Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 43 of 259
Found at i:13182047 original size:16 final size:17
Alignment explanation
Indices: 13182015--13182047 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13182005 CATCAAGAAG
13182015 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
13182033 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
13182048 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:13182492 original size:41 final size:41
Alignment explanation
Indices: 13182447--13182536 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 41
13182437 GTGTCTACTA
*
13182447 GCTGTGTGTGGCACACAGGCTGGCACATGGGCATGTGGCTG
1 GCTGTGTGTGGCACACAGGCTGGCACATGGGCATGGGGCTG
*
13182488 GCTGTGTGTGGCACACGGGCTGGCACATGGGCATGGGGCTG
1 GCTGTGTGTGGCACACAGGCTGGCACATGGGCATGGGGCTG
13182529 GCTGTGTG
1 GCTGTGTG
13182537 ACCCAAGTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.12, C:0.21, G:0.44, T:0.22
Consensus pattern (41 bp):
GCTGTGTGTGGCACACAGGCTGGCACATGGGCATGGGGCTG
Found at i:13184091 original size:29 final size:28
Alignment explanation
Indices: 13184054--13184109 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
13184044 CCGAAATACT
13184054 GATATCATGGCCCAAAGCCAAATCAGTC
1 GATATCATGGCCCAAAGCCAAATCAGTC
* *
13184082 GATATTCATGGCTCGAAGCCAAATCAGT
1 GATA-TCATGGCCCAAAGCCAAATCAGT
13184110 ATAACTCGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (28 bp):
GATATCATGGCCCAAAGCCAAATCAGTC
Found at i:13191320 original size:40 final size:40
Alignment explanation
Indices: 13191290--13191619 Score: 545
Period size: 40 Copynumber: 8.3 Consensus size: 40
13191280 GGATTATGAT
* * * *
13191290 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
13191330 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
13191370 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
13191410 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
13191450 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
13191490 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
13191530 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
13191570 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
13191609 CCGAAGGCATT
1 CCGAAGGCATT
13191620 TGAACGAGGA
Statistics
Matches: 277, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
39 34 0.12
40 243 0.88
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:13191336 original size:80 final size:80
Alignment explanation
Indices: 13191237--13191619 Score: 522
Period size: 80 Copynumber: 4.8 Consensus size: 80
13191227 TTGAATGCTG
* * * * * * * *
13191237 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTATGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTGATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
13191300 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA
*
13191317 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTGATTAAATCCGGGTTAAGTCCCGAAGGCATTC
13191382 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
13191397 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTG-TTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TGATTAAATCCGGGTTAAGTCCCGAAGGCATT
13191461 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
*
13191477 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTGATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
13191542 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * * * *
13191557 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTGATTAAATCCGGGTTAAGTCCCGAAGGCATT
13191620 TGAACGAGGA
Statistics
Matches: 278, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
79 36 0.13
80 235 0.85
81 7 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTGATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:13191450 original size:120 final size:120
Alignment explanation
Indices: 13191237--13191619 Score: 556
Period size: 120 Copynumber: 3.2 Consensus size: 120
13191227 TTGAATGCTG
* * * * * * * *
13191237 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTATGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * **
13191300 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
64 TCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
13191357 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
13191422 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
13191477 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * *
13191542 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
66 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
13191596 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
13191620 TGAACGAGGA
Statistics
Matches: 242, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
119 35 0.14
120 201 0.83
121 6 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:13194771 original size:20 final size:21
Alignment explanation
Indices: 13194740--13194783 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
13194730 ATTAAAAGGT
* *
13194740 TAATATAGTAAATTAATGAAA
1 TAATATAGTAAAATAATAAAA
13194761 TAATA-AGTAAAATAATAAAA
1 TAATATAGTAAAATAATAAAA
13194781 TAA
1 TAA
13194784 CCAAAGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
TAATATAGTAAAATAATAAAA
Found at i:13197499 original size:79 final size:80
Alignment explanation
Indices: 13197355--13197612 Score: 276
Period size: 79 Copynumber: 3.2 Consensus size: 80
13197345 AAATCACGTA
* * * * * * **
13197355 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGCCCGGTTATA
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGGACTTAGCCCGAATATA
*
13197418 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
13197434 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGAA-ATTA
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGAATA-TA
*
13197497 GTATCTCGCACAAATG
65 GTAACTCGCACAAATG
* * * * *
13197513 CCTTCGGGACTTAACCCAGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-AGATTTG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGA-ATATA
* *
13197577 GTCACTTAGCACAAA-G
65 GTAAC-TCGCACAAATG
*
13197593 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
13197613 CATCATTCAA
Statistics
Matches: 152, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 84 0.55
80 59 0.39
81 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGAATATAG
TAACTCGCACAAATG
Found at i:13197510 original size:39 final size:40
Alignment explanation
Indices: 13197388--13197610 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
13197378 GCTACTCGTT
* * * *
13197388 CAAATGCTTTCGGGACATAGCCCG-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCA
* * *
13197428 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
* * *
13197468 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
13197507 CAAATGCCTTCGGGACTTAACCC-AGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGA-ATTTAGTAACTCGCA
* * *
13197547 CAAATGCCTTCGGGACTTAACCC-AGATTTGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGA-ATTTAGTAAC-TCGCA
*
13197588 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
13197611 GACATCATTC
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 35 0.22
40 114 0.72
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
Found at i:13197566 original size:119 final size:120
Alignment explanation
Indices: 13197388--13197610 Score: 317
Period size: 119 Copynumber: 1.9 Consensus size: 120
13197378 GCTACTCGTT
* * * * *
13197388 CAAATGCTTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* *
13197453 ATTTAGTAAC-TCGTACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
66 ATTTAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
*
13197507 CAAATGCCTTCGGGACTTAACCCAGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACATAACCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
13197571 GATTTGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
65 GATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCG
13197611 GACATCATTC
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
119 72 0.79
120 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
Found at i:13205485 original size:79 final size:78
Alignment explanation
Indices: 13205341--13205596 Score: 277
Period size: 79 Copynumber: 3.3 Consensus size: 78
13205331 AAATCACGTA
* * * * * * *
13205341 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCTTTCGGGACATAGCCCGGTTATA
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGGACTTAGCCCGGAT-TA
13205404 GTAACTCGCACAATTG
64 GTAACTCGCACAA-TG
*
13205420 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGAAATTAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCG-GATTAG
*
13205484 TATCTCGCACAAATG
65 TAACTCGCAC-AATG
* * * *
13205499 CCTTCGGGACTTAACCCAGA-TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTGGT
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTAGT
* * *
13205563 CACTTAGCACAAAG
66 AAC-TCGCACAATG
*
13205577 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
13205597 CATCATTCAA
Statistics
Matches: 151, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 53 0.35
79 67 0.44
80 31 0.21
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTAGT
AACTCGCACAATG
Found at i:13205595 original size:39 final size:39
Alignment explanation
Indices: 13205374--13205596 Score: 270
Period size: 39 Copynumber: 5.7 Consensus size: 39
13205364 GCTACTCGTT
* * * *
13205374 CAAATGCTTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCGCA
* *
13205414 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGA-TTAGTAACTCGCA
* * *
13205454 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-GATTAGTAACTCGCA
*
13205493 CAAATGCCTTCGGGACTTAACCCAGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
* * *
13205532 CAAATGCCTTCGGGACTTAACCCGGATTGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTAGTAAC-TCGCA
*
13205572 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
13205597 CATCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
39 97 0.61
40 61 0.38
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
Found at i:13218999 original size:46 final size:45
Alignment explanation
Indices: 13218949--13219121 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 45
13218939 TGGTTGAGCA
*
13218949 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * * *
13218995 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--A--CG
* * *
13219042 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATTGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-TGATGCAAACG
* * *
13219088 CCCGATCTCGTTGAGATGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13219122 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAACG
Found at i:13219108 original size:93 final size:93
Alignment explanation
Indices: 13218946--13219116 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
13218936 GGATGGTTGA
* * *
13218946 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGA
13219011 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
13219039 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATTGATGCGAACGCCCGATCTCGTTGAGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGA
13219104 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13219117 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGA
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13219381 original size:19 final size:20
Alignment explanation
Indices: 13219344--13219381 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13219334 GTAAGGTGAT
13219344 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
13219364 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
13219382 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:13226576 original size:46 final size:46
Alignment explanation
Indices: 13226526--13226651 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
13226516 TGGTTGAGCA
*
13226526 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* *
13226572 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* * *
13226618 CCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTA
13226652 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:13226913 original size:19 final size:20
Alignment explanation
Indices: 13226876--13226913 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13226866 ATAAGGTGGT
13226876 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
13226896 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
13226914 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:13229440 original size:25 final size:25
Alignment explanation
Indices: 13229398--13229445 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13229388 GAGAAAAATT
* * * *
13229398 AAAATGTAAAAGTTAAATTAAAACA
1 AAAATATAAAAATAAAATAAAAACA
13229423 AAAATATAAAAATAAAATAAAAA
1 AAAATATAAAAATAAAATAAAAA
13229446 TGGCTAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAATATAAAAATAAAATAAAAACA
Found at i:13235090 original size:50 final size:49
Alignment explanation
Indices: 13234974--13235157 Score: 192
Period size: 50 Copynumber: 3.7 Consensus size: 49
13234964 GGTCGCATGG
* * * *
13234974 GTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACGTGT
* **
13235025 GTAGTACTAAATGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACGTGT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACGTGT
* * * *
13235075 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATAT
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACGTGT
* *
13235124 GTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
13235158 TAGCTTCGGC
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 39 0.35
50 42 0.37
51 27 0.24
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (49 bp):
GTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACGTGT
Found at i:13238170 original size:15 final size:15
Alignment explanation
Indices: 13238150--13238207 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
13238140 GTATCTTGGG
13238150 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
13238165 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
13238180 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
13238195 TTTCTTTATTCTG
1 TTTCTTTATTCTG
13238208 TTTTCTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 4 0.11
15 29 0.78
16 4 0.11
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:13260832 original size:19 final size:20
Alignment explanation
Indices: 13260808--13260845 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13260798 GGTACCACCA
13260808 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13260827 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13260846 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13261142 original size:46 final size:46
Alignment explanation
Indices: 13261075--13261196 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
13261065 CGCCCCTAAG
* * * *
13261075 TGAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCATCCATAAA
1 TGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
13261121 TGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
13261167 TGAACTCAGACTCAACTCAACGAGTTCGGA
1 TGAACTCAGACTCAACTCAACGAGTTCGGA
13261197 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (46 bp):
TGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:13261215 original size:46 final size:45
Alignment explanation
Indices: 13261073--13261215 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
13261063 CCCGCCCCTA
* * ** *
13261073 AGTGAACTCGGACTCAACTCAACGAGATCGGGCGTTC-GCATCCAT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
13261118 AAATGAACTCAGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
13261164 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
13261211 AGTGA
1 AGTGA
13261216 CATGTCACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 77 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:13261650 original size:32 final size:30
Alignment explanation
Indices: 13261614--13261675 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
13261604 ATTTAATACG
13261614 AACTTTTAAAAAAAATTACACTTTTGCCCCTA
1 AACTTTT--AAAAAATTACACTTTTGCCCCTA
** *
13261646 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
13261676 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 20 0.74
32 7 0.26
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:13264137 original size:23 final size:24
Alignment explanation
Indices: 13264111--13264156 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
13264101 CTTCGCTGTC
*
13264111 TCAA-ATTCAAGTCTTTTGTGACA
1 TCAAGATTCAAGACTTTTGTGACA
*
13264134 TCAAGTATTTAAGACTTTTGTGA
1 TCAAG-ATTCAAGACTTTTGTGA
13264157 TCGGTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
25 15 0.79
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
TCAAGATTCAAGACTTTTGTGACA
Found at i:13268341 original size:19 final size:20
Alignment explanation
Indices: 13268317--13268354 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13268307 GGTACCACCA
13268317 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13268336 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13268355 ATCACCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13268743 original size:93 final size:93
Alignment explanation
Indices: 13268584--13268754 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
13268574 GCCCCTAAGT
* * *
13268584 GAACTCGGACTCATCTCAACGAGATCGGGCGTTCGCATCAATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCAATAAATGAACTCAGACTCAACTCAA
13268649 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
13268677 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCAATAAATGAACTCAGACTCAACTCAA
13268742 CGAGTTCGGATGC
66 CGAGTTCGGATGC
13268755 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCAATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13268751 original size:46 final size:46
Alignment explanation
Indices: 13268579--13268751 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
13268569 AACCCGCCCC
* * * * * *
13268579 TAAGTGAACTCGGACTCATCTCAACGAGATCGGGCGTTCGCATCAA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * *
13268625 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
13268673 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
13268718 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13268752 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:13268770 original size:46 final size:45
Alignment explanation
Indices: 13268629--13268770 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
13268619 CATCAATAAA
*
13268629 TGAACTCAGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
13268676 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
13268722 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
13268768 TGA
1 TGA
13268771 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.43
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:13269208 original size:31 final size:30
Alignment explanation
Indices: 13269173--13269234 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
13269163 CATTTAATAC
13269173 AAACTTTTAAAAAAATTACACTTTTGCCCCT
1 AAACTTTT-AAAAAATTACACTTTTGCCCCT
** *
13269204 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTAAAAAATTACACTTTTGCCCCT
13269234 A
1 A
13269235 GGCTCAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (30 bp):
AAACTTTTAAAAAATTACACTTTTGCCCCT
Found at i:13275683 original size:46 final size:46
Alignment explanation
Indices: 13275633--13275805 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
13275623 TGGTTGAGCA
* *
13275633 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
13275679 TCCGAACTCGTTGACTTGAGTCCGAGTT--C--GTGCGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* *
13275726 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
13275772 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
13275806 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 1 0.01
45 2 0.02
46 56 0.55
47 26 0.25
48 1 0.01
50 6 0.06
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:13275791 original size:93 final size:93
Alignment explanation
Indices: 13275630--13275800 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
13275620 GGATGGTTGA
*
13275630 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGACT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGACT
13275695 TGAGTCCGAGTTCGTGCGATGTAACTAG
66 TGAGTCCGAGTTCGTGCGATGTAACTAG
* * * * *
13275723 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCAAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAC
13275787 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
13275801 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGACT
TGAGTCCGAGTTCGTGCGATGTAACTAG
Found at i:13276067 original size:19 final size:20
Alignment explanation
Indices: 13276030--13276067 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13276020 ATAAGGTGGT
13276030 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
13276050 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
13276068 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:13282599 original size:15 final size:15
Alignment explanation
Indices: 13282579--13282615 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
13282569 ATACCAAGAT
13282579 GAGGCAAGTGATATC
1 GAGGCAAGTGATATC
13282594 GAGGCAAGTGATATC
1 GAGGCAAGTGATATC
*
13282609 AAGGCAA
1 GAGGCAA
13282616 CTCAGTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (15 bp):
GAGGCAAGTGATATC
Found at i:13282698 original size:27 final size:27
Alignment explanation
Indices: 13282668--13282724 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
13282658 ACCCCCTAAT
*
13282668 TGATAAAATGAATGTTATGCC-CTTATG
1 TGATAAAATCAATGTTATGCCTC-TATG
*
13282695 TGATAAAATCACTGTTATGCCTCTATG
1 TGATAAAATCAATGTTATGCCTCTATG
13282722 TGA
1 TGA
13282725 GGTATGATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (27 bp):
TGATAAAATCAATGTTATGCCTCTATG
Found at i:13289494 original size:25 final size:25
Alignment explanation
Indices: 13289466--13289535 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
13289456 CTCTTTTAAT
*
13289466 AACTGGGGCAAAGCCCTTTTTGACA
1 AACTGGGGCAAAGCCCTTTTCGACA
* **
13289491 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGACA
*
13289516 AACCGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
13289536 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGACA
Found at i:13294207 original size:15 final size:16
Alignment explanation
Indices: 13294180--13294209 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13294170 AGATATTCCA
13294180 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
13294196 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
13294210 GGGAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:13295293 original size:29 final size:28
Alignment explanation
Indices: 13295261--13295330 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
13295251 CTAGCCATAA
*
13295261 ACACGGTCGTGTGTGAGGCAC-AGCCTGTC
1 ACACGG-CGTGTATGAGGCACGA-CCTGTC
*
13295290 ACACAGGCATGTATGAGGCACGACCTGTC
1 ACAC-GGCGTGTATGAGGCACGACCTGTC
13295319 ACACGGGCGTGT
1 ACAC-GGCGTGT
13295331 CGAAGATCGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 32 0.91
30 3 0.09
ACGTcount: A:0.21, C:0.27, G:0.33, T:0.19
Consensus pattern (28 bp):
ACACGGCGTGTATGAGGCACGACCTGTC
Found at i:13307534 original size:40 final size:39
Alignment explanation
Indices: 13307490--13307581 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 39
13307480 TATGATTGGT
*
13307490 ACTAAGTGTGCGGTTTAATATAACTTCGGCTACA-AATGGC
1 ACTAAGTGTGCGG-TTAACATAACTTCGGCTACAGAA-GGC
* ** *
13307530 ACTAAGTGTGCCAGTTGGCATAACTTCGGCTATAGAAGGC
1 ACTAAGTGTG-CGGTTAACATAACTTCGGCTACAGAAGGC
13307570 ACTAAGTGTGCG
1 ACTAAGTGTGCG
13307582 ATACCGATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 39 0.89
41 4 0.09
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (39 bp):
ACTAAGTGTGCGGTTAACATAACTTCGGCTACAGAAGGC
Found at i:13311797 original size:27 final size:29
Alignment explanation
Indices: 13311731--13311803 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
13311721 AATATTACTC
* *
13311731 AATTATTTATTTATTTTTATTGGTAACAT
1 AATTATTTCTTTATTCTTATTGGTAACAT
* *
13311760 AACTTTTTTTCTTT-TTCTT-TTGTTAACAT
1 AA--TTATTTCTTTATTCTTATTGGTAACAT
13311789 AATTATTTCTTTATT
1 AATTATTTCTTTATT
13311804 TGAAAAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
27 9 0.25
28 2 0.06
29 13 0.36
30 4 0.11
31 8 0.22
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (29 bp):
AATTATTTCTTTATTCTTATTGGTAACAT
Found at i:13313325 original size:53 final size:53
Alignment explanation
Indices: 13313240--13313345 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
13313230 TTGTTCATGT
*
13313240 GTCATCATCGTGTTTAGTCATGTCACGCAACTGTTAAAAAATTAATGGTGTTA
1 GTCAGCATCGTGTTTAGTCATGTCACGCAACTGTTAAAAAATTAATGGTGTTA
* * *
13313293 GTCAGCATCGTGTTTAGTCATGTTACTCAACTGTTAAAAAATTAATTGTGTTA
1 GTCAGCATCGTGTTTAGTCATGTCACGCAACTGTTAAAAAATTAATGGTGTTA
13313346 ATCATAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (53 bp):
GTCAGCATCGTGTTTAGTCATGTCACGCAACTGTTAAAAAATTAATGGTGTTA
Found at i:13320782 original size:25 final size:25
Alignment explanation
Indices: 13320753--13320801 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13320743 TTATAATATG
* * * *
13320753 AAAAATGACTATTTTGCCCTTAGGT
1 AAAAACGACCATTTTACCCCTAGGT
13320778 AAAAACGACCATTTTACCCCTAGG
1 AAAAACGACCATTTTACCCCTAGG
13320802 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (25 bp):
AAAAACGACCATTTTACCCCTAGGT
Found at i:13325242 original size:27 final size:27
Alignment explanation
Indices: 13325212--13325300 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
13325202 GTGCGTATAG
13325212 TGATAGTGACACTTCGGTGCAACTCAA
1 TGATAGTGACACTTCGGTGCAACTCAA
* *
13325239 TGATAGTGACACTAT-GGTGCAACTTAG
1 TGATAGTGACACT-TCGGTGCAACTCAA
* * * *
13325266 TTATAGTGGCACTTCAGTGCAATTCAA
1 TGATAGTGACACTTCGGTGCAACTCAA
*
13325293 TGACAGTG
1 TGATAGTG
13325301 GCTCTTTGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (27 bp):
TGATAGTGACACTTCGGTGCAACTCAA
Found at i:13327828 original size:15 final size:15
Alignment explanation
Indices: 13327804--13327843 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
13327794 AAGCAACATC
13327804 AAGA-GAATCACCAA
1 AAGATGAATCACCAA
*
13327818 AAGATGAATCACCTA
1 AAGATGAATCACCAA
13327833 AAGATGAATCA
1 AAGATGAATCA
13327844 TATCATGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (15 bp):
AAGATGAATCACCAA
Found at i:13335719 original size:46 final size:45
Alignment explanation
Indices: 13335652--13335743 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 45
13335642 CATCACAAGA
13335652 ATAAGCCAAAAATTACAAGATCGTCTCGAAAATCATTCTCATAGAT
1 ATAAGCCAAAAATTACAAGATCGTCTCG-AAATCATTCTCATAGAT
13335698 ATAAGCCAAAAATTACAAGATCGTCTCGAAATCATTCTCATAGAT
1 ATAAGCCAAAAATTACAAGATCGTCTCGAAATCATTCTCATAGAT
13335743 A
1 A
13335744 GAACTTACTC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 18 0.39
46 28 0.61
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (45 bp):
ATAAGCCAAAAATTACAAGATCGTCTCGAAATCATTCTCATAGAT
Found at i:13349884 original size:46 final size:44
Alignment explanation
Indices: 13349741--13349884 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
13349731 CCCGCCCCTA
*
13349741 AGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
13349788 CA-CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
13349834 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
13349880 AGTGA
1 AGTGA
13349885 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.42
47 29 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:13357295 original size:46 final size:46
Alignment explanation
Indices: 13357228--13357400 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
13357218 AACCCGCCCC
* *
13357228 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
13357274 TAAGTGAAGTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCATCCA
* * *
13357322 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
13357367 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13357401 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 58 0.55
47 25 0.24
48 2 0.02
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:13357341 original size:93 final size:93
Alignment explanation
Indices: 13357233--13357403 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
13357223 GCCCCTAAGT
* *
13357233 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAAGTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13357298 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
13357326 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
13357391 CGAGTTCGGATGC
66 CGAGTTCAGATGC
13357404 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:13359649 original size:43 final size:43
Alignment explanation
Indices: 13359587--13359734 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 43
13359577 CAATACCGAC
** * *
13359587 GTCCCAGATGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAATTCAATATCGATGCCTAT
* * * *
13359630 ATCCCAGACATGGTCTTACACG-AAATCAGATA-CGATGTCAAT
1 GTCCCAGACATGGTCTTACACGTAATTCA-ATATCGATGCCTAT
* * * *
13359672 GTCCCAGACATGGTCCTATACGTAAATCTC-A-ATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGATGCCTAT
*
13359715 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
13359735 TGATATCTTA
Statistics
Matches: 81, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
42 32 0.40
43 45 0.56
44 2 0.02
45 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAATTCAATATCGATGCCTAT
Found at i:13361856 original size:22 final size:22
Alignment explanation
Indices: 13361831--13361876 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
13361821 TCATGTTTCC
13361831 TTGTTTGAGCTCTAGAAATTCT
1 TTGTTTGAGCTCTAGAAATTCT
13361853 TTGTTTGAGCTCTAGAAATTCT
1 TTGTTTGAGCTCTAGAAATTCT
13361875 TT
1 TT
13361877 CTTTTTCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (22 bp):
TTGTTTGAGCTCTAGAAATTCT
Found at i:13373958 original size:17 final size:17
Alignment explanation
Indices: 13373924--13373978 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
13373914 GATGGTCCGA
*
13373924 AATGGGCCATATGGGCCC
1 AATGGGCC-TACGGGCCC
13373942 AATGGGCCTACGGGCCC
1 AATGGGCCTACGGGCCC
13373959 AATGGGCCTACGGGCCC
1 AATGGGCCTACGGGCCC
13373976 AAT
1 AAT
13373979 TGGATAAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.22, C:0.31, G:0.33, T:0.15
Consensus pattern (17 bp):
AATGGGCCTACGGGCCC
Found at i:13374207 original size:27 final size:28
Alignment explanation
Indices: 13374188--13374440 Score: 251
Period size: 27 Copynumber: 9.4 Consensus size: 28
13374178 ATTACCAAAG
13374188 TACTCC-CGATTTACAGAATTACCATTT
1 TACTCCTCGATTTACAGAATTACCATTT
*
13374215 TA-TCCTCGATTTACAGAATTACCGTTT
1 TACTCCTCGATTTACAGAATTACCATTT
13374242 TAC-CCTCGATTTACAGAATTACCATTT
1 TACTCCTCGATTTACAGAATTACCATTT
**
13374269 TAC-CCTC-AGTTTACAGAATTACTGTTT
1 TACTCCTCGA-TTTACAGAATTACCATTT
* *
13374296 TAC-CCTCGATTTATAGAATTACCGTTT
1 TACTCCTCGATTTACAGAATTACCATTT
* * *
13374323 TAC-CCTCGATTTATAAAATTACCGTTT
1 TACTCCTCGATTTACAGAATTACCATTT
* ***
13374350 TAC-CCTTGATTTACAGAATTACTGGTT
1 TACTCCTCGATTTACAGAATTACCATTT
* *
13374377 TAC-CCTC-AGTTTACAAAATTATCATTT
1 TACTCCTCGA-TTTACAGAATTACCATTT
* * *
13374404 TAC-CCTCGATTTACAAAACTACCGTTT
1 TACTCCTCGATTTACAGAATTACCATTT
13374431 TAC-CCTCGAT
1 TACTCCTCGAT
13374441 AGTGAAATTA
Statistics
Matches: 199, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.03
27 192 0.96
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (28 bp):
TACTCCTCGATTTACAGAATTACCATTT
Found at i:13374235 original size:54 final size:54
Alignment explanation
Indices: 13374194--13374440 Score: 318
Period size: 54 Copynumber: 4.6 Consensus size: 54
13374184 AAAGTACTCC
*
13374194 CGATTTACAGAATTACCATTTTATCCTCGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
*
13374248 CGATTTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCT
* * * *
13374302 CGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* *** * * *
13374356 TGATTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAATTATCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCT
* * *
13374410 CGATTTACAAAACTACCGTTTTACCCTCGAT
1 CGATTTACAGAATTACCATTTTACCCTCGAT
13374441 AGTGAAATTA
Statistics
Matches: 170, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
53 2 0.01
54 166 0.98
55 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (54 bp):
CGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
Found at i:13374285 original size:81 final size:82
Alignment explanation
Indices: 13374195--13374437 Score: 339
Period size: 81 Copynumber: 3.0 Consensus size: 82
13374185 AAGTACTCCC
** * *
13374195 GATTTACAGAATTACCATTTTATCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAA
1 GATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAA
*
13374260 TTACCATTTTACCCTCA
66 TTACCGTTTTACCCTCA
* *
13374277 G-TTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAA
1 GATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAA
*
13374341 TTACCGTTTTACCCT-T
66 TTACCGTTTTACCCTCA
* * * *
13374357 GATTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAATTATCATTTTACCCTCGATTTACAAA
1 GATTTACAGAATTACTGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAAA
*
13374421 ACTACCGTTTTACCCTC
65 ATTACCGTTTTACCCTC
13374438 GATAGTGAAA
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
80 2 0.01
81 140 0.98
82 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.39
Consensus pattern (82 bp):
GATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAA
TTACCGTTTTACCCTCA
Found at i:13374559 original size:27 final size:27
Alignment explanation
Indices: 13374446--13374586 Score: 140
Period size: 27 Copynumber: 5.3 Consensus size: 27
13374436 TCGATAGTGA
*
13374446 AATTACTGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*** *
13374472 AATTTTTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** ** *
13374499 AATTATTGAAATACCGTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13374526 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
13374553 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
13374580 AATTACC
1 AATTACC
13374587 ATTTTGCCCC
Statistics
Matches: 97, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 11 0.11
27 86 0.89
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:13374823 original size:27 final size:26
Alignment explanation
Indices: 13374785--13374867 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
13374775 CGGAGGAAGC
13374785 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
13374812 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * * *
13374838 ATATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
13374865 GTT
1 GTT
13374868 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:13374987 original size:22 final size:22
Alignment explanation
Indices: 13374955--13375013 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
13374945 CCCGTTATTA
*
13374955 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
13374977 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
13374999 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
13375014 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:13375403 original size:6 final size:6
Alignment explanation
Indices: 13375392--13375535 Score: 154
Period size: 6 Copynumber: 23.8 Consensus size: 6
13375382 CTGTCACCTA
* *
13375392 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
13375440 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
13375489 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
13375536 CAGTTTGATT
Statistics
Matches: 117, Mismatches: 10, Indels: 22
0.79 0.07 0.15
Matches are distributed among these distances:
5 8 0.07
6 101 0.86
7 6 0.05
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:13375475 original size:67 final size:67
Alignment explanation
Indices: 13375398--13375524 Score: 229
Period size: 67 Copynumber: 1.9 Consensus size: 67
13375388 CCTAATTCTG
13375398 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGATT-CTGATTCTGTCAC
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTG-TTACTGATTCTGTCAC
13375462 CTA
65 CTA
*
13375465 ATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTG
13375525 ATTCTGATTC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
66 2 0.03
67 56 0.97
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (67 bp):
ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCTGTCACC
TA
Found at i:13375480 original size:73 final size:73
Alignment explanation
Indices: 13375367--13375530 Score: 242
Period size: 73 Copynumber: 2.2 Consensus size: 73
13375357 TTGCATTCAT
* **
13375367 ATTCTGATTTTGATTCTGTCACCTAATTCTGATTCTGATTCTGATT-CTGTTACTAATACTGATT
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG-TTACTAATACTAATACTGATT
13375431 CTGATTCTG
65 CTGATTCTG
* * *
13375440 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTAATACTAATACTGATTC
13375505 TGATTCTG
66 TGATTCTG
13375513 -TTACTGATTCTGATTCTG
1 ATT-CTGATTCTGATTCTG
13375531 ATTCTCAGTT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
72 4 0.05
73 79 0.95
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (73 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGTTACTAATACTAATACTGATTC
TGATTCTG
Found at i:13375544 original size:24 final size:24
Alignment explanation
Indices: 13375393--13375556 Score: 144
Period size: 24 Copynumber: 6.8 Consensus size: 24
13375383 TGTCACCTAA
13375393 TTCTGATTCTGATTCTGATTCT-G
1 TTCTGATTCTGATTCTGATTCTAG
* *
13375416 TTACTAATACTGATTCTGATTCT-G
1 TT-CTGATTCTGATTCTGATTCTAG
* *
13375440 ATTCTGATTCTGATTCTG-TCACCTAA
1 -TTCTGATTCTGATTCTGAT--TCTAG
*
13375466 TTCTGATTCTGATTCTG-TTACTAA
1 TTCTGATTCTGATTCTGATT-CTAG
13375490 TAT-TGATTCTGATTCTGATTCT-G
1 T-TCTGATTCTGATTCTGATTCTAG
13375513 TTACTGATTCTGATTCTGATTCTCAG
1 TT-CTGATTCTGATTCTGATTCT-AG
**
13375539 TT-TGATTCCAATTCTGAT
1 TTCTGATTCTGATTCTGAT
13375557 AATGTTTCTT
Statistics
Matches: 119, Mismatches: 10, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
22 1 0.01
23 4 0.03
24 86 0.72
25 25 0.21
26 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (24 bp):
TTCTGATTCTGATTCTGATTCTAG
Found at i:13377566 original size:27 final size:27
Alignment explanation
Indices: 13377551--13377800 Score: 315
Period size: 27 Copynumber: 9.3 Consensus size: 27
13377541 CCAAAGTACT
*
13377551 CTCGATTTACTGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
13377578 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
13377605 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
13377632 CTC-AGTTTACAGAATTACTGTTTTATC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
13377659 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* ** * *
13377686 CTTGATTTGTAAAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
13377713 CTTGATTTACAGAATTACTGGTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* * *
13377740 CTC-AGTTTACAAAATTATCATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
13377767 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
13377794 CTCGATT
1 CTCGATT
13377801 GTGAAATTAC
Statistics
Matches: 195, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 191 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:13377835 original size:27 final size:27
Alignment explanation
Indices: 13377805--13377945 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
13377795 TCGATTGTGA
*
13377805 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
13377832 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
13377859 AATTACTGAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
13377886 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
13377913 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
13377940 AATTAC
1 AATTAC
13377946 CATTTTGCCC
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:13377873 original size:54 final size:54
Alignment explanation
Indices: 13377805--13377946 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
13377795 TCGATTGTGA
* * *
13377805 AATTACTAAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * *
13377859 AATTACTGAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
* * *
13377913 AATTACTGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
13377947 ATTTTGCCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
Found at i:13378183 original size:27 final size:26
Alignment explanation
Indices: 13378145--13378227 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
13378135 CGGAGGAAGC
*
13378145 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
13378172 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
13378198 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
13378225 GTT
1 GTT
13378228 GACTGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:13378560 original size:27 final size:27
Alignment explanation
Indices: 13378546--13378611 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
13378536 TTTGCCTCAT
13378546 TATCTG-ATTCTGGTGGCTCTGCCACAA
1 TATCTGTA-TCTGGTGGCTCTGCCACAA
* * *
13378573 TATCTGTATCTGGTGACTCTGTCACGA
1 TATCTGTATCTGGTGGCTCTGCCACAA
13378600 TATCTGT-TCTGG
1 TATCTGTATCTGG
13378612 CAGCCATGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.14
27 29 0.83
28 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TATCTGTATCTGGTGGCTCTGCCACAA
Found at i:13378765 original size:6 final size:6
Alignment explanation
Indices: 13378754--13378988 Score: 200
Period size: 6 Copynumber: 38.8 Consensus size: 6
13378744 CTGTCACCTA
* * *
13378754 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
13378802 ATTCTG -TTAGTG ATTCTG ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
13378851 ATTCTG -TTACTA ATACTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
13378899 ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG ATTTTG -TTACTA
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
13378948 ATAT-TG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
13378989 CATTTTGGTT
Statistics
Matches: 187, Mismatches: 22, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
5 17 0.09
6 152 0.81
7 13 0.07
8 5 0.03
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:13378864 original size:79 final size:78
Alignment explanation
Indices: 13378760--13378988 Score: 329
Period size: 79 Copynumber: 2.9 Consensus size: 78
13378750 CCTAATTCTG
*
13378760 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTAATTCTGTTAGTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCT-ATTCTGTTACTGATTCTGATTCT
13378825 GATTCTATCACCTA
65 GATTCTATCACCTA
*
13378839 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGTTACTGATT-CTGATTCTGATTC
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTATT-CTG-TTACTGATTCTGATTC
13378903 TGATTCTATCACCTA
64 TGATTCTATCACCTA
* ** *
13378918 ATTCTGATTCTGATTCTGATT-TTGTTACTAATAT-TGATTCTGATTCTGTTACTGATTCTGATT
1 ATTCTGATTCTGATTCTG-TTACTAATACTGAT-TCTGATTCT-ATTCTGTTACTGATTCTGATT
13378981 CTGATTCT
63 CTGATTCT
13378989 CATTTTGGTT
Statistics
Matches: 137, Mismatches: 7, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
78 4 0.03
79 126 0.92
80 7 0.05
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (78 bp):
ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTATTCTGTTACTGATTCTGATTCTG
ATTCTATCACCTA
Found at i:13378876 original size:85 final size:79
Alignment explanation
Indices: 13378729--13378988 Score: 303
Period size: 79 Copynumber: 3.2 Consensus size: 79
13378719 TTGCATTCAT
* * **
13378729 ATTCTGATTTTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTAATACTAATACTGATTC
*
13378794 TGATTCTAATTCTG-TTAGTG
66 TG--T-T-A--CTGATT-CTG
* *
13378814 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTG-TTACTAATACTGATTCTGATT
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATT-CTAATACTAATACTGATT
13378878 CTGTTACTGATTCTG
65 CTGTTACTGATTCTG
* ** *
13378893 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTTTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTAATACTAATACTGATTC
13378958 TGATT-CTG-TTACTG
66 TG-TTACTGATT-CTG
13378972 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
13378989 CATTTTGGTT
Statistics
Matches: 157, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.01
79 86 0.55
80 6 0.04
81 1 0.01
82 1 0.01
83 1 0.01
84 2 0.01
85 58 0.37
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (79 bp):
ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTAATACTAATACTGATTC
TGTTACTGATTCTG
Found at i:13383776 original size:47 final size:48
Alignment explanation
Indices: 13383701--13383835 Score: 184
Period size: 49 Copynumber: 2.8 Consensus size: 48
13383691 GGTAAGACGC
13383701 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCACACATCAAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCACACATCAAAGT
* * * *
13383749 CGATGCCATGTCCC-GACATGGTCTTACACTGACTCTCATATATCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA--CTCACACATCAAAGT
* *
13383798 CGATGCCATATCCCAGATATGGTCTTACACT-ACTCACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCACA
13383836 TCTGTCGGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
47 23 0.30
48 14 0.18
49 25 0.32
50 15 0.19
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCACACATCAAAGT
Found at i:13383849 original size:49 final size:49
Alignment explanation
Indices: 13383701--13383863 Score: 183
Period size: 49 Copynumber: 3.3 Consensus size: 49
13383691 GGTAAGACGC
* **
13383701 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCACA-C-ATCAAAGT
1 CGATGCCATATCCCAGACATGGTCTTACACTGACTCACATCTATC-GGGT
* * *
13383749 CGATGCCATGTCCC-GACATGGTCTTACACTGACTCTCATATATCGAGGT
1 CGATGCCATATCCCAGACATGGTCTTACACTGACTCACATCTATCG-GGT
* *
13383798 CGATGCCATATCCCAGATATGGTCTTACACT-ACTCACATCTGTCGGTGT
1 CGATGCCATATCCCAGACATGGTCTTACACTGACTCACATCTATCGG-GT
13383847 CGATGCCA-AGTCCCAGA
1 CGATGCCATA-TCCCAGA
13383864 AAGTTATATG
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
47 23 0.23
48 16 0.16
49 46 0.46
50 15 0.15
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (49 bp):
CGATGCCATATCCCAGACATGGTCTTACACTGACTCACATCTATCGGGT
Found at i:13390804 original size:17 final size:17
Alignment explanation
Indices: 13390767--13390806 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
13390757 TGGTATGAAT
*
13390767 GAACTATTATTTCATAT
1 GAACTATTATTTCATAC
* *
13390784 GAACTATTATTTTATGC
1 GAACTATTATTTCATAC
13390801 GAACTA
1 GAACTA
13390807 CCTATTCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (17 bp):
GAACTATTATTTCATAC
Found at i:13395759 original size:33 final size:33
Alignment explanation
Indices: 13395722--13395815 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 33
13395712 AACACAGTGT
*
13395722 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
* * *
13395755 CAGTACAGTCTAGGCCTTAGCCC--TTC---AA
1 CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
*
13395783 CAGTAGCAATATGGGCCTAAGCCCTAATTCAGT
1 CAGTA-CAATCTGGGCCTAAGCCCT-ATTCAGT
13395816 CTCGACATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
28 7 0.15
29 14 0.30
31 3 0.07
32 3 0.07
33 19 0.41
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (33 bp):
CAGTACAATCTGGGCCTAAGCCCTATTCAGTAA
Found at i:13395897 original size:30 final size:31
Alignment explanation
Indices: 13395821--13395903 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
13395811 TCAGTCTCGA
13395821 CATAT-ACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
*
13395851 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
13395882 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
13395904 ACTGTAAGTG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:13396178 original size:25 final size:24
Alignment explanation
Indices: 13396109--13396190 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
13396099 CTGGAGGCCT
* *
13396109 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTAGGGCAA
13396133 AGCCCTTTTGATAAACTAGGGCAA
1 AGCCCTTTTGATAAACTAGGGCAA
* *
13396157 AGCCCTTTTCGGTAAACTAGGGCAT
1 AGCCCTTTT-GATAAACTAGGGCAA
13396182 AGCCCTTTT
1 AGCCCTTTT
13396191 AACACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 7 0.13
24 23 0.44
25 22 0.42
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTAGGGCAA
Found at i:13397062 original size:27 final size:27
Alignment explanation
Indices: 13397003--13397064 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
13396993 CATATTTTCC
13397003 ATTTTACCATACAGGGGTATTACGGTT
1 ATTTTACCATACAGGGGTATTACGGTT
* *
13397030 ACTTTACCCTACAGGGGCT-TTACGGTCT
1 ATTTTACCATACAGGGG-TATTACGGT-T
13397058 -TTTTACC
1 ATTTTACC
13397065 TATTAGGGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTT
Found at i:13397148 original size:27 final size:27
Alignment explanation
Indices: 13397118--13397215 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
13397108 GTCAATCTAC
13397118 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
13397145 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** **
13397171 AGAAAGTTAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* *
13397201 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
13397216 TGGTAAATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.02
27 32 0.56
28 7 0.12
29 16 0.28
30 1 0.02
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:13397221 original size:27 final size:27
Alignment explanation
Indices: 13397181--13397331 Score: 146
Period size: 27 Copynumber: 5.6 Consensus size: 27
13397171 AGAAAGTTAA
* **
13397181 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
13397208 GGGTATTTTGGTAAATTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAATCAG
* *
13397235 GGGTATTTCGGT-ATTTTCACAAACCAG
1 GGGTATTTTGGTAATTTT-ACAAATCAG
*
13397262 TGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
* **
13397289 GGGTATTTTGGTAATTCTACCCTAT-AG
1 GGGTATTTTGGTAATTTTA-CAAATCAG
*
13397316 GGGTATTTTAGTAATT
1 GGGTATTTTGGTAATT
13397332 CCATAATTGA
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.05
27 91 0.88
28 7 0.07
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:13397366 original size:27 final size:26
Alignment explanation
Indices: 13397340--13397427 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
13397330 TTCCATAATT
*
13397340 GAGGGTAAAACTGTAACTTTGTAAATT
1 GAGGGTAAAACTGTAA-TTTGTAAATC
13397367 GAGGGTAAAA-TAGTAATTTTGTAAATC
1 GAGGGTAAAACT-GTAA-TTTGTAAATC
* * *
13397394 AAGGGTAAAACAGTAATTCTATAAATC
1 GAGGGTAAAACTGTAATT-TGTAAATC
13397421 GAGGGTA
1 GAGGGTA
13397428 CTTTGGTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.06
27 49 0.94
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.30
Consensus pattern (26 bp):
GAGGGTAAAACTGTAATTTGTAAATC
Found at i:13409413 original size:40 final size:40
Alignment explanation
Indices: 13409322--13409491 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
13409312 TCCTCGTTCA
* * * * *
13409322 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
13409361 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
13409401 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
13409441 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
13409481 AAGGCCTTCGG
1 AATGCCTTCGG
13409492 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:13421255 original size:48 final size:48
Alignment explanation
Indices: 13421200--13421324 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 48
13421190 ATATCCTGAT
*
13421200 ATGGTCTTACGTGGGATCAAATATCGATGCCAACACCATGTCCCAGAC
1 ATGGTCTTACATGGGATCAAATATCGATGCCAACACCATGTCCCAGAC
* ** * ** *
13421248 ATGGTCTTACACGGGATCGTAGATCGATGCCAATGCCATGTCCCAGAT
1 ATGGTCTTACATGGGATCAAATATCGATGCCAACACCATGTCCCAGAC
* *
13421296 ATAGTCTTACATGGGATCACATATCGATG
1 ATGGTCTTACATGGGATCAAATATCGATG
13421325 TCGATAGCCC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCAAATATCGATGCCAACACCATGTCCCAGAC
Found at i:13427958 original size:48 final size:48
Alignment explanation
Indices: 13427883--13428028 Score: 159
Period size: 48 Copynumber: 3.1 Consensus size: 48
13427873 CACATGGTAG
* * * * * *
13427883 GATGCTAATGCCATATCTCAGATATGGTCATACGTGGGATCACATATT
1 GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
13427931 GATGCCAACGCCATGTCCCAGACATGGTCTTACACGGGATCGTAGATC
1 GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACATATC
* *
13427979 GATGCCAATACCATGTCTCAGACATGGTCTTCCATGGGATCACAT-TC
1 GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACATATC
13428026 GAT
1 GAT
13428029 ACCGATAGCC
Statistics
Matches: 78, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
47 5 0.06
48 73 0.94
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACATATC
Found at i:13430341 original size:65 final size:65
Alignment explanation
Indices: 13430256--13430378 Score: 185
Period size: 65 Copynumber: 1.9 Consensus size: 65
13430246 ATAGGTCCTA
** *
13430256 TACTGACTTTTTCACACGGCCA-ATAGGCACGCCCGTGTACTATGGCCGTGTGATACTTAGCTAG
1 TACTGACTTTAGCACACGGCCATATA-ACACGCCCGTGTACTATGGCCGTGTGATACTTAGCTAG
13430320 C
65 C
* *
13430321 TACTGACTTTAGCCCACGGCCATATAACACGCCCGTGTACTATGGTCGTGTGATACTT
1 TACTGACTTTAGCACACGGCCATATAACACGCCCGTGTACTATGGCCGTGTGATACTT
13430379 GGGATATTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
65 49 0.94
66 3 0.06
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (65 bp):
TACTGACTTTAGCACACGGCCATATAACACGCCCGTGTACTATGGCCGTGTGATACTTAGCTAGC
Found at i:13430404 original size:65 final size:65
Alignment explanation
Indices: 13430256--13430405 Score: 157
Period size: 65 Copynumber: 2.3 Consensus size: 65
13430246 ATAGGTCCTA
* *
13430256 TACTGACTTTT-TCACACGGCCAATAGGCACGCCCGTGTACTATGGCCGTGTGATACTTAGCTAG
1 TACTGACTTTTCT-ACACGGCCAATAGACACGCCCGTGTACTATGGCCGTGTGATACTTAGATAG
13430320 C
65 C
* * * *
13430321 TACTGACTTTAGC-CCACGGCCATATA-ACACGCCCGTGTACTATGGTCGTGTGATACTTGGGAT
1 TACTGACTTT-TCTACACGGCCA-ATAGACACGCCCGTGTACTATGGCCGTGTGATACTT-AGAT
*
13430384 A-T
63 AGC
13430386 TACT-ACTTTTCTTACACGGC
1 TACTGACTTTTC-TACACGGC
13430406 TACAAGGCAC
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
63 1 0.01
64 5 0.07
65 58 0.83
66 6 0.09
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (65 bp):
TACTGACTTTTCTACACGGCCAATAGACACGCCCGTGTACTATGGCCGTGTGATACTTAGATAGC
Found at i:13431240 original size:42 final size:42
Alignment explanation
Indices: 13431182--13431290 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 42
13431172 TCGGTGTCTC
* * *
13431182 TGTCCCAAACAGGGTCTTACACGAAATC-AAATACGATGCCGA
1 TGTCCCAGACACGGTCTTACACGAAATCTAAAT-CGAGGCCGA
* * * * * *
13431224 TGTCCCAGACATGGTCTTATACATAAATCTCAATTGAGGCCTA
1 TGTCCCAGACACGGTCTTACAC-GAAATCTAAATCGAGGCCGA
13431267 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
13431291 TGTCCTAGAC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 20 0.37
43 31 0.57
44 3 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATCTAAATCGAGGCCGA
Found at i:13449538 original size:22 final size:22
Alignment explanation
Indices: 13449513--13449561 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
13449503 ATTTTATGCT
13449513 AATTGATAA-AGAT-TAATATATA
1 AATT-ATAATAGATATAAT-TATA
13449535 AATTATAATAGATATAATTATA
1 AATTATAATAGATATAATTATA
13449557 AATTA
1 AATTA
13449562 AAGATCTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.16
22 17 0.68
23 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
AATTATAATAGATATAATTATA
Found at i:13456313 original size:67 final size:67
Alignment explanation
Indices: 13456205--13456343 Score: 271
Period size: 67 Copynumber: 2.1 Consensus size: 67
13456195 AGATACATTG
13456205 CTAATTTAACCTTCAGCTACCTTAGAAGAATAAACATGCACTGATTAAGTACTATGTCAATTAAT
1 CTAATTTAACCTTCAGCTACCTTAGAAGAATAAACATGCACTGATTAAGTACTATGTCAATTAAT
13456270 TA
66 TA
13456272 CTAATTTAACCTTCAGCTACCTTAGAAGAATAAACATGCACTGATTAAGTACTATGTCAATTAAT
1 CTAATTTAACCTTCAGCTACCTTAGAAGAATAAACATGCACTGATTAAGTACTATGTCAATTAAT
13456337 TA
66 TA
13456339 C-AATT
1 CTAATT
13456344 GCAATCTGTT
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 4 0.06
67 68 0.94
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (67 bp):
CTAATTTAACCTTCAGCTACCTTAGAAGAATAAACATGCACTGATTAAGTACTATGTCAATTAAT
TA
Found at i:13463728 original size:112 final size:112
Alignment explanation
Indices: 13463536--13463761 Score: 346
Period size: 112 Copynumber: 2.0 Consensus size: 112
13463526 TGAATAGAAC
13463536 CCGAAATAAGAATTAGTTAAAGCCACGAAAGCGAGTTAATCTTCCGTCCTTAGAATTGGTAAAAT
1 CCGAAATAAGAATTAGTTAAAGCCACGAAAGCGAGTTAATCTTCCGTCCTTAGAATTGGTAAAAT
* ** * *
13463601 CTACAAGTTAGTTTTATGTCTTTATTTTTCTAAAGTATGAATTTTCA
66 CTAAAAAATACTTTTATGTCTTTATTTTACTAAAGTATGAATTTTCA
* * * **
13463648 CCGAAATAATAATTAGTTACAGCCACCG-AAGCGAGTTAGTCTTTTGTCCTTAGAATTGGTAAAA
1 CCGAAATAAGAATTAGTTAAAGCCA-CGAAAGCGAGTTAATCTTCCGTCCTTAGAATTGGTAAAA
13463712 TCTAAAAAATACTTTTATGTCTTTATTTTACTAAAGTATGAATTTTCA
65 TCTAAAAAATACTTTTATGTCTTTATTTTACTAAAGTATGAATTTTCA
13463760 CC
1 CC
13463762 ATCCTAAGAT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
112 101 0.98
113 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (112 bp):
CCGAAATAAGAATTAGTTAAAGCCACGAAAGCGAGTTAATCTTCCGTCCTTAGAATTGGTAAAAT
CTAAAAAATACTTTTATGTCTTTATTTTACTAAAGTATGAATTTTCA
Found at i:13467160 original size:48 final size:48
Alignment explanation
Indices: 13467098--13467231 Score: 187
Period size: 48 Copynumber: 2.8 Consensus size: 48
13467088 TTATTTATCA
* * * *
13467098 TGTAGGTTTCACCCTGACGGGTAACGAAGTACTATTATTCATTATTCG
1 TGTAGGTTTAACCCTAACGGGTAACGAAGCACTATTATTCATCATTCG
*
13467146 TGTAGGTTTAACCCTAACAGGTAACGAAGCACTATTATTCATCATTCG
1 TGTAGGTTTAACCCTAACGGGTAACGAAGCACTATTATTCATCATTCG
* * *
13467194 TGTAGGTTTTAACCCAAACGGGTAACTAGGCACTATTA
1 TGTAGG-TTTAACCCTAACGGGTAACGAAGCACTATTA
13467232 CTTTCACCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
48 49 0.64
49 27 0.36
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (48 bp):
TGTAGGTTTAACCCTAACGGGTAACGAAGCACTATTATTCATCATTCG
Found at i:13469541 original size:27 final size:26
Alignment explanation
Indices: 13469503--13469611 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 26
13469493 AAGCGTCCTA
*
13469503 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
13469530 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
* * *
13469557 GTAGCTCTGCCACGATTATCTATATCTA
1 GTGGCTCTGCCAC-ATTATCT-GATCTG
* * *
13469585 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
13469611 G
1 G
13469612 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.09
27 46 0.69
28 15 0.22
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:13476246 original size:20 final size:21
Alignment explanation
Indices: 13476218--13476258 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13476208 GAATACTACC
*
13476218 TCTTTTATCATC-CTTTTCCT
1 TCTTCTATCATCTCTTTTCCT
*
13476238 TCTTCTATCTTCTCTTTTCCT
1 TCTTCTATCATCTCTTTTCCT
13476259 CATAATCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.07, C:0.32, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTTCTATCATCTCTTTTCCT
Found at i:13478647 original size:39 final size:39
Alignment explanation
Indices: 13478603--13478839 Score: 339
Period size: 39 Copynumber: 6.1 Consensus size: 39
13478593 ATTATATTAT
* * * *
13478603 CAGCACAAAGCCTGTGGGACTTTAACCCGGATACAATTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
13478642 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
13478681 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
13478720 CAGCACGAAGCTTGCGGAACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
13478759 CAGCACGAAGCATGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
13478798 CAGCACGAAGCCTGCGGGACTTTGGCCTGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
13478837 CAG
1 CAG
13478840 TGTCTTGCAT
Statistics
Matches: 178, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 178 1.00
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:13478724 original size:78 final size:78
Alignment explanation
Indices: 13478595--13478839 Score: 384
Period size: 78 Copynumber: 3.1 Consensus size: 78
13478585 AACCCGAAAT
* * *
13478595 TATATTAT-CAGCACAAAGCCTGTGGGACTTTAACCCGGATACAATTCCAGCACGAAGCCTGCGG
1 TATATT-TCCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGG
13478659 GACTTTGGCCCGGA
65 GACTTTGGCCCGGA
* *
13478673 TATATTTCCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCTTGCGGA
1 TATATTTCCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
*
13478738 ACTTTAGCCCGGA
66 ACTTTGGCCCGGA
* * *
13478751 TATATTTCCAGCACGAAGCATGCGGGACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
1 TATATTTCCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
*
13478816 ACTTTGGCCTGGA
66 ACTTTGGCCCGGA
13478829 TATATTTCCAG
1 TATATTTCCAG
13478840 TGTCTTGCAT
Statistics
Matches: 153, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
77 1 0.01
78 152 0.99
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (78 bp):
TATATTTCCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
ACTTTGGCCCGGA
Found at i:13484518 original size:39 final size:39
Alignment explanation
Indices: 13484405--13484648 Score: 357
Period size: 39 Copynumber: 6.3 Consensus size: 39
13484395 AACCCGAAAT
* * *
13484405 TATATTAT-CAGCACAAAGCCTGCGGGACTTTAACCTGGA
1 TATATT-TCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
* *
13484444 TACATTTCCAGCACGAAG-CTGCGGGACTTTGGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
13484482 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
* * *
13484521 TACATTTCCAGCACGAAGCTTACGGGACTTTAGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
13484560 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
* * * *
13484599 TACATTTCCAGCACAAAGCCTGTGGGACTTTGGCCCGGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
13484638 TATATTTCCAG
1 TATATTTCCAG
13484649 TGTCTTGCAT
Statistics
Matches: 185, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 35 0.19
39 150 0.81
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
Found at i:13485245 original size:28 final size:28
Alignment explanation
Indices: 13485213--13485268 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13485203 TACTTAAGGA
13485213 CTTACCTCGGAAGACGATAATCGGAACG
1 CTTACCTCGGAAGACGATAATCGGAACG
13485241 CTTACCTCGGAAGACGATAATCGGAACG
1 CTTACCTCGGAAGACGATAATCGGAACG
13485269 AGACGACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (28 bp):
CTTACCTCGGAAGACGATAATCGGAACG
Found at i:13487023 original size:27 final size:26
Alignment explanation
Indices: 13486983--13487094 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
13486973 AGGAAGTGTC
*
13486983 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
13487010 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
13487037 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* ** *
13487065 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
13487091 CTGG
1 CTGG
13487095 CATCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:13487087 original size:54 final size:54
Alignment explanation
Indices: 13486983--13487094 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
13486973 AGGAAGTGTC
* *
13486983 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
* * *
13487037 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
13487091 CTGG
1 CTGG
13487095 CATCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:13501596 original size:12 final size:12
Alignment explanation
Indices: 13501579--13501618 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
13501569 TCCGAATCTA
13501579 CCATCTCTTCTT
1 CCATCTCTTCTT
*
13501591 CCATCTTTTCTT
1 CCATCTCTTCTT
*
13501603 CCTTCTCCTTCTT
1 CCATCT-CTTCTT
13501616 CCA
1 CCA
13501619 AACCAGCCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.07, C:0.42, G:0.00, T:0.50
Consensus pattern (12 bp):
CCATCTCTTCTT
Found at i:13502784 original size:20 final size:20
Alignment explanation
Indices: 13502759--13502823 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
13502749 ATTTTAGTAA
13502759 ACATGGTATGTATGATATGC
1 ACATGGTATGTATGATATGC
* *
13502779 ACATGGCATGTATGCTATGC
1 ACATGGTATGTATGATATGC
* *
13502799 ACATGATATGTATTATATGC
1 ACATGGTATGTATGATATGC
13502819 ACATG
1 ACATG
13502824 ATGTATTCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (20 bp):
ACATGGTATGTATGATATGC
Found at i:13502943 original size:46 final size:47
Alignment explanation
Indices: 13502876--13502971 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
13502866 AGGAAGTGCA
13502876 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* *
13502922 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
13502969 AAA
1 AAA
13502972 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 22 0.47
47 25 0.53
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:13502954 original size:24 final size:24
Alignment explanation
Indices: 13502875--13502992 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
13502865 GAGGAAGTGC
13502875 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
13502899 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
13502922 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
13502945 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
13502969 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
13502993 ACGATAAAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 45 0.52
24 30 0.35
25 11 0.13
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:13503219 original size:31 final size:31
Alignment explanation
Indices: 13503184--13503243 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
13503174 CGTTTACAGT
*
13503184 AAAGGCTTCGGTCCAGTAATATGAAATATAA
1 AAAGGCTTCGGGCCAGTAATATGAAATATAA
**
13503215 AAAGGCTTCGGGCCAGTGTTATGAAATAT
1 AAAGGCTTCGGGCCAGTAATATGAAATAT
13503244 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGGCCAGTAATATGAAATATAA
Found at i:13505212 original size:30 final size:30
Alignment explanation
Indices: 13505178--13505238 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13505168 CATTTAATAC
13505178 AAACTTTAAAAAAATTACACTTTTGCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
*** * *
13505208 AAACTTTTGCATAATTACACTTTTTCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
13505238 A
1 A
13505239 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AAACTTTAAAAAAATTACACTTTTGCCCCT
Found at i:13519975 original size:27 final size:27
Alignment explanation
Indices: 13519944--13520121 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
13519934 TAAATTGTAC
13519944 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13519971 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
13519997 ATGCACTAAGTGTGCGAACTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13520025 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13520053 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13520080 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13520107 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13520122 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13520058 original size:82 final size:81
Alignment explanation
Indices: 13519945--13520095 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
13519935 AAATTGTACA
* *
13519945 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13520009 TGCGAACTGACCATGCG
65 TGCGAACTGACCATGCG
** *
13520026 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
13520091 TGCGA
65 TGCGA
13520096 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAACTGACCATGCG
Found at i:13524941 original size:45 final size:45
Alignment explanation
Indices: 13524866--13525018 Score: 227
Period size: 45 Copynumber: 3.4 Consensus size: 45
13524856 CCGGTATTTC
* *
13524866 GCCTGCTAGGCTC-AATGCCCGAATAATATCTCACTGGCATTATA
1 GCCTACTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
* *
13524910 GCCAACTAGGCTCAAAGGCCCGAATATTATCTCACTGGCATTATA
1 GCCTACTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
* * *
13524955 GCCTACTAGGCTCAAAGGTCCAAATAATATCTCACCGGCATTATA
1 GCCTACTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
*
13525000 GCCTGCTAGGCTCAAAGGC
1 GCCTACTAGGCTCAAAGGC
13525019 TCGGATAGTA
Statistics
Matches: 97, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 11 0.11
45 86 0.89
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (45 bp):
GCCTACTAGGCTCAAAGGCCCGAATAATATCTCACTGGCATTATA
Found at i:13528870 original size:30 final size:30
Alignment explanation
Indices: 13528836--13528896 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13528826 CATTTAATAC
13528836 AAACTTTGGAAAAATTAAAATTTTGCCCCT
1 AAACTTTGGAAAAATTAAAATTTTGCCCCT
* * * * *
13528866 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTAAAATTTTGCCCCT
13528896 A
1 A
13528897 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTAAAATTTTGCCCCT
Found at i:13535505 original size:19 final size:20
Alignment explanation
Indices: 13535481--13535518 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
13535471 GGTACCACCA
13535481 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
13535500 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
13535519 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:13535902 original size:46 final size:46
Alignment explanation
Indices: 13535742--13535914 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
13535732 AACCCGCCCC
* * *
13535742 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAG-TTCGGACATTTGCATCCA
* * * *
13535788 TAAATGAACTCGGACTCAACTTAACAAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA---C-ATTTGCATCCA
*
13535836 TCA-TGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
*
13535881 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
13535915 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.53
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
Found at i:13535911 original size:93 final size:93
Alignment explanation
Indices: 13535746--13535917 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
13535736 CGCCCCTAAG
* * *
13535746 TGAACTCGGACTCAACTCAACGAGCTTGGGCATTCGCATCCATAAATGAACTCGGACTCAACTTA
1 TGAACTCGGACTCAACTCAACAAGCTTGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
13535811 ACAAGTTCGGATGCCTAGTTACATCTCA
66 ACAAGTTCGGATGCCTAGTTACATCTCA
* *
13535839 TGAACTCGGACTCAACTCAACAAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 TGAACTCGGACTCAACTCAACAAGCTT-GGACATTCGCATCCATAAATGAACTCGGACTCAACTC
*
13535903 AACGAGTTCGGATGC
65 AACAAGTTCGGATGC
13535918 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACAAGCTTGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:13536374 original size:30 final size:30
Alignment explanation
Indices: 13536340--13536399 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
13536330 ATTTAATACG
13536340 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
13536370 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
13536400 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:13540207 original size:94 final size:94
Alignment explanation
Indices: 13540027--13540211 Score: 271
Period size: 94 Copynumber: 2.0 Consensus size: 94
13540017 TGTGTTTTTT
* * ** * *
13540027 GACCCACACGGCCTGGACACACAGGCATGTGCCAGGTTGTGTGCATAATAAGGGGTTCAACAGTG
1 GACCCACACGGCCTGGACACACAGGCATGTCCCAAGTCATGTGCACAATAAAGGGTTCAACAGTG
* *
13540092 AGTTACATGGCTTGGCGACATGGCCATGC
66 AGTTACATGGCCTGGCAACATGGCCATGC
* * *
13540121 GACCTACATGGCCTGGACACACAGGCATGTCCCAAGTCATGTGCACAATAAAGGGTTCGACAGTG
1 GACCCACACGGCCTGGACACACAGGCATGTCCCAAGTCATGTGCACAATAAAGGGTTCAACAGTG
13540186 AGTTACATGGCCTGGCAACATGGCCA
66 AGTTACATGGCCTGGCAACATGGCCA
13540212 CATGACCTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 80 1.00
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.19
Consensus pattern (94 bp):
GACCCACACGGCCTGGACACACAGGCATGTCCCAAGTCATGTGCACAATAAAGGGTTCAACAGTG
AGTTACATGGCCTGGCAACATGGCCATGC
Found at i:13540219 original size:94 final size:94
Alignment explanation
Indices: 13540026--13540236 Score: 269
Period size: 94 Copynumber: 2.2 Consensus size: 94
13540016 ATGTGTTTTT
* * * ** * *
13540026 TGACCCACACGGCCTGGACACACAGGCATGTGCCAGGTTGTGTGCATAATAAGGGGTTCAACAGT
1 TGACCTACACGGCCTGGACACACAGGCATGTCCCAAGTCATGTGCACAATAAAGGGTTCAACAGT
* * **
13540091 GAGTTACATGGCTTGGCGACATGGCCATG
66 GAGTTACATGGCCTGGCAACATGGCCACA
* * *
13540120 CGACCTACATGGCCTGGACACACAGGCATGTCCCAAGTCATGTGCACAATAAAGGGTTCGACAGT
1 TGACCTACACGGCCTGGACACACAGGCATGTCCCAAGTCATGTGCACAATAAAGGGTTCAACAGT
13540185 GAGTTACATGGCCTGGCAACATGGCCACA
66 GAGTTACATGGCCTGGCAACATGGCCACA
* * *
13540214 TGACCTACTCGACCTAGACACAC
1 TGACCTACACGGCCTGGACACAC
13540237 GGGCGTGGCA
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 98 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (94 bp):
TGACCTACACGGCCTGGACACACAGGCATGTCCCAAGTCATGTGCACAATAAAGGGTTCAACAGT
GAGTTACATGGCCTGGCAACATGGCCACA
Found at i:13540632 original size:13 final size:13
Alignment explanation
Indices: 13540614--13540640 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13540604 GAAGTAATCG
13540614 CACACGGGCGTGT
1 CACACGGGCGTGT
13540627 CACACGGGCGTGT
1 CACACGGGCGTGT
13540640 C
1 C
13540641 CCTGCCGAGC
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:13546730 original size:29 final size:29
Alignment explanation
Indices: 13546683--13546765 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
13546673 ATCAGTCTCA
*
13546683 ACATATACTGGGCTGAAGCCTTTCATTAA-
1 ACATATACTGGGCCGAAGCCTTTCA-TAAT
13546712 ACGAT-TACTGGGCCGAAGCCTTTTCATAAT
1 AC-ATATACTGGGCCGAAGCC-TTTCATAAT
*
13546742 TCATATCACTGGGCCGAAGCCTTT
1 ACATAT-ACTGGGCCGAAGCCTTT
13546766 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
29 21 0.45
30 12 0.26
31 14 0.30
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (29 bp):
ACATATACTGGGCCGAAGCCTTTCATAAT
Found at i:13547120 original size:20 final size:21
Alignment explanation
Indices: 13547095--13547143 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
13547085 AAATGAATAC
* *
13547095 ATCATGTGCATATCATA-CAT
1 ATCATGTACATATCATATCAA
13547115 ATCATGTACATATCATATCAA
1 ATCATGTACATATCATATCAA
13547136 ATCATGTA
1 ATCATGTA
13547144 TATCAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (21 bp):
ATCATGTACATATCATATCAA
Found at i:13547124 original size:11 final size:11
Alignment explanation
Indices: 13547095--13547143 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
13547085 AAATGAATAC
*
13547095 ATCATGTGCAT
1 ATCATGTACAT
13547106 ATCA--TACAT
1 ATCATGTACAT
13547115 ATCATGTACAT
1 ATCATGTACAT
* *
13547126 ATCATAT-CAA
1 ATCATGTACAT
13547136 ATCATGTA
1 ATCATGTA
13547144 TATCAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
9 8 0.26
10 8 0.26
11 15 0.48
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:13554997 original size:20 final size:21
Alignment explanation
Indices: 13554972--13555019 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
13554962 AAATGAATAC
*
13554972 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
13554992 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
13555013 ATCATGT
1 ATCATGT
13555020 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:13561782 original size:12 final size:12
Alignment explanation
Indices: 13561765--13561874 Score: 77
Period size: 12 Copynumber: 9.1 Consensus size: 12
13561755 TTTTTCTTTG
13561765 TATATTATTTAT
1 TATATTATTTAT
13561777 TATATTATTTA-
1 TATATTATTTAT
13561788 TATATTA-TTA-
1 TATATTATTTAT
13561798 TATATTATATTACT
1 TATATTAT-TTA-T
* *
13561812 TACATT-TTAAT
1 TATATTATTTAT
*
13561823 ATATATATATTTTT
1 -TATAT-TATTTAT
*
13561837 ATATATTACTTAT
1 -TATATTATTTAT
*
13561850 CATATTATTTA-
1 TATATTATTTAT
*
13561861 TATTATTATATAT
1 TA-TATTATTTAT
13561874 T
1 T
13561875 GTGTTTATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
10 10 0.13
11 9 0.12
12 37 0.47
13 8 0.10
14 14 0.18
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:13561796 original size:26 final size:26
Alignment explanation
Indices: 13561767--13561874 Score: 91
Period size: 26 Copynumber: 4.3 Consensus size: 26
13561757 TTTCTTTGTA
13561767 TATTATTTATTATATTATTTATATAT
1 TATTATTTATTATATTATTTATATAT
* * *
13561793 TATTATATATTATATTACTTACAT-T
1 TATTATTTATTATATTATTTATATAT
* * *
13561818 T-TAATATA-TATA-TATTTTTATA-
1 TATTATTTATTATATTATTTATATAT
* *
13561840 TATTACTTATCATATTATTTATATTAT
1 TATTATTTATTATATTATTTATA-TAT
13561867 TATATATT
1 TAT-TATT
13561875 GTGTTTATAA
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
22 7 0.11
23 8 0.13
24 9 0.15
25 9 0.15
26 23 0.37
27 3 0.05
28 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTATTTATTATATTATTTATATAT
Done.