Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 185 of 378
Found at i:54188791 original size:29 final size:28
Alignment explanation
Indices: 54188694--54188805 Score: 120
Period size: 28 Copynumber: 4.0 Consensus size: 28
54188684 GTGAGCATGA
* *
54188694 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
54188722 ATATAAATGTGATTTGGGCCTAA-GGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
*
54188750 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGA-TTGGGCCTAATGGGCC
* * *
54188779 ATATGAATATGATTGGGCTTAGTGGGC
1 ATATGAATGTGATTGGGCCTAATGGGC
54188806 TAGATGCAGG
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
27 1 0.01
28 49 0.67
29 22 0.30
30 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:54196552 original size:29 final size:29
Alignment explanation
Indices: 54196510--54196567 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
54196500 TATCTTCTAT
*
54196510 TAGGAATAGCGTTTTGATATGATAATAAA
1 TAGGAATAGCGTTTCGATATGATAATAAA
*
54196539 TAGGAATAGCGTTTCGATATGATACTAAA
1 TAGGAATAGCGTTTCGATATGATAATAAA
54196568 AATGGGTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (29 bp):
TAGGAATAGCGTTTCGATATGATAATAAA
Found at i:54197136 original size:22 final size:22
Alignment explanation
Indices: 54197092--54197147 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
54197082 AAATATTTAG
54197092 AATATATATAATAAAATAGATAT
1 AATATATA-AATAAAATAGATAT
*
54197115 AATATATAAAT-AAATTGAATAT
1 AATATATAAATAAAATAG-ATAT
54197137 AATAT-TAAATA
1 AATATATAAATA
54197148 GATAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 10 0.33
22 12 0.40
23 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AATATATAAATAAAATAGATAT
Found at i:54200241 original size:17 final size:17
Alignment explanation
Indices: 54200219--54200252 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54200209 TAGAAAATAA
* *
54200219 AATAAAATTTAAATTGC
1 AATAAAAGTAAAATTGC
54200236 AATAAAAGTAAAATTGC
1 AATAAAAGTAAAATTGC
54200253 TAAAGTAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
AATAAAAGTAAAATTGC
Found at i:54218295 original size:53 final size:52
Alignment explanation
Indices: 54218166--54218365 Score: 219
Period size: 53 Copynumber: 3.8 Consensus size: 52
54218156 ATTAGGGTTT
*
54218166 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-G-TTCTAAGGC
* * *
54218221 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTC-TAAGGC
* * * *
54218274 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCT-AAGGC
* * * *
54218323 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAG
54218366 GTACCTGTAT
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
49 39 0.30
51 1 0.01
52 5 0.04
53 45 0.35
54 7 0.05
55 31 0.24
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTAAGGC
Found at i:54218576 original size:16 final size:16
Alignment explanation
Indices: 54218555--54218585 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54218545 ATAAATTTGA
54218555 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
54218571 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
54218586 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:54225736 original size:55 final size:53
Alignment explanation
Indices: 54225649--54225903 Score: 238
Period size: 55 Copynumber: 4.8 Consensus size: 53
54225639 ATTAGGGTTT
* *
54225649 AAGGATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * * *
54225704 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * *
54225759 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
54225812 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGTTTCTAAGGC
* *
54225861 AAGGATACCATGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAG
54225904 GTACCCGTGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 40 0.24
52 7 0.04
53 40 0.24
54 12 0.07
55 66 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:54225855 original size:108 final size:110
Alignment explanation
Indices: 54225659--54225856 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
54225649 AAGGATACCG
*
54225659 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
54225724 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* * **
54225769 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
54225831 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
54225857 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 7 0.09
110 23 0.29
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:54226114 original size:16 final size:16
Alignment explanation
Indices: 54226093--54226123 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54226083 ATAAATTTGA
54226093 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
54226109 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
54226124 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:54229496 original size:40 final size:40
Alignment explanation
Indices: 54229439--54229654 Score: 280
Period size: 40 Copynumber: 5.4 Consensus size: 40
54229429 GATGATAACG
* *
54229439 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
54229479 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATA-TCC
54229519 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
* **
54229559 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
* *
54229599 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCC
* *
54229639 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
54229655 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 17 0.10
40 144 0.88
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
Found at i:54237536 original size:39 final size:40
Alignment explanation
Indices: 54237473--54237685 Score: 253
Period size: 39 Copynumber: 5.4 Consensus size: 40
54237463 GATGATAACG
*
54237473 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC
54237513 GGGCTAAGTCCC-AAGGCATTTGTG-TGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATA-TCC
*
54237552 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
* **
54237592 -GGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
* *
54237631 -GGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCC
* *
54237670 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
54237686 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 8, Indels: 11
0.89 0.04 0.06
Matches are distributed among these distances:
38 3 0.02
39 121 0.76
40 35 0.22
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCC
Found at i:54237647 original size:78 final size:79
Alignment explanation
Indices: 54237473--54237685 Score: 283
Period size: 78 Copynumber: 2.7 Consensus size: 79
54237463 GATGATAACG
* *
54237473 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCC-AAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC-GGCTAAGTCCCGAAGGCATTTGT
* **
54237536 GTGAGTTACTAATTCC
64 GCGAACTACTAATTCC
54237552 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGTGC
54237617 GAACTACT-ATATCC
66 GAACTACTAAT-TCC
* * *
54237631 -GGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
54237686 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
77 2 0.02
78 62 0.51
79 57 0.47
80 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGTGC
GAACTACTAATTCC
Found at i:54240530 original size:40 final size:40
Alignment explanation
Indices: 54240484--54240708 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
54240474 CTTGCACAAG
* * * *
54240484 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAG
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
54240524 GCCTTCGGGACTTAGCCTGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
54240564 GCCTTCGGGTTTTAGCCCGGGTATAATCACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * **
54240604 GCCTTCGGGTCTTAGTCCGGATATAG-CAACTCGCATGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
54240644 GCCTTAGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
54240685 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
54240709 CATTCAAATA
Statistics
Matches: 149, Mismatches: 33, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 122 0.82
41 26 0.17
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:54240579 original size:80 final size:80
Alignment explanation
Indices: 54240448--54240708 Score: 269
Period size: 80 Copynumber: 3.3 Consensus size: 80
54240438 CTCAAGAAAT
* * * * * * *
54240448 CTTCGGGATTTAGCC-GGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCTGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
* *
54240511 CACTAGCATAAAGGC
66 CACTAGCACAAAAGC
* * * *
54240526 CTTCGGGACTTAGCCTGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGGTATAA
1 CTTCGGGACTTAGCCTGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
54240590 TCACTAGCACAAATGC
65 TCACTAGCACAAAAGC
* * ** * * * *
54240606 CTTCGGGTCTTAGTCC-GGATATAGCAACTCGCATGAATGCCTTAGGATCTTAGTCCGGTTATAG
1 CTTCGGGACTTAG-CCTGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
54240670 TCACCTAGCACAAAAGC
65 TCA-CTAGCACAAAAGC
54240687 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCTGGATAT
54240709 CATTCAAATA
Statistics
Matches: 151, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 91 0.60
81 32 0.21
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (80 bp):
CTTCGGGACTTAGCCTGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAAAGC
Found at i:54240669 original size:120 final size:119
Alignment explanation
Indices: 54240448--54240708 Score: 289
Period size: 120 Copynumber: 2.2 Consensus size: 119
54240438 CTCAAGAAAT
* * *
54240448 CTTCGGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTCA
1 CTTCGGGATTTAGCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTCA
* * *
54240513 CTAGCATAAAGGCCTTCGGGACTTAGCCTGGATATAGTC-GCTAGCACAAATGC
66 CTAGCATAAAGGCCTTCAGGACTTAGCCTGGATATAGTCACCTAGCACAAAAGC
* * * *
54240566 CTTCGGGTTTTAGCCCGGGTATAA-TCACTAGCACAAATGCCTTCGGGTCTTAGTCCGGATATAG
1 CTTCGGGATTTAG-CCGGATATAACT-ACTAGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATAG
* * * *
54240630 -CAACTCGCATGAATGCCTT-AGGATCTTAGTCC-GGTTATAGTCACCTAGCACAAAAGC
63 TC-ACTAGCATAAAGGCCTTCAGGA-CTTAG-CCTGGATATAGTCACCTAGCACAAAAGC
*
54240687 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGATTTAGCC-GGATAT
54240709 CATTCAAATA
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
118 13 0.11
119 20 0.17
120 55 0.47
121 30 0.25
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (119 bp):
CTTCGGGATTTAGCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGTCA
CTAGCATAAAGGCCTTCAGGACTTAGCCTGGATATAGTCACCTAGCACAAAAGC
Found at i:54248217 original size:60 final size:60
Alignment explanation
Indices: 54248082--54248220 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
54248072 TTTAGTGTTA
* *
54248082 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAAAAGAGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTAAAAGAGTAT
* * * **
54248143 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-CGAGA-TAT
1 ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTAAAAGAGTAT
*
54248203 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTTGCCCATAT
54248221 TAACACAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 48 0.72
61 16 0.24
62 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
ACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTAAAAGAGTAT
Found at i:54248256 original size:19 final size:20
Alignment explanation
Indices: 54248213--54248268 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
54248203 ATTGGGCCTT
54248213 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
54248233 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
54248252 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
54248269 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:54250407 original size:17 final size:19
Alignment explanation
Indices: 54250385--54250430 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
54250375 ACATACATAC
54250385 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
54250402 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
54250421 AATACTAATT
1 AATAATAATT
54250431 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:54252753 original size:51 final size:51
Alignment explanation
Indices: 54252655--54252754 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
54252645 CTACGACATA
* *
54252655 ACATGTAACACATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATGTT
1 ACATGTAACACATCCACAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
*
54252706 ACATG-AATCACATCCACCATGAACTCGGACCTCTCAACGAGCTCGGATG
1 ACATGTAA-CACATCCACAATGAACTCGGACCTCTCAACGAGCTCGGATG
54252755 CCACATATCT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 2 0.04
51 43 0.96
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (51 bp):
ACATGTAACACATCCACAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
Found at i:54258118 original size:45 final size:43
Alignment explanation
Indices: 54258010--54258128 Score: 123
Period size: 45 Copynumber: 2.7 Consensus size: 43
54258000 CGGGCTTCAG
* * *
54258010 GCCTAGCAGGCTATAATGCTGGTGAAATGATATCGGGCTGTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTGTAA
* * * *
54258053 GCTTAGTAAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTAA
1 GCCTAG-CAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTGTAA
*
54258099 GCCTAGCAGGCTATAATGCCGATGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
54258129 AATGTTATGT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 6 0.10
44 21 0.35
45 22 0.37
46 11 0.18
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTGTAA
Found at i:54258476 original size:38 final size:38
Alignment explanation
Indices: 54258434--54258633 Score: 292
Period size: 38 Copynumber: 5.3 Consensus size: 38
54258424 ATGTTGGAAT
*
54258434 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
54258472 TATATCGGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* *
54258510 TATATCCGGGTTAATTCCTGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * *
54258548 TATATCCGGGTTAAATCCTGCAGGTTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
* * * *
54258586 TATATCCGGGTTAAATCCCGCAAGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
54258624 TATATTCGGG
1 TATATCCGGG
54258634 CCTTTAAGTC
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 148 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:54258694 original size:45 final size:44
Alignment explanation
Indices: 54258626--54258750 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 44
54258616 GCTGGTATTA
* * *
54258626 TATTCGGGCCTTTAAGTCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAG-CCAGCAGGCTATAATGCCGGTGAGACAC
* *
54258671 TATTCGGGCCTTTGGGCCCAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAG-CCAGCAGGCTATAATGCCGGTGAGACAC
*
54258716 TATTCGGG-CTTTCGAGCCAACAGGCTATAATGCCG
1 TATTCGGGCCTTT-GAGCCAGCAGGCTATAATGCCG
54258751 ATGAAAAGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
44 22 0.31
45 49 0.69
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (44 bp):
TATTCGGGCCTTTGAGCCAGCAGGCTATAATGCCGGTGAGACAC
Found at i:54263130 original size:100 final size:96
Alignment explanation
Indices: 54262974--54263152 Score: 259
Period size: 100 Copynumber: 1.8 Consensus size: 96
54262964 TGATATGTGT
54262974 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTC
54263039 TGGGACATGGCATCAGCCTCGAGACTTGAAA
66 TGGGACATGGCATCAGCCTCGAGACTTGAAA
* *** * *
54263070 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGTTTCGATATATGAGAGTCAGTGTAAGACCA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAGAGCCAATGTAAGACCA
*
54263135 TGTTTGGGACATGGCATC
62 TGTCTGGGACATGGCATC
54263153 GACTTTGATG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
96 12 0.17
97 13 0.18
98 8 0.11
99 2 0.03
100 37 0.51
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (96 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTC
TGGGACATGGCATCAGCCTCGAGACTTGAAA
Found at i:54263153 original size:50 final size:50
Alignment explanation
Indices: 54262977--54263190 Score: 226
Period size: 50 Copynumber: 4.4 Consensus size: 50
54262967 TATGTGTGCT
* *
54262977 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATATGAGAGCC
* * * * * *
54263023 AATGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGACT-TGAAAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATA-TATGAGAGCC
** *
54263073 AGTGTAAGACCATGTTTGGGACATGGCATCGGTTTCGATATATGAGAGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATATGAGAGCC
* * * *
54263123 AGTGTAAGACCATGTTTGGGACATGGCATCGACTTTGATGTAT--GAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATATGAGAGCC
54263171 AGTGTAAGACCATGTCTTGG
1 AGTGTAAGACCATGT-TTGG
54263191 ACGTGGCGTC
Statistics
Matches: 141, Mismatches: 20, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
46 8 0.06
47 14 0.10
48 28 0.20
49 6 0.04
50 84 0.60
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (50 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATATGAGAGCC
Found at i:54273129 original size:13 final size:13
Alignment explanation
Indices: 54273111--54273137 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54273101 AAAGTAATCG
54273111 CACACGGGCGTGT
1 CACACGGGCGTGT
54273124 CACACGGGCGTGT
1 CACACGGGCGTGT
54273137 C
1 C
54273138 CTTGCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:54276247 original size:38 final size:38
Alignment explanation
Indices: 54276188--54276281 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
54276178 TCAATCATGC
*
54276188 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
* *
54276227 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCGTAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
54276265 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
54276282 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:54276519 original size:24 final size:24
Alignment explanation
Indices: 54276473--54276567 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
54276463 GCTTTATCAT
*
54276473 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
54276498 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
*
54276522 ATAACTGGGGCATAAGCCATTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
54276545 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
54276568 TCACTTCCTC
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
23 24 0.39
24 25 0.40
25 13 0.21
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54276643 original size:20 final size:20
Alignment explanation
Indices: 54276618--54276677 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
54276608 TATGATTACC
54276618 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
54276638 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
54276658 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
54276678 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:54276752 original size:25 final size:25
Alignment explanation
Indices: 54276720--54276767 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54276710 ATACATAAAC
* * *
54276720 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54276745 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54276768 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54288538 original size:30 final size:29
Alignment explanation
Indices: 54288444--54288545 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
54288434 TATAGTGAAT
* * *
54288444 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
54288473 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
54288501 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
54288531 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
54288546 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:54296397 original size:30 final size:29
Alignment explanation
Indices: 54296303--54296404 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
54296293 TATAGTGAAT
* * *
54296303 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
54296332 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
54296360 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
54296390 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
54296405 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:54298027 original size:38 final size:38
Alignment explanation
Indices: 54297975--54298055 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 38
54297965 CACACGTAGC
54297975 CCTTTTCATATTTCATATTTCATAATACTGGGCCGAAG
1 CCTTTTCATATTTCATATTTCATAATACTGGGCCGAAG
* *
54298013 CCTTTTCATGTTTCATATTTCGTAATACTGGGCCGAAG
1 CCTTTTCATATTTCATATTTCATAATACTGGGCCGAAG
54298051 CCTTT
1 CCTTT
54298056 ACTGTAAACG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (38 bp):
CCTTTTCATATTTCATATTTCATAATACTGGGCCGAAG
Found at i:54298293 original size:24 final size:24
Alignment explanation
Indices: 54298247--54298341 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
54298237 GCTTTATCAT
*
54298247 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
54298272 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
54298296 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
54298319 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
54298342 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54298326 original size:47 final size:49
Alignment explanation
Indices: 54298247--54298340 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
54298237 GCTTTATCAT
*
54298247 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
54298296 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
54298341 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:54298417 original size:20 final size:20
Alignment explanation
Indices: 54298392--54298451 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
54298382 TATGATTACC
54298392 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
54298412 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
54298432 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
54298452 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:54298526 original size:25 final size:25
Alignment explanation
Indices: 54298494--54298541 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54298484 ATACATAAAC
* * *
54298494 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54298519 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54298542 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54302858 original size:47 final size:47
Alignment explanation
Indices: 54302805--54302949 Score: 218
Period size: 47 Copynumber: 3.1 Consensus size: 47
54302795 TTAGGATTTT
* * * *
54302805 AATGTGATGAATGTGAACATGCGTATGTGCGATGAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
54302852 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
* * * *
54302899 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
54302946 AATG
1 AATG
54302950 CGAAATGTGT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
Found at i:54303059 original size:46 final size:46
Alignment explanation
Indices: 54302923--54303059 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
54302913 GAACATGTAT
* *
54302923 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
54302969 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
54303015 ATATGTGGTAAAGCCAAATGGCTTATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
54303060 TGTATATATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:54311751 original size:37 final size:37
Alignment explanation
Indices: 54311708--54311780 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
54311698 ATTTTACTCA
54311708 ACAATTCTTCTATGATTCCTAAGGAATTTAGGCTCTG
1 ACAATTCTTCTATGATTCCTAAGGAATTTAGGCTCTG
54311745 ACAATTCTTCTATGATTCCTAAGGAATTTAGGCTCT
1 ACAATTCTTCTATGATTCCTAAGGAATTTAGGCTCT
54311781 AACAGTGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (37 bp):
ACAATTCTTCTATGATTCCTAAGGAATTTAGGCTCTG
Found at i:54312466 original size:19 final size:19
Alignment explanation
Indices: 54312442--54312479 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
54312432 TGGGCCACGT
54312442 TGGGCCGAAATGGGC-CGTG
1 TGGGCC-AAATGGGCTCGTG
*
54312461 TGGGCCTAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
54312480 GGCCCCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:54312740 original size:27 final size:27
Alignment explanation
Indices: 54312710--54312869 Score: 137
Period size: 27 Copynumber: 5.9 Consensus size: 27
54312700 CCTGTAGGGT
*
54312710 AAAATGACAGTTTTGCCCTTATGTGGC
1 AAAATGACAGTTTTGCCCTTATGTGTC
* *
54312737 AAAATGACTA-TTTTGCCCTTATTTGTT
1 AAAATGAC-AGTTTTGCCCTTATGTGTC
* * *
54312764 AAATTGA-TGATTTTGCCCTTATGTGAC
1 AAAATGACAG-TTTTGCCCTTATGTGTC
* * * *
54312791 AAAATGACTA-TTTTTCCTTTATGCGTT
1 AAAATGAC-AGTTTTGCCCTTATGTGTC
* ** *
54312818 AAATTGATGGTTTTACCCTTATGTGTC
1 AAAATGACAGTTTTGCCCTTATGTGTC
*
54312845 AAAATGACATTTTTGCCCTTATGTG
1 AAAATGACAGTTTTGCCCTTATGTG
54312870 ATGTATGTTT
Statistics
Matches: 100, Mismatches: 27, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
27 99 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (27 bp):
AAAATGACAGTTTTGCCCTTATGTGTC
Found at i:54312782 original size:54 final size:54
Alignment explanation
Indices: 54312720--54312867 Score: 208
Period size: 54 Copynumber: 2.7 Consensus size: 54
54312710 AAAATGACAG
* **
54312720 TTTTGCCCTTATGTGGCAAAATGACTATTTTGCCCTTATTTGTTAAATTGATGA
1 TTTTGCCCTTATGTGACAAAATGACTATTTTGCCCTTATGCGTTAAATTGATGA
* * *
54312774 TTTTGCCCTTATGTGACAAAATGACTATTTTTCCTTTATGCGTTAAATTGATGG
1 TTTTGCCCTTATGTGACAAAATGACTATTTTGCCCTTATGCGTTAAATTGATGA
* *
54312828 TTTTACCCTTATGTGTCAAAATGAC-ATTTTTGCCCTTATG
1 TTTTGCCCTTATGTGACAAAATGACTA-TTTTGCCCTTATG
54312868 TGATGTATGT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 82 0.99
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (54 bp):
TTTTGCCCTTATGTGACAAAATGACTATTTTGCCCTTATGCGTTAAATTGATGA
Found at i:54313718 original size:27 final size:27
Alignment explanation
Indices: 54313701--54313766 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
54313691 AAATTATTGG
*
54313701 AATACCCTTGTAGTGTAAAATGACCGT
1 AATACCCTTGTAGTGTAAAATGACTGT
* * *
54313728 AATGCCCCTGTAGTGTAAAATGAGTGT
1 AATACCCTTGTAGTGTAAAATGACTGT
*
54313755 AATACCTTTGTA
1 AATACCCTTGTA
54313767 TAGTAGAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (27 bp):
AATACCCTTGTAGTGTAAAATGACTGT
Found at i:54315477 original size:43 final size:42
Alignment explanation
Indices: 54315388--54315503 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
54315378 TATGATTACA
* *
54315388 TGTAAGACCATGTCTGGGACATTGACATTGTATCATGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATCA-GATTATG
54315431 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTC-GATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TA-TCAGATTAT-G
* * *
54315474 TGTAAGACCCTATCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
54315504 ATATGTGATA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
42 1 0.02
43 60 0.92
44 2 0.03
45 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATCAGATTATG
Found at i:54315521 original size:43 final size:43
Alignment explanation
Indices: 54315431--54315531 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
54315421 CATGATTATG
* * * ** *
54315431 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCGATTTCG
1 TGTAAGACCATATCTGGGACAGTGGCATCGATATTCGATAACA
*
54315474 TGTAAGACCCTATCTGGGACAGTGGCATCGATATGT-GATAACA
1 TGTAAGACCATATCTGGGACAGTGGCATCGATAT-TCGATAACA
54315517 TGTAAGACCATATCT
1 TGTAAGACCATATCT
54315532 AGGATATCGT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 48 0.98
44 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGATATTCGATAACA
Found at i:54319849 original size:11 final size:11
Alignment explanation
Indices: 54319833--54319859 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
54319823 GGTAAATTGA
54319833 TTGATTATTCT
1 TTGATTATTCT
54319844 TTGATTATTCT
1 TTGATTATTCT
54319855 TTGAT
1 TTGAT
54319860 GATAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.07, G:0.11, T:0.63
Consensus pattern (11 bp):
TTGATTATTCT
Found at i:54320240 original size:20 final size:20
Alignment explanation
Indices: 54320198--54320241 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
54320188 TTTCAAAATT
* *
54320198 AAGTGAAAATGATTTTAACC
1 AAGTCAAAATGATTTCAACC
*
54320218 AAGTCAAAATGATTTCAATC
1 AAGTCAAAATGATTTCAACC
54320238 AAGT
1 AAGT
54320242 TAAACTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (20 bp):
AAGTCAAAATGATTTCAACC
Found at i:54321520 original size:29 final size:29
Alignment explanation
Indices: 54321483--54321548 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
54321473 TTGGCACTTA
* *
54321483 GGTTGAATGTTTTGGCATGTGTTAGGCGT
1 GGTTTAATGTTTTGGCATGTGTTAGGCAT
*
54321512 GGTTTAATGTTTTGGCATGTGTTGGGCAT
1 GGTTTAATGTTTTGGCATGTGTTAGGCAT
*
54321541 GTTTTAAT
1 GGTTTAAT
54321549 ATGTTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.15, C:0.06, G:0.33, T:0.45
Consensus pattern (29 bp):
GGTTTAATGTTTTGGCATGTGTTAGGCAT
Found at i:54322034 original size:17 final size:17
Alignment explanation
Indices: 54322002--54322034 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
54321992 TTATTAAATG
54322002 AGTAGTTTAATGATGTA
1 AGTAGTTTAATGATGTA
54322019 AGTAGCTTTAAT-ATGT
1 AGTAG-TTTAATGATGT
54322035 GTTGTAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.42
Consensus pattern (17 bp):
AGTAGTTTAATGATGTA
Found at i:54322767 original size:75 final size:75
Alignment explanation
Indices: 54322688--54322936 Score: 374
Period size: 75 Copynumber: 3.3 Consensus size: 75
54322678 TGTTCTAGAG
* **
54322688 TTTCTTCTGTGAATAAAAATGTTGTACTTATTAATGTTCTA-CAATAATAAGGCGTGGGCATGCC
1 TTTCTTCTGTGAACAAAAATGTTGTACTTCCTAATGTTC-AGCAATAATAAGGCGTGGGCATGCC
54322752 TTAATCTTGAA
65 TTAATCTTGAA
* *
54322763 TTTCTTCTGCGAAAAAAAAAATGTTGTACTTCCTAATGTTCAGCAATAATAAGGCGTGGGCATGC
1 TTTCTTCTGTG--AACAAAAATGTTGTACTTCCTAATGTTCAGCAATAATAAGGCGTGGGCATGC
54322828 CTTAATCTTGAA
64 CTTAATCTTGAA
* * *
54322840 TTTTTTCTGTGAACAAAAATGTTTTACTTCCTGATGTTCAGCAATAATAAGGCGTGGGCATGCCT
1 TTTCTTCTGTGAACAAAAATGTTGTACTTCCTAATGTTCAGCAATAATAAGGCGTGGGCATGCCT
*
54322905 TATTCTTGAA
66 TAATCTTGAA
*
54322915 TTTCTTCTATGAACAAAAATGT
1 TTTCTTCTGTGAACAAAAATGT
54322937 GTTACATCTT
Statistics
Matches: 159, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
75 90 0.57
76 1 0.01
77 68 0.43
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (75 bp):
TTTCTTCTGTGAACAAAAATGTTGTACTTCCTAATGTTCAGCAATAATAAGGCGTGGGCATGCCT
TAATCTTGAA
Found at i:54322961 original size:75 final size:75
Alignment explanation
Indices: 54322658--54322936 Score: 371
Period size: 75 Copynumber: 3.7 Consensus size: 75
54322648 GAAGTTTAAG
* * * * * * * **
54322658 AATAAGTCGTAGGCACGCCTTGTTCTAGAGTTTCTTCTGTGAATAAAAATGTTGTACTTATTAAT
1 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTGAACAAAAATGTTGTACTTCCTAAT
54322723 GTTCTA-CAAT
66 GTTC-AGCAAT
* * *
54322733 AATAAGGCGTGGGCATGCCTTAATCTTGAATTTCTTCTGCGAAAAAAAAAATGTTGTACTTCCTA
1 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTG--AACAAAAATGTTGTACTTCCTA
54322798 ATGTTCAGCAAT
64 ATGTTCAGCAAT
* * * *
54322810 AATAAGGCGTGGGCATGCCTTAATCTTGAATTTTTTCTGTGAACAAAAATGTTTTACTTCCTGAT
1 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTGAACAAAAATGTTGTACTTCCTAAT
54322875 GTTCAGCAAT
66 GTTCAGCAAT
*
54322885 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTATGAACAAAAATGT
1 AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTGAACAAAAATGT
54322937 GTTACATCTT
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
75 113 0.62
76 1 0.01
77 68 0.37
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (75 bp):
AATAAGGCGTGGGCATGCCTTATTCTTGAATTTCTTCTGTGAACAAAAATGTTGTACTTCCTAAT
GTTCAGCAAT
Found at i:54331118 original size:21 final size:20
Alignment explanation
Indices: 54331094--54331133 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
54331084 TATGATCTTT
54331094 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
54331115 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
54331134 ATAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:54331141 original size:20 final size:21
Alignment explanation
Indices: 54331099--54331141 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
54331089 TCTTTAATGA
*
54331099 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
54331120 TTGATGATAG-TTAT-ATAAGT
1 TTGATGATAGATTATGA-AAGT
54331140 TT
1 TT
54331142 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:54339354 original size:80 final size:80
Alignment explanation
Indices: 54339270--54339418 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
54339260 TATGGTAACC
* * * *
54339270 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
54339334 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
54339350 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
54339415 CCGG
66 CCGG
54339419 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:54339360 original size:40 final size:38
Alignment explanation
Indices: 54339311--54339418 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
54339301 ATCACGATTT
*
54339311 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
54339351 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
54339391 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
54339419 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:54339813 original size:19 final size:19
Alignment explanation
Indices: 54339789--54339827 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
54339779 AATTTATCAA
54339789 AACCTCATTGTGCTAGCTT
1 AACCTCATTGTGCTAGCTT
54339808 AACCTCATTGTGCTAGCTT
1 AACCTCATTGTGCTAGCTT
54339827 A
1 A
54339828 TGGCCGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (19 bp):
AACCTCATTGTGCTAGCTT
Found at i:54343503 original size:30 final size:30
Alignment explanation
Indices: 54343468--54343524 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
54343458 CAAGACTAGA
*
54343468 GGCAAAATCATAATTTTGCAAAGGTTTAGG
1 GGCAAAATCATAATTTTGCAAAAGTTTAGG
** *
54343498 GGCAAAATTGTAATTTTTCAAAAGTTT
1 GGCAAAATCATAATTTTGCAAAAGTTT
54343525 GTGTTAGTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (30 bp):
GGCAAAATCATAATTTTGCAAAAGTTTAGG
Found at i:54344389 original size:25 final size:25
Alignment explanation
Indices: 54344361--54344445 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 25
54344351 AGACCATGCC
54344361 AAGGCATGGCATTGATAAGTTCTAT
1 AAGGCATGGCATTGATAAGTTCTAT
* * * *
54344386 AAGGCAAGGAAATCATG-TAAG-ACCAT
1 AAGGCATGG-CAT--TGATAAGTTCTAT
54344412 GCCAAGGCATGGCATTGATAAGTTCTAT
1 ---AAGGCATGGCATTGATAAGTTCTAT
54344440 AAGGCA
1 AAGGCA
54344446 AGGAAATCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 16
0.65 0.12 0.24
Matches are distributed among these distances:
25 14 0.32
26 7 0.16
27 8 0.18
28 7 0.16
29 8 0.18
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (25 bp):
AAGGCATGGCATTGATAAGTTCTAT
Found at i:54344401 original size:54 final size:54
Alignment explanation
Indices: 54344337--54344598 Score: 323
Period size: 54 Copynumber: 4.9 Consensus size: 54
54344327 TTGGTAAGAG
54344337 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
*
54344391 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * *
54344445 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAACTTAATATAAGGTA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGG-C
** *
54344501 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTTG-TGAGTT-TATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCA-TTGATAAGTTCTATAAGGC
* * * * * * *
54344553 AAGGATACCACGTAAGACCATGTCAAGACATAGCAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
54344599 AAAAAGGAAA
Statistics
Matches: 181, Mismatches: 21, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
52 6 0.03
53 37 0.20
54 95 0.52
55 36 0.20
56 7 0.04
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:54354874 original size:28 final size:28
Alignment explanation
Indices: 54354817--54354876 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
54354807 TGGGAAGTAG
*
54354817 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
*
54354845 TTGGGCCTGATGGGCCATGTGAACT-AGA
1 TTGGGCCTGATGGGCCATATGAA-TGAGA
54354873 TTGG
1 TTGG
54354877 CCCTAAAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.20, C:0.15, G:0.37, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGAGA
Found at i:54355227 original size:27 final size:27
Alignment explanation
Indices: 54355197--54355404 Score: 156
Period size: 27 Copynumber: 7.7 Consensus size: 27
54355187 TAATAAAGAG
*
54355197 AAATTATTGAAATACCCCTGGTTTGTA
1 AAATTATCGAAATACCCCTGGTTTGTA
* ***
54355224 AAATTA-CCAAAGTACCCCCAATTTGTA
1 AAATTATCGAAA-TACCCCTGGTTTGTA
* **
54355251 AAATTATTGAAATACCCCCAGTTTGTA
1 AAATTATCGAAATACCCCTGGTTTGTA
* * *
54355278 AAATTA-CCAAAGTACCCC-GATTTATA
1 AAATTATCGAAA-TACCCCTGGTTTGTA
* *
54355304 AAATTACCGAAATA-CCCTCGGTTTATA
1 AAATTATCGAAATACCCCT-GGTTTGTA
* * * *
54355331 AAATTACCGAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCCTGGTTTGTA
* * *
54355358 AAATTAGCGAAATA-CCCTTGTAGTGTA
1 AAATTATCGAAATACCCCTGGT-TTGTA
*
54355385 AAATTATTGAAATACCCCTG
1 AAATTATCGAAATACCCCTG
54355405 TAGTGTAAAA
Statistics
Matches: 144, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
25 3 0.02
26 23 0.16
27 108 0.75
28 10 0.07
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (27 bp):
AAATTATCGAAATACCCCTGGTTTGTA
Found at i:54355279 original size:54 final size:54
Alignment explanation
Indices: 54355197--54355374 Score: 234
Period size: 54 Copynumber: 3.3 Consensus size: 54
54355187 TAATAAAGAG
* * *
54355197 AAATTATTGAAATACCCCTGGTTTGTAAAATTACCAAAGTACCCCCAATTTGTA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTACCAAAGTACCCCCGATTTGTA
* * *
54355251 AAATTATTGAAATACCCCCAGTTTGTAAAATTACCAAAGTA-CCCCGATTTATA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTACCAAAGTACCCCCGATTTGTA
* * * *
54355304 AAATTACCGAAATACCCTCGGTTTATAAAATTACCGAAA-CACCCCCGATTTGTA
1 AAATTATCGAAATACCCCCGGTTTGTAAAATTACC-AAAGTACCCCCGATTTGTA
*
54355358 AAATTAGCGAAATACCC
1 AAATTATCGAAATACCC
54355375 TTGTAGTGTA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 41 0.37
54 69 0.63
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (54 bp):
AAATTATCGAAATACCCCCGGTTTGTAAAATTACCAAAGTACCCCCGATTTGTA
Found at i:54355374 original size:80 final size:80
Alignment explanation
Indices: 54355205--54355374 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
54355195 AGAAATTATT
* * * ** *
54355205 GAAATACCCCTGGTTTGTAAAATTACCAAAGTACCCCCAATTTGTAAAATTATTGAAATACCCCC
1 GAAATACCCCTGATTTATAAAATTACCAAAGTACCCCCAATTTATAAAATTACCGAAACACCCCC
54355270 AGTTTGTAAAATTAC
66 AGTTTGTAAAATTAC
* * **
54355285 CAAAGTACCCC-GATTTATAAAATTACCGAAA-TACCCTCGGTTTATAAAATTACCGAAACACCC
1 GAAA-TACCCCTGATTTATAAAATTACC-AAAGTACCCCCAATTTATAAAATTACCGAAACACCC
54355348 CC-GATTTGTAAAATTAGC
64 CCAG-TTTGTAAAATTA-C
54355366 GAAATACCC
1 GAAATACCC
54355375 TTGTAGTGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
79 1 0.01
80 61 0.81
81 13 0.17
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (80 bp):
GAAATACCCCTGATTTATAAAATTACCAAAGTACCCCCAATTTATAAAATTACCGAAACACCCCC
AGTTTGTAAAATTAC
Found at i:54355402 original size:54 final size:52
Alignment explanation
Indices: 54355205--54355402 Score: 182
Period size: 54 Copynumber: 3.7 Consensus size: 52
54355195 AGAAATTATT
* * * **
54355205 GAAATACCCCTGGTTTGTAAAATTACCAAAGTACCCCCAATTTGTAAAATTATT
1 GAAATA-CCCTAGTTTGTAAAATTACGAAA-TACCCCCGATTTGTAAAATTACC
* * *
54355259 GAAATACCCCCAGTTTGTAAAATTACCAAAGTA-CCCCGATTTATAAAATTACC
1 GAAATA-CCCTAGTTTGTAAAATTACGAAA-TACCCCCGATTTGTAAAATTACC
* * * *
54355312 GAAATACCCTCGGTTTATAAAATTACCGAAACACCCCCGATTTGTAAAATTAGC
1 GAAATACCCT-AGTTTGTAAAATTA-CGAAATACCCCCGATTTGTAAAATTACC
* * *
54355366 GAAATACCCTTGTAGTGTAAAATTATTGAAATACCCC
1 GAAATACCCTAGT-TTGTAAAATTA-CGAAATACCCC
54355403 TGTAGTGTAA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
52 3 0.02
53 37 0.31
54 81 0.67
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (52 bp):
GAAATACCCTAGTTTGTAAAATTACGAAATACCCCCGATTTGTAAAATTACC
Found at i:54361481 original size:27 final size:27
Alignment explanation
Indices: 54361409--54361522 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 27
54361399 AGCATGGCTT
* *
54361409 CCAGAATAGATA-TTGTGACAGAGTCA
1 CCAGAATAGATATTTGTGGCAGAGCCA
*
54361435 CCAG-ATACATATATTGTGGCAGAGCCA
1 CCAGAATAGATAT-TTGTGGCAGAGCCA
* *
54361462 CCAGAATAGATATTTCTGGCATAGCCA
1 CCAGAATAGATATTTGTGGCAGAGCCA
* * * *
54361489 CCAGAAACAGGTATTTGTGGCATAGCCT
1 CCAG-AATAGATATTTGTGGCAGAGCCA
54361517 CCAGAA
1 CCAGAA
54361523 CGCTTCCTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.08
26 4 0.05
27 34 0.46
28 30 0.41
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (27 bp):
CCAGAATAGATATTTGTGGCAGAGCCA
Found at i:54368520 original size:36 final size:36
Alignment explanation
Indices: 54368480--54368554 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
54368470 ATTAGCCCAT
54368480 TTATGTGTTTTTGAATAAATTTGATTGAATATGAGA
1 TTATGTGTTTTTGAATAAATTTGATTGAATATGAGA
*
54368516 TTATGTGTTTTTGGATAAATTTGATTGAATATGAGA
1 TTATGTGTTTTTGAATAAATTTGATTGAATATGAGA
54368552 TTA
1 TTA
54368555 AATAAGTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (36 bp):
TTATGTGTTTTTGAATAAATTTGATTGAATATGAGA
Found at i:54368635 original size:31 final size:31
Alignment explanation
Indices: 54368597--54368661 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
54368587 AAATAAAGAA
54368597 ATCAGAGTTGGATCGAAGAAAGTTGAAAATT
1 ATCAGAGTTGGATCGAAGAAAGTTGAAAATT
54368628 ATCAGAGTTGGATCGAAGAAAGTTGAAAATT
1 ATCAGAGTTGGATCGAAGAAAGTTGAAAATT
54368659 ATC
1 ATC
54368662 GAATACTCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.26
Consensus pattern (31 bp):
ATCAGAGTTGGATCGAAGAAAGTTGAAAATT
Found at i:54378859 original size:40 final size:40
Alignment explanation
Indices: 54378778--54378919 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
54378768 CAACCAAGTA
* * *
54378778 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
54378817 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54378857 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
54378897 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
54378920 CTACAAAATA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.15
40 81 0.85
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54379105 original size:40 final size:40
Alignment explanation
Indices: 54379022--54379264 Score: 274
Period size: 40 Copynumber: 6.1 Consensus size: 40
54379012 ATACTATTTG
* * * *
54379022 ATTCAGGGTTACCAAAGTATAAATA-GGGCAC-TATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
*
54379060 ATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * * *
54379100 ATTCAGGAGTACCAAAGTACAAACAAGGGCACATATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * * * *
54379140 ATTCAGAGGTGCCAAAGTACAAATAGGGGCACATATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * * * *
54379180 ACTCAGGGGTACCGAAGTATAAATACGGGCCCGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
54379220 ATTCAGGGGTTCTGAAGTACAAAAAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
54379260 ATTCA
1 ATTCA
54379265 ACAATAATTA
Statistics
Matches: 173, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
38 20 0.12
39 6 0.03
40 147 0.85
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:54379106 original size:20 final size:20
Alignment explanation
Indices: 54379047--54379106 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
54379037 AGTATAAATA
54379047 GGGCAC-TATGTGCATTCAG
1 GGGCACGTATGTGCATTCAG
* * * **
54379066 GGGTATCG-AAGTACAAACAG
1 GGGCA-CGTATGTGCATTCAG
54379086 GGGCACGTATGTGCATTCAG
1 GGGCACGTATGTGCATTCAG
54379106 G
1 G
54379107 AGTACCAAAG
Statistics
Matches: 28, Mismatches: 10, Indels: 5
0.65 0.23 0.12
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (20 bp):
GGGCACGTATGTGCATTCAG
Found at i:54379238 original size:120 final size:118
Alignment explanation
Indices: 54379033--54379264 Score: 322
Period size: 120 Copynumber: 1.9 Consensus size: 118
54379023 TTCAGGGTTA
* * * *
54379033 CCAAAGTATAAATAGGGCACTATGTGCATTCAGGGGTATCGAAGTACAAACAGGGGCACGTATGT
1 CCAAAGTACAAATAGGGCACTATGTGCACTCAGGGGTACCGAAGTACAAACACGGGCACGTATGT
54379098 GCATTCAGGAGTACCAAAGTACAAACAA-GGGCACATATGTGCATTCAGAGGTG
66 GCATTCAGGAGTACCAAAGTACAAA-AAGGGGCACATATGTGCATTCAGAGGTG
* * *
54379151 CCAAAGTACAAATAGGGGCACATATGTGCACTCAGGGGTACCGAAGTATAAATACGGGCCCGTAT
1 CCAAAGTACAAATA-GGGCAC-TATGTGCACTCAGGGGTACCGAAGTACAAACACGGGCACGTAT
* * ** *
54379216 GTGCATTCAGGGGTTCTGAAGTACAAAAAGGGGCACGTATGTGCATTCA
64 GTGCATTCAGGAGTACCAAAGTACAAAAAGGGGCACATATGTGCATTCA
54379265 ACAATAATTA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
118 13 0.13
119 8 0.08
120 78 0.79
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.21
Consensus pattern (118 bp):
CCAAAGTACAAATAGGGCACTATGTGCACTCAGGGGTACCGAAGTACAAACACGGGCACGTATGT
GCATTCAGGAGTACCAAAGTACAAAAAGGGGCACATATGTGCATTCAGAGGTG
Found at i:54395739 original size:46 final size:46
Alignment explanation
Indices: 54395689--54395864 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
54395679 TGTTTGGGCA
54395689 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
*** * * * *
54395735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
54395782 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
54395828 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54395865 GCGAGTTACA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 72 0.66
47 37 0.34
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:54395844 original size:93 final size:93
Alignment explanation
Indices: 54395685--54395856 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
54395675 AGGATGTTTG
* * *
54395685 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
54395750 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
54395778 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
54395843 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
54395857 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:54400000 original size:15 final size:15
Alignment explanation
Indices: 54399982--54400022 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
54399972 TATATCTGTG
54399982 AAATTTTCGTGTTTT
1 AAATTTTCGTGTTTT
54399997 AAATTTTCGTGTTTT
1 AAATTTTCGTGTTTT
54400012 AAATTTGTCGT
1 AAATTT-TCGT
54400023 TTGAGTGTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (15 bp):
AAATTTTCGTGTTTT
Found at i:54401194 original size:24 final size:24
Alignment explanation
Indices: 54401141--54401308 Score: 216
Period size: 25 Copynumber: 7.0 Consensus size: 24
54401131 GCTTTACCAT
*
54401141 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
54401166 GTAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
* *
54401190 ATAACTAGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
54401215 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
54401240 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54401263 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54401286 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
54401309 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
23 43 0.33
24 32 0.25
25 55 0.42
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54401270 original size:23 final size:23
Alignment explanation
Indices: 54401162--54401307 Score: 211
Period size: 23 Copynumber: 6.1 Consensus size: 23
54401152 CCTAGCCTCT
* *
54401162 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
54401185 TTTTTATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
54401209 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
54401234 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
54401259 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
54401282 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
54401305 TTT
1 TTT
54401308 TGCACTTCCT
Statistics
Matches: 114, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 48 0.42
24 19 0.17
25 47 0.41
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:54401382 original size:20 final size:20
Alignment explanation
Indices: 54401354--54401464 Score: 195
Period size: 20 Copynumber: 5.5 Consensus size: 20
54401344 GCATTTATGA
*
54401354 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
54401374 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
54401394 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
54401414 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
54401434 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
54401454 ACATATCATGT
1 ACATATCATGT
54401465 TTATCAAAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:54401529 original size:25 final size:25
Alignment explanation
Indices: 54401501--54401548 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54401491 ATATATAAAC
* * *
54401501 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54401526 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54401549 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54402737 original size:27 final size:26
Alignment explanation
Indices: 54402707--54402784 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 26
54402697 AGGCATATTC
54402707 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
*
54402734 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
54402761 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
54402785 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:54403008 original size:81 final size:81
Alignment explanation
Indices: 54402913--54403107 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 81
54402903 TTTGTAAATC
54402913 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
* *
54402977 TGGTAATTTCACAAACT
65 TAGCAATTTCACAAACT
* *
54402994 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
* *
54403059 AGCAATTTTACAGACT
66 AGCAATTTCACAAACT
* * * *
54403075 A-GGGTATTCTAGTAATTTTATAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
54403108 AAACAGTAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 28 0.27
81 73 0.71
82 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTCACAAACT
Found at i:54403068 original size:27 final size:27
Alignment explanation
Indices: 54402802--54403094 Score: 184
Period size: 27 Copynumber: 10.8 Consensus size: 27
54402792 TTTCATCCTA
* * *
54402802 CAAGGGTGTTTTGGTAAATCTT-CAAAC
1 CAAGGGTATTTTAGT-AATTTTACAAAC
* **
54402829 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
54402856 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
* ** *
54402885 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* * *
54402912 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** ** *
54402939 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
54402966 C-AGTGGTATTTTGGTAATTTCACAAAC
1 CAAG-GGTATTTTAGTAATTTTACAAAC
* * * *
54402993 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
**
54403020 TGAGGGTATTTCT-GTAATTTTACAAAC
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* *
54403047 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
54403073 CTAGGGTATTCTAGTAATTTTA
1 CAAGGGTATTTTAGTAATTTTA
54403095 TAAATCGAGG
Statistics
Matches: 216, Mismatches: 40, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
26 28 0.13
27 157 0.73
28 16 0.07
29 15 0.07
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:54403115 original size:27 final size:27
Alignment explanation
Indices: 54403085--54403218 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
54403075 AGGGTATTCT
*
54403085 AGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* **
54403112 AGTAATTCTGTAAATTAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
54403139 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
54403166 GGTACTTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
54403193 -G-ATATTCTATAAGTCGAGGGTAAAAC
1 AGTA-ATTCTATAAATCGAGGGTAAAAC
54403219 GGGGGTAAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
25 1 0.01
26 21 0.23
27 71 0.76
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:54403219 original size:53 final size:54
Alignment explanation
Indices: 54403085--54403220 Score: 186
Period size: 54 Copynumber: 2.5 Consensus size: 54
54403075 AGGGTATTCT
* * *
54403085 AGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATTAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* * *
54403139 AGTAATTCTATAAATCAAGGGTAAAACGGTACTTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
*
54403193 -G-ATATTCTATAAGTCGAGGGTAAAACGG
1 AGTA-ATTCTATAAATCGAGGGTAAAACGG
54403221 GGGTAAAATG
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 24 0.33
54 48 0.66
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (54 bp):
AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:54403290 original size:27 final size:27
Alignment explanation
Indices: 54403212--54403279 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
54403202 TAAGTCGAGG
*
54403212 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAATCGGGGGTAAAATGGTAATTAT
*
54403239 GTAAATCGGGGGTAAAATGGTAATTCT
1 GTAAATCGGGGGTAAAATGGTAATTAT
54403266 GTAAATCGGGGGTA
1 GTAAATCGGGGGTA
54403280 CTTTGGTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (27 bp):
GTAAATCGGGGGTAAAATGGTAATTAT
Found at i:54403306 original size:27 final size:27
Alignment explanation
Indices: 54403276--54403351 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
54403266 GTAAATCGGG
* *
54403276 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTACTTTAGTAATTTTACAAATCGAA
* *
54403303 GGTACTTCAGTAATTTTACAAATCGAG
1 GGTACTTTAGTAATTTTACAAATCGAA
*
54403330 GGTA-TTTCAGTATTTTTACAAA
1 GGTACTTT-AGTAATTTTACAAA
54403352 CTAAGCGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTACTTTAGTAATTTTACAAATCGAA
Found at i:54403381 original size:28 final size:27
Alignment explanation
Indices: 54403285--54403383 Score: 85
Period size: 27 Copynumber: 3.6 Consensus size: 27
54403275 GGGTACTTTG
* * *
54403285 GTAATTTTACAAGTCGAAG-GTACTTCA
1 GTAATTTTACAA-ACTAAGCGTATTTCA
* *
54403312 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGCGTATTTCA
* *
54403339 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGCGTATTTCA
*
54403366 GTAATTTTAGTAAACTAA
1 GTAATTTTA-CAAACTAA
54403384 AGTATTCTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
26 2 0.03
27 48 0.83
28 8 0.14
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGCGTATTTCA
Found at i:54405157 original size:56 final size:56
Alignment explanation
Indices: 54405094--54405204 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
54405084 ACCATGCCAT
** *
54405094 CGATATATGTGTGTGAGTAAGACCATGTT-TAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCAAGTAAGACCA-GTTCTAATACGTTGACATCGATATGTGATTC
*
54405150 CGATATATGTGTGCAAGTAAGACCAGTTCTAGTACGTTGACATCGATATGTGATT
1 CGATATATGTGTGCAAGTAAGACCAGTTCTAATACGTTGACATCGATATGTGATT
54405205 ACATGTAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
55 3 0.06
56 47 0.94
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGCAAGTAAGACCAGTTCTAATACGTTGACATCGATATGTGATTC
Found at i:54409273 original size:49 final size:49
Alignment explanation
Indices: 54409146--54409550 Score: 658
Period size: 49 Copynumber: 8.3 Consensus size: 49
54409136 CCCTTCGGGA
* * * *
54409146 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTT-GGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
54409193 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54409240 CTTATCACATATATATACACCTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54409289 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54409338 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCTTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54409387 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54409436 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54409485 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54409534 CTTATCACATATATATA
1 CTTATCACATATATATA
54409551 TCTCATACAT
Statistics
Matches: 339, Mismatches: 14, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 3 0.01
47 44 0.13
49 292 0.86
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54412438 original size:39 final size:39
Alignment explanation
Indices: 54412381--54412503 Score: 158
Period size: 39 Copynumber: 3.1 Consensus size: 39
54412371 ATACTAGTTG
* ** *
54412381 ATTCAGGGTTACCAAAGTATAAACAGGGCACGTATGTGC
1 ATTCAGGGGTACTGAAGTACAAACAGGGCACGTATGTGC
* *
54412420 ATTCAGGGGTACTGAAGTACAAACAAGGGCACGTATATGT
1 ATTCAGGGGTACTGAAGTACAAAC-AGGGCACGTATGTGC
*
54412460 ATTTAGGGGTA-TCGAAGTACAAACAGGGCACGTATGTGC
1 ATTCAGGGGTACT-GAAGTACAAACAGGGCACGTATGTGC
54412499 ATTCA
1 ATTCA
54412504 AAAACAATTA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
39 38 0.53
40 34 0.47
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (39 bp):
ATTCAGGGGTACTGAAGTACAAACAGGGCACGTATGTGC
Found at i:54414933 original size:10 final size:10
Alignment explanation
Indices: 54414918--54414978 Score: 86
Period size: 10 Copynumber: 5.9 Consensus size: 10
54414908 CTGATTTGTA
54414918 CATGATATGC
1 CATGATATGC
*
54414928 CATGATATGAA
1 CATGATATG-C
54414939 CATGATATGC
1 CATGATATGC
54414949 CATGATATGC
1 CATGATATGC
54414959 ACATGATATGC
1 -CATGATATGC
*
54414970 CATCATATG
1 CATGATATG
54414979 TTCATATATG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
10 27 0.59
11 19 0.41
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:54414933 original size:21 final size:21
Alignment explanation
Indices: 54414917--54414978 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
54414907 ACTGATTTGT
54414917 ACATGATATGCCATGATATGA
1 ACATGATATGCCATGATATGA
*
54414938 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGA
*
54414959 ACATGATATGCCATCATATG
1 ACATGATATGCCATGATATG
54414979 TTCATATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (21 bp):
ACATGATATGCCATGATATGA
Found at i:54417706 original size:94 final size:94
Alignment explanation
Indices: 54417597--54417928 Score: 461
Period size: 94 Copynumber: 3.5 Consensus size: 94
54417587 TTAGGATTTT
* ** * *
54417597 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
54417662 TGCATATGTGAGATAAGGCTGAATGGCCA
66 TGCATATGTGTGATAAGGCAGAATGGCCA
* * * *
54417691 ATATGATGAATGTGAACATACATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
54417756 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATATGTGTGATAAGGCAGAATGGCCA
*
54417785 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
54417850 TGCATATATGTGATAAGGCAGAATGGCCA
66 TGCATATGTGTGATAAGGCAGAATGGCCA
* * * * *
54417879 ATGTGATGAACATG-GAA-GTGTATATATGAGGTAAAGCCGAATGGCTAATG
1 ATGTGATG-A-ATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATG
54417929 CGAAATGTGC
Statistics
Matches: 214, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
94 207 0.97
95 4 0.02
96 3 0.01
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCAGAATGGCCA
Found at i:54417741 original size:24 final size:24
Alignment explanation
Indices: 54417714--54417789 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
54417704 GAACATACAT
54417714 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* *
54417738 ATGTGATGA-ATGTG--AACAT-G-CA
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
54417760 TATGTGTGATAAGGCCGAATGGCCA
1 -ATGTGTGATAAGGCCGAATGGCCA
54417785 ATGTG
1 ATGTG
54417790 ATGAATGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 16 0.41
25 6 0.15
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:54417742 original size:22 final size:22
Alignment explanation
Indices: 54417717--54417838 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
54417707 CATACATATG
54417717 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
54417739 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
54417762 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* * *
54417786 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
54417811 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
54417833 TGTGAT
1 TGTGAT
54417839 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 23 0.31
23 17 0.23
24 17 0.23
25 17 0.23
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:54417771 original size:141 final size:141
Alignment explanation
Indices: 54417597--54417928 Score: 461
Period size: 141 Copynumber: 2.4 Consensus size: 141
54417587 TTAGGATTTT
* ** * *
54417597 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
54417662 TGCATATGTGAGATAAGGCTGAATGGCCAATATGATGAATGTGAACATACATATGTGTGATAAGG
66 TGCATATATGAGATAAGGCCGAATGGCCAATATGATGAATGTGAACATACATATATGTGATAAGG
*
54417727 CCGAATGGCCA
131 CAGAATGGCCA
* *
54417738 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
54417803 TGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGG
66 TGCATATATGAGATAAGGCCGAATGGCCAATATGATGAATGTGAACATACATATATGTGATAAGG
54417868 CAGAATGGCCA
131 CAGAATGGCCA
* * * * *
54417879 ATGTGATGAACATG-GAA-GTGTATATATGAGGTAAAGCCGAATGGCTAATG
1 ATGTGATG-A-ATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATG
54417929 CGAAATGTGC
Statistics
Matches: 168, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
141 161 0.96
142 4 0.02
143 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGAGATAAGGCCGAATGGCCAATATGATGAATGTGAACATACATATATGTGATAAGG
CAGAATGGCCA
Found at i:54417885 original size:22 final size:22
Alignment explanation
Indices: 54417810--54417885 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
54417800 ACATGCATAT
*
54417810 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
54417832 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
54417856 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
54417879 ATGTGAT
1 ATGTGAT
54417886 GAACATGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:54417923 original size:47 final size:47
Alignment explanation
Indices: 54417597--54417888 Score: 458
Period size: 47 Copynumber: 6.2 Consensus size: 47
54417587 TTAGGATTTT
* ** * * *
54417597 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
54417644 ATGTGATGAATGTGAACATGCATATGTGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
54417691 ATATGATGAATGTGAACATACATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54417738 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54417785 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54417832 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54417879 ATGTGATGAA
1 ATGTGATGAA
54417889 CATGGAAGTG
Statistics
Matches: 232, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 232 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54417955 original size:46 final size:46
Alignment explanation
Indices: 54417902--54418083 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
54417892 GGAAGTGTAT
* *
54417902 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGCATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
54417948 CTATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
54417994 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
54418040 ATATGTGGT-AAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
54418084 TGTATATATA
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
45 30 0.24
46 94 0.76
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:54419619 original size:40 final size:40
Alignment explanation
Indices: 54419564--54419978 Score: 704
Period size: 40 Copynumber: 10.4 Consensus size: 40
54419554 TGAGAGTTAT
54419564 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
54419604 ATATATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
54419644 ATATATTCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
54419684 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
54419724 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
54419764 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
54419804 ATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
54419844 ATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
54419884 ATATATCCGGGCTGAGTTCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* **
54419924 ATAAATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
54419964 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
54419979 ACCTCGAAGG
Statistics
Matches: 353, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 353 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:54420096 original size:57 final size:57
Alignment explanation
Indices: 54420006--54420116 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
54419996 GCTGGAATTA
* *
54420006 TGAGGAACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGAACTATGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGTAGT
* * * * * *
54420063 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGAACTATGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGT
54420117 CAGTGGGCAC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (57 bp):
TGAGGAACTATGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAAATCAGTAGT
Found at i:54421687 original size:29 final size:29
Alignment explanation
Indices: 54421653--54421730 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
54421643 GTGACGAGAT
* *
54421653 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
54421682 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
54421711 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
54421731 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:54429529 original size:29 final size:29
Alignment explanation
Indices: 54429495--54429572 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
54429485 GTGACGAGAT
* *
54429495 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
54429524 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
54429553 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
54429573 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:54434898 original size:25 final size:25
Alignment explanation
Indices: 54434869--54434946 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
54434859 GAATGGCCAA
54434869 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
54434894 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
54434916 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
54434941 TGTGAT
1 TGTGAT
54434947 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 15 0.38
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:54434921 original size:22 final size:22
Alignment explanation
Indices: 54434894--54435015 Score: 72
Period size: 22 Copynumber: 5.3 Consensus size: 22
54434884 CATGCATATG
54434894 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
54434916 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
54434939 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* * * *
54434963 TGTGATGAATG-TGAATATGCATACA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
54434988 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
54435010 TGTGAT
1 TGTGAT
54435016 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 28
0.65 0.11 0.25
Matches are distributed among these distances:
22 26 0.35
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:54435062 original size:22 final size:22
Alignment explanation
Indices: 54434941--54435062 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
54434931 CATGCATATG
*
54434941 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
54434963 TGTGATGAATG-TGAATATGCATACA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
54434988 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
54435010 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
54435035 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
54435057 TGTGAT
1 TGTGAT
54435063 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:54435086 original size:47 final size:47
Alignment explanation
Indices: 54434821--54435065 Score: 391
Period size: 47 Copynumber: 5.2 Consensus size: 47
54434811 TTAGGATTTT
* ** * * *
54434821 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGGCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54434868 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54434915 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
54434962 ATGTGATGAATGTGAATATGCATACATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54435009 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54435056 ATGTGATGAA
1 ATGTGATGAA
54435066 CGTGGAAGTT
Statistics
Matches: 185, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 185 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54439409 original size:27 final size:27
Alignment explanation
Indices: 54439361--54439422 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
54439351 GTGTACCTGG
* *
54439361 GCCCCTAATCGATAAAATGACTATTAT
1 GCCCCTATTTGATAAAATGACTATTAT
* *
54439388 GCCTCTATTTGATAAAATGACTGTTAT
1 GCCCCTATTTGATAAAATGACTATTAT
54439415 GCCCCTAT
1 GCCCCTAT
54439423 GAGATATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.34
Consensus pattern (27 bp):
GCCCCTATTTGATAAAATGACTATTAT
Found at i:54439428 original size:27 final size:27
Alignment explanation
Indices: 54439371--54439428 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
54439361 GCCCCTAATC
* **
54439371 GATAAAATGACTATTATGCCTCTATTT
1 GATAAAATGACTATTATGCCCCTATGA
*
54439398 GATAAAATGACTGTTATGCCCCTATGA
1 GATAAAATGACTATTATGCCCCTATGA
54439425 GATA
1 GATA
54439429 TATGATCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (27 bp):
GATAAAATGACTATTATGCCCCTATGA
Found at i:54440064 original size:18 final size:19
Alignment explanation
Indices: 54440033--54440070 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
54440023 TGGCCTCTTT
*
54440033 GGATTTTATTTTTAATTTG
1 GGATTTTATATTTAATTTG
*
54440052 GGATTTTA-ATTTACTTTG
1 GGATTTTATATTTAATTTG
54440070 G
1 G
54440071 ATATAACAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58
Consensus pattern (19 bp):
GGATTTTATATTTAATTTG
Found at i:54448813 original size:45 final size:45
Alignment explanation
Indices: 54448753--54448885 Score: 176
Period size: 45 Copynumber: 3.0 Consensus size: 45
54448743 GAATCTAATA
* * *
54448753 CGATGCCGATGTCCCAGACATGGTCTTACACGTAACCACATATAT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATAT
* *
54448798 TGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATATAT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATAT
* * ** *
54448843 CAATTCCAATGTCCCAGACATGGTCTTACTTGAAAATACATAT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATAT
54448886 CAAAATCCTA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 76 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (45 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATATAT
Found at i:54456450 original size:27 final size:27
Alignment explanation
Indices: 54456420--54456496 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
54456410 ACCCCTAGTC
*
54456420 GATAAAATGACTATTATACCCCTGTGT
1 GATAAAATGACTATTATGCCCCTGTGT
*
54456447 GATAAAATGACTATTATGCCTCTGTGT
1 GATAAAATGACTATTATGCCCCTGTGT
* *
54456474 AATAAAATGACTGTTATGCCCCT
1 GATAAAATGACTATTATGCCCCT
54456497 ATGAGATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (27 bp):
GATAAAATGACTATTATGCCCCTGTGT
Found at i:54459186 original size:40 final size:40
Alignment explanation
Indices: 54459122--54459312 Score: 208
Period size: 39 Copynumber: 4.8 Consensus size: 40
54459112 GCTACTCGTT
* * * ***
54459122 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
54459162 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
54459202 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
54459241 CCATTGCCTTCGGG-CTTAGCCTGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
54459280 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
54459313 TTCGCACATT
Statistics
Matches: 133, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:54459239 original size:39 final size:39
Alignment explanation
Indices: 54459158--54459320 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
54459148 TATGGTAACC
* *
54459158 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
54459198 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
54459237 CGCACCATTGCCTTCGGGCTTAGCCTGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
54459276 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
54459315 CGCACA
1 CGCACA
54459321 TTCATACACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:54462530 original size:40 final size:39
Alignment explanation
Indices: 54462468--54462691 Score: 208
Period size: 40 Copynumber: 5.6 Consensus size: 39
54462458 CGGATGATAA
* *
54462468 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATT
* *
54462508 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAAT-T
* *
54462548 CCGGGCTAAGTCCCGAAGGCGTTTGTCCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--AT-T
** * *
54462588 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATT
* *
54462627 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT--TACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--AT-T
54462667 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54462692 AGCTAGTGGC
Statistics
Matches: 157, Mismatches: 16, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
37 3 0.02
39 35 0.22
40 115 0.73
41 3 0.02
42 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATT
Found at i:54462672 original size:79 final size:80
Alignment explanation
Indices: 54462508--54462691 Score: 271
Period size: 79 Copynumber: 2.3 Consensus size: 80
54462498 GTGGCTAATT
* *
54462508 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* ** *
54462573 TCCGAGCTATTATAT
66 TCCAAGCTACCATAA
* *
54462588 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
54462652 TGCAAGTTACCATAA
66 TCCAAGCTACCATAA
54462667 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54462692 AGCTAGTGGC
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
79 58 0.62
80 36 0.38
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TCCAAGCTACCATAA
Found at i:54462680 original size:119 final size:120
Alignment explanation
Indices: 54462468--54462691 Score: 317
Period size: 119 Copynumber: 1.9 Consensus size: 120
54462458 CGGATGATAA
* * *
54462468 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
* * * *
54462533 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTCCGAGCTATTATAT
66 TGCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTATTATAT
* * * *
54462588 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTC
*
54462651 GTGCAAGTTACCATAACCGGGCTAAGTCCCGAAGGCATTTG
65 GTGCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTG
54462692 AGCTAGTGGC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 63 0.69
120 28 0.31
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACCATAACCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTATTATAT
Found at i:54467094 original size:19 final size:20
Alignment explanation
Indices: 54467051--54467095 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
54467041 CAACACACTA
* *
54467051 AGAGAAAATGGAAGGGAAAG
1 AGAGAAAATGAAAGAGAAAG
54467071 AGAGAAAA-GAAAGAGAAAG
1 AGAGAAAATGAAAGAGAAAG
*
54467090 GGAGAA
1 AGAGAA
54467096 GAGCTAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (20 bp):
AGAGAAAATGAAAGAGAAAG
Found at i:54476506 original size:53 final size:53
Alignment explanation
Indices: 54476438--54476645 Score: 191
Period size: 53 Copynumber: 3.9 Consensus size: 53
54476428 TTCCTTTTTA
* * * *
54476438 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATG
* * ** * * *
54476491 AACTCACCATTGCCATGCCTTGGTATGGTCTTACATGGGATCTTTACCTTAGCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA-TG
** * * * * * *
54476545 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAT-G
* * *
54476600 AACTTGCCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTTA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
54476646 AACCTTAATG
Statistics
Matches: 119, Mismatches: 33, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 43 0.36
54 38 0.32
55 38 0.32
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATG
Found at i:54477122 original size:28 final size:28
Alignment explanation
Indices: 54477090--54477147 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
54477080 TGACATGTTG
54477090 ATAATTTATTTACCCACAGAAACATCAA
1 ATAATTTATTTACCCACAGAAACATCAA
*
54477118 ATAATTTATTTACCCACGGAAACATCAA
1 ATAATTTATTTACCCACAGAAACATCAA
54477146 AT
1 AT
54477148 TCCCACTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (28 bp):
ATAATTTATTTACCCACAGAAACATCAA
Found at i:54479104 original size:38 final size:38
Alignment explanation
Indices: 54479061--54479219 Score: 147
Period size: 38 Copynumber: 3.9 Consensus size: 38
54479051 TTTCAAATTA
* *
54479061 ACATGTATAACCGTGGCATATCCACTTAGCACTACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* *
54479099 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* *
54479140 GAATCAATATATGTAATCATGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
* * *
54479184 ACATGTATCAATCGTGGTATATCCACTTAGCACCAC
1 ACATGTAT-AACCATGGCATATCCACTTAGCACCAC
54479220 ATTTTTCCAT
Statistics
Matches: 100, Mismatches: 11, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
38 33 0.33
39 26 0.26
40 4 0.04
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 1 0.01
47 27 0.27
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Done.