Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 272 of 343
Found at i:90335741 original size:89 final size:87
Alignment explanation
Indices: 90335592--90335765 Score: 267
Period size: 89 Copynumber: 2.0 Consensus size: 87
90335582 TTTTATCAAA
* * * * **
90335592 TCACCGGCATTTCGCCTGCTAGGCTCGAGGCCCGAATAGTGTCTCACTGGCATTATAGCCTACTA
1 TCACCGGCATTTAGCCTGCTAGGCTCAAGGCCCGAATAATATCTCACCAGCATTATAGCCTACTA
90335657 GGCTCAAGGCCCGAATAGTATC
66 GGCTCAAGGCCCGAATAGTATC
*
90335679 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCAGCATTATAGCCTGC
1 TCACCGGCATT-TAGCCTGCTAGGCTC-AAGGCCCGAATAATATCTCACCAGCATTATAGCCTAC
90335744 TAGGCTCAAGGCCCGAATAGTA
64 TAGGCTCAAGGCCCGAATAGTA
90335766 CTGTATAATA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 11 0.14
88 14 0.18
89 53 0.68
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (87 bp):
TCACCGGCATTTAGCCTGCTAGGCTCAAGGCCCGAATAATATCTCACCAGCATTATAGCCTACTA
GGCTCAAGGCCCGAATAGTATC
Found at i:90338811 original size:21 final size:21
Alignment explanation
Indices: 90338787--90338828 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
90338777 TTCGGGAGAA
90338787 TTCTCATCTTTTGAGAGCTAG
1 TTCTCATCTTTTGAGAGCTAG
90338808 TTCTCATCTTTTGAGAGCTAG
1 TTCTCATCTTTTGAGAGCTAG
90338829 GCTAACTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (21 bp):
TTCTCATCTTTTGAGAGCTAG
Found at i:90339431 original size:27 final size:27
Alignment explanation
Indices: 90339393--90339445 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
90339383 ATAAATGAAG
*
90339393 TATGCAATATTTTAATACGATCCAACT
1 TATGCAACATTTTAATACGATCCAACT
*
90339420 TATGCAACATTTTAATACGATTCAAC
1 TATGCAACATTTTAATACGATCCAAC
90339446 CTTGTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (27 bp):
TATGCAACATTTTAATACGATCCAACT
Found at i:90340685 original size:8 final size:8
Alignment explanation
Indices: 90340667--90340700 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
90340657 TTATGTGTTC
90340667 TTTATTTT
1 TTTATTTT
90340675 TTT-TATTT
1 TTTAT-TTT
90340683 TTTATTTT
1 TTTATTTT
90340691 TTTATTTT
1 TTTATTTT
90340699 TT
1 TT
90340701 CACAAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 1 0.04
8 22 0.92
9 1 0.04
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:90340692 original size:15 final size:16
Alignment explanation
Indices: 90340667--90340700 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
90340657 TTATGTGTTC
90340667 TTTATTTTTTTTATTT
1 TTTATTTTTTTTATTT
90340683 TTTA-TTTTTTTATTT
1 TTTATTTTTTTTATTT
90340698 TTT
1 TTT
90340701 CACAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTATTTTTTTTATTT
Found at i:90345047 original size:8 final size:9
Alignment explanation
Indices: 90345029--90345056 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
90345019 TTATGTGTTC
90345029 TTTATTTTT
1 TTTATTTTT
90345038 TTTATTTTT
1 TTTATTTTT
90345047 TTTATTTTT
1 TTTATTTTT
90345056 T
1 T
90345057 CACAAAACCA
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:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:90348327 original size:24 final size:24
Alignment explanation
Indices: 90348299--90348353 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
90348289 CTGTATAACG
* *
90348299 GGAAGCTCATAAGAGCTATAATTA
1 GGAAGCTCATAAGAGCCATAATCA
90348323 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
*
90348347 GAAAGCT
1 GGAAGCT
90348354 TATGCGAGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:90348492 original size:26 final size:26
Alignment explanation
Indices: 90348456--90348515 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
90348446 GAAGCTCTAG
90348456 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* ** * *
90348482 AGAGCCTTTAATCGGGAAGTTCACGA
1 AGAGCCATTAATCAAGAAGCTCACAA
90348508 AGAGCCAT
1 AGAGCCAT
90348516 ATATTGGGAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:90350053 original size:16 final size:17
Alignment explanation
Indices: 90350016--90350056 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
90350006 ATCTCATAAA
*
90350016 AGAGTCCGCCAGACCCT
1 AGAGTTCGCCAGACCCT
*
90350033 AGAGTTCGCCA-ACCTT
1 AGAGTTCGCCAGACCCT
90350049 AGAGTTCG
1 AGAGTTCG
90350057 TCAAATGGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (17 bp):
AGAGTTCGCCAGACCCT
Found at i:90352872 original size:15 final size:16
Alignment explanation
Indices: 90352854--90352883 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
90352844 TTATATATTA
90352854 TATTTTTAAA-AAAAT
1 TATTTTTAAATAAAAT
90352869 TATTTTTAAATAAAA
1 TATTTTTAAATAAAA
90352884 CTAATCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTTTAAATAAAAT
Found at i:90354724 original size:16 final size:16
Alignment explanation
Indices: 90354703--90354735 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90354693 TATAATCATT
90354703 TTAAATTACTAG-TATA
1 TTAAATTA-TAGATATA
90354719 TTAAATTATAGATATA
1 TTAAATTATAGATATA
90354735 T
1 T
90354736 ATTAGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
TTAAATTATAGATATA
Found at i:90355127 original size:22 final size:22
Alignment explanation
Indices: 90355072--90355151 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
90355062 TTCCACTTTT
* *
90355072 TCAATTCACTCTCAA-CTTTCTC
1 TCAATTCATTCTCAATC-CTCTC
90355094 TCAATTCATTCTCAATCCTCTC
1 TCAATTCATTCTCAATCCTCTC
* * * *
90355116 TCAATTCTTTCTTAATTCTCAC
1 TCAATTCATTCTCAATCCTCTC
*
90355138 TCAACTCAATTCTC
1 TCAATTC-ATTCTC
90355152 TCAGTTCACT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 42 0.89
23 5 0.11
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCATTCTCAATCCTCTC
Found at i:90355533 original size:34 final size:34
Alignment explanation
Indices: 90355490--90355557 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
90355480 TTTTTACACG
90355490 TGCCGTATGGGTAGGGGTTATAAATTGGGCCCCA
1 TGCCGTATGGGTAGGGGTTATAAATTGGGCCCCA
90355524 TGCCGTATGGGTAGGGGTTATAAATTGGGCCCCA
1 TGCCGTATGGGTAGGGGTTATAAATTGGGCCCCA
90355558 CACTTAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.26
Consensus pattern (34 bp):
TGCCGTATGGGTAGGGGTTATAAATTGGGCCCCA
Found at i:90361958 original size:105 final size:105
Alignment explanation
Indices: 90361762--90362030 Score: 443
Period size: 105 Copynumber: 2.6 Consensus size: 105
90361752 TAACCGTTAT
* **
90361762 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
90361827 AATCAGCATCATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCATCATAGCAACCCCCTTTCACATTTCAAAGATA
*
90361867 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
90361932 AATCAGCA-CATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCATCATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
90361972 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
90362031 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
104 13 0.08
105 140 0.91
106 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCATCATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:90362390 original size:29 final size:29
Alignment explanation
Indices: 90362357--90362420 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
90362347 TAATCCACCA
90362357 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
90362386 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
90362416 CCCAA
1 CCCAA
90362421 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:90362394 original size:30 final size:30
Alignment explanation
Indices: 90362364--90362420 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
90362354 CCACCCAACT
90362364 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
90362393 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
90362421 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:90369410 original size:26 final size:26
Alignment explanation
Indices: 90369380--90369430 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
90369370 ACCAATGAAC
*
90369380 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
90369406 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
90369431 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:90369437 original size:104 final size:104
Alignment explanation
Indices: 90369243--90369509 Score: 439
Period size: 104 Copynumber: 2.6 Consensus size: 104
90369233 TAACCGTTAT
* **
90369243 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
90369308 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
90369347 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
90369411 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
* **
90369451 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
90369510 TTATATACAA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
103 25 0.16
104 127 0.83
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:90369868 original size:29 final size:29
Alignment explanation
Indices: 90369835--90369898 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
90369825 TAATCCACCA
90369835 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
90369864 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
90369894 CCCAA
1 CCCAA
90369899 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:90369872 original size:30 final size:30
Alignment explanation
Indices: 90369842--90369898 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
90369832 CCACCCAACT
90369842 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
90369871 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
90369899 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:90393791 original size:54 final size:54
Alignment explanation
Indices: 90393709--90393951 Score: 432
Period size: 54 Copynumber: 4.5 Consensus size: 54
90393699 CATCTTACGG
* *
90393709 CGGGATTACTAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAAAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
90393763 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
90393817 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
* * *
90393871 CGGGATTACCAGTCTAGGCTAAATCCCCTGTAGTATTAACTCATAGAGCATTGG
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
*
90393925 CGGGATTACCAGTTCAGGCTAAATCCC
1 CGGGATTACCAGTCCAGGCTAAATCCC
90393952 ATTTAACGAC
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 182 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTATTAACTCATAGAGCATTGT
Found at i:90397334 original size:20 final size:20
Alignment explanation
Indices: 90397319--90397357 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
90397309 TCGAGCTCTA
90397319 TCCAGCTCATTTGAGCTCAT
1 TCCAGCTCATTTGAGCTCAT
* *
90397339 TTCAGCTCGTTTGAGCTCA
1 TCCAGCTCATTTGAGCTCA
90397358 ACTAAGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (20 bp):
TCCAGCTCATTTGAGCTCAT
Found at i:90397335 original size:10 final size:10
Alignment explanation
Indices: 90397322--90397357 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
90397312 AGCTCTATCC
90397322 AGCTCATTTG
1 AGCTCATTTG
*
90397332 AGCTCATTTC
1 AGCTCATTTG
*
90397342 AGCTCGTTTG
1 AGCTCATTTG
90397352 AGCTCA
1 AGCTCA
90397358 ACTAAGCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:90397365 original size:20 final size:20
Alignment explanation
Indices: 90397322--90397365 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
90397312 AGCTCTATCC
** *
90397322 AGCTCATTTGAGCTCATTTC
1 AGCTCATTTGAGCTCAACTA
*
90397342 AGCTCGTTTGAGCTCAACTA
1 AGCTCATTTGAGCTCAACTA
90397362 AGCT
1 AGCT
90397366 TACTCTCAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (20 bp):
AGCTCATTTGAGCTCAACTA
Found at i:90403404 original size:30 final size:30
Alignment explanation
Indices: 90403368--90403427 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
90403358 TAAGAGTAAA
90403368 TTTGTCATAATTAAGCAGAGTTGATTGCAC
1 TTTGTCATAATTAAGCAGAGTTGATTGCAC
*
90403398 TTTGTCATAATTAAGCGGAGTTGATTGCAC
1 TTTGTCATAATTAAGCAGAGTTGATTGCAC
90403428 CCTAGAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (30 bp):
TTTGTCATAATTAAGCAGAGTTGATTGCAC
Found at i:90413248 original size:54 final size:54
Alignment explanation
Indices: 90413158--90413291 Score: 205
Period size: 54 Copynumber: 2.5 Consensus size: 54
90413148 ATCTTACTGT
* *
90413158 GGGATTACCAGTCCAGGCTAAATCCCCTATAGTATTAACTAATTGAGCATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCCATAGTATTAACTAATAGAGCATTGTC
* * *
90413212 GGGATTACCAGTCTAGGCTAAATCCCCCATATTATTAACTCATAGAGCATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCCATAGTATTAACTAATAGAGCATTGTC
* *
90413266 AGGATTACCAATCCAGGCTAAATCCC
1 GGGATTACCAGTCCAGGCTAAATCCC
90413292 TTTTAACGAC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCCATAGTATTAACTAATAGAGCATTGTC
Found at i:90418375 original size:12 final size:12
Alignment explanation
Indices: 90418340--90418381 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
90418330 AGAGAAAGGA
*
90418340 TAAAAAAATAAT
1 TAAAAATATAAT
*
90418352 T-AAAAT-TTAT
1 TAAAAATATAAT
90418362 TAAAAATATAAT
1 TAAAAATATAAT
90418374 TAAAAATA
1 TAAAAATA
90418382 AATAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 4 0.16
11 9 0.36
12 12 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAAATATAAT
Found at i:90418387 original size:22 final size:22
Alignment explanation
Indices: 90418339--90418396 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
90418329 AAGAGAAAGG
* * *
90418339 ATAAAAAAATAATTAAAATTTA
1 ATAAAAATATAATTAAAAATAA
*
90418361 TTAAAAATATAATTAAAAATAA
1 ATAAAAATATAATTAAAAATAA
90418383 ATAAATTAATATAA
1 ATAAA--AATATAA
90418397 AAATGCATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 22 0.76
24 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAAAATATAATTAAAAATAA
Found at i:90420410 original size:20 final size:20
Alignment explanation
Indices: 90420387--90420429 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
90420377 AAATCCAAAT
90420387 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* *
90420407 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
90420427 TAA
1 TAA
90420430 GAACACTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:90421434 original size:75 final size:75
Alignment explanation
Indices: 90421340--90421496 Score: 205
Period size: 75 Copynumber: 2.1 Consensus size: 75
90421330 TATGTGATGT
* * *
90421340 TATTTTTTGGTATGTATAATAAAATAATAATTTTATTTTTGTAATTATAATGTTTTTTT-G-GAA
1 TATTTTTTGGTATGAATAATAAAATAATAATTTTATTTTTATAATAAT-AT-TTTTTTTGGTGAA
90421403 TAAA-ATAGTTTAG
64 TAAACA-A-TTTAG
* *
90421416 TATTTTTT-GTATGAATAATAAAATATTAATTTTATTTTTATAGTAATATTTTTTTTGGTGAATA
1 TATTTTTTGGTATGAATAATAAAATAATAATTTTATTTTTATAATAATATTTTTTTTGGTGAATA
90421480 AACAATTTAG
66 AACAATTTAG
90421490 TATTTTT
1 TATTTTT
90421497 GGGAGAAGAG
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
73 7 0.10
74 15 0.21
75 42 0.58
76 9 0.12
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.54
Consensus pattern (75 bp):
TATTTTTTGGTATGAATAATAAAATAATAATTTTATTTTTATAATAATATTTTTTTTGGTGAATA
AACAATTTAG
Found at i:90422516 original size:38 final size:36
Alignment explanation
Indices: 90422439--90422522 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
90422429 GTAATTTTGT
* ***
90422439 TGCTGGTAAATTGTTGCTTATGTTAGTATACAAGCC
1 TGCTGGTATATTGTTGCTTAACATAGTATACAAGCC
* *
90422475 TGCTGGTATATTGTTGCTTAACATATGTTATACATGGC
1 TGCTGGTATATTGTTGCTTAACATA-G-TATACAAGCC
90422513 TGCTGGTATA
1 TGCTGGTATA
90422523 CATGGCTAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 21 0.52
37 1 0.03
38 18 0.45
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (36 bp):
TGCTGGTATATTGTTGCTTAACATAGTATACAAGCC
Found at i:90422816 original size:7 final size:7
Alignment explanation
Indices: 90422804--90422828 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
90422794 ATATATGTAT
90422804 TTCTCAA
1 TTCTCAA
90422811 TTCTCAA
1 TTCTCAA
90422818 TTCTCAA
1 TTCTCAA
90422825 TTCT
1 TTCT
90422829 TACACATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (7 bp):
TTCTCAA
Found at i:90424141 original size:40 final size:40
Alignment explanation
Indices: 90424081--90424187 Score: 169
Period size: 40 Copynumber: 2.7 Consensus size: 40
90424071 ATTATAAAAA
*
90424081 AATACTCACTGCATGCATATTAAAAAATAGCCAACACACC
1 AATAATCACTGCATGCATATTAAAAAATAGCCAACACACC
* *
90424121 AATAATCACTGCATGCATATTAATAAATAGTCAACACACC
1 AATAATCACTGCATGCATATTAAAAAATAGCCAACACACC
* *
90424161 AACAATCAGTGCATGCATATTAAAAAA
1 AATAATCACTGCATGCATATTAAAAAA
90424188 CATTTACTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (40 bp):
AATAATCACTGCATGCATATTAAAAAATAGCCAACACACC
Found at i:90425781 original size:15 final size:15
Alignment explanation
Indices: 90425761--90425806 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
90425751 GATGCATCAC
*
90425761 TATCACTACCTGACA
1 TATCACTACCAGACA
90425776 TATCACTACCAGACA
1 TATCACTACCAGACA
* * *
90425791 CATCATTACTAGACA
1 TATCACTACCAGACA
90425806 T
1 T
90425807 GTTTTCTTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (15 bp):
TATCACTACCAGACA
Found at i:90426320 original size:6 final size:6
Alignment explanation
Indices: 90426311--90426386 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
90426301 AAATAACCCT
* * * * * *
90426311 AAATCG AAATCG AAATCC AAATCA AAATCA AAATC- AAATTCT AATTCT
1 AAATCG AAATCG AAATCG AAATCG AAATCG AAATCG AAA-TCG AAATCG
* *
90426359 AAATCG AGATCG AGATCG AAATCG AAAT
1 AAATCG AAATCG AAATCG AAATCG AAAT
90426387 TGTATCAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
5 3 0.05
6 56 0.92
7 2 0.03
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (6 bp):
AAATCG
Found at i:90426442 original size:18 final size:18
Alignment explanation
Indices: 90426421--90426463 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
90426411 AGTGAGTGTT
* *
90426421 TCAAAATTGTAATAAAAA
1 TCAAAATAGAAATAAAAA
*
90426439 TCAAAATAGAAATCAAAA
1 TCAAAATAGAAATAAAAA
90426457 TCAAAAT
1 TCAAAAT
90426464 CAAAACCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (18 bp):
TCAAAATAGAAATAAAAA
Found at i:90426446 original size:12 final size:12
Alignment explanation
Indices: 90426431--90426468 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
90426421 TCAAAATTGT
90426431 AATAAAAATCAA
1 AATAAAAATCAA
*
90426443 AATAGAAATCAA
1 AATAAAAATCAA
*
90426455 AATCAAAATCAA
1 AATAAAAATCAA
90426467 AA
1 AA
90426469 CCGAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.16
Consensus pattern (12 bp):
AATAAAAATCAA
Found at i:90426457 original size:6 final size:6
Alignment explanation
Indices: 90426435--90426468 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
90426425 AATTGTAATA
90426435 AAAATC AAAAT- AGAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC A-AAATC AAAATC AAAATC AAAA
90426469 CCGAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 24 0.92
7 1 0.04
ACGTcount: A:0.71, C:0.12, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:90426475 original size:12 final size:12
Alignment explanation
Indices: 90426436--90426493 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
90426426 ATTGTAATAA
*
90426436 AAATCAAAATAG
1 AAATCAAAATCG
*
90426448 AAATCAAAATCA
1 AAATCAAAATCG
*
90426460 AAATCAAAACCG
1 AAATCAAAATCG
* *
90426472 AAATTAAAATTG
1 AAATCAAAATCG
*
90426484 AAACCAAAAT
1 AAATCAAAAT
90426494 AACCTTAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (12 bp):
AAATCAAAATCG
Found at i:90426475 original size:18 final size:18
Alignment explanation
Indices: 90426435--90426493 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
90426425 AATTGTAATA
*
90426435 AAAATCAAAATAGAAATC
1 AAAATCAAAATAGAAACC
90426453 AAAATCAAAATCA-AAACC
1 AAAATCAAAAT-AGAAACC
* * *
90426471 GAAATTAAAATTGAAACC
1 AAAATCAAAATAGAAACC
90426489 AAAAT
1 AAAAT
90426494 AACCTTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 33 0.97
19 1 0.03
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAATCAAAATAGAAACC
Found at i:90434372 original size:24 final size:23
Alignment explanation
Indices: 90434296--90434390 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
90434286 ATGTGTGTAT
* *
90434296 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
90434319 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
90434342 CTATTCATATTCAAGTTTTTTTCA
1 CTTTTCATATTCAAG-TCTCTTCA
90434366 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
90434389 CT
1 CT
90434391 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
23 41 0.67
24 20 0.33
ACGTcount: A:0.22, C:0.25, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:90436469 original size:71 final size:71
Alignment explanation
Indices: 90436353--90436494 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
90436343 ATGCATTTCT
90436353 CTGACTTGTCATCCAACTTGCTTCTCATTGCATCTGGAATATGAGAGTAGGCAACACTCCCAAAT
1 CTGACTTGTCATCCAACTTGCTTCTCATTGCATCTGGAATATGAGAGTAGGCAACACTCCCAAAT
90436418 ACTCTA
66 ACTCTA
90436424 CTGACTTGTCATCCAACTTGCTTCTCATTGCATCTGGAATATGAGAGTAGGCAACACTCCCAAAT
1 CTGACTTGTCATCCAACTTGCTTCTCATTGCATCTGGAATATGAGAGTAGGCAACACTCCCAAAT
90436489 ACTCTA
66 ACTCTA
90436495 AGATGACTAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (71 bp):
CTGACTTGTCATCCAACTTGCTTCTCATTGCATCTGGAATATGAGAGTAGGCAACACTCCCAAAT
ACTCTA
Found at i:90438897 original size:23 final size:23
Alignment explanation
Indices: 90438869--90438962 Score: 116
Period size: 23 Copynumber: 4.1 Consensus size: 23
90438859 ATGTGTGTAT
* *
90438869 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
90438892 CTTTTCATCTCCAAGTCACTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
90438915 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
90438938 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
90438961 CT
1 CT
90438963 CTTCTAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.23, C:0.27, G:0.04, T:0.46
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:90448856 original size:3 final size:3
Alignment explanation
Indices: 90448848--90448887 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
90448838 TGTCAACTTT
90448848 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
90448888 TTTTCAGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:90450076 original size:27 final size:27
Alignment explanation
Indices: 90450038--90450093 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
90450028 ATAGGAGAAT
90450038 GGTGGAATTTAATCATTTATCATCGGC
1 GGTGGAATTTAATCATTTATCATCGGC
90450065 GGTGGAATTTAATCATTTATCATCGGC
1 GGTGGAATTTAATCATTTATCATCGGC
90450092 GG
1 GG
90450094 CTTCCAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (27 bp):
GGTGGAATTTAATCATTTATCATCGGC
Found at i:90451380 original size:16 final size:16
Alignment explanation
Indices: 90451356--90451389 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90451346 CTTCCCTCAC
*
90451356 TGTTTGAGCATAACTT
1 TGTTAGAGCATAACTT
*
90451372 TGTTAGAGCATATCTT
1 TGTTAGAGCATAACTT
90451388 TG
1 TG
90451390 GCTGGTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.44
Consensus pattern (16 bp):
TGTTAGAGCATAACTT
Found at i:90459934 original size:12 final size:12
Alignment explanation
Indices: 90459917--90459943 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
90459907 TGCAATATCT
90459917 TAATATACAACA
1 TAATATACAACA
90459929 TAATATACAACA
1 TAATATACAACA
90459941 TAA
1 TAA
90459944 GTAGATCCAA
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:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (12 bp):
TAATATACAACA
Found at i:90465356 original size:28 final size:28
Alignment explanation
Indices: 90465316--90465372 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
90465306 ATTCAGCAAG
90465316 TAAGCTTGTAAATTTTATTAATTAATAT
1 TAAGCTTGTAAATTTTATTAATTAATAT
90465344 TAAGCTTGTAAATTTTATTAATTAATAT
1 TAAGCTTGTAAATTTTATTAATTAATAT
90465372 T
1 T
90465373 TACGAGTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (28 bp):
TAAGCTTGTAAATTTTATTAATTAATAT
Found at i:90466910 original size:33 final size:32
Alignment explanation
Indices: 90466833--90466910 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
90466823 CAGTGTTTAT
*
90466833 ATGTAAGACCATAACTGGGCTATGACATATTA
1 ATGTAAAACCATAACTGGGCTATGACATATTA
* * *
90466865 ATGAAAAGACCATAACTGGGTTATGGCACT-TTGA
1 ATGTAAA-ACCATAACTGGGCTATGACA-TATT-A
90466899 ATGTAAAACCAT
1 ATGTAAAACCAT
90466911 GGTTGGACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
32 5 0.13
33 25 0.66
34 8 0.21
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (32 bp):
ATGTAAAACCATAACTGGGCTATGACATATTA
Found at i:90466988 original size:101 final size:101
Alignment explanation
Indices: 90466808--90467026 Score: 285
Period size: 101 Copynumber: 2.2 Consensus size: 101
90466798 GGATAAGACT
** *
90466808 ATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAACTGGGCTATGACATATTAATGAAAAG
1 ATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAACTGAGCTATGACATATTAATGAAAAG
* * **
90466873 ACCATAACTGGGTTATGGCACTTTGAATGTAAAACC
66 ACCATAACTAGGTTATGACACTACGAATGTAAAACC
* ** * * * *
90466909 ATGGTTGGACCATGGCAGTAATTATATGTAAGACTATAGTTGAGCTATGGCATTTTGATGATAAG
1 ATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAACTGAGCTATGACATATTAATGAAAAG
*
90466974 ACCATAACTAGGTTATGACACTACGAATGTAAGACC
66 ACCATAACTAGGTTATGACACTACGAATGTAAAACC
* *
90467010 ATGGTAGGGCCATGGCA
1 ATGGTTGGACCATGGCA
90467027 ATGCATGTGT
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (101 bp):
ATGGTTGGACCATGGCAGTAATTATATGTAAGACCATAACTGAGCTATGACATATTAATGAAAAG
ACCATAACTAGGTTATGACACTACGAATGTAAAACC
Found at i:90467311 original size:16 final size:17
Alignment explanation
Indices: 90467292--90467324 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
90467282 ATGTTGGTAC
*
90467292 ATGAAAT-ATTGATATA
1 ATGAAATGAGTGATATA
90467308 ATGAAATGAGTGATATA
1 ATGAAATGAGTGATATA
90467325 TGTTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
ATGAAATGAGTGATATA
Found at i:90471638 original size:16 final size:17
Alignment explanation
Indices: 90471605--90471651 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
90471595 TAATTTTTCC
**
90471605 TTTTTAAATGAAGTTTA
1 TTTTTAAATGAAAATTA
90471622 TTTTTAAAT-AAAATTA
1 TTTTTAAATGAAAATTA
* *
90471638 TTTATATATGAAAA
1 TTTTTAAATGAAAA
90471652 AGGGGGCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
TTTTTAAATGAAAATTA
Found at i:90472018 original size:13 final size:14
Alignment explanation
Indices: 90471983--90472018 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
90471973 AATTTTTTGA
90471983 TAAATTA-AAATTT
1 TAAATTATAAATTT
90471996 TAAATT-TAAA-TT
1 TAAATTATAAATTT
90472008 TAAATTATAAA
1 TAAATTATAAA
90472019 CTTTGTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATTATAAATTT
Found at i:90474478 original size:15 final size:15
Alignment explanation
Indices: 90474446--90474474 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
90474436 ATTTTCTGTG
90474446 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
90474461 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
90474475 ATTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:90475722 original size:56 final size:56
Alignment explanation
Indices: 90475636--90475771 Score: 220
Period size: 56 Copynumber: 2.4 Consensus size: 56
90475626 GACCATGGCA
*
90475636 TCGATGTATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATTGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATTGATATGTGATT
* *
90475692 TCGATATATGTGTGCGAGTAAGGCCACGTTTAATACGTTGGCATTGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATTGATATGTGATT
* *
90475748 TCGATATAT-TATGAGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
90475772 CTGTCTGGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
55 12 0.16
56 62 0.84
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGACATTGATATGTGATT
Found at i:90480167 original size:19 final size:19
Alignment explanation
Indices: 90480143--90480205 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
90480133 TACAAAATTT
90480143 ACAACTTTCATCAATTTTC
1 ACAACTTTCATCAATTTTC
* *
90480162 ACAACTTT-ATTAAATTT-
1 ACAACTTTCATCAATTTTC
90480179 ACAACTTTCATCAATTTTC
1 ACAACTTTCATCAATTTTC
90480198 ACAACTTT
1 ACAACTTT
90480206 ACATTTTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 8 0.21
18 14 0.37
19 16 0.42
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (19 bp):
ACAACTTTCATCAATTTTC
Found at i:90480184 original size:17 final size:19
Alignment explanation
Indices: 90480137--90480205 Score: 90
Period size: 18 Copynumber: 3.8 Consensus size: 19
90480127 TTTCAATACA
90480137 AAATTT-ACAACTTTCATC
1 AAATTTCACAACTTTCATC
* *
90480155 AATTTTCACAACTTT-ATT
1 AAATTTCACAACTTTCATC
90480173 AAATTT-ACAACTTTCATC
1 AAATTTCACAACTTTCATC
*
90480191 AATTTTCACAACTTT
1 AAATTTCACAACTTT
90480206 ACATTTTAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.19
18 19 0.44
19 16 0.37
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTTCACAACTTTCATC
Found at i:90480184 original size:36 final size:36
Alignment explanation
Indices: 90480137--90480206 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
90480127 TTTCAATACA
90480137 AAATTTACAACTTTCATCAATTTTCACAACTTTATT
1 AAATTTACAACTTTCATCAATTTTCACAACTTTATT
90480173 AAATTTACAACTTTCATCAATTTTCACAACTTTA
1 AAATTTACAACTTTCATCAATTTTCACAACTTTA
90480207 CATTTTAGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (36 bp):
AAATTTACAACTTTCATCAATTTTCACAACTTTATT
Found at i:90481217 original size:39 final size:37
Alignment explanation
Indices: 90481121--90481226 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 37
90481111 TTATTTAGTT
* * * *
90481121 AAAATTAGTT-TGAGTCTTTAATTATTTCATAATTTG
1 AAAATTATTTATGAGTTTTTAATTATGTCATAATCTG
90481157 AAAATTATTTATGAG-TTTTAATTATGTCATAATCT-
1 AAAATTATTTATGAGTTTTTAATTATGTCATAATCTG
90481192 AAACA-TATTTAGTAAGAGTTTTTAATTATGTCATA
1 AAA-ATTATTTA-T--GAGTTTTTAATTATGTCATA
90481227 GTTTAGGACA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
35 9 0.15
36 28 0.47
37 4 0.07
38 3 0.05
39 16 0.27
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (37 bp):
AAAATTATTTATGAGTTTTTAATTATGTCATAATCTG
Found at i:90491579 original size:50 final size:50
Alignment explanation
Indices: 90491504--90491673 Score: 243
Period size: 50 Copynumber: 3.4 Consensus size: 50
90491494 CCATGGAAAC
90491504 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
90491554 AAGTGATAAGTAATAACTTTGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
*
90491604 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAA-GGACAAATGA
* * *
90491654 CAACTGAAAAGTGGTAGCTT
1 -AAGTGATAAGTGATAGCTT
90491674 CAGCTACCTG
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
50 88 0.83
51 18 0.17
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:90491866 original size:31 final size:31
Alignment explanation
Indices: 90491658--90491859 Score: 298
Period size: 31 Copynumber: 6.5 Consensus size: 31
90491648 AAATGACAAC
90491658 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
90491689 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
90491720 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
90491751 TGAAAAGTGGTAGCTTCGGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
90491782 TGAAAAGTGGTAG-TTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTT-CAGCTACCTGATCAG
* **
90491813 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
90491844 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
90491860 TGGCTACAAG
Statistics
Matches: 155, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
30 2 0.01
31 153 0.99
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:90495895 original size:13 final size:13
Alignment explanation
Indices: 90495877--90495901 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90495867 CCGAGCACAC
90495877 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
90495890 GCCCGTGTCCCT
1 GCCCGTGTCCCT
90495902 CAAATGGCCT
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:0.04, C:0.48, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:90501472 original size:3 final size:3
Alignment explanation
Indices: 90501466--90501527 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
90501456 TTGTTGTTTA
*
90501466 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90501514 TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT
90501528 GGAATAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:90502090 original size:28 final size:28
Alignment explanation
Indices: 90502017--90502093 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
90502007 ATTATGGAAT
90502017 TGAAAAG-GAAATTGAATTGATGATGGA
1 TGAAAAGTGAAATTGAATTGATGATGGA
* * * * *
90502044 T-AAGTATTGATATTAAATTGTAT-ATTGA
1 TGAA-AAGTGAAATTGAATTG-ATGATGGA
90502072 TGAAAAGTGAAATTGAATTGAT
1 TGAAAAGTGAAATTGAATTGAT
90502094 TTGTAAATGA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 27 0.73
29 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (28 bp):
TGAAAAGTGAAATTGAATTGATGATGGA
Found at i:90503089 original size:22 final size:22
Alignment explanation
Indices: 90503064--90503115 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
90503054 AAGGGTAAAT
*
90503064 AAATGAAATGATAAATCAATTG
1 AAATGAAATGATAAAGCAATTG
* * *
90503086 AAATTG-ATTGATTAAGCCATTG
1 AAA-TGAAATGATAAAGCAATTG
90503108 AAATGAAA
1 AAATGAAA
90503116 AGAGAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
21 2 0.09
22 19 0.83
23 2 0.09
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (22 bp):
AAATGAAATGATAAAGCAATTG
Found at i:90509332 original size:38 final size:38
Alignment explanation
Indices: 90509280--90509413 Score: 128
Period size: 39 Copynumber: 3.4 Consensus size: 38
90509270 AAAATTAGTT
* *
90509280 TGAGTCTTTAATTATGTCATAATTTGAACAT-TATTTATA
1 TGAGT-TTTAATTATGTCATAATCTGAACATCT-TTAATA
90509319 TGAGTTTTAATTATGTCATAATCTGAACATCTTTAATA
1 TGAGTTTTAATTATGTCATAATCTGAACATCTTTAATA
* * * * * *
90509357 AGGGTTTTTAATTATGTCATAGTTTAGGACATCTTAAATA
1 TGAG-TTTTAATTATGTCATAATCT-GAACATCTTTAATA
*
90509397 T-ATGTTTTAAATATGTC
1 TGA-GTTTTAATTATGTC
90509414 CTAGTTTAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
38 31 0.39
39 36 0.45
40 13 0.16
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (38 bp):
TGAGTTTTAATTATGTCATAATCTGAACATCTTTAATA
Found at i:90509405 original size:39 final size:38
Alignment explanation
Indices: 90509286--90509444 Score: 119
Period size: 39 Copynumber: 4.1 Consensus size: 38
90509276 AGTTTGAGTC
* * * *
90509286 TTTAATTATGTCATAATTT-GAACATTATTTATATGA-GT
1 TTTAATTATGTCATAGTTTAGGACA-TCTTTA-ATAATGT
* * * *
90509324 TTTAATTATGTCATAATCT-GAACATCTTTAATAAGGGTT
1 TTTAATTATGTCATAGTTTAGGACATCTTTAATAA-TG-T
*
90509363 TTTAATTATGTCATAGTTTAGGACATCTTAAATATATGT
1 TTTAATTATGTCATAGTTTAGGACATCTTTAATA-ATGT
* * *
90509402 TTTAAATATGTCCTAGTTTA-GACGTCTTTAATACATGT
1 TTTAATTATGTCATAGTTTAGGACATCTTTAATA-ATGT
90509440 CTTTA
1 -TTTA
90509445 GTTCAGACCA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
36 3 0.03
37 5 0.05
38 39 0.38
39 41 0.40
40 13 0.13
41 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (38 bp):
TTTAATTATGTCATAGTTTAGGACATCTTTAATAATGT
Found at i:90511998 original size:7 final size:7
Alignment explanation
Indices: 90511986--90512015 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
90511976 AATAATACAA
90511986 TGATGAT
1 TGATGAT
90511993 TGATGAT
1 TGATGAT
90512000 TGATGAT
1 TGATGAT
90512007 TGATGAT
1 TGATGAT
90512014 TG
1 TG
90512016 TATTATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (7 bp):
TGATGAT
Found at i:90512987 original size:22 final size:23
Alignment explanation
Indices: 90512962--90513004 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
90512952 AAGATTTTCC
*
90512962 TTGAGTAATT-TTTTTTTTAAGT
1 TTGAGTAATTATTATTTTTAAGT
90512984 TTGAGTAATTATTATTTTTAA
1 TTGAGTAATTATTATTTTTAA
90513005 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (23 bp):
TTGAGTAATTATTATTTTTAAGT
Found at i:90521085 original size:16 final size:16
Alignment explanation
Indices: 90521066--90521099 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90521056 TTCTTCTCAA
*
90521066 TTCTGTTTCATTTTCT
1 TTCTGTTTCATATTCT
*
90521082 TTCTTTTTCATATTCT
1 TTCTGTTTCATATTCT
90521098 TT
1 TT
90521100 AGTAGCTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.18, G:0.03, T:0.71
Consensus pattern (16 bp):
TTCTGTTTCATATTCT
Found at i:90522116 original size:55 final size:55
Alignment explanation
Indices: 90521938--90522213 Score: 304
Period size: 55 Copynumber: 4.9 Consensus size: 55
90521928 GCTACGTAAT
* *
90521938 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGTAATATTCCAATATAAC
1 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGAAATATTCCAACATAAC
* * *
90521993 AATCGATTTAAACATATAAA-GATCGATTCAAAAAAAGAAGTAGCAATATTCCACCATAAC
1 AATCGATTTAAACATATAAACAATCAATTC---AAAAGAAG-A--AATATTCCAACATAAC
* * * * * *
90522053 AATTGATTTAAACATAAAAATAATCTATTCAAAAGAAGAAATATTCCAACGTGGA-
1 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGAAATATTCCAACAT-AAC
** * *
90522108 AATCGATTTAAACATATAAATTATCAATTCAAAAGAAGCAATATTCCAACATGAC
1 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGAAATATTCCAACATAAC
* * * *
90522163 AATCGATTTAAACGTATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
1 AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGAAATATTCCAACA
90522214 ATTAAGAAGA
Statistics
Matches: 189, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
54 9 0.05
55 123 0.65
56 1 0.01
57 9 0.05
58 8 0.04
60 32 0.17
61 7 0.04
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (55 bp):
AATCGATTTAAACATATAAACAATCAATTCAAAAGAAGAAATATTCCAACATAAC
Found at i:90530120 original size:14 final size:15
Alignment explanation
Indices: 90530093--90530122 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
90530083 TAACACAAGG
90530093 AAAAAATTACAAAAAA
1 AAAAAATTA-AAAAAA
90530109 AAAAAATTAAAAAA
1 AAAAAATTAAAAAA
90530123 TGCTAATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAATTAAAAAAA
Found at i:90533239 original size:12 final size:13
Alignment explanation
Indices: 90533222--90533253 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
90533212 ATAGCACATT
90533222 TCAAAAC-ATGCA
1 TCAAAACTATGCA
90533234 TCAAAACTATGCA
1 TCAAAACTATGCA
90533247 -CAAAACT
1 TCAAAACT
90533254 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:90539818 original size:12 final size:13
Alignment explanation
Indices: 90539801--90539832 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
90539791 ATAGCACATT
90539801 TCAAAAC-ATGCA
1 TCAAAACTATGCA
90539813 TCAAAACTATGCA
1 TCAAAACTATGCA
90539826 -CAAAACT
1 TCAAAACT
90539833 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:90541777 original size:66 final size:66
Alignment explanation
Indices: 90541653--90541778 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
90541643 CATAACATCT
* * * * *
90541653 ACAGAGATAGTCCACTAGAACAGTAAACACATAACAAAGATAGTCCTCTGGGAGAATAAACACAA
1 ACAGAGATAGACCACTAGAACAGTAAAAACAGAACAAAGATAGTCCTCTGGAACAATAAACACAA
90541718 A
66 A
* * * * *
90541719 ACAGAGATAGACTACTAGGACAGTAAAAATAGAACAAAGATTGCTCGTC-GGAACAATAAA
1 ACAGAGATAGACCACTAGAACAGTAAAAACAGAACAAAGATAG-TCCTCTGGAACAATAAA
90541779 TACGGGTAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
66 45 0.92
67 4 0.08
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.16
Consensus pattern (66 bp):
ACAGAGATAGACCACTAGAACAGTAAAAACAGAACAAAGATAGTCCTCTGGAACAATAAACACAA
A
Found at i:90549326 original size:20 final size:19
Alignment explanation
Indices: 90549278--90549379 Score: 69
Period size: 20 Copynumber: 5.1 Consensus size: 19
90549268 TTGAAAAAAT
* *
90549278 TTATAAAAAATTATTTTTAA
1 TTATTAAAAATTA-TTTAAA
*
90549298 TAATTAAAAATTATTTAAA
1 TTATTAAAAATTATTTAAA
* **
90549317 TTATTCAAAAAATATAAAAA
1 TTATT-AAAAATTATTTAAA
*
90549337 TTATAAAAAATTATATTTTAAAA
1 TTATTAAAAA-T-TA-TTT-AAA
* *
90549360 TTTTTAAAAATTAATTAAA
1 TTATTAAAAATTATTTAAA
90549379 T
1 T
90549380 GCTTATGTGT
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
19 18 0.29
20 28 0.44
21 4 0.06
22 2 0.03
23 11 0.17
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATTAAAAATTATTTAAA
Found at i:90550643 original size:6 final size:6
Alignment explanation
Indices: 90550624--90550656 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
90550614 TCTAAATGAA
90550624 TTCATT TCTCATT TTCATT TTCATT TTCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TT
90550657 AAGAAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCATT
Found at i:90550760 original size:8 final size:8
Alignment explanation
Indices: 90550747--90550776 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
90550737 AATGTTTCTT
90550747 ATTTCTCC
1 ATTTCTCC
90550755 ATTTCTCC
1 ATTTCTCC
*
90550763 ATTTCACC
1 ATTTCTCC
90550771 ATTTCT
1 ATTTCT
90550777 ATTCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTCTCC
Found at i:90571311 original size:3 final size:3
Alignment explanation
Indices: 90571303--90571327 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
90571293 GCCCTCTTGA
90571303 CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG C
90571328 CCCATCTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:90575600 original size:19 final size:18
Alignment explanation
Indices: 90575570--90575618 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
90575560 TTTTATTATG
90575570 AAACATAATAAAAAATAGA
1 AAACA-AATAAAAAATAGA
*
90575589 AAGACAAAT-AAATATAGA
1 AA-ACAAATAAAAAATAGA
90575607 AAACAAA-AAAAA
1 AAACAAATAAAAA
90575619 TAAAAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 8 0.31
18 10 0.38
19 5 0.19
20 3 0.12
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (18 bp):
AAACAAATAAAAAATAGA
Found at i:90575620 original size:18 final size:18
Alignment explanation
Indices: 90575579--90575617 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
90575569 GAAACATAAT
90575579 AAAAA-ATAGAAAGACAA
1 AAAAATATAGAAAGACAA
*
90575596 ATAAATATAGAAA-ACAA
1 AAAAATATAGAAAGACAA
90575613 AAAAA
1 AAAAA
90575618 ATAAAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (18 bp):
AAAAATATAGAAAGACAA
Found at i:90575916 original size:2 final size:2
Alignment explanation
Indices: 90575909--90575940 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
90575899 GTACGGTTTA
90575909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90575941 TCACTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90576462 original size:8 final size:8
Alignment explanation
Indices: 90576449--90576484 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
90576439 ATTCTTTTTA
90576449 TAAAATTC
1 TAAAATTC
90576457 TAAAA-TC
1 TAAAATTC
*
90576464 TATAATTC
1 TAAAATTC
90576472 TAAAATTC
1 TAAAATTC
90576480 TAAAA
1 TAAAA
90576485 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (8 bp):
TAAAATTC
Found at i:90576611 original size:22 final size:20
Alignment explanation
Indices: 90576581--90576620 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
90576571 TATTTTGATT
*
90576581 TTTTTAAATTTATAATTATACA
1 TTTTAAAATTT-T-ATTATACA
90576603 TTTTAAAATTTTATTATA
1 TTTTAAAATTTTATTATA
90576621 AATATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAAAATTTTATTATACA
Found at i:90576629 original size:23 final size:26
Alignment explanation
Indices: 90576603--90576654 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 26
90576593 TAATTATACA
90576603 TTTTAAAATT-T-TATTATAAAT-AT
1 TTTTAAAATTATATATTATAAATGAT
*
90576626 TTTTAAAATTATATATTATATATGAT
1 TTTTAAAATTATATATTATAAATGAT
90576652 TTT
1 TTT
90576655 ATTTACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 10 0.40
24 1 0.04
25 9 0.36
26 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTAAAATTATATATTATAAATGAT
Found at i:90576654 original size:25 final size:22
Alignment explanation
Indices: 90576602--90576655 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
90576592 ATAATTATAC
90576602 ATTTTAAAATTTTATTATAAAT
1 ATTTTAAAATTTTATTATAAAT
*
90576624 ATTTTTAAAATTATATATTATATAT
1 A-TTTTAAAATT-T-TATTATAAAT
90576649 GATTTTA
1 -ATTTTA
90576656 TTTACATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 10 0.37
24 1 0.04
25 14 0.52
26 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTTAAAATTTTATTATAAAT
Found at i:90581716 original size:36 final size:36
Alignment explanation
Indices: 90581669--90581739 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
90581659 TAAAAGCCAT
*
90581669 ACAAGAAGAAATGCAATCTTTGCATGATAACCAAAA
1 ACAAGAAGAAATACAATCTTTGCATGATAACCAAAA
90581705 ACAAGAAGAAATACAATCTTTGCATGATAACCAAA
1 ACAAGAAGAAATACAATCTTTGCATGATAACCAAA
90581740 CTTATGATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.20
Consensus pattern (36 bp):
ACAAGAAGAAATACAATCTTTGCATGATAACCAAAA
Found at i:90583985 original size:7 final size:6
Alignment explanation
Indices: 90583959--90583983 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
90583949 ATGATGAAAC
90583959 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
90583984 ATCTTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:90585008 original size:5 final size:5
Alignment explanation
Indices: 90584998--90585022 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
90584988 TACTTTGGTT
90584998 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
90585023 AATTTTCGTC
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:90588304 original size:27 final size:28
Alignment explanation
Indices: 90588274--90588350 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 28
90588264 TATATACTAA
90588274 TAAAATAATAATAATAAAATATCTTAT-
1 TAAAATAATAATAATAAAATATCTTATC
* *
90588301 TAAAGTATTAATAA-AATAATAT-TTATC
1 TAAAATAATAATAATAA-AATATCTTATC
* *
90588328 T-AATTAAATAATTATAAAATATC
1 TAAAAT-AATAATAATAAAATATC
90588351 AAAATATCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
26 9 0.22
27 29 0.73
28 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
TAAAATAATAATAATAAAATATCTTATC
Found at i:90591469 original size:28 final size:28
Alignment explanation
Indices: 90591438--90591493 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
90591428 TTTCTAATTA
* * *
90591438 AGTTCAATTTTAATCCTTTTTATATTTT
1 AGTTCAATTTAAATACTTTATATATTTT
* *
90591466 AGTTTACTTTAAATACTTTATATATTTT
1 AGTTCAATTTAAATACTTTATATATTTT
90591494 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (28 bp):
AGTTCAATTTAAATACTTTATATATTTT
Found at i:90591554 original size:29 final size:29
Alignment explanation
Indices: 90591522--90591583 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
90591512 ATTATTGTTA
*
90591522 TTATCCAATACATTAT-TTTATCATATATT
1 TTAT-CAATAAATTATATTTATCATATATT
* *
90591551 TTATCTATAAATTATATTTATTATATATT
1 TTATCAATAAATTATATTTATCATATATT
90591580 TTAT
1 TTAT
90591584 TTTATACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (29 bp):
TTATCAATAAATTATATTTATCATATATT
Found at i:90591568 original size:18 final size:17
Alignment explanation
Indices: 90591545--90591588 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
90591535 TATTTTATCA
90591545 TATATTTTATCTATAAAT
1 TATATTTTAT-TATAAAT
*
90591563 TATA-TTTATTATATAT
1 TATATTTTATTATAAAT
*
90591579 TTTATTTTAT
1 TATATTTTAT
90591589 ACATTTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.39
17 10 0.43
18 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATTTTATTATAAAT
Found at i:90591951 original size:21 final size:21
Alignment explanation
Indices: 90591927--90591967 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90591917 TTTCTTATAT
*
90591927 TTTTATATATTATTTATTTTG
1 TTTTATATACTATTTATTTTG
*
90591948 TTTTTTATACTATTTATTTT
1 TTTTATATACTATTTATTTT
90591968 ACTATATTTT
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:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATATACTATTTATTTTG
Found at i:90593833 original size:17 final size:18
Alignment explanation
Indices: 90593808--90593841 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90593798 TTTATATTAA
90593808 ATTTATATTTTA-AATAT
1 ATTTATATTTTACAATAT
*
90593825 ATTTTTATTTTACAATA
1 ATTTATATTTTACAATA
90593842 AAAGTATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTATATTTTACAATAT
Found at i:90602918 original size:46 final size:46
Alignment explanation
Indices: 90602851--90603208 Score: 464
Period size: 46 Copynumber: 8.0 Consensus size: 46
90602841 AGTGTGCTCT
*
90602851 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
90602897 CTGATTTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
90602943 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
90602981 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
90603027 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
90603073 CTAATTTGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
90603119 ATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * * *
90603165 ATGGCA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
90603209 TCACGTCAAA
Statistics
Matches: 278, Mismatches: 25, Indels: 18
0.87 0.08 0.06
Matches are distributed among these distances:
38 35 0.13
41 2 0.01
43 2 0.01
45 1 0.00
46 238 0.86
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:90603514 original size:23 final size:25
Alignment explanation
Indices: 90603469--90603515 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
90603459 AATAAATATA
*
90603469 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
90603494 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
90603516 ATGAAGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:90605110 original size:42 final size:42
Alignment explanation
Indices: 90605001--90605155 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 42
90604991 TACCGAGATG
* * *
90605001 TGATTACATGTAAGACCATGTCTGAGACATTTG-CATTGTATT
1 TGATTACATGTAAGACCATATCTGGGACA-TTGACATCGTATT
* * *
90605043 GCGATTACGTGTAAGACCATGTCTGGGACATTGACATCGTATT
1 -TGATTACATGTAAGACCATATCTGGGACATTGACATCGTATT
* * * * *
90605086 TGATTTCATGTAAGACCCTATCTGGGTCAGTGACATCGATATG
1 TGATTACATGTAAGACCATATCTGGGACATTGACATCG-TATT
*
90605129 TGA-TAGCATGTAAGACCACATCTGGGA
1 TGATTA-CATGTAAGACCATATCTGGGA
90605156 TATGGCATTG
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 35 0.38
43 58 0.62
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATTACATGTAAGACCATATCTGGGACATTGACATCGTATT
Found at i:90605152 original size:43 final size:42
Alignment explanation
Indices: 90605052--90605155 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
90605042 TGCGATTACG
** * * **
90605052 TGTAAGACCATGTCTGGGACATTGACATCGTATTTGATTTCA
1 TGTAAGACCACATCTGGGACAGTGACATCGTATGTGATAGCA
*
90605094 TGTAAGACC-CTATCTGGGTCAGTGACATCGATATGTGATAGCA
1 TGTAAGACCAC-ATCTGGGACAGTGACATCG-TATGTGATAGCA
90605137 TGTAAGACCACATCTGGGA
1 TGTAAGACCACATCTGGGA
90605156 TATGGCATTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 25 0.49
43 25 0.49
44 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACAGTGACATCGTATGTGATAGCA
Found at i:90605923 original size:30 final size:30
Alignment explanation
Indices: 90605888--90605946 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
90605878 AGATGATTTG
*
90605888 GGTTATGTGTAAATGTGGATATTAGTTAAC
1 GGTTATGTCTAAATGTGGATATTAGTTAAC
90605918 GGTTATGTCTAAATGTGGATATTAGTTAA
1 GGTTATGTCTAAATGTGGATATTAGTTAA
90605947 AGTATCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.41
Consensus pattern (30 bp):
GGTTATGTCTAAATGTGGATATTAGTTAAC
Found at i:90606833 original size:11 final size:11
Alignment explanation
Indices: 90606817--90606850 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
90606807 TTATAGGCAT
*
90606817 AAGAAGTATAG
1 AAGAAGTAGAG
90606828 AAGAAGTAGAG
1 AAGAAGTAGAG
*
90606839 AAGAATTAGAG
1 AAGAAGTAGAG
90606850 A
1 A
90606851 TCTAATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.15
Consensus pattern (11 bp):
AAGAAGTAGAG
Found at i:90608318 original size:16 final size:16
Alignment explanation
Indices: 90608297--90608330 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90608287 GTGTGGAGAA
*
90608297 TTTTAGCACTTATTTT
1 TTTTAGAACTTATTTT
*
90608313 TTTTAGAACTTGTTTT
1 TTTTAGAACTTATTTT
90608329 TT
1 TT
90608331 AGAGTGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (16 bp):
TTTTAGAACTTATTTT
Found at i:90610252 original size:24 final size:26
Alignment explanation
Indices: 90610207--90610262 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
90610197 TGATTATGAC
*
90610207 AAAAAATTACTTATATTATAAATCCG
1 AAAAAATTACTTATATTATAAACCCG
*
90610233 AAAAAATTA--TATTATT-TAAACCCT
1 AAAAAATTACTTA-TATTATAAACCCG
90610257 AAAAAA
1 AAAAAA
90610263 ATTGAAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 14 0.52
25 4 0.15
26 9 0.33
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAAAATTACTTATATTATAAACCCG
Found at i:90610573 original size:14 final size:15
Alignment explanation
Indices: 90610540--90610578 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
90610530 TTTATAAAAC
90610540 TTTAT-TTATAAAGGT
1 TTTATATTATAAA-GT
90610555 TTTATATTATAAA-T
1 TTTATATTATAAAGT
90610569 TTTATATTAT
1 TTTATATTAT
90610579 TTTTTTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.48
15 5 0.22
16 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
TTTATATTATAAAGT
Found at i:90614975 original size:39 final size:39
Alignment explanation
Indices: 90614921--90614997 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
90614911 AGAGCTGGAT
*
90614921 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
90614960 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
90614998 TGACACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:90620871 original size:80 final size:80
Alignment explanation
Indices: 90620738--90620897 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
90620728 AAATTTACTT
* *
90620738 GAGCTTCCTAAAGACAATGAAAGCTTCAGGAGAAAGCTCCGATGGGACTAAGGCATGGGAATCAC
1 GAGCTTCCTAAAGACAATAAAAGCTTCAGGAGAAAGCTCCGATGGGACTAAGGCATGAGAATCAC
90620803 TAATAAGAGCCATAC
66 TAATAAGAGCCATAC
90620818 GAGCTTCCTAAAGACAATAAAAGCTTCAGGAGAAAGCTCCGATGGGACTAAGGCATGAGAATCAC
1 GAGCTTCCTAAAGACAATAAAAGCTTCAGGAGAAAGCTCCGATGGGACTAAGGCATGAGAATCAC
90620883 TAATAAGAGCCATAC
66 TAATAAGAGCCATAC
90620898 TTTCTACAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (80 bp):
GAGCTTCCTAAAGACAATAAAAGCTTCAGGAGAAAGCTCCGATGGGACTAAGGCATGAGAATCAC
TAATAAGAGCCATAC
Found at i:90621278 original size:19 final size:18
Alignment explanation
Indices: 90621231--90621284 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
90621221 AAAATGATAA
90621231 AATCAAGTTAAAATGGTTTT
1 AATCAAGTTAAAAT--TTTT
**
90621251 AATTGAGTTAACAATTTTT
1 AATCAAGTTAA-AATTTTT
90621270 AATCAAGTTAAAATT
1 AATCAAGTTAAAATT
90621285 ATTTTAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 9 0.31
21 3 0.10
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.41
Consensus pattern (18 bp):
AATCAAGTTAAAATTTTT
Found at i:90621291 original size:20 final size:19
Alignment explanation
Indices: 90621231--90621291 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
90621221 AAAATGATAA
*
90621231 AATCAAGTTAAAATGGTTTT
1 AATCAAGTTAAAAT-TTTTT
**
90621251 AATTGAGTTAACAA-TTTTT
1 AATCAAGTTAA-AATTTTTT
90621270 AATCAAGTTAAAATTATTTT
1 AATCAAGTTAAAATT-TTTT
90621290 AA
1 AA
90621292 AACAAGTCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 2 0.06
19 14 0.42
20 15 0.45
21 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (19 bp):
AATCAAGTTAAAATTTTTT
Found at i:90625468 original size:23 final size:23
Alignment explanation
Indices: 90625438--90625483 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
90625428 AACACTCATC
90625438 GACATGTAATCAAAGTAACCTGT
1 GACATGTAATCAAAGTAACCTGT
*
90625461 GACATGTAATCGAAGTAACCTGT
1 GACATGTAATCAAAGTAACCTGT
90625484 ACTCTATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (23 bp):
GACATGTAATCAAAGTAACCTGT
Found at i:90625603 original size:12 final size:13
Alignment explanation
Indices: 90625580--90625613 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
90625570 TTCAAATTGT
90625580 AATTCATCAGTTC
1 AATTCATCAGTTC
90625593 AATTCAT-AGTTC
1 AATTCATCAGTTC
*
90625605 AAATCATCA
1 AATTCATCA
90625614 ACTCATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (13 bp):
AATTCATCAGTTC
Found at i:90628113 original size:15 final size:16
Alignment explanation
Indices: 90628093--90628130 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
90628083 TTAATTGAAT
90628093 TAATTAATTTTAA-AA
1 TAATTAATTTTAAGAA
*
90628108 TAATTATTTTTAAGAA
1 TAATTAATTTTAAGAA
*
90628124 TATTTAA
1 TAATTAA
90628131 AAGTTGGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TAATTAATTTTAAGAA
Found at i:90633400 original size:22 final size:22
Alignment explanation
Indices: 90633374--90633445 Score: 103
Period size: 22 Copynumber: 3.3 Consensus size: 22
90633364 TAGGATATGC
90633374 TATGATATGTTCTTATATGAAA
1 TATGATATGTTCTTATATGAAA
*
90633396 TATGATATGTTCTGATATG-AA
1 TATGATATGTTCTTATATGAAA
*
90633417 TATGATATGTT-TTGATATGAGA
1 TATGATATGTTCTT-ATATGAAA
90633439 TATGATA
1 TATGATA
90633446 ACCTTCATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 1 0.02
21 18 0.40
22 26 0.58
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (22 bp):
TATGATATGTTCTTATATGAAA
Found at i:90639583 original size:46 final size:48
Alignment explanation
Indices: 90639481--90639702 Score: 189
Period size: 46 Copynumber: 4.7 Consensus size: 48
90639471 TCATGAGAGC
* * * *
90639481 TAGTGTAAGACCATGTCTGGGACATGGCTTCGACATTGAGACG--AGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGT
90639527 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGT
1 --TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGT
* * *
90639575 TAGTGTAAGA-CATGTCTAGGACAT-GCATCAG-CTACGAGA--TGAGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGACGTAAGT
* * *
90639619 CAGTGTAAGACCATGTCT-GGAGCATGGCATCGGCACT-GATATGCTAGAGCT
1 TAGTGTAAGACCATGTCTGGGA-CATGGCATCGGC-CTCGAGACG-TA-AG-T
*
90639670 T-GTGTAAGACCATGCCTGGGACATGGCATCGGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC
90639703 ACCTTACCCC
Statistics
Matches: 147, Mismatches: 13, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
44 16 0.11
45 12 0.08
46 56 0.38
47 14 0.10
48 15 0.10
49 1 0.01
50 29 0.20
51 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTAAGT
Found at i:90647187 original size:46 final size:49
Alignment explanation
Indices: 90647131--90647251 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 49
90647121 CGAGTGCTAG
*
90647131 TGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA-CGTAAGT-TAA
1 TGTAACACATGTCTGGGACATGCATCGGCCTACGAGAGCGTAAGTGTAA
90647177 TGTAACACATGTCTGGGACATGCATCGG-CTACGAGATGCGTAAGTGTAA
1 TGTAACACATGTCTGGGACATGCATCGGCCTACGAGA-GCGTAAGTGTAA
90647226 -G--AC-CATGTCTGGGACATGGCATCGGC
1 TGTAACACATGTCTGGGACAT-GCATCGGC
90647252 ACAGATATGC
Statistics
Matches: 68, Mismatches: 1, Indels: 11
0.85 0.01 0.14
Matches are distributed among these distances:
45 16 0.24
46 41 0.60
48 8 0.12
49 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (49 bp):
TGTAACACATGTCTGGGACATGCATCGGCCTACGAGAGCGTAAGTGTAA
Found at i:90653729 original size:22 final size:22
Alignment explanation
Indices: 90653695--90653764 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
90653685 GATAGGGGAA
* *
90653695 GATATGCTATGATATGAAATAT
1 GATACGCTCTGATATGAAATAT
* *
90653717 GATACGTTCTGATACGAAATAT
1 GATACGCTCTGATATGAAATAT
* * *
90653739 AATATGCTCTGATATGAGATAT
1 GATACGCTCTGATATGAAATAT
90653761 GATA
1 GATA
90653765 AGCTTCAATA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34
Consensus pattern (22 bp):
GATACGCTCTGATATGAAATAT
Found at i:90656570 original size:21 final size:19
Alignment explanation
Indices: 90656540--90656583 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
90656530 ATTGAGAACT
90656540 GTTTTAATTTAGTAATCTATG
1 GTTTTAATTTA-TAAT-TATG
* *
90656561 GTTTTTATTTATAATTCTG
1 GTTTTAATTTATAATTATG
90656580 GTTT
1 GTTT
90656584 CATTTAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 4 0.19
21 10 0.48
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
GTTTTAATTTATAATTATG
Found at i:90657001 original size:22 final size:22
Alignment explanation
Indices: 90656976--90657019 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
90656966 ATGAGGGTAG
90656976 GATATGCTATGATATGAAATAC
1 GATATGCTATGATATGAAATAC
* *
90656998 GATATGCTTTGATATGAGATAC
1 GATATGCTATGATATGAAATAC
90657020 TATAACCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (22 bp):
GATATGCTATGATATGAAATAC
Found at i:90660012 original size:12 final size:12
Alignment explanation
Indices: 90659995--90660019 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90659985 TGAATCTTGG
90659995 TGGAAAATTGCT
1 TGGAAAATTGCT
90660007 TGGAAAATTGCT
1 TGGAAAATTGCT
90660019 T
1 T
90660020 TAATGGTGTT
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (12 bp):
TGGAAAATTGCT
Found at i:90664869 original size:19 final size:19
Alignment explanation
Indices: 90664838--90664885 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
90664828 TATCAGTTTA
90664838 AAATGAAAT-AATACATAA-T
1 AAAT-AAATAAATA-ATAATT
90664857 AAATAAATAAATAATAATT
1 AAATAAATAAATAATAATT
*
90664876 AAATATATAA
1 AAATAAATAA
90664886 TATGGGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATAAATAAATAATAATT
Found at i:90664870 original size:15 final size:15
Alignment explanation
Indices: 90664843--90664887 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
90664833 GTTTAAAATG
*
90664843 AAAT-AATACATAAT
1 AAATAAATAAATAAT
90664857 AAATAAATAAATAAT
1 AAATAAATAAATAAT
* *
90664872 AATTAAATATATAAT
1 AAATAAATAAATAAT
90664887 A
1 A
90664888 TGGGTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATAAATAAATAAT
Done.