Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 251 of 279
Found at i:81673461 original size:5 final size:5
Alignment explanation
Indices: 81673451--81673498 Score: 69
Period size: 5 Copynumber: 9.6 Consensus size: 5
81673441 ATATATTCAT
* * *
81673451 AATTC AATTC AATTC AACTC AATTC AATTT AATTT AATTC AATTC AAT
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AAT
81673499 ACCATAATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (5 bp):
AATTC
Found at i:81673953 original size:20 final size:20
Alignment explanation
Indices: 81673928--81673975 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
81673918 AATCCTTTTC
81673928 TCAATTCTAA-CT-TAATTCT
1 TCAATT-TAACCTCTAATTCT
81673947 ATCAATTTAACCTCTAATTCT
1 -TCAATTTAACCTCTAATTCT
81673968 TCAATTTA
1 TCAATTTA
81673976 TTCAACATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.12
20 16 0.62
21 7 0.27
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (20 bp):
TCAATTTAACCTCTAATTCT
Found at i:81682469 original size:53 final size:53
Alignment explanation
Indices: 81682384--81682493 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 53
81682374 TTCAATCGAG
81682384 TATAAACATGGCACTGTATGAAGCATTATATGGTCATAAATGATGAACTCTAC
1 TATAAACATGGCACTGTATGAAGCATTATATGGTCATAAATGATGAACTCTAC
* *
81682437 TATAAACATGGCACTGTATGAAGCATTGTATGGTCATAAATGATGAACTCTAT
1 TATAAACATGGCACTGTATGAAGCATTATATGGTCATAAATGATGAACTCTAC
81682490 TATA
1 TATA
81682494 CTAGACCAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (53 bp):
TATAAACATGGCACTGTATGAAGCATTATATGGTCATAAATGATGAACTCTAC
Found at i:81684481 original size:10 final size:10
Alignment explanation
Indices: 81684466--81684525 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
81684456 AAATTTTAAG
81684466 ATTTAT-TTT
1 ATTTATCTTT
81684475 CATTTATCTTT
1 -ATTTATCTTT
81684486 ATTTATCTTT
1 ATTTATCTTT
* *
81684496 AATTATATTT
1 ATTTATCTTT
81684506 ATTTAT-TTGT
1 ATTTATCTT-T
81684516 ATTTATCTTT
1 ATTTATCTTT
81684526 TAGAATTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:81684510 original size:30 final size:30
Alignment explanation
Indices: 81684468--81684525 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
81684458 ATTTTAAGAT
81684468 TTATTTTCATTTATCTT-TATTTATCTTTAA
1 TTATTTTCATTTAT-TTGTATTTATCTTTAA
81684498 TTATATTT-ATTTATTTGTATTTATCTTT
1 TTAT-TTTCATTTATTTGTATTTATCTTT
81684526 TAGAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 2 0.08
30 21 0.81
31 3 0.12
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (30 bp):
TTATTTTCATTTATTTGTATTTATCTTTAA
Found at i:81685451 original size:12 final size:12
Alignment explanation
Indices: 81685434--81685466 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
81685424 CTACTTCCCC
81685434 TTTACTATTATT
1 TTTACTATTATT
81685446 TTTACTATTATT
1 TTTACTATTATT
81685458 TTTACTATT
1 TTTACTATT
81685467 TTACAGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTACTATTATT
Found at i:81687215 original size:43 final size:43
Alignment explanation
Indices: 81687145--81687374 Score: 207
Period size: 43 Copynumber: 5.3 Consensus size: 43
81687135 TATTTAAAAA
* *
81687145 AAACGCCGCTAAAGACCATAACATTTAACGGCGCTTTTTCCTC
1 AAACGCCGCTAAAGACCATGACATTTAACGGCACTTTTTCCTC
* * * * * *
81687188 AAACACCGTTAAAGACCATGACCTTTAACAGCGCTTTTTCTTC
1 AAACGCCGCTAAAGACCATGACATTTAACGGCACTTTTTCCTC
* * * *
81687231 AAACGCCACTAAAAACCATAACATTTAACGGCAC-TTTTCCCC
1 AAACGCCGCTAAAGACCATGACATTTAACGGCACTTTTTCCTC
* * * *
81687273 AAAACGCCGCTAAAAACCATGACATTTAGCGGCACTTTTT-TTGA
1 -AAACGCCGCTAAAGACCATGACATTTAACGGCACTTTTTCCT-C
* * * *
81687317 AAATGCCGCTAAAGACCATGACCTTTAGC-G-ACTCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACATTTAACGGCACT-TTTTC-CTC
*
81687360 AAACGCTGCTAAAGA
1 AAACGCCGCTAAAGA
81687375 ATATAATCTT
Statistics
Matches: 151, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
41 3 0.02
42 11 0.07
43 133 0.88
44 4 0.03
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACATTTAACGGCACTTTTTCCTC
Found at i:81687354 original size:86 final size:86
Alignment explanation
Indices: 81687144--81687372 Score: 239
Period size: 86 Copynumber: 2.7 Consensus size: 86
81687134 TTATTTAAAA
* * * *
81687144 AAAACGCCGCTAAAGACCATAACATTTAACGGCGCTTTTTCCTC-AAACACCGTTAAAGACCATG
1 AAAACGCCGCTAAAGACCATAACATTTAACGGCAC-TTTTCCTCAAAACGCCGCTAAAAACCATG
* *
81687208 ACCTTTAACAGCGCTTTTTCTT
65 ACATTTAACAGCACTTTTTCTT
* * * *
81687230 CAAACGCCACTAAAAACCATAACATTTAACGGCACTTTTCCCCAAAACGCCGCTAAAAACCATGA
1 AAAACGCCGCTAAAGACCATAACATTTAACGGCACTTTTCCTCAAAACGCCGCTAAAAACCATGA
* *
81687295 CATTTAGCGGCACTTTTT-TT
66 CATTTAACAGCACTTTTTCTT
* * * * * * *
81687315 GAAAATGCCGCTAAAGACCATGACCTTTAGCGACTCTTTT-CTCACAAACGCTGCTAAA
1 -AAAACGCCGCTAAAGACCATAACATTTAACGGCACTTTTCCTCA-AAACGCCGCTAAA
81687373 GAATATAATC
Statistics
Matches: 117, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
85 12 0.10
86 105 0.90
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (86 bp):
AAAACGCCGCTAAAGACCATAACATTTAACGGCACTTTTCCTCAAAACGCCGCTAAAAACCATGA
CATTTAACAGCACTTTTTCTT
Found at i:81687771 original size:13 final size:14
Alignment explanation
Indices: 81687734--81687775 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
81687724 AACTCAAATA
81687734 AAAACAAAAT-ATT
1 AAAACAAAATAATT
81687747 GAAAACAAAATAATT
1 -AAAACAAAATAATT
81687762 AAAA-AAAATAATT
1 AAAACAAAATAATT
81687775 A
1 A
81687776 GTTGACACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.37
14 14 0.52
15 3 0.11
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAACAAAATAATT
Found at i:81690956 original size:79 final size:80
Alignment explanation
Indices: 81690816--81691000 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
81690806 TTAAATGATG
* *
81690816 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCAATT
81690881 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * * **
81690895 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCAGACTAAGAT-CCGAAGGCA
*
81690957 ATTGTGCGAGTTACTATA
63 ATTGTGCGAGATACTATA
* *
81690975 ACCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
81691001 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:81691007 original size:40 final size:40
Alignment explanation
Indices: 81690816--81691000 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
81690806 TTAAATGATG
* * * *
81690816 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
81690856 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
81690896 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
81690935 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
81690976 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
81691001 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:81691022 original size:79 final size:79
Alignment explanation
Indices: 81690869--81691032 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 79
81690859 AGACTAAGAT
* * **
81690869 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
81690934 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
81690948 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
81691011 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
81691027 CCGAAG
1 CCGAAG
81691033 CTACGTGATT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:81693483 original size:14 final size:14
Alignment explanation
Indices: 81693444--81693476 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
81693434 TCATACATTT
81693444 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
81693458 TATACCCTAAACCA
1 TAAACCCTAAACCA
81693472 TAAAC
1 TAAAC
81693477 TCCAAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:81693595 original size:7 final size:7
Alignment explanation
Indices: 81693583--81693702 Score: 64
Period size: 7 Copynumber: 17.0 Consensus size: 7
81693573 ACTAATTAAT
81693583 CTAAACC
1 CTAAACC
81693590 CTAAACTC
1 CTAAAC-C
* * *
81693598 TTAATCA
1 CTAAACC
81693605 CTAAACC
1 CTAAACC
81693612 CTAAACC
1 CTAAACC
* *
81693619 ATAAATC
1 CTAAACC
*
81693626 CTAAAAC
1 CTAAACC
*
81693633 ATAAACC
1 CTAAACC
*
81693640 CTAAACT
1 CTAAACC
* *
81693647 ATGAACC
1 CTAAACC
* *
81693654 CTTACCC
1 CTAAACC
*
81693661 CTAACCC
1 CTAAACC
81693668 CT-AACAC
1 CTAAAC-C
81693675 CTAAACC
1 CTAAACC
*
81693682 TTAAACC
1 CTAAACC
*
81693689 C-CAACC
1 CTAAACC
81693695 CTTAAACC
1 C-TAAACC
81693703 ACCCTTAAAC
Statistics
Matches: 82, Mismatches: 26, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
6 7 0.09
7 63 0.77
8 12 0.15
ACGTcount: A:0.42, C:0.38, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:81693625 original size:22 final size:20
Alignment explanation
Indices: 81693583--81693644 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 20
81693573 ACTAATTAAT
*
81693583 CTAAACCCTAAACTCTTAATC
1 CTAAACCCTAAAC-CTAAATC
81693604 ACTAAACCCTAAACCATAAATC
1 -CTAAACCCTAAACC-TAAATC
* *
81693626 CTAAAACATAAACCCTAAA
1 CTAAACCCTAAA-CCTAAA
81693645 CTATGAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (20 bp):
CTAAACCCTAAACCTAAATC
Found at i:81694067 original size:40 final size:40
Alignment explanation
Indices: 81694001--81694188 Score: 179
Period size: 40 Copynumber: 4.7 Consensus size: 40
81693991 AAATTCTTTT
* *
81694001 GCGGCGTTTTTTGAAAAA-CGCTGCTAAAGATCGAGCATTA
1 GCGGCGTTTTTT-AAAAAGCGCCGCTAAAGATCAAGCATTA
* * * *
81694041 GCGGCGTTTCTTAAAAAGCGCCGCTAATA-CTCAATCTTTA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAA-AGATCAAGCATTA
* *
81694081 GCGAGC--TTTTTAAAAAACGTCGCTAAAGATCAAGCATTA
1 GCG-GCGTTTTTTAAAAAGCGCCGCTAAAGATCAAGCATTA
* * * * **
81694120 GCGGCGTTTTTTGAAAAGCGCTGCTAATGGTGTA-CATATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAAGCAT-TA
81694160 GCGGCGTTTTTTAAAAAGCGCCGCTAAAG
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAAG
81694189 CCACTAAAGG
Statistics
Matches: 118, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 3 0.03
39 36 0.31
40 76 0.64
41 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAAAGATCAAGCATTA
Found at i:81694162 original size:79 final size:78
Alignment explanation
Indices: 81694001--81694188 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 78
81693991 AAATTCTTTT
* *
81694001 GCGGCGTTTTTTGAAAAACGCTGCTAAAGATCGAGCATTAGCGGCGTTTCTTAAAAAGCGCCGCT
1 GCGGCG-TTTTTAAAAAACGC-GCTAAAGATCAAGCATTAGCGGCGTTTCTTAAAAAGCGCCGCT
*
81694066 AATACTCAATCTTTA
64 AATACTCAATCTATA
* * *
81694081 GCGAGC-TTTTTAAAAAACGTCGCTAAAGATCAAGCATTAGCGGCGTTTTTTGAAAAGCGCTGCT
1 GCG-GCGTTTTTAAAAAACG-CGCTAAAGATCAAGCATTAGCGGCGTTTCTTAAAAAGCGCCGCT
** **
81694145 AATGGTGTA-CATATA
64 AATACTCAATC-TATA
*
81694160 GCGGCGTTTTTTAAAAAGCGCCGCTAAAG
1 GCGGCG-TTTTTAAAAAACG-CGCTAAAG
81694189 CCACTAAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 62 0.68
80 24 0.26
81 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (78 bp):
GCGGCGTTTTTAAAAAACGCGCTAAAGATCAAGCATTAGCGGCGTTTCTTAAAAAGCGCCGCTAA
TACTCAATCTATA
Found at i:81694304 original size:39 final size:40
Alignment explanation
Indices: 81694234--81694325 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 40
81694224 TGATCAAGCA
* *
81694234 TTAGCAACGTTTTTAAAAAAAGCGCCGCTAATACTTGATT-T
1 TTAGCGACGTTTTT-AAAAAAGCGCCGCTAATAC-TCATTCT
* *
81694275 TTAGCGACGTTTTT-AAAAAGTGCTGCTAATACTCATTCT
1 TTAGCGACGTTTTTAAAAAAGCGCCGCTAATACTCATTCT
*
81694314 TTAGCGGCGTTT
1 TTAGCGACGTTT
81694326 AAATGAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 4 0.09
39 28 0.62
41 13 0.29
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (40 bp):
TTAGCGACGTTTTTAAAAAAGCGCCGCTAATACTCATTCT
Found at i:81695138 original size:22 final size:22
Alignment explanation
Indices: 81695108--81695149 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
81695098 AGAGGTTATA
*
81695108 ATGTCAGCTTGTGTGAGCAAAT
1 ATGTCAGCTTGTATGAGCAAAT
*
81695130 ATGTTAGCTTGTATGAGCAA
1 ATGTCAGCTTGTATGAGCAA
81695150 CCATAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (22 bp):
ATGTCAGCTTGTATGAGCAAAT
Found at i:81698001 original size:50 final size:49
Alignment explanation
Indices: 81697896--81698063 Score: 202
Period size: 50 Copynumber: 3.5 Consensus size: 49
81697886 AAGCTAATGC
* * * *
81697896 CATGTCCTAGACAGGTCTTACACTAGCTTGTATAT-TTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTGTATATATTCGAGGCCGATG
81697944 CATGTCCCAGACATGTCTTACACTGGCTTGTATATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTGTATATAT-TCGAGGCCGATG
* * * * *
81697994 CATGTCCCAAACATGTCTTATACTGGCTCT-CATA-A-T-GTGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TGTATATATTCGAGGCCGATG
81698040 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
81698064 AGCACACATA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
46 30 0.28
47 1 0.01
48 32 0.30
49 2 0.02
50 40 0.38
51 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (49 bp):
CATGTCCCAGACATGTCTTACACTGGCTTGTATATATTCGAGGCCGATG
Found at i:81701215 original size:13 final size:12
Alignment explanation
Indices: 81701194--81701232 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
81701184 ATACAAATTC
81701194 TTATAATAAAATA
1 TTAT-ATAAAATA
81701207 TTATGATAAAATA
1 TTAT-ATAAAATA
81701220 TTA-ATAAAATA
1 TTATATAAAATA
81701231 TT
1 TT
81701233 CTAACCAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.40
13 15 0.60
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
TTATATAAAATA
Found at i:81701228 original size:11 final size:11
Alignment explanation
Indices: 81701197--81701232 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
81701187 CAAATTCTTA
81701197 TAATAAAATAT
1 TAATAAAATAT
81701208 TATGATAAAATAT
1 TA--ATAAAATAT
81701221 TAATAAAATAT
1 TAATAAAATAT
81701232 T
1 T
81701233 CTAACCAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
13 11 0.48
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:81704482 original size:34 final size:34
Alignment explanation
Indices: 81704408--81704482 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
81704398 GAGCTATTGG
* * * *
81704408 TGTGTTGGTTGGATATGTTGTTATAAGCCACTAG
1 TGTGTTGGTTGAATATGTTGTTACAAGCCACCAA
*
81704442 TGTGTTGGTTGAATATGTTGTTACAAGTCACCAA
1 TGTGTTGGTTGAATATGTTGTTACAAGCCACCAA
*
81704476 TTTGTTG
1 TGTGTTG
81704483 CATTAGGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (34 bp):
TGTGTTGGTTGAATATGTTGTTACAAGCCACCAA
Found at i:81704598 original size:24 final size:24
Alignment explanation
Indices: 81704508--81704594 Score: 59
Period size: 26 Copynumber: 3.5 Consensus size: 24
81704498 GGTTAACAAG
* *
81704508 TATGATAACGAAAATGTGGCAAAAA
1 TATGATAACG-AAATGTAGTAAAAA
* * *
81704533 TATAAAAAAGGGAAATGTAGTAAAAA
1 TAT-GATAA-CGAAATGTAGTAAAAA
* * *
81704559 TATGATAACGAGATGTTGTTAAAA
1 TATGATAACGAAATGTAGTAAAAA
*
81704583 TATTAT-ACGAAA
1 TATGATAACGAAA
81704595 ATGTGACTTG
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
23 5 0.11
24 17 0.36
25 6 0.13
26 18 0.38
27 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.18, T:0.25
Consensus pattern (24 bp):
TATGATAACGAAATGTAGTAAAAA
Found at i:81705528 original size:23 final size:22
Alignment explanation
Indices: 81705502--81705548 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
81705492 TATTGGTTGC
81705502 GAAA-TATGTTGAGTATGTCTCAA
1 GAAATTAT-TTGAGTA-GTCTCAA
*
81705525 GAAATTATTTGTGTAGTCTCAA
1 GAAATTATTTGAGTAGTCTCAA
81705547 GA
1 GA
81705549 CATGAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 9 0.41
23 10 0.45
24 3 0.14
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (22 bp):
GAAATTATTTGAGTAGTCTCAA
Found at i:81727756 original size:26 final size:26
Alignment explanation
Indices: 81727720--81727773 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
81727710 TTCACCTATC
81727720 TAAGTATTTTAAACATGGTCAAAACA
1 TAAGTATTTTAAACATGGTCAAAACA
81727746 TAAGTATTTTAAACATGGTCAAAACA
1 TAAGTATTTTAAACATGGTCAAAACA
81727772 TA
1 TA
81727774 CCTATACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (26 bp):
TAAGTATTTTAAACATGGTCAAAACA
Found at i:81729106 original size:28 final size:28
Alignment explanation
Indices: 81729046--81729165 Score: 150
Period size: 28 Copynumber: 4.2 Consensus size: 28
81729036 ATCCATACTT
* * *
81729046 ATTCATTTGGCCCTTTCAGGCCCAATCTC
1 ATTCATATGGCCC-ATCAGGCCCAATCAC
* * *
81729075 ATTCGTATGGCCCATCGGGCCCAATCAA
1 ATTCATATGGCCCATCAGGCCCAATCAC
*
81729103 ATTCATATGGCCCATTAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
* *
81729131 TTTCATATGGCCCGTCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
81729159 ATTCATA
1 ATTCATA
81729166 GTCATGCAAT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 66 0.86
29 11 0.14
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:81729383 original size:16 final size:16
Alignment explanation
Indices: 81729359--81729395 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
81729349 TTAGCCAAAC
* *
81729359 TTTCGGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
81729375 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
81729391 TTTCA
1 TTTCA
81729396 AAATTTACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:81738288 original size:28 final size:28
Alignment explanation
Indices: 81738229--81738313 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
81738219 ATCCATACTT
* * *
81738229 ATTCATTTGGCCCCTTCAGGCCCAATCTC
1 ATTCATATGG-CCCATCAGGCCCAATCAC
*
81738258 ATTCATATGGCCCATCGGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
* *
81738286 ATTCATATGGCCCATTAGGCCTAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
81738314 TTTTGTAGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 40 0.82
29 9 0.18
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:81738554 original size:22 final size:21
Alignment explanation
Indices: 81738500--81738559 Score: 79
Period size: 19 Copynumber: 2.9 Consensus size: 21
81738490 AATCTTTAGG
81738500 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
81738519 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
* *
81738540 GATATTGTAATCTTGGAGAT
1 GATA-TGCAATCTTGAAGAT
81738560 TTAATTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 13 0.36
21 10 0.28
22 13 0.36
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:81740092 original size:17 final size:18
Alignment explanation
Indices: 81740070--81740103 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
81740060 TGCCTATTAT
81740070 GGGCCC-TATAGCCCATC
1 GGGCCCATATAGCCCATC
*
81740087 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
81740104 TCTGCCCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.21
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:81743532 original size:34 final size:34
Alignment explanation
Indices: 81743457--81743532 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
81743447 GCATGATTGC
*
81743457 TACTGATACTGTGATGGGCTAAGGCCCTAATGTA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
* *
81743491 TACTGATACTGTGATGGGCTAAGGCCTTACTGCA
1 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
*
81743525 TATTGATA
1 TACTGATA
81743533 TTGTATTGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (34 bp):
TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
Found at i:81744292 original size:22 final size:23
Alignment explanation
Indices: 81744267--81744312 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
81744257 CAACCAAACC
81744267 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
81744289 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
81744312 A
1 A
81744313 CGCCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:81747361 original size:25 final size:24
Alignment explanation
Indices: 81747308--81747372 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
81747298 TATGCTATTT
*
81747308 TGAAACTACTATAGTTAGTATACTG
1 TGAAAATACTATAGTTAGTATAC-G
*
81747333 TGAAAATACTCTAGTTAGTACATAC-
1 TGAAAATACTATAGTTAGT--ATACG
81747358 TG-AAA-ACTATAGTTA
1 TGAAAATACTATAGTTA
81747373 AACTGAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 9 0.26
24 3 0.09
25 19 0.54
27 4 0.11
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (24 bp):
TGAAAATACTATAGTTAGTATACG
Found at i:81750858 original size:26 final size:26
Alignment explanation
Indices: 81750822--81750875 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
81750812 GGAAATAAGA
81750822 TGTACCAAGACCTTCATGAGTTATAT
1 TGTACCAAGACCTTCATGAGTTATAT
*
81750848 TGTACCAAGACCTTCGTGAGTTATAT
1 TGTACCAAGACCTTCATGAGTTATAT
81750874 TG
1 TG
81750876 GTGGCTAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
TGTACCAAGACCTTCATGAGTTATAT
Found at i:81756124 original size:22 final size:22
Alignment explanation
Indices: 81756099--81756149 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
81756089 ATCTATAACA
81756099 TCACATTTAGCTTAATAATTAG
1 TCACATTTAGCTTAATAATTAG
81756121 TCACATTTAGCTTAATAATTAG
1 TCACATTTAGCTTAATAATTAG
81756143 TCACATT
1 TCACATT
81756150 ATTCATTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (22 bp):
TCACATTTAGCTTAATAATTAG
Found at i:81757824 original size:34 final size:35
Alignment explanation
Indices: 81757775--81757852 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
81757765 GCATGACTGC
81757775 TACTGATA-TTGTGATGAGCTAAAGCCCTA-ATACA
1 TACTGATACTTGTGATGAGCTAAAGCCCTACA-ACA
* *
81757809 TACTGATACTT-TGATGGGCTAAGGCCCTACAACA
1 TACTGATACTTGTGATGAGCTAAAGCCCTACAACA
*
81757843 TATTGATACT
1 TACTGATACT
81757853 GTATTGAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 36 0.92
35 3 0.08
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (35 bp):
TACTGATACTTGTGATGAGCTAAAGCCCTACAACA
Found at i:81759024 original size:45 final size:45
Alignment explanation
Indices: 81758935--81759049 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 45
81758925 CCGGTATTTC
* * *
81758935 GCCTGCTAGGCTC-AAGGCTCG-ATATCATGTCACCGACATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATATCATCTCACCGACATAATA
* *
81758978 GCCTACTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATAATA
1 GCCTGCTAGGCTCAAAGGCCCGAATA-TCATCTCACCGACATAATA
*
81759023 GCCTGCTAGGCTCAAAGGCCTGAATAT
1 GCCTGCTAGGCTCAAAGGCCCGAATAT
81759050 AATACCAGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
43 12 0.19
44 8 0.13
45 41 0.66
46 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATATCATCTCACCGACATAATA
Found at i:81759089 original size:38 final size:38
Alignment explanation
Indices: 81759046--81759164 Score: 159
Period size: 38 Copynumber: 3.1 Consensus size: 38
81759036 AAAGGCCTGA
* *
81759046 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
*
81759084 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* *
81759122 ATATATTACCAGCA-TGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACT-AAGCCTGCGGG-ATTTAA-CCCGG
81759162 ATA
1 ATA
81759165 CACATCAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
Found at i:81774396 original size:32 final size:32
Alignment explanation
Indices: 81774360--81774425 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
81774350 TCAAAATGAT
81774360 AACTA-GATATAAACTAAAATAAATTTAGAAAA
1 AACTATGATATAAACTAAAATAAATTTA-AAAA
* * * *
81774392 AACTATTATTTAAGCTAAAATAATTTTAAAAA
1 AACTATGATATAAACTAAAATAAATTTAAAAA
81774424 AA
1 AA
81774426 TTCATGGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (32 bp):
AACTATGATATAAACTAAAATAAATTTAAAAA
Found at i:81776314 original size:2 final size:2
Alignment explanation
Indices: 81776307--81776331 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
81776297 TTCAAAAAGT
81776307 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
81776332 TCATATCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81780204 original size:24 final size:24
Alignment explanation
Indices: 81780107--81780210 Score: 77
Period size: 24 Copynumber: 4.3 Consensus size: 24
81780097 CCATTTAATG
* * *
81780107 GGAAGCTCAAGTGAGCCATGTAACA
1 GGAAGCTCATGCGAGCCA-ATAACA
* * * *
81780132 GGAAGCTTATTCG-GGCTATAACA
1 GGAAGCTCATGCGAGCCAATAACA
** *
81780155 GGAAGCTCATAAGAGCCTAA-ATCA
1 GGAAGCTCATGCGAGCC-AATAACA
81780179 GGAAGCTCATGCGAGCCAATAACA
1 GGAAGCTCATGCGAGCCAATAACA
*
81780203 GGTAGCTC
1 GGAAGCTC
81780211 CGAAGAGCCA
Statistics
Matches: 59, Mismatches: 17, Indels: 7
0.71 0.20 0.08
Matches are distributed among these distances:
23 17 0.29
24 32 0.54
25 10 0.17
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATGCGAGCCAATAACA
Found at i:81784262 original size:29 final size:29
Alignment explanation
Indices: 81784218--81784304 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
81784208 TGAGACACTA
* *
81784218 TGTGCCGGTGATTACAGTTATTAGGTACTT
1 TGTGCCAGTG-TTACAGTTATCAGGTACTT
* *
81784248 TGTGCTAGTGTTACAGTTATCAGGCACTT
1 TGTGCCAGTGTTACAGTTATCAGGTACTT
* *
81784277 TGTGCCAGTGTTATAATTATCAGGTACT
1 TGTGCCAGTGTTACAGTTATCAGGTACT
81784305 ATGTACTGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 41 0.84
30 8 0.16
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (29 bp):
TGTGCCAGTGTTACAGTTATCAGGTACTT
Found at i:81788876 original size:110 final size:113
Alignment explanation
Indices: 81788683--81789141 Score: 412
Period size: 124 Copynumber: 3.9 Consensus size: 113
81788673 CATTACTTCA
* * *
81788683 GGCCCCAAGGCTATTCCCACAGGCATTCAAGAATGAATGATTGGTCAACTCACC-TCT-TAAAGT
1 GGCCCCAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTTCTAT-AA-T
* * * *
81788746 GATTCA-AATGAGAGGCATGTTTCCAAATTACGA-TAGCCTTAAGG-AG-T
64 GAGT-AGAATGAGAGGCATGTTTCCAAATTACGAGCAGACTCAAGGAAGCT
* *
81788793 GGCCCCAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTAATCTACTCACCTTCTATAATGA
1 GGCCCCAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTTCTATAATGA
* *
81788858 GTAGAATAAGAGGCATGTTTCCAGATTACGAGCAGACTCAAGGAAAGCCCACT
66 GTAGAATGAGAGGCATGTTTCCAAATTACGAGCAGACTCAAGG-AAG----CT
* * * *
81788911 AGCTCAGGTCCAAAGGCTACTCCCACAAGTATTCAAGAACGAATGATTGATCAACTCACCTCCTA
1 GGC-C----CC-AAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTTCTA
* *
81788976 TAATGAGTCGAATGAGAGGCATGTTGCCAAATTACGAGCAGACTCAATGAGTGCTCACTAGCT
60 TAATGAGTAGAATGAGAGGCATGTTTCCAAATTACGAGCAGACTC-A--AG-G---A--AGCT
* *
81789039 CAAGCCCCAAGTCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACC-TCT-TACA
1 --GGCCCCAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTTCTATA-A
* * * *
81789102 TTGAGTCGAATGAGAGGCATATTGCCAAATTATGAGCAGA
63 -TGAGTAGAATGAGAGGCATGTTTCCAAATTACGAGCAGA
81789142 GACCAAGGTT
Statistics
Matches: 292, Mismatches: 28, Indels: 44
0.80 0.08 0.12
Matches are distributed among these distances:
109 1 0.00
110 78 0.27
111 13 0.04
112 1 0.00
113 2 0.01
118 3 0.01
119 1 0.00
122 2 0.01
123 5 0.02
124 171 0.59
125 3 0.01
127 2 0.01
128 3 0.01
129 1 0.00
130 4 0.01
132 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (113 bp):
GGCCCCAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTTCTATAATGA
GTAGAATGAGAGGCATGTTTCCAAATTACGAGCAGACTCAAGGAAGCT
Found at i:81789019 original size:124 final size:124
Alignment explanation
Indices: 81788794--81789141 Score: 489
Period size: 124 Copynumber: 2.8 Consensus size: 124
81788784 TTAAGGAGTG
* * * *
81788794 GCCCCAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTAATCTACTCACCTTCTATAATGAG
1 GCCCAAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTCCTATAATGAG
* * * * *
81788859 TAGAATAAGAGGCATGTTTCCAGATTACGAGCAGACTCAAGGAAAGCCCACTAGCTCAG
66 TCGAATGAGAGGCATGTTGCCAAATTACGAGCAGACTCAAGGAAAGCCCACTAGCTCAA
* * *
81788918 GTCCAAAGGCTACTCCCACAAGTATTCAAGAACGAATGATTGATCAACTCACCTCCTATAATGAG
1 GCCCAAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTCCTATAATGAG
* ** *
81788983 TCGAATGAGAGGCATGTTGCCAAATTACGAGCAGACTCAATGAGTGCTCACTAGCTCAA
66 TCGAATGAGAGGCATGTTGCCAAATTACGAGCAGACTCAAGGAAAGCCCACTAGCTCAA
* * * * *
81789042 GCCCCAAGTCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTCTTACATTGAG
1 GCCCAAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTCCTATAATGAG
* *
81789107 TCGAATGAGAGGCATATTGCCAAATTATGAGCAGA
66 TCGAATGAGAGGCATGTTGCCAAATTACGAGCAGA
81789142 GACCAAGGTT
Statistics
Matches: 198, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
124 198 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (124 bp):
GCCCAAAGGCTATTCCCACAAGCATTCAAGAACGAATGATTGATCAACTCACCTCCTATAATGAG
TCGAATGAGAGGCATGTTGCCAAATTACGAGCAGACTCAAGGAAAGCCCACTAGCTCAA
Found at i:81791619 original size:19 final size:18
Alignment explanation
Indices: 81791575--81791624 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
81791565 GAGTTAGACG
* *
81791575 AATCGAGTTATTCGAATT
1 AATCGAATTATTCGAATC
*
81791593 AATCGAATTATTCGAGTC
1 AATCGAATTATTCGAATC
81791611 AACTCGAATTATTC
1 AA-TCGAATTATTC
81791625 AAATTTGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (18 bp):
AATCGAATTATTCGAATC
Found at i:81791648 original size:19 final size:19
Alignment explanation
Indices: 81791624--81791660 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
81791614 TCGAATTATT
81791624 CAAATTTGATTACAGTGGA
1 CAAATTTGATTACAGTGGA
81791643 CAAATTTGATTACAGTGG
1 CAAATTTGATTACAGTGG
81791661 TGATAGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACAGTGGA
Found at i:81799541 original size:19 final size:20
Alignment explanation
Indices: 81799496--81799556 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
81799486 GCGCAAACTT
* *
81799496 GCCTTTTACAGTTATAGCTA
1 GCCTTTTACGGCTATAGCTA
*
81799516 ACCTTTTACGGCTATAGC-A
1 GCCTTTTACGGCTATAGCTA
*
81799535 GCCTTTTACGGCTACAGCTA
1 GCCTTTTACGGCTATAGCTA
81799555 GC
1 GC
81799557 TTATTCAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (20 bp):
GCCTTTTACGGCTATAGCTA
Found at i:81800885 original size:63 final size:63
Alignment explanation
Indices: 81800786--81800911 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
81800776 GTCCTTTCTG
* ***
81800786 TTTTAGTCAGATTCTACCCAACTTATATGGTCGATTGACTCTCAGACCATCAACTAGTGCATA
1 TTTTAGACAGATTCTACCCAACTTATACAATCGATTGACTCTCAGACCATCAACTAGTGCATA
* *
81800849 TTTTAGACGGATTCTACCCAACTTCTACAATCGATTGACTCTCAGACCATCAACTAGTGCATA
1 TTTTAGACAGATTCTACCCAACTTATACAATCGATTGACTCTCAGACCATCAACTAGTGCATA
81800912 ACCAAAGGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (63 bp):
TTTTAGACAGATTCTACCCAACTTATACAATCGATTGACTCTCAGACCATCAACTAGTGCATA
Found at i:81804456 original size:22 final size:23
Alignment explanation
Indices: 81804430--81804483 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
81804420 AGTAATAATT
81804430 TTATTTATATAT-AC-TATTTATA
1 TTATTTATATATCACAT-TTTATA
* *
81804452 TTA-TTAAATTTCACATTTTATA
1 TTATTTATATATCACATTTTATA
81804474 TTATTTATAT
1 TTATTTATAT
81804484 TATTGAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 6 0.23
22 14 0.54
23 6 0.23
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATTTATATATCACATTTTATA
Found at i:81807270 original size:21 final size:21
Alignment explanation
Indices: 81807233--81807272 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
81807223 AAAGGTTAAA
*
81807233 TAAGTAAATGAATAAATAAGC
1 TAAGTAAATGAAAAAATAAGC
81807254 TAAGTAAACT-AAAAAATAA
1 TAAGTAAA-TGAAAAAATAA
81807273 CAAAATGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (21 bp):
TAAGTAAATGAAAAAATAAGC
Found at i:81812747 original size:19 final size:19
Alignment explanation
Indices: 81812725--81812778 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
81812715 ATATGTTAAA
81812725 AATAAATAAATATTTTTAT
1 AATAAATAAATATTTTTAT
*
81812744 AATAAAT-TATATATTTTAT
1 AATAAATAAATAT-TTTTAT
81812763 AATTAAAATAAATATT
1 AA-T-AAATAAATATT
81812779 ATTTTTCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 4 0.14
19 15 0.52
20 1 0.03
21 5 0.17
22 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAAATAAATATTTTTAT
Found at i:81812975 original size:13 final size:13
Alignment explanation
Indices: 81812957--81812981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81812947 GAGTAAGTAT
81812957 GTAAATATTATTC
1 GTAAATATTATTC
81812970 GTAAATATTATT
1 GTAAATATTATT
81812982 ATTTAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
GTAAATATTATTC
Found at i:81814624 original size:22 final size:22
Alignment explanation
Indices: 81814599--81814641 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
81814589 TATCCAAACA
81814599 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
81814621 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
81814642 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:81814645 original size:11 final size:11
Alignment explanation
Indices: 81814606--81814646 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
81814596 ACAATAACAA
81814606 CAAAATAGTAG
1 CAAAATAGTAG
* *
81814617 CAACATAATAG
1 CAAAATAGTAG
*
81814628 TAAAATAGTAG
1 CAAAATAGTAG
81814639 CAAAATAG
1 CAAAATAG
81814647 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:81815311 original size:26 final size:26
Alignment explanation
Indices: 81815282--81815390 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
81815272 TGGTACAAAT
81815282 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
81815308 TGATAATGTATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
81815334 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
81815360 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
81815386 TGATA
1 TGATA
81815391 GGCCTTTCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:81820974 original size:27 final size:27
Alignment explanation
Indices: 81820943--81821120 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
81820933 TAAATTGTAC
81820943 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
81820970 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
81820996 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
81821024 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGACTATGT
* *
81821052 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * * *
81821079 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
81821106 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
81821121 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:81821004 original size:54 final size:55
Alignment explanation
Indices: 81820943--81821120 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
81820933 TAAATTGTAC
* *
81820943 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
* * * ** *
81820998 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGGGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGC-GAATTGAATATGAT
* * * * *
81821052 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAATGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
*
81821106 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
81821121 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
54 60 0.59
55 42 0.41
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
Found at i:81821111 original size:82 final size:82
Alignment explanation
Indices: 81820940--81821122 Score: 217
Period size: 82 Copynumber: 2.2 Consensus size: 82
81820930 GATTAAATTG
* * *
81820940 TACAGCACTAAGTGTGC-GATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
*
81821004 AGTGTGCGAATTGACCA
66 AATGTGCGAATTGACCA
* * ** *
81821021 TGCGGCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
81821085 AAATGTGCGAGTTGATTA
65 AAATGTGCGAATTGACCA
* *
81821103 TATAGCACTGAGTGTGCGGG
1 TACAGCACTAAGTGTGCGGG
81821123 CTCAATATAC
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
81 16 0.19
82 68 0.81
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (82 bp):
TACAGCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
AATGTGCGAATTGACCA
Found at i:81825268 original size:7 final size:7
Alignment explanation
Indices: 81825258--81825325 Score: 61
Period size: 7 Copynumber: 10.1 Consensus size: 7
81825248 AATAATAAAT
81825258 AAAAAGG
1 AAAAAGG
81825265 AAAAAGG
1 AAAAAGG
*
81825272 AAGAA-G
1 AAAAAGG
* *
81825278 AAGAAGA
1 AAAAAGG
81825285 AAAAAGG
1 AAAAAGG
*
81825292 GAAAAGG
1 AAAAAGG
*
81825299 GAAAAGG
1 AAAAAGG
*
81825306 GAAAA-G
1 AAAAAGG
81825312 AAAAA-G
1 AAAAAGG
81825318 AAAAAGG
1 AAAAAGG
81825325 A
1 A
81825326 GAGGCCAAGG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
6 17 0.32
7 36 0.68
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:81826416 original size:87 final size:89
Alignment explanation
Indices: 81826306--81826466 Score: 227
Period size: 87 Copynumber: 1.8 Consensus size: 89
81826296 TACAAATTAC
* * * * * * * *
81826306 AAATCTTATCTCCCTGAATTTGCATTGGAGCAGATTGAAG-T-TAGATCTTATCTCCCTGAAGTT
1 AAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTT
81826369 ACAGTGGAGTAGATCAGAGATAGT
66 ACAGTGGAGTAGATCAGAGATAGT
*
81826393 AAATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTT
1 AAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTT
81826458 ACAGTGGAG
66 ACAGTGGAG
81826467 CAGGTTAAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 34 0.54
88 1 0.02
89 28 0.44
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (89 bp):
AAATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTT
ACAGTGGAGTAGATCAGAGATAGT
Found at i:81826638 original size:229 final size:229
Alignment explanation
Indices: 81826350--81826937 Score: 802
Period size: 229 Copynumber: 2.6 Consensus size: 229
81826340 TTGAAGTTAG
* * * * * *
81826350 ATCTTATCTCCCTGAAGTTACAGTGGAGTAGA-TCAGAGATAGTAAATCCTATCTCTCTGAAGTT
1 ATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTGA-AG-T--TAGATCTTATCTCTCTGAAGTT
* **
81826414 GCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTAAAGTT
62 GCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTT
* ** *
81826479 ATAACAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTATTTCCCT
127 ACAACAAGTCTTATCTCCAAGAAGTTACAGTGGAGCAGACTGAAGATGACGAATCTTATTTCCCT
81826544 GAAGTTGCAATGGAACAGATTAAAGCTACAAATTACAA
192 GAAGTTGCAATGGAACAGATTAAAGCTACAAATTACAA
* *
81826582 ATCTTATCTCCCTGACA-TTTCAGTAGAGCAGATTGAAGTTAGATCTTATCTCTCTGAAGTTGCA
1 ATCTTATCTCCCT-AAAGTTACAGTAGAGCAGATTGAAGTTAGATCTTATCTCTCTGAAGTTGCA
* * *
81826646 GTAGAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTACA
65 GTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTTACA
* ** * * *
81826711 ACAAGTCTTATCTCCAAGAATTTGTAGTGGAGCAGATTGAAGGTGGCGAATCTTATTTCCCTGAA
130 ACAAGTCTTATCTCCAAGAAGTTACAGTGGAGCAGACTGAAGATGACGAATCTTATTTCCCTGAA
* *
81826776 GTTGTAGTGGAACAGATTAAAGCTACAAATTACAA
195 GTTGCAATGGAACAGATTAAAGCTACAAATTACAA
* * *
81826811 ATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTTAGATCTTATCTCTCTGAAGTTGCAA
1 ATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAGTTAGATCTTATCTCTCTGAAGTTGCAG
** * * * *
81826876 TAGAGCAGATTAAAGCTGCAAATCTTATCTCCATGAAGTTGTAGTGAAGCAGATTAAAGTTA
66 TAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTTA
81826938 GATCTTATCT
Statistics
Matches: 313, Mismatches: 40, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
228 2 0.01
229 280 0.89
231 1 0.00
232 27 0.09
233 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (229 bp):
ATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTGAAGTTAGATCTTATCTCTCTGAAGTTGCAG
TAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTTACAA
CAAGTCTTATCTCCAAGAAGTTACAGTGGAGCAGACTGAAGATGACGAATCTTATTTCCCTGAAG
TTGCAATGGAACAGATTAAAGCTACAAATTACAA
Found at i:81826774 original size:274 final size:273
Alignment explanation
Indices: 81826214--81827081 Score: 716
Period size: 274 Copynumber: 3.2 Consensus size: 273
81826204 CATGGCGAAC
* ** * * * **
81826214 CTTATCTCCCTAAAGTTGTAGTGGAGCAAACTGAAGAT-AGTGGGTCTTATTTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATGA-CGAATCTTATTTCCCTGAAGTTGC
* *
81826278 AATGGAACAGATTAAAGCTACAAATTACAAATCTTATCTCCCTGAATTTGCATTGGAGCAGATTG
65 AATGGAACAGATTAAAGCTACAAATTACAAATCTTATCTCCCTGAATTTGCAGTAGAGCAGATTG
* * * * *
81826343 AAGTTAGATCTTATCTCCCTGAAGTTACAGTGGAGTAGATCAGAGATAGTAAATCCTATCTCTCT
130 AAGTTAGATCTTATCTCCCTGAAGTTACAGTAGAGCAAATCAAAGATAGTAAATCCTATCTCCCT
* * *
81826408 GAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTT
195 GAAGTTGCAGTAGAGCAGATTAAAGCTAAAAACCTTATCTCCCAAAAGTTACAGTGGAGCAGATT
81826473 AAAGTTATAACAAGT
260 AAAG-TATAACAAGT
81826488 CTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTATTTCCCTGAAGTTGCA
81826553 ATGGAACAGATTAAAGCTACAAATTACAAATCTTATCTCCCTGACATTT-CAGTAGAGCAGATTG
66 ATGGAACAGATTAAAGCTACAAATTACAAATCTTATCTCCCTGA-ATTTGCAGTAGAGCAGATTG
* * * *
81826617 AAGTTAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCTA-TAAA-CCTTATCTCCC
130 AAGTTAGATCTTATCTCCCTGAAGTTACAGTAGAGCAAATCAAAGATAGTAAATCC-TATCTCCC
* * * * * * * * **
81826680 TGAAGTTGTAGTGGAGTAGGTTGAAGTTACAACAAGTCTTATCT-CCAAGAATTTGTAGTGGAGC
194 TGAAGTTGCAGTAGAGCAGATTAAAGCTA-AA-AA-CCTTATCTCCCAA-AAGTTACAGTGGAGC
* * **
81826744 AGATTGAAG-GTGGCGAA-T
255 AGATTAAAGTATAAC-AAGT
* ** * * * * * *
81826762 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCT-ACAAATTACAAATCTTATCTCCCTAA
1 CTTATCTCCCTGAAGTTACAGTGG---AG--TAGA-CTGA-AGATGACGAATCTTATTTCCCTGA
* * ** * * * * *
81826826 AGTTACAGTGGAGTAGATT---G----AAGTT--AGATCTTATCTCTCTGAAGTTGCAATAGAGC
59 AGTTGCAATGGAACAGATTAAAGCTACAAATTACAAATCTTATCTCCCTGAATTTGCAGTAGAGC
* * * * ** * * * *
81826882 AGATTAAAGCTGCAAATCTTATCTCCATGAAGTTGTAGT-GAAGCAGATTAAAG-T--TAGATCT
124 AGATTGAAG-T-TAGATCTTATCTCCCTGAAGTTACAGTAG-AGCAAATCAAAGATAGTAAATCC
* * * *** *
81826943 TATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCTTGAAGTTGCAGTG
186 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTAAAAACCTTATCTCCCAAAAGTTACAGTG
* * *
81827008 GAGCAGGTTGAAGTTACAACAAGT
251 GAGCAGATTAAAG-TATAACAAGT
* * *
81827032 CTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAGATGGCGAATCTTAT
1 CTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTAT
81827082 CTCTTTAAAG
Statistics
Matches: 478, Mismatches: 91, Indels: 60
0.76 0.14 0.10
Matches are distributed among these distances:
264 14 0.03
265 4 0.01
267 2 0.00
268 28 0.06
269 5 0.01
270 27 0.06
271 63 0.13
272 6 0.01
273 71 0.15
274 177 0.37
275 12 0.03
276 26 0.05
277 3 0.01
279 4 0.01
280 36 0.08
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (273 bp):
CTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTATTTCCCTGAAGTTGCA
ATGGAACAGATTAAAGCTACAAATTACAAATCTTATCTCCCTGAATTTGCAGTAGAGCAGATTGA
AGTTAGATCTTATCTCCCTGAAGTTACAGTAGAGCAAATCAAAGATAGTAAATCCTATCTCCCTG
AAGTTGCAGTAGAGCAGATTAAAGCTAAAAACCTTATCTCCCAAAAGTTACAGTGGAGCAGATTA
AAGTATAACAAGT
Found at i:81826782 original size:45 final size:46
Alignment explanation
Indices: 81826304--81827067 Score: 218
Period size: 44 Copynumber: 16.9 Consensus size: 46
81826294 GCTACAAATT
* * * * *
81826304 ACAAATCTTATCTCCCTGAATTTGCATTGGAGCAGATTGAAGT--T
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTGAC
* ** * * * *
81826348 A-GA-TCTTATCTCCCTGAAGTTACAGTGGAGTAGA-T-CAGAGAT
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTGAC
* * * * * * * *
81826390 AGTAAATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCT-AT
1 A-CAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-TGAC
* * ** * * * *
81826437 A-AA-CCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTAAAGTTATA
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTGA-C
** * *
81826482 ACAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATGAC
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-TGAC
* * * * * *
81826529 -GAA-TCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCT-AC
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-TGAC
* * *
81826573 AAATTACAAATCTTATCTCCCTGACA-TT-TCAGTAGAGCAGATTGAAGT--T
1 -----ACAAGTCTTATCTCCCTGA-AGTTGT-AGTGGAGCAGATTGAAGTGAC
* * * * * * *
81826622 A-GA-TCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCT-AT
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-TGAC
* * * *
81826666 A-AA-CCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTAC
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTGAC
** * *
81826710 AACAAGTCTTATCTCCAAGAATTTGTAGTGGAGCAGATTGAAGGTGGC
1 -ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAA-GTGAC
* * * *
81826758 -GAA-TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCT-AC
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-TGAC
* * ** * *
81826802 AAATTACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGT--T
1 -----ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTGAC
* * * * * *
81826851 A-GA-TCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTG-C
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-TGAC
* * * *
81826895 A-AA-TCTTATCTCCATGAAGTTGTAGTGAAGCAGATTAAAGT--T
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTGAC
* * * * * * *
81826937 A-GA-TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCT-AT
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-TGAC
* * * * *
81826981 A-AA-CCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTAC
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTGAC
* * * *
81827025 AACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAAG
1 -ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG
81827068 ATGGCGAATC
Statistics
Matches: 546, Mismatches: 127, Indels: 91
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.00
41 2 0.00
42 122 0.22
43 10 0.02
44 139 0.25
45 93 0.17
46 11 0.02
47 97 0.18
48 5 0.01
50 6 0.01
51 58 0.11
52 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (46 bp):
ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTGAC
Found at i:81826890 original size:93 final size:89
Alignment explanation
Indices: 81826760--81827023 Score: 252
Period size: 86 Copynumber: 3.0 Consensus size: 89
81826750 AAGGTGGCGA
* * * * * *
81826760 ATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATTACAAATCTTATCTCCCTA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAC----TACAAATCTTATCTCCATA
* * *
81826825 AAGTTACAGTGGAGTAGATTGAAGTTAG
62 AAGTTACAGTGAAGCAGATTAAAGTTAG
* * *
81826853 ATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAG---CTGCAAATCTTATCTCCATGAAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACTACAAATCTTATCTCCATAAAGT
**
81826915 TGTAGTGAAGCAGATTAAAGTTAG
66 TACAGTGAAGCAGATTAAAGTTAG
* * * *
81826939 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTA-T--AAACCTTATCTCCTTGAAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACTACAAATCTTATCTCCATAAAGT
* * * *
81827001 TGCAGTGGAGCAGGTTGAAGTTA
66 TACAGTGAAGCAGATTAAAGTTA
81827024 CAACAAGTCT
Statistics
Matches: 146, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
86 112 0.77
88 1 0.01
90 1 0.01
93 32 0.22
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (89 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACTACAAATCTTATCTCCATAAAGT
TACAGTGAAGCAGATTAAAGTTAG
Found at i:81826941 original size:315 final size:320
Alignment explanation
Indices: 81826482--81827081 Score: 858
Period size: 315 Copynumber: 1.9 Consensus size: 320
81826472 TAAAGTTATA
* * *
81826482 ACAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTATTTCCCTGAA
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTATCTCCCTGAA
* *
81826547 GTTGCAATGGAACAGATTAAAGCTACAAATTACAAATCTTATCTCCCTGACATTTCAGTAGAGCA
66 GTTGCAATAGAACAGATTAAAG--AC--A-TACAAATCTTATCTCCATGACATTTCAGTAGAGCA
* *
81826612 GATTGAAGTTAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCTATAAACCTTATCT
126 GATTAAAGTTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTAAAGCTATAAACCTTATCT
* * * *
81826677 CCCTGAAGTTGTAGTGGAGTAGGTTGAAGTTACAACAAGTCTTATC-TCCAAGAATTTGTAGTGG
191 CCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAACAAGTCTTATCTTCC-AGAAGTTGCAGTGG
* *
81826741 AGCAGATTGAAGGTGGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAAT
255 AGCAGACTGAAGATGGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAAT
81826806 T
320 T
* * *
81826807 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAG-TTA-G-ATCTTATCTCTCTGAA
1 ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTATCTCCCTGAA
* *
81826869 GTTGCAATAGAGCAGATTAAAG-C-TGCAAATCTTATCTCCATGA-AGTTGT-AGT-GAAGCAGA
66 GTTGCAATAGAACAGATTAAAGACATACAAATCTTATCTCCATGACA-TT-TCAGTAG-AGCAGA
*
81826929 TTAAAGTTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCC
128 TTAAAGTTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTAAAGCTATAAACCTTATCTCC
* * *
81826994 TTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAACAAGTCTTATCTTCCTGAAGTTGCAGTGGAGT
193 CTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAACAAGTCTTATCTTCCAGAAGTTGCAGTGGAGC
81827059 AGACTGAAGATGGCGAATCTTAT
258 AGACTGAAGATGGCGAATCTTAT
81827082 CTCTTTAAAG
Statistics
Matches: 249, Mismatches: 22, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
314 2 0.01
315 166 0.67
316 4 0.02
319 1 0.00
322 34 0.14
323 1 0.00
324 2 0.01
325 39 0.16
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (320 bp):
ACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGACTGAAGATGACGAATCTTATCTCCCTGAA
GTTGCAATAGAACAGATTAAAGACATACAAATCTTATCTCCATGACATTTCAGTAGAGCAGATTA
AAGTTAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTAAAGCTATAAACCTTATCTCCCTG
AAGTTGCAGTGGAGCAGGTTGAAGTTACAACAAGTCTTATCTTCCAGAAGTTGCAGTGGAGCAGA
CTGAAGATGGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATT
Found at i:81826957 original size:86 final size:86
Alignment explanation
Indices: 81826806--81827023 Score: 310
Period size: 86 Copynumber: 2.5 Consensus size: 86
81826796 AGCTACAAAT
* * * * *
81826806 TACAAATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTTAGATCTTATCTCTCTGAAGT
1 TACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGTTAGATCTTATCTCTCTAAAGT
81826871 TGCAATAGAGCAGATTAAAGC
66 TGCAATAGAGCAGATTAAAGC
* * * *
81826892 TGCAAATCTTATCTCCATGAAGTTGTAGTGAAGCAGATTAAAGTTAGATCTTATCTCTCTAAAGT
1 TACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGTTAGATCTTATCTCTCTAAAGT
*
81826957 TGCAGTAGAGCAGATTAAAGC
66 TGCAATAGAGCAGATTAAAGC
* * * *
81826978 TATAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTA
1 TACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGTTA
81827024 CAACAAGTCT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 114 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (86 bp):
TACAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTGAAGTTAGATCTTATCTCTCTAAAGT
TGCAATAGAGCAGATTAAAGC
Found at i:81836324 original size:35 final size:35
Alignment explanation
Indices: 81836265--81836336 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
81836255 GTCTAGGATC
*
81836265 GCATATCTTTGAAGATCCCCTTCCATA-TTTGCCAA
1 GCATATCTTTGAAGATCACCTTCCATAGTTT-CCAA
* *
81836300 GCATATCTTTGAAGATTACTTTCCATAGTTTCCAA
1 GCATATCTTTGAAGATCACCTTCCATAGTTTCCAA
81836335 GC
1 GC
81836337 TTCGGAGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.36
Consensus pattern (35 bp):
GCATATCTTTGAAGATCACCTTCCATAGTTTCCAA
Found at i:81840722 original size:25 final size:25
Alignment explanation
Indices: 81840694--81840768 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
81840684 AAATTGGTAT
81840694 GCTCTCACGAGCTGAGAATCAGTAA
1 GCTCTCACGAGCTGAGAATCAGTAA
81840719 GCTCTCACGAGCTGAGAATCAGTAA
1 GCTCTCACGAGCTGAGAATCAGTAA
*
81840744 GCTCAT-ACGAGCTGAGAATCGGTAA
1 GCTC-TCACGAGCTGAGAATCAGTAA
81840769 CCCTAATGAC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (25 bp):
GCTCTCACGAGCTGAGAATCAGTAA
Found at i:81849508 original size:5 final size:5
Alignment explanation
Indices: 81849498--81849537 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
81849488 TTCAAGATTG
* *
81849498 CATAT CATAT CATAT CATAT C-TAA GATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
81849538 TAAGACTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 2 0.07
5 28 0.93
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:81849528 original size:19 final size:19
Alignment explanation
Indices: 81849504--81849542 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
81849494 ATTGCATATC
81849504 ATATCATATCATATCTAAG
1 ATATCATATCATATCTAAG
81849523 ATATCATATCATATCTAAG
1 ATATCATATCATATCTAAG
81849542 A
1 A
81849543 CTGCATATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (19 bp):
ATATCATATCATATCTAAG
Found at i:81849530 original size:29 final size:31
Alignment explanation
Indices: 81849480--81849537 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
81849470 AGATTACAAA
81849480 ATCATATCTTCAAGATTGCATATCATATCAT
1 ATCATATCTTCAAGATTGCATATCATATCAT
81849511 ATCATATC-T-AAGATAT-CATATCATATC
1 ATCATATCTTCAAGAT-TGCATATCATATC
81849538 TAAGACTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 16 0.62
30 2 0.08
31 8 0.31
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (31 bp):
ATCATATCTTCAAGATTGCATATCATATCAT
Found at i:81849549 original size:19 final size:19
Alignment explanation
Indices: 81849508--81849551 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
81849498 CATATCATAT
*
81849508 CATATCATATCTAAGATAT
1 CATATCATATCTAAGATAG
81849527 CATATCATATCTAAGACT-G
1 CATATCATATCTAAGA-TAG
81849546 CATATC
1 CATATC
81849552 CTTAAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (19 bp):
CATATCATATCTAAGATAG
Found at i:81854425 original size:6 final size:6
Alignment explanation
Indices: 81854414--81854442 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
81854404 CATAGTAAAA
81854414 TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATAT
81854443 AAATATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:81854448 original size:18 final size:18
Alignment explanation
Indices: 81854414--81854448 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
81854404 CATAGTAAAA
**
81854414 TATATTTATATTTATATT
1 TATATTTATATAAATATT
81854432 TATATTTATATAAATAT
1 TATATTTATATAAATAT
81854449 CATAATCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTATATAAATATT
Found at i:81854676 original size:36 final size:36
Alignment explanation
Indices: 81854629--81854700 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
81854619 TTAATATAGA
81854629 GACTGATTACATATTTACTTTTATTGATATTATTCT
1 GACTGATTACATATTTACTTTTATTGATATTATTCT
*
81854665 GACTGGTTACATATTTACTTTTATTGATATTATTCT
1 GACTGATTACATATTTACTTTTATTGATATTATTCT
81854701 TTAAATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.53
Consensus pattern (36 bp):
GACTGATTACATATTTACTTTTATTGATATTATTCT
Found at i:81855043 original size:9 final size:9
Alignment explanation
Indices: 81855029--81855186 Score: 217
Period size: 9 Copynumber: 17.6 Consensus size: 9
81855019 AAAACCTAAC
81855029 CATAACTTA
1 CATAACTTA
81855038 CATAACTTA
1 CATAACTTA
*
81855047 CATAACTTT
1 CATAACTTA
*
81855056 CATAGCTTA
1 CATAACTTA
*
81855065 TATAACTTA
1 CATAACTTA
*
81855074 TATAACTTA
1 CATAACTTA
*
81855083 CATAAATTA
1 CATAACTTA
*
81855092 CATAGCTTA
1 CATAACTTA
81855101 CATAACTTA
1 CATAACTTA
81855110 CATAACTTA
1 CATAACTTA
* *
81855119 TAGAACTTA
1 CATAACTTA
81855128 CATAACTTA
1 CATAACTTA
*
81855137 CATAGCTTA
1 CATAACTTA
81855146 CATAACTTA
1 CATAACTTA
81855155 CATAACTTA
1 CATAACTTA
**
81855164 CATAGTTTA
1 CATAACTTA
81855173 CATAACTTA
1 CATAACTTA
81855182 CATAA
1 CATAA
81855187 ATATACATCA
Statistics
Matches: 129, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 129 1.00
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:81855064 original size:27 final size:27
Alignment explanation
Indices: 81855029--81855213 Score: 217
Period size: 27 Copynumber: 6.7 Consensus size: 27
81855019 AAAACCTAAC
*
81855029 CATAACTTACATAACTTACATAACTTT
1 CATAACTTACATAACTTACATAACTTA
* * *
81855056 CATAGCTTATATAACTTATATAACTTA
1 CATAACTTACATAACTTACATAACTTA
* *
81855083 CATAAATTACATAGCTTACATAACTTA
1 CATAACTTACATAACTTACATAACTTA
* *
81855110 CATAACTTATAGAACTTACATAACTTA
1 CATAACTTACATAACTTACATAACTTA
*
81855137 CATAGCTTACATAACTTACATAACTTA
1 CATAACTTACATAACTTACATAACTTA
** *
81855164 CATAGTTTACATAACTTACATAAATATACA
1 CATAACTTACATAACTTACATAACT-T--A
*
81855194 TCATAACTTATATAACTTAC
1 -CATAACTTACATAACTTAC
81855214 GTAATACATA
Statistics
Matches: 133, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 115 0.86
28 1 0.01
30 1 0.01
31 16 0.12
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.36
Consensus pattern (27 bp):
CATAACTTACATAACTTACATAACTTA
Found at i:81858563 original size:14 final size:14
Alignment explanation
Indices: 81858537--81858579 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
81858527 TTTTAAATAT
81858537 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
81858550 TTATAATGGTTTAA
1 TTATAATGGTTTAA
*
81858564 TTATATTGGTTTAA
1 TTATAATGGTTTAA
81858578 TT
1 TT
81858580 CGTCGTTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 7 0.25
14 21 0.75
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:81861545 original size:29 final size:32
Alignment explanation
Indices: 81861488--81861548 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
81861478 GACTTGGATT
81861488 TTGAAATATAAAAAAAGTAAAGAAACTAAATTC
1 TTGAAATATAAAAAAAGTAAAG-AACTAAATTC
*
81861521 TTGAAA-AT-AAAAATGTAAAG-ACTAAATT
1 TTGAAATATAAAAAAAGTAAAGAACTAAATT
81861549 TTAAATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 8 0.30
31 11 0.41
32 2 0.07
33 6 0.22
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (32 bp):
TTGAAATATAAAAAAAGTAAAGAACTAAATTC
Found at i:81872345 original size:35 final size:35
Alignment explanation
Indices: 81872299--81872377 Score: 133
Period size: 35 Copynumber: 2.3 Consensus size: 35
81872289 AATGATTTAA
*
81872299 CTTAGTATGTGGTACACCGAGTCTTCGGTGCCGAT
1 CTTAGTATGTGGTACACCGAGTCTCCGGTGCCGAT
*
81872334 CTTAGTATGTGGTACACCGAGTCTCCGGTGTCGAT
1 CTTAGTATGTGGTACACCGAGTCTCCGGTGCCGAT
81872369 CTT-GTATGT
1 CTTAGTATGT
81872378 ATTCTGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
34 6 0.14
35 36 0.86
ACGTcount: A:0.16, C:0.22, G:0.28, T:0.34
Consensus pattern (35 bp):
CTTAGTATGTGGTACACCGAGTCTCCGGTGCCGAT
Found at i:81872503 original size:17 final size:17
Alignment explanation
Indices: 81872477--81872515 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
81872467 GATAATGTAT
*
81872477 ACTGAAACTGTAGTAAA
1 ACTGAAACTGTAGCAAA
*
81872494 ACTGAGACTGTAGCAAA
1 ACTGAAACTGTAGCAAA
81872511 ACTGA
1 ACTGA
81872516 TAGAGACTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (17 bp):
ACTGAAACTGTAGCAAA
Found at i:81878277 original size:16 final size:16
Alignment explanation
Indices: 81878251--81878294 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
81878241 AATTGAAGAA
81878251 ATAATTTTATAATATAT
1 ATAA-TTTATAATATAT
81878268 ATAATTTATAATATAT
1 ATAATTTATAATATAT
**
81878284 AGCATTTATAA
1 ATAATTTATAA
81878295 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATAATTTATAATATAT
Found at i:81879609 original size:27 final size:27
Alignment explanation
Indices: 81879579--81879756 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
81879569 ATATTGAGTC
* * * *
81879579 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
81879606 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
81879633 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
81879661 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
81879688 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
81879715 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
81879742 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
81879757 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:81879718 original size:82 final size:81
Alignment explanation
Indices: 81879600--81879755 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
81879590 TGCTATATAA
* *
81879600 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
81879665 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
81879682 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
81879746 CACTTAGTGC
65 CACTTAGTGC
81879756 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:81894959 original size:21 final size:21
Alignment explanation
Indices: 81894909--81894959 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
81894899 ATCAAACTAA
*
81894909 TTATGCATCATGTCATAATAC
1 TTATGCATTATGTCATAATAC
*
81894930 TTACGCATTATGTCATAATAC
1 TTATGCATTATGTCATAATAC
81894951 TTATGCATT
1 TTATGCATT
81894960 CCTTTTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (21 bp):
TTATGCATTATGTCATAATAC
Found at i:81902163 original size:27 final size:27
Alignment explanation
Indices: 81902121--81902390 Score: 249
Period size: 27 Copynumber: 10.1 Consensus size: 27
81902111 CATCGTGTTA
81902121 GCCTTTGTGGCATACTCTGAAAGAAAT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
* * *
81902148 GCCTTTGTGGCGTACTCTAAAAGAAGT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
* * * *
81902175 GCCTTTTTAGCATACTGTGAAAGGAAT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
* ** *
81902202 TCCTTTGTAACATACTCTGAAAGGAAT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
** * * *
81902229 GCAATTATTGCATATTCTGAAA-AGAAT
1 GCCTTTGTGGCATACTCTGAAAGA-AAT
* *
81902256 GCCTTTGTGGCATACACTGAAAGGAAT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
* * *
81902283 GCCTTTGTGGCGTACTCTAAAAGTAAT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
*
81902310 GCCTTTGTGGCATACTCTAAAAGAAAT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
* * *
81902337 G-C-TTGTGGCGTACTCTAAAATAAAT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
* * * *
81902362 GCCTTTATGGCTTACTGTGAAAGGAAT
1 GCCTTTGTGGCATACTCTGAAAGAAAT
81902389 GC
1 GC
81902391 ATTCTTGGCG
Statistics
Matches: 196, Mismatches: 43, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
25 22 0.11
26 2 0.01
27 172 0.88
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (27 bp):
GCCTTTGTGGCATACTCTGAAAGAAAT
Found at i:81902338 original size:81 final size:81
Alignment explanation
Indices: 81902121--81902390 Score: 276
Period size: 81 Copynumber: 3.4 Consensus size: 81
81902111 CATCGTGTTA
* * * *
81902121 GCCTTTGTGGCATACTCTGAAAGAAATGCCTTTGTGGCGTACTCTAAAAGAAGTGCCTTTTTAGC
1 GCCTTTGTGGCATACTCTGAAAGAAATGCCTTTGTGGCATACTCTAAAAGAAATGCCTTTGTGGC
*
81902186 ATACTGTGAAAGGAAT
66 ATACTCTGAAAGGAAT
* ** * ** * * *
81902202 TCCTTTGTAACATACTCTGAAAGGAATGCAATTATTGCATATTCTGAAAAG-AATGCCTTTGTGG
1 GCCTTTGTGGCATACTCTGAAAGAAATGCCTTTGTGGCATACTCT-AAAAGAAATGCCTTTGTGG
*
81902266 CATACACTGAAAGGAAT
65 CATACTCTGAAAGGAAT
* * *
81902283 GCCTTTGTGGCGTACTCTAAAAGTAATGCCTTTGTGGCATACTCTAAAAGAAATG-C-TTGTGGC
1 GCCTTTGTGGCATACTCTGAAAGAAATGCCTTTGTGGCATACTCTAAAAGAAATGCCTTTGTGGC
* * **
81902346 GTACTCTAAAATAAAT
66 ATACTCTGAAAGGAAT
* * * *
81902362 GCCTTTATGGCTTACTGTGAAAGGAATGC
1 GCCTTTGTGGCATACTCTGAAAGAAATGC
81902391 ATTCTTGGCG
Statistics
Matches: 151, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
79 42 0.28
80 6 0.04
81 98 0.65
82 5 0.03
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (81 bp):
GCCTTTGTGGCATACTCTGAAAGAAATGCCTTTGTGGCATACTCTAAAAGAAATGCCTTTGTGGC
ATACTCTGAAAGGAAT
Found at i:81906098 original size:5 final size:5
Alignment explanation
Indices: 81906088--81906112 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
81906078 TTTCTCTTGC
81906088 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
81906113 TTATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:81908741 original size:39 final size:39
Alignment explanation
Indices: 81908682--81908759 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
81908672 GAATGATAGC
*
81908682 AGGACTGAGGAGTATAAACTCCTTGAACCACCATGACCA
1 AGGAATGAGGAGTATAAACTCCTTGAACCACCATGACCA
* *
81908721 AGGAATGAGGAGTATAAACTCCTTGAACCCCCCTGACCA
1 AGGAATGAGGAGTATAAACTCCTTGAACCACCATGACCA
81908760 TTCAATGGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.18
Consensus pattern (39 bp):
AGGAATGAGGAGTATAAACTCCTTGAACCACCATGACCA
Found at i:81928813 original size:30 final size:30
Alignment explanation
Indices: 81928779--81928840 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
81928769 CTTAACAAGT
81928779 AAATGCCGCTAAAATAATAAAAAAATTAAC
1 AAATGCCGCTAAAATAATAAAAAAATTAAC
** * *
81928809 AAATGCCTTTAAAATAATAACAGAATTAAC
1 AAATGCCGCTAAAATAATAAAAAAATTAAC
81928839 AA
1 AA
81928841 TAATATAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (30 bp):
AAATGCCGCTAAAATAATAAAAAAATTAAC
Found at i:81931999 original size:39 final size:39
Alignment explanation
Indices: 81931945--81932044 Score: 164
Period size: 39 Copynumber: 2.6 Consensus size: 39
81931935 ATCATAATTG
*
81931945 TATGTGCTGGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGATCCGCAGGC
**
81931984 TATGTGCTGGAATTATATCAAGACTTCAGATCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGATCCGCAGGC
*
81932023 TATGAGCTGGAATTATATCCGG
1 TATGTGCTGGAATTATATCCGG
81932045 GCTTAAATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (39 bp):
TATGTGCTGGAATTATATCCGGACTTCAGATCCGCAGGC
Found at i:81939417 original size:63 final size:63
Alignment explanation
Indices: 81939341--81939463 Score: 237
Period size: 63 Copynumber: 2.0 Consensus size: 63
81939331 TGAAAGTATG
81939341 AAAGATTAGAAATTATTTTTTTTTATGAATTATGACATTAATATCAACAAGATAGAAAATTAA
1 AAAGATTAGAAATTATTTTTTTTTATGAATTATGACATTAATATCAACAAGATAGAAAATTAA
*
81939404 AAAGATTAGAAATTATTTTTTTTTATGAATTATGACATTAATATGAACAAGATAGAAAAT
1 AAAGATTAGAAATTATTTTTTTTTATGAATTATGACATTAATATCAACAAGATAGAAAAT
81939464 CGGTTATAGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (63 bp):
AAAGATTAGAAATTATTTTTTTTTATGAATTATGACATTAATATCAACAAGATAGAAAATTAA
Found at i:81940314 original size:39 final size:39
Alignment explanation
Indices: 81940260--81940359 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 39
81940250 ATCTTAATTG
81940260 TATGTGCTGGAATTATATCCGGACTTCA-AGTCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGA-TCCGCAGGC
**
81940299 TATGTGCTGGAATTATATCAAGACTTCAGATCCGCAGGC
1 TATGTGCTGGAATTATATCCGGACTTCAGATCCGCAGGC
*
81940338 TATGAGCTGGAATTATATCCGG
1 TATGTGCTGGAATTATATCCGG
81940360 GCTTAAATTC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 54 0.98
40 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (39 bp):
TATGTGCTGGAATTATATCCGGACTTCAGATCCGCAGGC
Found at i:81953466 original size:27 final size:27
Alignment explanation
Indices: 81953422--81953494 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
81953412 ACTACCGTCT
*
81953422 TGGTGGACTACCCTATGTTTATTGTCC
1 TGGTGGACTACCCTATGTTTACTGTCC
*
81953449 TGGTGGGCTATCCC-ATGTTTACTGTCC
1 TGGTGGACTA-CCCTATGTTTACTGTCC
* *
81953476 TGATGGACT-CCTTATGTTT
1 TGGTGGACTACCCTATGTTT
81953495 CCATAGCCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 6 0.15
27 28 0.72
28 3 0.08
ACGTcount: A:0.14, C:0.22, G:0.23, T:0.41
Consensus pattern (27 bp):
TGGTGGACTACCCTATGTTTACTGTCC
Found at i:81959266 original size:22 final size:22
Alignment explanation
Indices: 81959241--81959297 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
81959231 TGGTTTTCAA
81959241 TTGGATTTTAAGTTCCACATGT
1 TTGGATTTTAAGTTCCACATGT
81959263 TTGGATTTTAAGTTCCACATGT
1 TTGGATTTTAAGTTCCACATGT
*
81959285 TTGGATTTCAAGT
1 TTGGATTTTAAGT
81959298 CATTTTAGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (22 bp):
TTGGATTTTAAGTTCCACATGT
Found at i:81960925 original size:50 final size:50
Alignment explanation
Indices: 81960850--81960946 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
81960840 AACCAAATGA
81960850 GTTTATATTGGAGACTGTTGTACAATAATTCTTCTGAATAATGGTATTTG
1 GTTTATATTGGAGACTGTTGTACAATAATTCTTCTGAATAATGGTATTTG
*
81960900 GTTTATGTTGGAGACTGTTGTACAATAATTCTTCTGAATAATGGTAT
1 GTTTATATTGGAGACTGTTGTACAATAATTCTTCTGAATAATGGTAT
81960947 AGGATCAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (50 bp):
GTTTATATTGGAGACTGTTGTACAATAATTCTTCTGAATAATGGTATTTG
Found at i:81962796 original size:95 final size:95
Alignment explanation
Indices: 81962612--81962795 Score: 239
Period size: 95 Copynumber: 1.9 Consensus size: 95
81962602 AGTCGATTCG
* * * * * *
81962612 AAAATCTGATCAATTGATGGTTGGACACAATGGTGACAACAGATAGAGGGGAATATAGAAAGAGG
1 AAAAACTGATCAATCGATGGTTGAACACAACGGTGACAACAGATAGAGGGGAAGAGAGAAAGAGG
81962677 AGAAAAACAAAAGAGATGGAAAAAATGAAA
66 AGAAAAACAAAAGAGATGGAAAAAATGAAA
* * *
81962707 AAAAACTGATCAATCGATGGTTGAACACAACGGTGCCTACA-ACTAGA-GGGAAGAGAGAAAGAT
1 AAAAACTGATCAATCGATGGTTGAACACAACGGTGACAACAGA-TAGAGGGGAAGAGAGAAAGAG
*
81962770 GAGAAGAAC-AAAGAAGATGGAAAAAA
65 GAGAAAAACAAAAG-AGATGGAAAAAA
81962796 AAAGGAATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
93 4 0.05
94 34 0.44
95 39 0.51
ACGTcount: A:0.50, C:0.10, G:0.26, T:0.14
Consensus pattern (95 bp):
AAAAACTGATCAATCGATGGTTGAACACAACGGTGACAACAGATAGAGGGGAAGAGAGAAAGAGG
AGAAAAACAAAAGAGATGGAAAAAATGAAA
Found at i:81980390 original size:43 final size:43
Alignment explanation
Indices: 81980187--81980396 Score: 174
Period size: 43 Copynumber: 4.9 Consensus size: 43
81980177 ACAAAGCTCG
* * * * *
81980187 TACAATGCC-ATATCCCAAATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
* * * * * * * *
81980228 TATCGATGCCACTGTCCCAGACAGGGTCTTATACGAAATC-GAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
* * ** *
81980271 TAACGATGCTAATGTCCCAGACATGGTCTTACACATAATCTCCA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
* * ** *
81980315 CACATTTACAATGTCCTAGACATGGTCTTACATGTAATCTCAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
81980358 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
81980397 ACATCTCGAT
Statistics
Matches: 128, Mismatches: 36, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
41 2 0.02
42 6 0.05
43 119 0.93
44 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAA
Found at i:81986774 original size:27 final size:27
Alignment explanation
Indices: 81986728--81986779 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
81986718 GGTAAACAAA
*
81986728 GAGGAAGAAGGGAGTAGGGGCAAGTGT
1 GAGGAAGAAGGGAGTAGGGGAAAGTGT
81986755 GAGGAAGCAA-GGA-TAGGGGGAAAGT
1 GAGGAAG-AAGGGAGTA-GGGGAAAGT
81986780 TCGTCGTCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 2 0.09
27 18 0.82
28 2 0.09
ACGTcount: A:0.37, C:0.04, G:0.50, T:0.10
Consensus pattern (27 bp):
GAGGAAGAAGGGAGTAGGGGAAAGTGT
Found at i:81990539 original size:27 final size:26
Alignment explanation
Indices: 81990478--81990591 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 26
81990468 AGGAAGCGTC
* *
81990478 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
*
81990506 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
81990533 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
81990561 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
81990587 CTGGT
1 CTGGT
81990592 AGCCATGCTG
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
26 8 0.10
27 38 0.49
28 31 0.40
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:81990572 original size:55 final size:54
Alignment explanation
Indices: 81990478--81990591 Score: 158
Period size: 55 Copynumber: 2.1 Consensus size: 54
81990468 AGGAAGCGTC
*
81990478 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACAT-TATCTGTT
* * * *
81990533 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTAGTGACTCTGCCACATTATCTGTT
81990587 CTGGT
1 CTGGT
81990592 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 21 0.40
55 32 0.60
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTAGTGACTCTGCCACATTATCTGTT
Found at i:82011385 original size:98 final size:98
Alignment explanation
Indices: 82011277--82012173 Score: 1767
Period size: 98 Copynumber: 9.2 Consensus size: 98
82011267 GATGAATGTG
*
82011277 AATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
82011342 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
82011375 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
82011440 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
82011473 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
82011538 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
82011571 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
82011636 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
82011669 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
82011734 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
82011767 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
82011832 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
82011865 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
82011930 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
82011963 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
82012028 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
82012061 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
1 AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
*
82012126 TGAGATATGTATATGTGGCAAAGCCGAATGGCT
66 TGAGATATGTATATGTGGTAAAGCCGAATGGCT
*
82012159 AGTGTGAAATATGTA
1 AATGTGAAATATGTA
82012174 GGCGATGTGC
Statistics
Matches: 796, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 796 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.31
Consensus pattern (98 bp):
AATGTGAAATATGTATGAGATATGCATATGTGGTACAGCCGAATGGTCAATGTGAAATATATATA
TGAGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:82012373 original size:37 final size:37
Alignment explanation
Indices: 82012323--82012434 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
82012313 AATATATTCC
*
82012323 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
*
82012360 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
* *
82012397 GGGTAAGACCCGATAACTTCGTGTGGAGATTTTGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
82012434 G
1 G
82012435 AGCTAAAAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
Found at i:82015886 original size:43 final size:44
Alignment explanation
Indices: 82015836--82016028 Score: 193
Period size: 43 Copynumber: 4.5 Consensus size: 44
82015826 TATGCCAAAT
* *
82015836 ATGGTCTTACATGTTATCACATAT-CGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATACGATGCCAATGTCCCAGAC
* * * * *
82015879 AGGGTCTTATACGAAATC-GAT-TAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-ACGATGCCAATGTCCCAGAC
* ** * * *
82015922 ATGGTCTTACATGTAATCTCA-ATACCTTTCCAATGTCTCAAAC
1 ATGGTCTTACATGTAATCACATATACGATGCCAATGTCCCAGAC
*
82015965 ATGGTCTTACATGTAA-CATCA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCA-CATATACGATGCCAATGTCCCAGAC
82016008 ATGGT-TTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
82016029 CTCAATAACC
Statistics
Matches: 120, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 15 0.12
43 102 0.85
44 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (44 bp):
ATGGTCTTACATGTAATCACATATACGATGCCAATGTCCCAGAC
Found at i:82018743 original size:20 final size:21
Alignment explanation
Indices: 82018708--82018750 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
82018698 AGAATAAGAT
*
82018708 AAATAAATACATAAATACATA
1 AAATAAATACAAAAATACATA
82018729 AAATAAA-ACAAAAATACATA
1 AAATAAATACAAAAATACATA
82018749 AA
1 AA
82018751 TATCTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAATACAAAAATACATA
Found at i:82022146 original size:25 final size:26
Alignment explanation
Indices: 82022095--82022178 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
82022085 GAAGCCTTGG
* *
82022095 AGAGCCATTAAT-TGAAAGCTCCAG-A
1 AGAGCCATTAATCGGGAAGCT-CAGAA
82022120 A-AGCCATTAATCGGGAAGCTCATGAA
1 AGAGCCATTAATCGGGAAGCTCA-GAA
* *
82022146 AGAGCCTTTAATCGGGAAGCTCCG-A
1 AGAGCCATTAATCGGGAAGCTCAGAA
82022171 AGAGCCAT
1 AGAGCCAT
82022179 ATTTTGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 12 0.24
25 16 0.32
26 3 0.06
27 19 0.38
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
AGAGCCATTAATCGGGAAGCTCAGAA
Found at i:82022283 original size:24 final size:25
Alignment explanation
Indices: 82022251--82022298 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
82022241 AGATGCTTCG
*
82022251 AAGAGCTAT-TAATGGGAAGCTCAC
1 AAGAACTATATAATGGGAAGCTCAC
82022275 AAGAACTATATAATGGGAAGCTCA
1 AAGAACTATATAATGGGAAGCTCA
82022299 TGAGAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (25 bp):
AAGAACTATATAATGGGAAGCTCAC
Found at i:82029254 original size:2 final size:2
Alignment explanation
Indices: 82029247--82029272 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
82029237 ATGATAAAGC
82029247 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
82029273 TATATATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:82030046 original size:24 final size:24
Alignment explanation
Indices: 82029960--82030048 Score: 90
Period size: 24 Copynumber: 3.7 Consensus size: 24
82029950 TATGTAACAG
* * * *
82029960 GAAGCTCCGGAGAGCCATTAACGG
1 GAAGCTCCAGAGAGCCAATATCGA
*
82029984 GAAGC-CCATATGAGCCAATATCGA
1 GAAGCTCCAGA-GAGCCAATATCGA
* * *
82030008 GAAGTTCAAGCGAGCCAATATCGA
1 GAAGCTCCAGAGAGCCAATATCGA
82030032 GAAGCTCCAGAGAGCCA
1 GAAGCTCCAGAGAGCCA
82030049 TTAATTGGGA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 3 0.06
24 46 0.90
25 2 0.04
ACGTcount: A:0.35, C:0.25, G:0.27, T:0.13
Consensus pattern (24 bp):
GAAGCTCCAGAGAGCCAATATCGA
Found at i:82032159 original size:20 final size:20
Alignment explanation
Indices: 82032134--82032172 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
82032124 AACATTGAAA
82032134 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
82032154 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
82032173 ACCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:82033362 original size:25 final size:25
Alignment explanation
Indices: 82033271--82033376 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
82033261 TGCTCATATA
* **
82033271 AGCTGTGAATCGATATGCTCACTTG
1 AGCTGTAAATCGATATGCTCACACG
* * ** *
82033296 AGCTGTAGATTGATATGCTCTTATG
1 AGCTGTAAATCGATATGCTCACACG
*
82033321 AGCTATAAATCGATATGCTCACACG
1 AGCTGTAAATCGATATGCTCACACG
*
82033346 AGCTGTAAATC-AGTATGTTCACACG
1 AGCTGTAAATCGA-TATGCTCACACG
82033371 AGCTGT
1 AGCTGT
82033377 GGGTTGAAAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
24 1 0.02
25 65 0.98
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (25 bp):
AGCTGTAAATCGATATGCTCACACG
Found at i:82033880 original size:30 final size:29
Alignment explanation
Indices: 82033840--82033929 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
82033830 GAATTTGGTC
82033840 ATTTTGACATTTTTACAAAATT-GCCCCTAAA
1 ATTTT-ACATTTTT-C-AAATTAGCCCCTAAA
* *
82033871 ATTTTACATTTATTCAATTTAGCCCTTAAA
1 ATTTTACATTT-TTCAAATTAGCCCCTAAA
* * *
82033901 ATTTTACTTTTATTCAATTTAGTCCCTAA
1 ATTTTACATTT-TTCAAATTAGCCCCTAA
82033930 GCCAAAAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 4 0.08
30 41 0.79
31 7 0.13
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.46
Consensus pattern (29 bp):
ATTTTACATTTTTCAAATTAGCCCCTAAA
Found at i:82039040 original size:46 final size:46
Alignment explanation
Indices: 82038976--82039829 Score: 1640
Period size: 46 Copynumber: 18.6 Consensus size: 46
82038966 GGCTTGAAGG
*
82038976 AAATGATTAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039022 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039068 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039114 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039160 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039206 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039252 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039298 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039344 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039390 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039436 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039482 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039528 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039574 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039620 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039666 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
82039712 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
*
82039758 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACC--A
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
** *
82039802 AAAACAAGTAAGACCATAATTGAAAGAC
1 AAATGAA-TAAGACCATAGTTGAAAGAC
82039830 GTTATGACAT
Statistics
Matches: 802, Mismatches: 5, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
44 6 0.01
45 19 0.02
46 777 0.97
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCACTATACCGGA
Found at i:82039857 original size:45 final size:45
Alignment explanation
Indices: 82039808--82039962 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 45
82039798 ACCAAAAACA
* *
82039808 AGTAAGACCATAATTGAAAGACGTTATGACATCACGATTTAGATG
1 AGTAAGACCATAATTGAAAGACGTTATGACATCATGATTTAAATG
* * *
82039853 AGTAAGACCATAA--AAAAGACAG-TATGATATCATGATTTAAATA
1 AGTAAGACCATAATTGAAAGAC-GTTATGACATCATGATTTAAATG
* ** * * *
82039896 AGTAAGACGATAGCTGAAAGACGTTATGGCATCATGACTTAAACG
1 AGTAAGACCATAATTGAAAGACGTTATGACATCATGATTTAAATG
* *
82039941 TGTAAGACCATAGTTGAAAGAC
1 AGTAAGACCATAATTGAAAGAC
82039963 ACTACGGCAA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
43 34 0.38
44 2 0.02
45 54 0.60
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATAATTGAAAGACGTTATGACATCATGATTTAAATG
Found at i:82040004 original size:46 final size:45
Alignment explanation
Indices: 82038970--82040088 Score: 878
Period size: 46 Copynumber: 24.5 Consensus size: 45
82038960 TTCGTTGGCT
*
82038970 TGAAGGAAATGATTAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGAAGGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039015 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039061 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039107 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039153 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039199 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039245 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039291 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039337 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039383 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039429 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039475 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039521 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039567 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039613 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039659 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
*
82039705 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-A
* *
82039751 T-ACCGGAAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCA
1 TGA-AGG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACA
*** ** * ** * *
82039797 T-ACCAAAAACAAGTAAGACCATAATTGAAAGACGTTATGACATCA
1 TGAAGGAAATGAA-TAAGACCATAGTTGAAAGACACTATGGCAACA
* *** * * ** * ** *
82039842 CGATTTAGATGAGTAAGACCATA--AAAAAGACAGTATGATATCA
1 TGAAGGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACA
*** * * ** *
82039885 TGATTTAAAT-AAGTAAGACGATAGCTGAAAGACGTTATGGCATCA
1 TGAAGGAAATGAA-TAAGACCATAGTTGAAAGACACTATGGCAACA
*** * ** *
82039930 TGACTTAAACGTGTAAGACCATAGTTGAAAGACACTACGGCAACA
1 TGAAGGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACA
* *
82039975 TGATAGGAAATGAATAAGACCAT-GTTTGAAAGACACTATGGAAATA
1 TGA-AGGAAATGAATAAGACCATAG-TTGAAAGACACTATGGCAACA
* * *
82040021 TGACGGGAAATGAATAAGACTATAGTTGAAAGACACTATGGCATCA
1 TGA-AGGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACA
* *
82040067 TGCAA-AAAATAAATAAGACCAT
1 TG-AAGGAAATGAATAAGACCAT
82040089 GGATGGGAGA
Statistics
Matches: 997, Mismatches: 64, Indels: 26
0.92 0.06 0.02
Matches are distributed among these distances:
42 1 0.00
43 32 0.03
44 6 0.01
45 107 0.11
46 848 0.85
47 3 0.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (45 bp):
TGAAGGAAATGAATAAGACCATAGTTGAAAGACACTATGGCAACA
Found at i:82041766 original size:11 final size:11
Alignment explanation
Indices: 82041736--82041768 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
82041726 CAAACAAGAG
82041736 TACTAA-GGACT
1 TACTAAGGGA-T
82041747 TACTAAGGGAT
1 TACTAAGGGAT
82041758 TACTAAGGGAT
1 TACTAAGGGAT
82041769 CTGTTCTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 18 0.86
12 3 0.14
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (11 bp):
TACTAAGGGAT
Found at i:82051333 original size:110 final size:114
Alignment explanation
Indices: 82051135--82051347 Score: 281
Period size: 110 Copynumber: 1.9 Consensus size: 114
82051125 TGAGTGTAAG
* * *
82051135 ACCATGTGGTTAAAACCCATGGCATGATATGATATGTTTTTATGAATGTTCATGGTGTAGCCTTC
1 ACCATGTGGTTAAAACCCATGGCATGATATGATATGTGTATAT-AATATTCATGGTGTAGCCTTC
** * * *
82051200 GCTGTTGTGTAAATCAAATTGGCAAATCTTGATACATGGATGTGTGAAAA
65 AATGATGCGTAAATCAAATTGGCAAATCATGATACATGGATGTGTGAAAA
**
82051250 ACCATGTGGTTATGACCCATGGCATGATATG-T-T-TGTATAT-ATATTCATGGTGTAGCCTTCA
1 ACCATGTGGTTAAAACCCATGGCATGATATGATATGTGTATATAATATTCATGGTGTAGCCTTCA
* *
82051311 ATGATGCGTAAATCAAATTGGCAGATCATGGTACATG
66 ATGATGCGTAAATCAAATTGGCAAATCATGATACATG
82051348 AAATATTTGC
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
110 50 0.58
112 5 0.06
113 1 0.01
114 1 0.01
115 29 0.34
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (114 bp):
ACCATGTGGTTAAAACCCATGGCATGATATGATATGTGTATATAATATTCATGGTGTAGCCTTCA
ATGATGCGTAAATCAAATTGGCAAATCATGATACATGGATGTGTGAAAA
Found at i:82054653 original size:25 final size:25
Alignment explanation
Indices: 82054619--82054747 Score: 162
Period size: 25 Copynumber: 5.4 Consensus size: 25
82054609 TATAACATTT
82054619 GTGCTCTCTGATATTTAGCACGTCA
1 GTGCTCTCTGATATTTAGCACGTCA
*
82054644 GTGCTCTCTGATATTTAGCATGTCA
1 GTGCTCTCTGATATTTAGCACGTCA
*
82054669 GTGCTCTCTGATATTTAGCATGTCA
1 GTGCTCTCTGATATTTAGCACGTCA
* **
82054694 GTGCTCTCTG--A-TTAGCACATTT
1 GTGCTCTCTGATATTTAGCACGTCA
*
82054716 GTGCTCTCTG-TA--TAGCACTTCA
1 GTGCTCTCTGATATTTAGCACGTCA
82054738 GTGCTCTCTG
1 GTGCTCTCTG
82054748 TTCATTAGTG
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
22 34 0.36
23 2 0.02
25 59 0.62
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (25 bp):
GTGCTCTCTGATATTTAGCACGTCA
Found at i:82055793 original size:46 final size:48
Alignment explanation
Indices: 82055741--82055844 Score: 131
Period size: 46 Copynumber: 2.2 Consensus size: 48
82055731 TATTCAATAT
* * *
82055741 AGACCATATCTGGGATATGGCATCA-GTGTGATATGTGA-TCTGTGTA
1 AGACCATAGCTGGGATATGGCATCAGGTGTGATATATGACTATGTGTA
* * *
82055787 AGACCATGGCTGGGCTATGGCTTCAGTGTGTGATATATGACTATGTGTA
1 AGACCATAGCTGGGATATGGCATCAG-GTGTGATATATGACTATGTGTA
82055836 AGACCATAG
1 AGACCATAG
82055845 TTTTACTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
46 21 0.44
48 12 0.25
49 15 0.31
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (48 bp):
AGACCATAGCTGGGATATGGCATCAGGTGTGATATATGACTATGTGTA
Done.