGCGGTGTTTTTTCC
66 TTTTAGCGGCGTTTTTTCC
* * *
30237815 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTA--AGAGCGCCGCTAAAGAATATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACCA-AGCGCCGCTATAGAACATTA
30237878 -TCTTTAGCGGCGTTTTTT
65 CT-TTTAGCGGCGTTTTTT
30237896 TTCTGTAAGT
Statistics
Matches: 149, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
82 2 0.01
83 31 0.21
84 44 0.30
85 71 0.48
86 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACCAAGCGCCGCTATAGAACATTAC
TTTTAGCGGCGTTTTTTCC
Found at i:30237898 original size:127 final size:126
Alignment explanation
Indices: 30237647--30237895 Score: 346
Period size: 127 Copynumber: 2.0 Consensus size: 126
30237637 TTTGTGAAAT
* *
30237647 AAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATTACT
1 AAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTAAAGAACATGACT
30237712 TTTAGCGGCGTTTTCTTCCTAAGAGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
66 TTTAGCGGCGTTTTCTT-CTAAGAGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
* * * * *
30237774 AAGCGCCGCTATATAACATTACTTTTAGCGGTGTTTTT-TCCTAAGCGCCGCTAAAGAACATGA-
1 AAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACC-AAGCGCCGCTAAAGAACATGAC
*
30237837 TCTTTAGCGGCG-TTT-TT-TAAGAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTTTT
65 T-TTTAGCGGCGTTTTCTTCTAAGA--GCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
30237896 TTCTGTAAGT
Statistics
Matches: 110, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
123 5 0.05
125 36 0.33
126 6 0.05
127 63 0.57
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (126 bp):
AAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTAAAGAACATGACT
TTTAGCGGCGTTTTCTTCTAAGAGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
Found at i:30238030 original size:22 final size:22
Alignment explanation
Indices: 30237987--30238030 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
30237977 TAGTGGCGTT
* * **
30237987 AAAAAGCGCCGTTAAAGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
30238009 AAAAAACGCCGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
30238031 TTCTGGTGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:30240701 original size:10 final size:10
Alignment explanation
Indices: 30240686--30240771 Score: 60
Period size: 10 Copynumber: 9.0 Consensus size: 10
30240676 TTGGAAATAT
30240686 TTTAATATAA
1 TTTAATATAA
30240696 TTTAATATAA
1 TTTAATATAA
** *
30240706 AAT-ATTTAA
1 TTTAATATAA
30240715 TTTCAAAATATAA
1 TTT---AATATAA
*
30240728 TTTAAAATAA
1 TTTAATATAA
30240738 ---AATAT--
1 TTTAATATAA
30240743 TTTAA-ATAA
1 TTTAATATAA
30240752 TTTAATATAA
1 TTTAATATAA
30240762 TTTAATATAA
1 TTTAATATAA
30240772 AAATAATTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
7 6 0.10
8 2 0.03
9 11 0.19
10 31 0.53
13 8 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (10 bp):
TTTAATATAA
Found at i:30240708 original size:34 final size:32
Alignment explanation
Indices: 30240665--30240773 Score: 121
Period size: 34 Copynumber: 3.3 Consensus size: 32
30240655 GGACTTAGAA
30240665 AATATAAAATATTGGAAATATTTTAATATAATTT
1 AATATAAAATATT--AAATATTTTAATATAATTT
* **
30240699 AATATAAAATATTTAAT-TTCAAAATATAATTT
1 AATATAAAATATTAAATATT-TTAATATAATTT
* *
30240731 AAAATAAAATATTTTAAATAATTTAATATAATTT
1 AATATAAAATA--TTAAATATTTTAATATAATTT
30240765 AATATAAAA
1 AATATAAAA
30240774 ATAATTATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
31 2 0.03
32 23 0.37
34 36 0.58
35 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (32 bp):
AATATAAAATATTAAATATTTTAATATAATTT
Found at i:30240749 original size:14 final size:15
Alignment explanation
Indices: 30240696--30240751 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
30240686 TTTAATATAA
30240696 TTTAATATAAAATA-
1 TTTAATATAAAATAT
*
30240710 TTTAATTTCAAAATAT
1 TTTAATAT-AAAATAT
*
30240726 AATTTAAAATAAAATAT
1 --TTTAATATAAAATAT
30240743 TTTAA-ATAA
1 TTTAATATAA
30240752 TTTAATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 11 0.31
15 11 0.31
17 7 0.20
18 6 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAATATAAAATAT
Found at i:30241436 original size:13 final size:13
Alignment explanation
Indices: 30241412--30241455 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
30241402 TTAAGTCTTT
30241412 TACAGATACAGATA
1 TACAGA-ACAGATA
30241426 -ACAGAATCAGATA
1 TACAGAA-CAGATA
*
30241439 TGCAGAACAGATA
1 TACAGAACAGATA
30241452 TACA
1 TACA
30241456 AAATCCTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 1 0.04
13 20 0.77
14 5 0.19
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (13 bp):
TACAGAACAGATA
Found at i:30242765 original size:19 final size:17
Alignment explanation
Indices: 30242722--30242766 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
30242712 TGTCGTTCGT
30242722 TTTCAAAATATTATTCA
1 TTTCAAAATATTATTCA
*
30242739 TTTACAAAGTCATTATTCAA
1 TTT-CAAAAT-ATTATTC-A
30242759 TTTCAAAA
1 TTTCAAAA
30242767 CCTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.13
18 5 0.22
19 11 0.48
20 4 0.17
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.42
Consensus pattern (17 bp):
TTTCAAAATATTATTCA
Found at i:30243202 original size:39 final size:39
Alignment explanation
Indices: 30243159--30243246 Score: 90
Period size: 40 Copynumber: 2.2 Consensus size: 39
30243149 TAAGCCCTTT
* * *
30243159 TCAGTATCAATATCAGTC-CAGTTTGGGCCTTAGCCCATC
1 TCAGTATCAAAAACAGTCACAG-TAGGGCCTTAGCCCATC
*
30243198 TCAGTA-CAAAAACAGTCATGCAGTAGGGCTTTAGCCCATC
1 TCAGTATCAAAAACAGTCA--CAGTAGGGCCTTAGCCCATC
*
30243238 ACAGTATCA
1 TCAGTATCA
30243247 GTAGCAGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
38 9 0.22
39 6 0.15
40 20 0.50
41 5 0.12
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (39 bp):
TCAGTATCAAAAACAGTCACAGTAGGGCCTTAGCCCATC
Found at i:30255578 original size:16 final size:16
Alignment explanation
Indices: 30255557--30255588 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30255547 TAATTGAAAG
*
30255557 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
30255573 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
30255589 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:30265441 original size:23 final size:23
Alignment explanation
Indices: 30265415--30265465 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
30265405 TGAATTTTAA
*
30265415 ATTTTAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
30265438 ATTTAAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
30265461 ATTTA
1 ATTTA
30265466 GGAAAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (23 bp):
ATTTAAAATTATTTAGTGATAAT
Found at i:30266288 original size:15 final size:15
Alignment explanation
Indices: 30266268--30266299 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30266258 ACCCCAATCA
30266268 CAGATACAAAAATAT
1 CAGATACAAAAATAT
*
30266283 CAGATACAATAATAT
1 CAGATACAAAAATAT
30266298 CA
1 CA
30266300 TGCATAACAT
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:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (15 bp):
CAGATACAAAAATAT
Found at i:30266359 original size:2 final size:2
Alignment explanation
Indices: 30266354--30266395 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
30266344 TGTGTGTGTG
30266354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30266396 CTTAACAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30267151 original size:16 final size:15
Alignment explanation
Indices: 30267130--30267161 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
30267120 AATAGCGAAC
30267130 AGAAATCAAAGAAGAA
1 AGAAATCAAA-AAGAA
30267146 AGAAATCAAAAAGAA
1 AGAAATCAAAAAGAA
30267161 A
1 A
30267162 TGTCTGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.72, C:0.06, G:0.16, T:0.06
Consensus pattern (15 bp):
AGAAATCAAAAAGAA
Found at i:30267203 original size:44 final size:44
Alignment explanation
Indices: 30267152--30267243 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
30267142 AGAAAGAAAT
30267152 CAAAAAGAAATGTCTGGAAAAGGAAATTTTGGAGAAGAAACATC
1 CAAAAAGAAATGTCTGGAAAAGGAAATTTTGGAGAAGAAACATC
30267196 CAAAAAGAAATGTCTGGAAAAGGAAATTTTGGAGAAGAAACATC
1 CAAAAAGAAATGTCTGGAAAAGGAAATTTTGGAGAAGAAACATC
30267240 CAAA
1 CAAA
30267244 CAGTATTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (44 bp):
CAAAAAGAAATGTCTGGAAAAGGAAATTTTGGAGAAGAAACATC
Found at i:30267299 original size:20 final size:21
Alignment explanation
Indices: 30267264--30267305 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
30267254 AGGAAAAACC
30267264 AAAAATAAAATAAGATA-ATA
1 AAAAATAAAATAAGATAGATA
30267284 AAAAATAAAAGT-AGATAGATA
1 AAAAATAAAA-TAAGATAGATA
30267305 A
1 A
30267306 CATATCCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (21 bp):
AAAAATAAAATAAGATAGATA
Found at i:30267930 original size:13 final size:13
Alignment explanation
Indices: 30267912--30267961 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
30267902 ATATTTTTTT
30267912 AATTAAAATTATA
1 AATTAAAATTATA
*
30267925 AATTAAAATAATA
1 AATTAAAATTATA
* *
30267938 ATTTTAAAAATTATC
1 A-ATT-AAAATTATA
30267953 AATTAAAAT
1 AATTAAAAT
30267962 ATTATTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 18 0.60
14 4 0.13
15 8 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:30269342 original size:22 final size:22
Alignment explanation
Indices: 30269317--30269408 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
30269307 AAATTCAATA
* *
30269317 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
30269339 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
30269361 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
30269383 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
30269405 TCAA
1 TCAA
30269409 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:30269424 original size:52 final size:51
Alignment explanation
Indices: 30269358--30269460 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
30269348 TTCAAAATTT
* * *
30269358 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
30269410 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
30269461 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:30269449 original size:21 final size:22
Alignment explanation
Indices: 30269410--30269451 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
30269400 TTCTCTCAAA
30269410 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
30269432 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
30269452 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:30269548 original size:29 final size:29
Alignment explanation
Indices: 30269493--30269548 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
30269483 ATTAAATTTC
30269493 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTT
*
30269522 ATTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTT
30269549 AATATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTT
Found at i:30269556 original size:29 final size:29
Alignment explanation
Indices: 30269493--30269556 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
30269483 ATTAAATTTC
*
30269493 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
30269522 ATTTTTTTAA-ATAATTTTAAAATTTTTA
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
30269550 ATATTTT
1 ATTTTTT
30269557 CAACAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:30269701 original size:24 final size:23
Alignment explanation
Indices: 30269646--30269701 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
30269636 TAAATTTTAA
*
30269646 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
30269669 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
30269695 ATTTTTT
1 ATTTTTT
30269702 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:30271988 original size:125 final size:125
Alignment explanation
Indices: 30271714--30271995 Score: 354
Period size: 125 Copynumber: 2.3 Consensus size: 125
30271704 CCACGAGGGC
* * *
30271714 GCGATTTGACACTATTTGCTCAGAAACGTAAAAAAAAAATTATTTCCTACATGACCAACTATAGC
1 GCGATTTCACACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTATAGC
* * * * * **
30271779 GAAATCGCGTCCACGAGGGCGCGATTTCACACTTTCTTCTCATATAGCATCCTGGTATCA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* * * *
30271839 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTCACACTATTTACTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTATA
* * *
30271902 GCGAAATTGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
*
30271964 GCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTCACACTATTT-ACTCAGAAACGTCAA
30271996 CTCGAAAAAA
Statistics
Matches: 135, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
124 9 0.07
125 96 0.71
126 30 0.22
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (125 bp):
GCGATTTCACACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTATAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:30273091 original size:85 final size:85
Alignment explanation
Indices: 30272997--30273171 Score: 287
Period size: 85 Copynumber: 2.1 Consensus size: 85
30272987 GTAAAAAACC
*
30272997 CATTTTTTTCACACTGGATTAATATAATCACCTGTGTATGCAATATCTCAATGTAAAATGGTGTT
1 CATTTTTTTCACACTGGATTAATATAATCACCTGTGTATGCAATATATCAATGTAAAATGGTGTT
30273062 AACTCAATAATATTGTTAGT
66 AACTCAATAATATTGTTAGT
* * * *
30273082 CATTTTTTTCATATTGGATTAATATAATTATCTGTGTATGCAATATATCAATGTAAAATGGTGTT
1 CATTTTTTTCACACTGGATTAATATAATCACCTGTGTATGCAATATATCAATGTAAAATGGTGTT
*
30273147 AACTCGATAATATTGTTAGT
66 AACTCAATAATATTGTTAGT
*
30273167 GATTT
1 CATTT
30273172 GTGAAATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.43
Consensus pattern (85 bp):
CATTTTTTTCACACTGGATTAATATAATCACCTGTGTATGCAATATATCAATGTAAAATGGTGTT
AACTCAATAATATTGTTAGT
Found at i:30275193 original size:9 final size:9
Alignment explanation
Indices: 30275167--30275199 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
30275157 TATAAATAAG
30275167 TTAATTAAT
1 TTAATTAAT
*
30275176 TT-CTTAAT
1 TTAATTAAT
30275184 TTAATTAAT
1 TTAATTAAT
30275193 TTAATTA
1 TTAATTA
30275200 GAGATGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (9 bp):
TTAATTAAT
Found at i:30277985 original size:14 final size:14
Alignment explanation
Indices: 30277937--30277989 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
30277927 ATGCCACAAT
*
30277937 AATAATATAGTTTCA
1 AATAAT-TAGTTTAA
*
30277952 AATAACTAGAATTATAA
1 AATAATTAG--TT-TAA
30277969 AATAATTAGTTTAA
1 AATAATTAGTTTAA
30277983 AATAATT
1 AATAATT
30277990 TTATATAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 13 0.41
15 7 0.22
16 2 0.06
17 10 0.31
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (14 bp):
AATAATTAGTTTAA
Found at i:30278518 original size:21 final size:22
Alignment explanation
Indices: 30278480--30278521 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
30278470 AATAAAAGCT
*
30278480 ACTCAAATGATGTGGATAAACC
1 ACTCAAATGATGTAGATAAACC
*
30278502 ACTC-AATGGTGTAGATAAAC
1 ACTCAAATGATGTAGATAAAC
30278522 TGCTCACACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (22 bp):
ACTCAAATGATGTAGATAAACC
Found at i:30281956 original size:163 final size:163
Alignment explanation
Indices: 30281681--30282001 Score: 552
Period size: 163 Copynumber: 2.0 Consensus size: 163
30281671 AGTATTTGTT
* * *
30281681 GCATGATGCCTAGGAACCATTTTGGAATGAGCTAATTGTATATGTATTATGTATTTTTATGCCCA
1 GCATAATGCCTAGGAACCATTTTGGAACGAGCTAATTGCATATGTATTATGTATTTTTATGCCCA
*
30281746 GTAGCAGAGGTATCAATATTTTGAGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
66 GTAGCAGAGGTATCAATATTTCGAGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
*
30281811 TCAGAATAGAGGTTTGGTATCGATACTCGGGAA
131 TCAGAATAGAGATTTGGTATCGATACTCGGGAA
* *
30281844 GCATAATGCCTAGGAACCATTTTGGAACGAGCTAATTGCATATGTATTCTGTATTTTTATGTCCA
1 GCATAATGCCTAGGAACCATTTTGGAACGAGCTAATTGCATATGTATTATGTATTTTTATGCCCA
* * *
30281909 GTGGTAGAGGTATCAATATTTCGAGTTTAAGATTGATACTTCTGTGTTTTGAAATGTGTAGGAAG
66 GTAGCAGAGGTATCAATATTTCGAGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
30281974 TCAGAATAGAGATTTGGTATCGATACTC
131 TCAGAATAGAGATTTGGTATCGATACTC
30282002 TTTCCCGAGT
Statistics
Matches: 148, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
163 148 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (163 bp):
GCATAATGCCTAGGAACCATTTTGGAACGAGCTAATTGCATATGTATTATGTATTTTTATGCCCA
GTAGCAGAGGTATCAATATTTCGAGTTTAAGATTGATACTTCTGTGTTTCGAAATGTGTAGGAAG
TCAGAATAGAGATTTGGTATCGATACTCGGGAA
Found at i:30283996 original size:21 final size:21
Alignment explanation
Indices: 30283972--30284015 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30283962 TCGAGTAGTC
30283972 AATCTATTTG-AAATCTTGCCA
1 AATCT-TTTGCAAATCTTGCCA
30283993 AATCTTTTGCAAATCTTGCCA
1 AATCTTTTGCAAATCTTGCCA
30284014 AA
1 AA
30284016 ACTTGATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (21 bp):
AATCTTTTGCAAATCTTGCCA
Found at i:30284623 original size:38 final size:38
Alignment explanation
Indices: 30284581--30284671 Score: 164
Period size: 38 Copynumber: 2.4 Consensus size: 38
30284571 CTTTATTGGG
* *
30284581 TACATGTTAAGCATGTCTACTGCTAGTGTTGAACTAAA
1 TACATGTTAAGCATGTCTACTGCTACTGTTAAACTAAA
30284619 TACATGTTAAGCATGTCTACTGCTACTGTTAAACTAAA
1 TACATGTTAAGCATGTCTACTGCTACTGTTAAACTAAA
30284657 TACATGTTAAGCATG
1 TACATGTTAAGCATG
30284672 CTTATTGTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (38 bp):
TACATGTTAAGCATGTCTACTGCTACTGTTAAACTAAA
Found at i:30285063 original size:18 final size:18
Alignment explanation
Indices: 30285042--30285081 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30285032 AATCAATCCA
*
30285042 GATTTTTTGTACAATTAT
1 GATTTTTTGTACAACTAT
*
30285060 GATTTTTTTTACAACTAT
1 GATTTTTTGTACAACTAT
30285078 GATT
1 GATT
30285082 CAAACTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (18 bp):
GATTTTTTGTACAACTAT
Found at i:30285604 original size:21 final size:21
Alignment explanation
Indices: 30285580--30285622 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
30285570 ATCTTTTTTA
* *
30285580 AAGTTGAAAGTCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
30285601 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
30285622 A
1 A
30285623 TATTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.21
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:30290355 original size:12 final size:12
Alignment explanation
Indices: 30290338--30290371 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
30290328 GATAATATGA
30290338 TTGATTGGTTGG
1 TTGATTGGTTGG
30290350 TTGATTGGTTGG
1 TTGATTGGTTGG
*
30290362 TTGGTTGGTT
1 TTGATTGGTT
30290372 TGAGCAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (12 bp):
TTGATTGGTTGG
Found at i:30290361 original size:4 final size:4
Alignment explanation
Indices: 30290342--30290371 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
30290332 ATATGATTGA
*
30290342 TTGG TTGG TTGA TTGG TTGG TTGG TTGG TT
1 TTGG TTGG TTGG TTGG TTGG TTGG TTGG TT
30290372 TGAGCAGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.43, T:0.53
Consensus pattern (4 bp):
TTGG
Found at i:30291050 original size:15 final size:15
Alignment explanation
Indices: 30291030--30291060 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30291020 TGAACTTTAT
30291030 TTTATTTGTGTATAG
1 TTTATTTGTGTATAG
*
30291045 TTTATTTGTGTTTAG
1 TTTATTTGTGTATAG
30291060 T
1 T
30291061 CATACAAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.65
Consensus pattern (15 bp):
TTTATTTGTGTATAG
Found at i:30295810 original size:46 final size:46
Alignment explanation
Indices: 30295741--30296034 Score: 486
Period size: 46 Copynumber: 6.5 Consensus size: 46
30295731 TGATAAGTGA
*
30295741 CAAGTGATAAAGTGATAAATGGTAGCATTAGCTACACTTATCTGAT
1 CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
*
30295787 CAAGTGATAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
30295833 CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
1 CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
30295879 CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
1 CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
* **
30295925 CAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGAT
1 CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
* *
30295971 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
* *
30296016 C-AGGGA-CAAGTGATAAGTG
1 CAAGTGATAAAGTGATAAGTG
30296035 ATCATAAGTA
Statistics
Matches: 238, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
43 12 0.05
44 4 0.02
45 19 0.08
46 203 0.85
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
CAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGAT
Done.