Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 92 of 135
Found at i:31119475 original size:19 final size:19
Alignment explanation
Indices: 31119435--31119475 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
31119425 TTTTATAAAA
*
31119435 TTTTAAAATTTTTAAATTT
1 TTTTAAAATTTTTAAATGT
* *
31119454 TTTTACAATTTTTATATGT
1 TTTTAAAATTTTTAAATGT
31119473 TTT
1 TTT
31119476 AAGTATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTAAAATTTTTAAATGT
Found at i:31119502 original size:19 final size:19
Alignment explanation
Indices: 31119437--31119512 Score: 50
Period size: 19 Copynumber: 3.9 Consensus size: 19
31119427 TTATAAAATT
*
31119437 TTAAAATTTTTAAATTTTT-
1 TTAAAA-TTTTATATTTTTA
*
31119456 TTACAATTTTTATATGTTTTA
1 TTA-AAATTTTATAT-TTTTA
**
31119477 --AGTATTTTATATTTTTA
1 TTAAAATTTTATATTTTTA
*
31119494 TTAAAATTTAATAATTTTT
1 TTAAAATTTTAT-ATTTTT
31119513 TATAACTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
17 5 0.12
18 8 0.19
19 18 0.42
20 12 0.28
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (19 bp):
TTAAAATTTTATATTTTTA
Found at i:31126159 original size:3 final size:3
Alignment explanation
Indices: 31126151--31126180 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
31126141 TAGCAGGGTC
31126151 CTT CTT CTT CTT CTT CTT CTT CCTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT -CTT CTT CT
31126181 CTTGACCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:31148210 original size:37 final size:37
Alignment explanation
Indices: 31148150--31148222 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
31148140 ACTACTAATG
* * * *
31148150 TCGCTGCATGAGCACTTCTAGATTGCGCTCAAAACTA
1 TCGCCGCATGAGCACTTCCAGATTGCACCCAAAACTA
31148187 TCGCCGCATGAGCACTTCCAGATTGCACCCAAAACT
1 TCGCCGCATGAGCACTTCCAGATTGCACCCAAAACT
31148223 GTCGTCACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
TCGCCGCATGAGCACTTCCAGATTGCACCCAAAACTA
Found at i:31148275 original size:37 final size:37
Alignment explanation
Indices: 31148247--31148347 Score: 132
Period size: 38 Copynumber: 2.7 Consensus size: 37
31148237 ATTTTCGTAA
*
31148247 TGCACCCAAGAATGTTGCTGCATAAATATTCTTCAAAT
1 TGCACCCAAGAATGTCGCTGCATAAATATTCTTC-AAT
* * *
31148285 TGCATCC-AGAACTATCGCTGCATAAGTATTCTTCAAT
1 TGCACCCAAGAA-TGTCGCTGCATAAATATTCTTCAAT
*
31148322 TGCACCCAGGAATGTCGCTGCATAAA
1 TGCACCCAAGAATGTCGCTGCATAAA
31148348 CATGTCTAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
37 25 0.47
38 28 0.53
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (37 bp):
TGCACCCAAGAATGTCGCTGCATAAATATTCTTCAAT
Found at i:31148366 original size:26 final size:26
Alignment explanation
Indices: 31148334--31148387 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
31148324 CACCCAGGAA
*
31148334 TGTCGCTGCAT-AAACATGTCTAGAAT
1 TGTCGCTGCATGAAA-ATGTCCAGAAT
*
31148360 TGTCGCTGCATGAAAGTGTCCAGAAT
1 TGTCGCTGCATGAAAATGTCCAGAAT
31148386 TG
1 TG
31148388 CTCCCAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (26 bp):
TGTCGCTGCATGAAAATGTCCAGAAT
Found at i:31156120 original size:26 final size:26
Alignment explanation
Indices: 31156091--31156200 Score: 159
Period size: 26 Copynumber: 4.2 Consensus size: 26
31156081 AGAAAGTTTA
* *
31156091 GCTCATACGAGCCCAGTT-AGTATAAC
1 GCTCTTACGAG-CCAGTTCAGTATATC
*
31156117 GCTCTTACGAGCTAGTTCAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
* *
31156143 GCTTTTACGAGCCAGTTCAATATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
31156169 GCTCTTACGAGCCAGTTCAGTATATC
1 GCTCTTACGAGCCAGTTCAGTATATC
31156195 GCTCTT
1 GCTCTT
31156201 GTTGCAGCCC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
25 5 0.07
26 70 0.93
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (26 bp):
GCTCTTACGAGCCAGTTCAGTATATC
Found at i:31156528 original size:26 final size:24
Alignment explanation
Indices: 31156477--31156528 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
31156467 AAGATTCAGA
* * *
31156477 AATTTTTTTATACAACATTTAGAG
1 AATTTTTTTAGACAACATTCAAAG
31156501 AATTTTTTTGAGACATACATTCAAAG
1 AATTTTTTT-AGACA-ACATTCAAAG
31156527 AA
1 AA
31156529 AATTCAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 4 0.17
26 10 0.43
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (24 bp):
AATTTTTTTAGACAACATTCAAAG
Found at i:31156888 original size:85 final size:86
Alignment explanation
Indices: 31156734--31156963 Score: 198
Period size: 85 Copynumber: 2.7 Consensus size: 86
31156724 TTATTATTAT
* *
31156734 TTATATTTAGTTGTTTATTTTCACATTTAATTTATTGATTTTTTGTTTATTTATTTATTTATCAT
1 TTATATTTAGTTGTTTATTTTCACATTTAATTTATT-ATTTTTTGTTTATTTATTTAGTTATCAC
31156799 TTATTTTCATGCCTAATCTCAA
65 TTATTTTCATGCCTAATCTCAA
* *
31156821 TTATTTTTA-TTGTTTATTTT-AGCATTTACTTTTATT-TTTGTTT-TTTATTTATATT-GTTAT
1 TTATATTTAGTTGTTTATTTTCA-CATTTA-ATTTATTATTT-TTTGTTTATTTAT-TTAGTTAT
* * *
31156881 TACTTATTTTCATTCC--AT-T-TA
62 CACTTATTTTCATGCCTAATCTCAA
* * * *
31156902 TTAT-TTT--TTATTTAATTT-ACATTTATTGTTATTATCTTGTTTGTTTATTTATTTATTTATC
1 TTATATTTAGTTGTTTATTTTCACATTTAAT-TTATTAT-TT-TTTGTTTATTTATTTAGTTATC
31156963 A
63 A
31156964 TTAAATTTTA
Statistics
Matches: 123, Mismatches: 11, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
77 2 0.02
78 11 0.09
79 11 0.09
80 11 0.09
81 19 0.15
82 1 0.01
83 2 0.02
85 30 0.24
86 22 0.18
87 14 0.11
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.65
Consensus pattern (86 bp):
TTATATTTAGTTGTTTATTTTCACATTTAATTTATTATTTTTTGTTTATTTATTTAGTTATCACT
TATTTTCATGCCTAATCTCAA
Found at i:31162358 original size:46 final size:46
Alignment explanation
Indices: 31162302--31162390 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
31162292 AAGAGGGTTT
* * * *
31162302 GAGTTGAAAACCTAAAAGGGCGGCTCGAACTAGCAAAAAAAAGTTC
1 GAGTTAAAAACCTAAAAGGGCAGCTCAAACTAGAAAAAAAAAGTTC
*
31162348 GAGTTAAAAACCTAAAAGGGCAGCTTAAACTAGAAAAAAAAAG
1 GAGTTAAAAACCTAAAAGGGCAGCTCAAACTAGAAAAAAAAAG
31162391 AAAAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (46 bp):
GAGTTAAAAACCTAAAAGGGCAGCTCAAACTAGAAAAAAAAAGTTC
Found at i:31162400 original size:6 final size:6
Alignment explanation
Indices: 31162381--31162436 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
31162371 CTTAAACTAG
* *
31162381 AAAA-A AAAAGA AAAAAA AAAAGA AAAAGA AAAAG- -AGAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
31162426 AAAAGGA AAAA
1 AAAA-GA AAAA
31162437 AAGAGAGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
4 3 0.07
5 4 0.09
6 30 0.70
7 6 0.14
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:31162410 original size:28 final size:28
Alignment explanation
Indices: 31162379--31162459 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
31162369 AGCTTAAACT
31162379 AGAAAAAAAAAGAAAAAAAAAAAGAAAA
1 AGAAAAAAAAAGAAAAAAAAAAAGAAAA
* * *
31162407 AGAAAAAGAGAGAAAAAGAAAAAGGAAAA
1 AGAAAAAAAAAGAAAAA-AAAAAAGAAAA
* * *
31162436 A-AAGAGAGAAGAAAACAAAAAAAG
1 AGAAAAAAAAAGAAAA-AAAAAAAG
31162460 GTGGGGTCGA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
28 30 0.71
29 12 0.29
ACGTcount: A:0.80, C:0.01, G:0.19, T:0.00
Consensus pattern (28 bp):
AGAAAAAAAAAGAAAAAAAAAAAGAAAA
Found at i:31162412 original size:16 final size:16
Alignment explanation
Indices: 31162379--31162456 Score: 68
Period size: 16 Copynumber: 4.7 Consensus size: 16
31162369 AGCTTAAACT
31162379 AGAAAAAAAAAGAAAAA
1 AGAAAAAAAAAG-AAAA
*
31162396 AAAAAAGAAAAAGAAAA
1 AGAAAA-AAAAAGAAAA
* *
31162413 AGAGAGAAAAAGAAAA
1 AGAAAAAAAAAGAAAA
* *
31162429 AG-GAAAAAAAGAGAGA
1 AGAAAAAAAAAGA-AAA
31162445 AGAAAACAAAAA
1 AGAAAA-AAAAA
31162457 AAGGTGGGGT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
15 9 0.18
16 16 0.32
17 14 0.28
18 11 0.22
ACGTcount: A:0.81, C:0.01, G:0.18, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAGAAAA
Found at i:31162430 original size:22 final size:22
Alignment explanation
Indices: 31162397--31162459 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
31162387 AAAGAAAAAA
31162397 AAAAAGAAAAAGAAAAAGAGAG
1 AAAAAGAAAAAGAAAAAGAGAG
*
31162419 AAAAAGAAAAAGGAAAAAAAGAG
1 AAAAAGAAAAA-GAAAAAGAGAG
* *
31162442 -AGAAGAAAACAAAAAAAG
1 AAAAAGAAAA-AGAAAAAG
31162460 GTGGGGTCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 24 0.69
23 11 0.31
ACGTcount: A:0.78, C:0.02, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAGAAAAAGAGAG
Found at i:31163536 original size:49 final size:49
Alignment explanation
Indices: 31163483--31163985 Score: 377
Period size: 49 Copynumber: 10.3 Consensus size: 49
31163473 GAGAGATAGG
* *
31163483 TTGAAGCCGCAACGGCGGACCTAACACCCTAAAATCGAAGAGGGAAAGA
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATCGAAGAGGGAAAGA
* * * * * * *
31163532 TTGAAGCCGCAATGATGGATCTTACACCTTAAAATAGAAGAGGGATAGG
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATCGAAGAGGGAAAGA
* * *
31163581 TTGAAGCCGCAACAGTGGACCTAACACCCTAAAACCGAAGA-GGAAAGAA
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATCGAAGAGGGAAAG-A
* * * * * * * *
31163630 TTAAAGTCGCAACGATGGATCTTACACCTTAAAA-CTGAAAAGGGATAGG
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATC-GAAGAGGGAAAGA
* * * * * * *
31163679 TTGATGTCGCAATGGTGGACCTAACATCCAAAAATCGAAGAGGGATAGA
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATCGAAGAGGGAAAGA
* * * * * *
31163728 TTGAAGCTGTAACAGCGGATCAAACACCCTAAAATCGAAGAGAGAAAGA
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATCGAAGAGGGAAAGA
** * * * * * *
31163777 TTGAAGTTGTAATGGTGAATCTTACACCTTAAAATCGAAAAGGGAAAGA
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATCGAAGAGGGAAAGA
* * * * * *
31163826 TTGAAACCGCAACGGTGGATCTTACACCTTAAAA-CTGAAAAGGGATAGG
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATC-GAAGAGGGAAAGA
* * * * * * * *
31163875 TTGAAACCACAATGGTGAACCTAACACCCTAAAAGT-AAAGAGGGATAGG
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAA-TCGAAGAGGGAAAGA
* * * * * *
31163924 TTAAAGCTGCAACGGTAGA-CTAACACCTTAAAACCAAAGAGGGAAAGA
1 TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATCGAAGAGGGAAAGA
*
31163972 TTGAAGCCGTAACG
1 TTGAAGCCGCAACG
31163986 ACGAATCTTA
Statistics
Matches: 353, Mismatches: 93, Indels: 17
0.76 0.20 0.04
Matches are distributed among these distances:
48 42 0.12
49 305 0.86
50 6 0.02
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (49 bp):
TTGAAGCCGCAACGGTGGATCTAACACCCTAAAATCGAAGAGGGAAAGA
Found at i:31163641 original size:98 final size:97
Alignment explanation
Indices: 31163469--31163985 Score: 443
Period size: 98 Copynumber: 5.3 Consensus size: 97
31163459 ATTCTAGAGT
* *
31163469 TGAAGAGAGATAGGTTGAAGCCGCAACGGCGGACCTAACACCCTAAAATCGAAGAGGGAAAGATT
1 TGAAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCCTAAAATCGAAGA-GGAAAGATT
* *
31163534 GAAGCCGCAATGATGGATCTTACACCTTAAAA-
65 AAAGCCGCAACGATGGATCTTACACCTTAAAAC
* *
31163566 TAGAAGAGGGATAGGTTGAAGCCGCAACAGTGGACCTAACACCCTAAAACCGAAGAGGAAAGAAT
1 T-GAAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCCTAAAATCGAAGAGGAAAG-AT
*
31163631 TAAAGTCGCAACGATGGATCTTACACCTTAAAAC
64 TAAAGCCGCAACGATGGATCTTACACCTTAAAAC
* * * * * * *
31163665 TGAAAAGGGATAGGTTGATGTCGCAATGGTGGACCTAACATCCAAAAATCGAAGAGGGATAGATT
1 TGAAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCCTAAAATCGAAGA-GGAAAGATT
* * * * ** *
31163730 GAAGCTGTAAC-AGCGGATCAAACACCCTAAAA-
65 AAAGCCGCAACGA-TGGATCTTACACCTTAAAAC
* * * ** * * * * * * *
31163762 TCGAAGAGAGAAAGATTGAAGTTGTAATGGTGAATCTTACACCTTAAAATCGAAAAGGGAAAGAT
1 T-GAAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCCTAAAATCGAAGA-GGAAAGAT
*
31163827 TGAAA-CCGCAACGGTGGATCTTACACCTTAAAAC
64 T-AAAGCCGCAACGATGGATCTTACACCTTAAAAC
* * * * * * * *
31163861 TGAAAAGGGATAGGTTGAAACCACAATGGTGAACCTAACACCCTAAAAGT-AAAGAGGGATAGGT
1 TGAAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCCTAAAA-TCGAAGA-GGAAAGAT
* * * *
31163925 TAAAGCTGCAACGGTAGA-CTAACACCTTAAAAC
64 TAAAGCCGCAACGATGGATCTTACACCTTAAAAC
** * * *
31163958 CAAAGAGGGAAAGATTGAAGCCGTAACG
1 TGAAGAGGGATAGGTTGAAGCCGCAACG
31163986 ACGAATCTTA
Statistics
Matches: 334, Mismatches: 75, Indels: 22
0.77 0.17 0.05
Matches are distributed among these distances:
97 45 0.13
98 279 0.84
99 10 0.03
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (97 bp):
TGAAGAGGGATAGGTTGAAGCCGCAACGGTGGACCTAACACCCTAAAATCGAAGAGGAAAGATTA
AAGCCGCAACGATGGATCTTACACCTTAAAAC
Found at i:31163839 original size:196 final size:196
Alignment explanation
Indices: 31163477--31164006 Score: 584
Period size: 196 Copynumber: 2.7 Consensus size: 196
31163467 GTTGAAGAGA
* * * * *
31163477 GATAGGTTGAAGCCGCAACGGCGGACCTAACACCCTAAAATCGAAGAGGGAAAGATTGAAGCCGC
1 GATAGGTTGAAGCCGCAATGGTGGACCTAACACCCAAAAATCGAAGAGGGATAGATTGAAGCTGC
* * * * * * * * * *
31163542 AA-TGATGGATCTTACACCTTAAAATAGAAGAGGGATAGGTTGAAGCCGCAACAGTGGACCTAAC
66 AACAG-TGGATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGCCGTAACGGTGAATCTTAC
* * *
31163606 ACCCTAAAACCGAAGAGGAAAGAATTAAAGTCGCAACGATGGATCTTACACCTTAAAACTGAAAA
130 ACCTTAAAACCGAAAAGGAAAGAATTAAAGCCGCAACGATGGATCTTACACCTTAAAACTGAAAA
31163671 GG
195 GG
* * * *
31163673 GATAGGTTGATGTCGCAATGGTGGACCTAACATCCAAAAATCGAAGAGGGATAGATTGAAGCTGT
1 GATAGGTTGAAGCCGCAATGGTGGACCTAACACCCAAAAATCGAAGAGGGATAGATTGAAGCTGC
* * * * ** *
31163738 AACAGCGGATCAAACACCCTAAAATCGAAGAGAGAAAGATTGAAGTTGTAATGGTGAATCTTACA
66 AACAGTGGATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGCCGTAACGGTGAATCTTACA
* *
31163803 CCTTAAAATCGAAAAGGGAAAG-ATTGAAA-CCGCAACGGTGGATCTTACACCTTAAAACTGAAA
131 CCTTAAAACCGAAAA-GGAAAGAATT-AAAGCCGCAACGATGGATCTTACACCTTAAAACTGAAA
31163866 AGG
194 AGG
* * * * * * *
31163869 GATAGGTTGAAACCACAATGGTGAACCTAACACCCTAAAAGT-AAAGAGGGATAGGTTAAAGCTG
1 GATAGGTTGAAGCCGCAATGGTGGACCTAACACCC-AAAAATCGAAGAGGGATAGATTGAAGCTG
* * * * **
31163933 CAACGGTAGA-CTAACACCTTAAAACCAAAGAGGGAAAGATTGAAGCCGTAACGACGAATCTTAC
65 CAACAGTGGATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGCCGTAACGGTGAATCTTAC
31163997 ACCCTTAAAA
130 A-CCTTAAAA
31164007 AACTGAACAG
Statistics
Matches: 274, Mismatches: 55, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
195 45 0.16
196 214 0.78
197 15 0.05
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (196 bp):
GATAGGTTGAAGCCGCAATGGTGGACCTAACACCCAAAAATCGAAGAGGGATAGATTGAAGCTGC
AACAGTGGATCTAACACCTTAAAATCGAAGAGGGAAAGATTGAAGCCGTAACGGTGAATCTTACA
CCTTAAAACCGAAAAGGAAAGAATTAAAGCCGCAACGATGGATCTTACACCTTAAAACTGAAAAG
G
Found at i:31163901 original size:147 final size:147
Alignment explanation
Indices: 31163506--31163980 Score: 455
Period size: 147 Copynumber: 3.2 Consensus size: 147
31163496 GGCGGACCTA
* * *
31163506 ACACCCTAAAATCGAAGAGGGAAAGATTGAAGCCGCAATGATGGATCTTACACCTTAAAATAGAA
1 ACACCTTAAAATCGAAAAGGGAAAGATTGAAGCCGCAATGGTGGATCTTACACCTTAAAATAGAA
31163571 GAGGGATAGGTTGAAGCCGCAACAGTGGACCTAACACCCTAAAACCGAAGAGGAAAGAATTAAAG
66 GAGGGATAGGTTGAAGCCGCAACAGTGGACCTAACACCCTAAAACCGAAGAGGAAAGAATTAAAG
*
31163636 TCGCAACGATGGATCTT
131 TCGCAACGATGAATCTT
* * * * * * * *
31163653 ACACCTTAAAA-CTGAAAAGGGATAGGTTGATGTCGCAATGGTGGACCTAACATCC-AAAAATCG
1 ACACCTTAAAATC-GAAAAGGGAAAGATTGAAGCCGCAATGGTGGATCTTACA-CCTTAAAATAG
* * * * * * * *
31163716 AAGAGGGATAGATTGAAGCTGTAACAGCGGATCAAACACCCTAAAATCGAAGAGAGAAAG-ATTG
64 AAGAGGGATAGGTTGAAGCCGCAACAGTGGACCTAACACCCTAAAACCGAAGAG-GAAAGAATTA
* * * *
31163780 AAGTTGTAATGGTGAATCTT
128 AAGTCGCAACGATGAATCTT
* *
31163800 ACACCTTAAAATCGAAAAGGGAAAGATTGAAACCGCAACGGTGGATCTTACACCTTAAAACT-GA
1 ACACCTTAAAATCGAAAAGGGAAAGATTGAAGCCGCAATGGTGGATCTTACACCTTAAAA-TAGA
* * * ** * *** * *
31163864 AAAGGGATAGGTTGAAACCACAATGGTGAACCTAACACCCTAAAAGTAAAGAGGGATAG-GTTAA
65 AGAGGGATAGGTTGAAGCCGCAACAGTGGACCTAACACCCTAAAACCGAAGA-GGAAAGAATTAA
* *
31163928 AG-CTGCAACGGT-AGA-CTA
129 AGTC-GCAACGATGA-ATCTT
*
31163946 ACACCTTAAAA-CCAAAGAGGGAAAGATTGAAGCCG
1 ACACCTTAAAATCGAAA-AGGGAAAGATTGAAGCCG
31163981 TAACGACGAA
Statistics
Matches: 261, Mismatches: 57, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
145 4 0.02
146 34 0.13
147 213 0.82
148 10 0.04
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (147 bp):
ACACCTTAAAATCGAAAAGGGAAAGATTGAAGCCGCAATGGTGGATCTTACACCTTAAAATAGAA
GAGGGATAGGTTGAAGCCGCAACAGTGGACCTAACACCCTAAAACCGAAGAGGAAAGAATTAAAG
TCGCAACGATGAATCTT
Found at i:31164070 original size:45 final size:45
Alignment explanation
Indices: 31164014--31164545 Score: 669
Period size: 45 Copynumber: 11.9 Consensus size: 45
31164004 AAAAACTGAA
*
31164014 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCCAGAGGGG
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
* * * * *
31164059 CAGATTAAAGCCACCATCTAATATTTTACCCCTAATCTAGAGAGG
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
* * * *
31164104 CAGATTGAAGCTACCATCCAATCTTTTACCCCTAATCAAGAGGGA
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
* * *
31164149 CAGATTGAAGCCACCATCCAGTTTTTTACCCCTAATCCAGAGAGG
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
** * ** *
31164194 CAGATTGAAGTAATCATCCAGTCTTTTACTTCTAATCTAG-GAGG
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
* ** * *
31164238 CAGATTAAAGCCACCATTTAGTCTTTTACCCCTAATCAAGAGGGA
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
* * *
31164283 CAGATTGAAGCAACCATCCAATCTTTTACCCCTAAT-TCAGAGGGA
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCT-AGAGGGG
* **
31164328 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAGTCTAGAATGG
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
*
31164373 CAGATTGAAGCAACCATCCAGTCTTTTA-CCCTAATCTAGAGGGG
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
* * *
31164417 CAGATTGAAGCAACCATCCAGTTTTTTACCCCTAATCCAGA-GGG
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
* *
31164461 TAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGA-GGA
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
* * *
31164505 TAGATTGAAGCAACCATCCAATCTTTTACCCCTAATCTAGA
1 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGA
31164546 AGTGTAACAG
Statistics
Matches: 421, Mismatches: 62, Indels: 9
0.86 0.13 0.02
Matches are distributed among these distances:
44 156 0.37
45 264 0.63
46 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (45 bp):
CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGAGGGG
Found at i:31164267 original size:179 final size:177
Alignment explanation
Indices: 31164014--31164546 Score: 739
Period size: 179 Copynumber: 3.0 Consensus size: 177
31164004 AAAAACTGAA
* *
31164014 CAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCCAGAGGGGCAGATTAAAGCCACCATCTA
1 CAGATTGAAGCAACCATCCAGTCTTTTA-CCCTAATCTAGAGGGGCAGATTAAAGCCACCATCTA
* * *
31164079 ATATTTTACCCCTAATCTAGAGAGGCAGATTGAAGCTACCATCCAATCTTTTACCCCTAATCAAG
65 GTATTTTACCCCTAATCAAGAG-GGCAGATTGAAGCAACCATCCAATCTTTTACCCCTAATC-AG
*
31164144 AGGGACAGATTGAAGCCACCATCCAGTTTTTTACCCCTAATCCAGAGA-GG
128 AGGGACAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCCAGA-ATGG
* * * * *
31164194 CAGATTGAAGTAATCATCCAGTCTTTTACTTCTAATCTAG-GAGGCAGATTAAAGCCACCATTTA
1 CAGATTGAAGCAACCATCCAGTCTTTTAC-CCTAATCTAGAGGGGCAGATTAAAGCCACCATCTA
*
31164258 GTCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCAACCATCCAATCTTTTACCCCTAATTCAG
65 GTATTTTACCCCTAATCAAGAGGG-CAGATTGAAGCAACCATCCAATCTTTTACCCCTAA-TCAG
* *
31164323 AGGGACAGATTGAAGCCACCATCCAGTCTTTTACCCCTAGTCTAGAATGG
128 AGGGACAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCCAGAATGG
* * *
31164373 CAGATTGAAGCAACCATCCAGTCTTTTACCCTAATCTAGAGGGGCAGATTGAAGCAACCATCCAG
1 CAGATTGAAGCAACCATCCAGTCTTTTACCCTAATCTAGAGGGGCAGATTAAAGCCACCATCTAG
* * * * *
31164438 TTTTTTACCCCTAATCCAGAGGGTAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCTAGA-
66 TATTTTACCCCTAATCAAGAGGGCAGATTGAAGCAACCATCCAATCTTTTACCCCTAATC-AGAG
* * * *
31164502 GGATAGATTGAAGCAACCATCCAATCTTTTACCCCTAATCTAGAA
130 GGACAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCCAGAA
31164547 GTGTAACAGC
Statistics
Matches: 316, Mismatches: 31, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
177 43 0.14
178 47 0.15
179 191 0.60
180 35 0.11
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (177 bp):
CAGATTGAAGCAACCATCCAGTCTTTTACCCTAATCTAGAGGGGCAGATTAAAGCCACCATCTAG
TATTTTACCCCTAATCAAGAGGGCAGATTGAAGCAACCATCCAATCTTTTACCCCTAATCAGAGG
GACAGATTGAAGCCACCATCCAGTCTTTTACCCCTAATCCAGAATGG
Found at i:31170792 original size:15 final size:17
Alignment explanation
Indices: 31170762--31170793 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
31170752 TGTTTCTTTT
31170762 CTAACTCTTATTGATTA
1 CTAACTCTTATTGATTA
31170779 CTAA-TCTT-TTGATTA
1 CTAACTCTTATTGATTA
31170794 ATTCTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.50
Consensus pattern (17 bp):
CTAACTCTTATTGATTA
Found at i:31178853 original size:20 final size:21
Alignment explanation
Indices: 31178817--31178855 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31178807 ATTTTTGTTA
*
31178817 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
31178838 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
31178856 AATTCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:31181792 original size:25 final size:27
Alignment explanation
Indices: 31181759--31181810 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
31181749 TTAGAAAAGG
31181759 AAAATGAGAAAA-AGAAAGAA-AAAAAT
1 AAAATGAGAAAAGA-AAAGAAGAAAAAT
31181785 AAAA-GAGAAAAGAAAAGAAGAAAAAT
1 AAAATGAGAAAAGAAAAGAAGAAAAAT
31181811 GTTTGCTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (27 bp):
AAAATGAGAAAAGAAAAGAAGAAAAAT
Found at i:31181795 original size:12 final size:13
Alignment explanation
Indices: 31181751--31181808 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
31181741 TCAGTCACTT
31181751 AGAAAAGGAAAATG-
1 AGAAAA-GAAAA-GA
31181765 AGAAAA-AGAAAGA
1 AGAAAAGA-AAAGA
* *
31181778 AAAAAATAAAAG-
1 AGAAAAGAAAAGA
31181790 AGAAAAGAAAAGA
1 AGAAAAGAAAAGA
31181803 AGAAAA
1 AGAAAA
31181809 ATGTTTGCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 12 0.32
13 18 0.49
14 7 0.19
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (13 bp):
AGAAAAGAAAAGA
Found at i:31181808 original size:20 final size:19
Alignment explanation
Indices: 31181751--31181809 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
31181741 TCAGTCACTT
31181751 AGAAAAGGAAAATG-AGAAAA
1 AGAAAA-GAAAA-GAAGAAAA
* *
31181771 AG-AAAGAAAAAAATAAAA
1 AGAAAAGAAAAGAAGAAAA
31181789 GAGAAAAGAAAAGAAGAAAA
1 -AGAAAAGAAAAGAAGAAAA
31181809 A
1 A
31181810 TGTTTGCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 10 0.31
19 6 0.19
20 16 0.50
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (19 bp):
AGAAAAGAAAAGAAGAAAA
Found at i:31192530 original size:42 final size:42
Alignment explanation
Indices: 31192478--31192626 Score: 183
Period size: 42 Copynumber: 3.5 Consensus size: 42
31192468 GAGGATTTGT
* * * *
31192478 ATTAATGGAAGACTCACGTCTCAAAATGAGAATGAGAATATG
1 ATTAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATG
*
31192520 ATTAAAGGAAGACTCATATCTCGAGATGAGAATGAGAATATG
1 ATTAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATG
* * * *
31192562 AGTAAAGGAATACTCATGTCTTGGGGA-GAGAATGAGAATATG
1 ATTAAAGGAAGACTCATGTC-TCGAGATGAGAATGAGAATATG
* *
31192604 ATTAAAGGAAGACTTATGACTCG
1 ATTAAAGGAAGACTCATGTCTCG
31192627 TTAGAGCATA
Statistics
Matches: 91, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.02
42 85 0.93
43 4 0.04
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (42 bp):
ATTAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATG
Found at i:31193311 original size:3 final size:3
Alignment explanation
Indices: 31193303--31193341 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
31193293 TATATCCCAA
31193303 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
31193342 GAATAGAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31194401 original size:20 final size:20
Alignment explanation
Indices: 31194376--31194502 Score: 110
Period size: 20 Copynumber: 5.7 Consensus size: 20
31194366 TTTTCGAAAA
31194376 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
31194396 AAAGTCAACGGTCGGTGGTCAACGGTC
1 AAAGTCAA----C---GGTCAACGGTC
*
31194423 AAAGTCAATGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
*
31194443 AAAGTCAACGGTCAGTGGTCAACGATC
1 AAAGTCAA----C---GGTCAACGGTC
31194470 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTC
31194490 AAAGTCAACGGTC
1 AAAGTCAACGGTC
31194503 GGTCAACGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 28
0.74 0.03 0.23
Matches are distributed among these distances:
20 50 0.56
23 1 0.01
24 1 0.01
27 37 0.42
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGGTC
Found at i:31194442 original size:27 final size:28
Alignment explanation
Indices: 31194379--31194502 Score: 105
Period size: 27 Copynumber: 4.6 Consensus size: 28
31194369 TCGAAAAAAA
31194379 GTCAACGGTCAACGGTCAA-AGTCAACG
1 GTCAACGGTCAACGGTCAACAGTCAACG
*** *
31194406 GTCGGTGGTCAACGGTCAA-AGTCAATG
1 GTCAACGGTCAACGGTCAACAGTCAACG
* * **
31194433 GTCAACGGTCAA-AGTCAACGGTCAGTG
1 GTCAACGGTCAACGGTCAACAGTCAACG
* * *
31194460 GTCAACGATCAA-AGTCAACGGTCAACG
1 GTCAACGGTCAACGGTCAACAGTCAACG
*
31194487 GTCAA-AGTCAACGGTC
1 GTCAACGGTCAACGGTC
31194503 GGTCAACGAT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 9 0.11
27 70 0.89
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.18
Consensus pattern (28 bp):
GTCAACGGTCAACGGTCAACAGTCAACG
Found at i:31194445 original size:47 final size:47
Alignment explanation
Indices: 31194376--31194505 Score: 233
Period size: 47 Copynumber: 2.8 Consensus size: 47
31194366 TTTTCGAAAA
*
31194376 AAAGTCAACGGTCAACGGTCAAAGTCAACGGTCGGTGGTCAACGGTC
1 AAAGTCAACGGTCAACGGTCAAAGTCAACGGTCGGTGGTCAACGATC
* *
31194423 AAAGTCAATGGTCAACGGTCAAAGTCAACGGTCAGTGGTCAACGATC
1 AAAGTCAACGGTCAACGGTCAAAGTCAACGGTCGGTGGTCAACGATC
31194470 AAAGTCAACGGTCAACGGTCAAAGTCAACGGTCGGT
1 AAAGTCAACGGTCAACGGTCAAAGTCAACGGTCGGT
31194506 CAACGATGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.18
Consensus pattern (47 bp):
AAAGTCAACGGTCAACGGTCAAAGTCAACGGTCGGTGGTCAACGATC
Found at i:31194630 original size:21 final size:21
Alignment explanation
Indices: 31194562--31194630 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
31194552 CTTGGTTGAA
*
31194562 TTGGTTTGG-TTCAAATGGGT
1 TTGGTTTGGTTTTAAATGGGT
*
31194582 TTGGTTAGGTTTTAAATGGGT
1 TTGGTTTGGTTTTAAATGGGT
31194603 TTGGTTTGGTTTTAAATGGGT
1 TTGGTTTGGTTTTAAATGGGT
31194624 TTGGTTT
1 TTGGTTT
31194631 AAATGGGATT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 8 0.18
21 37 0.82
ACGTcount: A:0.14, C:0.01, G:0.33, T:0.51
Consensus pattern (21 bp):
TTGGTTTGGTTTTAAATGGGT
Found at i:31194633 original size:15 final size:16
Alignment explanation
Indices: 31194605--31194643 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
31194595 AAATGGGTTT
31194605 GGTTTGGTTTTAAATG
1 GGTTTGGTTTTAAATG
31194621 GGTTTGG-TTTAAATG
1 GGTTTGGTTTTAAATG
31194636 GGATTTGG
1 GG-TTTGG
31194644 GCTTGATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (16 bp):
GGTTTGGTTTTAAATG
Found at i:31195131 original size:17 final size:17
Alignment explanation
Indices: 31195109--31195142 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31195099 AAGGTAAGGA
31195109 AAAAAAGAAAGAAAAAG
1 AAAAAAGAAAGAAAAAG
31195126 AAAAAAGAAAGAAAAAG
1 AAAAAAGAAAGAAAAAG
31195143 GTTTGGGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAGAAAAAG
Found at i:31195136 original size:11 final size:10
Alignment explanation
Indices: 31195108--31195141 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
31195098 TAAGGTAAGG
31195108 AAAAAAAGAA
1 AAAAAAAGAA
*
31195118 AGAAAAAGAA
1 AAAAAAAGAA
31195128 AAAAGAAAGAA
1 AAAA-AAAGAA
31195139 AAA
1 AAA
31195142 GGTTTGGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:31200581 original size:3 final size:3
Alignment explanation
Indices: 31200573--31200601 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
31200563 TTTATATCCC
31200573 ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31200602 GAATAGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:31201661 original size:20 final size:20
Alignment explanation
Indices: 31201636--31201784 Score: 161
Period size: 20 Copynumber: 7.8 Consensus size: 20
31201626 TTTTTGAAAA
31201636 AAAGTCAACAGTCAACGGTC
1 AAAGTCAACAGTCAACGGTC
* **
31201656 AAAGTCAACGGTCAGTGGTC
1 AAAGTCAACAGTCAACGGTC
31201676 AACAGTCAA-AGTCAACGGTC
1 AA-AGTCAACAGTCAACGGTC
31201696 AAAGGTCAA-AGTCAACGGT-
1 AAA-GTCAACAGTCAACGGTC
* *
31201715 -TAGT----GGTCAACGGTC
1 AAAGTCAACAGTCAACGGTC
31201730 AAAGTCAACAGTCAACGGTC
1 AAAGTCAACAGTCAACGGTC
*
31201750 AAAGTCAACGGTCAACGGTC
1 AAAGTCAACAGTCAACGGTC
*
31201770 AAAGTCAACGGTCAA
1 AAAGTCAACAGTCAA
31201785 TCAACGGTCG
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
14 9 0.08
16 3 0.03
17 2 0.02
18 1 0.01
19 1 0.01
20 88 0.80
21 6 0.05
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (20 bp):
AAAGTCAACAGTCAACGGTC
Found at i:31201677 original size:27 final size:26
Alignment explanation
Indices: 31201646--31201803 Score: 131
Period size: 27 Copynumber: 6.3 Consensus size: 26
31201636 AAAGTCAACA
31201646 GTCAACGGTCAAAGTCAACGGTCAGTG
1 GTCAACGGTCAAAGTCAACGGTCA-TG
*
31201673 GTCAACAGTCAAAGTCAACGGTCA--
1 GTCAACGGTCAAAGTCAACGGTCATG
*
31201697 ---AA-GGTCAAAGTCAACGGTTAGTG
1 GTCAACGGTCAAAGTCAACGGTCA-TG
* *
31201720 GTCAACGGTCAAAGTCAACAGTCAACG
1 GTCAACGGTCAAAGTCAACGGTC-ATG
* * **
31201747 GTCAA-AGTCAACGGTCAACGGTCAAA
1 GTCAACGGTCAA-AGTCAACGGTCATG
31201773 GTCAACGGTC-AA-TCAACGGTC--G
1 GTCAACGGTCAAAGTCAACGGTCATG
31201795 GTCAACGGT
1 GTCAACGGT
31201804 GGTCAACGCC
Statistics
Matches: 107, Mismatches: 14, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
20 16 0.15
21 2 0.02
22 9 0.08
24 9 0.08
26 14 0.13
27 56 0.52
28 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.18
Consensus pattern (26 bp):
GTCAACGGTCAAAGTCAACGGTCATG
Found at i:31201784 original size:47 final size:47
Alignment explanation
Indices: 31201636--31201777 Score: 223
Period size: 47 Copynumber: 3.0 Consensus size: 47
31201626 TTTTTGAAAA
31201636 AAAGTCAACAGTCAACGGTCAAAGTCAACGGTCAGTGGTCAACAGTC
1 AAAGTCAACAGTCAACGGTCAAAGTCAACGGTCAGTGGTCAACAGTC
* * * *
31201683 AAAGTCAACGGTCAAAGGTCAAAGTCAACGGTTAGTGGTCAACGGTC
1 AAAGTCAACAGTCAACGGTCAAAGTCAACGGTCAGTGGTCAACAGTC
**
31201730 AAAGTCAACAGTCAACGGTCAAAGTCAACGGTCAACGGTCAA-AGTC
1 AAAGTCAACAGTCAACGGTCAAAGTCAACGGTCAGTGGTCAACAGTC
31201776 AA
1 AA
31201778 CGGTCAATCA
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
46 5 0.06
47 80 0.94
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (47 bp):
AAAGTCAACAGTCAACGGTCAAAGTCAACGGTCAGTGGTCAACAGTC
Found at i:31201790 original size:11 final size:11
Alignment explanation
Indices: 31201761--31201803 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
31201751 AAGTCAACGG
31201761 TCAACGGTCAAA
1 TCAACGGTC-AA
31201773 GTCAACGGTCAA
1 -TCAACGGTCAA
**
31201785 TCAACGGTCGG
1 TCAACGGTCAA
31201796 TCAACGGT
1 TCAACGGT
31201804 GGTCAACGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 17 0.61
12 2 0.07
13 9 0.32
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.19
Consensus pattern (11 bp):
TCAACGGTCAA
Found at i:31201809 original size:10 final size:10
Alignment explanation
Indices: 31201785--31201823 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
31201775 CAACGGTCAA
31201785 TCAACGGTCGG
1 TCAACGGT-GG
31201796 TCAACGGTGG
1 TCAACGGTGG
**
31201806 TCAACGCCGG
1 TCAACGGTGG
31201816 TCAACGGT
1 TCAACGGT
31201824 TTGACTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (10 bp):
TCAACGGTGG
Found at i:31201864 original size:14 final size:15
Alignment explanation
Indices: 31201845--31201879 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
31201835 TGGGTTGGAC
*
31201845 TTGGTTC-AATTGGT
1 TTGGTTCAAATGGGT
31201859 TTGGTTCAAATGGGT
1 TTGGTTCAAATGGGT
31201874 TTGGTT
1 TTGGTT
31201880 AGGTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.31, T:0.49
Consensus pattern (15 bp):
TTGGTTCAAATGGGT
Found at i:31201922 original size:21 final size:21
Alignment explanation
Indices: 31201854--31201922 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
31201844 CTTGGTTCAA
*
31201854 TTGGTTTGG-TTCAAATGGGT
1 TTGGTTTGGTTTTAAATGGGT
*
31201874 TTGGTTAGGTTTTAAATGGGT
1 TTGGTTTGGTTTTAAATGGGT
31201895 TTGGTTTGGTTTTAAATGGGT
1 TTGGTTTGGTTTTAAATGGGT
31201916 TTGGTTT
1 TTGGTTT
31201923 AAATGAATGT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 8 0.18
21 37 0.82
ACGTcount: A:0.14, C:0.01, G:0.33, T:0.51
Consensus pattern (21 bp):
TTGGTTTGGTTTTAAATGGGT
Found at i:31201925 original size:15 final size:16
Alignment explanation
Indices: 31201897--31201927 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
31201887 AAATGGGTTT
31201897 GGTTTGGTTTTAAATG
1 GGTTTGGTTTTAAATG
31201913 GGTTTGG-TTTAAATG
1 GGTTTGGTTTTAAATG
31201928 AATGTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.48
Consensus pattern (16 bp):
GGTTTGGTTTTAAATG
Found at i:31208557 original size:9 final size:9
Alignment explanation
Indices: 31208543--31208570 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
31208533 ATGATGAAAG
31208543 TTACAAAAA
1 TTACAAAAA
31208552 TTACAAAAA
1 TTACAAAAA
31208561 TTACAAAAA
1 TTACAAAAA
31208570 T
1 T
31208571 ACCATTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (9 bp):
TTACAAAAA
Found at i:31209438 original size:42 final size:42
Alignment explanation
Indices: 31209387--31209529 Score: 189
Period size: 42 Copynumber: 3.4 Consensus size: 42
31209377 TTATATTAAT
* *
31209387 GGAAGACTCACGTCTCGAAATAAGAATGAGAATATGACTAAA
1 GGAAGACTCATGTCTCGAAATGAGAATGAGAATATGACTAAA
* *
31209429 GGAAGACTCATGTCTCGAGATGAGAATGAGAATATGAGTAAA
1 GGAAGACTCATGTCTCGAAATGAGAATGAGAATATGACTAAA
* * *
31209471 GGAAGACTCATGTCTTAGGAA-GAGAATGAGAATATGATTAAA
1 GGAAGACTCATGTC-TCGAAATGAGAATGAGAATATGACTAAA
* *
31209513 GGAAGACTTATGACTCG
1 GGAAGACTCATGTCTCG
31209530 TTAGAGCATA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.02
42 84 0.94
43 3 0.03
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (42 bp):
GGAAGACTCATGTCTCGAAATGAGAATGAGAATATGACTAAA
Found at i:31219725 original size:2 final size:2
Alignment explanation
Indices: 31219718--31219749 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
31219708 CTAAGTCAAT
*
31219718 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31219750 CCAAATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31220323 original size:17 final size:17
Alignment explanation
Indices: 31220301--31220333 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31220291 TTTAATGAGG
31220301 GTTTAAAGGAGTTAGAT
1 GTTTAAAGGAGTTAGAT
31220318 GTTTAAAGGAGTTAGA
1 GTTTAAAGGAGTTAGA
31220334 CATCCACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (17 bp):
GTTTAAAGGAGTTAGAT
Found at i:31221284 original size:17 final size:16
Alignment explanation
Indices: 31221253--31221286 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
31221243 AAATATTTGT
*
31221253 TTAAAAATAACATATA
1 TTAAAAATAAAATATA
31221269 TTAAATAATAAAATATA
1 TTAAA-AATAAAATATA
31221286 T
1 T
31221287 ATTTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAAATAAAATATA
Found at i:31221899 original size:3 final size:3
Alignment explanation
Indices: 31221884--31221974 Score: 51
Period size: 3 Copynumber: 30.7 Consensus size: 3
31221874 ATAACATCCA
* * * * * *
31221884 AAC AAC AAA AAC AAC AAC TAA- AAC AGC AGC AAA AAT AAC AGC AA-
1 AAC AAC AAC AAC AAC AAC -AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * * *
31221928 AAC AAC AAC AAA AAT AAC AGC AAA AAC AAC AAC AAA AAT AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
31221975 AAGCAACACC
Statistics
Matches: 66, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
2 4 0.06
3 60 0.91
4 2 0.03
ACGTcount: A:0.69, C:0.22, G:0.04, T:0.04
Consensus pattern (3 bp):
AAC
Found at i:31221901 original size:12 final size:12
Alignment explanation
Indices: 31221884--31221988 Score: 113
Period size: 12 Copynumber: 8.8 Consensus size: 12
31221874 ATAACATCCA
31221884 AACAACAAAAAC
1 AACAACAAAAAC
*
31221896 AACAACTAAAAC
1 AACAACAAAAAC
* * *
31221908 AGCAGCAAAAAT
1 AACAACAAAAAC
*
31221920 AACAGC-AAAAC
1 AACAACAAAAAC
*
31221931 AACAACAAAAAT
1 AACAACAAAAAC
*
31221943 AACAGCAAAAAC
1 AACAACAAAAAC
*
31221955 AACAACAAAAAT
1 AACAACAAAAAC
*
31221967 AACAACAAAAGC
1 AACAACAAAAAC
*
31221979 AACACCAAAA
1 AACAACAAAA
31221989 TAGTAAAAAA
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
11 9 0.12
12 67 0.88
ACGTcount: A:0.69, C:0.23, G:0.05, T:0.04
Consensus pattern (12 bp):
AACAACAAAAAC
Found at i:31221930 original size:35 final size:35
Alignment explanation
Indices: 31221885--31221988 Score: 66
Period size: 35 Copynumber: 2.9 Consensus size: 35
31221875 TAACATCCAA
* * * * *
31221885 ACAACAAAAACAACAACTAAAACAGCAGCAAAAATA
1 ACAACAAAAACAACAGCAAAAACAACAAC-AAAACA
* * * *
31221921 ACAGC-AAAACAACAACAAAAATAACAGCAAAAACA
1 ACAACAAAAACAACAGCAAAAACAACAAC-AAAACA
* * * *
31221956 ACAACAAAAATAACAACAAAAGCAACACCAAAA
1 ACAACAAAAACAACAGCAAAAACAACAACAAAA
31221989 TAGTAAAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
35 34 0.60
36 23 0.40
ACGTcount: A:0.68, C:0.23, G:0.05, T:0.04
Consensus pattern (35 bp):
ACAACAAAAACAACAGCAAAAACAACAACAAAACA
Found at i:31221954 original size:47 final size:48
Alignment explanation
Indices: 31221884--31221988 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 48
31221874 ATAACATCCA
* * * *
31221884 AACAACAAAAACAACAACTAAAACAGCAGCAAAAATAACAGCAAAA-C
1 AACAACAAAAACAACAACAAAAACAACAACAAAAATAACAACAAAAGC
* *
31221931 AACAACAAAAATAACAGCAAAAACAACAACAAAAATAACAACAAAAGC
1 AACAACAAAAACAACAACAAAAACAACAACAAAAATAACAACAAAAGC
*
31221979 AACACCAAAA
1 AACAACAAAA
31221989 TAGTAAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 40 0.80
48 10 0.20
ACGTcount: A:0.69, C:0.23, G:0.05, T:0.04
Consensus pattern (48 bp):
AACAACAAAAACAACAACAAAAACAACAACAAAAATAACAACAAAAGC
Found at i:31221990 original size:23 final size:23
Alignment explanation
Indices: 31221884--31221988 Score: 129
Period size: 24 Copynumber: 4.4 Consensus size: 23
31221874 ATAACATCCA
* *
31221884 AACAACAAAAACAACAACTAAAAC
1 AACAACAAAAATAACAGC-AAAAC
* *
31221908 AGCAGCAAAAATAACAGCAAAAC
1 AACAACAAAAATAACAGCAAAAC
31221931 AACAACAAAAATAACAGCAAAAAC
1 AACAACAAAAATAACAGC-AAAAC
*
31221955 AACAACAAAAATAACAACAAAAGC
1 AACAACAAAAATAACAGCAAAA-C
*
31221979 AACACCAAAA
1 AACAACAAAA
31221989 TAGTAAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
23 25 0.35
24 46 0.65
ACGTcount: A:0.69, C:0.23, G:0.05, T:0.04
Consensus pattern (23 bp):
AACAACAAAAATAACAGCAAAAC
Found at i:31227494 original size:27 final size:26
Alignment explanation
Indices: 31227446--31227496 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
31227436 GGATTTATTT
*
31227446 AAAATAAAAATATTAAATTTAAATTA
1 AAAACAAAAATATTAAATTTAAATTA
31227472 AAAACAAAAA-ATTATAATATTAAAT
1 AAAACAAAAATATTA-AAT-TTAAAT
31227497 ATTTAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 12 0.55
27 6 0.27
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAACAAAAATATTAAATTTAAATTA
Found at i:31231962 original size:44 final size:44
Alignment explanation
Indices: 31231901--31232036 Score: 138
Period size: 44 Copynumber: 3.1 Consensus size: 44
31231891 AAGTCGCGAG
31231901 TCTTCC-TTTT-AACATAACCTCACACTT-ATCCTC-AGACATGAA
1 TCTTCCTTTTTAAACATAACCTCA-ACTTCATCC-CGAGACATGAA
* ** * *
31231943 TCTTCTTTTTTAAACATAACCTCATGTTCATCCCGATACATGAG
1 TCTTCCTTTTTAAACATAACCTCAACTTCATCCCGAGACATGAA
* * *
31231987 TCTTCCTTTTTAAACATAATCTCATGC-TCATCCCGAGACATGAG
1 TCTTCCTTTTTAAACATAACCTCA-ACTTCATCCCGAGACATGAA
31232031 TCTTCC
1 TCTTCC
31232037 ATTTATACAC
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
42 5 0.06
43 7 0.09
44 67 0.85
ACGTcount: A:0.27, C:0.29, G:0.08, T:0.36
Consensus pattern (44 bp):
TCTTCCTTTTTAAACATAACCTCAACTTCATCCCGAGACATGAA
Found at i:31236026 original size:37 final size:37
Alignment explanation
Indices: 31235978--31236050 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
31235968 TCTTTTCAAT
31235978 TATAGTTTTTTT-AAAATTTTTTATAATATATATTTTC
1 TATAGTTTTTTTCAAAATTTTTTAT-ATATATATTTTC
* * *
31236015 TATATTTTTTTTCTAAATTTTTTATATATTTATTTT
1 TATAGTTTTTTTCAAAATTTTTTATATATATATTTT
31236051 GATATTTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 21 0.66
38 11 0.34
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (37 bp):
TATAGTTTTTTTCAAAATTTTTTATATATATATTTTC
Found at i:31236584 original size:20 final size:20
Alignment explanation
Indices: 31236559--31236606 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
31236549 AATAAAAAAA
31236559 TATCGATACCTTTTACCATG
1 TATCGATACCTTTTACCATG
31236579 TATCGATACCTTTTACCATG
1 TATCGATACCTTTTACCATG
31236599 TATCGATA
1 TATCGATA
31236607 AATTGTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (20 bp):
TATCGATACCTTTTACCATG
Found at i:31237096 original size:38 final size:39
Alignment explanation
Indices: 31237048--31237126 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 39
31237038 AGTTTTAAAG
* * *
31237048 TTTGGGTAGAAATATTAAGGGAG-TTGCAATATTAAGAT
1 TTTGGATAGAAATATTAAGGGAGATTGCAAGATTAAAAT
* *
31237086 TTTGGATAGAAATCTTAAGGGAGATTGTAAGATTAAAAT
1 TTTGGATAGAAATATTAAGGGAGATTGCAAGATTAAAAT
31237125 TT
1 TT
31237127 ATCCTAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 21 0.60
39 14 0.40
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (39 bp):
TTTGGATAGAAATATTAAGGGAGATTGCAAGATTAAAAT
Found at i:31237541 original size:19 final size:20
Alignment explanation
Indices: 31237497--31237536 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31237487 AAAATTTAAA
*
31237497 TAATTTATTTTTTATTATTG
1 TAATTTATTTTTTATTAATG
31237517 TAATTTATTTTTATATTAAT
1 TAATTTATTTTT-TATTAAT
31237537 TATTTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TAATTTATTTTTTATTAATG
Found at i:31248671 original size:21 final size:21
Alignment explanation
Indices: 31248647--31248686 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31248637 TACCCTGTAC
*
31248647 TTCTACCGAAATATGTAAGAG
1 TTCTACCGAAATAAGTAAGAG
31248668 TTCTACCGAAATAAGTAAG
1 TTCTACCGAAATAAGTAAG
31248687 CAGATTTCAA
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:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TTCTACCGAAATAAGTAAGAG
Found at i:31249267 original size:50 final size:50
Alignment explanation
Indices: 31249187--31249385 Score: 247
Period size: 50 Copynumber: 4.0 Consensus size: 50
31249177 TAGAGTTTAG
* *
31249187 CTCTTACAAGCCCAGACAGAACATCGCTCTTACG-GTCCAGAAAGAATATTA
1 CTCTTACGAG-CCAGACAGAATATCGCTCTTACGAG-CCAGAAAGAATATTA
* * * *
31249238 CTCTTAGGAGCTAGACTGAATATCGCTCTTACGAGCCAGAAAGAATATTG
1 CTCTTACGAGCCAGACAGAATATCGCTCTTACGAGCCAGAAAGAATATTA
* * * *
31249288 TTCTTACGAGCCAGACAGAATATCACTCTTACGAGCCAGATAGAATATCA
1 CTCTTACGAGCCAGACAGAATATCGCTCTTACGAGCCAGAAAGAATATTA
* * * *
31249338 CTCTTACGAGCCAGAAAGAATATTGTTCTTACGAGCCAGATAGAATAT
1 CTCTTACGAGCCAGACAGAATATCGCTCTTACGAGCCAGAAAGAATAT
31249386 CGCTCCACCG
Statistics
Matches: 128, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 119 0.93
51 9 0.07
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (50 bp):
CTCTTACGAGCCAGACAGAATATCGCTCTTACGAGCCAGAAAGAATATTA
Found at i:31249293 original size:75 final size:75
Alignment explanation
Indices: 31249168--31249386 Score: 262
Period size: 75 Copynumber: 2.9 Consensus size: 75
31249158 TAGCTTAAAT
* * * * * * * *
31249168 GAGCCTAGATAGAGTTTAGCTCTTACAAGCCCAGACAGAACATCGCTCTTACG-GTCCAGAAAGA
1 GAGCC-AGATAGAATATCGCTCTTACGAG-CCAGAAAGAATATTGTTCTTACGAG-CCAGAAAGA
* *
31249232 ATATTACTCTTAG
63 ATATCACTCTTAC
* *
31249245 GAGCTAGACT-GAATATCGCTCTTACGAGCCAGAAAGAATATTGTTCTTACGAGCCAGACAGAAT
1 GAGCCAGA-TAGAATATCGCTCTTACGAGCCAGAAAGAATATTGTTCTTACGAGCCAGAAAGAAT
31249309 ATCACTCTTAC
65 ATCACTCTTAC
* *
31249320 GAGCCAGATAGAATATCACTCTTACGAGCCAGAAAGAATATTGTTCTTACGAGCCAGATAGAATA
1 GAGCCAGATAGAATATCGCTCTTACGAGCCAGAAAGAATATTGTTCTTACGAGCCAGAAAGAATA
31249385 TC
66 TC
31249387 GCTCCACCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
74 1 0.01
75 100 0.81
76 18 0.15
77 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (75 bp):
GAGCCAGATAGAATATCGCTCTTACGAGCCAGAAAGAATATTGTTCTTACGAGCCAGAAAGAATA
TCACTCTTAC
Found at i:31249398 original size:25 final size:25
Alignment explanation
Indices: 31249186--31249390 Score: 223
Period size: 25 Copynumber: 8.2 Consensus size: 25
31249176 ATAGAGTTTA
* * *
31249186 GCTCTTACAAGCCCAGACAGAACATC
1 GCTCTTACGAG-CCAGAAAGAATATC
*
31249212 GCTCTTACG-GTCCAGAAAGAATATT
1 GCTCTTACGAG-CCAGAAAGAATATC
* * * **
31249237 ACTCTTAGGAGCTAGACTGAATATC
1 GCTCTTACGAGCCAGAAAGAATATC
*
31249262 GCTCTTACGAGCCAGAAAGAATATT
1 GCTCTTACGAGCCAGAAAGAATATC
* *
31249287 GTTCTTACGAGCCAGACAGAATATC
1 GCTCTTACGAGCCAGAAAGAATATC
* *
31249312 ACTCTTACGAGCCAGATAGAATATC
1 GCTCTTACGAGCCAGAAAGAATATC
* *
31249337 ACTCTTACGAGCCAGAAAGAATATT
1 GCTCTTACGAGCCAGAAAGAATATC
* *
31249362 GTTCTTACGAGCCAGATAGAATATC
1 GCTCTTACGAGCCAGAAAGAATATC
31249387 GCTC
1 GCTC
31249391 CACCGAGCTA
Statistics
Matches: 148, Mismatches: 30, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
25 139 0.94
26 9 0.06
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (25 bp):
GCTCTTACGAGCCAGAAAGAATATC
Found at i:31261366 original size:12 final size:12
Alignment explanation
Indices: 31261349--31261377 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
31261339 GAATGAGGAG
31261349 AAAGAGAAAGAA
1 AAAGAGAAAGAA
31261361 AAAGAGAAAGAA
1 AAAGAGAAAGAA
31261373 AAAGA
1 AAAGA
31261378 AGAACCTGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAGAAAGAA
Found at i:31269992 original size:78 final size:78
Alignment explanation
Indices: 31269808--31270009 Score: 246
Period size: 78 Copynumber: 2.6 Consensus size: 78
31269798 GTTTAACTGG
31269808 CTAGAGCTGGGCTCACAC-TGCGGTTTAATCGCTAGGCACTGGGTGTCAGGATTTGACGGACAAT
1 CTAGAGCTGGGCTCACACTTGCGGTTT-ATCGCTAGGCACTGGGTGTCAGGATTTGACGGACAAT
31269872 GTTGGTTAATCCAA
65 GTTGGTTAATCCAA
* * ** * * * * *
31269886 CTAGAGCTGAGCTTACTTTTGTGGTTTATCTGCTAGGCATTGGGTGTCAGGATTTGATGG-GAGT
1 CTAGAGCTGGGCTCACACTTGCGGTTTATC-GCTAGGCACTGGGTGTCAGGATTTGACGGACAAT
*
31269950 GTTGGTTAATCTAA
65 GTTGGTTAATCCAA
* * *
31269964 CTAGAGCGGGGCTCACACTTGCAGTTTATCCGCTAGGAACTGGGTG
1 CTAGAGCTGGGCTCACACTTGCGGTTTAT-CGCTAGGCACTGGGTG
31270010 CCATGATCGT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 67 0.66
79 35 0.34
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (78 bp):
CTAGAGCTGGGCTCACACTTGCGGTTTATCGCTAGGCACTGGGTGTCAGGATTTGACGGACAATG
TTGGTTAATCCAA
Found at i:31281533 original size:24 final size:24
Alignment explanation
Indices: 31281496--31281550 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
31281486 GTTCAGAGTA
*
31281496 AAAATTGTTAGTGCAAATGTAATAC
1 AAAA-TGTCAGTGCAAATGTAATAC
* *
31281521 AAAATGTCAGTGCAACTGTAATAT
1 AAAATGTCAGTGCAAATGTAATAC
31281545 AAAATG
1 AAAATG
31281551 AATTAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.29
Consensus pattern (24 bp):
AAAATGTCAGTGCAAATGTAATAC
Found at i:31283926 original size:3 final size:3
Alignment explanation
Indices: 31283918--31283964 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
31283908 GGGGCAATTC
*
31283918 CTT CTT CTT CTT TTT CTT CCTT C-T CTT CTT CTT CTT CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT CTT
31283962 CTT
1 CTT
31283965 TCTCCTTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.10
3 32 0.82
4 3 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:31283972 original size:21 final size:23
Alignment explanation
Indices: 31283918--31283972 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
31283908 GGGGCAATTC
*
31283918 CTTCTTCTTCTTTTTCTTCCTTCT
1 CTTCTTCTTCTTCTTCTT-CTTCT
31283942 CTTCTTCTTCTTCTTCTT-TTCT
1 CTTCTTCTTCTTCTTCTTCTTCT
*
31283964 -TTCTCCTTC
1 CTTCTTCTTC
31283973 CTCTACCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.28
22 4 0.14
24 17 0.59
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (23 bp):
CTTCTTCTTCTTCTTCTTCTTCT
Found at i:31288293 original size:204 final size:204
Alignment explanation
Indices: 31287938--31288352 Score: 677
Period size: 204 Copynumber: 2.0 Consensus size: 204
31287928 TGCCCATACA
* * *
31287938 CAAAAAAATCATCCATAAATACCTCTAATGAATCCTCGATCATATCCGAGAAGATAGCCATTATA
1 CAAAGAAATCATCCATAAATACCTCTAATGAATACTCGATCATATCCGAGAAGATAGCCATCATA
*
31288003 CACATTTGAAATGTGGCTGAGGCATTGCACAAACCAAATGGCATTCGTCGGAAAGCAAAGGTTCC
66 CACATTTGAAATGTAGCTGAGGCATTGCACAAACCAAATGGCATTCGTCGGAAAGCAAAGGTTCC
* * * ** *
31288068 AAATGGGCATGTGAAAGTTGTCTTTGCTTGGTCCTCCAGCGTGATTGTAATCTGATTGTATCTAG
131 AAATGGGCATGTGAAAGTTGTCTTTGCATGATCCTCCAACGTGATTACAATCTGATTGTATCCAG
31288133 AGTACCCAT
196 AGTACCCAT
*
31288142 CAAAGAAATCATCCATAAATTCCTCTAATGAATACTCGATCATATCCGAGAAGATAGCCATCATA
1 CAAAGAAATCATCCATAAATACCTCTAATGAATACTCGATCATATCCGAGAAGATAGCCATCATA
* * *
31288207 CACCTTTGAAATGTAGTTGGGGCATTGCACAAACCAAATGGCATTCGTCGGAAAGCAAAGGTTCC
66 CACATTTGAAATGTAGCTGAGGCATTGCACAAACCAAATGGCATTCGTCGGAAAGCAAAGGTTCC
* *
31288272 AAATGGGCATGTGAAAGTTGTCTTTTCATGATCCTCCAACGTGATTACAATCTGATTGTATCCAT
131 AAATGGGCATGTGAAAGTTGTCTTTGCATGATCCTCCAACGTGATTACAATCTGATTGTATCCAG
*
31288337 AGTATCCAT
196 AGTACCCAT
31288346 CAAAGAA
1 CAAAGAA
31288353 TCAGTAATAG
Statistics
Matches: 194, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
204 194 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (204 bp):
CAAAGAAATCATCCATAAATACCTCTAATGAATACTCGATCATATCCGAGAAGATAGCCATCATA
CACATTTGAAATGTAGCTGAGGCATTGCACAAACCAAATGGCATTCGTCGGAAAGCAAAGGTTCC
AAATGGGCATGTGAAAGTTGTCTTTGCATGATCCTCCAACGTGATTACAATCTGATTGTATCCAG
AGTACCCAT
Found at i:31291944 original size:24 final size:24
Alignment explanation
Indices: 31291911--31291965 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
31291901 GTTCAGAGTA
31291911 AAAATTGTCAGTGCAAATGTAATAC
1 AAAA-TGTCAGTGCAAATGTAATAC
* *
31291936 AAAATGTCAGTGCAACTGTAATAT
1 AAAATGTCAGTGCAAATGTAATAC
31291960 AAAATG
1 AAAATG
31291966 AATTGATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (24 bp):
AAAATGTCAGTGCAAATGTAATAC
Found at i:31294898 original size:21 final size:21
Alignment explanation
Indices: 31294872--31294940 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
31294862 TGTGGCCAAT
31294872 AGGCTTCGTGCCGGTGTTTTC
1 AGGCTTCGTGCCGGTGTTTTC
*
31294893 AGGCTTTGTGCC--TAG---T-
1 AGGCTTCGTGCCGGT-GTTTTC
*
31294909 AGGCTTCATGCCGGTGTTTTC
1 AGGCTTCGTGCCGGTGTTTTC
*
31294930 AGGCTTTGTGC
1 AGGCTTCGTGC
31294941 ATAGTAGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
16 10 0.28
17 2 0.06
18 1 0.03
19 1 0.03
20 2 0.06
21 20 0.56
ACGTcount: A:0.09, C:0.22, G:0.32, T:0.38
Consensus pattern (21 bp):
AGGCTTCGTGCCGGTGTTTTC
Found at i:31294899 original size:37 final size:37
Alignment explanation
Indices: 31294851--31295109 Score: 342
Period size: 37 Copynumber: 7.0 Consensus size: 37
31294841 CTTGCACAAT
*
31294851 TTTTCAAGCTTTGTGGCC-AATAGGCTTCGTGCCGGTG
1 TTTTCAAGCTTTGT-GCCTAGTAGGCTTCGTGCCGGTG
* *
31294888 TTTTCAGGCTTTGTGCCTAGTAGGCTTCATGCCGGTG
1 TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
* * *
31294925 TTTTCAGGCTTTGTGCATAGTAGGCTTCGTGCCAGTG
1 TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
* *
31294962 TTTTCAAGCTTTGTGCCTAGTAGGCTTCATGCCAGTG
1 TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
*
31294999 TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
1 TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
*
31295036 TTTTCAAGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
1 TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
* * * * * *
31295073 TATTC-GGGTTATGTGCTTAGCAGGCTTTGTGCCGGTG
1 TTTTCAAGCTT-TGTGCCTAGTAGGCTTCGTGCCGGTG
31295110 ATCTAGGAAC
Statistics
Matches: 199, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
36 5 0.03
37 194 0.97
ACGTcount: A:0.12, C:0.20, G:0.30, T:0.37
Consensus pattern (37 bp):
TTTTCAAGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
Found at i:31312602 original size:8 final size:8
Alignment explanation
Indices: 31312591--31312623 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
31312581 AGAAAGAAAG
*
31312591 AAGAGGAA
1 AAGAAGAA
31312599 AAG-AGAA
1 AAGAAGAA
31312606 AAGAAGAA
1 AAGAAGAA
31312614 AAGAAGAA
1 AAGAAGAA
31312622 AA
1 AA
31312624 AATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (8 bp):
AAGAAGAA
Found at i:31312609 original size:15 final size:16
Alignment explanation
Indices: 31312591--31312623 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
31312581 AGAAAGAAAG
*
31312591 AAGAGGAAAAG-AGAA
1 AAGAAGAAAAGAAGAA
31312606 AAGAAGAAAAGAAGAA
1 AAGAAGAAAAGAAGAA
31312622 AA
1 AA
31312624 AATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAAGAAGAA
Found at i:31314666 original size:25 final size:23
Alignment explanation
Indices: 31314613--31314675 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 23
31314603 ATCCTAAAAT
31314613 GGAGAAA-AAAGGATGGTGAGAGAA
1 GGAGAAATAAAGG--GGTGAGAGAA
31314637 GGAGAAATAAAGGGGTGAGATGGAA
1 GGAGAAATAAAGGGGTGAGA--GAA
* *
31314662 TGAGACATAAAGGG
1 GGAGAAATAAAGGG
31314676 AAAGAATGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 7 0.21
24 7 0.21
25 20 0.59
ACGTcount: A:0.46, C:0.02, G:0.41, T:0.11
Consensus pattern (23 bp):
GGAGAAATAAAGGGGTGAGAGAA
Found at i:31318587 original size:28 final size:28
Alignment explanation
Indices: 31318548--31318602 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
31318538 CTACTATTTT
*
31318548 TTTCTAGATTTTACAGTTCTGCCACTAC
1 TTTCTAGATTTTACAATTCTGCCACTAC
*
31318576 TTTCTAGATTTTACAATTTTGCCACTA
1 TTTCTAGATTTTACAATTCTGCCACTA
31318603 GTTTTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (28 bp):
TTTCTAGATTTTACAATTCTGCCACTAC
Found at i:31318614 original size:28 final size:28
Alignment explanation
Indices: 31318555--31318841 Score: 99
Period size: 29 Copynumber: 10.0 Consensus size: 28
31318545 TTTTTTCTAG
* *
31318555 ATTTTACAGTTCTGCCACTA-CTTTCTAG
1 ATTTTACAGTTCTGCCACTAGTTTTC-AA
* *
31318583 ATTTTACAATTTTGCCACTAGTTTTCAA
1 ATTTTACAGTTCTGCCACTAGTTTTCAA
** * ** *
31318611 ATTTTTTAGGTCTATCACT-GTTATCCAAA
1 ATTTTACAGTTCTGCCACTAGTT-TTC-AA
* * *
31318640 ATTTTACACTTCTGCCA-TAATTTTTCCAG
1 ATTTTACAGTTCTGCCACT-AGTTTT-CAA
* * *
31318669 ATTTTATAGTTCTACTACTA-TTTTCTAGA
1 ATTTTACAGTTCTGCCACTAGTTTTC-A-A
* * *
31318698 ATTTTATAGTTTTGTCA-TAGTTTTTCCAA
1 ATTTTACAGTTCTGCCACTAG-TTTT-CAA
* *
31318727 ATTTTACAATTCTGTCACTA-TTTTCAAGA
1 ATTTTACAGTTCTGCCACTAGTTTTC-A-A
* * *
31318756 ATTTTACAGTTTTGCCA-AAGTTTTTCCAG
1 ATTTTACAGTTCTGCCACTAG-TTTT-CAA
* * *
31318785 ATTTTACAATT-TCACCACT-GTTTTTCAG
1 ATTTTACAGTTCT-GCCACTAG-TTTTCAA
* *
31318813 ATTTTACAGTAT-TTCCACTATTTTTCAA
1 ATTTTACAGT-TCTGCCACTAGTTTTCAA
31318841 A
1 A
31318842 AAAAATTACA
Statistics
Matches: 192, Mismatches: 45, Indels: 44
0.68 0.16 0.16
Matches are distributed among these distances:
27 5 0.03
28 72 0.38
29 97 0.51
30 16 0.08
31 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.47
Consensus pattern (28 bp):
ATTTTACAGTTCTGCCACTAGTTTTCAA
Found at i:31318672 original size:29 final size:29
Alignment explanation
Indices: 31318640--31318792 Score: 100
Period size: 29 Copynumber: 5.3 Consensus size: 29
31318630 GTTATCCAAA
*
31318640 ATTTTACACTTCTGCCATAATTTTTCCAG
1 ATTTTACAGTTCTGCCATAATTTTTCCAG
* * * *
31318669 ATTTTATAGTTCT-AC-TACTATTTTCTAG
1 ATTTTACAGTTCTGCCATAAT-TTTTCCAG
* * * * *
31318697 AATTTTATAGTTTTGTCATAGTTTTTCCAA
1 -ATTTTACAGTTCTGCCATAATTTTTCCAG
* * *
31318727 ATTTTACAATTCTGTCACT-A-TTTTCAAG
1 ATTTTACAGTTCTGCCA-TAATTTTTCCAG
*
31318755 AATTTTACAGTTTTGCCA-AAGTTTTTCCAG
1 -ATTTTACAGTTCTGCCATAA-TTTTTCCAG
31318785 ATTTTACA
1 ATTTTACA
31318793 ATTTCACCAC
Statistics
Matches: 95, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
27 3 0.03
28 15 0.16
29 59 0.62
30 15 0.16
31 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.48
Consensus pattern (29 bp):
ATTTTACAGTTCTGCCATAATTTTTCCAG
Found at i:31318722 original size:58 final size:59
Alignment explanation
Indices: 31318546--31318792 Score: 229
Period size: 58 Copynumber: 4.3 Consensus size: 59
31318536 TACTACTATT
* * * *
31318546 TTTTTCTAGATTTTACAGTTCTGC-CACTACTTTCTAG-ATTTTACAATTTTGCCACTAG
1 TTTTTCCAGATTTTACAGTTCTACTCACTATTTTCTAGAATTTTACAGTTTTGCCA-TAG
* ** * * * * * * * *
31318604 -TTTT-CAAATTTTTTAGGTCTA-TCACTGTTATCCAAAATTTTACACTTCTGCCATAA
1 TTTTTCCAGATTTTACAGTTCTACTCACTATTTTCTAGAATTTTACAGTTTTGCCATAG
* * *
31318660 TTTTTCCAGATTTTATAGTTCTACT-ACTATTTTCTAGAATTTTATAGTTTTGTCATAG
1 TTTTTCCAGATTTTACAGTTCTACTCACTATTTTCTAGAATTTTACAGTTTTGCCATAG
* * * * *
31318718 TTTTTCCAAATTTTACAATTCT-GTCACTATTTTCAAGAATTTTACAGTTTTGCCAAAG
1 TTTTTCCAGATTTTACAGTTCTACTCACTATTTTCTAGAATTTTACAGTTTTGCCATAG
31318776 TTTTTCCAGATTTTACA
1 TTTTTCCAGATTTTACA
31318793 ATTTCACCAC
Statistics
Matches: 148, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
56 21 0.14
57 24 0.16
58 102 0.69
59 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (59 bp):
TTTTTCCAGATTTTACAGTTCTACTCACTATTTTCTAGAATTTTACAGTTTTGCCATAG
Found at i:31319941 original size:40 final size:40
Alignment explanation
Indices: 31319896--31320028 Score: 212
Period size: 40 Copynumber: 3.3 Consensus size: 40
31319886 ATAGGTTCAT
* *
31319896 AAGTCTTCCTTTTAACCAATCTTATGCTCTACCGAGTCAC
1 AAGTCTTCCTTTTAATCACTCTTATGCTCTACCGAGTCAC
*
31319936 AAGTCTTCCTTTTAATCACTCTTATGCTCTACCGAGCCAC
1 AAGTCTTCCTTTTAATCACTCTTATGCTCTACCGAGTCAC
* * *
31319976 AAGTCTTCCTTTCAATCACTCTTATGCTCTACTGAGTCAT
1 AAGTCTTCCTTTTAATCACTCTTATGCTCTACCGAGTCAC
31320016 AAGTCTTCCTTTT
1 AAGTCTTCCTTTT
31320029 TAAAAACAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.38
Consensus pattern (40 bp):
AAGTCTTCCTTTTAATCACTCTTATGCTCTACCGAGTCAC
Found at i:31320101 original size:41 final size:43
Alignment explanation
Indices: 31320054--31320159 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
31320044 CGCTATTTTT
* * *
31320054 GAGACATGAGTTTTCCTTTAATAT-AA-TCTCATT-CTCATCTC
1 GAGACATGAGTCTTCCTTTAATATAAATTCTC-TTGCTCAACCC
*
31320095 GAGACATGAGTCTTCCTTTTATATAAATTCTCTTGCTCAACCC
1 GAGACATGAGTCTTCCTTTAATATAAATTCTCTTGCTCAACCC
31320138 GAGACATGAGTCTTCCATTTAA
1 GAGACATGAGTCTTCC-TTTAA
31320160 ATATTGAGTT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 22 0.39
42 4 0.07
43 26 0.46
44 4 0.07
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (43 bp):
GAGACATGAGTCTTCCTTTAATATAAATTCTCTTGCTCAACCC
Found at i:31322952 original size:22 final size:21
Alignment explanation
Indices: 31322901--31322955 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
31322891 TGCAGACTTC
31322901 ATCGATACAAGTGATAGTCCT
1 ATCGATACAAGTGATAGTCCT
* **
31322922 ACCGATACAAGTGACTCTTCCT
1 ATCGATACAAGTGA-TAGTCCT
*
31322944 ATCGGTACAAGT
1 ATCGATACAAGT
31322956 TTTACTCCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (21 bp):
ATCGATACAAGTGATAGTCCT
Found at i:31323762 original size:52 final size:52
Alignment explanation
Indices: 31323639--31323928 Score: 354
Period size: 52 Copynumber: 5.6 Consensus size: 52
31323629 TGCGTATTTG
** * * **
31323639 ATACTCACGATGACACAGGGTCATC-GAACCT-TTAATCCGTAAATAATTCAT
1 ATACTCACGATGACACATAGTCATCAG-ACCTCATAATTCGTAAAGGATTCAT
* *
31323690 ATACTCACGATGACACATAGTCATCAGACCTCATAATTCGCAAAGGATTCTT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATTCGTAAAGGATTCAT
* * *
31323742 ATACTCACAATGACATATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATTCGTAAAGGATTCAT
* *
31323794 ATACTCACGATGATACATAGTCATC-GAACCTTATAA-TCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAG-ACCTCATAATTC-GTAAAGGATTCAT
* * * * *
31323846 ATACTCACGAAGACATATAGTCATCAAACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCAGACCTCATAATTCGTAAAGGATTCAT
*
31323898 ATACTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCAGACCT
31323929 ATTTCATTTA
Statistics
Matches: 205, Mismatches: 28, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
51 30 0.15
52 174 0.85
53 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCAGACCTCATAATTCGTAAAGGATTCAT
Found at i:31323922 original size:156 final size:155
Alignment explanation
Indices: 31323639--31323928 Score: 436
Period size: 156 Copynumber: 1.9 Consensus size: 155
31323629 TGCGTATTTG
* * *
31323639 ATACTCACGATGACACAGGGTCATCGAACCTTTAATCCGTAAATAATTCATATACTCACGATGAC
1 ATACTCACGATGACACAGAGTCATCGAACCTTTAATCCGTAAAGAATTCATATACTCACGAAGAC
* * * * *
31323704 ACATAGTCATCAGACCTCATAATTCGCAAAGGATTCTTATACTCACAATGACATATAGTCATCGG
66 ACATAGTCATCAAACCTCATAATCCACAAAGGATTCATATACTCACAATGACACATAGTCATCGG
31323769 ACCTCATAATTCGTAAAGGATTCAT
131 ACCTCATAATTCGTAAAGGATTCAT
* * * *
31323794 ATACTCACGATGATACATAGTCATCGAACCTTATAATCTGTAAAGGATTCATATACTCACGAAGA
1 ATACTCACGATGACACAGAGTCATCGAACCTT-TAATCCGTAAAGAATTCATATACTCACGAAGA
* * *
31323859 CATATAGTCATCAAACCTCATAATCCATAAAGGATTCATATACTCACGATGACACATAGTCATCG
65 CACATAGTCATCAAACCTCATAATCCACAAAGGATTCATATACTCACAATGACACATAGTCATCG
31323924 GACCT
130 GACCT
31323929 ATTTCATTTA
Statistics
Matches: 119, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
155 29 0.24
156 90 0.76
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (155 bp):
ATACTCACGATGACACAGAGTCATCGAACCTTTAATCCGTAAAGAATTCATATACTCACGAAGAC
ACATAGTCATCAAACCTCATAATCCACAAAGGATTCATATACTCACAATGACACATAGTCATCGG
ACCTCATAATTCGTAAAGGATTCAT
Found at i:31329586 original size:29 final size:29
Alignment explanation
Indices: 31329484--31329583 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 29
31329474 TGCCACAATT
* * *
31329484 TTTTTTAGATTTTATAATTTTACCACTGG
1 TTTTTTAGATTTTACAATTTTGCCATTGG
* *
31329513 TTTTCTAGA--TTACAATTTTGCCATT-A
1 TTTTTTAGATTTTACAATTTTGCCATTGG
* * * *
31329539 TTTTTCAAATTTTATAGTTTTGCCATTGG
1 TTTTTTAGATTTTACAATTTTGCCATTGG
31329568 TTTTTTAGATTTTACA
1 TTTTTTAGATTTTACA
31329584 GTTCTACCAT
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
26 6 0.11
27 13 0.24
28 14 0.26
29 21 0.39
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.55
Consensus pattern (29 bp):
TTTTTTAGATTTTACAATTTTGCCATTGG
Found at i:31329616 original size:58 final size:58
Alignment explanation
Indices: 31329546--31329757 Score: 228
Period size: 58 Copynumber: 3.7 Consensus size: 58
31329536 TTATTTTTCA
** * *
31329546 AATTTTATAGTTTTGCCATTGGTTTTT-TAGATTTTACAGTTCTACCATTACTTTCTAG
1 AATTTTATAGTTTTGCCA-CAGTTTTTCTAGATTTTACAGTTCTACCACTATTTTCTAG
* * * * * * * *
31329604 AATTTTATAGTTTTGACACAGTTTTTCCAAATTCTACAATTCTGCCAGTATTTTCCAG
1 AATTTTATAGTTTTGCCACAGTTTTTCTAGATTTTACAGTTCTACCACTATTTTCTAG
* * * *
31329662 AACTTTATAGTTTTCCCACAATTTTTCTAGATTTTACAGTTCTACCGCTATTTTCTAG
1 AATTTTATAGTTTTGCCACAGTTTTTCTAGATTTTACAGTTCTACCACTATTTTCTAG
* * * *
31329720 ATTTTTATAGTTTTGCTACAATTTTTCCAGATTTTACA
1 AATTTTATAGTTTTGCCACAGTTTTTCTAGATTTTACA
31329758 ATTTTTCCAT
Statistics
Matches: 125, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
57 6 0.05
58 119 0.95
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (58 bp):
AATTTTATAGTTTTGCCACAGTTTTTCTAGATTTTACAGTTCTACCACTATTTTCTAG
Found at i:31329688 original size:30 final size:30
Alignment explanation
Indices: 31329597--31329755 Score: 87
Period size: 29 Copynumber: 5.5 Consensus size: 30
31329587 CTACCATTAC
* *
31329597 TTTCTAGAATTTTATAGTTTTGA-CACAGTT
1 TTTCCAGAATTTTATAGTTTT-ACCACAATT
* * * * * **
31329627 TTTCCA-AATTCTACAATTCTGCCAGTA-T
1 TTTCCAGAATTTTATAGTTTTACCACAATT
* *
31329655 TTTCCAGAACTTTATAGTTTTCCCACAATT
1 TTTCCAGAATTTTATAGTTTTACCACAATT
* * * * *
31329685 TTTCTAG-ATTTTACAGTTCTACCGCTA-T
1 TTTCCAGAATTTTATAGTTTTACCACAATT
* * * *
31329713 TTTCTAGATTTTTATAGTTTTGCTACAATT
1 TTTCCAGAATTTTATAGTTTTACCACAATT
31329743 TTTCCAG-ATTTTA
1 TTTCCAGAATTTTA
31329756 CAATTTTTCC
Statistics
Matches: 91, Mismatches: 33, Indels: 11
0.67 0.24 0.08
Matches are distributed among these distances:
28 15 0.16
29 57 0.63
30 19 0.21
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (30 bp):
TTTCCAGAATTTTATAGTTTTACCACAATT
Found at i:31329700 original size:116 final size:115
Alignment explanation
Indices: 31329523--31329760 Score: 300
Period size: 116 Copynumber: 2.1 Consensus size: 115
31329513 TTTTCTAGAT
* * * * * ***
31329523 TACAATTTTGCCATTATTTTTCAAATTTTATAGTTTTGCCATTGGTTTTTTAGATTTTACAGTTC
1 TACAATTCTGCCAGTATTTTCCAAACTTTATAGTTTTCCCATCAATTTTTTAGATTTTACAGTTC
* *
31329588 TACCATTACTTTCTAGAATTTTATAGTTTTGAC-ACAGTTTTTCCAAATTC
66 TACCACTACTTTCTAGAATTTTATAGTTTTG-CTACAATTTTTCCAAATTC
31329638 TACAATTCTGCCAGTATTTTCCAGAACTTTATAGTTTTCCCA-CAATTTTTCTAGATTTTACAGT
1 TACAATTCTGCCAGTATTTTCCA-AACTTTATAGTTTTCCCATCAATTTTT-TAGATTTTACAGT
* * * * *
31329702 TCTACCGCTATTTTCTAGATTTTTATAGTTTTGCTACAATTTTTCCAGATTT
64 TCTACCACTACTTTCTAGAATTTTATAGTTTTGCTACAATTTTTCCAAATTC
31329754 TACAATT
1 TACAATT
31329761 TTTCCATTGT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
115 26 0.25
116 79 0.75
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (115 bp):
TACAATTCTGCCAGTATTTTCCAAACTTTATAGTTTTCCCATCAATTTTTTAGATTTTACAGTTC
TACCACTACTTTCTAGAATTTTATAGTTTTGCTACAATTTTTCCAAATTC
Found at i:31329743 original size:29 final size:30
Alignment explanation
Indices: 31329665--31329754 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 30
31329655 TTTCCAGAAC
*
31329665 TTTATAGTTTTCCCACAATTTTTCTAGA-T
1 TTTATAGTTTTACCACAATTTTTCTAGATT
* * * *
31329694 TTTACAGTTCTACCGCTA-TTTTCTAGATT
1 TTTATAGTTTTACCACAATTTTTCTAGATT
* * *
31329723 TTTATAGTTTTGCTACAATTTTTCCAGATT
1 TTTATAGTTTTACCACAATTTTTCTAGATT
31329753 TT
1 TT
31329755 ACAATTTTTC
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
28 9 0.19
29 26 0.55
30 12 0.26
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (30 bp):
TTTATAGTTTTACCACAATTTTTCTAGATT
Found at i:31329755 original size:29 final size:29
Alignment explanation
Indices: 31329654--31329755 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 29
31329644 TCTGCCAGTA
* *
31329654 TTTTCCAGAACTTTATAGTTTTCCCACAAT
1 TTTTCCAG-ATTTTATAGTTTTACCACAAT
* * * * *
31329684 TTTTCTAGATTTTACAGTTCTACCGCTA-
1 TTTTCCAGATTTTATAGTTTTACCACAAT
* * *
31329712 TTTTCTAGATTTTTATAGTTTTGCTACAAT
1 TTTTCCAGA-TTTTATAGTTTTACCACAAT
31329742 TTTTCCAGATTTTA
1 TTTTCCAGATTTTA
31329756 CAATTTTTCC
Statistics
Matches: 56, Mismatches: 14, Indels: 5
0.75 0.19 0.07
Matches are distributed among these distances:
28 9 0.16
29 32 0.57
30 15 0.27
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.50
Consensus pattern (29 bp):
TTTTCCAGATTTTATAGTTTTACCACAAT
Found at i:31329782 original size:58 final size:55
Alignment explanation
Indices: 31329539--31329792 Score: 170
Period size: 58 Copynumber: 4.4 Consensus size: 55
31329529 TTTGCCATTA
* * ** *
31329539 TTTTTCAAATTTTATAGTTTTGC-CATTGGTTTTTTAGATTTTACAGTTCTACCA-T
1 TTTTTCAGATTTTATAGTTTTGCACAAT--TTTTCCAGATTTTACAATTCTACCACT
* * * * * *
31329594 TACTTTCTAGAATTTTATAGTTTTGACACAGTTTTTCCAAATTCTACAATTCTGCCAGT
1 T-TTTTC-AG-ATTTTATAGTTTTG-CACAATTTTTCCAGATTTTACAATTCTACCACT
* * * * * *
31329653 ATTTTCCAGAACTTTATAGTTTTCCCACAATTTTTCTAGATTTTACAGTTCTACCGCT
1 -TTTTTCAG-ATTTTATAGTTTT-GCACAATTTTTCCAGATTTTACAATTCTACCACT
* * * *
31329711 ATTTTCTAGATTTTTATAGTTTTGCTACAATTTTTCCAGATTTTACAATTTTTCCATT
1 TTTTTC-AGA-TTTTATAGTTTTGC-ACAATTTTTCCAGATTTTACAATTCTACCACT
* *
31329769 GTTTTTCATATTTTATAATTTTGC
1 -TTTTTCAGATTTTATAGTTTTGC
31329793 CACTATCTTT
Statistics
Matches: 153, Mismatches: 34, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
55 1 0.01
56 4 0.03
57 20 0.13
58 114 0.75
59 10 0.07
60 4 0.03
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (55 bp):
TTTTTCAGATTTTATAGTTTTGCACAATTTTTCCAGATTTTACAATTCTACCACT
Found at i:31332522 original size:30 final size:30
Alignment explanation
Indices: 31332488--31332558 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
31332478 GAAAATTTGG
31332488 AAAGTTTAGGGGTCAAAATGTAACTTTCAA
1 AAAGTTTAGGGGTCAAAATGTAACTTTCAA
* * * * *
31332518 AAAG-TTAGAGGGTTAAAATGTGATTTTTAG
1 AAAGTTTAG-GGGTCAAAATGTAACTTTCAA
31332548 AAAGTTTAGGG
1 AAAGTTTAGGG
31332559 TCCAAAAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 4 0.12
30 26 0.76
31 4 0.12
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAATGTAACTTTCAA
Found at i:31333962 original size:22 final size:23
Alignment explanation
Indices: 31333920--31333974 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
31333910 GGGTTGTGTG
*
31333920 GCTGATGTGGGAGCTGACATGGT
1 GCTGATGTGGCAGCTGACATGGT
31333943 GCTGATGTGGCAG-TGACATGGT
1 GCTGATGTGGCAGCTGACATGGT
*
31333965 GCTGACGTGG
1 GCTGATGTGG
31333975 ACATGGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.16, C:0.15, G:0.44, T:0.25
Consensus pattern (23 bp):
GCTGATGTGGCAGCTGACATGGT
Found at i:31334784 original size:98 final size:98
Alignment explanation
Indices: 31334607--31334788 Score: 267
Period size: 98 Copynumber: 1.9 Consensus size: 98
31334597 TTCGCCGTTG
* * * *
31334607 AGGTACAAGGTTTGCCATTGCGGCTTTAACCTCTCCCTCCATATCTCCTTGGTACCAGATTCGCC
1 AGGTACAAGGTTTGCCATTGCAGCTTTAACCTCTCCCTCCACATCTCCATGGTACCAGATTCACC
*
31334672 GTTGTGGCTCCAATCTTTCTCATCATGTCTCCA
66 GTTGCGGCTCCAATCTTTCTCATCATGTCTCCA
* * *
31334705 AGGTACAAGGTTTGTCATTGCAGCTTTAACCTTTCCCTCCACATCTTCATGGTA-CAGGATTCAC
1 AGGTACAAGGTTTGCCATTGCAGCTTTAACCTCTCCCTCCACATCTCCATGGTACCA-GATTCAC
*
31334769 CGTTGCGGCTTCAATCTTTC
65 CGTTGCGGCTCCAATCTTTC
31334789 CCTTTTATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
97 2 0.03
98 72 0.97
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.34
Consensus pattern (98 bp):
AGGTACAAGGTTTGCCATTGCAGCTTTAACCTCTCCCTCCACATCTCCATGGTACCAGATTCACC
GTTGCGGCTCCAATCTTTCTCATCATGTCTCCA
Found at i:31334874 original size:50 final size:49
Alignment explanation
Indices: 31334819--31334987 Score: 180
Period size: 49 Copynumber: 3.4 Consensus size: 49
31334809 TTAAATCCGT
31334819 CGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGC
1 CGTTGCGGCCTCAATCCTTCCCATCACATCTTC-AAGGTACCGGGTTCGC
* * * * ** *
31334869 TGTTGCGGCCTCAA-CCTTTCCCTTCATATCTTCATGGTACTAGATTCGC
1 CGTTGCGGCCTCAATCC-TTCCCATCACATCTTCAAGGTACCGGGTTCGC
* * * * *
31334918 CATTGCTGCCTTAATCCTTCCCATCACATTTTCAAGGTACCGAGTTCGC
1 CGTTGCGGCCTCAATCCTTCCCATCACATCTTCAAGGTACCGGGTTCGC
* *
31334967 CGTTACAGCCTCAAT-CTTCCC
1 CGTTGCGGCCTCAATCCTTCCC
31334988 TTTCGAACCT
Statistics
Matches: 94, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
48 6 0.06
49 59 0.63
50 29 0.31
ACGTcount: A:0.18, C:0.34, G:0.16, T:0.32
Consensus pattern (49 bp):
CGTTGCGGCCTCAATCCTTCCCATCACATCTTCAAGGTACCGGGTTCGC
Found at i:31334934 original size:99 final size:98
Alignment explanation
Indices: 31334744--31334989 Score: 280
Period size: 99 Copynumber: 2.5 Consensus size: 98
31334734 CCTTTCCCTC
* * * * * *
31334744 CACATCTTCATGGTACAGGATTCACCGTTGCGGCTTCAATCTTTCCCTTTTATATTTCCATGGTA
1 CACATCTTCAAGGTACCGGGTTCGCCGTTGCGGCCTCAATCTTTCCC-TTCATATTTCCATGGTA
* * *
31334809 TTAAATCCGTCGTTGCGGCCTCAATCCTTCCCAT
65 CTAAATCCGCCATTGCGGCCTCAATCCTTCCCAT
* *
31334843 CACATCTTCTAAGGTACCGGGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCATATCTT-CATGGT
1 CACATCTTC-AAGGTACCGGGTTCGCCGTTGCGGCCTCAATCTTTCCCTTCATAT-TTCCATGGT
* * * *
31334907 ACTAGATTCGCCATTGCTGCCTTAATCCTTCCCAT
64 ACTAAATCCGCCATTGCGGCCTCAATCCTTCCCAT
* * * *
31334942 CACATTTTCAAGGTACCGAGTTCGCCGTTACAGCCTCAATC-TTCCCTT
1 CACATCTTCAAGGTACCGGGTTCGCCGTTGCGGCCTCAATCTTTCCCTT
31334990 TCGAACCTAT
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
97 7 0.06
98 27 0.22
99 57 0.46
100 33 0.27
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (98 bp):
CACATCTTCAAGGTACCGGGTTCGCCGTTGCGGCCTCAATCTTTCCCTTCATATTTCCATGGTAC
TAAATCCGCCATTGCGGCCTCAATCCTTCCCAT
Found at i:31336725 original size:40 final size:40
Alignment explanation
Indices: 31336679--31336760 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
31336669 CATGGGGAAG
31336679 TCATGACATGAAGATGCGACGGAGGTACATGAATTTTATC
1 TCATGACATGAAGATGCGACGGAGGTACATGAATTTTATC
31336719 TCATGACATGAAGATGCGACGGAGGTACATGAATTTTATC
1 TCATGACATGAAGATGCGACGGAGGTACATGAATTTTATC
31336759 TC
1 TC
31336761 CATAAATTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (40 bp):
TCATGACATGAAGATGCGACGGAGGTACATGAATTTTATC
Found at i:31346205 original size:24 final size:24
Alignment explanation
Indices: 31346177--31346223 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
31346167 TTCGTTAGTC
*
31346177 AAATAAATTATGCTAATAAATACA
1 AAATAAATTATACTAATAAATACA
*
31346201 AAATACATTATACTAATAAATAC
1 AAATAAATTATACTAATAAATAC
31346224 TATATCTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:31349019 original size:20 final size:20
Alignment explanation
Indices: 31348994--31349039 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
31348984 TATTTTTATG
*
31348994 ATGATTAGAAACATATTTAC
1 ATGATTAGAAACATAATTAC
* * *
31349014 ATGATTTGAGAGATAATTAC
1 ATGATTAGAAACATAATTAC
31349034 ATGATT
1 ATGATT
31349040 TTTTATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGATTAGAAACATAATTAC
Found at i:31349467 original size:29 final size:29
Alignment explanation
Indices: 31349435--31349497 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
31349425 GTGTTTAATA
31349435 TATCTTTTGAAAGGTGGTAATATCTATTT
1 TATCTTTTGAAAGGTGGTAATATCTATTT
31349464 TATCTTTTGAAAGGTGGTAATATCTATTT
1 TATCTTTTGAAAGGTGGTAATATCTATTT
31349493 TATCT
1 TATCT
31349498 CTATTGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (29 bp):
TATCTTTTGAAAGGTGGTAATATCTATTT
Found at i:31353577 original size:7 final size:7
Alignment explanation
Indices: 31353565--31353598 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
31353555 ATTTTATATG
31353565 GAATTTT
1 GAATTTT
31353572 GAATTTT
1 GAATTTT
31353579 GAATTTT
1 GAATTTT
31353586 -AATTATT
1 GAATT-TT
31353593 GAATTT
1 GAATTT
31353599 AAGAGTTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 4 0.16
7 17 0.68
8 4 0.16
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (7 bp):
GAATTTT
Found at i:31355333 original size:53 final size:53
Alignment explanation
Indices: 31355253--31355429 Score: 277
Period size: 53 Copynumber: 3.4 Consensus size: 53
31355243 GTAAATGCAA
31355253 AAAGGTCCGATGACT-TAGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
1 AAAGGTCCGATGACTCT-GTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * *
31355306 AAAGGTCTGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTATGGATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
* * *
31355359 AAAGGTCCGATGATTTTGTGTCATCGTGAGTTATATGAATCCTA-TACAAATT
1 AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
31355411 AAAGGTCCGATGACTCTGT
1 AAAGGTCCGATGACTCTGT
31355430 ACACGTTGAG
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
52 22 0.20
53 89 0.79
54 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (53 bp):
AAAGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGAATT
Found at i:31360688 original size:27 final size:27
Alignment explanation
Indices: 31360657--31360712 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
31360647 ATCACTAACT
31360657 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
31360684 AATACTAATCTAATACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
31360711 AA
1 AA
31360713 AAGAACTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.29
Consensus pattern (27 bp):
AATACTAATCTAATACTAATAGAATAG
Found at i:31360697 original size:5 final size:6
Alignment explanation
Indices: 31360654--31360704 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
31360644 GGGATCACTA
* *
31360654 ACTAAT ACTAAT -CTAAT ACTAAT A-GAAT A-GAAT ACTAAT -CTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
31360698 ACTAAT A
1 ACTAAT A
31360705 GAATAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 19 0.47
6 21 0.52
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (6 bp):
ACTAAT
Found at i:31365727 original size:38 final size:40
Alignment explanation
Indices: 31365664--31365738 Score: 118
Period size: 38 Copynumber: 1.9 Consensus size: 40
31365654 AAATATATTT
*
31365664 CTGTTGTAGAATATTTTTTTGGTTGAGAAAAATCCTCGGG
1 CTGTTGTAGAATATTTTTCTGGTTGAGAAAAATCCTCGGG
*
31365704 CTGTTGTAGAATA-TTTTCT-GTTGAGGAAAATCCTC
1 CTGTTGTAGAATATTTTTCTGGTTGAGAAAAATCCTC
31365739 TACTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 15 0.45
39 5 0.15
40 13 0.39
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (40 bp):
CTGTTGTAGAATATTTTTCTGGTTGAGAAAAATCCTCGGG
Found at i:31375526 original size:20 final size:20
Alignment explanation
Indices: 31375501--31375538 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
31375491 GGGTTTTTAA
31375501 AAAAAGTCAACAGTCAATCC
1 AAAAAGTCAACAGTCAATCC
31375521 AAAAAGTCAACAGTCAAT
1 AAAAAGTCAACAGTCAAT
31375539 AGTCAACTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.21, G:0.11, T:0.16
Consensus pattern (20 bp):
AAAAAGTCAACAGTCAATCC
Found at i:31375535 original size:7 final size:7
Alignment explanation
Indices: 31375526--31375608 Score: 80
Period size: 7 Copynumber: 11.9 Consensus size: 7
31375516 AATCCAAAAA
*
31375526 GTCAACA
1 GTCAACT
31375533 GTCAA-T
1 GTCAACT
31375539 AGTCAACT
1 -GTCAACT
*
31375547 GTCAATT
1 GTCAACT
*
31375554 GTCAATT
1 GTCAACT
31375561 GTCAA-T
1 GTCAACT
31375567 GGTCAACT
1 -GTCAACT
*
31375575 GTCAATT
1 GTCAACT
*
31375582 GTCAACA
1 GTCAACT
*
31375589 GTCAACA
1 GTCAACT
31375596 GTCAACT
1 GTCAACT
31375603 GTCAAC
1 GTCAAC
31375609 GATCAACGGA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
6 1 0.02
7 63 0.95
8 2 0.03
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (7 bp):
GTCAACT
Found at i:31375608 original size:14 final size:14
Alignment explanation
Indices: 31375525--31375607 Score: 103
Period size: 14 Copynumber: 5.9 Consensus size: 14
31375515 CAATCCAAAA
*
31375525 AGTCAACAGTCAAT
1 AGTCAACTGTCAAT
31375539 AGTCAACTGTCAAT
1 AGTCAACTGTCAAT
* *
31375553 TGTCAATTGTCAAT
1 AGTCAACTGTCAAT
*
31375567 GGTCAACTGTCAAT
1 AGTCAACTGTCAAT
* * *
31375581 TGTCAACAGTCAAC
1 AGTCAACTGTCAAT
31375595 AGTCAACTGTCAA
1 AGTCAACTGTCAA
31375608 CGATCAACGG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 59 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (14 bp):
AGTCAACTGTCAAT
Found at i:31375660 original size:17 final size:18
Alignment explanation
Indices: 31375625--31375660 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31375615 CGGATCGTGT
31375625 TCGATCAATGGGTTCGGG
1 TCGATCAATGGGTTCGGG
31375643 TCGATCAATGGG-TCGGG
1 TCGATCAATGGGTTCGGG
31375660 T
1 T
31375661 TGGTCAACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.17, C:0.17, G:0.39, T:0.28
Consensus pattern (18 bp):
TCGATCAATGGGTTCGGG
Found at i:31377378 original size:23 final size:23
Alignment explanation
Indices: 31377343--31377419 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
31377333 ACTAATTATT
31377343 ATTAT-TTTGTAACTCTTCTGCC
1 ATTATGTTTGTAACTCTTCTGCC
**
31377365 ATTATGTTTGTAACTC-TCTTATC
1 ATTATGTTTGTAACTCTTC-TGCC
* * *
31377388 ATTTTATTTGTAACTCTCCTGCC
1 ATTATGTTTGTAACTCTTCTGCC
*
31377411 ATAATGTTT
1 ATTATGTTT
31377420 TGTTTTAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
22 7 0.17
23 34 0.81
24 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.09, T:0.51
Consensus pattern (23 bp):
ATTATGTTTGTAACTCTTCTGCC
Found at i:31377403 original size:46 final size:48
Alignment explanation
Indices: 31377323--31377419 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 48
31377313 CTTTTAATAT
* * *
31377323 TTTGTAACTCACTAATTATTATTATTTTGTAACTCTTCTGCCATTATG
1 TTTGTAACTCACTAATCATTATTATTTTGTAACTCTCCTGCCATAATG
* *
31377371 TTTGTAACTCTCTTATCATT-TTA-TTTGTAACTCTCCTGCCATAATG
1 TTTGTAACTCACTAATCATTATTATTTTGTAACTCTCCTGCCATAATG
31377417 TTT
1 TTT
31377420 TGTTTTAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 24 0.55
47 3 0.07
48 17 0.39
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.51
Consensus pattern (48 bp):
TTTGTAACTCACTAATCATTATTATTTTGTAACTCTCCTGCCATAATG
Found at i:31380883 original size:23 final size:23
Alignment explanation
Indices: 31380837--31380885 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
31380827 TTATTATTAT
** *
31380837 TTTGTAACTCTCCTGTCATTATG
1 TTTGTAACTCTCCTACCATAATG
*
31380860 TTTGTAACTCTTCTACCATAATG
1 TTTGTAACTCTCCTACCATAATG
31380883 TTT
1 TTT
31380886 TGTTTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (23 bp):
TTTGTAACTCTCCTACCATAATG
Found at i:31384280 original size:18 final size:17
Alignment explanation
Indices: 31384259--31384320 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
31384249 CTTATGAGCC
31384259 AGTATGCTCTAACGAGAT
1 AGTATGCTCTAACGAG-T
*
31384277 AGTATGCT-TAAACAAGT
1 AGTATGCTCT-AACGAGT
31384294 CAGTATGCTCTAACGAGCT
1 -AGTATGCTCTAACGAG-T
31384313 AGTATGCT
1 AGTATGCT
31384321 AATTCTTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 2 0.05
18 34 0.89
19 2 0.05
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (17 bp):
AGTATGCTCTAACGAGT
Found at i:31389769 original size:37 final size:36
Alignment explanation
Indices: 31389662--31389792 Score: 127
Period size: 37 Copynumber: 3.6 Consensus size: 36
31389652 AGGACCTTAT
* ** * *
31389662 GCTCTAACCGAGACATAAGCAAATCACATAGCATTAC
1 GCTCTAACCGAGACGTAAGC-CTTCATATAACATTAC
* * * * *
31389699 CCTTTAACCAAGACGTAAGTCTTCTATACAACATTAC
1 GCTCTAACCGAGACGTAAGCCTTC-ATATAACATTAC
*
31389736 GCTCTAACCGAGACGTAAGCCTTTCATATAACATTCC
1 GCTCTAACCGAGACGTAAGCC-TTCATATAACATTAC
*
31389773 GCTCTAACTGAGACGTAAGC
1 GCTCTAACCGAGACGTAAGC
31389793 AACATTGTAG
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
36 2 0.03
37 70 0.93
38 3 0.04
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.24
Consensus pattern (36 bp):
GCTCTAACCGAGACGTAAGCCTTCATATAACATTAC
Found at i:31389822 original size:36 final size:36
Alignment explanation
Indices: 31389773--31389900 Score: 177
Period size: 36 Copynumber: 3.6 Consensus size: 36
31389763 ATAACATTCC
* * **
31389773 GCTCTAA-CTGAGACGTAAGCAACATTGTAGCAATAT
1 GCTCTAATC-GAGACATATGCAACATCATAGCAATAT
31389809 GCTCTAATCGAGACATATGCAACATCATAGCAATAT
1 GCTCTAATCGAGACATATGCAACATCATAGCAATAT
* * *
31389845 GCTATAATCAAGACATATGCAACATCATAGTAATAT
1 GCTCTAATCGAGACATATGCAACATCATAGCAATAT
31389881 GCTCTAATCGAGACATATGC
1 GCTCTAATCGAGACATATGC
31389901 CTTTGTTTGA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
36 81 0.99
37 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (36 bp):
GCTCTAATCGAGACATATGCAACATCATAGCAATAT
Found at i:31389844 original size:18 final size:17
Alignment explanation
Indices: 31389823--31389882 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
31389813 TAATCGAGAC
31389823 ATATGCAACATCATAGCA
1 ATATGCAACATCATAG-A
31389841 ATATGCTATA-ATCA-AGA
1 ATATGC-A-ACATCATAGA
31389858 CATATGCAACATCATAGTA
1 -ATATGCAACATCATAG-A
31389877 ATATGC
1 ATATGC
31389883 TCTAATCGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 22 0.61
19 6 0.17
20 1 0.03
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (17 bp):
ATATGCAACATCATAGA
Found at i:31392866 original size:55 final size:55
Alignment explanation
Indices: 31392781--31392900 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 55
31392771 TGTCACAAAC
* * * * * *
31392781 CGTGTGCCAGGTCGTGTGAGCATGAAAAATTACCCCACATGCCCTTGTACTAGAT
1 CGTGTGCTAGGCCATGTGAGCATGAAAAATTACCCCACACGCCCGTGTACGAGAT
** *
31392836 CGTGTGCTAGGCCATGTGAGCATGCGAAATTACCCCACACGTCCGTGTACGAGAT
1 CGTGTGCTAGGCCATGTGAGCATGAAAAATTACCCCACACGCCCGTGTACGAGAT
31392891 CGTGTGCTAG
1 CGTGTGCTAG
31392901 ACCGTGTGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (55 bp):
CGTGTGCTAGGCCATGTGAGCATGAAAAATTACCCCACACGCCCGTGTACGAGAT
Found at i:31393633 original size:26 final size:27
Alignment explanation
Indices: 31393600--31393714 Score: 125
Period size: 26 Copynumber: 4.5 Consensus size: 27
31393590 TCATACGAGC
*
31393600 CCAG-TCAAG-ATATCGCTCTCACAAG
1 CCAGTTCAAGTATATCGCTCTTACAAG
* *
31393625 TCAGTTCAA-TATATCGCTCTTAAAAG
1 CCAGTTCAAGTATATCGCTCTTACAAG
* * *
31393651 CCAGTT-TAGTATATCACTTTTACAAG
1 CCAGTTCAAGTATATCGCTCTTACAAG
*
31393677 CCAGCTC-AGTATATCGCTCTTACAAG
1 CCAGTTCAAGTATATCGCTCTTACAAG
31393703 CCAGTTC-AGTAT
1 CCAGTTCAAGTAT
31393715 TTTCCTTCAG
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
25 4 0.05
26 70 0.95
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (27 bp):
CCAGTTCAAGTATATCGCTCTTACAAG
Found at i:31397823 original size:20 final size:20
Alignment explanation
Indices: 31397785--31397825 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
31397775 ATTCAACATT
*
31397785 CAATTCATTTTTGGCTTCAA
1 CAATTCATTTTTGACTTCAA
*
31397805 CAATTCATTTTTGATTTCAA
1 CAATTCATTTTTGACTTCAA
31397825 C
1 C
31397826 GAGCTAGCAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (20 bp):
CAATTCATTTTTGACTTCAA
Found at i:31400264 original size:409 final size:409
Alignment explanation
Indices: 31399500--31400727 Score: 2375
Period size: 409 Copynumber: 3.0 Consensus size: 409
31399490 ACAATTTAGT
*
31399500 CCCTAAATTTTAATTAATTACTTTTTCGGCTAAATTACTTAATCGATCTTTATTATATTTTCATA
1 CCCTAAATTTTAATTAATTACTTTTTCGACTAAATTACTTAATCGATCTTTATTATATTTTCATA
*
31399565 TTAACTCCATAAATATTCTTATTTTATTTTTACAAATCCGTTTTATAGAAATGAAATTTTCAAAC
66 TTAACTCCATAAATATTCTTATTTTATTTTTACAAATCCGTTTTATAGAAATGAAATTTTGAAAC
31399630 CACATTTTTTGACACCACTAGAACTCGAGCCATTACACTTGGGTATTTCATAATCATAAATAAAT
131 CACATTTTTTGACACCACTAGAACTCGAGCCATTACACTTGGGTATTTCATAATCATAAATAAAT
31399695 AGATAAACATATCCAGATCAGTGTAATGCTTGCTTTTACTTATTGAAATTGTGACGCACCCCAAG
196 AGATAAACATATCCAGATCAGTGTAATGCTTGCTTTTACTTATTGAAATTGTGACGCACCCCAAG
31399760 GTATTTGCATCTATTAAATCATACTAATGTCATTTTAATTACCAATTCACACATAGCATATTATT
261 GTATTTGCATCTATTAAATCATACTAATGTCATTTTAATTACCAATTCACACATAGCATATTATT
*
31399825 TCGTATTTTAATTACATTAATTATCAAATATATTACACATTTATTTTCTCATTTCGACCCTATTA
326 TCATATTTTAATTACATTAATTATCAAATATATTACACATTTATTTTCTCATTTCGACCCTATTA
31399890 AATGATTCGGATTTGAGGA
391 AATGATTCGGATTTGAGGA
*
31399909 CCCTGAATTTTAATTAATTACTTTTTCGACTAAATTACTTAATCGATCTTTATTATATTTTCATA
1 CCCTAAATTTTAATTAATTACTTTTTCGACTAAATTACTTAATCGATCTTTATTATATTTTCATA
*
31399974 TTAACTCCATAAATATTCTTATTTTATTTTTACAAATCCGTTTTATAGAAATAAAATTTTGAAAC
66 TTAACTCCATAAATATTCTTATTTTATTTTTACAAATCCGTTTTATAGAAATGAAATTTTGAAAC
31400039 CACATTTTTTGACACCACTAGAACTCGAGCCATTACACTTGGGTATTTCATAATCATAAATAAAT
131 CACATTTTTTGACACCACTAGAACTCGAGCCATTACACTTGGGTATTTCATAATCATAAATAAAT
*
31400104 AGATAAACATATCCAGATTAGTGTAATGCTTGCTTTTACTTATTGAAATTGTGACGCACCCCAAG
196 AGATAAACATATCCAGATCAGTGTAATGCTTGCTTTTACTTATTGAAATTGTGACGCACCCCAAG
31400169 GTATTTGCATCTATTAAATCATACTAATGTCATTTTAATTACCAATTCACACATAGCATATTATT
261 GTATTTGCATCTATTAAATCATACTAATGTCATTTTAATTACCAATTCACACATAGCATATTATT
31400234 TCATATTTTAATTACATTAATTATCAAATATATTACACATTTATTTTCTCATTTCGACCCTATTA
326 TCATATTTTAATTACATTAATTATCAAATATATTACACATTTATTTTCTCATTTCGACCCTATTA
31400299 AATGATTCGGATTTGAGGA
391 AATGATTCGGATTTGAGGA
31400318 CCCTAAATTTTAATTAATTACTTTTTCGACTAAATTACTTAATCGATCTTTATTATATTTTCATA
1 CCCTAAATTTTAATTAATTACTTTTTCGACTAAATTACTTAATCGATCTTTATTATATTTTCATA
*
31400383 TTAACACCATAAATATTCTTATTTTATTTTTACAAATCCGTTTTATAGAAATGAAATTTTGAAAC
66 TTAACTCCATAAATATTCTTATTTTATTTTTACAAATCCGTTTTATAGAAATGAAATTTTGAAAC
*
31400448 CACATTTTTTAACACCACTAGAACTCGAGCCATTACACTTGGGTATTTCATAATCATAAATAAAT
131 CACATTTTTTGACACCACTAGAACTCGAGCCATTACACTTGGGTATTTCATAATCATAAATAAAT
31400513 AGATAAACATATCCAGATCAGTGTAATGCTTGCTTTTACTTATTGAAATTGTGACGCACCCCAAG
196 AGATAAACATATCCAGATCAGTGTAATGCTTGCTTTTACTTATTGAAATTGTGACGCACCCCAAG
*
31400578 GTATTTGCATCTATTAAATCATACTAATGTCATATTAATTACCAATTCACACATAGCATATTATT
261 GTATTTGCATCTATTAAATCATACTAATGTCATTTTAATTACCAATTCACACATAGCATATTATT
31400643 TCATATTTTAATTACATTAATTATCAAATATATTACACATTTATTTTCTCATTTCGACCCTATTA
326 TCATATTTTAATTACATTAATTATCAAATATATTACACATTTATTTTCTCATTTCGACCCTATTA
31400708 AATGATTCGGATTTGAGGA
391 AATGATTCGGATTTGAGGA
31400727 C
1 C
31400728 AAAATCAATC
Statistics
Matches: 807, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
409 807 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (409 bp):
CCCTAAATTTTAATTAATTACTTTTTCGACTAAATTACTTAATCGATCTTTATTATATTTTCATA
TTAACTCCATAAATATTCTTATTTTATTTTTACAAATCCGTTTTATAGAAATGAAATTTTGAAAC
CACATTTTTTGACACCACTAGAACTCGAGCCATTACACTTGGGTATTTCATAATCATAAATAAAT
AGATAAACATATCCAGATCAGTGTAATGCTTGCTTTTACTTATTGAAATTGTGACGCACCCCAAG
GTATTTGCATCTATTAAATCATACTAATGTCATTTTAATTACCAATTCACACATAGCATATTATT
TCATATTTTAATTACATTAATTATCAAATATATTACACATTTATTTTCTCATTTCGACCCTATTA
AATGATTCGGATTTGAGGA
Done.