Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 153 of 318
Found at i:47041644 original size:50 final size:51
Alignment explanation
Indices: 47041538--47041666 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
47041528 CATTGATCAG
* * *
47041538 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
47041589 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
47041639 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
47041667 TTCCATAGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:47043741 original size:48 final size:48
Alignment explanation
Indices: 47043681--47043868 Score: 207
Period size: 48 Copynumber: 3.9 Consensus size: 48
47043671 CATCGGCCTT
* * * *
47043681 GATATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCATC
* * * *
47043729 GATAGGAGAGCTAATGTAAGACCATGTCTGGGAC-TGGCATCAGCCTC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCATC
* * * * * *
47043776 GACATGTGGGCTAGTGTAAGACCATGTTTGGAATATGGCATCAGCACC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCATC
* *
47043824 GATATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGACATCA
1 G--ATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCA
47043869 ATATCTTACC
Statistics
Matches: 112, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
47 36 0.32
48 41 0.37
50 35 0.31
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCATC
Found at i:47046417 original size:40 final size:40
Alignment explanation
Indices: 47046334--47046553 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
47046324 ACCCAAGTAT
** * *
47046334 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
47046372 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
** * *
47046412 CTTCGGGAGTTATCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
47046452 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
47046492 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
47046532 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
47046554 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 123 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:47054467 original size:40 final size:40
Alignment explanation
Indices: 47054385--47054602 Score: 212
Period size: 40 Copynumber: 5.5 Consensus size: 40
47054375 ACCCAAGTAT
** * *
47054385 TTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGCC
1 TTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGCC
* * *
47054423 TTCGGGTCTTAGCCCGGATATGGTCACTAGTATAAATGCC
1 TTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCC
* *
47054463 TTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCC
* *
47054502 TTCGGGTCTTAGCCCGGATATCG-CAACTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGCC
* * * * *
47054542 TTCAGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCC
1 TTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCC
* * *
47054582 TTTGGGACTTAGCCTGGATAT
1 TTCGGGTCTTAGCCCGGATAT
47054603 CATTCGAATA
Statistics
Matches: 145, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
37 1 0.01
38 10 0.07
39 49 0.34
40 84 0.58
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
TTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCC
Found at i:47054518 original size:79 final size:80
Alignment explanation
Indices: 47054393--47054603 Score: 241
Period size: 80 Copynumber: 2.7 Consensus size: 80
47054383 ATTTCGGGAT
** * * * *
47054393 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGTA
1 TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATCG-CAACTAGCA
* *
47054455 TAAATGCCTTCGGA-C
65 CAAATGCCTTCAGATC
* * *
47054470 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCGCAACTCGCAC
1 TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATCGCAACTAGCAC
47054535 AAATGCCTTCAGATC
66 AAATGCCTTCAGATC
* * * * *
47054550 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTTGGGACTTAGCCTGGATATC
1 TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATC
47054604 ATTCGAATAA
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
77 4 0.04
78 17 0.15
79 44 0.39
80 48 0.42
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATCGCAACTAGCAC
AAATGCCTTCAGATC
Found at i:47056325 original size:21 final size:21
Alignment explanation
Indices: 47056299--47056348 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
47056289 GGCTGTCACA
*
47056299 GTGTCGCCCTTCCACACGGGC
1 GTGTCGCCCTTCCAAACGGGC
* *
47056320 GTGTCGCCTTTCTAAACGGGC
1 GTGTCGCCCTTCCAAACGGGC
47056341 GTGT-GCCC
1 GTGTCGCCC
47056349 CTGTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.10, C:0.36, G:0.30, T:0.24
Consensus pattern (21 bp):
GTGTCGCCCTTCCAAACGGGC
Found at i:47056717 original size:16 final size:16
Alignment explanation
Indices: 47056674--47056710 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
47056664 AATTAAGAAA
*
47056674 AAAAGGACTAAATTGT
1 AAAAGGACTAAATTAT
47056690 AAAAGGACTAAATTAT
1 AAAAGGACTAAATTAT
47056706 AAAAG
1 AAAAG
47056711 TGATAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (16 bp):
AAAAGGACTAAATTAT
Found at i:47057567 original size:16 final size:16
Alignment explanation
Indices: 47057537--47057583 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
47057527 GTATGCATGA
47057537 TATTTGGATGATTAAAT
1 TATTT-GATGATTAAAT
* *
47057554 TTTTTGATGGTTAAAT
1 TATTTGATGATTAAAT
47057570 TATTTG-T-ATTAAAT
1 TATTTGATGATTAAAT
47057584 ATTCTTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 6 0.23
15 1 0.04
16 15 0.58
17 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATTTGATGATTAAAT
Found at i:47059836 original size:15 final size:14
Alignment explanation
Indices: 47059813--47059848 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47059803 AAATAATCCA
*
47059813 AATAAAAATGAATT
1 AATAAAAATGAATG
47059827 AATAAGAAATGAATG
1 AATAA-AAATGAATG
47059842 AATAAAA
1 AATAAAA
47059849 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:47061101 original size:24 final size:24
Alignment explanation
Indices: 47061074--47061208 Score: 148
Period size: 24 Copynumber: 5.6 Consensus size: 24
47061064 GAAATGACTT
47061074 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
47061098 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
47061122 CGGAACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
47061146 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
47061170 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
47061195 -GGCACTATGTGTGC
1 TGGCACTATGTGTGC
47061209 AGGTAAACAT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 90 0.97
25 2 0.02
26 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:47061202 original size:72 final size:72
Alignment explanation
Indices: 47061074--47061208 Score: 189
Period size: 72 Copynumber: 1.9 Consensus size: 72
47061064 GAAATGACTT
* * ** *
47061074 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTGTACGGAACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGAACTATGTGTGCGG
47061139 ATTTGTA
66 ATTTGTA
* * * *
47061146 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGC
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGAACTATGTGTGC
47061209 AGGTAAACAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGAACTATGTGTGCGG
ATTTGTA
Found at i:47061221 original size:72 final size:72
Alignment explanation
Indices: 47061074--47061224 Score: 169
Period size: 72 Copynumber: 2.1 Consensus size: 72
47061064 GAAATGACTT
* * ** *
47061074 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTGTACGGAACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGAACTATGTGTGCGG
****
47061139 ATTTGTA
66 ATAAACA
* * * *
47061146 TGGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAAGGCACTATGTGTGCAG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGAACTATGTGTGC-G
47061211 G-TAAACA
65 GATAAACA
47061218 TGGCACT
1 TGGCACT
47061225 TTAGGTGGGA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 63 0.97
73 2 0.03
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.33
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATGTATGCGAATTACTAAGGAACTATGTGTGCGG
ATAAACA
Found at i:47069008 original size:11 final size:11
Alignment explanation
Indices: 47068994--47069049 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
47068984 CATGATATGT
47068994 ATGATATGCAC
1 ATGATATGCAC
*
47069005 ATGATATGTAC
1 ATGATATGCAC
47069016 --GATATGCAC
1 ATGATATGCAC
*
47069025 ATGATATG--T
1 ATGATATGCAC
*
47069034 ATGACATGCAC
1 ATGATATGCAC
47069045 ATGAT
1 ATGAT
47069050 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:47069008 original size:20 final size:20
Alignment explanation
Indices: 47068983--47069049 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
47068973 ATTTTGATGT
47068983 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47069003 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
*
47069023 ACATGATATGTATGACATGC
1 ACATGATATGTATGATATGC
47069043 ACATGAT
1 ACATGAT
47069050 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47069403 original size:31 final size:31
Alignment explanation
Indices: 47069368--47069457 Score: 92
Period size: 38 Copynumber: 2.7 Consensus size: 31
47069358 ATTTACAGTG
47069368 AAGGCTTCGACCCAGTAATATGAAATATGAA
1 AAGGCTTCGACCCAGTAATATGAAATATGAA
* *
47069399 AAGGCTTCGGCCTAGTGTTATAAGATATGAAATATGAA
1 AAGGCTTCGACCCA--G---T-A-ATATGAAATATGAA
47069437 AAGGCTTCGACCCAGT-ATATG
1 AAGGCTTCGACCCAGTAATATG
47069458 CTGAGATGGA
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
30 5 0.10
31 12 0.25
33 2 0.04
36 2 0.04
37 1 0.02
38 26 0.54
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (31 bp):
AAGGCTTCGACCCAGTAATATGAAATATGAA
Found at i:47074014 original size:40 final size:39
Alignment explanation
Indices: 47073846--47074016 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
47073836 AGAAATTGAA
* *
47073846 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
47073886 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
47073926 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
47073966 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
47074006 TGATATCCGGG
1 TGATATCCGGG
47074017 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:47082027 original size:40 final size:39
Alignment explanation
Indices: 47081859--47082029 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
47081849 AGAAATTGAA
* *
47081859 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
47081899 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
47081939 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
47081979 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
47082019 TGATATCCGGG
1 TGATATCCGGG
47082030 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:47088409 original size:20 final size:20
Alignment explanation
Indices: 47088384--47088450 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
47088374 ATTTTGATAT
47088384 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47088404 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
*
47088424 ACATGATACGTATGATATGC
1 ACATGATATGTATGATATGC
47088444 ACATGAT
1 ACATGAT
47088451 GTATTCTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47088411 original size:11 final size:11
Alignment explanation
Indices: 47088395--47088450 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
47088385 CATGATATGT
47088395 ATGATATGCAC
1 ATGATATGCAC
*
47088406 ATGATATGTAC
1 ATGATATGCAC
47088417 --GATATGCAC
1 ATGATATGCAC
**
47088426 ATGATA--CGT
1 ATGATATGCAC
47088435 ATGATATGCAC
1 ATGATATGCAC
47088446 ATGAT
1 ATGAT
47088451 GTATTCTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:47088464 original size:40 final size:40
Alignment explanation
Indices: 47088384--47088464 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
47088374 ATTTTGATAT
* * *
47088384 ACATGATATGTATGATATGCACATGATATGTACGATATGC
1 ACATGATACGTATGATATGCACATGATATATACGAAATGC
* * *
47088424 ACATGATACGTATGATATGCACATGATGTATTCTAAATGC
1 ACATGATACGTATGATATGCACATGATATATACGAAATGC
47088464 A
1 A
47088465 TTGGGTTGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (40 bp):
ACATGATACGTATGATATGCACATGATATATACGAAATGC
Found at i:47088543 original size:26 final size:24
Alignment explanation
Indices: 47088498--47088564 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 24
47088488 GGAGGAAGTG
* *
47088498 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTATAC
*
47088522 CGAAAAGGGCTTTTGCCCCAGTATAT
1 C-AAAAGGGC-TTTGCCCCAGTATAC
47088548 CAAAAGGGCTTTGCCCC
1 CAAAAGGGCTTTGCCCC
47088565 TGTTATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 9 0.24
25 16 0.42
26 13 0.34
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTATAC
Found at i:47088576 original size:24 final size:24
Alignment explanation
Indices: 47088499--47088581 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
47088489 GAGGAAGTGC
* * **
47088499 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTATA-TA
*
47088524 AAAAGGGCTTTTGCCCCAGTATATC
1 AAAAGGGC-TTTGCCCCAGTATATA
*
47088549 AAAAGGGCTTTGCCCCTGT-TATTA
1 AAAAGGGCTTTGCCCCAGTATA-TA
*
47088573 AAAAAGGCT
1 AAAAGGGCT
47088582 AGGCCTCTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
23 2 0.04
24 19 0.39
25 16 0.33
26 12 0.24
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTATATA
Found at i:47088826 original size:31 final size:31
Alignment explanation
Indices: 47088791--47088880 Score: 101
Period size: 38 Copynumber: 2.7 Consensus size: 31
47088781 GTTTACAGTG
47088791 AAGGCTTCGGCCCAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
47088822 AAGGCTTCGGCCCAGTGTTATAAGATATGAAATATGAA
1 AAGGCTTCGGCCCA--G---T-A-ATATGAAATATGAA
*
47088860 AAGGCTTCGGCCCTGT-ATATG
1 AAGGCTTCGGCCCAGTAATATG
47088881 CTGAGATGGA
Statistics
Matches: 51, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
30 5 0.10
31 14 0.27
33 2 0.04
36 2 0.04
37 1 0.02
38 27 0.53
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:47097441 original size:29 final size:29
Alignment explanation
Indices: 47097408--47097510 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
47097398 GTTGAGAGAT
*
47097408 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
47097437 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
47097466 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
47097495 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47097511 CGGCTGATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:47099830 original size:15 final size:14
Alignment explanation
Indices: 47099806--47099842 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
47099796 TAAATAATCC
47099806 AAATAAAAATGAAT
1 AAATAAAAATGAAT
*
47099820 TAATAAGAAATGAAT
1 AAATAA-AAATGAAT
47099835 AAATAAAA
1 AAATAAAA
47099843 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (14 bp):
AAATAAAAATGAAT
Found at i:47101855 original size:37 final size:37
Alignment explanation
Indices: 47101796--47101904 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
47101786 AGCTCAGACG
* *
47101796 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47101833 AAATCTCCACAAGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47101870 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
47101905 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:47102168 original size:100 final size:96
Alignment explanation
Indices: 47102050--47102235 Score: 257
Period size: 100 Copynumber: 1.9 Consensus size: 96
47102040 GCACATCGCC
* * * *
47102050 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCATA
1 TACATATTTCACACTAGCCATTCGACTTTACCACATAT--ATATCTC-T-CATACATATTTCACA
47102115 TT-GACCATTCAGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCAGCTTTACCACATATGCATATCTCA
* *
47102150 TACATATTTCACATTAGCCATTCGACTTTACCACATATATATTTCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGACTTTACCACATATATATCTCTCATACATATTTCACATTAG
*
47102215 CCATTCGGCTTTACCACATAT
66 CCATTCAGCTTTACCACATAT
47102236 ATGCATGTTC
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
96 34 0.44
97 2 0.03
98 6 0.08
100 36 0.46
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGACTTTACCACATATATATCTCTCATACATATTTCACATTAG
CCATTCAGCTTTACCACATATGCATATCTCA
Found at i:47102237 original size:48 final size:48
Alignment explanation
Indices: 47102050--47102237 Score: 243
Period size: 48 Copynumber: 3.8 Consensus size: 48
47102040 GCACATCGCC
* *
47102050 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTC----A
* * * **
47102102 TATATATTTCATATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATATATCTCA
* *
47102150 TACATATTTCACATTAGCCATTCGACTTTACCACATATATATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCA
47102198 TACATATTTCACATTAGCCATTCGGCTTTACCACATATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATAT
47102238 GCATGTTCAT
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
48 79 0.65
49 1 0.01
51 1 0.01
52 40 0.33
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCA
Found at i:47102269 original size:47 final size:47
Alignment explanation
Indices: 47102206--47102399 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
47102196 CATACATATT
* * * *
47102206 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
47102253 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
47102300 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
47102347 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
47102394 TCACAT
1 TCACAT
47102400 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:47102326 original size:22 final size:22
Alignment explanation
Indices: 47102299--47102370 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
47102289 GCTCACATTC
47102299 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
47102321 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
47102345 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
47102368 ATC
1 ATC
47102371 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:47106584 original size:40 final size:40
Alignment explanation
Indices: 47106540--47106928 Score: 598
Period size: 40 Copynumber: 9.7 Consensus size: 40
47106530 GCATGATTGT
* * * * * *
47106540 TCTTCGGGACCTAGCCCTGATATAACACCAGCACAAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* * *
47106580 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGA
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
*
47106620 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* *
47106660 TCTTCGGGACTTAGTCTGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
47106700 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
*
47106740 TCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* *
47106780 TCTTCGAGACTTAGTCCGGATACATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* * *
47106820 TCTTCGGGACTTAGTCTGGATACATCACTACCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
*
47106860 TCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGC
1 TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
*
47106900 TCTTCGGGACTTAGCCCGGATATATCACT
1 TCTTCGGGACTTAGCCCGGATACATCACT
47106929 CTCAATTCTC
Statistics
Matches: 326, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 326 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
Found at i:47108253 original size:37 final size:37
Alignment explanation
Indices: 47108198--47108343 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
47108188 AGCTCAGACG
*
47108198 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
47108235 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
47108272 TAATCTCCACACGTACTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47108309 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
47108344 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:47108677 original size:48 final size:48
Alignment explanation
Indices: 47108489--47108677 Score: 245
Period size: 48 Copynumber: 3.8 Consensus size: 48
47108479 GCACATCGCC
*
47108489 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC------A
* * * *
47108543 TATATATTTCACATT-GACCATTCAGCTTTACCACAAATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
47108591 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
47108639 TACATATTTCACATTAGCCATTCGGCTTTACCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
47108678 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
48 80 0.66
49 1 0.01
53 1 0.01
54 40 0.33
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:47108726 original size:47 final size:47
Alignment explanation
Indices: 47108647--47108840 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
47108637 CATACATATT
* * * * *
47108647 TCACATTAGCCATTCGGCTTTACCATATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
47108694 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
47108741 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
47108788 TCACATTGGCCATTTGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
47108835 TCACAT
1 TCACAT
47108841 AAAACCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:47111712 original size:24 final size:24
Alignment explanation
Indices: 47111685--47111782 Score: 151
Period size: 24 Copynumber: 4.1 Consensus size: 24
47111675 GAAATGACTT
47111685 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
*
47111709 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
47111733 CGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
47111757 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
47111781 TG
1 TG
47111783 TCAATATATA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.20, C:0.13, G:0.32, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:47111810 original size:72 final size:72
Alignment explanation
Indices: 47111685--47111819 Score: 189
Period size: 72 Copynumber: 1.9 Consensus size: 72
47111675 GAAATGACTT
* * * ** *
47111685 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTGTACGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
47111750 ATTTGTA
66 ATTTGTA
* * *
47111757 TGGCACTATGTGTGCGGATTTGAATGTCAATATATATGTGAATTACTAAGGCACTATGTGTGC
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGC
47111820 AGGTAAACAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
ATTTGTA
Found at i:47111832 original size:72 final size:72
Alignment explanation
Indices: 47111685--47111846 Score: 173
Period size: 72 Copynumber: 2.2 Consensus size: 72
47111675 GAAATGACTT
* * * ** *
47111685 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTGTACGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
****
47111750 ATTTGTA
66 ATAAACA
* * *
47111757 TGGCACTATGTGTGCGGATTTGAATGTCAATATATATGTGAATTACTAAGGCACTATGTGTGCAG
1 TGGCACTATGTGTGCGAATTTGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGC-G
47111822 G-TAAACA
65 GATAAACA
* *
47111829 TGGCACTTTGGGTGCGAA
1 TGGCACTATGTGTGCGAA
47111847 ACTCCTTGCT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
72 71 0.97
73 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.33
Consensus pattern (72 bp):
TGGCACTATGTGTGCGAATTTGAATGGCAATATATATGCGAATTACTAAGGCACTATGTGTGCGG
ATAAACA
Found at i:47122411 original size:29 final size:29
Alignment explanation
Indices: 47122377--47122481 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
47122367 TACTCGATTT
* * *
47122377 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
47122406 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
47122435 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
47122464 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
47122482 TATTTCCAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:47122482 original size:29 final size:29
Alignment explanation
Indices: 47122436--47122508 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
47122426 CTTCGAGCTC
47122436 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47122465 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
47122494 GCACACTTTGTGCCA
1 GCACACTTAGTGCCA
47122509 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:47128165 original size:29 final size:29
Alignment explanation
Indices: 47128133--47128234 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
47128123 ATTTAAGCCC
* *** * *
47128133 GCACACATAGTGCCATACCCTTCGAGCTT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47128162 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47128191 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47128220 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
47128235 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:47134478 original size:40 final size:39
Alignment explanation
Indices: 47134433--47134562 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
47134423 CGGAATACAA
47134433 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
47134473 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
47134513 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
47134553 CCGGATATAA
1 CCGGATATAA
47134563 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:47142498 original size:40 final size:39
Alignment explanation
Indices: 47142453--47142582 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
47142443 CGGAATACAA
47142453 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
47142493 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
47142533 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
47142573 CCGGATATAA
1 CCGGATATAA
47142583 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:47144590 original size:40 final size:40
Alignment explanation
Indices: 47144365--47144583 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
47144355 ATGTCTGGGC
* * * * **
47144365 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCTGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
47144405 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
47144445 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
47144485 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
47144525 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
* *
47144565 TATGTCCCGAAGACATTTG
1 TAAGTCCCGAAGGCATTTG
47144584 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 153 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:47152682 original size:79 final size:79
Alignment explanation
Indices: 47152539--47152756 Score: 314
Period size: 79 Copynumber: 2.7 Consensus size: 79
47152529 ATGTCTGGGC
* * * *
47152539 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATTTGTGCGA
47152603 GTTACTAAATCCGGGT
64 GTTACTAAATCCGGGT
*
47152619 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGT
*
47152684 TACTAAATCTGGGT
66 TACTAAATCCGGGT
* *
47152698 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGACATTTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGT-CCGAAGGCATTTG
47152757 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
79 74 0.59
80 45 0.36
81 7 0.06
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGT
TACTAAATCCGGGT
Found at i:47152763 original size:40 final size:40
Alignment explanation
Indices: 47152539--47152756 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
47152529 ATGTCTGGGC
* * * **
47152539 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGT
47152579 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
47152619 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
47152659 TAAGT-CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
*
47152698 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGT
* *
47152738 TATGTCCCGAAGACATTTG
1 TAAGTCCCGAAGGCATTTG
47152757 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
39 39 0.24
40 114 0.70
41 10 0.06
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
Found at i:47152787 original size:79 final size:79
Alignment explanation
Indices: 47152543--47152789 Score: 245
Period size: 79 Copynumber: 3.1 Consensus size: 79
47152533 CTGGGCTAAG
* * * * * **
47152543 TCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA
1 TCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGACATTTGAACGAGTTA
*
47152607 CTAAATC-CGGGTTAAG
64 CTAAATCTC-GGTTAAC
* * **
47152623 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACT
1 TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGACATTTGAACGAGTTACT
* *
47152688 AAATCTGGGTTAAG
66 AAATCTCGGTTAAC
*
47152702 TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGACATTTGAACGAG-TA
1 TCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGT-CCGAAGACATTTGAACGAGTTA
*
47152765 GCTATATC-CGGTTAAAC
64 -CTAAATCTCGGTT-AAC
47152782 T-CCGAAGG
1 TCCCGAAGG
47152790 TACGTGATTC
Statistics
Matches: 147, Mismatches: 14, Indels: 13
0.84 0.08 0.07
Matches are distributed among these distances:
79 86 0.59
80 54 0.37
81 7 0.05
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGACATTTGAACGAGTTACT
AAATCTCGGTTAAC
Found at i:47155691 original size:43 final size:42
Alignment explanation
Indices: 47155580--47155697 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
47155570 TGTTTTATCG
* * * * *
47155580 TGTAAGACCACGTCTGGGATGTTGGCTTTGTACTTGTTTTCA
1 TGTAAGACCACGTCTGGGAAGTTGGCATCGTACTTGATTACA
*
47155622 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-AGTTGGCATCG-TACTTGATTACA
* * *
47155665 TGTAAGACCACGTCTAGGACGTTGGCATTGTAC
1 TGTAAGACCACGTCTGGGAAGTTGGCATCGTAC
47155698 GAGCTTTTCG
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 33 0.54
44 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGAAGTTGGCATCGTACTTGATTACA
Found at i:47158209 original size:22 final size:23
Alignment explanation
Indices: 47158184--47158229 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
47158174 ATATGAAATT
47158184 GAGCTTAC-TATATTTTTAACAG
1 GAGCTTACATATATTTTTAACAG
47158206 GAGCTTACATATATTTTTAACAG
1 GAGCTTACATATATTTTTAACAG
47158229 G
1 G
47158230 CCGTTATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (23 bp):
GAGCTTACATATATTTTTAACAG
Found at i:47158784 original size:20 final size:20
Alignment explanation
Indices: 47158759--47158806 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
47158749 AAAAACAGGG
* *
47158759 GACACATGCCTGTGTGGCCC
1 GACACACGCCCGTGTGGCCC
47158779 GACACACGCCCGTGTGGCCC
1 GACACACGCCCGTGTGGCCC
47158799 GACACACG
1 GACACACG
47158807 GCCAACAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (20 bp):
GACACACGCCCGTGTGGCCC
Found at i:47159947 original size:33 final size:28
Alignment explanation
Indices: 47159880--47159934 Score: 92
Period size: 28 Copynumber: 1.9 Consensus size: 28
47159870 TGATACATGA
*
47159880 ATTCACATCAACTAACAAACTTTTCAAT
1 ATTCACATCAACTAACAAACTTTTAAAT
47159908 ATTCACATCAACTAACAAACCTTTTAA
1 ATTCACATCAACTAACAAA-CTTTTAA
47159935 TTACTCATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (28 bp):
ATTCACATCAACTAACAAACTTTTAAAT
Found at i:47160232 original size:28 final size:28
Alignment explanation
Indices: 47160152--47160233 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 28
47160142 CTTATATCTG
*
47160152 AAGTA-CTGATATCATGGCCCGAAGCAA
1 AAGTAGCTAATATCATGGCCCGAAGCAA
*
47160179 AATTAGCTAATACTCATGGCCCGAAGTCAA
1 AAGTAGCTAATA-TCATGGCCCGAAG-CAA
*
47160209 AAGT-GCTAATATCATCGCCCGAAGC
1 AAGTAGCTAATATCATGGCCCGAAGC
47160234 CAACTCAATG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.10
28 17 0.35
29 20 0.42
30 6 0.12
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (28 bp):
AAGTAGCTAATATCATGGCCCGAAGCAA
Found at i:47160743 original size:22 final size:19
Alignment explanation
Indices: 47160702--47160744 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
47160692 CCTAGCAGCC
47160702 CACATTTATCAACTTTTCA
1 CACATTTATCAACTTTTCA
47160721 CACATTTAATCACACATTTTCA
1 CACATTT-ATCA-AC-TTTTCA
47160743 CA
1 CA
47160745 AATAAATCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 4 0.19
21 2 0.10
22 8 0.38
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.37
Consensus pattern (19 bp):
CACATTTATCAACTTTTCA
Found at i:47167951 original size:39 final size:40
Alignment explanation
Indices: 47167907--47168001 Score: 131
Period size: 38 Copynumber: 2.4 Consensus size: 40
47167897 CTAGGATCCG
*
47167907 AAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-CCCA
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCCA
* * * *
47167946 AAGGCATT-GTGCAAGTTACTAAACCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCCA
47167985 AAGGCATTCGTGCGAGT
1 AAGGCATTCGTGCGAGT
47168002 CGCTATAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 22 0.46
39 19 0.40
40 7 0.15
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (40 bp):
AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTCCCA
Found at i:47167992 original size:78 final size:80
Alignment explanation
Indices: 47167851--47168001 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 80
47167841 TCGAATGATG
* * * * *
47167851 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCAAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
47167916 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
47167931 TCCGGGCTAAG-CCCAAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCAAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
47167993 CGTGCGAGT
65 CGTGCGAGT
47168002 CGCTATAACC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 36 0.58
79 14 0.23
80 11 0.18
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCAAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:47172836 original size:63 final size:63
Alignment explanation
Indices: 47172734--47172855 Score: 235
Period size: 63 Copynumber: 1.9 Consensus size: 63
47172724 ATGGCCTTAA
*
47172734 CCAATTTTAGAAAAATGACCTTTGAAACAGGGCCTACGTCCGTGTAGTTATTATGACATAAGG
1 CCAATTTTAGAAAAATGACCTTTGAAACAGGGCCCACGTCCGTGTAGTTATTATGACATAAGG
47172797 CCAATTTTAGAAAAATGACCTTTGAAACAGGGCCCACGTCCGTGTAGTTATTATGACAT
1 CCAATTTTAGAAAAATGACCTTTGAAACAGGGCCCACGTCCGTGTAGTTATTATGACAT
47172856 GCTGTGCTGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (63 bp):
CCAATTTTAGAAAAATGACCTTTGAAACAGGGCCCACGTCCGTGTAGTTATTATGACATAAGG
Found at i:47174244 original size:47 final size:46
Alignment explanation
Indices: 47174183--47174303 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 46
47174173 GTAGCCGACT
* * *
47174183 CATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT-GCCAATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTCATAAT--ATGGCCAATG
* * *
47174229 CCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATATGGTCGATG
1 -CATGTCCCAAACAT-GTCTTACACTAGCTCTCATAATATGGCCAATG
*
47174277 CATGTCCCAAACATGTGTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
47174304 ACACAATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
46 11 0.17
47 29 0.46
48 22 0.35
49 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTCATAATATGGCCAATG
Found at i:47183990 original size:47 final size:47
Alignment explanation
Indices: 47183937--47184212 Score: 185
Period size: 47 Copynumber: 5.8 Consensus size: 47
47183927 AGGGTATAAT
47183937 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCAA
* * * *
47183984 GTCGATGCCATGTCCCAGACATGATCTTACACTGACT-ATCGAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-C-ACATC-AA
* * * * * **
47184033 GCCGACATG--AAGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCGT
1 GTCG--ATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACACAT-CAA
* **
47184083 GTCGATGCCATGTCCCAGACATGGTCTTACA---G-TGACACATCTC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCAA
* * * *
47184126 GTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC-TGAA
1 GT--C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAC-ACATCAA
* *
47184174 TGTTGATGCCATGTCCCAGTCATGGTCTTACACTGGCTC
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
47184213 TCATAATGTG
Statistics
Matches: 178, Mismatches: 29, Indels: 43
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.02
44 14 0.08
45 15 0.08
46 9 0.05
47 50 0.28
48 24 0.13
49 28 0.16
50 27 0.15
51 7 0.04
52 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCAA
Found at i:47184234 original size:47 final size:47
Alignment explanation
Indices: 47183932--47184253 Score: 183
Period size: 47 Copynumber: 6.9 Consensus size: 47
47183922 AATATAGGGT
*
47183932 ATAATGT--CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAC
1 ATAATGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT--CTC
* * *
47183979 ATCAA-GT--CGATGCCATGTCCCAGACATGATCTTACACTGACTATC
1 AT-AATGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* * * *
47184024 GA-AATCGAGGCCGACATG--AAGTCCCAAACATGGTCTTACACTAGCTCTC
1 -ATAAT-G-TGCCG--ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* * * * *
47184073 ACATATCCGTGTCGATGCCATGTCCCAGACATGGTCTTACAGTGACACATC
1 ATA-AT--GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TC
* * *
47184124 -T--CGTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTC
1 ATAATGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* * *
47184167 GTCTGAATGT--TGATGCCATGTCCCAGTCATGGTCTTACACTGGCTCTC
1 --AT-AATGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* *
47184215 ATAATGTGGCCGATG-CATGTCCCAAACA-AGTCTTACACT
1 ATAATGT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
47184254 AGCACACAAT
Statistics
Matches: 213, Mismatches: 35, Indels: 55
0.70 0.12 0.18
Matches are distributed among these distances:
43 2 0.01
44 13 0.06
45 22 0.10
46 24 0.11
47 61 0.29
48 26 0.12
49 30 0.14
50 28 0.13
51 7 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
ATAATGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
Found at i:47184235 original size:94 final size:94
Alignment explanation
Indices: 47183939--47184256 Score: 283
Period size: 94 Copynumber: 3.4 Consensus size: 94
47183929 GGTATAATGT
* * * *
47183939 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACACATCAA-GTCGATGCCATGTCCCAGA
1 CGATG-CATGTCCCAAACATGGTCTTACACTAGCTCTCTC-TCAATGTCGATGCCATGTCCCAGA
* * *
47184003 CATGATCTTACACTGACTATCGA-AATCGAGGC
64 CATGGTCTTACACTGACTCTC-ATAAT-GTGGC
* * **
47184035 CGACATG-AAGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCGTGTCGATGCCATGTCCC
1 CG--ATGCATGTCCCAAACATGGTCTTACACTAGCTCT--C-TCTCAATGTCGATGCCATGTCCC
* * * *
47184099 AGACATGGTCTTACAGTGACACATC-T--CGTAGC
61 AGACATGGTCTTACACTGACTC-TCATAATGTGGC
* * * * *
47184131 TGATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTGAATGTTGATGCCATGTCCCAGTC
1 CGATGCATGTCCCAAACATGGTCTTACACTAGCTCTC-TCTCAATGTCGATGCCATGTCCCAGAC
*
47184195 ATGGTCTTACACTGGCTCTCATAATGTGGC
65 ATGGTCTTACACTGACTCTCATAATGTGGC
*
47184225 CGATGCATGTCCCAAACA-AGTCTTACACTAGC
1 CGATGCATGTCCCAAACATGGTCTTACACTAGC
47184257 ACACAATTAA
Statistics
Matches: 177, Mismatches: 32, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
91 2 0.01
92 38 0.21
94 52 0.29
95 11 0.06
96 32 0.18
98 6 0.03
99 34 0.19
100 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (94 bp):
CGATGCATGTCCCAAACATGGTCTTACACTAGCTCTCTCTCAATGTCGATGCCATGTCCCAGACA
TGGTCTTACACTGACTCTCATAATGTGGC
Found at i:47186936 original size:46 final size:46
Alignment explanation
Indices: 47186869--47187038 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
47186859 AACCCGCCCC
* *
47186869 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
*
47186915 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACATCCA
* * * * *
47186963 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
47187008 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
47187039 AGATGCTCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.55
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
Found at i:47187044 original size:93 final size:93
Alignment explanation
Indices: 47186874--47187044 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
47186864 GCCCCTAAGT
* * *
47186874 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
**
47186939 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
*
47186967 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47187032 CGAGTTCAGATGC
66 CGAGTTCAGATGC
47187045 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:47187498 original size:30 final size:30
Alignment explanation
Indices: 47187464--47187523 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47187454 ATTTAATACG
47187464 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47187494 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47187524 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47190398 original size:40 final size:40
Alignment explanation
Indices: 47190296--47190479 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
47190286 AAATTGAATG
* * * * * *
47190296 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
47190336 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
47190376 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
47190416 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
47190456 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
47190480 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:47190504 original size:80 final size:80
Alignment explanation
Indices: 47190336--47190524 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
47190326 GCTGGAAATT
* * *
47190336 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
47190401 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
47190416 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
47190479 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
47190496 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
47190525 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:47198517 original size:40 final size:39
Alignment explanation
Indices: 47198435--47198544 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 39
47198425 GAAATTATAA
* * * *
47198435 CCGGGTTAAGACCCAAAGGCAATTGTGCTAGTAGCTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCAAGTAGCTAAAT
* *
47198475 CCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAAT
1 CCGGGCTAAGACCCGAAGGCATT-GTGCAAGTAGCTAAAT
47198515 CCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCAA
47198545 ATCATGATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.05
40 57 0.92
41 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCAAGTAGCTAAAT
Found at i:47198557 original size:40 final size:39
Alignment explanation
Indices: 47198388--47198564 Score: 137
Period size: 40 Copynumber: 4.4 Consensus size: 39
47198378 GAGAAATTGA
* * *
47198388 ATGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT
1 ATGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAAT
* * * * * *
47198430 -T-ATAACCGGGTTAAGACCCAAAGGCAATTGTGCTAGT
1 ATGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
* *
47198467 A-GCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT
1 ATG--ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
*
47198507 -TGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
1 ATG--ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
*
47198547 CATGATATCCGGGTTAAG
1 -ATGATATCCGGGCTAAG
47198565 TCCGTAGGCC
Statistics
Matches: 107, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 2 0.02
40 96 0.90
41 1 0.01
42 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (39 bp):
ATGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT
Found at i:47201625 original size:48 final size:48
Alignment explanation
Indices: 47201526--47201629 Score: 120
Period size: 48 Copynumber: 2.2 Consensus size: 48
47201516 GTAAATTGTT
* * * * *
47201526 GATGCTATGTTCCAAACATGGTCTTACACTGGCTTACATGTCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATCTCAAGGCC
* * *
47201574 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTCAATGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCT-TACATCTCAAGGCC
47201622 GATGCCAT
1 GATGCCAT
47201630 ATCCTAGATG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTTACATCTCAAGGCC
Found at i:47202982 original size:46 final size:46
Alignment explanation
Indices: 47202929--47203104 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
47202919 TATTTGGGCA
47202929 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
47202975 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
47203022 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
47203068 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47203105 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:47203084 original size:93 final size:93
Alignment explanation
Indices: 47202925--47203096 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47202915 GGGATATTTG
* *
47202925 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
47202990 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
47203018 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
47203083 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
47203097 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:47204633 original size:48 final size:48
Alignment explanation
Indices: 47204414--47204635 Score: 223
Period size: 48 Copynumber: 4.6 Consensus size: 48
47204404 GTGTTACACT
* * **
47204414 AGACATGGTCTTACACTAGCTCTCATGTTGTGGCCGATGCCATGTCCC
1 AGACATGGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTCCC
* * * *
47204462 -GAACATGGTCTTATACTAGCGCACATATCAAT-GCCGATGCCATGTCCC
1 AG-ACATGGTCTTACACTGGCTCTCATATC-ATGGCCGATGCCATGTCCC
* * * * * * *
47204510 AGACATGGTCTTACATTGGCTCTCACAACATCGTCGATGCAATGTTCC
1 AGACATGGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTCCC
* * * *
47204558 AAACATGGTCTTACACTGGCTTTCATATCGTGGCCGACGCCATGTCCC
1 AGACATGGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTCCC
* *
47204606 AGACATGGTCTTACACTGGCACACATATCA
1 AGACATGGTCTTACACTGGCTCTCATATCA
47204636 CTCAAATGTT
Statistics
Matches: 138, Mismatches: 32, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
47 3 0.02
48 133 0.96
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
AGACATGGTCTTACACTGGCTCTCATATCATGGCCGATGCCATGTCCC
Found at i:47213864 original size:5 final size:5
Alignment explanation
Indices: 47213854--47213881 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
47213844 GATACCAACC
47213854 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
47213882 TTATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:47221078 original size:21 final size:21
Alignment explanation
Indices: 47221046--47221103 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
47221036 TGTAGGGCTC
*
47221046 ACACGCCCGTGTGGTCTAGGG
1 ACACACCCGTGTGGTCTAGGG
*
47221067 ACACACCTGTGTGGTCTAGGG
1 ACACACCCGTGTGGTCTAGGG
47221088 ACACACCCGTGTGGTC
1 ACACACCCGTGTGGTC
47221104 AAGCCGTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (21 bp):
ACACACCCGTGTGGTCTAGGG
Found at i:47221339 original size:73 final size:73
Alignment explanation
Indices: 47221178--47221358 Score: 209
Period size: 73 Copynumber: 2.5 Consensus size: 73
47221168 GTAATTGAAG
* * * * * **
47221178 TCACACGGCCAAGTCACACACCCGTGTGCTAGGCCGTGTGGCGAATTTTATTTTCAAAATTTAGG
1 TCACACGACCACGTAACACACCCGTGTTCAAGGCTATGTGGCGAATTTTATTTTCAAAATTTAGG
47221243 TGCAGTTT
66 TGCAGTTT
* * * **
47221251 TCACATGGCCACGTAATACACCCGTGTTCAAGGCTATGTGGCGAATTTTATTTTTGAAATTTAGG
1 TCACACGACCACGTAACACACCCGTGTTCAAGGCTATGTGGCGAATTTTATTTTCAAAATTTAGG
*
47221316 TGTAGTTT
66 TGCAGTTT
* * * *
47221324 TCACACGATCTCGTAACACGCCCATGTTCAAGGCT
1 TCACACGACCACGTAACACACCCGTGTTCAAGGCT
47221359 GTGTCAACCA
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
73 90 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (73 bp):
TCACACGACCACGTAACACACCCGTGTTCAAGGCTATGTGGCGAATTTTATTTTCAAAATTTAGG
TGCAGTTT
Found at i:47225059 original size:20 final size:20
Alignment explanation
Indices: 47225008--47225049 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
47224998 GCCTAAGCAT
47225008 CAAACAACAACACATGTTAG
1 CAAACAACAACACATGTTAG
47225028 CAAACAACAACACATGTTAG
1 CAAACAACAACACATGTTAG
47225048 CA
1 CA
47225050 TACTTGAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.26, G:0.10, T:0.14
Consensus pattern (20 bp):
CAAACAACAACACATGTTAG
Found at i:47231576 original size:25 final size:25
Alignment explanation
Indices: 47231548--47231598 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
47231538 ATTTTTGAGT
47231548 TTGTGTTGCAAGAAACATTTGGTTA
1 TTGTGTTGCAAGAAACATTTGGTTA
47231573 TTGTGTTGCAAGAAACATTTGGTTA
1 TTGTGTTGCAAGAAACATTTGGTTA
47231598 T
1 T
47231599 GTCATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (25 bp):
TTGTGTTGCAAGAAACATTTGGTTA
Found at i:47233727 original size:47 final size:47
Alignment explanation
Indices: 47233676--47233866 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
47233666 TTAGGATTTT
47233676 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
47233723 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
47233770 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCC-AATGGCCG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
47233816 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
47233861 ATGTGA
1 ATGTGA
47233867 AATATATATA
Statistics
Matches: 133, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
44 13 0.10
45 11 0.08
46 25 0.19
47 84 0.63
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:47233729 original size:22 final size:22
Alignment explanation
Indices: 47233701--47233776 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
47233691 ACATGCATAT
47233701 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
47233723 ATGTGATGAATGTG-AGCAT-GCATA
1 ATGTGAT-AA-G-GCCGAATGGC-CA
47233747 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
47233770 ATGTGAT
1 ATGTGAT
47233777 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:47233892 original size:50 final size:50
Alignment explanation
Indices: 47233825--47233971 Score: 244
Period size: 50 Copynumber: 3.0 Consensus size: 50
47233815 GATGTGGTGA
*
47233825 ATATGA-ACATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
47233874 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
* *
47233924 ATATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAGTGTGAAATAT
1 ATATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATAT
47233972 GTAGGCGATG
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
49 7 0.08
50 86 0.92
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.30
Consensus pattern (50 bp):
ATATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATAT
Found at i:47234229 original size:37 final size:37
Alignment explanation
Indices: 47234121--47234229 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
47234111 GGGAATATAT
*
47234121 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
47234158 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
47234195 TCCGGGTAAGACCCGATAACTTCTTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
47234230 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:47237623 original size:45 final size:46
Alignment explanation
Indices: 47237504--47237624 Score: 160
Period size: 45 Copynumber: 2.7 Consensus size: 46
47237494 CATCCATAAT
* * *
47237504 GAACTCGGACCAACTCAACAAGCTCGGA-TGCTTCACATATATCAC
1 GAACTCTGACCAACTCAACAAGCTCAGATTTCTTCACATATATCAC
*
47237549 GAACT-TGAACCAACTCAACAAGTTCAGATTTC-TCACATATATCAC
1 GAACTCTG-ACCAACTCAACAAGCTCAGATTTCTTCACATATATCAC
47237594 GAACTCTGACCAACTCAACGAA-CTCAGATTT
1 GAACTCTGACCAACTCAAC-AAGCTCAGATTT
47237625 TCTAAATTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
44 1 0.01
45 60 0.90
46 6 0.09
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (46 bp):
GAACTCTGACCAACTCAACAAGCTCAGATTTCTTCACATATATCAC
Found at i:47242576 original size:79 final size:80
Alignment explanation
Indices: 47242433--47242640 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
47242423 ACCTTCGGAG
* * ** * * * *
47242433 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
47242497 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
47242512 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
47242574 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
47242591 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
47242641 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:47242585 original size:40 final size:40
Alignment explanation
Indices: 47242533--47242640 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
47242523 TATCACGATT
** *
47242533 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
47242573 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
47242613 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
47242641 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:47248583 original size:29 final size:29
Alignment explanation
Indices: 47248555--47248656 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
47248545 CCTCCGAGCT
** * * *
47248555 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
47248584 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47248613 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
47248642 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
47248657 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:47254997 original size:40 final size:40
Alignment explanation
Indices: 47254931--47255081 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
47254921 AAATTGAATG
* * *
47254931 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
47254970 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
47255010 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
47255050 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
47255082 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:47255095 original size:40 final size:40
Alignment explanation
Indices: 47254968--47255097 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
47254958 ATGCTGGAAA
* * *
47254968 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
47255008 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
47255048 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
47255088 TTATATCCGG
1 TTATATCCGG
47255098 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:47263021 original size:40 final size:40
Alignment explanation
Indices: 47262936--47263086 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
47262926 AATTGAATGA
* * * **
47262936 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
47262976 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
47263017 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
47263056 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
47263087 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:47263100 original size:40 final size:40
Alignment explanation
Indices: 47262973--47263102 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
47262963 ATGCTGGAAA
* * *
47262973 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
47263013 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
47263053 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
47263093 TTATATCCGG
1 TTATATCCGG
47263103 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:47264769 original size:17 final size:17
Alignment explanation
Indices: 47264737--47264788 Score: 86
Period size: 17 Copynumber: 3.0 Consensus size: 17
47264727 GGGCTGAAAT
*
47264737 GGGCTGTGTGGGCCCCAC
1 GGGCT-TGTAGGCCCCAC
47264755 GGGCTTGTAGGCCCCAC
1 GGGCTTGTAGGCCCCAC
47264772 GGGCTTGTAGGCCCCAC
1 GGGCTTGTAGGCCCCAC
47264789 ATGGGTAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 28 0.85
18 5 0.15
ACGTcount: A:0.10, C:0.35, G:0.38, T:0.17
Consensus pattern (17 bp):
GGGCTTGTAGGCCCCAC
Found at i:47266452 original size:23 final size:24
Alignment explanation
Indices: 47266426--47266475 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
47266416 CAATTTATCA
*
47266426 CATTTTTACTGGCAG-ATTTTTTG
1 CATTTTTACTGGCAGAATTTTCTG
47266449 CATTTTTACTGGCAGAATTTTCTG
1 CATTTTTACTGGCAGAATTTTCTG
47266473 CAT
1 CAT
47266476 ATTGTTATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (24 bp):
CATTTTTACTGGCAGAATTTTCTG
Found at i:47267943 original size:2 final size:2
Alignment explanation
Indices: 47267931--47267987 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
47267921 AAGATGGCTT
47267931 GA GA GA G- GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
47267972 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
47267988 TAAGCACTCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47273218 original size:36 final size:36
Alignment explanation
Indices: 47273171--47273239 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
47273161 GCTTATGATG
*
47273171 GTTAACAAATCATTTTGTATCTGGCCATGAGATTTT
1 GTTAACAAATCATTTCGTATCTGGCCATGAGATTTT
47273207 GTTAACAAATCATTTCGTATCTGGCCATGAGAT
1 GTTAACAAATCATTTCGTATCTGGCCATGAGAT
47273240 ATGGTTCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (36 bp):
GTTAACAAATCATTTCGTATCTGGCCATGAGATTTT
Found at i:47276365 original size:35 final size:35
Alignment explanation
Indices: 47276319--47276389 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
47276309 AGAACATGAT
*
47276319 CGACTGAGGCACAAACACCATAGACATGATTTAAA
1 CGACTGAGGCACAAACACCATAGACATGACTTAAA
47276354 CGACTGAGGCACAAACACCATAGACATGACTTAAA
1 CGACTGAGGCACAAACACCATAGACATGACTTAAA
47276389 C
1 C
47276390 AAACTTCAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (35 bp):
CGACTGAGGCACAAACACCATAGACATGACTTAAA
Found at i:47276725 original size:19 final size:19
Alignment explanation
Indices: 47276701--47276748 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
47276691 TGAAATGAGA
*
47276701 GATGAGGGATTGAGTAACG
1 GATGAGGGATTGAGTAAAG
47276720 GATGAGGGATTGAGTAAAG
1 GATGAGGGATTGAGTAAAG
47276739 GATGAGGGAT
1 GATGAGGGAT
47276749 ATAGGGATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.44, T:0.21
Consensus pattern (19 bp):
GATGAGGGATTGAGTAAAG
Found at i:47278655 original size:40 final size:40
Alignment explanation
Indices: 47278611--47278780 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
47278601 CTTTGGGACA
* *
47278611 TAGCCCGG-TTATAGTAATTCGCACAATTGCCTTCGGGAAT
1 TAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGAAT
* *
47278651 TAGCCCGGATTTAGTAACTCCCA-AAATGCCTTCGGGACT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
* * * *
47278690 TAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGAAT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
* * * *
47278730 T-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACT
1 TAG-CCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGAAT
47278771 TAGCCCGGAT
1 TAGCCCGGAT
47278781 ACCATTCGGA
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.31
40 46 0.43
41 28 0.26
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
Found at i:47278697 original size:39 final size:39
Alignment explanation
Indices: 47278638--47278780 Score: 162
Period size: 39 Copynumber: 3.6 Consensus size: 39
47278628 TTCGCACAAT
* *
47278638 TGCCTTCGGGAATTAGCCCGGATTTAGTAACTCCCAAAA
1 TGCCTTCGGGAATTAACCCGGATTTAGTAACTCACAAAA
* * *
47278677 TGCCTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAA
1 TGCCTTCGGGAATTAACCCGGATTTAGTAACTCACA-AAA
* *
47278717 TGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAA
1 TGCCTTCGGGAATTAACCCGGATTTAGTAAC-T--CACAAAA
* *
47278759 -GCCTTCGGGACTTAGCCCGGAT
1 TGCCTTCGGGAATTAACCCGGAT
47278781 ACCATTCGGA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 31 0.36
40 29 0.33
41 20 0.23
42 3 0.03
43 4 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
TGCCTTCGGGAATTAACCCGGATTTAGTAACTCACAAAA
Found at i:47278697 original size:79 final size:80
Alignment explanation
Indices: 47278605--47278778 Score: 219
Period size: 79 Copynumber: 2.2 Consensus size: 80
47278595 GGTTGTCTTT
* * * *
47278605 GGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC
1 GGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAAC
*
47278669 -T-CCCAAAATGCCTTC
65 TTACACAAAA-GCCTTC
* * * *
47278684 GGGACTTAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACT
1 GGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACT
47278749 TAGCACAAAAGCCTTC
66 TA-CACAAAAGCCTTC
47278765 GGGACTTAGCCCGG
1 GGGACTTAGCCCGG
47278779 ATACCATTCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 54 0.67
80 2 0.02
81 19 0.23
82 6 0.07
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
GGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACT
TACACAAAAGCCTTC
Found at i:47286703 original size:40 final size:39
Alignment explanation
Indices: 47286659--47286836 Score: 182
Period size: 40 Copynumber: 4.5 Consensus size: 39
47286649 GCTCGGTTGT
* *
47286659 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
47286699 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
47286739 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
47286779 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
47286820 CTT-GGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
47286837 ATACCATTCG
Statistics
Matches: 116, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 2 0.02
40 97 0.84
41 17 0.15
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:47286757 original size:80 final size:81
Alignment explanation
Indices: 47286659--47286836 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
47286649 GCTCGGTTGT
* * *
47286659 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* *
47286723 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
47286739 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
47286804 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
47286820 CTT-GGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
47286837 ATACCATTCG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 72 0.84
81 14 0.16
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:47292924 original size:40 final size:40
Alignment explanation
Indices: 47292807--47293077 Score: 427
Period size: 40 Copynumber: 6.8 Consensus size: 40
47292797 GAGAATTGAG
* * * *
47292807 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
47292847 AGTGATGTATCCGGACTAAGTT-CGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
47292886 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
47292926 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
47292966 AGTAATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
47293006 AGTAATGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
47293046 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
47293078 ATCATGCTGG
Statistics
Matches: 217, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 39 0.18
40 178 0.82
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:47297024 original size:96 final size:97
Alignment explanation
Indices: 47296917--47297109 Score: 343
Period size: 96 Copynumber: 2.0 Consensus size: 97
47296907 GTATGAGATA
47296917 TATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAATGTATATATA-TGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAATGTATATATAGTGATAAGGC
47296981 CTAATGGCCGATGTGATGAATGTGAAAGTGTG
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
47297013 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAATGTATATATA-GTGATAAGG
*
47297078 CCTAATGGCCGATGTGATGAATGTGAAGGTGT
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGT
47297110 ATGTAACACC
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
96 53 0.58
98 39 0.42
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (97 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAATGTATATATAGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:47297110 original size:49 final size:49
Alignment explanation
Indices: 47296915--47297111 Score: 344
Period size: 49 Copynumber: 4.1 Consensus size: 49
47296905 ATGTATGAGA
* *
47296915 TATATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAATG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
47296964 TATATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
47297011 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
47297060 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
47297109 TAT
1 TAT
47297112 GTAACACCCC
Statistics
Matches: 141, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
47 44 0.31
49 97 0.69
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:47298531 original size:27 final size:28
Alignment explanation
Indices: 47298501--47298567 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
47298491 GTGAATCCGT
*
47298501 ACACTTAGTGCTATAAAATC-AGCTCGC
1 ACACTTAGTGCTATAAAATCAAACTCGC
* * *
47298528 ACACATAGTGCTATATAATCAAATTCGC
1 ACACTTAGTGCTATAAAATCAAACTCGC
47298556 ACACTTAGTGCT
1 ACACTTAGTGCT
47298568 GTACAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (28 bp):
ACACTTAGTGCTATAAAATCAAACTCGC
Found at i:47298639 original size:42 final size:42
Alignment explanation
Indices: 47298575--47298681 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
47298565 GCTGTACAAT
* *
47298575 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
47298617 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
47298659 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
47298682 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:47303176 original size:27 final size:28
Alignment explanation
Indices: 47303146--47303215 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
47303136 ATAGTGAATC
*
47303146 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
47303173 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
47303201 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47303216 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:47303289 original size:42 final size:42
Alignment explanation
Indices: 47303230--47303326 Score: 185
Period size: 42 Copynumber: 2.3 Consensus size: 42
47303220 AATTTTAAAC
*
47303230 CACACGTAGTGCCAATCTTGTCACCGTGTCCATTTATACCCG
1 CACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACCCG
47303272 CACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACCCG
1 CACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACCCG
47303314 CACACTTAGTGCC
1 CACACTTAGTGCC
47303327 GAGACCAATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
CACACTTAGTGCCAATCTTGTCACCGTGTCCATTTATACCCG
Found at i:47307690 original size:20 final size:21
Alignment explanation
Indices: 47307665--47307713 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
47307655 GCAGAATAAT
*
47307665 TCCCAAATCC-AAATCCAAAG
1 TCCCAAATCCAAAAACCAAAG
*
47307685 TCCCAAAACCAAAAACCAAAG
1 TCCCAAATCCAAAAACCAAAG
*
47307706 TCCAAAAT
1 TCCCAAAT
47307714 TGAAGTCCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.51, C:0.33, G:0.04, T:0.12
Consensus pattern (21 bp):
TCCCAAATCCAAAAACCAAAG
Found at i:47309394 original size:21 final size:21
Alignment explanation
Indices: 47309370--47309413 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
47309360 AACAGAAACC
* *
47309370 CATAAGGGTTGAACGAGAGCT
1 CATAAGGGTTGAACAAAAGCT
47309391 CATAAGGGTTGAACAAAAGCT
1 CATAAGGGTTGAACAAAAGCT
47309412 CA
1 CA
47309414 GAAGAGCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (21 bp):
CATAAGGGTTGAACAAAAGCT
Found at i:47309437 original size:42 final size:42
Alignment explanation
Indices: 47309391--47309487 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
47309381 AACGAGAGCT
* * * *
47309391 CATAAGGGTTGAACAAAAGCTCAGAAGAGCTGAATGGAAACC
1 CATAAGGGTTGAACAAAAGCTCAAAAGAGCTAAACGAAAACC
* * * *
47309433 CATAAAGGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAATC
1 CATAAGGGTTGAACAAAAGCTCAAAAGAGCTAAACGAAAACC
*
47309475 CATTAGGGTTGAA
1 CATAAGGGTTGAA
47309488 AGGAAACTCA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.16
Consensus pattern (42 bp):
CATAAGGGTTGAACAAAAGCTCAAAAGAGCTAAACGAAAACC
Found at i:47311767 original size:30 final size:30
Alignment explanation
Indices: 47311689--47311771 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 30
47311679 TCAGTCTCGA
47311689 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
47311719 CATATCACTGGACCGAAGCCTTTTCATAAAT
1 CATATCACTGG-CCGAAGCCTTTTCATAAAT
47311750 CATATCACTGGCCGAAGCCTTT
1 CATATCACTGGCCGAAGCCTTT
47311772 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
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 (30 bp):
CATATCACTGGCCGAAGCCTTTTCATAAAT
Found at i:47312061 original size:26 final size:26
Alignment explanation
Indices: 47311977--47312112 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
47311967 TTGGAGGCCT
47311977 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
47312001 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
47312026 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
47312052 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
47312078 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
47312104 AGCCTTTTT
1 AGCCCTTTT
47312113 GCACTTCCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.33
26 57 0.57
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:47312101 original size:52 final size:51
Alignment explanation
Indices: 47311977--47312112 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
47311967 TTGGAGGCCT
47311977 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
47312026 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
*
47312078 AGCCCTTTTCAATAAACTGGGGCATAAGCCTTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
47312113 GCACTTCCTC
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 10 0.12
51 25 0.30
52 35 0.43
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:47312248 original size:20 final size:20
Alignment explanation
Indices: 47312162--47312232 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
47312152 TTATGAATAC
47312162 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
47312182 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
47312202 ATTATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
47312222 ATCATGTGCAT
1 ATCATGTGCAT
47312233 ATTATATCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:47313016 original size:27 final size:27
Alignment explanation
Indices: 47312955--47313018 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
47312945 GGCGTATTCA
*
47312955 TCATTTTACCATACGAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* *
47312982 TCACTTTACCCTACAAGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
47313009 TCTTTTTACC
1 TCATTTTACC
47313019 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:47313302 original size:27 final size:27
Alignment explanation
Indices: 47313051--47313312 Score: 165
Period size: 27 Copynumber: 9.7 Consensus size: 27
47313041 TCATCCTACA
* * *
47313051 AGGGTATTTTGGTAAATCTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* **
47313078 AGGGTATTTCT-GCAATTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTACAAATCG
* *
47313104 AGGGTTATTTCT-GTAATTTTCCAAATCA
1 AGGG-TATTT-TGGTAATTTTACAAATCG
* * * * *
47313132 AAGGTATTTCGGTAAATTTCCAAAT-T
1 AGGGTATTTTGGTAATTTTACAAATCG
*
47313158 AGGGGTATTTTAGTAATTTTACAAATCG
1 A-GGGTATTTTGGTAATTTTACAAATCG
** * * *
47313186 AGGGTATTTCAGTAAATTTATAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
** * * ** *
47313213 AGGGTATTTCAGTAATTTCATAGGTTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
47313240 AGGATATTTCGGTAATTTCACAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
47313266 AGGGGAATTTTGGTAATTTTACAAACCG
1 A-GGGTATTTTGGTAATTTTACAAATCG
47313294 AGGGTATTTTGGTAATTTT
1 AGGGTATTTTGGTAATTTT
47313313 GTAAACCAAC
Statistics
Matches: 189, Mismatches: 38, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
26 6 0.03
27 177 0.94
28 6 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:47313311 original size:54 final size:55
Alignment explanation
Indices: 47313052--47313308 Score: 202
Period size: 54 Copynumber: 4.7 Consensus size: 55
47313042 CATCCTACAA
* * * * * * ***
47313052 GGGTATTTTGGTAAATCTACAAATCAAGGGTATTTCTG-CAATTTTGTAAATCAG
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGTAAATTTCACAAATCAG
* * * * *
47313106 GGTTATTTCT-GTAATTTTCCAAATCAAAGGTATTTCGGTAAATTTC-CAAATTAG
1 GGGTATTT-TAGTAATTTTACAAATCGAGGGTATTTCGGTAAATTTCACAAATCAG
* * *
47313160 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAAATTT-ATAAGTC-G
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGTAAATTTCACAAATCAG
* * * ** * *
47313213 AGGGTATTTCAGTAATTTCATAGGTTGAGGATATTTCGGT-AATTTCACAAATCAG
1 -GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGTAAATTTCACAAATCAG
* * * *
47313268 GGGAATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGTAA
47313309 TTTTGTAAAC
Statistics
Matches: 156, Mismatches: 39, Indels: 15
0.74 0.19 0.07
Matches are distributed among these distances:
53 7 0.04
54 141 0.90
55 8 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (55 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGTAAATTTCACAAATCAG
Found at i:47313318 original size:27 final size:27
Alignment explanation
Indices: 47313272--47313355 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
47313262 AATCAGGGGA
** *
47313272 ATTTTGGTAATTTTACAAACCGAGGGT
1 ATTTTGGTAATTTTGTAAACCAAGGGT
*
47313299 ATTTTGGTAATTTTGTAAACCAACGGT
1 ATTTTGGTAATTTTGTAAACCAAGGGT
**
47313326 A-TTCAGTAATTTTGTAAACCAAGGGT
1 ATTTTGGTAATTTTGTAAACCAAGGGT
47313352 ATTT
1 ATTT
47313356 CAGTAATTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.47
27 26 0.53
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTGGTAATTTTGTAAACCAAGGGT
Found at i:47313327 original size:108 final size:107
Alignment explanation
Indices: 47313136--47313337 Score: 271
Period size: 108 Copynumber: 1.9 Consensus size: 107
47313126 AAATCAAAGG
* * *
47313136 TATTTCGGTAAATTTCCAAATTAGGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAA
1 TATTTCGGTAAATTTCCAAATCAGGGGAATTTTAGTAATTTTACAAACCGAGGGTATTTCAGTAA
** * *
47313201 ATTTATAAGTCGAGGGTATTTCAGTAATTTCATAGGTTGAGGA
66 ATTTATAAACCAACGGTA-TTCAGTAATTTCATAGGTTGAGGA
* **
47313244 TATTTCGGT-AATTTCACAAATCAGGGGAATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTA
1 TATTTCGGTAAATTTC-CAAATCAGGGGAATTTTAGTAATTTTACAAACCGAGGGTATTTCAGTA
* *
47313308 ATTTTGTAAACCAACGGTATTCAGTAATTT
65 AATTTATAAACCAACGGTATTCAGTAATTT
47313338 TGTAAACCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
107 17 0.21
108 64 0.79
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (107 bp):
TATTTCGGTAAATTTCCAAATCAGGGGAATTTTAGTAATTTTACAAACCGAGGGTATTTCAGTAA
ATTTATAAACCAACGGTATTCAGTAATTTCATAGGTTGAGGA
Found at i:47314861 original size:2 final size:2
Alignment explanation
Indices: 47314854--47314893 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
47314844 TTATTTAGAT
47314854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47314894 ATTGATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:47314903 original size:20 final size:19
Alignment explanation
Indices: 47314880--47314921 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
47314870 TATATATATA
47314880 TATTAT-ATTATATAATTGAT
1 TATTATAATTAT-TAATTG-T
47314900 TATTATAATTATTAATTGT
1 TATTATAATTATTAATTGT
47314919 TAT
1 TAT
47314922 GGTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATAATTATTAATTGT
Found at i:47316143 original size:13 final size:13
Alignment explanation
Indices: 47316125--47316150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47316115 ATGAATGTGT
47316125 GGTAAGTATTTAA
1 GGTAAGTATTTAA
47316138 GGTAAGTATTTAA
1 GGTAAGTATTTAA
47316151 TGAACTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
GGTAAGTATTTAA
Done.