Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 77 of 120
Found at i:23104264 original size:19 final size:20
Alignment explanation
Indices: 23104217--23104275 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
23104207 TGATAGAAAA
23104217 ATATAAAAATTTATAGAAAACT
1 ATATAAAAA-TTATA-AAAACT
23104239 ATATAAAAATTATAAAAACT
1 ATATAAAAATTATAAAAACT
* *
23104259 -TGTAAAACTTATAAAAA
1 ATATAAAAATTATAAAAA
23104276 TTTTGTTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 15 0.43
20 6 0.17
21 5 0.14
22 9 0.26
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
ATATAAAAATTATAAAAACT
Found at i:23108775 original size:119 final size:120
Alignment explanation
Indices: 23108555--23108793 Score: 390
Period size: 119 Copynumber: 2.0 Consensus size: 120
23108545 ATATAAATAA
* *
23108555 AATTATTACTATTTAGATTTAGGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTGAAAAG
1 AATTATTACTATTTAGATTTAAGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
*
23108620 TAAAAGTTTAGTGGAAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
66 TAAAAATTTAGTGGAAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
* * *
23108675 AATT-TTATTATTTAGATTTAAGGATTTTTTTGATGATTTTTTATTTGGGGTAGATGGTAAAAAG
1 AATTATTACTATTTAGATTTAAGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
* * *
23108739 TAAAAATTTAGTGGGAAAATAAAATGTTTTGAGGGTTGGCGGAGTAAAATTTTGG
66 TAAAAATTTAGTGGAAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
23108794 GAGGAAAGTA
Statistics
Matches: 110, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
119 106 0.96
120 4 0.04
ACGTcount: A:0.34, C:0.01, G:0.24, T:0.41
Consensus pattern (120 bp):
AATTATTACTATTTAGATTTAAGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
TAAAAATTTAGTGGAAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
Found at i:23114176 original size:25 final size:25
Alignment explanation
Indices: 23114146--23114215 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
23114136 TTTGTAAACA
* *
23114146 GGAAGCTCATGAGAGTTGAATAATG
1 GGAAGCTCATGAGAGCTGAATAACG
*
23114171 GGAAGCTCATGCGAGCTGAATAACG
1 GGAAGCTCATGAGAGCTGAATAACG
* *
23114196 GGACGCTCATAAGAGCTGAA
1 GGAAGCTCATGAGAGCTGAA
23114216 ATCGATGACC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATGAGAGCTGAATAACG
Found at i:23118633 original size:14 final size:14
Alignment explanation
Indices: 23118593--23118639 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
23118583 TCAAAACCAG
* *
23118593 CAAAGCCAAGTAAC
1 CAAAACCAAATAAC
*
23118607 CAAAAAC-AATAAC
1 CAAAACCAAATAAC
23118620 CAAAACCAAATAACC
1 CAAAACCAAATAA-C
23118635 CAAAA
1 CAAAA
23118640 TTAGTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 11 0.41
14 10 0.37
15 6 0.22
ACGTcount: A:0.62, C:0.28, G:0.04, T:0.06
Consensus pattern (14 bp):
CAAAACCAAATAAC
Found at i:23128817 original size:20 final size:20
Alignment explanation
Indices: 23128792--23128843 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
23128782 AAGCTTATGC
23128792 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* * *
23128812 TAAGTAAATGGATTGGTAAG
1 TAAGTAAATGAAATGGAAAG
23128832 TAAGTAAATGAA
1 TAAGTAAATGAA
23128844 GTAGTTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:23137374 original size:40 final size:40
Alignment explanation
Indices: 23137330--23137429 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
23137320 ATTACTAATG
23137330 GCTTGACCACATTACTGGCAATTTATCTGCAATATTGGCA
1 GCTTGACCACATTACTGGCAATTTATCTGCAATATTGGCA
*** * * * * **
23137370 GCTTGTTTACACTACTGGCAGTTTATTTGCATTATTGGTG
1 GCTTGACCACATTACTGGCAATTTATCTGCAATATTGGCA
* *
23137410 GCTCGACCACATTATTGGCA
1 GCTTGACCACATTACTGGCA
23137430 GCTTGTTTGT
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (40 bp):
GCTTGACCACATTACTGGCAATTTATCTGCAATATTGGCA
Found at i:23137401 original size:80 final size:80
Alignment explanation
Indices: 23137262--23137429 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
23137252 AAAGAAAAAG
* * *
23137262 TACTGACAATTAATCTATAATACTGGCAGTGTGTTTGCACTACTGGCAGCTTATCTGCATTACTA
1 TACTGGCAATTAATCTACAATACTGGCAGTGTGTTTACACTACTGGCAGCTTATCTGCATTACTA
*
23137327 ATGGCTTGACCACAT
66 ATGGCTCGACCACAT
* * * * * *
23137342 TACTGGCAATTTATCTGCAATATTGGCAGCT-TGTTTACACTACTGGCAGTTTATTTGCATTATT
1 TACTGGCAATTAATCTACAATACTGGCAG-TGTGTTTACACTACTGGCAGCTTATCTGCATTACT
**
23137406 GGTGGCTCGACCACAT
65 AATGGCTCGACCACAT
*
23137422 TATTGGCA
1 TACTGGCA
23137430 GCTTGTTTGT
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 73 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (80 bp):
TACTGGCAATTAATCTACAATACTGGCAGTGTGTTTACACTACTGGCAGCTTATCTGCATTACTA
ATGGCTCGACCACAT
Found at i:23137430 original size:40 final size:40
Alignment explanation
Indices: 23137385--23137460 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
23137375 TTTACACTAC
*
23137385 TGGCAGTTTATTTGCATTATTGGTGGCTCGACCACATTAT
1 TGGCAGCTTATTTGCATTATTGGTGGCTCGACCACATTAT
* * * *
23137425 TGGCAGCTTGTTTGTATTTTTGGTGGCTCGTCCACA
1 TGGCAGCTTATTTGCATTATTGGTGGCTCGACCACA
23137461 ATTTGGAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (40 bp):
TGGCAGCTTATTTGCATTATTGGTGGCTCGACCACATTAT
Found at i:23144143 original size:18 final size:18
Alignment explanation
Indices: 23144120--23144165 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
23144110 GATCAGTATG
23144120 ATTTCATAACTTTCCATA
1 ATTTCATAACTTTCCATA
*
23144138 ATTTCATACCTTTCCATA
1 ATTTCATAACTTTCCATA
23144156 ATTTCATAAC
1 ATTTCATAAC
23144166 ATAGTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCATAACTTTCCATA
Found at i:23151862 original size:18 final size:18
Alignment explanation
Indices: 23151793--23151862 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
23151783 AAGAGGACAC
*
23151793 TGTTGTTG-AGAAGGAAAT
1 TGTTGTTGAAGAA-GAAGT
* * *
23151811 TGATGCTGTAGAAGAAGT
1 TGTTGTTGAAGAAGAAGT
** *
23151829 TGTTGTCAAAGCAGAAGT
1 TGTTGTTGAAGAAGAAGT
23151847 TGTTGTTGAAGAAGAA
1 TGTTGTTGAAGAAGAA
23151863 AAAGTTACAG
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
18 35 0.90
19 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.31, T:0.30
Consensus pattern (18 bp):
TGTTGTTGAAGAAGAAGT
Found at i:23157385 original size:36 final size:35
Alignment explanation
Indices: 23157322--23157392 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
23157312 TTAGCACAGC
*
23157322 GGCATGCTTAACATGTCAATCAGAATCAGAAATAAT
1 GGCATGCTTAACATGTCAATCAAAATCAG-AATAAT
*
23157358 GGCATGCTTAACATG-CGAGTCAAAATCAGAATAAT
1 GGCATGCTTAACATGTC-AATCAAAATCAGAATAAT
23157393 AGAATATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (35 bp):
GGCATGCTTAACATGTCAATCAAAATCAGAATAAT
Found at i:23159397 original size:11 final size:11
Alignment explanation
Indices: 23159381--23159406 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23159371 CTTCATTCAT
23159381 CATCCCTCAAG
1 CATCCCTCAAG
23159392 CATCCCTCAAG
1 CATCCCTCAAG
23159403 CATC
1 CATC
23159407 ATTCTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.46, G:0.08, T:0.19
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:23165389 original size:18 final size:17
Alignment explanation
Indices: 23165356--23165394 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23165346 TTTTATAAAT
23165356 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
23165374 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
23165391 TGTG
1 TGTG
23165395 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:23165646 original size:23 final size:23
Alignment explanation
Indices: 23165620--23165695 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
23165610 AGTCTTATTG
23165620 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
23165643 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
23165666 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23165689 ATCAGTG
1 ATCAGTG
23165696 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:23172378 original size:18 final size:18
Alignment explanation
Indices: 23172357--23172394 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23172347 AAAAAGGACT
23172357 AAATTGTGAATGATGGTA
1 AAATTGTGAATGATGGTA
23172375 AAATTGTGAATGATGGTA
1 AAATTGTGAATGATGGTA
23172393 AA
1 AA
23172395 GTGTGCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (18 bp):
AAATTGTGAATGATGGTA
Found at i:23172779 original size:18 final size:17
Alignment explanation
Indices: 23172746--23172784 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23172736 TTTTATAAAT
23172746 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
23172764 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
23172781 TGTG
1 TGTG
23172785 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:23173036 original size:23 final size:23
Alignment explanation
Indices: 23173010--23173085 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
23173000 AGTGTTATTG
23173010 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23173033 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
23173056 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23173079 ATCAGTG
1 ATCAGTG
23173086 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:23180595 original size:27 final size:27
Alignment explanation
Indices: 23180555--23180900 Score: 407
Period size: 27 Copynumber: 12.9 Consensus size: 27
23180545 ATCTGGACGA
*
23180555 AAATA-CCCTCATAGGATAAAATGACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
*
23180582 AAATACCCCTATAGGGTAGAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * *
23180609 AAATACCCCCATAGGGTAGAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
23180636 AAATACCCTTATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCG
* *
23180663 AAATAACCCTATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCG
*
23180690 AAATACCCCCATAGGGTAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
23180717 AAATATCCCC-ATAGGGTAAAATGACCA
1 AAATA-CCCCTATAGGGTAAAATGACCG
*
23180744 AAATACCCCCTATACGGTAAAATGACCG
1 AAATA-CCCCTATAGGGTAAAATGACCG
*
23180772 AAATACCCCTATAGGGTAAAATGACCA
1 AAATACCCCTATAGGGTAAAATGACCG
* * *
23180799 AAATACCCCCAAAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
23180826 AAATACCCCCATAGGGTAAAATGATC-
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
23180852 AAAAATCTCC-ATAGGATATAATGACC-
1 AAATA-CCCCTATAGGGTAAAATGACCG
*
23180878 AAA-ACCCCTATAGTGTAAAATGA
1 AAATACCCCTATAGGGTAAAATGA
23180901 TTGTTATACC
Statistics
Matches: 280, Mismatches: 34, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
24 3 0.01
25 12 0.04
26 20 0.07
27 217 0.77
28 28 0.10
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCG
Found at i:23181411 original size:33 final size:35
Alignment explanation
Indices: 23181363--23181436 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
23181353 TCACTGCATG
* ** *
23181363 ACTGATATCTATTACTGTTA-TGGGCCAAGGCCCC
1 ACTGATATATATTACTGAAATTGGGCAAAGGCCCC
*
23181397 ACTGATA-ATATTACTGAAATTGGGCAAAGGCCCT
1 ACTGATATATATTACTGAAATTGGGCAAAGGCCCC
23181431 ACTGAT
1 ACTGAT
23181437 TACTGGCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 9 0.26
34 25 0.74
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (35 bp):
ACTGATATATATTACTGAAATTGGGCAAAGGCCCC
Found at i:23182658 original size:11 final size:11
Alignment explanation
Indices: 23182642--23182666 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23182632 CTTCATTCAT
23182642 CATCCCTCAAG
1 CATCCCTCAAG
23182653 CATCCCTCAAG
1 CATCCCTCAAG
23182664 CAT
1 CAT
23182667 TATTCTCGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.44, G:0.08, T:0.20
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:23188043 original size:36 final size:36
Alignment explanation
Indices: 23187996--23188067 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
23187986 GCACAATTGG
*
23187996 CCAATTCAGGTCTCAAAAACGAGTAAAATAAGGCAA
1 CCAATTCAGGTCTAAAAAACGAGTAAAATAAGGCAA
* *
23188032 CCAATTCAGGTCTAAAAAATGAGTAAAATGAGGCAA
1 CCAATTCAGGTCTAAAAAACGAGTAAAATAAGGCAA
23188068 TTTTCACTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.18
Consensus pattern (36 bp):
CCAATTCAGGTCTAAAAAACGAGTAAAATAAGGCAA
Found at i:23196439 original size:18 final size:18
Alignment explanation
Indices: 23196427--23196462 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
23196417 AATTAATTTT
23196427 AATTAATAAATTAAAATA
1 AATTAATAAATTAAAATA
23196445 AATTAATATAATTAAAAT
1 AATTAATA-AATTAAAAT
23196463 TTTTACTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAATAAATTAAAATA
Found at i:23196643 original size:17 final size:16
Alignment explanation
Indices: 23196612--23196645 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23196602 TAGACTCAAT
*
23196612 TTTCAATTAAATAAAA
1 TTTCAAATAAATAAAA
*
23196628 TTTCAAATAAATTAAA
1 TTTCAAATAAATAAAA
23196644 TT
1 TT
23196646 AATCTTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTCAAATAAATAAAA
Found at i:23198863 original size:22 final size:23
Alignment explanation
Indices: 23198821--23198863 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23198811 TATTTTCACG
*
23198821 TTTATATATTTGATAAAAGAACT
1 TTTATATATTTGAAAAAAGAACT
*
23198844 TTTATAT-TTTTAAAAAAGAA
1 TTTATATATTTGAAAAAAGAA
23198864 AGCCACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (23 bp):
TTTATATATTTGAAAAAAGAACT
Found at i:23199147 original size:57 final size:56
Alignment explanation
Indices: 23199059--23199170 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 56
23199049 AAAACCAACT
** *
23199059 CTCAAAAATAATTAATTACTTAAATGGCCTATTTTTTGATAAAATATGAAATTAACA
1 CTCAAAAATAATTAATTACTTAAATAACCTA-TTTTTGATAAAAAATGAAATTAACA
23199116 CTCAAAAATAATTAATTACTTAAATAACCTATTTTTGATAAAAAATGAAATTAAC
1 CTCAAAAATAATTAATTACTTAAATAACCTATTTTTGATAAAAAATGAAATTAAC
23199171 CTAACATCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 23 0.44
57 29 0.56
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (56 bp):
CTCAAAAATAATTAATTACTTAAATAACCTATTTTTGATAAAAAATGAAATTAACA
Found at i:23199651 original size:32 final size:31
Alignment explanation
Indices: 23199597--23199676 Score: 108
Period size: 32 Copynumber: 2.6 Consensus size: 31
23199587 TAATGTATAT
* * *
23199597 TTTAAATGTTTTATAA-TATTATTTTTTAAA
1 TTTAAATATTTTAAAATTATTATTTTTAAAA
*
23199627 TTTAAATATATTTGAAATTATTATTTTTAAAA
1 TTTAAATAT-TTTAAAATTATTATTTTTAAAA
23199659 TTTAAATATTTTAAAATT
1 TTTAAATATTTTAAAATT
23199677 TAAATATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.19
31 13 0.30
32 22 0.51
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTAAATATTTTAAAATTATTATTTTTAAAA
Found at i:23199657 original size:31 final size:32
Alignment explanation
Indices: 23199597--23199676 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 32
23199587 TAATGTATAT
* *
23199597 TTTAAATGTTTTATAA-TATTATTTTTT-AAA
1 TTTAAATATTTTAAAATTATTATTTTTTAAAA
*
23199627 TTTAAATATATTTGAAATTATTA-TTTTTAAAA
1 TTTAAATAT-TTTAAAATTATTATTTTTTAAAA
23199659 TTTAAATATTTTAAAATT
1 TTTAAATATTTTAAAATT
23199677 TAAATATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 8 0.19
31 18 0.42
32 17 0.40
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (32 bp):
TTTAAATATTTTAAAATTATTATTTTTTAAAA
Found at i:23199672 original size:16 final size:16
Alignment explanation
Indices: 23199619--23199683 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
23199609 ATAATATTAT
*
23199619 TTTTTAAATTTAAATA
1 TTTTAAAATTTAAATA
* *
23199635 TATTTGAAA-TT-ATTA
1 T-TTTAAAATTTAAATA
23199650 TTTTTAAAATTTAAATA
1 -TTTTAAAATTTAAATA
23199667 TTTTAAAATTTAAATA
1 TTTTAAAATTTAAATA
23199683 T
1 T
23199684 AATTTTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.22
16 23 0.56
17 9 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTTAAAATTTAAATA
Found at i:23199826 original size:22 final size:20
Alignment explanation
Indices: 23199752--23199848 Score: 76
Period size: 22 Copynumber: 4.8 Consensus size: 20
23199742 ACTTTATTAT
* *
23199752 TTATTTTATAATATTTTAAA
1 TTATTTTTTAAAATTTTAAA
*
23199772 TGTATATTTTAAAAATTTTAAAAA
1 T-TAT-TTTTTAAAATTTT--AAA
23199796 TTATTTTTTAAAATTTTGAATA
1 TTATTTTTTAAAATTTT-AA-A
*
23199818 TTATTTTTTTAAA--TT--A
1 TTATTTTTTAAAATTTTAAA
23199834 TTATTTTTTAAAATT
1 TTATTTTTTAAAATT
23199849 ATTTTAAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
16 13 0.21
20 3 0.05
21 5 0.08
22 35 0.56
23 3 0.05
24 4 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATTTTTTAAAATTTTAAA
Found at i:23199837 original size:16 final size:16
Alignment explanation
Indices: 23199816--23199851 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23199806 AAATTTTGAA
*
23199816 TATTATTTTTTTAAAT
1 TATTATTTTTTAAAAT
23199832 TATTATTTTTTAAAAT
1 TATTATTTTTTAAAAT
23199848 TATT
1 TATT
23199852 TTAAAGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTATTTTTTAAAAT
Found at i:23199926 original size:11 final size:10
Alignment explanation
Indices: 23199910--23199955 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 10
23199900 TAATACTTTA
23199910 TTTATTTGTCT
1 TTTATTTGT-T
23199921 TTTATTTGTT
1 TTTATTTGTT
23199931 TATTATTTGTTT
1 T-TTATTTG-TT
23199943 TTTAATTTGTT
1 TTT-ATTTGTT
23199954 TT
1 TT
23199956 ACAATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.06
11 22 0.69
12 8 0.25
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.76
Consensus pattern (10 bp):
TTTATTTGTT
Found at i:23199932 original size:23 final size:23
Alignment explanation
Indices: 23199906--23199954 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
23199896 AAAATAATAC
23199906 TTTATTTATTTGTCTTTT-ATTTG
1 TTTA-TTATTTGTCTTTTAATTTG
*
23199929 TTTATTATTTGTTTTTTAATTTG
1 TTTATTATTTGTCTTTTAATTTG
23199952 TTT
1 TTT
23199955 TACAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTATTATTTGTCTTTTAATTTG
Found at i:23200251 original size:17 final size:18
Alignment explanation
Indices: 23200211--23200253 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
23200201 AATGGAAAAA
23200211 TAAAAAAGATTTATTTAT
1 TAAAAAAGATTTATTTAT
* *
23200229 TAAAAATGATTTATTTGT
1 TAAAAAAGATTTATTTAT
23200247 TAAAAAA
1 TAAAAAA
23200254 TTACGACTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
TAAAAAAGATTTATTTAT
Found at i:23205020 original size:24 final size:25
Alignment explanation
Indices: 23204988--23205036 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
23204978 TATGCATTAT
23204988 TATAGATATTGATTCAATAAAAATA
1 TATAGATATTGATTCAATAAAAATA
23205013 TATA-ATATTGATTCAATAAAAATA
1 TATAGATATTGATTCAATAAAAATA
23205037 AGTCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (25 bp):
TATAGATATTGATTCAATAAAAATA
Found at i:23208117 original size:145 final size:146
Alignment explanation
Indices: 23207853--23208123 Score: 438
Period size: 145 Copynumber: 1.9 Consensus size: 146
23207843 AACCAACATC
* *
23207853 ACCTTTTACAATTTCACCGTAAAAAAAGAATATACACAAAACACACCTTATTATTCATCTTCAAC
1 ACCTTCTACAATTTCACCATAAAAAAAGAATATACACAAAACACACCTTATTATTCATCTTCAAC
* *
23207918 AGAATTTTTGAACTCTCCTACTAAACACAACAACTTCATCATTCTATATATGCTAGAGAACTAAG
66 AGAATTTTTGAACTCTCCTACAAAACACAACAACTTCACCATTCTATATATGCTAGAGAACTAAG
23207983 AGGTGGAGCCATTCTT
131 AGGTGGAGCCATTCTT
* * *
23207999 ACCTTCTACAATTTCACCAT-AAAAAAGAATATACACCAAAA-GCACCTTGTTATTTATCTTCAA
1 ACCTTCTACAATTTCACCATAAAAAAAGAATATACA-CAAAACACACCTTATTATTCATCTTCAA
* *
23208062 CAGAATTTTTGAACTCTCTTACAAAACACAACAACTTCCCCATTCTATATATGCTAGAGAAC
65 CAGAATTTTTGAACTCTCCTACAAAACACAACAACTTCACCATTCTATATATGCTAGAGAAC
23208124 AATGGCTACA
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
145 92 0.80
146 23 0.20
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.30
Consensus pattern (146 bp):
ACCTTCTACAATTTCACCATAAAAAAAGAATATACACAAAACACACCTTATTATTCATCTTCAAC
AGAATTTTTGAACTCTCCTACAAAACACAACAACTTCACCATTCTATATATGCTAGAGAACTAAG
AGGTGGAGCCATTCTT
Found at i:23208342 original size:21 final size:22
Alignment explanation
Indices: 23208301--23208379 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 22
23208291 TAAAAATAAT
23208301 AATTTT-AAA-AAATATTT-AA
1 AATTTTAAAACAAATATTTAAA
23208320 AATTTTAAAA-AAATATTTAAA
1 AATTTTAAAACAAATATTTAAA
* * *
23208341 AATTTTAAAATATACATTTAAA
1 AATTTTAAAACAAATATTTAAA
*
23208363 ATATTATAAAACAAATA
1 A-ATTTTAAAACAAATA
23208380 ATAAATTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.12
20 11 0.22
21 12 0.24
22 10 0.20
23 11 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTTTAAAACAAATATTTAAA
Found at i:23208450 original size:21 final size:21
Alignment explanation
Indices: 23208426--23208505 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
23208416 TTTTAAATGT
* *
23208426 TTTATAATATTAAAAATTATA
1 TTTAAAATTTTAAAAATTATA
*
23208447 TTTAAAATTTTAAAAATAATA
1 TTTAAAATTTTAAAAATTATA
* *
23208468 TTTAAATTTTTAAAAAATATA
1 TTTAAAATTTTAAAAATTATA
23208489 TATTAAAATTTTAAAAA
1 T-TTAAAATTTTAAAAA
23208506 ATAATATTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 37 0.73
22 14 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAAAATTTTAAAAATTATA
Found at i:23208499 original size:112 final size:112
Alignment explanation
Indices: 23208284--23208484 Score: 266
Period size: 111 Copynumber: 1.8 Consensus size: 112
23208274 AAACGTTTGA
*
23208284 ATATCTTTAAAAATAATAATTTTAAAAAATATTTAAAATTTTAAAAAAATATTTAAAAATTTTAA
1 ATATCTTTAAAAATAATAATTTTAAAAAATATTTAAAATATTAAAAAAATATTTAAAAATTTTAA
*
23208349 AATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTG
66 AATATACATTTAAAATATTAAAAAACAAATAATAAATTTGAAAGGTG
** * *
23208396 ATATCTTTAAAAATAATATATTTT-AAATGT-TTTATAATATTAAAAATTATATTT-AAAATTTT
1 ATATCTTTAAAAATAATA-ATTTTAAAAAATATTTAAAATATTAAAAA-AATATTTAAAAATTTT
* * *
23208458 AAAA-ATAATATTTAAATTTTTAAAAAA
64 AAAATAT-ACATTTAAAATATTAAAAAA
23208485 TATATATTAA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
110 2 0.03
111 42 0.55
112 28 0.36
113 5 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (112 bp):
ATATCTTTAAAAATAATAATTTTAAAAAATATTTAAAATATTAAAAAAATATTTAAAAATTTTAA
AATATACATTTAAAATATTAAAAAACAAATAATAAATTTGAAAGGTG
Found at i:23208514 original size:21 final size:22
Alignment explanation
Indices: 23208437--23208513 Score: 113
Period size: 21 Copynumber: 3.5 Consensus size: 22
23208427 TTATAATATT
*
23208437 AAAAATTATATTTAAAATTTT-
1 AAAAATAATATTTAAAATTTTA
*
23208458 AAAAATAATATTTAAATTTTTA
1 AAAAATAATATTTAAAATTTTA
23208480 AAAAAT-ATATATTAAAATTTTA
1 AAAAATAATAT-TTAAAATTTTA
23208502 AAAAATAATATT
1 AAAAATAATATT
23208514 ATAGAACATT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
21 23 0.46
22 23 0.46
23 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAATAATATTTAAAATTTTA
Found at i:23208528 original size:23 final size:20
Alignment explanation
Indices: 23208435--23208528 Score: 82
Period size: 21 Copynumber: 4.3 Consensus size: 20
23208425 TTTTATAATA
*
23208435 TTAAAAATTATATTTAAAATT
1 TTAAAAATAATATTTAAAA-T
*
23208456 TTAAAAATAATATTTAAATTT
1 TTAAAAATAATATTTAAA-AT
23208477 TTAAAAA-ATATATATTAAAATT
1 TTAAAAATA-ATAT-TTAAAA-T
23208499 TTAAAAAATAATATTATAGAACAT
1 TT-AAAAATAATATT-TA-AA-AT
23208523 TTAAAA
1 TTAAAA
23208529 TATACATTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
20 1 0.02
21 29 0.48
22 9 0.15
23 15 0.25
24 6 0.10
25 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (20 bp):
TTAAAAATAATATTTAAAAT
Found at i:23208529 original size:44 final size:43
Alignment explanation
Indices: 23208435--23208559 Score: 130
Period size: 44 Copynumber: 2.8 Consensus size: 43
23208425 TTTTATAATA
**
23208435 TTAAAAAT-TATATTTAAAATTTT-AAAAATAATATTTAAATTT
1 TTAAAAATATATA-TTAAAATTTTAAAAAATAATATTTAAACAT
23208477 TTAAAAAATATATATTAAAATTTTAAAAAATAATATTATAGAACAT
1 TT-AAAAATATATATTAAAATTTTAAAAAATAATATT-TA-AACAT
*
23208523 TT-AAAATATACATTAAAATATTATAAAACCAATAATA
1 TTAAAAATATATATTAAAAT-TT-TAAAA--AATAATA
23208560 AACAAATAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
42 2 0.03
43 16 0.23
44 32 0.45
45 4 0.06
46 10 0.14
48 7 0.10
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (43 bp):
TTAAAAATATATATTAAAATTTTAAAAAATAATATTTAAACAT
Found at i:23208549 original size:22 final size:20
Alignment explanation
Indices: 23208431--23208550 Score: 71
Period size: 21 Copynumber: 5.5 Consensus size: 20
23208421 AATGTTTTAT
*
23208431 AATATTAAAAATTATATTTAA
1 AATATTAAAAA-TATAATTAA
* *
23208452 AATTTTAAAAATAATATTTAA
1 AATATTAAAAAT-ATAATTAA
* *
23208473 ATTTTTAAAAAATATATATTAA
1 AATATT-AAAAATATA-ATTAA
*
23208495 AATTTTAAAAA-ATAATATTATA
1 AATATTAAAAATAT-A-ATTA-A
* *
23208517 GAACATTTAAAATATACATTAA
1 -AATATTAAAAATATA-ATTAA
23208539 AATATTATAAAA
1 AATATTA-AAAA
23208551 CCAATAATAA
Statistics
Matches: 81, Mismatches: 10, Indels: 15
0.76 0.09 0.14
Matches are distributed among these distances:
20 3 0.04
21 42 0.52
22 21 0.26
23 13 0.16
24 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (20 bp):
AATATTAAAAATATAATTAA
Found at i:23208577 original size:13 final size:13
Alignment explanation
Indices: 23208545--23208582 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23208535 TTAAAATATT
*
23208545 ATAAAACCAAT-A
1 ATAAAACAAATAA
23208557 AT-AAACAAATAA
1 ATAAAACAAATAA
23208569 ATAAAACAAATAA
1 ATAAAACAAATAA
23208582 A
1 A
23208583 GGACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAACAAATAA
Found at i:23215173 original size:17 final size:18
Alignment explanation
Indices: 23215141--23215174 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23215131 GGTTCTACAA
23215141 GAATTTAACTTTGTTTTC
1 GAATTTAACTTTGTTTTC
*
23215159 GAATTTTAC-TTGTTTT
1 GAATTTAACTTTGTTTT
23215175 GTTTATAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.59
Consensus pattern (18 bp):
GAATTTAACTTTGTTTTC
Found at i:23219052 original size:16 final size:16
Alignment explanation
Indices: 23219031--23219061 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23219021 ATATTTTATC
23219031 TATTTTTTAGATTTTT
1 TATTTTTTAGATTTTT
*
23219047 TATTTTTTTGATTTT
1 TATTTTTTAGATTTT
23219062 CTTACAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (16 bp):
TATTTTTTAGATTTTT
Found at i:23220723 original size:22 final size:22
Alignment explanation
Indices: 23220698--23220756 Score: 57
Period size: 25 Copynumber: 2.6 Consensus size: 22
23220688 ATTTAATTAT
23220698 TTATATTTAATAATATAATAAA
1 TTATATTTAATAATATAATAAA
* **
23220720 TTATTAATATAATTAATATAATTTA
1 TTA-T-ATTTAA-TAATATAATAAA
23220745 TTAT-TTTAATAA
1 TTATATTTAATAA
23220757 ATGTTAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 3 0.10
22 7 0.23
23 1 0.03
24 6 0.20
25 13 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATATTTAATAATATAATAAA
Found at i:23220817 original size:16 final size:17
Alignment explanation
Indices: 23220781--23220817 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
23220771 AATTTTATTT
*
23220781 TAATAATAAATTTTAAA
1 TAATAATAAATTTGAAA
23220798 -AATAAT-AATTTGAAA
1 TAATAATAAATTTGAAA
23220813 TAATA
1 TAATA
23220818 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTGAAA
Found at i:23220992 original size:29 final size:30
Alignment explanation
Indices: 23220959--23221020 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
23220949 ATGAATTTGC
23220959 AATTTAGT-CTCTTTACTTTT-AT-TTTCAAG
1 AATTTAGTCCT-TTTACTTTTCATATTT-AAG
23220988 AATTTAGTCCTTTTACTTTTCATATTTAAG
1 AATTTAGTCCTTTTACTTTTCATATTTAAG
23221018 AAT
1 AAT
23221021 CAAGTCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 17 0.57
30 10 0.33
31 3 0.10
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.53
Consensus pattern (30 bp):
AATTTAGTCCTTTTACTTTTCATATTTAAG
Found at i:23221027 original size:30 final size:29
Alignment explanation
Indices: 23220970--23221027 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
23220960 ATTTAGTCTC
**
23220970 TTTACTTTTATTTTCAAGAATTTAGTCCT
1 TTTACTTTTATTTTCAAGAATCAAGTCCT
23220999 TTTACTTTTCATATTT-AAGAATCAAGTCC
1 TTTACTTTT-AT-TTTCAAGAATCAAGTCC
23221028 AATTATTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 13 0.52
31 3 0.12
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.50
Consensus pattern (29 bp):
TTTACTTTTATTTTCAAGAATCAAGTCCT
Found at i:23223686 original size:21 final size:21
Alignment explanation
Indices: 23223623--23223695 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 21
23223613 CAGAAATCTC
*
23223623 CCCTCGTTCTTGCTGGTTTCT
1 CCCTCGTTTTTGCTGGTTTCT
* * *
23223644 CCCT--TGTTTACTGGTTTGT
1 CCCTCGTTTTTGCTGGTTTCT
*
23223663 CCCTCGTTTTTGCTAGTTTCT
1 CCCTCGTTTTTGCTGGTTTCT
*
23223684 CCCCTCTTTTTT
1 -CCCTCGTTTTT
23223696 ACTTTGTTCT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
19 15 0.38
21 15 0.38
22 10 0.25
ACGTcount: A:0.03, C:0.30, G:0.15, T:0.52
Consensus pattern (21 bp):
CCCTCGTTTTTGCTGGTTTCT
Found at i:23226245 original size:6 final size:6
Alignment explanation
Indices: 23226234--23226290 Score: 78
Period size: 6 Copynumber: 9.0 Consensus size: 6
23226224 TATTGTTGAT
*
23226234 AATGGG AATGGG AATGGGG AATGGG AATGGG AATGGG AAATGGG AAATTGG
1 AATGGG AATGGG AAT-GGG AATGGG AATGGG AATGGG -AATGGG -AATGGG
23226285 AATGGG
1 AATGGG
23226291 TATTGCATGG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
6 29 0.62
7 18 0.38
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (6 bp):
AATGGG
Found at i:23226255 original size:13 final size:13
Alignment explanation
Indices: 23226237--23226290 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
23226227 TGTTGATAAT
23226237 GGGAATGGGAATG
1 GGGAATGGGAATG
23226250 GGGAATGGGAAT-
1 GGGAATGGGAATG
23226262 GGGAATGGGAAATG
1 GGGAATGGG-AATG
* *
23226276 GGAAATTGGAATG
1 GGGAATGGGAATG
23226289 GG
1 GG
23226291 TATTGCATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
12 9 0.24
13 21 0.57
14 7 0.19
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (13 bp):
GGGAATGGGAATG
Found at i:23226258 original size:19 final size:19
Alignment explanation
Indices: 23226234--23226290 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
23226224 TATTGTTGAT
*
23226234 AATGGGAATGGGAATGGGG
1 AATGGGAATGGGAATGGGA
23226253 AATGGGAATGGGAATGGGA
1 AATGGGAATGGGAATGGGA
*
23226272 AATGGGAAATTGGAATGGG
1 AATGGG-AATGGGAATGGG
23226291 TATTGCATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 24 0.69
20 11 0.31
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (19 bp):
AATGGGAATGGGAATGGGA
Found at i:23226447 original size:31 final size:30
Alignment explanation
Indices: 23226387--23226584 Score: 291
Period size: 30 Copynumber: 6.7 Consensus size: 30
23226377 TGTATTTAAA
* **
23226387 ATTTTAAAAATTAAAAAATACGTGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
23226417 ATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAA-ATATATGTAGTGT
23226448 ATTTTAAAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
23226478 ATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAA-ATATATGTAGTGT
*
23226509 ATTTT--AAAT----ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
23226533 ATTTTAAAAGTAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
23226563 ATTTTAAAAATAAAAAAATATA
1 ATTTTAAAAATAAAAAAATATA
23226585 AAGTAGTCAA
Statistics
Matches: 153, Mismatches: 7, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.12
25 1 0.01
26 3 0.02
29 4 0.03
30 81 0.53
31 46 0.30
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:23226482 original size:61 final size:61
Alignment explanation
Indices: 23226387--23226584 Score: 302
Period size: 61 Copynumber: 3.4 Consensus size: 61
23226377 TGTATTTAAA
* **
23226387 ATTTTAAAAATTAAAAAATACGTGTAGTGTATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATATGTAGTGT
23226448 ATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATATGTAGTGT
* *
23226509 ATTTT--AAAT----ATATATATGTAGTGTATTTTAAAAGTAAAAAA-ATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATATGTAGTGT
23226563 ATTTTAAAAATAAAAAAATATA
1 ATTTTAAAAATAAAAAAATATA
23226585 AAGTAGTCAA
Statistics
Matches: 125, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
54 18 0.14
55 30 0.24
56 4 0.03
59 4 0.03
60 6 0.05
61 63 0.50
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (61 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATATATATGTAGTGT
Found at i:23226519 original size:22 final size:23
Alignment explanation
Indices: 23226491--23226541 Score: 93
Period size: 24 Copynumber: 2.2 Consensus size: 23
23226481 TTAAAAATAA
23226491 AAAATATATATGTAGTGTATTTT
1 AAAATATATATGTAGTGTATTTT
23226514 AAATATATATATGTAGTGTATTTT
1 AAA-ATATATATGTAGTGTATTTT
23226538 AAAA
1 AAAA
23226542 GTAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (23 bp):
AAAATATATATGTAGTGTATTTT
Found at i:23226591 original size:85 final size:85
Alignment explanation
Indices: 23226433--23226591 Score: 284
Period size: 85 Copynumber: 1.9 Consensus size: 85
23226423 AAAATAAAAA
23226433 ATATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATAT
1 ATATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATAT
*
23226498 ATATGTAGTGTATTTTAAAT
66 ATAAGTAGTGTATTTTAAAT
*
23226518 ATATATATGTAGTGTATTTTAAAAGTAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAA-AT
1 ATATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATAT
23226582 ATAAAGTAGT
66 AT-AAGTAGT
23226592 CAATTAAAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
84 4 0.06
85 67 0.94
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (85 bp):
ATATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTAGTGTATTTTAAAAATAAAAAATAT
ATAAGTAGTGTATTTTAAAT
Found at i:23238289 original size:20 final size:21
Alignment explanation
Indices: 23238264--23238302 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
23238254 ATTCAATCGA
23238264 AGATAATTA-ATTATTTAACT
1 AGATAATTAGATTATTTAACT
*
23238284 AGATAATTAGTTTATTTAA
1 AGATAATTAGATTATTTAA
23238303 TCGATTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (21 bp):
AGATAATTAGATTATTTAACT
Found at i:23247597 original size:17 final size:18
Alignment explanation
Indices: 23247569--23247602 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
23247559 TTAAACCAGT
23247569 TTTTATAAATTTTTAAAA
1 TTTTATAAATTTTTAAAA
23247587 TTTTA-AAATTTTTAAA
1 TTTTATAAATTTTTAAA
23247603 TATTGTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATAAATTTTTAAAA
Found at i:23252765 original size:29 final size:29
Alignment explanation
Indices: 23252705--23252779 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 29
23252695 TTTGTGAATT
*
23252705 ATTTTTATTTTATATAA--AAATTTACTT
1 ATTTTTATTTTATATAATTAAATTTACTA
*
23252732 ATTTTTATTTTATATAATTGATATTTA-TA
1 ATTTTTATTTTATATAATT-AAATTTACTA
* * *
23252761 ATTTTAAATTTATAAAATT
1 ATTTTTATTTTATATAATT
23252780 TTGTGATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 17 0.43
29 17 0.43
30 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (29 bp):
ATTTTTATTTTATATAATTAAATTTACTA
Found at i:23252872 original size:24 final size:25
Alignment explanation
Indices: 23252827--23252887 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
23252817 TTTAGAGAAT
* *
23252827 TTTTATATTCTTTTTAAATTTATATA
1 TTTTATA-TATTTTTAAATTTAGATA
*
23252853 TTTTATATATTTTT-ATTTTAGATA
1 TTTTATATATTTTTAAATTTAGATA
*
23252877 ATTTATATATT
1 TTTTATATATT
23252888 ATAAAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 18 0.58
25 6 0.19
26 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTTATATATTTTTAAATTTAGATA
Found at i:23252940 original size:17 final size:17
Alignment explanation
Indices: 23252920--23252962 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
23252910 ATATAATAAT
23252920 TTTTATAATTATATATC
1 TTTTATAATTATATATC
* * *
23252937 TTTTTTAATTTTATATG
1 TTTTATAATTATATATC
23252954 TTTTA-AATT
1 TTTTATAATT
23252963 TTAATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTATAATTATATATC
Found at i:23252962 original size:16 final size:16
Alignment explanation
Indices: 23252913--23252975 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
23252903 AAATTTAATA
*
23252913 TAATAATTTTTATAATTA
1 TAAT-ATTTTTA-AATTT
* *
23252931 TATATCTTTTTTAATTT
1 TA-ATATTTTTAAATTT
23252948 T-ATATGTTTTAAATTT
1 TAATAT-TTTTAAATTT
23252964 TAATATTTTTAA
1 TAATATTTTTAA
23252976 TAGATGACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
15 3 0.08
16 16 0.43
17 9 0.24
18 7 0.19
19 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TAATATTTTTAAATTT
Found at i:23253199 original size:27 final size:30
Alignment explanation
Indices: 23253133--23253201 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
23253123 CAAATCTTAA
*
23253133 AATTATATATGAACATTTAATTAAATGGGT
1 AATTATACATGAACATTTAATTAAATGGGT
* *
23253163 AATTTAATACATGAAC-TTTAATT-TA-GTGT
1 AA-TT-ATACATGAACATTTAATTAAATGGGT
23253192 AATTATACAT
1 AATTATACAT
23253202 ATTTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 6 0.18
28 2 0.06
29 5 0.15
30 3 0.09
31 9 0.26
32 9 0.26
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (30 bp):
AATTATACATGAACATTTAATTAAATGGGT
Found at i:23257096 original size:8 final size:8
Alignment explanation
Indices: 23257083--23257108 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
23257073 CTCAACAAAT
23257083 AATTTTAA
1 AATTTTAA
23257091 AATTTTAA
1 AATTTTAA
23257099 AATTTTAA
1 AATTTTAA
23257107 AA
1 AA
23257109 AAAATCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AATTTTAA
Found at i:23258598 original size:21 final size:22
Alignment explanation
Indices: 23258572--23258620 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
23258562 TTGAATGTGC
* *
23258572 AAATTTTTTATTTA-TTTTATA
1 AAATTTTTTATATACTTCTATA
23258593 AAA-TTTTTATATACTTCTATA
1 AAATTTTTTATATACTTCTATA
23258614 AAATTTT
1 AAATTTT
23258621 GGAATCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 12 0.50
22 3 0.12
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATTTTTTATATACTTCTATA
Found at i:23258634 original size:19 final size:20
Alignment explanation
Indices: 23258587--23258635 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
23258577 TTTTATTTAT
*
23258587 TTTATAAAATTTTTATATAC
1 TTTATAAAATTTTGATATAC
23258607 TTCTATAAAATTTTGGA-AT-C
1 TT-TATAAAATTTT-GATATAC
23258627 TTTATAAAA
1 TTTATAAAA
23258636 AATATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 5 0.19
21 13 0.50
22 1 0.04
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (20 bp):
TTTATAAAATTTTGATATAC
Found at i:23258941 original size:30 final size:30
Alignment explanation
Indices: 23258907--23258963 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
23258897 AGAATAATGA
23258907 CTAAATTGATAGAATGTGTAAATATTGGGC
1 CTAAATTGATAGAATGTGTAAATATTGGGC
23258937 CTAAATTGATAGAATGTGTAAATATTG
1 CTAAATTGATAGAATGTGTAAATATTG
23258964 AAAAACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (30 bp):
CTAAATTGATAGAATGTGTAAATATTGGGC
Found at i:23262006 original size:15 final size:15
Alignment explanation
Indices: 23261986--23262017 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23261976 CATTTCACTA
23261986 TTATGTCTTTTATGT
1 TTATGTCTTTTATGT
23262001 TTATGTCTTTTATGT
1 TTATGTCTTTTATGT
23262016 TT
1 TT
23262018 TGCTTGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATGT
Found at i:23263618 original size:68 final size:68
Alignment explanation
Indices: 23263372--23263622 Score: 295
Period size: 68 Copynumber: 3.7 Consensus size: 68
23263362 AGTACGTCAA
* * * *
23263372 GACATTAAACATGGGTTCATAATGTGTACGACCATATCTCGACTATGGCAACATATGGAGTCCGC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGGCAACATATGGAGTCCAC
23263437 TAG
66 TAG
** * * ***
23263440 GACATTAAACATCAGTTCATAATATGTAAGACCATAGCTCAGCTATGGCAACATAAAAAGTCCAC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGGCAACATATGGAGTCCAC
* *
23263505 CAA
66 TAG
* * * * *
23263508 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTTGGCTATGACAATATATGGTGTCCAC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGGCAACATATGGAGTCCAC
23263573 TAG
66 TAG
* * * * *
23263576 GACATTAAATAGGGGTTCATATTGTGTAAGACCACAGCTTGGCTATG
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATG
23263623 CCAGTATGTG
Statistics
Matches: 151, Mismatches: 32, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 151 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (68 bp):
GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGGCAACATATGGAGTCCAC
TAG
Found at i:23263622 original size:136 final size:136
Alignment explanation
Indices: 23263369--23263614 Score: 350
Period size: 136 Copynumber: 1.8 Consensus size: 136
23263359 GGAAGTACGT
* *
23263369 CAAGACATTAAACATGGGTTCATAATGTGTACGACCATATCTCGACTATGGCAACATATGGAGTC
1 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATATCTCGACTATGACAACATATGGAGTC
* * *
23263434 CGCTAGGACATTAAACATCAGTTCATAATATGTAAGACCATAGCTCAGCTATGGCAACATAAAAA
66 CACTAGGACATTAAACAGCAGTTCATAATATGTAAGACCACAGCTCAGCTATGGCAACATAAAAA
23263499 GTCCAC
131 GTCCAC
* * * *
23263505 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATAGT-TTGGCTATGACAATATATGGTGT
1 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATA-TCTCGACTATGACAACATATGGAGT
* ** * *
23263569 CCACTAGGACATTAAATAGGGGTTCATATTGTGTAAGACCACAGCT
65 CCACTAGGACATTAAACAGCAGTTCATAATATGTAAGACCACAGCT
23263615 TGGCTATGCC
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
136 94 0.99
137 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (136 bp):
CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATATCTCGACTATGACAACATATGGAGTC
CACTAGGACATTAAACAGCAGTTCATAATATGTAAGACCACAGCTCAGCTATGGCAACATAAAAA
GTCCAC
Found at i:23271738 original size:68 final size:68
Alignment explanation
Indices: 23271650--23271834 Score: 230
Period size: 68 Copynumber: 2.7 Consensus size: 68
23271640 ATATGAATTC
* *
23271650 ATAATGTGTAAGACCATAGCTCGACTAT-TACAACATATAGAGTCCGTCAGGACATTAAACATGG
1 ATAATGTGTAAGACCATAGCTCGACTATGGA-AACATATAGAGTCCATCAGGACATTAAACATGG
*
23271714 GTTCT
65 CTT-T
* **
23271719 -TAATATGTAAGACCATAGCTCGGTTATGGAAACATATAGAGTCCATCAGGACATTAAACATGGC
1 ATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCATCAGGACATTAAACATGGC
23271783 TTT
66 TTT
* * * * * *
23271786 ATATTGTGTAAGACCATAGCTCGATTATGGTAGCATGTAAAGTCCATCA
1 ATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCATCA
23271835 AGATGGTGAA
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
67 1 0.01
68 99 0.98
69 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (68 bp):
ATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCATCAGGACATTAAACATGGC
TTT
Found at i:23278283 original size:17 final size:18
Alignment explanation
Indices: 23278248--23278293 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
23278238 TTGCTTTTAA
* *
23278248 TTTGTTTTCTTTCTCAAT
1 TTTGTTTTGTTTATCAAT
23278266 TTTGTTTTGTTTAT-AAT
1 TTTGTTTTGTTTATCAAT
*
23278283 TCTG-TTTGTTT
1 TTTGTTTTGTTT
23278294 TTTTTACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.28
17 6 0.24
18 12 0.48
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.70
Consensus pattern (18 bp):
TTTGTTTTGTTTATCAAT
Found at i:23281429 original size:31 final size:29
Alignment explanation
Indices: 23281368--23281430 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
23281358 CCTCTCAATT
***
23281368 TTTTTGAAAATTTTAAATCTCACTTCAAA
1 TTTTTGAAAATTTTAAATCTCACAAAAAA
*
23281397 TTTTTGAAAATCTTATTAATCTCACAAAAAA
1 TTTTTGAAAAT-TT-TAAATCTCACAAAAAA
23281428 TTT
1 TTT
23281431 AAATATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.39
30 2 0.07
31 15 0.54
ACGTcount: A:0.40, C:0.13, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTTGAAAATTTTAAATCTCACAAAAAA
Found at i:23287250 original size:23 final size:23
Alignment explanation
Indices: 23287224--23287268 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
23287214 CATACTCTGC
23287224 TAGTGTTGTTTCTCAATTTATGT
1 TAGTGTTGTTTCTCAATTTATGT
23287247 TAGTGTTGTTTCTCAATTTATG
1 TAGTGTTGTTTCTCAATTTATG
23287269 CAGAATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.56
Consensus pattern (23 bp):
TAGTGTTGTTTCTCAATTTATGT
Found at i:23294051 original size:2 final size:2
Alignment explanation
Indices: 23294046--23294088 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
23294036 AAAAAAGGGA
23294046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23294088 A
1 A
23294089 ATCAATATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23296596 original size:2 final size:2
Alignment explanation
Indices: 23296591--23296645 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
23296581 TAATGTGCGA
* * *
23296591 AT AT AT AT AT AT GT GT GT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23296632 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
23296646 GTGGATTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23296599 original size:17 final size:19
Alignment explanation
Indices: 23296577--23296621 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
23296567 TGGTTGTGAT
23296577 TATATA-ATGTGCG-AATA
1 TATATATATGTGCGTAATA
*
23296594 TATATATATGTGTGTAATA
1 TATATATATGTGCGTAATA
23296613 TATATATAT
1 TATATATAT
23296622 ATATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.24
18 6 0.24
19 13 0.52
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.44
Consensus pattern (19 bp):
TATATATATGTGCGTAATA
Found at i:23296936 original size:41 final size:41
Alignment explanation
Indices: 23296881--23296980 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
23296871 ATTGGTGAAT
*
23296881 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATA
* *
23296922 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATA
1 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATA
23296963 TGAATCAGGTTATAAACC
1 TGAATCAGGTTATAAACC
23296981 AATCAGGTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (41 bp):
TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATA
Found at i:23297052 original size:98 final size:98
Alignment explanation
Indices: 23296883--23297065 Score: 339
Period size: 98 Copynumber: 1.9 Consensus size: 98
23296873 TGGTGAATTG
23296883 AATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGC
1 AATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGC
23296948 TAAGTGCCGGTGATATGAATCAGGTTATAAACC
66 TAAGTGCCGGTGATATGAATCAGGTTATAAACC
* *
23296981 AATCAGGTTATATACTTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGC
1 AATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGC
*
23297046 TAAGTGCCGGTGATCTGAAT
66 TAAGTGCCGGTGATATGAAT
23297066 ATGATGAATT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 82 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (98 bp):
AATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGCAGGC
TAAGTGCCGGTGATATGAATCAGGTTATAAACC
Found at i:23297293 original size:31 final size:34
Alignment explanation
Indices: 23297258--23297347 Score: 114
Period size: 37 Copynumber: 2.6 Consensus size: 34
23297248 GCATATGTAG
23297258 GCATTCGGCATAGGTGGATATA-TAT-T-CGTAT
1 GCATTCGGCATAGGTGGATATAGTATATACGTAT
*
23297289 GCATTCGGCATAGGTAGATATAAGTGTATATACGTAT
1 GCATTCGGCATAGGTGGATAT-A--GTATATACGTAT
*
23297326 GCATTCGGCATAGGTGGGTATA
1 GCATTCGGCATAGGTGGATATA
23297348 AGTGAATATG
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
31 20 0.40
32 1 0.02
35 3 0.06
36 2 0.04
37 24 0.48
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (34 bp):
GCATTCGGCATAGGTGGATATAGTATATACGTAT
Found at i:23297319 original size:37 final size:37
Alignment explanation
Indices: 23297278--23297356 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23297268 TAGGTGGATA
*
23297278 TATATTCGTATGCATTCGGCATAGGTAGATATAAGTG
1 TATATACGTATGCATTCGGCATAGGTAGATATAAGTG
* *
23297315 TATATACGTATGCATTCGGCATAGGTGGGTATAAGTG
1 TATATACGTATGCATTCGGCATAGGTAGATATAAGTG
*
23297352 AATAT
1 TATAT
23297357 GTGCATTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (37 bp):
TATATACGTATGCATTCGGCATAGGTAGATATAAGTG
Found at i:23300373 original size:13 final size:13
Alignment explanation
Indices: 23300355--23300387 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
23300345 ATCGACTAAG
23300355 CAATTCCAAGCTT
1 CAATTCCAAGCTT
23300368 CAATTCCAAGCTT
1 CAATTCCAAGCTT
23300381 CAATTCC
1 CAATTCC
23300388 GATTATCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.33, G:0.06, T:0.30
Consensus pattern (13 bp):
CAATTCCAAGCTT
Found at i:23302376 original size:26 final size:27
Alignment explanation
Indices: 23302347--23302454 Score: 103
Period size: 26 Copynumber: 3.9 Consensus size: 27
23302337 TATATTTTTG
23302347 TTAAATTATATTTAATAATAATTATT-
1 TTAAATTATATTTAATAATAATTATTA
*
23302373 TTAAATTATATTTTATAAT-ATTATATA
1 TTAAATTATATTTAATAATAATTAT-TA
* * * * * *
23302400 TTATGATTTTAGTAAATTCATATATTTTTA
1 TTA-AATTATATTTAA-TAATA-ATTATTA
23302430 TTAAATTATATTTAATAATAATTAT
1 TTAAATTATATTTAATAATAATTAT
23302455 GTTAAAATAT
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
25 5 0.08
26 19 0.31
27 7 0.11
28 11 0.18
29 11 0.18
30 5 0.08
31 4 0.06
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (27 bp):
TTAAATTATATTTAATAATAATTATTA
Found at i:23302425 original size:24 final size:22
Alignment explanation
Indices: 23302377--23302425 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
23302367 ATTATTTTAA
23302377 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
23302399 ATTATGATTTTAGTAA-ATTCATAT
1 ATTAT-ATTTTA-TAATATT-ATAT
23302423 ATT
1 ATT
23302426 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:23302609 original size:21 final size:21
Alignment explanation
Indices: 23302585--23302842 Score: 329
Period size: 21 Copynumber: 12.2 Consensus size: 21
23302575 TAAAAATCCT
* *
23302585 AACCCTAACCATTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
23302606 AACCCTAACCCTTAGCTTAAA
1 AACCCTAACCCTTAACTTAAA
*
23302627 AACCCTAACCTTTAACTTAAAA
1 AACCCTAACCCTTAACTT-AAA
* *
23302649 AACCCTAAACCTTAAATT-AA
1 AACCCTAACCCTTAACTTAAA
* *
23302669 AACCCTAAACCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
23302690 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
23302711 AACTCTAACCCTTAAATTGAA
1 AACCCTAACCCTTAACTTAAA
* *
23302732 AACCTTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
23302753 AACCCTAAACCTTAACTTAAT
1 AACCCTAACCCTTAACTTAAA
23302774 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
23302795 AACCTTAAAACCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
23302817 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
23302839 AACC
1 AACC
23302843 TTAAGGTTTT
Statistics
Matches: 208, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
20 20 0.10
21 132 0.63
22 56 0.27
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:23302971 original size:37 final size:38
Alignment explanation
Indices: 23302930--23303097 Score: 98
Period size: 37 Copynumber: 4.4 Consensus size: 38
23302920 TTTTGACTGG
23302930 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * * *
23302967 TACTAACCATTAATACA-AT--TATAAGTTAATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * ** * * * * **
23303002 TACATTCACATAATGTTAGATTTGGA-AAAATGTT-TTGACTGG
1 TAC--TAACA-ATTAATACATTT-GATATAAT-TTGAT-AATTT
23303044 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
*
23303081 TACTAACCATTAATACA
1 TACTAACAATTAATACA
23303098 ATTTATCAAT
Statistics
Matches: 91, Mismatches: 27, Indels: 25
0.64 0.19 0.17
Matches are distributed among these distances:
35 17 0.19
37 38 0.42
38 16 0.18
39 5 0.05
40 4 0.04
41 4 0.04
42 7 0.08
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.41
Consensus pattern (38 bp):
TACTAACAATTAATACATTTGATATAATTTGATAATTT
Found at i:23303050 original size:114 final size:114
Alignment explanation
Indices: 23302850--23303120 Score: 508
Period size: 114 Copynumber: 2.4 Consensus size: 114
23302840 ACCTTAAGGT
*
23302850 TTTTACTAACCATTAATACAATTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATAAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
23302915 AAATGTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATGTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
23302964 TTTTACTAACCATTAATACAATTATAAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
1 TTTTACTAACCATTAATACAATTATAAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
23303029 AAATGTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
66 AAATGTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
23303078 TTTTACTAACCATTAATACAATTTATCAA-TTAATAATTTTACA
1 TTTTACTAACCATTAATACAA-TTAT-AAGTTAATAATTTTACA
23303121 AATATAATTT
Statistics
Matches: 154, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
114 134 0.87
115 18 0.12
116 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (114 bp):
TTTTACTAACCATTAATACAATTATAAGTTAATAATTTTACATTCACATAATGTTAGATTTGGAA
AAATGTTTTGACTGGTACTAACAATTAATAATTTGATATAATTTGATAA
Found at i:23306286 original size:124 final size:125
Alignment explanation
Indices: 23306126--23306657 Score: 827
Period size: 125 Copynumber: 4.3 Consensus size: 125
23306116 CCCAAACATG
* * *
23306126 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
23306191 TAGAAGCGATTTTATACTTTTTGCTCAGAAATGTCAAGTCAAAATTATTT-TTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
*
23306250 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
23306315 TAGAAGCGATTTTATACTATTTTCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
* * * *
23306375 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGGTTTCAAAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
23306440 TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
* * *
23306500 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * * *
23306565 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTTCAAGAT
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
*
23306624 CTACTGTAGCAAAAGCGCGTACAC-ATGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGA
23306658 CTTATTTGTT
Statistics
Matches: 375, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
123 1 0.00
124 143 0.38
125 231 0.62
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
Found at i:23306630 original size:249 final size:249
Alignment explanation
Indices: 23306126--23306657 Score: 843
Period size: 249 Copynumber: 2.1 Consensus size: 249
23306116 CCCAAACATG
* * * *
23306126 CTACTGTAGCAAAAGCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
* * *
23306191 TAGAAGCGATTTTATACTTTTTGCTCAGAAATGTCAAGTCAAAATTATTTTTCCAGGACCTACTG
66 TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTG
* * * *
23306256 TAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGCTAGAAG
131 TAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
* * * *
23306321 CGATTTTATACTATTTTCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
196 CGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
* * *
23306375 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGGTTTCAAAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
23306440 TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGACCTACT
66 TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTT-TTCCAGGACCTACT
23306505 GTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
130 GTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAA
* *
23306570 GCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTTCAAGAT
195 GCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
*
23306624 CTACTGTAGCAAAAGCGCGTACAC-ATGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGA
23306658 CTTATTTGTT
Statistics
Matches: 258, Mismatches: 23, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
248 1 0.00
249 140 0.54
250 117 0.45
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (249 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGACTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTTTCCAGGACCTACTG
TAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTATCAAACAGCATCCTGCTAGAAG
CGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGAC
Found at i:23307474 original size:16 final size:17
Alignment explanation
Indices: 23307453--23307484 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23307443 TAGCTAAATC
23307453 GAAAAGAA-AAAAAAAA
1 GAAAAGAAGAAAAAAAA
23307469 GAAAAGAAGAAAAAAA
1 GAAAAGAAGAAAAAAA
23307485 TAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (17 bp):
GAAAAGAAGAAAAAAAA
Found at i:23310970 original size:2 final size:2
Alignment explanation
Indices: 23310963--23311019 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
23310953 ACTTCAAGAC
23310963 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23311005 AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG A
23311020 TCCAAGCATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23312721 original size:2 final size:2
Alignment explanation
Indices: 23312710--23312743 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
23312700 CAATACTCAA
23312710 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23312744 CATGTCTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23318714 original size:19 final size:19
Alignment explanation
Indices: 23318667--23318717 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
23318657 TCAAAAACAA
*
23318667 TTAATTAATTTTATGAATTT
1 TTAA-TAATTTTTTGAATTT
*
23318687 TTAAGAATTTTTTGATATTT
1 TTAATAATTTTTTGA-ATTT
23318707 TT-ATAATTTTT
1 TTAATAATTTTT
23318718 AAAAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TTAATAATTTTTTGAATTT
Found at i:23318717 original size:9 final size:10
Alignment explanation
Indices: 23318675--23318718 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
23318665 AATTAATTAA
23318675 TTTTATGAAT
1 TTTTATGAAT
*
23318685 TTTTAAGAAT
1 TTTTATGAAT
23318695 TTTT-TGATAT
1 TTTTATGA-AT
23318705 TTTTAT-AAT
1 TTTTATGAAT
23318714 TTTTA
1 TTTTA
23318719 AAAATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.30
10 20 0.67
11 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (10 bp):
TTTTATGAAT
Found at i:23325995 original size:26 final size:26
Alignment explanation
Indices: 23325965--23326026 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
23325955 TACCTACAGT
23325965 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* *
23325991 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
*
23326017 AGTTTTAGAA
1 AGTTTCAGAA
23326027 CACTTACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:23333383 original size:13 final size:13
Alignment explanation
Indices: 23333365--23333415 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
23333355 AGTTCTTCAT
23333365 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
23333378 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
23333391 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
23333404 TACTTTTGAGAA
1 TGCTTTTGAGAA
23333416 ATTTGAGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:23351718 original size:19 final size:19
Alignment explanation
Indices: 23351679--23351715 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23351669 TTATGGATAG
*
23351679 TTAATTAAAGTTTAATTAA
1 TTAATTAAAGCTTAATTAA
23351698 TTAATT-AAGCTTAATTAA
1 TTAATTAAAGCTTAATTAA
23351716 ATTTTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
TTAATTAAAGCTTAATTAA
Found at i:23366289 original size:22 final size:22
Alignment explanation
Indices: 23366261--23366305 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
23366251 TTTAACAACG
23366261 TGGAAGAAGT-AGCGCCACGACA
1 TGGAAGAAGTGA-CGCCACGACA
*
23366283 TGGAAGAAGTGACGCCATGACA
1 TGGAAGAAGTGACGCCACGACA
23366305 T
1 T
23366306 CGACCTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.13
Consensus pattern (22 bp):
TGGAAGAAGTGACGCCACGACA
Found at i:23367794 original size:27 final size:27
Alignment explanation
Indices: 23367753--23367807 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
23367743 TATCTGCACC
**
23367753 GAAATACCCTTATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
23367780 GAAATACCCCCATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACT
23367807 G
1 G
23367808 TTATGGCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGACT
Found at i:23368058 original size:28 final size:28
Alignment explanation
Indices: 23368023--23368167 Score: 240
Period size: 28 Copynumber: 5.2 Consensus size: 28
23368013 TTGCCACATA
23368023 TACTGTATTGGGCTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
* *
23368051 TATTGTATTGGGCTAAGGCCCACATTGAT
1 TACTGTATTGGGCTAAGGCCCACACTG-T
23368080 T-CTGTATTGGGCTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
*
23368107 TACTGTAATGGGCTAAGGCCCACACTGT
1 TACTGTATTGGGCTAAGGCCCACACTGT
23368135 TACTGTATTGGGCTAAGGCCCACACTG-
1 TACTGTATTGGGCTAAGGCCCACACTGT
23368162 TACTGT
1 TACTGT
23368168 CACTGAGTAA
Statistics
Matches: 109, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
27 8 0.07
28 99 0.91
29 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACACTGT
Found at i:23373165 original size:26 final size:26
Alignment explanation
Indices: 23373129--23373178 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
23373119 CTCTAAGAAG
23373129 ATTAACATGAAATACAAGAACAAAAT
1 ATTAACATGAAATACAAGAACAAAAT
23373155 ATTAACATGAAATACAAGAACAAA
1 ATTAACATGAAATACAAGAACAAA
23373179 TAAAATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.18
Consensus pattern (26 bp):
ATTAACATGAAATACAAGAACAAAAT
Found at i:23377127 original size:16 final size:17
Alignment explanation
Indices: 23377106--23377138 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
23377096 ATTTTCAATA
23377106 ATTTTTAA-TTATTTTT
1 ATTTTTAATTTATTTTT
23377122 ATTTTTAATTTATTTTT
1 ATTTTTAATTTATTTTT
23377139 TTATACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTAATTTATTTTT
Found at i:23377247 original size:26 final size:26
Alignment explanation
Indices: 23377218--23377268 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
23377208 TATACGAGTC
23377218 AAATTGTAATATAATAAGTTTACAGT
1 AAATTGTAATATAATAAGTTTACAGT
23377244 AAATTGTAATATAATAAGTTTACAG
1 AAATTGTAATATAATAAGTTTACAG
23377269 CAATATACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (26 bp):
AAATTGTAATATAATAAGTTTACAGT
Found at i:23381104 original size:16 final size:16
Alignment explanation
Indices: 23381078--23381131 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
23381068 TTTGGTTCGC
*
23381078 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
*
23381094 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
23381110 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
23381126 TGTAAT
1 TGTAAT
23381132 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:23381223 original size:44 final size:45
Alignment explanation
Indices: 23381110--23381223 Score: 109
Period size: 39 Copynumber: 2.7 Consensus size: 45
23381100 GGAATAGAGG
*
23381110 TGTAATGGAATAGAGGTGTAATAGCA-AATCAATTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCATAAT-AATTCTTTGGTTGAA
* * **
23381155 TGTAATGGAATAGAGGCG---TA--ATAAT-ATTCTTGTGTTTGGT
1 TGTAATGGAATAGAGGTGTAATAGCATAATAATTCTT-TGGTTGAA
23381195 TG-AATGGAATAGAGGTGTAATAGCATAAT
1 TGTAATGGAATAGAGGTGTAATAGCATAAT
23381224 GGAAAAAACT
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
39 19 0.34
40 8 0.14
41 3 0.05
42 4 0.07
44 5 0.09
45 17 0.30
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.34
Consensus pattern (45 bp):
TGTAATGGAATAGAGGTGTAATAGCATAATAATTCTTTGGTTGAA
Found at i:23381378 original size:15 final size:15
Alignment explanation
Indices: 23381354--23381396 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
23381344 TTTAAACATA
*
23381354 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23381369 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
23381383 A-TATAATTATAATA
1 ATTATAATTA-AATA
23381397 AAATTCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23381382 original size:16 final size:16
Alignment explanation
Indices: 23381345--23381386 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23381335 TTAATCATAT
*
23381345 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23381361 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23381376 TTAAAATATAT
1 TTAAAATATAT
23381387 AATTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23381386 original size:18 final size:18
Alignment explanation
Indices: 23381365--23381400 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23381355 TTATTATTAA
23381365 ATAT-ATTATAATTAAAAT
1 ATATAATTATAA-TAAAAT
23381383 ATATAATTATAATAAAAT
1 ATATAATTATAATAAAAT
23381401 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAATTATAATAAAAT
Found at i:23381389 original size:13 final size:14
Alignment explanation
Indices: 23381354--23381396 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
23381344 TTTAAACATA
*
23381354 ATTATTATTAAATAT
1 ATTATAATTAAA-AT
23381369 ATTATAATTAAAAT
1 ATTATAATTAAAAT
*
23381383 A-TATAATTATAAT
1 ATTATAATTAAAAT
23381396 A
1 A
23381397 AAATTCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATAATTAAAAT
Found at i:23381507 original size:59 final size:61
Alignment explanation
Indices: 23381348--23381765 Score: 241
Period size: 59 Copynumber: 7.0 Consensus size: 61
23381338 ATCATATTTA
* * *
23381348 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTA-TAATAAAATTCTTAA-T
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGA-TACTAATAAAATTATAAATT
* * * * * *
23381408 AATCA-ATATTCTTATATGAATTTACTGA-AATCATAATATATGATACT-ATAAAA-TATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAAAATATATGATACTAATAAAATTATAAATT
* * * *
23381469 AACATAATTATTATTAAATATATTATAATTAAAATATATAAT-TTAATAAAATTCTTAA-T
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATACTAATAAAATTATAAATT
* * * * * * *
23381528 AATCA-ATATTCTTATATGAATTTACTAAAATTATAATATATGATACT-ATAAAA-TATAATTT
1 AA-CATA-ATTATTAT-TAAATATATTATAATTAAAATATATGATACTAATAAAATTATAAATT
* * *
23381589 GAA-ATATTTATTATTAAATATATTTTAATTAAAATATATGAT-TTAATAAAATTCATAATAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATACTAATAAAATT-AT-A-AATT
* * * * * * * *
23381652 -A-AT-ATTCTTATATGAATTTACTCA-AATCATAATATATGATACT-ATAAAA-GATAATTT
1 AACATAATTATTAT-TAAATATA-TTATAATTAAAATATATGATACTAATAAAATTATAAATT
* * *
23381709 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGAT-TTAATAAAATT-TAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATACTAATAAAATTATAAA
23381766 ATAATTATAA
Statistics
Matches: 265, Mismatches: 62, Indels: 63
0.68 0.16 0.16
Matches are distributed among these distances:
57 3 0.01
58 7 0.03
59 91 0.34
60 52 0.20
61 82 0.31
62 25 0.09
63 5 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (61 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATACTAATAAAATTATAAATT
Found at i:23381514 original size:14 final size:15
Alignment explanation
Indices: 23381465--23381516 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23381455 ATAAAATATA
23381465 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
23381480 TATTAAATATATTAT
1 AATTAAATATATTAT
23381495 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
23381508 AATTTAATA
1 AATTAAATA
23381517 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:23381627 original size:18 final size:17
Alignment explanation
Indices: 23381604--23381640 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23381594 ATTTATTATT
23381604 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23381620 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23381637 AAAT
1 AAAT
23381641 TCATAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23381772 original size:120 final size:120
Alignment explanation
Indices: 23381351--23381761 Score: 680
Period size: 120 Copynumber: 3.4 Consensus size: 120
23381341 ATATTTAAAC
23381351 ATAATTATTATTAAATATATTATAATTAAAATATATAATTATAATAAAATTCTTAATAATCAATA
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATT-TAATAAAATTCTTAATAATCAATA
* *
23381416 TTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT-AA
65 TTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
23381471 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATA
1 -ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATA
*
23381536 TTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAATTTGAA
65 TTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* * * * *
23381592 ATATTTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCATAATAATTAATAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
* *
23381657 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* * *
23381712 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
23381762 TAAAATAATT
Statistics
Matches: 276, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 234 0.85
121 42 0.15
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:23381831 original size:26 final size:28
Alignment explanation
Indices: 23381802--23381862 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
23381792 TATGAATTTG
*
23381802 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
23381828 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
23381856 TAAAATT
1 TATAATT
23381863 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:23381946 original size:90 final size:91
Alignment explanation
Indices: 23381777--23381983 Score: 290
Period size: 91 Copynumber: 2.3 Consensus size: 91
23381767 TAATTATAAC
* * * * * * * *
23381777 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAACTTAAAATAATCATAATCAAATATAATTTAATAAT
*
23381842 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTAA
*
23381868 TAATAAATTTTCTTATATGATTTTATACAACTTAAAATAATCA-AATCAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAACTTAAAATAATCATAATCAAATATAATTTAATAAT
*
23381932 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
23381958 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
23381984 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
90 46 0.45
91 56 0.55
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.44
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAACTTAAAATAATCATAATCAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:23393955 original size:144 final size:144
Alignment explanation
Indices: 23393731--23393997 Score: 410
Period size: 144 Copynumber: 1.9 Consensus size: 144
23393721 GATATTAGAT
* * * *
23393731 GTGAGCCTAGCTCTAGTTGGACAAACCAAAGATGTTTGCGCCAAGCGCTAGTCAGATAAACCATC
1 GTGAGCCCAGCTCTAATTGGACAAACCAAAGATGTTTGCGCCAAGCACTAGTCAGATAAACCAAC
*
23393796 GAATGTGTGCCCAGCACTAGTCAGACAAACTTACAAAAGTTGCGCCCA-TCGCTAGTCAGATATA
66 GAATGTGTGCCCAGCACTAGTCAGACAAACTCACAAAAGTTGCGCCCAGT-GCTAGTCAGATATA
23393860 CTGACAAAATCAATA
130 CTGACAAAATCAATA
* * * *
23393875 GTGAGCCCAGCTCTAATTGGATAAACCAATGATGTTTGCGCCTAGCACTAGTCGGATAAACCAAC
1 GTGAGCCCAGCTCTAATTGGACAAACCAAAGATGTTTGCGCCAAGCACTAGTCAGATAAACCAAC
** *
23393940 GAATGTGTGCCCAGCACTAGTCAGATGAACTCACGAAAGTTGCGCCCAGTGCTAGTCA
66 GAATGTGTGCCCAGCACTAGTCAGACAAACTCACAAAAGTTGCGCCCAGTGCTAGTCA
23393998 AACAAATCGA
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
144 109 0.99
145 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (144 bp):
GTGAGCCCAGCTCTAATTGGACAAACCAAAGATGTTTGCGCCAAGCACTAGTCAGATAAACCAAC
GAATGTGTGCCCAGCACTAGTCAGACAAACTCACAAAAGTTGCGCCCAGTGCTAGTCAGATATAC
TGACAAAATCAATA
Found at i:23393995 original size:69 final size:69
Alignment explanation
Indices: 23393766--23393997 Score: 191
Period size: 69 Copynumber: 3.3 Consensus size: 69
23393756 CCAAAGATGT
* * * * *
23393766 TTGCGCCAAGCGCTAGTCAGATAAACCATCGAATGTGTGCCCAGCACTAGTCAGACAAACTTACA
1 TTGCGCCCAGCGCTAGTCAGATAAACCAACGAATGTGTGCCCAGCACTAGTCAGATAAACTCACG
23393831 AAAG
66 AAAG
* * * * * **
23393835 TTGCGCCCATCGCTAGTCAGATATACTGACAAAATC-AATAGTGAGCCCAGCTCTAATTGGATAA
1 TTGCGCCCAGCGCTAGTCAGATA-A---AC-CAA-CGAAT-GTGTGCCCAGCACTAGTCAGATAA
* *
23393899 AC-CAATG-ATG
59 ACTC-ACGAAAG
* * * *
23393909 TTTGCGCCTAGCACTAGTCGGATAAACCAACGAATGTGTGCCCAGCACTAGTCAGATGAACTCAC
1 -TTGCGCCCAGCGCTAGTCAGATAAACCAACGAATGTGTGCCCAGCACTAGTCAGATAAACTCAC
23393974 GAAAG
65 GAAAG
*
23393979 TTGCGCCCAGTGCTAGTCA
1 TTGCGCCCAGCGCTAGTCA
23393998 AACAAATCGA
Statistics
Matches: 120, Mismatches: 31, Indels: 24
0.69 0.18 0.14
Matches are distributed among these distances:
69 59 0.49
70 9 0.08
71 2 0.02
73 2 0.02
74 7 0.06
75 41 0.34
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (69 bp):
TTGCGCCCAGCGCTAGTCAGATAAACCAACGAATGTGTGCCCAGCACTAGTCAGATAAACTCACG
AAAG
Found at i:23398768 original size:12 final size:12
Alignment explanation
Indices: 23398751--23398776 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23398741 ATAGCCCATA
23398751 TTGATATGCTAT
1 TTGATATGCTAT
23398763 TTGATATGCTAT
1 TTGATATGCTAT
23398775 TT
1 TT
23398777 TTAACAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTGATATGCTAT
Found at i:23401528 original size:30 final size:31
Alignment explanation
Indices: 23401494--23401561 Score: 102
Period size: 33 Copynumber: 2.2 Consensus size: 31
23401484 CTATACTCGT
23401494 ATATAATTA-TTTGTTCTTGCATAGTCATTA
1 ATATAATTATTTTGTTCTTGCATAGTCATTA
*
23401524 ATATAATTATTTTTTGTTGTTGCATAGTCATTA
1 ATATAATTA--TTTTGTTCTTGCATAGTCATTA
23401557 ATATA
1 ATATA
23401562 CATTTTCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 9 0.26
33 25 0.74
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.51
Consensus pattern (31 bp):
ATATAATTATTTTGTTCTTGCATAGTCATTA
Done.