Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 180 of 185
Found at i:54773502 original size:59 final size:59
Alignment explanation
Indices: 54773319--54773502 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
54773309 TATAGTATCA
* *
54773319 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
54773378 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
54773437 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
54773498 TATAT
1 TATAT
54773503 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:54773520 original size:16 final size:16
Alignment explanation
Indices: 54773499--54773540 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
54773489 TTATTAAATT
*
54773499 ATATATTTTAATTATA
1 ATATATTTTAATAATA
54773515 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
54773530 AT-TATGTTTAA
1 ATATAT-TTTAA
54773541 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:54773525 original size:15 final size:15
Alignment explanation
Indices: 54773490--54773531 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
54773480 TTAAGAATTT
*
54773490 TATTAAATTAT-ATA
1 TATTTAATTATAATA
54773504 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
54773518 TATTTAATAATAAT
1 TATTTAATTATAAT
54773532 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:54773668 original size:18 final size:17
Alignment explanation
Indices: 54773640--54773674 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54773630 ATTATTAAGA
*
54773640 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
54773657 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
54773675 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:54773806 original size:157 final size:157
Alignment explanation
Indices: 54773474--54773944 Score: 867
Period size: 157 Copynumber: 3.0 Consensus size: 157
54773464 ATAAGAATAT
* *
54773474 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
54773539 AAATATGATTAAATTATTTATTATTGAT-AT--TAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
54773601 TAATAATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
54773628 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
54773693 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
54773758 TAATAATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
* *
54773785 TAATTATTAAGAATTTTATTAATTTATATATTTTAAATAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
54773850 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
54773915 TAATCATTTACCAAAACAAATTTTTGC
131 TAATAATTTACCAAAACAAATTTATGC
54773942 TAA
1 TAA
54773945 GGGTATTCTA
Statistics
Matches: 308, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
154 91 0.30
155 2 0.01
157 215 0.70
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:54773831 original size:16 final size:17
Alignment explanation
Indices: 54773810--54773854 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
54773800 TTATTAATTT
54773810 ATATATTTTAAATAA-A
1 ATATATTTTAAATAATA
54773826 ATATA-TTT-AATAATA
1 ATATATTTTAAATAATA
54773841 AT-TATGTTTAAATA
1 ATATAT-TTTAAATA
54773855 TGATTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 8 0.32
17 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATATTTTAAATAATA
Found at i:54774085 original size:16 final size:16
Alignment explanation
Indices: 54774064--54774102 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
54774054 TTGATTTGCT
*
54774064 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
54774080 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
54774096 ATTACAC
1 ATTACAC
54774103 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:54774103 original size:16 final size:16
Alignment explanation
Indices: 54774077--54774133 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
54774067 ACACAGCTTT
* *
54774077 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
54774093 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
54774109 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
54774125 TCCAATACA
1 TCCAATACA
54774134 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:54774729 original size:7 final size:7
Alignment explanation
Indices: 54774717--54774755 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
54774707 ATCATGACCG
*
54774717 TAAACCT
1 TAAACCC
54774724 TAAACCC
1 TAAACCC
*
54774731 TAAATCC
1 TAAACCC
54774738 TAAACCC
1 TAAACCC
54774745 TAAACCC
1 TAAACCC
54774752 -AAAC
1 TAAAC
54774756 TTTAACTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:54774741 original size:14 final size:14
Alignment explanation
Indices: 54774724--54774775 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
54774714 CCGTAAACCT
54774724 TAAACCCTAAATCC
1 TAAACCCTAAATCC
54774738 TAAACCCTAAA-CC
1 TAAACCCTAAATCC
* ** * *
54774751 CAAACTTTAACTCA
1 TAAACCCTAAATCC
54774765 TAAACCCTAAA
1 TAAACCCTAAA
54774776 CACCAAACAA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAATCC
Found at i:54774755 original size:27 final size:28
Alignment explanation
Indices: 54774725--54774783 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
54774715 CGTAAACCTT
*
54774725 AAACCCTAAATCCTAAACCCTAAAC-CC
1 AAACCCTAAATCATAAACCCTAAACACC
** *
54774752 AAACTTTAACTCATAAACCCTAAACACC
1 AAACCCTAAATCATAAACCCTAAACACC
54774780 AAAC
1 AAAC
54774784 AACTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (28 bp):
AAACCCTAAATCATAAACCCTAAACACC
Found at i:54775270 original size:64 final size:63
Alignment explanation
Indices: 54775169--54775287 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 63
54775159 GATAATGGAA
** *
54775169 TTGGTCGAGTCATTAAGAAGAATAGAAGGTGTATGGATTAACCTCCGAAGTGGGAGTATAGGAT
1 TTGGTCGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACC-CCGAAGTGGGAGTATAGGAT
* * *
54775233 TTGGTGGAGTCACAAAGAAGGATAGAAGGTGTGTGGATCAACCCCGAAGTGGGAG
1 TTGGTCGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACCCCGAAGTGGGAG
54775288 GATCCTACGG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 12 0.24
64 37 0.76
ACGTcount: A:0.32, C:0.11, G:0.34, T:0.23
Consensus pattern (63 bp):
TTGGTCGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACCCCGAAGTGGGAGTATAGGAT
Found at i:54780465 original size:50 final size:50
Alignment explanation
Indices: 54780166--54780457 Score: 444
Period size: 50 Copynumber: 5.8 Consensus size: 50
54780156 ATTTGGGTAA
54780166 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
54780216 TGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
54780266 ATAGGTCCCCTGTAAGACCATGTCAGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
54780316 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
54780366 AGAGGTACCC-CGTAAGACCATGTCTGGGACATGGCA-TGGCACCGATATG
1 AGAGGT-CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
54780415 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
54780458 TGTTATGATT
Statistics
Matches: 218, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
49 17 0.08
50 193 0.89
51 8 0.04
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:54783047 original size:4 final size:4
Alignment explanation
Indices: 54783038--54783069 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
54783028 GATGATTACG
54783038 TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA
54783070 AAATGATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:54787847 original size:22 final size:24
Alignment explanation
Indices: 54787822--54787866 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
54787812 ATATGGCAAG
54787822 GAATTAAG-TAGAAAAG-AAGTAT
1 GAATTAAGTTAGAAAAGTAAGTAT
54787844 GAATTAAGTTAGAAAAGTAAGTA
1 GAATTAAGTTAGAAAAGTAAGTA
54787867 AACTTACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATTAAGTTAGAAAAGTAAGTAT
Found at i:54790620 original size:11 final size:11
Alignment explanation
Indices: 54790598--54790644 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
54790588 AACTAATCCT
54790598 CTCTCGAATTTC
1 CTCTC-AATTTC
54790610 CTCTCAATTTC
1 CTCTCAATTTC
*
54790621 CTCTCAATTTG
1 CTCTCAATTTC
*
54790632 CTCTCAAATTC
1 CTCTCAATTTC
54790643 CT
1 CT
54790645 TCCAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 27 0.84
12 5 0.16
ACGTcount: A:0.19, C:0.34, G:0.04, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:54790714 original size:51 final size:51
Alignment explanation
Indices: 54790622--54790721 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
54790612 CTCAATTTCC
* * *
54790622 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTTTGTGAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* * *
54790673 TCTCAATTTGCTCTCAATTTCC-TCTTAAATTTCTCTCAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTTC-CAAATTTCTCTCAAATCCATATTT
54790722 TTTAATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.26, C:0.25, G:0.04, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:54792050 original size:127 final size:125
Alignment explanation
Indices: 54791765--54792184 Score: 544
Period size: 126 Copynumber: 3.4 Consensus size: 125
54791755 CCCAAACATG
* *
54791765 CTACTATAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* * * * *
54791830 TAGAA--GTGTTTTTATACTATTTACTCAGAATCGTCAACTCAAAATTATTTTTTCAAGAC
66 T-GAAGCGTTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* *
54791889 CTATTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* *
54791954 ATGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 -TGAAGCGTTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
** * * *
54792016 CTACTGTAGTGAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTATTATCATAA-AGCATCCTA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTA
* *
54792080 CTTGAAGCG-TTTTTTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTCTAGGAC
65 C-TGAAGCGTTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * *
54792141 CTACCGTAGCAAAAGCACGTACAC-ATGGGCGCGACTTCAGAAAT
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAAT
54792185 CCATCTGATA
Statistics
Matches: 260, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
124 65 0.25
125 43 0.17
126 81 0.31
127 69 0.27
128 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
TGAAGCGTTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:54799024 original size:157 final size:152
Alignment explanation
Indices: 54798819--54799293 Score: 523
Period size: 157 Copynumber: 3.0 Consensus size: 152
54798809 AAACACACAA
54798819 AATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATTATA
1 AATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATTATA
54798884 TTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTCCT
66 TTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTCCT
54798949 AATTTTTTTAAAAATTTAAAAAT
131 AATTTTTTTAAAAA-TTAAAAAT
* * * * *
54798972 AATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAA-TACGAAAATA
1 AATTAAT---AA-ATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTA-GAAATTA
* * ** * * *
54799036 ATATATTTTTATTGAAAGTAATAAAATTTGG-GAAAATAATACGAGCAAAGGGCAGGAA-TAATG
61 TTATA-TTTT-TT-AAAGTAAAAAAATGCGGAGAAAA-AATACGAACAAATGGC-CGAAGTAA-G
* ** *
54799099 -GTTTTTTTTTACACTAAATTAATTTAAAAA--ACACAA-
120 AG---TGTTTT-C-CT-AATTTTTTTAAAAATTA-AAAAT
* *
54799135 AATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATAAGAAATTATGATA
1 AATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATTATA
*
54799200 TTTTTTAAAGTAAAAAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTA
66 TTTTTTAAAGT-AAAAAAATGCGGAG-AAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTC
*
54799265 CTAAATTTTTTAAAAATTCAAAAAT
129 CTAATTTTTTTAAAAATT-AAAAAT
54799290 AATT
1 AATT
54799294 TTTAAAAATT
Statistics
Matches: 258, Mismatches: 36, Indels: 54
0.74 0.10 0.16
Matches are distributed among these distances:
152 11 0.04
153 9 0.03
154 3 0.01
155 10 0.04
156 9 0.03
157 62 0.24
158 27 0.10
159 57 0.22
160 35 0.14
161 4 0.02
163 13 0.05
164 4 0.02
165 2 0.01
166 12 0.05
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (152 bp):
AATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATTATA
TTTTTTAAAGTAAAAAAATGCGGAGAAAAAATACGAACAAATGGCCGAAGTAAGAGTGTTTTCCT
AATTTTTTTAAAAATTAAAAAT
Found at i:54799288 original size:159 final size:157
Alignment explanation
Indices: 54798807--54799288 Score: 523
Period size: 159 Copynumber: 3.0 Consensus size: 157
54798797 AATTAATTTA
*
54798807 AAAAACACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTA
1 AAAAA-ACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATAA
54798872 GAAATTATTATATTTTTTAAAGTAAAAAAATGCGGAG-AAAAAATACGAACAAATGGCCGAAGTA
65 GAAATTA-TATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTA
* *
54798936 AGAGTGTTTTCCTAATTTTTTTAAAAATT
129 AGAGTGTTTTACTAAATTTTTTAAAAATT
* * * * * * *
54798965 TAAAAATA-ATTAA-TACA-AATATTTCAAACAAAATGTACTGAAATAATATAAAATAATAAAAT
1 AAAAAACACA-AAATTA-ATAA-ATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAAT
* * * ** * * * *
54799027 ACGAAAATAATATATTTTTATTGAAAGTAATAAAATTTGG-GAAAATAATACGAGCAAAGGGCAG
63 AAG-AAATTATATA-TTTT-TT-AAAGTAAAAAAATGCGGAGAAAAAAATACGAACAAATGGC-C
* ** * *** *
54799091 GAA-TAATG-GTTTTTTTTTACACTAAATT--AATTT
123 GAAGTAA-GAGTGTTTTACTA-AATTTTTTAAAAATT
54799124 AAAAAACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATAAG
1 AAAAAACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATAAG
54799189 AAATTATGATATTTTTTAAAGTAAAAAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTA
66 AAATTAT-ATATTTTTTAAAGT-AAAAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTA
54799254 AGAGTGTTTTACTAAATTTTTTAAAAATT
129 AGAGTGTTTTACTAAATTTTTTAAAAATT
*
54799283 CAAAAA
1 AAAAAA
54799289 TAATTTTTAA
Statistics
Matches: 253, Mismatches: 50, Indels: 41
0.74 0.15 0.12
Matches are distributed among these distances:
156 10 0.04
157 67 0.26
158 53 0.21
159 68 0.27
160 47 0.19
161 8 0.03
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (157 bp):
AAAAAACACAAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATAAG
AAATTATATATTTTTTAAAGTAAAAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAG
AGTGTTTTACTAAATTTTTTAAAAATT
Found at i:54799297 original size:21 final size:21
Alignment explanation
Indices: 54799271--54799313 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
54799261 TTTACTAAAT
54799271 TTTTTAAAAATTCAAAAATAA
1 TTTTTAAAAATTCAAAAATAA
* *
54799292 TTTTTAAAAATTGAGAAATAA
1 TTTTTAAAAATTCAAAAATAA
54799313 T
1 T
54799314 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTTAAAAATTCAAAAATAA
Found at i:54803663 original size:25 final size:26
Alignment explanation
Indices: 54803621--54803669 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
54803611 CTAAACCCTA
54803621 AAAACTAATAATAATAAT-ACTAACT
1 AAAACTAATAATAATAATAACTAACT
* **
54803646 AAAACTATTAATCTTAATAACTAA
1 AAAACTAATAATAATAATAACTAA
54803670 ACAACAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (26 bp):
AAAACTAATAATAATAATAACTAACT
Found at i:54803778 original size:10 final size:10
Alignment explanation
Indices: 54803750--54803786 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
54803740 AAATACATTT
54803750 TTTTTCTCTTC
1 TTTTTCTC-TC
*
54803761 TCTTTCTCTC
1 TTTTTCTCTC
54803771 TTTTTCTCTC
1 TTTTTCTCTC
54803781 TTTTTC
1 TTTTTC
54803787 CTACAGCACC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:54805509 original size:20 final size:20
Alignment explanation
Indices: 54805484--54805528 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
54805474 GGTCTTTTAT
54805484 AAAAATAATACAAA-AAAATA
1 AAAAATAATA-AAATAAAATA
* *
54805504 AAAAATACTAAAATAATATA
1 AAAAATAATAAAATAAAATA
54805524 AAAAA
1 AAAAA
54805529 GTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAATAATAAAATAAAATA
Found at i:54807683 original size:43 final size:43
Alignment explanation
Indices: 54807630--54807763 Score: 198
Period size: 43 Copynumber: 3.1 Consensus size: 43
54807620 CAAAATGCCA
54807630 CTAAAGAACATGATTTTTAGCGGCGCTTTACCCACAAACGCCG
1 CTAAAGAACATGATTTTTAGCGGCGCTTTACCCACAAACGCCG
* *
54807673 CTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACGCCG
1 CTAAAGAACATGATTTTTAGCGGCGCTTTACCCACAAACGCCG
* ***
54807716 CTAAAGATCATG-TTCTTTAGCGGCGCTTTTGTCACAAACGCCG
1 CTAAAGAACATGATT-TTTAGCGGCGCTTTACCCACAAACGCCG
54807759 CTAAA
1 CTAAA
54807764 AGTACAGTTC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 1 0.01
43 81 0.99
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
CTAAAGAACATGATTTTTAGCGGCGCTTTACCCACAAACGCCG
Found at i:54811170 original size:21 final size:22
Alignment explanation
Indices: 54811144--54811191 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
54811134 ATGAATGTTG
54811144 TTTAAATTTATCACAT-ATTAT
1 TTTAAATTTATCACATAATTAT
*
54811165 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCACATAATTAT
54811187 TTTAA
1 TTTAA
54811192 GTTTTCGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTAAATTTATCACATAATTAT
Found at i:54811947 original size:11 final size:11
Alignment explanation
Indices: 54811931--54811991 Score: 59
Period size: 11 Copynumber: 5.3 Consensus size: 11
54811921 ACACCAATTT
54811931 TTTTAAAAAAA
1 TTTTAAAAAAA
54811942 TTTTAAAAAAGTA
1 TTTTAAAAAA--A
**
54811955 TTTTAAAAGTA
1 TTTTAAAAAAA
*
54811966 TTTTAAAAATAT
1 TTTTAAAAA-AA
*
54811978 TTTTAAAATAA
1 TTTTAAAAAAA
54811989 TTT
1 TTT
54811992 AAATTTTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
11 23 0.57
12 8 0.20
13 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:54811973 original size:22 final size:22
Alignment explanation
Indices: 54811930--54812020 Score: 70
Period size: 24 Copynumber: 4.2 Consensus size: 22
54811920 AACACCAATT
*
54811930 TTTTTAAAAAAATTTTAAAAA-A
1 TTTTTAAAATAA-TTTAAAAATA
*
54811952 GTATTTTAAAAGTATTTTAAAAATA
1 -T-TTTTAAAA-TAATTTAAAAATA
54811977 TTTTTAAAATAATTT---AA-A
1 TTTTTAAAATAATTTAAAAATA
54811995 -TTTTAAAA-AATTTAAAAATA
1 TTTTTAAAATAATTTAAAAATA
54812015 TATTTT
1 T-TTTT
54812021 TATTATATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
16 5 0.09
17 8 0.14
18 1 0.02
19 4 0.07
20 1 0.02
22 9 0.16
23 9 0.16
24 17 0.30
25 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTTTAAAATAATTTAAAAATA
Found at i:54812008 original size:16 final size:17
Alignment explanation
Indices: 54811978--54812010 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
54811968 TTAAAAATAT
54811978 TTTTAAAATAATTTAAA
1 TTTTAAAATAATTTAAA
54811995 TTTTAAAA-AATTTAAA
1 TTTTAAAATAATTTAAA
54812011 AATATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAATAATTTAAA
Found at i:54812249 original size:45 final size:45
Alignment explanation
Indices: 54812185--54812275 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
54812175 CGGGCCGCCC
54812185 GGCCCATGAACACCTCTGTTTGTCGTTCATTAGTGTGTATTTTTA
1 GGCCCATGAACACCTCTGTTTGTCGTTCATTAGTGTGTATTTTTA
54812230 GGCCCATGAACACCTCTGTTTGTCGTTCATTAGTGTGTATTTTTA
1 GGCCCATGAACACCTCTGTTTGTCGTTCATTAGTGTGTATTTTTA
54812275 G
1 G
54812276 TTTCCGAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.42
Consensus pattern (45 bp):
GGCCCATGAACACCTCTGTTTGTCGTTCATTAGTGTGTATTTTTA
Found at i:54820800 original size:14 final size:14
Alignment explanation
Indices: 54820781--54820807 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54820771 CTGATATTGT
54820781 TAACTACTAACTGC
1 TAACTACTAACTGC
54820795 TAACTACTAACTG
1 TAACTACTAACTG
54820808 TTACAACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (14 bp):
TAACTACTAACTGC
Found at i:54824476 original size:13 final size:13
Alignment explanation
Indices: 54824458--54824482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54824448 GAAATTTTCA
54824458 ATTAAAGAATTTG
1 ATTAAAGAATTTG
54824471 ATTAAAGAATTT
1 ATTAAAGAATTT
54824483 TCCTCAAAAA
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:54826760 original size:18 final size:20
Alignment explanation
Indices: 54826734--54826773 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
54826724 ATAATAAAAT
*
54826734 AAATAG-AAATATAGAAAGA
1 AAATAGAAAATATAAAAAGA
54826753 AAAT-GAAAATATAAAAAGA
1 AAATAGAAAATATAAAAAGA
54826772 AA
1 AA
54826774 TACAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (20 bp):
AAATAGAAAATATAAAAAGA
Found at i:54826862 original size:21 final size:20
Alignment explanation
Indices: 54826838--54826891 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
54826828 ACTATATATT
54826838 TAAAAAAAAGATAGTAAAATA
1 TAAAAAAAA-ATAGTAAAATA
**
54826859 TAAAAATAAAATAAAAAAATA
1 TAAAAA-AAAATAGTAAAATA
*
54826880 TACAAAAAAATA
1 TAAAAAAAAATA
54826892 ATAGTAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.21
21 20 0.69
22 3 0.10
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (20 bp):
TAAAAAAAAATAGTAAAATA
Found at i:54830459 original size:9 final size:9
Alignment explanation
Indices: 54830445--54830472 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
54830435 ACTAAATATT
54830445 TACTCAAAG
1 TACTCAAAG
54830454 TACTCAAAG
1 TACTCAAAG
54830463 TACTCAAAG
1 TACTCAAAG
54830472 T
1 T
54830473 GTTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (9 bp):
TACTCAAAG
Found at i:54835655 original size:29 final size:29
Alignment explanation
Indices: 54835598--54835655 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
54835588 CTTGTCCGTT
* *
54835598 TTAGATAAATATATTAATTTATTTTTATA
1 TTAGATAAATATATTAATTTATATATATA
*
54835627 TTAGATAAATATAATT-ATTTGTATATATA
1 TTAGATAAATAT-ATTAATTTATATATATA
54835656 ATTTATGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (29 bp):
TTAGATAAATATATTAATTTATATATATA
Found at i:54837979 original size:17 final size:18
Alignment explanation
Indices: 54837948--54837981 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54837938 AAATTCATAA
54837948 ATCAAAATTATAAAAATT
1 ATCAAAATTATAAAAATT
*
54837966 ATCAAATTTA-AAAAAT
1 ATCAAAATTATAAAAAT
54837982 AACCTATTTA
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:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
ATCAAAATTATAAAAATT
Found at i:54841171 original size:24 final size:24
Alignment explanation
Indices: 54841123--54841169 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
54841113 ATAGCTAAAA
*
54841123 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
54841147 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
54841170 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:54841769 original size:27 final size:27
Alignment explanation
Indices: 54841721--54841808 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 27
54841711 TAGGTCGAGT
* * * *
54841721 AATACCTCTATAGTGTAGAATGACTGA
1 AATACCCCCATAGGGTAAAATGACTGA
54841748 AATACCCCCGA-AGGGTAAAATGA-TCGA
1 AATACCCCC-ATAGGGTAAAATGACT-GA
*
54841775 AATACCCCCATAGGGTAAAATAACTGA
1 AATACCCCCATAGGGTAAAATGACTGA
*
54841802 TATACCC
1 AATACCC
54841809 TTAGGAGTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 2 0.04
27 47 0.92
28 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (27 bp):
AATACCCCCATAGGGTAAAATGACTGA
Found at i:54842232 original size:28 final size:28
Alignment explanation
Indices: 54842192--54842278 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
54842182 ACTGTAATGT
54842192 TACTATATTGGGCTAAGGCCCACACTGA
1 TACTATATTGGGCTAAGGCCCACACTGA
*
54842220 TACTATATTGGGCTAAGGCCCACA-TTA
1 TACTATATTGGGCTAAGGCCCACACTGA
* * *
54842247 CTTCTAAATTGGGCTAAGGCCCTCACTG-
1 -TACTATATTGGGCTAAGGCCCACACTGA
54842275 TACT
1 TACT
54842279 GTCACTGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.10
28 45 0.88
29 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (28 bp):
TACTATATTGGGCTAAGGCCCACACTGA
Found at i:54844627 original size:27 final size:26
Alignment explanation
Indices: 54844588--54844755 Score: 160
Period size: 27 Copynumber: 6.3 Consensus size: 26
54844578 CCCTAAAATA
*
54844588 GGTAGAATGACCGAAATACCCCGATAG
1 GGTAAAATGACCGAAATACCCCGA-AG
** *
54844615 GGTAAAACAACCGAAATACCCTCGAAA
1 GGTAAAATGACCGAAATACCC-CGAAG
*
54844642 GGTAAAATGATC--AATACCCTCGAAG
1 GGTAAAATGACCGAAATACCC-CGAAG
** *
54844667 GGTAAAATGATAGAAATACTCTCGAAG
1 GGTAAAATGACCGAAATAC-CCCGAAG
* *
54844694 GGTAAAATGATCGAAATGTCCCCGAAG
1 GGTAAAATGACCGAAAT-ACCCCGAAG
* *
54844721 GATAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCGA-AG
54844748 GGTAAAAT
1 GGTAAAAT
54844756 AACTGATATA
Statistics
Matches: 117, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
25 23 0.20
26 5 0.04
27 84 0.72
28 5 0.04
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCGAAG
Found at i:54844662 original size:25 final size:25
Alignment explanation
Indices: 54844629--54844705 Score: 109
Period size: 25 Copynumber: 3.0 Consensus size: 25
54844619 AAACAACCGA
*
54844629 AATACCCTCGAAAGGTAAAATGATC
1 AATACCCTCGAAGGGTAAAATGATC
*
54844654 AATACCCTCGAAGGGTAAAATGATAGA
1 AATACCCTCGAAGGGTAAAATGAT--C
*
54844681 AATACTCTCGAAGGGTAAAATGATC
1 AATACCCTCGAAGGGTAAAATGATC
54844706 GAAATGTCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
25 23 0.50
27 23 0.50
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (25 bp):
AATACCCTCGAAGGGTAAAATGATC
Found at i:54844669 original size:52 final size:52
Alignment explanation
Indices: 54844587--54844741 Score: 168
Period size: 52 Copynumber: 2.9 Consensus size: 52
54844577 ACCCTAAAAT
* * **
54844587 AGGTAGAATGACCGAAATACCCCGATAGGGTAAAACAACCGAAATACCCTCGAA
1 AGGTAAAATGATC-AAATACCCCGA-AGGGTAAAATGACCGAAATACCCTCGAA
** *
54844641 AGGTAAAATGATC-AATACCCTCGAAGGGTAAAATGATAGAAATACTCTCGAA
1 AGGTAAAATGATCAAATACCC-CGAAGGGTAAAATGACCGAAATACCCTCGAA
* * *
54844693 GGGTAAAATGATCGAAATGTCCCCGAAGGATAAAATGACCGAAATACCC
1 AGGTAAAATGATC-AAAT-ACCCCGAAGGGTAAAATGACCGAAATACCC
54844742 CCATAGGGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
52 42 0.50
53 3 0.04
54 36 0.43
55 3 0.04
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.17
Consensus pattern (52 bp):
AGGTAAAATGATCAAATACCCCGAAGGGTAAAATGACCGAAATACCCTCGAA
Found at i:54853437 original size:27 final size:26
Alignment explanation
Indices: 54853407--54853485 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
54853397 TTAAATTACT
54853407 AAAATATCCCCATAGGGTAAAATGACC
1 AAAATA-CCCCATAGGGTAAAATGACC
54853434 AAAATACCCTCGA-AGGGTAAAATGACC
1 AAAATACCC-C-ATAGGGTAAAATGACC
54853461 AAAATACCCCCATAGGGT-AAATGAC
1 AAAATA-CCCCATAGGGTAAAATGAC
54853486 TGATTTGTGC
Statistics
Matches: 48, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
26 11 0.23
27 33 0.69
28 4 0.08
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.16
Consensus pattern (26 bp):
AAAATACCCCATAGGGTAAAATGACC
Found at i:54853992 original size:34 final size:34
Alignment explanation
Indices: 54853945--54854020 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
54853935 TTTGCCACAA
*
54853945 TTACTGTTTTGGGCTAAGGCCTACACTGATACTG
1 TTACTGTTTTGGGCTAAGGCCCACACTGATACTG
* *
54853979 TTATTGTTTTGGGCTAAGGCCCACACTGATATTG
1 TTACTGTTTTGGGCTAAGGCCCACACTGATACTG
54854013 TTACTGTT
1 TTACTGTT
54854021 AAAGGGGTCA
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:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (34 bp):
TTACTGTTTTGGGCTAAGGCCCACACTGATACTG
Found at i:54855998 original size:26 final size:23
Alignment explanation
Indices: 54855969--54856023 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
54855959 ACATTATTTG
54855969 TTTTAAAATATCTTGTATATAATAT
1 TTTTAAAAT-T-TTGTATATAATAT
* *
54855994 CTTTTAAAATTTTTTATATATTAT
1 -TTTTAAAATTTTGTATATAATAT
54856018 TTTTAA
1 TTTTAA
54856024 TAAAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 6 0.22
24 11 0.41
25 1 0.04
26 9 0.33
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTTAAAATTTTGTATATAATAT
Found at i:54857034 original size:22 final size:23
Alignment explanation
Indices: 54857005--54857049 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
54856995 ATGAAAGTAT
54857005 CAAAAAGGAAT-AAATAA-ATAA
1 CAAAAAGGAATAAAATAATATAA
*
54857026 CAAAGAAGGATTAAAATAATATAA
1 CAAA-AAGGAATAAAATAATATAA
54857050 TGATGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 6 0.30
23 6 0.30
24 4 0.20
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.18
Consensus pattern (23 bp):
CAAAAAGGAATAAAATAATATAA
Found at i:54857597 original size:23 final size:21
Alignment explanation
Indices: 54857555--54857599 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
54857545 AAGTATATAT
54857555 ATAAAAAAATATAAACAAACA
1 ATAAAAAAATATAAACAAACA
54857576 ATAATAAATAATA-AAACTAAACA
1 ATAA-AAA-AATATAAAC-AAACA
54857599 A
1 A
54857600 ATCAGGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
23 10 0.48
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (21 bp):
ATAAAAAAATATAAACAAACA
Found at i:54863414 original size:15 final size:14
Alignment explanation
Indices: 54863370--54863439 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 14
54863360 ATTTGATCTT
54863370 TTATACTTAGATTAA
1 TTATACTTA-ATTAA
* *
54863385 TAATTAATTAATTAA
1 TTA-TACTTAATTAA
54863400 TTATACTTAACTTAA
1 TTATACTTAA-TTAA
*
54863415 TTA-ACCTTTGATTAA
1 TTATA-C-TTAATTAA
*
54863430 TTAAACTTAA
1 TTATACTTAA
54863440 ACATAATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
14 10 0.23
15 25 0.57
16 9 0.20
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (14 bp):
TTATACTTAATTAA
Found at i:54874109 original size:16 final size:16
Alignment explanation
Indices: 54874088--54874119 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
54874078 AATATTAGTA
54874088 GTATATATTTATATAT
1 GTATATATTTATATAT
*
54874104 GTATATATTTTTATAT
1 GTATATATTTATATAT
54874120 ATGTTAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
GTATATATTTATATAT
Found at i:54874116 original size:18 final size:18
Alignment explanation
Indices: 54874089--54874123 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54874079 ATATTAGTAG
54874089 TATATATTTATATATGTA
1 TATATATTTATATATGTA
*
54874107 TATATTTTTATATATGT
1 TATATATTTATATATGT
54874124 TAATGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTTATATATGTA
Found at i:54875551 original size:12 final size:12
Alignment explanation
Indices: 54875536--54875560 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54875526 AAAATAAAAC
54875536 AAATGAAATAGA
1 AAATGAAATAGA
54875548 AAATGAAATAGA
1 AAATGAAATAGA
54875560 A
1 A
54875561 TTGAAAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (12 bp):
AAATGAAATAGA
Found at i:54881479 original size:46 final size:45
Alignment explanation
Indices: 54881412--54881655 Score: 303
Period size: 46 Copynumber: 5.6 Consensus size: 45
54881402 TTTGAGTACT
* *
54881412 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
54881458 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
54881494 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
54881540 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
54881586 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
54881631 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
54881656 ATCATACGTA
Statistics
Matches: 177, Mismatches: 11, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
36 28 0.16
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 15 0.08
44 3 0.02
45 20 0.11
46 101 0.57
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:54881494 original size:36 final size:36
Alignment explanation
Indices: 54881448--54881520 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
54881438 GGTAGCTTTA
54881448 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
54881484 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
54881520 G
1 G
54881521 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:54881515 original size:82 final size:85
Alignment explanation
Indices: 54881412--54881655 Score: 311
Period size: 82 Copynumber: 2.8 Consensus size: 85
54881402 TTTGAGTACT
* *
54881412 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
54881477 GATAAGTG-C-TA-T-ACTTA
65 GATAAGTGCCTTACTAACTTA
* *
54881494 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
54881559 GATAAGTGGTAGCCTTAGCTACACTTA
65 GATAA---GT-GCCTTA-CTA-ACTTA
* * *
54881586 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
54881649 ATAAGTG
66 ATAAGTG
54881656 ATCATACGTA
Statistics
Matches: 142, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
82 64 0.45
83 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
88 2 0.01
89 10 0.07
90 3 0.02
91 20 0.14
92 35 0.25
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (85 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCCTTACTAACTTA
Found at i:54882344 original size:22 final size:20
Alignment explanation
Indices: 54882307--54882369 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
54882297 TCACTATTGC
* *
54882307 TATTATTATGATGTTATTAT
1 TATTATAATTATGTTATTAT
*
54882327 TATTATGAATTAATGTTATTAC
1 TATTAT-AATT-ATGTTATTAT
*
54882349 TATTATAATTGTGTTATTAT
1 TATTATAATTATGTTATTAT
54882369 T
1 T
54882370 TAGCATGGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 15 0.42
21 6 0.17
22 15 0.42
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (20 bp):
TATTATAATTATGTTATTAT
Found at i:54886618 original size:38 final size:38
Alignment explanation
Indices: 54886568--54886640 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
54886558 TTAATCTGCT
* *
54886568 TTTTTTAATAGATTTAGTAAAAATACTGTTAAAAAGGC
1 TTTTTTAATAGATTTAATAAAAATACCGTTAAAAAGGC
54886606 TTTTTTAATAGATTTAATAAAAATACCGTTAAAAA
1 TTTTTTAATAGATTTAATAAAAATACCGTTAAAAA
54886641 AGTTAACGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (38 bp):
TTTTTTAATAGATTTAATAAAAATACCGTTAAAAAGGC
Found at i:54899073 original size:89 final size:89
Alignment explanation
Indices: 54898922--54899103 Score: 328
Period size: 89 Copynumber: 2.0 Consensus size: 89
54898912 ACCACCTGGA
*
54898922 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTCGACATGTCGAAGATCGCA
1 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
* * *
54898987 TGAGGCAGAGCCACATCGACGTAG
66 TGAGGCACAACCACATCGACCTAG
54899011 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
1 ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
54899076 TGAGGCACAACCACATCGACCTAG
66 TGAGGCACAACCACATCGACCTAG
54899100 ACAA
1 ACAA
54899104 TCAAATGATA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (89 bp):
ACAAAACATGATCAAATGATAAAACATATGGCAATGGCATACATCTAGACATGTCGAAGATCGCA
TGAGGCACAACCACATCGACCTAG
Found at i:54903758 original size:210 final size:213
Alignment explanation
Indices: 54903480--54903906 Score: 788
Period size: 212 Copynumber: 2.0 Consensus size: 213
54903470 AGCCATTTAG
*
54903480 ATTGACAAGTGGCCAATTACGTGAATGTTTGAAATTAAAATTTGAGATAATATAATTTTTGGACC
1 ATTGACAAGTGGCCAATTACGTGAATGTTTGAAATTAAAATTTGAGATAATATAATTTTTGAACC
* *
54903545 TTGAATTAGGTAATTATGTTCATTTTGGTA-TT-TATGTCTTTTGTTCACTTTAGCATTTGAATT
66 TTGAATTAGGTAATTATGTTCATTTCGATATTTATATGTCTTTTGTTCACTTTAGCATTTGAATT
54903608 TGACAACTAGATTCATTTTAATCATTAAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
131 TGACAACTAGATTCATTTTAATCATTAAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
54903673 TTCTTGGAACATGACTTA
196 TTCTTGGAACATGACTTA
54903691 ATTGACAAGTGGCCAATTACGTGAATG-TTGAAATTAAAATTTGAGATAATATAATTTTTGAACC
1 ATTGACAAGTGGCCAATTACGTGAATGTTTGAAATTAAAATTTGAGATAATATAATTTTTGAACC
*
54903755 TTGAATTAGGTAATTATGTTCATTTCGATATTTATATGTCTTTTGTTCACTTTAGTATTTGAATT
66 TTGAATTAGGTAATTATGTTCATTTCGATATTTATATGTCTTTTGTTCACTTTAGCATTTGAATT
*
54903820 TGACAACTAGATTCATTTTAATCATTGAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
131 TGACAACTAGATTCATTTTAATCATTAAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
54903885 TTCTTGGAACATGACTTA
196 TTCTTGGAACATGACTTA
54903903 ATTG
1 ATTG
54903907 GCATGTCAAA
Statistics
Matches: 209, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
210 64 0.31
211 29 0.14
212 116 0.56
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (213 bp):
ATTGACAAGTGGCCAATTACGTGAATGTTTGAAATTAAAATTTGAGATAATATAATTTTTGAACC
TTGAATTAGGTAATTATGTTCATTTCGATATTTATATGTCTTTTGTTCACTTTAGCATTTGAATT
TGACAACTAGATTCATTTTAATCATTAAACTTGGATTCTATCAAGATTTGATAATTTGATTGATG
TTCTTGGAACATGACTTA
Found at i:54923265 original size:64 final size:63
Alignment explanation
Indices: 54923164--54923282 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 63
54923154 GATAATGGAA
* ** *
54923164 TTGGTCGAGTCATTAAGAAGAATAGAAGGTGTATGGATTAACCTCCGAAGTGGGAGTATCGGAT
1 TTGGTAGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACC-CCGAAGTGGGAGTATCGGAT
* *
54923228 TTGGTAGAGTCACAAAGAAGGATAGAAGGTGTGTGGATCAACCCCGAAGTGGGAG
1 TTGGTAGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACCCCGAAGTGGGAG
54923283 GATCCTACGG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 12 0.24
64 37 0.76
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.23
Consensus pattern (63 bp):
TTGGTAGAGTCACAAAGAAGAATAGAAGGTGTATGGATCAACCCCGAAGTGGGAGTATCGGAT
Found at i:54925449 original size:22 final size:22
Alignment explanation
Indices: 54925424--54925465 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
54925414 CATAAGAGAA
54925424 TAAAA-AATAAAAAAAGAAAAGT
1 TAAAAGAAT-AAAAAAGAAAAGT
*
54925446 TAAAAGAATATAAAAGAAAA
1 TAAAAGAATAAAAAAGAAAA
54925466 AATTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (22 bp):
TAAAAGAATAAAAAAGAAAAGT
Found at i:54932755 original size:142 final size:138
Alignment explanation
Indices: 54932550--54932840 Score: 442
Period size: 142 Copynumber: 2.1 Consensus size: 138
54932540 TAAGAAAAAC
54932550 GAAATTTCATACATTTTATTTAATATACATGAATTTTCATGGCATTATCAGTTTTTGGTGAAACT
1 GAAATTTCATACATTTTATTTAATATACATGAATTTTCATGGCATTATCAGTTTTTGGTGAAACT
* *
54932615 AGTAAGAGTACATCTTCGAAGTGAAAAAAAGTTAAAGGATATGAGTAAGTAAGGTAAGAAAGACG
66 AGTAAGAGTACATCTTAGAAATGAAAAAAAGTTAAA-GAT-T---TAAGTAAGGTAAGAAAGACG
*
54932680 ATATTTTTCTTAA
126 AGATTTTTCTTAA
* *
54932693 GAAATTTCATACATTTCT-TTTAATATA-ATGGATTTTCATGGCATTATTAGTTTTTGGTGAAAC
1 GAAATTTCATACATTT-TATTTAATATACATGAATTTTCATGGCATTATCAGTTTTTGGTGAAAC
* * *
54932756 TAGTAAGAGTACATCTTAGAAATGTAAAAAAGTTAGAGATTTGAGTAAGGTAAGAAAGACGAGAT
65 TAGTAAGAGTACATCTTAGAAATGAAAAAAAGTTAAAGATTTAAGTAAGGTAAGAAAGACGAGAT
54932821 TTTTCTTAA
130 TTTTCTTAA
54932830 GAAATTTCATA
1 GAAATTTCATA
54932841 TATGTATATG
Statistics
Matches: 139, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
137 42 0.30
140 1 0.01
141 3 0.02
142 67 0.48
143 25 0.18
144 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (138 bp):
GAAATTTCATACATTTTATTTAATATACATGAATTTTCATGGCATTATCAGTTTTTGGTGAAACT
AGTAAGAGTACATCTTAGAAATGAAAAAAAGTTAAAGATTTAAGTAAGGTAAGAAAGACGAGATT
TTTCTTAA
Found at i:54933239 original size:3 final size:3
Alignment explanation
Indices: 54933231--54933262 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
54933221 CTTTTTTGTT
54933231 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
54933263 TTCTTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:54948365 original size:13 final size:13
Alignment explanation
Indices: 54948349--54948374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54948339 TTGCTTTTTC
54948349 TAATAATATAATA
1 TAATAATATAATA
54948362 TAATAATATAATA
1 TAATAATATAATA
54948375 ATTTTACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:54948526 original size:20 final size:20
Alignment explanation
Indices: 54948484--54948527 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
54948474 ATTTATTTAA
*
54948484 AATATAATAACAATATAATT
1 AATATAATAACAATATAAAT
*
54948504 AATATAATTTACAATA-AAAT
1 AATATAA-TAACAATATAAAT
54948524 AATA
1 AATA
54948528 GCATACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AATATAATAACAATATAAAT
Found at i:54953134 original size:24 final size:23
Alignment explanation
Indices: 54953128--54953171 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
54953118 ATGATATTTG
54953128 AATAATTATATATTAAATATATTA
1 AATAATTA-ATATTAAATATATTA
54953152 AATAATTAATA-TAAAT-TATT
1 AATAATTAATATTAAATATATT
54953172 TATAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 3 0.15
24 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATAATTAATATTAAATATATTA
Found at i:54954348 original size:23 final size:24
Alignment explanation
Indices: 54954322--54954368 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
54954312 AAATTAAATC
54954322 TCTAAGATTATA-AAATCATATCT
1 TCTAAGATTATATAAATCATATCT
* *
54954345 TCTAAGATTGTATATATCATATCT
1 TCTAAGATTATATAAATCATATCT
54954369 AAGATTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTAAGATTATATAAATCATATCT
Found at i:54954371 original size:21 final size:20
Alignment explanation
Indices: 54954345--54954399 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
54954335 AATCATATCT
*
54954345 TCTAAGATTGTATATATCATA
1 TCTAAGATT-TATATATAATA
*
54954366 TCTAAGA-TTACATATAATA
1 TCTAAGATTTATATATAATA
54954385 TCTAAGA-TTATATAT
1 TCTAAGATTTATATAT
54954400 CCTCGAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 23 0.74
20 1 0.03
21 7 0.23
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (20 bp):
TCTAAGATTTATATATAATA
Found at i:54956617 original size:2 final size:2
Alignment explanation
Indices: 54956610--54956656 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
54956600 GCTTAAACTG
* *
54956610 TA TA TA TA T- TA AA TA TA TA TA -A AA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54956649 TA TA TA TA
1 TA TA TA TA
54956657 AAATATGCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:54956627 original size:11 final size:11
Alignment explanation
Indices: 54956611--54956651 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
54956601 CTTAAACTGT
54956611 ATATATATTAA
1 ATATATATTAA
*
54956622 ATATATATAAA
1 ATATATATTAA
*
54956633 ATATATATTAT
1 ATATATATTAA
54956644 ATATATAT
1 ATATATAT
54956652 ATATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATATTAA
Found at i:54956632 original size:26 final size:26
Alignment explanation
Indices: 54956610--54956662 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
54956600 GCTTAAACTG
54956610 TATATA-TAT-TAAATATATATAAAA
1 TATATATTATATAAATATATATAAAA
*
54956634 TATATATTATATATATATATATAAAA
1 TATATATTATATAAATATATATAAAA
54956660 TAT
1 TAT
54956663 GCGTATGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 6 0.23
25 3 0.12
26 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TATATATTATATAAATATATATAAAA
Found at i:54956636 original size:22 final size:22
Alignment explanation
Indices: 54956611--54956652 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
54956601 CTTAAACTGT
54956611 ATATATATTAAATATATATAAA
1 ATATATATTAAATATATATAAA
*
54956633 ATATATATTATATATATATA
1 ATATATATTAAATATATATA
54956653 TATAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATATATTAAATATATATAAA
Found at i:54956662 original size:11 final size:11
Alignment explanation
Indices: 54956611--54956662 Score: 59
Period size: 11 Copynumber: 4.4 Consensus size: 11
54956601 CTTAAACTGT
*
54956611 ATATATATTAA
1 ATATATATAAA
54956622 ATATATATAAA
1 ATATATATAAA
54956633 ATATATATTATATA
1 ATATATA-TA-A-A
54956647 TATATATATAAA
1 -ATATATATAAA
54956659 ATAT
1 ATAT
54956663 GCGTATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
11 21 0.58
12 3 0.08
13 2 0.06
14 3 0.08
15 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATATAAA
Found at i:54964048 original size:24 final size:23
Alignment explanation
Indices: 54964018--54964062 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
54964008 GGGTTTTGCC
54964018 AATTTGGGATTTGGATTGTTTTTT
1 AATTTGGGATTTGG-TTGTTTTTT
*
54964042 AATTTGGGTTTTGGTTGTTTT
1 AATTTGGGATTTGGTTGTTTT
54964063 ATGACCAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (23 bp):
AATTTGGGATTTGGTTGTTTTTT
Found at i:54966538 original size:19 final size:19
Alignment explanation
Indices: 54966490--54966539 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
54966480 TAAATATTAT
* *
54966490 TAAAAATAT-AAAAATTGA
1 TAAAAATATAAAAAAATAA
*
54966508 TATAAACT-TAAAAAAATAA
1 TA-AAAATATAAAAAAATAA
54966527 TAAAAATATAAAA
1 TAAAAATATAAAA
54966540 TATTATAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAATATAAAAAAATAA
Found at i:54966547 original size:18 final size:18
Alignment explanation
Indices: 54966461--54966561 Score: 59
Period size: 18 Copynumber: 5.5 Consensus size: 18
54966451 TTAAAATATC
54966461 ATAAAA-ATTATACAATAA-
1 ATAAAATATTATA-AA-AAT
54966479 AT-AAATATTATTAAAAAT
1 ATAAAATATTA-TAAAAAT
*
54966497 ATAAAA-ATTGATATAAACT
1 ATAAAATATT-ATA-AAAAT
* *
54966516 -TAAAAAAATAATAAAAAT
1 AT-AAAATATTATAAAAAT
* *
54966534 ATAAAATATTATAAGTATT
1 ATAAAATATTATAA-AAAT
54966553 ATAAAATAT
1 ATAAAATAT
54966562 AAAATTCTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
17 5 0.08
18 30 0.45
19 29 0.44
20 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
ATAAAATATTATAAAAAT
Found at i:54966702 original size:13 final size:13
Alignment explanation
Indices: 54966684--54966710 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54966674 ATAAACTTGT
54966684 AAAAATTATAAAA
1 AAAAATTATAAAA
54966697 AAAAATTATAAAA
1 AAAAATTATAAAA
54966710 A
1 A
54966711 CTTGAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:54967023 original size:19 final size:19
Alignment explanation
Indices: 54966990--54967043 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
54966980 GAGTTCAAGT
54966990 TTTTATATATTTTTAAAT-AA
1 TTTT-TATA-TTTTAAATGAA
*
54967010 TTTTTATATGTTTATATGAA
1 TTTTTATAT-TTTAAATGAA
*
54967030 TTTTAATATTTTAA
1 TTTTTATATTTTAA
54967044 TAAATTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
20 14 0.48
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTTATATTTTAAATGAA
Found at i:54967137 original size:7 final size:7
Alignment explanation
Indices: 54967125--54967175 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
54967115 ATATTTATTA
54967125 ATTTTAT
1 ATTTTAT
54967132 ATTTTAT
1 ATTTTAT
*
54967139 ATTATT-G
1 ATT-TTAT
54967146 ATTTTAT
1 ATTTTAT
*
54967153 TTTTTAT
1 ATTTTAT
*
54967160 TTTTTAT
1 ATTTTAT
54967167 AATTTTAT
1 -ATTTTAT
54967175 A
1 A
54967176 AGTTTATAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 2 0.05
7 27 0.73
8 8 0.22
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (7 bp):
ATTTTAT
Found at i:54967149 original size:21 final size:21
Alignment explanation
Indices: 54967119--54967175 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
54967109 TAAATAATAT
54967119 TTATTAATTTTATATTTTATA
1 TTATTAATTTTATATTTTATA
* * *
54967140 TTATTGATTTTATTTTTTATT
1 TTATTAATTTTATATTTTATA
*
54967161 TTTTATAATTTTATA
1 TTAT-TAATTTTATA
54967176 AGTTTATAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTATTAATTTTATATTTTATA
Found at i:54967206 original size:14 final size:15
Alignment explanation
Indices: 54967187--54967216 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54967177 GTTTATAACA
54967187 ATTTTA-ATATTTTT
1 ATTTTATATATTTTT
54967201 ATTTTATATATTTTT
1 ATTTTATATATTTTT
54967216 A
1 A
54967217 ATGATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTATATATTTTT
Found at i:54967206 original size:25 final size:25
Alignment explanation
Indices: 54967178--54967227 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
54967168 ATTTTATAAG
54967178 TTTATAACAATTTTAAT-ATTTTTAT
1 TTTAT-ACAATTTTAATGATTTTTAT
* *
54967203 TTTATATATTTTTAATGATTTTTAT
1 TTTATACAATTTTAATGATTTTTAT
54967228 GAGAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTATACAATTTTAATGATTTTTAT
Found at i:54980576 original size:19 final size:19
Alignment explanation
Indices: 54980526--54980566 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
54980516 GTATAAGGAC
54980526 TAAAATTTAAATTAAAATG
1 TAAAATTTAAATTAAAATG
54980545 TAAAATTTAAATTAAAATG
1 TAAAATTTAAATTAAAATG
54980564 TAA
1 TAA
54980567 GGATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAAATTTAAATTAAAATG
Found at i:54981573 original size:17 final size:17
Alignment explanation
Indices: 54981551--54981584 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54981541 ATCCACTAAT
*
54981551 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
54981568 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
54981585 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:54986211 original size:17 final size:17
Alignment explanation
Indices: 54986189--54986222 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54986179 ATCCACTAAT
*
54986189 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
54986206 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
54986223 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:54988459 original size:20 final size:20
Alignment explanation
Indices: 54988430--54988479 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
54988420 TTACAAAAAC
*
54988430 AAAATT-AAAATAATTT-TCA
1 AAAATTCAAAAT-ATTTATAA
54988449 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATTTATAA
*
54988469 AAAAATCAAAA
1 AAAATTCAAAA
54988480 ATTATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATTCAAAATATTTATAA
Found at i:54988464 original size:19 final size:21
Alignment explanation
Indices: 54988430--54988517 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 21
54988420 TTACAAAAAC
*
54988430 AAAATT-AAAATAATTT-TCA
1 AAAATTCAAAATAATTTATAA
54988449 AAAATTCAAAAT-ATTTATAA
1 AAAATTCAAAATAATTTATAA
* *
54988469 AAAAATCAAAAATTATATTTTTAA
1 AAAATTC-AAAA-TA-ATTTATAA
54988493 AAAATTCTAAAAATAA--TATAA
1 AAAATTC--AAAATAATTTATAA
54988514 AAAA
1 AAAA
54988518 GTTAAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
19 10 0.18
20 13 0.23
21 12 0.21
22 1 0.02
23 1 0.02
24 15 0.26
25 5 0.09
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTCAAAATAATTTATAA
Found at i:54988493 original size:24 final size:25
Alignment explanation
Indices: 54988458--54988511 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
54988448 AAAAATTCAA
54988458 AATATTTATAAAAAAATC-AAAAAT
1 AATATTTATAAAAAAATCTAAAAAT
* * *
54988482 TATATTTTTAAAAAATTCTAAAAAT
1 AATATTTATAAAAAAATCTAAAAAT
54988507 AATAT
1 AATAT
54988512 AAAAAAGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (25 bp):
AATATTTATAAAAAAATCTAAAAAT
Found at i:54993743 original size:20 final size:20
Alignment explanation
Indices: 54993718--54993772 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
54993708 AAATTAATTA
* *
54993718 TTAATATTATTAAAATTCTT
1 TTAATATTATTAAAACTATT
* * *
54993738 TTAATAATATTTAAGCTATT
1 TTAATATTATTAAAACTATT
*
54993758 TTATTATTATTAAAA
1 TTAATATTATTAAAA
54993773 ATAGACTTGT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAATATTATTAAAACTATT
Found at i:55009590 original size:30 final size:30
Alignment explanation
Indices: 55009518--55009603 Score: 75
Period size: 31 Copynumber: 2.9 Consensus size: 30
55009508 GATTAAATCA
* *
55009518 AAATTAAAGTTTTAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * * * *
55009548 ACAATTAGAGTTTCACGTGTATAATTGCACT
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
* *
55009579 AAATTAAAGTTT-ATGTATACAATTG
1 AAATTAAAGTTTCAAGTATATAATTG
55009604 TATATTAAAT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
29 10 0.23
30 11 0.25
31 23 0.52
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:55012246 original size:18 final size:18
Alignment explanation
Indices: 55012223--55012257 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
55012213 TTTGTAAAAA
55012223 GTTTAAACTATAAAAATG
1 GTTTAAACTATAAAAATG
*
55012241 GTTTAATCTATAAAAAT
1 GTTTAAACTATAAAAAT
55012258 TTTCATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (18 bp):
GTTTAAACTATAAAAATG
Found at i:55028764 original size:12 final size:12
Alignment explanation
Indices: 55028749--55028775 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
55028739 CTCATATTAG
55028749 TTTTTATATAAT
1 TTTTTATATAAT
55028761 TTTTTATATAAT
1 TTTTTATATAAT
55028773 TTT
1 TTT
55028776 AAAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:55029016 original size:22 final size:22
Alignment explanation
Indices: 55028969--55029018 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
55028959 CAATAACAAC
* *
55028969 AAAATAGAAGCAATATAATAGT
1 AAAATAGAAGCAAAATAAGAGT
*
55028991 AAAATAGTAGCAAAATAAGGAG-
1 AAAATAGAAGCAAAATAA-GAGT
55029013 AAAATA
1 AAAATA
55029019 ACAAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.16, T:0.18
Consensus pattern (22 bp):
AAAATAGAAGCAAAATAAGAGT
Found at i:55031811 original size:8 final size:8
Alignment explanation
Indices: 55031782--55031832 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
55031772 GTTGAGACCG
*
55031782 AAATTTTA
1 AAATTTAA
*
55031790 AATTTTAGA
1 AAATTTA-A
55031799 AAATTTAA
1 AAATTTAA
55031807 AAA-TTAA
1 AAATTTAA
*
55031814 AATTTTAA
1 AAATTTAA
*
55031822 AATTTTAA
1 AAATTTAA
55031830 AAA
1 AAA
55031833 ATAGGAGGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 6 0.17
8 23 0.64
9 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (8 bp):
AAATTTAA
Found at i:55032899 original size:28 final size:29
Alignment explanation
Indices: 55032863--55032920 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
55032853 TGTTCTTCAA
* * *
55032863 ATTTTT-AAAAAATTTGATTAGATCCCTT
1 ATTTTTAAAAAAATTTCATTAAACCCCTT
55032891 ATTTTTAAAAAAATTTCATTAAACCCCTT
1 ATTTTTAAAAAAATTTCATTAAACCCCTT
55032920 A
1 A
55032921 AAATTTTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTTTTAAAAAAATTTCATTAAACCCCTT
Found at i:55039235 original size:24 final size:24
Alignment explanation
Indices: 55039203--55039252 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
55039193 AGGTCATTGG
55039203 TATCACAAGTCTTCCTCCTCTTTT
1 TATCACAAGTCTTCCTCCTCTTTT
55039227 TATCACAAGTCTTCCTCCTCTTTT
1 TATCACAAGTCTTCCTCCTCTTTT
55039251 TA
1 TA
55039253 GTCTCGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.32, G:0.04, T:0.46
Consensus pattern (24 bp):
TATCACAAGTCTTCCTCCTCTTTT
Found at i:55044694 original size:13 final size:13
Alignment explanation
Indices: 55044676--55044701 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55044666 ACCTGGTCAC
55044676 CTACTTTTATAAT
1 CTACTTTTATAAT
55044689 CTACTTTTATAAT
1 CTACTTTTATAAT
55044702 GTTATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
CTACTTTTATAAT
Found at i:55055303 original size:21 final size:21
Alignment explanation
Indices: 55055277--55055317 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55055267 AGACGAGCAA
* *
55055277 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
55055298 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
55055318 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:55060366 original size:27 final size:27
Alignment explanation
Indices: 55060321--55060382 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
55060311 TTTAGTCCTA
*
55060321 TGCCGCCTCTGGCAAAGGCACCTTTGG
1 TGCCGCCTCTGCCAAAGGCACCTTTGG
*
55060348 TGCCGCCTCTGCCACAGGCACCTTTGG
1 TGCCGCCTCTGCCAAAGGCACCTTTGG
*
55060375 TGCTGCCT
1 TGCCGCCT
55060383 GTGGCATCCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.11, C:0.37, G:0.27, T:0.24
Consensus pattern (27 bp):
TGCCGCCTCTGCCAAAGGCACCTTTGG
Found at i:55072872 original size:24 final size:24
Alignment explanation
Indices: 55072845--55072894 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
55072835 CTTACTAATC
55072845 GAACAATTCCAAACTACAACCGAG
1 GAACAATTCCAAACTACAACCGAG
*
55072869 GAACAATTCCAAACTACAATCGAG
1 GAACAATTCCAAACTACAACCGAG
55072893 GA
1 GA
55072895 TACGGGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (24 bp):
GAACAATTCCAAACTACAACCGAG
Found at i:55073732 original size:28 final size:28
Alignment explanation
Indices: 55073697--55073758 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
55073687 AAAAAAATAT
**
55073697 TTTTTTGGGGGTTAGAATTGAATTTTAA
1 TTTTTTGGGGGTTAGAATTGAATGGTAA
*
55073725 TTTTTTGGGTGTTAGAATTGAATGGTAA
1 TTTTTTGGGGGTTAGAATTGAATGGTAA
55073753 TTTTTT
1 TTTTTT
55073759 TAGGTCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.24, T:0.53
Consensus pattern (28 bp):
TTTTTTGGGGGTTAGAATTGAATGGTAA
Found at i:55074163 original size:17 final size:17
Alignment explanation
Indices: 55074136--55074179 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
55074126 TAAAATGTAT
55074136 TAATATTGAACTTAAACA
1 TAAT-TTGAACTTAAACA
*
55074154 TAATTTGAACTTAATCA
1 TAATTTGAACTTAAACA
*
55074171 TAATATGAA
1 TAATTTGAA
55074180 TACATGGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (17 bp):
TAATTTGAACTTAAACA
Found at i:55079092 original size:2 final size:2
Alignment explanation
Indices: 55079085--55079124 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
55079075 GGTTTCAATT
55079085 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
55079125 CCCCCCCTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:55080460 original size:3 final size:3
Alignment explanation
Indices: 55080452--55080538 Score: 174
Period size: 3 Copynumber: 29.0 Consensus size: 3
55080442 AAATGCTACA
55080452 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
55080500 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
55080539 AACATATTAG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:55082542 original size:16 final size:17
Alignment explanation
Indices: 55082512--55082551 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
55082502 TAAAAGTCTA
55082512 AAAAATATATATTTAAT
1 AAAAATATATATTTAAT
* *
55082529 AAAAGTATAT-TTTATT
1 AAAAATATATATTTAAT
55082545 AAAAATA
1 AAAAATA
55082552 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAAATATATATTTAAT
Found at i:55082574 original size:5 final size:6
Alignment explanation
Indices: 55082544--55082572 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
55082534 TATATTTTAT
55082544 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAA
55082573 TATTTAATAT
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:55084936 original size:31 final size:31
Alignment explanation
Indices: 55084900--55084959 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
55084890 TTACGAAATG
55084900 GTCACTGAACTATTTGAAAGTTTTCATTTAA
1 GTCACTGAACTATTTGAAAGTTTTCATTTAA
*
55084931 GTCACTGAACTATTTGAAAGTTTTTATTT
1 GTCACTGAACTATTTGAAAGTTTTCATTT
55084960 GAGCCGCTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (31 bp):
GTCACTGAACTATTTGAAAGTTTTCATTTAA
Found at i:55086607 original size:31 final size:32
Alignment explanation
Indices: 55086572--55086652 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
55086562 TTGGGTTCAA
* **
55086572 AACTAAAATTTTA-AAATTTGAAAAATACAAG
1 AACTAAAATTTGACAAATTCAAAAAATACAAG
* *
55086603 AACTAAAA-TTGACCAATTCAAAAAATACAGG
1 AACTAAAATTTGACAAATTCAAAAAATACAAG
55086634 AACTAAAA-TTGATCAAATT
1 AACTAAAATTTGA-CAAATT
55086653 AAAGTATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.07
31 34 0.81
32 5 0.12
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (32 bp):
AACTAAAATTTGACAAATTCAAAAAATACAAG
Found at i:55090943 original size:223 final size:223
Alignment explanation
Indices: 55090543--55090981 Score: 621
Period size: 223 Copynumber: 2.0 Consensus size: 223
55090533 AACATGCTAG
* * * *
55090543 CATCACTAACTCATGAAACTCTTTCCTTAAAATATTAGTATCTCACTAAATCTTGATTTTCTCTC
1 CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
* ** * *
55090608 TCCTCTAACATGAACATACAACTTTTCCACTTGAATATAACCTTTCTATATTGTTCTAAACTTAA
66 TCCTCTAACATGAACATACAACCTCGCCACTTGAATATAACATTGCTATATTGTTCTAAACTTAA
*
55090673 TTCCACTAAGAATTTCAATGGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
131 TTCCACTAAGAATTTCAATAGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
*
55090738 GAGACTAAACTGTAAGGAAATGAGTTAA
196 GAGACCAAACTGTAAGGAAATGAGTTAA
* * *
55090766 CATCACTAACTCATGAAAGTCTTACCTTAAACCCTTAGTATATCACTAAATCTTAATTTTCTCTC
1 CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
* * *
55090831 TCCTTTAACATGAACATACAACCTCGCCACTTGAATATAACATTGCTATGTTGTTGTAAACTTAA
66 TCCTCTAACATGAACATACAACCTCGCCACTTGAATATAACATTGCTATATTGTTCTAAACTTAA
* * * * *
55090896 TTTCA-TAAAGAATTTCAATAG-AATTTTGGTGGTTTTTGGCTAAGGTTTGATGGCTATCGTGAA
131 TTCCACT-AAGAATTTCAATAGAAATTTT-GTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAA
* * *
55090959 GAGGGACCAAATTGTAAGGAAAT
194 AAGAGACCAAACTGTAAGGAAAT
55090982 AAAATTTTCC
Statistics
Matches: 189, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
222 7 0.04
223 182 0.96
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (223 bp):
CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
TCCTCTAACATGAACATACAACCTCGCCACTTGAATATAACATTGCTATATTGTTCTAAACTTAA
TTCCACTAAGAATTTCAATAGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
GAGACCAAACTGTAAGGAAATGAGTTAA
Found at i:55091832 original size:223 final size:223
Alignment explanation
Indices: 55091432--55091870 Score: 612
Period size: 223 Copynumber: 2.0 Consensus size: 223
55091422 AACATGCTAG
* * * *
55091432 CATCACTAACTCATGAAACTCTTTCCTTAAAATATTAGTATCTCACTAAATCTTGATTTTCTCTC
1 CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
* ** * * *
55091497 TCCTCTAACATGAACATACAACTTTTCCACTTGAATATAACCTTTCTATATTGTTCTAAACTTAA
66 TCCTCTAACATGAACATACAACCTCGCCACTTGAATATAACATTGCTATACTGTTCTAAACTTAA
*
55091562 TTCCACTAAGAATTTCAATGGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
131 TTCCACTAAGAATTTCAATAGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
*
55091627 GAGACTAAACTGTAAGGAAATGAGTTAA
196 GAGACCAAACTGTAAGGAAATGAGTTAA
* * *
55091655 CATCACTAACTCATGAAAGTCTTACCTTAAACCCTTAGTATATCACTAAATCTTAATTTTCTCTC
1 CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
* * *
55091720 TCCTTTAACATGAACATACAACCTCGCCACTTGAATATAACATTGCTATGCTGTTGTAAACTTAA
66 TCCTCTAACATGAACATACAACCTCGCCACTTGAATATAACATTGCTATACTGTTCTAAACTTAA
* * * * *
55091785 TTTCA-TAAAGAATTTCAATAG-AATTTTGGTGGTTTTTGGCTAAGGTTTGATGGCTATCGTGAA
131 TTCCACT-AAGAATTTCAATAGAAATTTT-GTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAA
* * *
55091848 GAGGGACCAAATTGTAAGGAAAT
194 AAGAGACCAAACTGTAAGGAAAT
55091871 AAAATTTTCC
Statistics
Matches: 188, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
222 7 0.04
223 181 0.96
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.35
Consensus pattern (223 bp):
CATCACTAACTCATGAAACTCTTACCTTAAAACATTAGTATATCACTAAATCTTAATTTTCTCTC
TCCTCTAACATGAACATACAACCTCGCCACTTGAATATAACATTGCTATACTGTTCTAAACTTAA
TTCCACTAAGAATTTCAATAGAAATTTTGTGGTTTCTGACAAAGGTTTGATAGCTATCGTGAAAA
GAGACCAAACTGTAAGGAAATGAGTTAA
Found at i:55124765 original size:12 final size:12
Alignment explanation
Indices: 55124748--55124793 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
55124738 TCACCTCCTT
55124748 CACCATCACCAC
1 CACCATCACCAC
* *
55124760 CACCATCATCAT
1 CACCATCACCAC
*
55124772 CATCATCACCAC
1 CACCATCACCAC
*
55124784 CACCTTCACC
1 CACCATCACC
55124794 TCCTCCTCCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.17
Consensus pattern (12 bp):
CACCATCACCAC
Found at i:55124798 original size:3 final size:3
Alignment explanation
Indices: 55124792--55124822 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
55124782 ACCACCTTCA
*
55124792 CCT CCT CCT CCT CCT TCT CCT CCT CCT CCT C
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT C
55124823 AGGAACAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CCT
Found at i:55124943 original size:39 final size:39
Alignment explanation
Indices: 55124889--55124968 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
55124879 TCACCGTCAC
* *
55124889 CATCACCGCCACCTCCTAAG-AAACAATCATTATCACCTT
1 CATCACCGCCACCTCCTAAGCAAA-AATCATCACCACCTT
* *
55124928 CATCACCTCCTCCTCCTAAGCAAAAATCATCACCACCTT
1 CATCACCGCCACCTCCTAAGCAAAAATCATCACCACCTT
55124967 CA
1 CA
55124969 GATAGCTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 33 0.92
40 3 0.08
ACGTcount: A:0.33, C:0.41, G:0.04, T:0.23
Consensus pattern (39 bp):
CATCACCGCCACCTCCTAAGCAAAAATCATCACCACCTT
Found at i:55134731 original size:101 final size:101
Alignment explanation
Indices: 55134551--55134790 Score: 372
Period size: 101 Copynumber: 2.4 Consensus size: 101
55134541 AATTCATCCT
* * * * *
55134551 TTACATTCATAGTGCCATAACCCATTTATGGTATTATCATCAAAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAACCCAGCTATGAT
* *
55134616 CTTACATATAAACACTGTCATGGTCTAACCATGGCC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGCC
* * *
55134652 TTACGTTCATAGTGCCATAACCCAGTTATAGTCTTATCATCAGAATGTCATAACCCAGCTATGAT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAACCCAGCTATGAT
*
55134717 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGCC
*
55134753 TCACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
55134791 CGTCAATTCA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 126 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAACCCAGCTATGAT
CTTACATATAAACACTGCCATGGTCCAACCATGGCC
Found at i:55136763 original size:12 final size:11
Alignment explanation
Indices: 55136731--55136764 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
55136721 CTTTCCTTAT
55136731 ATAATAAACAAA
1 ATAATAAA-AAA
*
55136743 ATAATAAAATA
1 ATAATAAAAAA
55136754 ATAATAAAAAA
1 ATAATAAAAAA
55136765 TCTCATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 12 0.60
12 8 0.40
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAATAAAAAA
Found at i:55139117 original size:33 final size:33
Alignment explanation
Indices: 55139075--55139144 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
55139065 TTCAATGTTT
* *
55139075 CCATTTCCATGGA-TTCTAAATCCTCTAAGATCC
1 CCATTTCCATGCACTT-TAAATCCTCTAACATCC
*
55139108 CCATTTCCATGCACTTTAAATCCTTTAACATCC
1 CCATTTCCATGCACTTTAAATCCTCTAACATCC
55139141 CCAT
1 CCAT
55139145 GCTTTCCAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.27, C:0.33, G:0.06, T:0.34
Consensus pattern (33 bp):
CCATTTCCATGCACTTTAAATCCTCTAACATCC
Found at i:55139873 original size:41 final size:43
Alignment explanation
Indices: 55139806--55139893 Score: 153
Period size: 41 Copynumber: 2.1 Consensus size: 43
55139796 TAGTTTTACA
*
55139806 ATTTCGATTTTTTTTTTGTATGATCAAAGTATCATTCATATTT
1 ATTTCGATTTTTTTTTTGTATAATCAAAGTATCATTCATATTT
55139849 ATTTCGA-TTTTTTTTT-TATAATCAAAGTATCATTCATATTT
1 ATTTCGATTTTTTTTTTGTATAATCAAAGTATCATTCATATTT
55139890 ATTT
1 ATTT
55139894 TATGGTCAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 28 0.64
42 9 0.20
43 7 0.16
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (43 bp):
ATTTCGATTTTTTTTTTGTATAATCAAAGTATCATTCATATTT
Found at i:55156105 original size:23 final size:23
Alignment explanation
Indices: 55156079--55156123 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
55156069 CCTTTGATAC
* *
55156079 TTTTATTTTTTTTGGAATTTAAT
1 TTTTATGTTTTTTAGAATTTAAT
* *
55156102 TTTTCTGTTTTTTAGATTTTAA
1 TTTTATGTTTTTTAGAATTTAA
55156124 AATTTAAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.69
Consensus pattern (23 bp):
TTTTATGTTTTTTAGAATTTAAT
Found at i:55161481 original size:7 final size:7
Alignment explanation
Indices: 55161465--55161500 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
55161455 AAAAATTAAA
55161465 ATCAAA-
1 ATCAAAT
*
55161471 ATCAGAT
1 ATCAAAT
55161478 ATCAAAT
1 ATCAAAT
55161485 ATCAAAT
1 ATCAAAT
55161492 ATCAAAT
1 ATCAAAT
55161499 AT
1 AT
55161501 TATACTCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.28
Consensus pattern (7 bp):
ATCAAAT
Found at i:55166276 original size:20 final size:20
Alignment explanation
Indices: 55166239--55166277 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
55166229 GTAATTTTTA
* * *
55166239 AAATTTTAGGATTTAGTCTT
1 AAATTTAAGAATTCAGTCTT
55166259 AAATTTAAGAATTCAGTCT
1 AAATTTAAGAATTCAGTCT
55166278 CTATATTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (20 bp):
AAATTTAAGAATTCAGTCTT
Done.