Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 329 of 410
Found at i:102153639 original size:15 final size:15
Alignment explanation
Indices: 102153619--102153683 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
102153609 TAGTTGTTAT
*
102153619 TATTATTATTATTAC
1 TATTATTACTATTAC
* * *
102153634 TATTATTATTTTTAT
1 TATTATTACTATTAC
* * *
102153649 TTTTGTTACTCTTAC
1 TATTATTACTATTAC
102153664 TATTATT-CTATCTAC
1 TATTATTACTAT-TAC
102153679 TATTA
1 TATTA
102153684 CTGTTTTCTT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 3 0.08
15 36 0.92
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTATTACTATTAC
Found at i:102154050 original size:25 final size:25
Alignment explanation
Indices: 102154022--102154075 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
102154012 TTATATTTAC
*
102154022 TTTTTTTTAA-TATTATTACCATTA
1 TTTTTTTAAATTATTATTACCATTA
*
102154046 TTTTTTTAAATTATTATTACTATTA
1 TTTTTTTAAATTATTATTACCATTA
102154071 TTTTT
1 TTTTT
102154076 ATTATCCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTTTAAATTATTATTACCATTA
Found at i:102154423 original size:125 final size:127
Alignment explanation
Indices: 102154241--102154502 Score: 336
Period size: 125 Copynumber: 2.1 Consensus size: 127
102154231 ATTTTTCAAG
* *
102154241 TAAAGGCAATATTCAGTACTTGGAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCGATTTT
1 TAAAGGCAATATTCAGTACTTAGAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCAATTTT
* * * *
102154306 -TCGTTTGATCTAAGTAACCGATTATCC-TTTT-AAATTAAAATGCATGAGTTTTAAATTAAA
66 CT-GTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAAA
* * *
102154366 TAAAGGCAATATTTC-GTATTTAGAAATTCGAGTAGTCGTG-CCTTAACGTACTGGGTTTCAATT
1 TAAAGGCAATA-TTCAGTACTTAGAAATTCGAGAAATCGTGTCC-TAACGTACTGGGTTTCAATT
* * * *
102154429 TTCTGTTTGATCTAAATATCTGAATATCCTTTTTAAAATTTACATACATGAGTTTTAAATGAAA
64 TTCTGTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAAA
102154493 TAGAAGGCAA
1 TA-AAGGCAA
102154503 GCTCATACTC
Statistics
Matches: 118, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
124 2 0.02
125 74 0.63
126 8 0.07
127 27 0.23
128 7 0.06
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (127 bp):
TAAAGGCAATATTCAGTACTTAGAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCAATTTT
CTGTTTGATCTAAATAACCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATGAAA
Found at i:102154522 original size:125 final size:125
Alignment explanation
Indices: 102154276--102154544 Score: 280
Period size: 125 Copynumber: 2.2 Consensus size: 125
102154266 ATTCGAGAAA
* * *
102154276 TCGTGTCCTAACGTACTGGGTTTCGATTTTTCGTTTGATCTAAGTAACCGATTATCCTTTTAAAT
1 TCGTGTCCTAACGTACTGGGTTTCAATTTTTCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
* * ** * * *
102154341 TAAAATGCATGAGTTTTAAATTAAATAAAGGCAATATTTCGTATTTAGAAATTCGA-GTAG
66 TAAAATACATGAGTTTTAAATGAAATAAAGGCAATAGCTCATATCTAGAAAGTCGAGGT-G
* *
102154401 TCGTG-CCTTAACGTACTGGGTTTCAA-TTTTCTGTTTGATCTAAATATCTGAATATCCTTTTTA
1 TCGTGTCC-TAACGTACTGGGTTTCAATTTTTC-GTTTGATCTAAATAACCGAATATCC-TTTT-
* * * **
102154464 AAATTTACATACATGAGTTTTAAATGAAATAGAAGGC-A-AGCTCATA-CTCGAGGGTCGAGGTG
62 AAATTAAAATACATGAGTTTTAAATGAAATA-AAGGCAATAGCTCATATCTAGAAAGTCGAGGTG
*
102154526 TTGTGTCCTAACGTACTGG
1 TCGTGTCCTAACGTACTGG
102154545 ATATAACATT
Statistics
Matches: 119, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
124 7 0.06
125 66 0.55
126 13 0.11
127 28 0.24
128 5 0.04
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (125 bp):
TCGTGTCCTAACGTACTGGGTTTCAATTTTTCGTTTGATCTAAATAACCGAATATCCTTTTAAAT
TAAAATACATGAGTTTTAAATGAAATAAAGGCAATAGCTCATATCTAGAAAGTCGAGGTG
Found at i:102155456 original size:13 final size:13
Alignment explanation
Indices: 102155438--102155476 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
102155428 AATAAATATT
102155438 AAATTAAATTAAA
1 AAATTAAATTAAA
102155451 AAATTAAATTTAAA
1 AAATTAAA-TTAAA
* *
102155465 TATTTAAATTAA
1 AAATTAAATTAA
102155477 GGCTCCATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTAAATTAAA
Found at i:102161994 original size:17 final size:18
Alignment explanation
Indices: 102161963--102161997 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
102161953 CATGTAGCCT
102161963 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGGGCCCACAC
102161981 GCCCGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
102161998 AACCCTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.46, G:0.31, T:0.11
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:102166104 original size:23 final size:23
Alignment explanation
Indices: 102166058--102166104 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
102166048 AATTTTTTCT
**
102166058 AAAAATAAAAACTATTTTTTAAA
1 AAAAATAAAAACTATTTTAAAAA
102166081 AAAAATAGAAAA-TATTTTAAAAA
1 AAAAATA-AAAACTATTTTAAAAA
102166104 A
1 A
102166105 TCAAACAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAATAAAAACTATTTTAAAAA
Found at i:102169769 original size:21 final size:21
Alignment explanation
Indices: 102169723--102169769 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
102169713 AAACGAGAAG
*
102169723 ATTCAGCCTAGTAGAGGTATT
1 ATTCGGCCTAGTAGAGGTATT
*
102169744 ATTCGGCCTAGTGGAGGTATT
1 ATTCGGCCTAGTAGAGGTATT
102169765 ATTCG
1 ATTCG
102169770 ACAAGCTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (21 bp):
ATTCGGCCTAGTAGAGGTATT
Found at i:102175779 original size:2 final size:2
Alignment explanation
Indices: 102175772--102175805 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
102175762 ATTCAAACTG
102175772 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
102175806 TCATTCATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:102175914 original size:133 final size:133
Alignment explanation
Indices: 102175671--102176041 Score: 621
Period size: 117 Copynumber: 2.9 Consensus size: 133
102175661 CCGTATCTCT
102175671 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
1 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
102175736 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACACACACACAC
66 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACACACACACAC
102175801 ACA
131 ACA
*
102175804 CATCATTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
1 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
102175869 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTG----------------CACACACACACAC
66 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACACACACACAC
102175918 ACA
131 ACA
102175921 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
1 CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
102175986 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACA
66 CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACA
102176042 TACATACAAA
Statistics
Matches: 220, Mismatches: 2, Indels: 32
0.87 0.01 0.13
Matches are distributed among these distances:
117 116 0.53
133 104 0.47
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (133 bp):
CATCCTTCATCCCTTTCTCCTGATAAACCTACATCACAATCAAGAAATGTCGTTTTAAGAGAGCT
CCAATGGTCAAATGAAACAATGCAGGATTCAAACTGCACACACACACACACACACACACACACAC
ACA
Found at i:102181740 original size:9 final size:9
Alignment explanation
Indices: 102181711--102181741 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
102181701 TAAAATTTAC
102181711 AATTCGAAT
1 AATTCGAAT
*
102181720 AACTCGAAT
1 AATTCGAAT
102181729 AATTCGAAT
1 AATTCGAAT
102181738 AATT
1 AATT
102181742 AAAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:102181794 original size:11 final size:11
Alignment explanation
Indices: 102181771--102181820 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
102181761 TAAAAATTAT
102181771 AAAAATTTC-A
1 AAAAATTTCTA
102181781 AAAAATTTCTA
1 AAAAATTTCTA
* *
102181792 AAAAATATATA
1 AAAAATTTCTA
*
102181803 AAGAAAATT-TA
1 AA-AAATTTCTA
102181814 AAAAATT
1 AAAAATT
102181821 AAAATCTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
10 13 0.39
11 16 0.48
12 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (11 bp):
AAAAATTTCTA
Found at i:102183896 original size:26 final size:25
Alignment explanation
Indices: 102183855--102183906 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
102183845 CACTTCTTAT
102183855 AAAATATTTATCATTTCAAA-AATTA
1 AAAATATTTATCATTT-AAATAATTA
102183880 AAAATTATTCTAT-ATTTAAATAATTA
1 AAAA-TATT-TATCATTTAAATAATTA
102183906 A
1 A
102183907 TTGATGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 7 0.29
26 14 0.58
27 3 0.12
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (25 bp):
AAAATATTTATCATTTAAATAATTA
Found at i:102184162 original size:20 final size:19
Alignment explanation
Indices: 102184129--102184174 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
102184119 TGGGTTTTGA
* *
102184129 AAAAATTATTAAAAGTTCT
1 AAAAATTATAAAAAATTCT
102184148 AAAAATATATAAAAAATTCT
1 AAAAAT-TATAAAAAATTCT
*
102184168 TAAAATT
1 AAAAATT
102184175 CATTATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTATAAAAAATTCT
Found at i:102191674 original size:34 final size:36
Alignment explanation
Indices: 102191635--102191710 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 36
102191625 GCGCCCAACG
* *
102191635 CTAGTCGA-ATAAACTGAC-AAA-TGTGTGCCTAGCA
1 CTAGTCGAGATAAACTAACGAAAGT-TGCGCCTAGCA
*
102191669 CTAGTC-AGATAAACTAACGGAAGTTGCGCCTAGCA
1 CTAGTCGAGATAAACTAACGAAAGTTGCGCCTAGCA
102191704 CTAGTCG
1 CTAGTCG
102191711 GATGAACCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
33 1 0.03
34 15 0.43
35 18 0.51
36 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (36 bp):
CTAGTCGAGATAAACTAACGAAAGTTGCGCCTAGCA
Found at i:102191800 original size:74 final size:74
Alignment explanation
Indices: 102191704--102191842 Score: 217
Period size: 74 Copynumber: 1.9 Consensus size: 74
102191694 GCGCCTAGCA
102191704 CTAGTCGGATGAACCGAAAAATAAATAGTGAGCCCAACTCTAGTTGGATATACCAAAGATATTTG
1 CTAGTCGGATGAACCGAAAAATAAATAGTGAGCCCAACTCTAGTTGGATATACCAAAGATATTTG
102191769 CGCCTAATG
66 CGCCTAATG
* * * * *
102191778 CTAGTCGGAT-AAGCCGACAAATAAATAGTGAGCCTAGCTCTAGTTGGATATACTAACGATATTT
1 CTAGTCGGATGAA-CCGAAAAATAAATAGTGAGCCCAACTCTAGTTGGATATACCAAAGATATTT
102191842 G
65 G
102191843 TGCCCAGCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 2 0.03
74 57 0.97
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (74 bp):
CTAGTCGGATGAACCGAAAAATAAATAGTGAGCCCAACTCTAGTTGGATATACCAAAGATATTTG
CGCCTAATG
Found at i:102191821 original size:39 final size:37
Alignment explanation
Indices: 102191696--102191827 Score: 94
Period size: 39 Copynumber: 3.5 Consensus size: 37
102191686 CGGAAGTTGC
*
102191696 GCCTAGCACTAGTCGGATGAACCGAAAAATAAATAGTGA
1 GCCTAGCTCTAGTCGGAT-AACCG-AAAATAAATAGTGA
* * * * *
102191735 GCCCAACTCTAGTTGGATATACC-AAAGAT--AT-TTGC
1 GCCTAGCTCTAGTCGGATA-ACCGAAA-ATAAATAGTGA
*
102191770 GCCTA-ATGCTAGTCGGATAAGCCGACAAATAAATAGTGA
1 GCCTAGCT-CTAGTCGGATAA-CCGA-AAATAAATAGTGA
*
102191809 GCCTAGCTCTAGTTGGATA
1 GCCTAGCTCTAGTCGGATA
102191828 TACTAACGAT
Statistics
Matches: 70, Mismatches: 13, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
34 2 0.03
35 18 0.26
36 5 0.07
37 5 0.07
38 5 0.07
39 34 0.49
40 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (37 bp):
GCCTAGCTCTAGTCGGATAACCGAAAATAAATAGTGA
Found at i:102191860 original size:74 final size:73
Alignment explanation
Indices: 102191708--102191863 Score: 204
Period size: 74 Copynumber: 2.1 Consensus size: 73
102191698 CTAGCACTAG
102191708 TCGGATGAACCGAAAAATAAATAGTGAGCCCAACTCTAGTTGGATATACCAAAGATATTTGCGCC
1 TCGGAT-AACCGAAAAATAAATAGTGAGCCCAACTCTAGTTGGATATACCAAAGATATTTGCGCC
* * *
102191773 TAATGCTAG
65 CAACGCTAA
* * * * * *
102191782 TCGGATAAGCCGACAAATAAATAGTGAGCCTAGCTCTAGTTGGATATACTAACGATATTTGTGCC
1 TCGGATAA-CCGAAAAATAAATAGTGAGCCCAACTCTAGTTGGATATACCAAAGATATTTGCGCC
*
102191847 CAGCGCTAA
65 CAACGCTAA
102191856 TCGGATAA
1 TCGGATAA
102191864 ACCAACGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
73 2 0.03
74 69 0.97
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (73 bp):
TCGGATAACCGAAAAATAAATAGTGAGCCCAACTCTAGTTGGATATACCAAAGATATTTGCGCCC
AACGCTAA
Found at i:102192394 original size:21 final size:21
Alignment explanation
Indices: 102192368--102192423 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
102192358 CCCATGTGAC
*
102192368 TCACACAGCCGTGTCACT-AG
1 TCACACGGCCGTGTCACTAAG
* *
102192388 ATCACACGGCCATGTCGCTAAG
1 -TCACACGGCCGTGTCACTAAG
102192410 TCACACGGCCGTGT
1 TCACACGGCCGTGT
102192424 TGAGAGCCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (21 bp):
TCACACGGCCGTGTCACTAAG
Found at i:102193811 original size:18 final size:20
Alignment explanation
Indices: 102193770--102193816 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
102193760 TATTCCAAGC
* *
102193770 TCAATATCAGTCAATATTTT
1 TCAATATCAATCAATATTTA
102193790 TCAATATCAATC-A-ATTTA
1 TCAATATCAATCAATATTTA
102193808 TCAATATCA
1 TCAATATCA
102193817 TTCAGTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 1 0.04
20 11 0.44
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (20 bp):
TCAATATCAATCAATATTTA
Found at i:102197845 original size:13 final size:13
Alignment explanation
Indices: 102197827--102197851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102197817 AATTCCAATT
102197827 TAGTCCCTAAACC
1 TAGTCCCTAAACC
102197840 TAGTCCCTAAAC
1 TAGTCCCTAAAC
102197852 AGAGACTAAC
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:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (13 bp):
TAGTCCCTAAACC
Found at i:102198270 original size:25 final size:25
Alignment explanation
Indices: 102198220--102198272 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
102198210 AAAACCCCAA
*
102198220 TTTCTCCTTCTTTTTTCTTTCTTTC
1 TTTCTCCTTCTTTTTTCTTTCGTTC
102198245 TTTC-CCTTCTTTGTTTCGTTT-GTTC
1 TTTCTCCTTCTTT-TTTC-TTTCGTTC
102198270 TTT
1 TTT
102198273 TTTATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 14 0.56
26 3 0.12
ACGTcount: A:0.00, C:0.25, G:0.06, T:0.70
Consensus pattern (25 bp):
TTTCTCCTTCTTTTTTCTTTCGTTC
Found at i:102199563 original size:2 final size:2
Alignment explanation
Indices: 102199556--102199588 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
102199546 AAATTAACAG
102199556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102199589 ATTCCCTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102205243 original size:2 final size:2
Alignment explanation
Indices: 102205236--102205265 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102205226 TCTATTATTA
102205236 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
102205266 CCTTTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102205904 original size:30 final size:30
Alignment explanation
Indices: 102205870--102205932 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
102205860 ACTTATTTTA
102205870 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
102205900 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
102205930 TTG
1 TTG
102205933 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:102213766 original size:18 final size:18
Alignment explanation
Indices: 102213733--102213767 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102213723 ATTAGTTCGA
**
102213733 TTAAAAATTATTAAAATT
1 TTAAAAATTAAAAAAATT
102213751 TTAAAAATTAAAAAAAT
1 TTAAAAATTAAAAAAAT
102213768 AGTTCAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTAAAAATTAAAAAAATT
Found at i:102226045 original size:20 final size:19
Alignment explanation
Indices: 102226008--102226046 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
102225998 ATTTTTTAGA
* *
102226008 ATTTTTTATAAAATAAATT
1 ATTTTATATAAAACAAATT
102226027 ATTTTATATCAAAACAAATT
1 ATTTTATAT-AAAACAAATT
102226047 CACTTCCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTATATAAAACAAATT
Found at i:102239864 original size:20 final size:19
Alignment explanation
Indices: 102239827--102239865 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
102239817 ATTTTTTAGA
* *
102239827 ATTTTTTATAAAATAAATT
1 ATTTTATATAAAACAAATT
102239846 ATTTTATATCAAAACAAATT
1 ATTTTATAT-AAAACAAATT
102239866 CACTTCCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTTATATAAAACAAATT
Found at i:102247914 original size:2 final size:2
Alignment explanation
Indices: 102247902--102247939 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
102247892 GTTTAAACAA
*
102247902 AT AT GT 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 AT AT AT
102247940 GAAATGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102248226 original size:13 final size:13
Alignment explanation
Indices: 102248181--102248219 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
102248171 TTAAATGGTA
102248181 AAATGAAATGTTT
1 AAATGAAATGTTT
* *
102248194 ACATGAAATGGTT
1 AAATGAAATGTTT
102248207 AAATGAAATGTTT
1 AAATGAAATGTTT
102248220 TTATGAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (13 bp):
AAATGAAATGTTT
Found at i:102257486 original size:23 final size:23
Alignment explanation
Indices: 102257456--102257502 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
102257446 CATCACGATG
102257456 ATTGGTTCATATCATTAATGGTT
1 ATTGGTTCATATCATTAATGGTT
102257479 ATTGGTTCATATCATTAATGGTT
1 ATTGGTTCATATCATTAATGGTT
102257502 A
1 A
102257503 CATTAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTGGTTCATATCATTAATGGTT
Found at i:102262179 original size:5 final size:5
Alignment explanation
Indices: 102262169--102262214 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
102262159 CAACTTTAGG
* * *
102262169 GAAGA GAAGA GAAGAA AAAGT GAAGA GAAGA GAAAA GAAGA GAAGA
1 GAAGA GAAGA GAAG-A GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA
102262215 AAAATGATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (5 bp):
GAAGA
Found at i:102262608 original size:6 final size:6
Alignment explanation
Indices: 102262597--102262640 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
102262587 AACAACAGAA
* * *
102262597 CTATGC CTATGC CTATGC CTATGC CTACGG CTATGG CTATGC CT
1 CTATGC CTATGC CTATGC CTATGC CTATGC CTATGC CTATGC CT
102262641 GTGCTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (6 bp):
CTATGC
Found at i:102265612 original size:68 final size:66
Alignment explanation
Indices: 102265449--102265619 Score: 175
Period size: 66 Copynumber: 2.6 Consensus size: 66
102265439 CTAAGAAGAC
* * ** *
102265449 AAGGTAC-CAAAAAAGGTACATGACTTGGGAAGGTCATGAACTTTGAAAAGTTGTGTTTGAAAAG
1 AAGGTACTCTAAAAA-GTACGTGACTTGGGAAGGTCACAAACTTTGAAAAGTTGTGCTTGAAAAG
102265513 GT
65 GT
* * *
102265515 AAGGTACTTTAAAAAGTACGTGATTTGGGAATGTCACAAACTTTGAAAAGTTAAGTGCTT-AAGA
1 AAGGTACTCTAAAAAGTACGTGACTTGGGAAGGTCACAAACTTTGAAAAGTT--GTGCTTGAA-A
102265579 AGGT
63 AGGT
* * * * *
102265583 GAGGTACTCTAAGAAGTATGTGACCTGGGAAGATCAC
1 AAGGTACTCTAAAAAGTACGTGACTTGGGAAGGTCAC
102265620 GTTATAACGC
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
66 39 0.46
67 7 0.08
68 39 0.46
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (66 bp):
AAGGTACTCTAAAAAGTACGTGACTTGGGAAGGTCACAAACTTTGAAAAGTTGTGCTTGAAAAGG
T
Found at i:102266574 original size:2 final size:2
Alignment explanation
Indices: 102266567--102266595 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
102266557 TCACATGGGA
102266567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102266596 CTTTAAACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102267389 original size:42 final size:42
Alignment explanation
Indices: 102267313--102267431 Score: 152
Period size: 42 Copynumber: 2.8 Consensus size: 42
102267303 TCGTACCAAT
* *
102267313 GCCATATCCTAGATATGGTCTTACATATAATCTCATATCGAA
1 GCCAAATCCCAGATATGGTCTTACATATAATCTCATATCGAA
* * *
102267355 GCC-AATACCCAGCTATGGTCTTACATGA-AGTCTCATATCGAT
1 GCCAAAT-CCCAGATATGGTCTTACAT-ATAATCTCATATCGAA
*
102267397 GCCAAATCCCAGATATGGTCTTACACATAATCTCA
1 GCCAAATCCCAGATATGGTCTTACATATAATCTCA
102267432 GTAATCCTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.05
42 58 0.89
43 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCAAATCCCAGATATGGTCTTACATATAATCTCATATCGAA
Found at i:102268843 original size:86 final size:86
Alignment explanation
Indices: 102268747--102268908 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 86
102268737 ACTTAGAAAG
* * *
102268747 GTCAAAAGCTTT-GAAAGGCTT-AGCACTAGATAAGGCGAGGTGTATATTAAGAGATACGATACC
1 GTCAAAAGCTTTAAAAAGG-TTCA-CACTAGATAAGGCGAGATGTATATTAAGAGATACGATACA
*
102268810 TTAAGAGATATGTGTGTTGATAA
64 TTAAAAGATATGTGTGTTGATAA
* * * *
102268833 GTCAAGAGCTTTAAAAAGGTTCACACTTGATAAGGCGAGATGTATCTTAAGAGATATGATACATT
1 GTCAAAAGCTTTAAAAAGGTTCACACTAGATAAGGCGAGATGTATATTAAGAGATACGATACATT
102268898 AAAAGATATGT
66 AAAAGATATGT
102268909 AACTTAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 60 0.91
87 6 0.09
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (86 bp):
GTCAAAAGCTTTAAAAAGGTTCACACTAGATAAGGCGAGATGTATATTAAGAGATACGATACATT
AAAAGATATGTGTGTTGATAA
Found at i:102269095 original size:87 final size:87
Alignment explanation
Indices: 102268973--102269143 Score: 254
Period size: 87 Copynumber: 2.0 Consensus size: 87
102268963 AAGTTAAGAG
** * * *
102268973 ATACCTTAAGAGATATGTGACCTGAAAAGGTCAAAAGCTTTGGAAAGCTCGACACTTGAGAATGC
1 ATACCTTAAGAGATATGTGACCTGAAAAGACCAAAAGCTTTAGAAAACTCAACACTTGAGAATGC
*
102269038 AAGGTGTATCTTAAGAGATGTA
66 AAGGTGTATCTTAAAAGATGTA
*
102269060 ATACCTTAA-ACGATATGTGACCTGAAAAGACCAAAAGCTTTAGAAAACTCAACCCTTGAGAATG
1 ATACCTTAAGA-GATATGTGACCTGAAAAGACCAAAAGCTTTAGAAAACTCAACACTTGAGAATG
*
102269124 CGAGGTGTATCTTAAAAGAT
65 CAAGGTGTATCTTAAAAGAT
102269144 ATGAGGTGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
86 1 0.01
87 74 0.99
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (87 bp):
ATACCTTAAGAGATATGTGACCTGAAAAGACCAAAAGCTTTAGAAAACTCAACACTTGAGAATGC
AAGGTGTATCTTAAAAGATGTA
Found at i:102269151 original size:21 final size:21
Alignment explanation
Indices: 102269125--102269165 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102269115 TTGAGAATGC
102269125 GAGGTGTATCTTAAAAGATAT
1 GAGGTGTATCTTAAAAGATAT
* *
102269146 GAGGTGTATTTTAAGAGATA
1 GAGGTGTATCTTAAAAGATA
102269166 CAATACCTTA
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:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (21 bp):
GAGGTGTATCTTAAAAGATAT
Found at i:102269228 original size:108 final size:108
Alignment explanation
Indices: 102269039--102269255 Score: 274
Period size: 108 Copynumber: 2.0 Consensus size: 108
102269029 TGAGAATGCA
** *
102269039 AGGTGTATCTTAAGAGATGTAATACCTTAAACGATATGTGACCTGAAAAGACCAAAAGCTTTAGA
1 AGGTGTATCTTAAGAGATACAATACCTTAAAAGATATGTGACCTGAAAAGACCAAAAGCTTTAGA
*
102269104 AAACTCAACCCTTGAGAATGCGAGGTGTATCTTAAAAGATATG
66 AAACTCAACCCTTGAGAAGGCGAGGTGTATCTTAAAAGATATG
* * * * * *
102269147 AGGTGTATTTTAAGAGATACAATACCTTAAAAGGTATGTGACTTGAAAA-AGCTAACAGCTTTCG
1 AGGTGTATCTTAAGAGATACAATACCTTAAAAGATATGTGACCTGAAAAGA-CCAAAAGCTTTAG
* ** ** *
102269211 AAAGCTTGATGCTTGAGAAGGCGAGGTGTATCTTAAGAGATATG
65 AAAACTCAACCCTTGAGAAGGCGAGGTGTATCTTAAAAGATATG
102269255 A
1 A
102269256 TACCTTAAGA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
107 1 0.01
108 91 0.99
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (108 bp):
AGGTGTATCTTAAGAGATACAATACCTTAAAAGATATGTGACCTGAAAAGACCAAAAGCTTTAGA
AAACTCAACCCTTGAGAAGGCGAGGTGTATCTTAAAAGATATG
Found at i:102269294 original size:87 final size:86
Alignment explanation
Indices: 102269147--102269491 Score: 313
Period size: 87 Copynumber: 4.0 Consensus size: 86
102269137 AAAAGATATG
* * * * * * *
102269147 AGGTGTATTTTAAGAGATACAATACCTTAAAAGGTATGTGACTTGAAAAAGCT-AACAGCTTTCG
1 AGGTGTATCTTAAAAGATACGATACCTT-AAAGGTATGTGAATTGAAAAGGCTCAAAAGCTTT-A
* * *
102269211 AAAGCTTGATGCTTGAGAAGGCG
64 AAAGCTCGATGCTTGAAAAGGCA
* *
102269234 AGGTGTATCTTAAGAGATATGATACCTTAAGAGGTATGTGAATTGAAAAGGCT-AAAAGCTTTAA
1 AGGTGTATCTTAAAAGATACGATACCTTAA-AGGTATGTGAATTGAAAAGGCTCAAAAGCTTTAA
** *
102269298 CAAGCTTAATGCCTGAAAAGGCA
65 -AAGCTCGATGCTTGAAAAGGCA
* * * * *
102269321 ATGTGTATCTTAAAAGATATGATACCTTAATAGGTATGTGTCA-T-AAAAGGGTCAAGAGCTTTG
1 AGGTGTATCTTAAAAGATACGATACCTTAA-AGGTATGTG-AATTGAAAAGGCTCAAAAGCTTT-
* *
102269384 AAAAGCTCGACGCTTGAAAAGGAA
63 AAAAGCTCGATGCTTGAAAAGGCA
* * * * * * *
102269408 ATGTATATCTTAAAAGATACGATACCTTAAAAGCATGTGACTTGAAAATG-TCAATAGCTTTAAA
1 AGGTGTATCTTAAAAGATACGATACCTTAAAGGTATGTGAATTGAAAAGGCTCAAAAGCTTTAAA
102269472 AGGCTCGATGCTTGAGAAAG
66 A-GCTCGATGCTTGA-AAAG
102269492 TGAGGTATCT
Statistics
Matches: 218, Mismatches: 31, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
85 4 0.02
86 40 0.18
87 171 0.78
88 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (86 bp):
AGGTGTATCTTAAAAGATACGATACCTTAAAGGTATGTGAATTGAAAAGGCTCAAAAGCTTTAAA
AGCTCGATGCTTGAAAAGGCA
Found at i:102269329 original size:195 final size:195
Alignment explanation
Indices: 102268973--102269342 Score: 451
Period size: 195 Copynumber: 1.9 Consensus size: 195
102268963 AAGTTAAGAG
* * * *
102268973 ATACCTTAAGAGATATGTGACCTGAAAAGGTCAAAAGCTTTGGAAAGCTCGACACTTGAGAATGC
1 ATACCTTAAAAGATATGTGACCTGAAAAGCTCAAAAGCTTTCGAAAGCTCGACACTTGAGAAGGC
* *
102269038 AAGGTGTATCTTAAGAGATGTAATACCTTAAACGATATGTGACCTGAAAAGACCAAAAGCTTTAG
66 AAGGTGTATCTTAAGAGATATAATACCTTAAACGATATGTGAACTGAAAAGACCAAAAGCTTTAG
* * *
102269103 AAAACTCAACCCTTGAGAATGCGAGGTGTATCTTAAAAGATATGAGGTGTATTTTAAGAGATACA
131 AAAACTCAACCCTTGAAAAGGCAAGGTGTATCTTAAAAGATATGAGGTGTATTTTAAGAGATACA
* * * * **
102269168 ATACCTTAAAAGGTATGTGACTTGAAAAAGCT-AACAGCTTTCGAAAGCTTGATGCTTGAGAAGG
1 ATACCTTAAAAGATATGTGACCTG-AAAAGCTCAAAAGCTTTCGAAAGCTCGACACTTGAGAAGG
* * * * * *
102269232 CGAGGTGTATCTTAAGAGATATGATACCTTAAGA-GGTATGTGAATTGAAAAGGCTAAAAGCTTT
65 CAAGGTGTATCTTAAGAGATATAATACCTTAA-ACGATATGTGAACTGAAAAGACCAAAAGCTTT
* * * *
102269296 A-ACAAGCTTAATGCC-TGAAAAGGCAATGTGTATCTTAAAAGATATGA
129 AGA-AAACTCAA-CCCTTGAAAAGGCAAGGTGTATCTTAAAAGATATGA
102269343 TACCTTAATA
Statistics
Matches: 146, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
194 1 0.01
195 136 0.93
196 9 0.06
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.26
Consensus pattern (195 bp):
ATACCTTAAAAGATATGTGACCTGAAAAGCTCAAAAGCTTTCGAAAGCTCGACACTTGAGAAGGC
AAGGTGTATCTTAAGAGATATAATACCTTAAACGATATGTGAACTGAAAAGACCAAAAGCTTTAG
AAAACTCAACCCTTGAAAAGGCAAGGTGTATCTTAAAAGATATGAGGTGTATTTTAAGAGATACA
Found at i:102272475 original size:12 final size:13
Alignment explanation
Indices: 102272458--102272532 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 13
102272448 TAAAATAGTA
102272458 TATATAATTTTAT
1 TATATAATTTTAT
102272471 T-TATATATTATTCAT
1 TATATA-ATT-TT-AT
*
102272486 TATATTATTTATAT
1 TATATAATTT-TAT
102272500 TATCATACATTTTAT
1 TAT-ATA-ATTTTAT
* *
102272515 T-TATAAATTTAG
1 TATATAATTTTAT
102272527 TATATA
1 TATATA
102272533 TTATATTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
12 10 0.20
13 11 0.22
14 9 0.18
15 13 0.26
16 7 0.14
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (13 bp):
TATATAATTTTAT
Found at i:102272500 original size:21 final size:21
Alignment explanation
Indices: 102272474--102272519 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
102272464 ATTTTATTTA
*
102272474 TATATTATTCAT-TATATTATT
1 TATATTA-TCATACATATTATT
*
102272495 TATATTATCATACATTTTATT
1 TATATTATCATACATATTATT
102272516 TATA
1 TATA
102272520 AATTTAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTATCATACATATTATT
Found at i:102272515 original size:24 final size:23
Alignment explanation
Indices: 102272467--102272515 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
102272457 ATATATAATT
* *
102272467 TTATTTATATATTATTCATTATA
1 TTATTTATATATCATACATTATA
*
102272490 TTATTTATATTATCATACATTTTA
1 TTATTTATA-TATCATACATTATA
102272514 TT
1 TT
102272516 TATAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTATATATCATACATTATA
Found at i:102283071 original size:11 final size:11
Alignment explanation
Indices: 102283055--102283108 Score: 81
Period size: 11 Copynumber: 4.9 Consensus size: 11
102283045 CCTAGCTCAC
102283055 TGCTGTTTTGG
1 TGCTGTTTTGG
*
102283066 TGCTGTTTGGG
1 TGCTGTTTTGG
*
102283077 TGCTGTTTGGG
1 TGCTGTTTTGG
102283088 TGCTGTTTTGG
1 TGCTGTTTTGG
*
102283099 TGCTATTTTG
1 TGCTGTTTTG
102283109 CTCTATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.02, C:0.09, G:0.37, T:0.52
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:102284771 original size:2 final size:2
Alignment explanation
Indices: 102284759--102284801 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
102284749 TTATGACTAA
* *
102284759 AT AT TT AT AT AT AT AT AT AT AT AT GT 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 AT AT AT AT AT
102284801 A
1 A
102284802 ATTATGAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:102285148 original size:19 final size:19
Alignment explanation
Indices: 102285101--102285237 Score: 74
Period size: 19 Copynumber: 7.2 Consensus size: 19
102285091 ATTCTCAATA
102285101 AAAATATTATAAAATTATAT
1 AAAA-ATTATAAAATTATAT
*
102285121 AAAAATTATTAAATTGATAT
1 AAAAATTATAAAATT-ATAT
*
102285141 -AAACTTATAAAAATTATA-
1 AAAAATTAT-AAAATTATAT
* *
102285159 AAATATAATAAAA--ATAT
1 AAAAATTATAAAATTATAT
*
102285176 AATAAATTCTAATAAATT-TAT
1 AA-AAATTAT-A-AAATTATAT
* * *
102285197 -AAATTTATAAATTTAATAA
1 AAAAATTATAAAATT-ATAT
102285216 AACAAATT-TAAAA-TATAT
1 AA-AAATTATAAAATTATAT
102285234 AAAA
1 AAAA
102285238 TTGTACAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 29
0.66 0.12 0.22
Matches are distributed among these distances:
16 3 0.03
17 8 0.09
18 14 0.16
19 34 0.39
20 22 0.25
21 7 0.08
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (19 bp):
AAAAATTATAAAATTATAT
Found at i:102285159 original size:9 final size:9
Alignment explanation
Indices: 102285101--102285463 Score: 76
Period size: 10 Copynumber: 38.3 Consensus size: 9
102285091 ATTCTCAATA
102285101 AAAATATTAT
1 AAAA-ATTAT
*
102285111 AAAATTATAT
1 AAAAAT-TAT
102285121 AAAAATTAT
1 AAAAATTAT
*
102285130 -TAAATTGAT
1 AAAAATT-AT
*
102285139 ATAAACTTAT
1 A-AAAATTAT
102285149 AAAAATTAT
1 AAAAATTAT
*
102285158 AAAATATAAT
1 AAAA-ATTAT
102285168 AAAAA-TAT
1 AAAAATTAT
*
102285176 AATAAATTCT
1 AA-AAATTAT
102285186 AATAAATT-T
1 AA-AAATTAT
*
102285195 ATAAATTTAT
1 A-AAAATTAT
*
102285205 AAATTTAA-TAA
1 AAA---AATTAT
102285216 AACAAATT-T
1 AA-AAATTAT
102285225 -AAAATATAT
1 AAAAAT-TAT
* *
102285234 AAAATTGTAC
1 AAAAAT-TAT
102285244 AAAAATGTA-
1 AAAAAT-TAT
*
102285253 AAACAAATACTT
1 AAA-AATTA--T
*
102285265 GAAAACTTAT
1 -AAAAATTAT
102285275 AAAAAATTATT
1 -AAAAATTA-T
102285286 AAAAA-TA-
1 AAAAATTAT
*
102285293 AAAAATGATAA
1 AAAAAT--TAT
102285304 AAAAATTATT
1 AAAAATTA-T
*
102285314 AAATATT-T
1 AAAAATTAT
* *
102285322 TAACA-T-T
1 AAAAATTAT
*
102285329 -AAAATCAT
1 AAAAATTAT
*
102285337 ATAAACTTAT
1 A-AAAATTAT
102285347 AAAAATTAT
1 AAAAATTAT
102285356 AATAAA-TAT
1 AA-AAATTAT
*
102285365 AAAAAATAT
1 AAAAATTAT
102285374 AAAAA-TAT
1 AAAAATTAT
102285382 AATAAATTATTT
1 AA-AAATTA--T
102285394 AAAAAATATAT
1 -AAAAAT-TAT
*
102285405 AAAATATTTT
1 AAAA-ATTAT
***
102285415 AATTCTTAT
1 AAAAATTAT
*
102285424 AAAAACTAAT
1 AAAAA-TTAT
102285434 AAATAA-TAT
1 AAA-AATTAT
*
102285443 -AAAAGTATT
1 AAAAATTA-T
102285452 AAAAATTAT
1 AAAAATTAT
102285461 AAA
1 AAA
102285464 TATCATTTAA
Statistics
Matches: 265, Mismatches: 42, Indels: 93
0.66 0.10 0.23
Matches are distributed among these distances:
6 3 0.01
7 13 0.05
8 28 0.11
9 78 0.29
10 106 0.40
11 20 0.08
12 10 0.04
13 7 0.03
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:102285170 original size:47 final size:47
Alignment explanation
Indices: 102285101--102285217 Score: 132
Period size: 47 Copynumber: 2.5 Consensus size: 47
102285091 ATTCTCAATA
*
102285101 AAAATATTATAAAATTATATAAAAAT-TATTAAATTGAT-ATAAACTTAT
1 AAAA-ATTATAAAATTA-ATAAAAATATAATAAATT-ATAATAAACTTAT
* *
102285149 AAAAATTATAAAATATAATAAAAATATAATAAATTCTAATAAATTTAT
1 AAAAATTATAAAAT-TAATAAAAATATAATAAATTATAATAAACTTAT
* *
102285197 -AAATTTATAAATTTAATAAAA
1 AAAAATTATAAAATTAATAAAA
102285218 CAAATTTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
46 8 0.13
47 30 0.49
48 23 0.38
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.38
Consensus pattern (47 bp):
AAAAATTATAAAATTAATAAAAATATAATAAATTATAATAAACTTAT
Found at i:102285200 original size:8 final size:9
Alignment explanation
Indices: 102285170--102285216 Score: 62
Period size: 8 Copynumber: 5.3 Consensus size: 9
102285160 AATATAATAA
*
102285170 AAATATAAT
1 AAATTTAAT
102285179 AAATTCTAAT
1 AAATT-TAAT
102285189 AAATTT-AT
1 AAATTTAAT
102285197 AAATTT-AT
1 AAATTTAAT
102285205 AAATTTAAT
1 AAATTTAAT
102285214 AAA
1 AAA
102285217 ACAAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
8 16 0.46
9 10 0.29
10 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
AAATTTAAT
Found at i:102285306 original size:17 final size:17
Alignment explanation
Indices: 102285273--102285307 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
102285263 TTGAAAACTT
* *
102285273 ATAAAAAATTATTAAAA
1 ATAAAAAATGATAAAAA
102285290 ATAAAAAATGATAAAAA
1 ATAAAAAATGATAAAAA
102285307 A
1 A
102285308 ATTATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAAAAAATGATAAAAA
Found at i:102285351 original size:19 final size:18
Alignment explanation
Indices: 102285329--102285388 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
102285319 TTTTAACATT
102285329 AAAATCAT-ATAAACTTATA
1 AAAATCATAATAAA--TATA
*
102285348 AAAATTATAATAAATATAA
1 AAAATCATAATAAATAT-A
102285367 AAAAT-ATAA-AAATATA
1 AAAATCATAATAAATATA
102285383 ATAAAT
1 A-AAAT
102285389 TATTTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 2 0.05
17 10 0.27
18 7 0.19
19 13 0.35
20 5 0.14
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAATCATAATAAATATA
Found at i:102285365 original size:18 final size:17
Alignment explanation
Indices: 102285344--102285391 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 17
102285334 CATATAAACT
102285344 TATAAAAATTATAATAAA
1 TATAAAAATTATAA-AAA
*
102285362 TATAAAAAATATAAAAA
1 TATAAAAATTATAAAAA
102285379 TATAATAAATTAT
1 TATAA-AAATTAT
102285392 TTAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAAATTATAAAAA
Found at i:102285368 original size:17 final size:17
Alignment explanation
Indices: 102285344--102285411 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 17
102285334 CATATAAACT
*
102285344 TATAAAAATTATAATAAA
1 TATAAAAAATATAA-AAA
102285362 TATAAAAAATATAAAAA
1 TATAAAAAATATAAAAA
*
102285379 TATAATAAATTATTTAAAAAA
1 TATAA-AAA--ATAT-AAAAA
*
102285400 TATATAAAATAT
1 TATAAAAAATAT
102285412 TTTAATTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.19
18 19 0.45
20 6 0.14
21 9 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAAAAATATAAAAA
Found at i:102285397 original size:29 final size:26
Alignment explanation
Indices: 102285344--102285411 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 26
102285334 CATATAAACT
102285344 TATAAAAATTATAATAAATATAAAAAA
1 TATAAAAA-TATAATAAATATAAAAAA
102285371 TATAAAAATATAATAAATTATTTAAAAAA
1 TATAAAAATATAATAAA-TA--TAAAAAA
102285400 TATATAAAATAT
1 TATA-AAAATAT
102285412 TTTAATTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
26 9 0.24
27 10 0.27
29 11 0.30
30 7 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
TATAAAAATATAATAAATATAAAAAA
Found at i:102285418 original size:29 final size:31
Alignment explanation
Indices: 102285362--102285436 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 31
102285352 TTATAATAAA
102285362 TATAAAAAATATA-AAAATATAATAAATTAT
1 TATAAAAAATATATAAAATATAATAAATTAT
* * *
102285392 T-TAAAAAATATATAAAATAT-TTTAATTCT
1 TATAAAAAATATATAAAATATAATAAATTAT
*
102285421 TATAAAAACTA-ATAAA
1 TATAAAAAATATATAAA
102285437 TAATATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 23 0.59
30 16 0.41
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (31 bp):
TATAAAAAATATATAAAATATAATAAATTAT
Found at i:102285809 original size:18 final size:16
Alignment explanation
Indices: 102285771--102285809 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
102285761 CGTTAATTTG
*
102285771 ATTCGTTTAAAAATAT
1 ATTCGTTTAAAAAAAT
102285787 ATTCGTTTAAAGAAAACT
1 ATTCGTTTAAA-AAAA-T
102285805 ATTCG
1 ATTCG
102285810 CGTTTAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 3 0.15
18 6 0.30
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (16 bp):
ATTCGTTTAAAAAAAT
Found at i:102286734 original size:17 final size:18
Alignment explanation
Indices: 102286704--102286737 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
102286694 GTGGCTTGCC
102286704 CGTGTGGACCCACATGCA
1 CGTGTGGACCCACATGCA
102286722 CGTGTGG-CCCACATGC
1 CGTGTGGACCCACATGC
102286738 CCAGATTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (18 bp):
CGTGTGGACCCACATGCA
Found at i:102288310 original size:11 final size:10
Alignment explanation
Indices: 102288284--102288475 Score: 54
Period size: 10 Copynumber: 19.8 Consensus size: 10
102288274 TTTTATTTTT
102288284 TAATTTT-TA
1 TAATTTTATA
102288293 TAATTTTATA
1 TAATTTTATA
102288303 TCAATTTTA-A
1 T-AATTTTATA
102288313 T-ATTTT-TA
1 TAATTTTATA
* *
102288321 TGATTTTTTA
1 TAATTTTATA
102288331 TAAGTTTT-TAA
1 TAA-TTTTAT-A
* *
102288342 GAACTTTAATA
1 TAA-TTTTATA
**
102288353 TTTTTTTATA
1 TAATTTTATA
* *
102288363 AAATTTTAAA
1 TAATTTTATA
102288373 T-ATTTT-TA
1 TAATTTTATA
102288381 TAA-TTTATTA
1 TAATTTTA-TA
*
102288391 GAATTTTA-A
1 TAATTTTATA
*
102288400 -GATATTTA-A
1 TAAT-TTTATA
102288409 TAATATTTATA
1 TAAT-TTTATA
**
102288420 TGGTTTTAT-
1 TAATTTTATA
102288429 T-ATTTTATTA
1 TAATTTTA-TA
* *
102288439 CAATTTT-CA
1 TAATTTTATA
*
102288448 TAAGTTTATA
1 TAATTTTATA
102288458 TCAATTTTA-A
1 T-AATTTTATA
*
102288468 TATTTTTA
1 TAATTTTA
102288476 AAATTATTTT
Statistics
Matches: 136, Mismatches: 27, Indels: 40
0.67 0.13 0.20
Matches are distributed among these distances:
8 19 0.14
9 38 0.28
10 42 0.31
11 36 0.26
12 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (10 bp):
TAATTTTATA
Found at i:102288338 original size:10 final size:9
Alignment explanation
Indices: 102288278--102288397 Score: 64
Period size: 10 Copynumber: 12.6 Consensus size: 9
102288268 TCAAGTTTTT
102288278 ATTTTT-TA
1 ATTTTTATA
102288286 ATTTTTATA
1 ATTTTTATA
102288295 ATTTTATATCA
1 ATTTT-TAT-A
*
102288306 ATTTTAAT-
1 ATTTTTATA
102288314 ATTTTTATGA
1 ATTTTTAT-A
*
102288324 TTTTTTATA
1 ATTTTTATA
*
102288333 AGTTTTTAAGA
1 A-TTTTT-ATA
* *
102288344 ACTTTAATA
1 ATTTTTATA
*
102288353 TTTTTTTATAA
1 -ATTTTTAT-A
* *
102288364 AATTTTAAA
1 ATTTTTATA
102288373 TATTTTTATA
1 -ATTTTTATA
*
102288383 ATTTATTAGA
1 ATTT-TTATA
102288393 ATTTT
1 ATTTT
102288398 AAGATATTTA
Statistics
Matches: 84, Mismatches: 17, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
8 13 0.15
9 16 0.19
10 45 0.54
11 10 0.12
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:102288358 original size:20 final size:22
Alignment explanation
Indices: 102288335--102288379 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
102288325 TTTTTATAAG
*
102288335 TTTTTA-AGAACTTT-AATATT
1 TTTTTATAAAACTTTAAATATT
*
102288355 TTTTTATAAAATTTTAAATATT
1 TTTTTATAAAACTTTAAATATT
102288377 TTT
1 TTT
102288380 ATAATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 6 0.29
22 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTATAAAACTTTAAATATT
Found at i:102288475 original size:48 final size:45
Alignment explanation
Indices: 102288364--102288480 Score: 103
Period size: 48 Copynumber: 2.5 Consensus size: 45
102288354 TTTTTTATAA
*
102288364 AATTTTAAATATTTTTATAATTTATTAGAATTTTAAGATATTTAAT
1 AATTTT-AATATTTTTATAATTTATTACAATTTTAAGATATTTAAT
* * *
102288410 AATATTT-ATATGGTTTTATTATTTTATTACAATTTTCATA-AGTTTATAT
1 AAT-TTTAATAT--TTTTA-TAATTTATTACAATTTTAAGATA-TTTA-AT
*
102288459 CAATTTTAATATTTTTAAAATT
1 -AATTTTAATATTTTTATAATT
102288481 ATTTTTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
45 4 0.07
46 3 0.05
47 12 0.21
48 26 0.46
49 5 0.09
50 7 0.12
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (45 bp):
AATTTTAATATTTTTATAATTTATTACAATTTTAAGATATTTAAT
Found at i:102291007 original size:20 final size:20
Alignment explanation
Indices: 102290961--102290997 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
102290951 GACAATTAAA
102290961 ATCGATACCAATATAAAACT
1 ATCGATACCAATATAAAACT
102290981 ATCGATACCAA-ATAAAA
1 ATCGATACCAATATAAAA
102290998 TGTATTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.54, C:0.19, G:0.05, T:0.22
Consensus pattern (20 bp):
ATCGATACCAATATAAAACT
Found at i:102302802 original size:44 final size:44
Alignment explanation
Indices: 102302739--102302827 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
102302729 CAACAGCTTG
102302739 TTAATAGAAACAATTACTTTCACTGCTAATTGATTAACAAACTA
1 TTAATAGAAACAATTACTTTCACTGCTAATTGATTAACAAACTA
102302783 TTAATAGAAACAATTACTTTCACTGCTAATTGATTAACAAACTA
1 TTAATAGAAACAATTACTTTCACTGCTAATTGATTAACAAACTA
102302827 T
1 T
102302828 CATTTAATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.35
Consensus pattern (44 bp):
TTAATAGAAACAATTACTTTCACTGCTAATTGATTAACAAACTA
Found at i:102305057 original size:14 final size:14
Alignment explanation
Indices: 102305038--102305069 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
102305028 AAATAAGTCT
*
102305038 TTTTCCAGAAATCA
1 TTTTCCAGAAACCA
102305052 TTTTCCAGAAACCA
1 TTTTCCAGAAACCA
102305066 TTTT
1 TTTT
102305070 TAACAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (14 bp):
TTTTCCAGAAACCA
Found at i:102307789 original size:2 final size:2
Alignment explanation
Indices: 102307782--102307811 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102307772 CCCATATTAG
102307782 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
102307812 GGCATTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102309696 original size:2 final size:2
Alignment explanation
Indices: 102309689--102309738 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
102309679 TTTTTAAAAT
* * *
102309689 TA TA TA TA TA TA CA TA TA CA TA TA CA TA TA TA TA 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
102309731 TA TA TA TA
1 TA TA TA TA
102309739 AATTTCTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:102310997 original size:11 final size:11
Alignment explanation
Indices: 102310981--102311006 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
102310971 TTAGGTATTT
102310981 ATTTATTTATA
1 ATTTATTTATA
102310992 ATTTATTTATA
1 ATTTATTTATA
102311003 ATTT
1 ATTT
102311007 TGTATGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTATTTATA
Found at i:102315835 original size:44 final size:44
Alignment explanation
Indices: 102315772--102315859 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
102315762 GGAAGTAGTT
102315772 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
1 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
102315816 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
1 TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
102315860 ATCTTTTGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (44 bp):
TACAGAAATTAGGGTGGGAAACATTTATTCATCCATTTTGAGGA
Found at i:102321403 original size:3 final size:3
Alignment explanation
Indices: 102321397--102321434 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
102321387 TCATCATCAT
102321397 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
102321435 TCATCATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:102321439 original size:3 final size:3
Alignment explanation
Indices: 102321433--102321484 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
102321423 CCACCACCAC
102321433 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
102321481 CAT C
1 CAT C
102321485 TAAGTTCTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:102330583 original size:15 final size:17
Alignment explanation
Indices: 102330565--102330599 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
102330555 TATATTCTTA
102330565 AAAAATA-TT-AAAAAT
1 AAAAATATTTAAAAAAT
102330580 AAAAATATTTAAAAAAT
1 AAAAATATTTAAAAAAT
102330597 AAA
1 AAA
102330600 GAAAATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 2 0.11
17 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATATTTAAAAAAT
Found at i:102330584 original size:16 final size:18
Alignment explanation
Indices: 102330563--102330599 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
102330553 TATATATTCT
102330563 TAAAAAATA-TT-AAAAA
1 TAAAAAATATTTAAAAAA
102330579 T-AAAAATATTTAAAAAA
1 TAAAAAATATTTAAAAAA
102330596 TAAA
1 TAAA
102330600 GAAAATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.39
16 3 0.17
17 6 0.33
18 2 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAATATTTAAAAAA
Found at i:102331775 original size:14 final size:15
Alignment explanation
Indices: 102331758--102331798 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
102331748 TTATTTATTA
102331758 AATTAATTTT-AATT
1 AATTAATTTTCAATT
102331772 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
102331788 AAATAATTTTC
1 AATTAATTTTC
102331799 TCATCCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:102331789 original size:16 final size:15
Alignment explanation
Indices: 102331758--102331797 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
102331748 TTATTTATTA
102331758 AATTAA-TTTTAATT
1 AATTAATTTTTAATT
102331772 AATTAATTTTTCAATT
1 AATTAATTTTT-AATT
*
102331788 AAATAATTTT
1 AATTAATTTT
102331798 CTCATCCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 4 0.17
16 13 0.57
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATTTTTAATT
Found at i:102335699 original size:40 final size:39
Alignment explanation
Indices: 102335616--102335798 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 39
102335606 TCGAATGATG
* *
102335616 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
102335655 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
102335694 TTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
102335733 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
102335773 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
102335799 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
38 24 0.19
39 48 0.38
40 56 0.44
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:102335750 original size:78 final size:79
Alignment explanation
Indices: 102335616--102335796 Score: 244
Period size: 78 Copynumber: 2.3 Consensus size: 79
102335606 TCGAATGATG
*
102335616 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
102335681 TGCGAGTTACTA-A
66 TGCGAGTTACTATA
* * **
102335694 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCAT
102335756 TTGTGCGAGTTACTATA
63 TTGTGCGAGTTACTATA
* *
102335773 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
102335797 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
77 7 0.08
78 60 0.66
79 24 0.26
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:102343877 original size:40 final size:39
Alignment explanation
Indices: 102343794--102343976 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 39
102343784 TCGAATGATG
* *
102343794 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
102343833 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
102343872 TTCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
102343911 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
102343951 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
102343977 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
38 24 0.19
39 48 0.38
40 56 0.44
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:102343928 original size:78 final size:79
Alignment explanation
Indices: 102343794--102343974 Score: 244
Period size: 78 Copynumber: 2.3 Consensus size: 79
102343784 TCGAATGATG
*
102343794 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
102343859 TGCGAGTTACTA-A
66 TGCGAGTTACTATA
* * **
102343872 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCAT
102343934 TTGTGCGAGTTACTATA
63 TTGTGCGAGTTACTATA
* *
102343951 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
102343975 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
77 7 0.08
78 60 0.66
79 24 0.26
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:102347391 original size:28 final size:28
Alignment explanation
Indices: 102347355--102347417 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
102347345 TTCCACTTTT
102347355 TCCATCTGCATTTATTTTCTTCTTATAGA
1 TCCA-CTGCATTTATTTTCTTCTTATAGA
102347384 TCCACTGCATTTATTTTCTTCTTATAGA
1 TCCACTGCATTTATTTTCTTCTTATAGA
102347412 TCCACT
1 TCCACT
102347418 TACACCTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.49
Consensus pattern (28 bp):
TCCACTGCATTTATTTTCTTCTTATAGA
Found at i:102348517 original size:17 final size:17
Alignment explanation
Indices: 102348495--102348536 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
102348485 TCCTAAGGTG
*
102348495 ATGAAAAATTATAATGT
1 ATGAAAAATTAAAATGT
102348512 ATGAAAATAATTAAAATGT
1 ATG-AAA-AATTAAAATGT
102348531 AT-AAAA
1 ATGAAAA
102348537 TAAAGACAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 1 0.05
17 6 0.27
18 3 0.14
19 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (17 bp):
ATGAAAAATTAAAATGT
Found at i:102348529 original size:19 final size:18
Alignment explanation
Indices: 102348501--102348539 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
102348491 GGTGATGAAA
*
102348501 AATTATAATGTATGAAAAT
1 AATTAAAATGTAT-AAAAT
102348520 AATTAAAATGTATAAAAT
1 AATTAAAATGTATAAAAT
102348538 AA
1 AA
102348540 AGACAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
AATTAAAATGTATAAAAT
Found at i:102350232 original size:18 final size:17
Alignment explanation
Indices: 102350209--102350242 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
102350199 TCAGAAGAGT
*
102350209 ATCGATATCTTGTACAAC
1 ATCGATA-CTTATACAAC
102350227 ATCGATACTTATACAA
1 ATCGATACTTATACAA
102350243 AAAGTATCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (17 bp):
ATCGATACTTATACAAC
Found at i:102351534 original size:28 final size:28
Alignment explanation
Indices: 102351494--102351552 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
102351484 ATTTTGCCAC
102351494 CATGGACTTCCACTATGGTACCTATTAA
1 CATGGACTTCCACTATGGTACCTATTAA
*
102351522 CATGGACTTCCACTATGGTACCTGTTAA
1 CATGGACTTCCACTATGGTACCTATTAA
102351550 CAT
1 CAT
102351553 TGATGTTGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (28 bp):
CATGGACTTCCACTATGGTACCTATTAA
Found at i:102362056 original size:2 final size:2
Alignment explanation
Indices: 102362049--102362074 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
102362039 CATGTAAGCC
102362049 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
102362075 GGCATTGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102365112 original size:29 final size:29
Alignment explanation
Indices: 102365079--102365209 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
102365069 TGACGAGATC
*
102365079 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
102365108 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
102365137 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
102365166 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
102365195 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
102365210 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:102369278 original size:43 final size:43
Alignment explanation
Indices: 102369217--102369301 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
102369207 TTAGATTGAT
*
102369217 AGTGACAAATGAAATCTAGTTGAATTCTTTCTTAGGTATTGTC
1 AGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGTATTGTC
102369260 AGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGTATTGT
1 AGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGTATTGT
102369302 TTTGCTTCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (43 bp):
AGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGTATTGTC
Found at i:102370316 original size:20 final size:20
Alignment explanation
Indices: 102370291--102370331 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
102370281 TCATTTTCAC
102370291 CCATGGTAATTTATG-CTTGA
1 CCATGGTAATTT-TGACTTGA
102370311 CCATGGTAATTTTGACTTGA
1 CCATGGTAATTTTGACTTGA
102370331 C
1 C
102370332 ATGTGGTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
CCATGGTAATTTTGACTTGA
Found at i:102372148 original size:23 final size:23
Alignment explanation
Indices: 102372047--102372152 Score: 86
Period size: 23 Copynumber: 4.6 Consensus size: 23
102372037 GATTAACAAG
* **
102372047 CATAAAGCACTGAATATAACATG
1 CATAAAGCATTGAATATAACACA
* * **
102372070 CACAAGGTGTTGAATATAACACA
1 CATAAAGCATTGAATATAACACA
* ** *
102372093 CATATAGTGTTGAATGTAACACA
1 CATAAAGCATTGAATATAACACA
* * *
102372116 TACAAGGCATTGAATATAACACA
1 CATAAAGCATTGAATATAACACA
102372139 CATAAAGCATTGAA
1 CATAAAGCATTGAA
102372153 ACTCCCACCT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (23 bp):
CATAAAGCATTGAATATAACACA
Found at i:102372152 original size:46 final size:46
Alignment explanation
Indices: 102372047--102372152 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 46
102372037 GATTAACAAG
* ** **
102372047 CATAAAGCACTGAATATAACATGCACAAGGTGTTGAATATAACACA
1 CATAAAGCATTGAATATAACACACACAAGGCATTGAATATAACACA
* ** * *
102372093 CATATAGTGTTGAATGTAACACATACAAGGCATTGAATATAACACA
1 CATAAAGCATTGAATATAACACACACAAGGCATTGAATATAACACA
102372139 CATAAAGCATTGAA
1 CATAAAGCATTGAA
102372153 ACTCCCACCT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (46 bp):
CATAAAGCATTGAATATAACACACACAAGGCATTGAATATAACACA
Found at i:102372711 original size:5 final size:5
Alignment explanation
Indices: 102372701--102372749 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
102372691 AAAAGTAAAA
102372701 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATA
102372750 AAGTTAAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:102373661 original size:34 final size:35
Alignment explanation
Indices: 102373578--102373683 Score: 126
Period size: 35 Copynumber: 3.1 Consensus size: 35
102373568 GGCACCCCAT
* *
102373578 TTGTTGATTATACTGACTAGTGCTGGGCACATTTA
1 TTGTTGATTATACTGACCAGTGCTGAGCACATTTA
* * * *
102373613 TTGTCGGTTTTACTGACCAGTGCTGAGCCCA-TTA
1 TTGTTGATTATACTGACCAGTGCTGAGCACATTTA
*
102373647 TTGTTGATTATACTGATCAGTGCT-AGGCACATTTA
1 TTGTTGATTATACTGACCAGTGCTGA-GCACATTTA
102373682 TT
1 TT
102373684 ATCGATATTA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
33 1 0.02
34 27 0.47
35 30 0.52
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (35 bp):
TTGTTGATTATACTGACCAGTGCTGAGCACATTTA
Found at i:102376064 original size:23 final size:22
Alignment explanation
Indices: 102376033--102376075 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
102376023 TAAATATGTA
* *
102376033 TAAATCTAAAAATTTCTTAAAAT
1 TAAAACTAAAAAATT-TTAAAAT
102376056 TAAAACTAAAAAATTTTAAA
1 TAAAACTAAAAAATTTTAAA
102376076 CTAACATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAACTAAAAAATTTTAAAAT
Found at i:102384422 original size:10 final size:10
Alignment explanation
Indices: 102384407--102384456 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
102384397 TAATTTTAGG
102384407 ATTTAT-TTT
1 ATTTATCTTT
102384416 CATTTATCTTT
1 -ATTTATCTTT
102384427 ATTTATCTTT
1 ATTTATCTTT
102384437 ATTTAT-TTGT
1 ATTTATCTT-T
102384447 ATTTATCTTT
1 ATTTATCTTT
102384457 TAGTATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:102389997 original size:24 final size:24
Alignment explanation
Indices: 102389928--102390023 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 24
102389918 GTAGTTTCGC
102389928 TTGAATAAAATGAAAAGGACTAAA
1 TTGAATAAAATGAAAAGGACTAAA
** *
102389952 TTG--T-AAAT-ATTAGAGACCAAA
1 TTGAATAAAATGAAAAG-GACTAAA
*
102389973 TTGAGTAAAATGAAAAGGACTAAA
1 TTGAATAAAATGAAAAGGACTAAA
*
102389997 TTGAATAAAATGAAAAAGACTAAA
1 TTGAATAAAATGAAAAGGACTAAA
102390021 TTG
1 TTG
102390024 TAAATATTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.05
21 13 0.22
22 1 0.02
23 1 0.02
24 38 0.64
25 3 0.05
ACGTcount: A:0.54, C:0.05, G:0.17, T:0.24
Consensus pattern (24 bp):
TTGAATAAAATGAAAAGGACTAAA
Found at i:102392239 original size:15 final size:15
Alignment explanation
Indices: 102392215--102392247 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
102392205 ATAATGGTCC
102392215 TATCCCGGCATGACA
1 TATCCCGGCATGACA
*
102392230 TATCCTGGCATGACA
1 TATCCCGGCATGACA
102392245 TAT
1 TAT
102392248 GAAATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (15 bp):
TATCCCGGCATGACA
Found at i:102393527 original size:31 final size:32
Alignment explanation
Indices: 102393451--102393527 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 32
102393441 TCTTCCAAAA
102393451 AAAACA-CAATTATTATAAATACAAATTATTTC
1 AAAACATC-ATTATTATAAATACAAATTATTTC
*
102393483 -AAACAAT-AGTTATT-TAAATA-TAATTATTTC
1 AAAAC-ATCA-TTATTATAAATACAAATTATTTC
102393513 TAAAACATCATTATT
1 -AAAACATCATTATT
102393528 CTAGCCACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
30 9 0.24
31 18 0.47
32 11 0.29
ACGTcount: A:0.49, C:0.10, G:0.01, T:0.39
Consensus pattern (32 bp):
AAAACATCATTATTATAAATACAAATTATTTC
Found at i:102397076 original size:46 final size:46
Alignment explanation
Indices: 102397000--102397397 Score: 546
Period size: 46 Copynumber: 8.6 Consensus size: 46
102396990 TGATGTCATA
* * *
102397000 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATG
* *
102397046 GTATCTTTCAACCATGGTCTTATTCATTTTCTTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
* *
102397093 GTATCTTTCAAACATGATCTTACTCATTTCATGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* **
102397139 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
* * *
102397186 GTATCTTTCAACCATGGTCTTACTCATTTCATGTAAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
102397232 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * * *
102397278 GTATCTTTAAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
102397324 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
*
102397370 GTATCTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
102397398 CCATATCAGA
Statistics
Matches: 320, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
46 239 0.75
47 81 0.25
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
Found at i:102397128 original size:93 final size:92
Alignment explanation
Indices: 102397000--102397397 Score: 541
Period size: 93 Copynumber: 4.3 Consensus size: 92
102396990 TGATGTCATA
* *
102397000 GTATCTTTC-AACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGG
1 GTATCTTTCAAAC-ATGGTCTTACTC-ATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGG
* *
102397063 TCTTATTCATTTTCTTGTCATGTTGCCATG
64 TCTTATTCA-TTTCATATCATGTTGCCATG
*
102397093 GTATCTTTCAAACATGATCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAAACATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTC
***
102397158 TTATTCATTTTCCCGTCATGTTGCCATG
66 TTATTCA-TTTCATATCATGTTGCCATG
* * * *
102397186 GTATCTTTCAACCATGGTCTTACTCATTTCATGTAAGGTTGTCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAAACATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTC
*
102397251 TTATTCATTTCATATCACGTTGCCATG
66 TTATTCATTTCATATCATGTTGCCATG
* * *
102397278 GTATCTTT-AAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAAA-CATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGT
** *
102397342 CTTACACATTTCATATCAGGTTGCCATG
65 CTTATTCATTTCATATCATGTTGCCATG
* *
102397370 GTATCTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAAACATGGTCTTACTCATT
102397398 CCATATCAGA
Statistics
Matches: 277, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
91 2 0.01
92 124 0.45
93 148 0.53
94 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (92 bp):
GTATCTTTCAAACATGGTCTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTC
TTATTCATTTCATATCATGTTGCCATG
Found at i:102405866 original size:23 final size:24
Alignment explanation
Indices: 102405837--102405889 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
102405827 CAAAATTATT
*
102405837 ATAAAT-ATATAGAATTTTAA-AAA
1 ATAAATAATAT-GAATTATAACAAA
*
102405860 TTAAATAATATGAATTATAACAAA
1 ATAAATAATATGAATTATAACAAA
102405884 ATAAAT
1 ATAAAT
102405890 TTTTGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
ATAAATAATATGAATTATAACAAA
Found at i:102406049 original size:17 final size:18
Alignment explanation
Indices: 102406029--102406071 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
102406019 TAATTAATTT
102406029 TAATTTATATATAT-AAA
1 TAATTTATATATATAAAA
*
102406046 TAATATT-TATATTTAAAA
1 TAAT-TTATATATATAAAA
102406064 TAATTTAT
1 TAATTTAT
102406072 TTTTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTTATATATATAAAA
Found at i:102409098 original size:13 final size:14
Alignment explanation
Indices: 102409080--102409108 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
102409070 AATCTTTTTC
102409080 AAAAAGAA-AAGAA
1 AAAAAGAAGAAGAA
102409093 AAAAAGAAGAAGAA
1 AAAAAGAAGAAGAA
102409107 AA
1 AA
102409109 CCAGGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGAAGAA
Found at i:102409175 original size:18 final size:17
Alignment explanation
Indices: 102409153--102409197 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
102409143 AAGAAAAATA
102409153 AAAAAATAAAAATCAAT
1 AAAAAATAAAAATCAAT
*
102409170 ACAAAATAAAAATACAA-
1 AAAAAATAAAAAT-CAAT
102409187 AAAAATATAAA
1 AAAAA-ATAAA
102409198 TGATCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAAATAAAAATCAAT
Found at i:102410143 original size:22 final size:22
Alignment explanation
Indices: 102410115--102410164 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
102410105 CCAAAAACCA
102410115 ACTCAACCTAGGTATATGCCAT
1 ACTCAACCTAGGTATATGCCAT
102410137 ACTCAACCTAGGTATATGCCAT
1 ACTCAACCTAGGTATATGCCAT
102410159 ACTCAA
1 ACTCAA
102410165 AACGAAACGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (22 bp):
ACTCAACCTAGGTATATGCCAT
Found at i:102416634 original size:26 final size:26
Alignment explanation
Indices: 102416581--102416652 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
102416571 TCTCATCCCT
* *
102416581 ATTTTACCCTT-ACAAAATTTTGACG
1 ATTTTACCCTTGATAAAATTTTAACG
*
102416606 ATTTTACCCTTGATAAAATTTTAATG
1 ATTTTACCCTTGATAAAATTTTAACG
*
102416632 ATTTTGCCCTTTG-TAAAATTT
1 ATTTTACCC-TTGATAAAATTT
102416653 CAAAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 11 0.27
26 27 0.66
27 3 0.07
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (26 bp):
ATTTTACCCTTGATAAAATTTTAACG
Found at i:102421143 original size:20 final size:20
Alignment explanation
Indices: 102421118--102421174 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
102421108 TTTCTAAATT
*
102421118 AATTATAAAAAATGATAGAA
1 AATTATAAAAAATGATAAAA
*
102421138 AATTATTAAGAAAT-ATAAAA
1 AATTA-TAAAAAATGATAAAA
*
102421158 AATATATAAATAATGAT
1 AAT-TATAAAAAATGAT
102421175 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AATTATAAAAAATGATAAAA
Found at i:102421370 original size:11 final size:11
Alignment explanation
Indices: 102421311--102421377 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
102421301 CCTACTTTGT
*
102421311 TAATTTTTTAA
1 TAATTATTTAA
*
102421322 TAACTT-TTAAA
1 TAA-TTATTTAA
*
102421333 TAATT-TTCAA
1 TAATTATTTAA
*
102421343 TAATTATAT-A
1 TAATTATTTAA
*
102421353 CAATTATTTAA
1 TAATTATTTAA
102421364 TAATTATTTAA
1 TAATTATTTAA
102421375 TAA
1 TAA
102421378 ACAAACTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
10 19 0.41
11 25 0.54
12 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (11 bp):
TAATTATTTAA
Found at i:102421425 original size:25 final size:27
Alignment explanation
Indices: 102421390--102421439 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
102421380 AAACTGAACT
*
102421390 TTTTTTAATAATTTTTAA-ATTTTATA
1 TTTTTTAATAAATTTTAATATTTTATA
102421416 TTTTTT-ATAAATTTTAATATTTTA
1 TTTTTTAATAAATTTTAATATTTTA
102421440 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTTTTAATAAATTTTAATATTTTATA
Found at i:102421426 original size:18 final size:18
Alignment explanation
Indices: 102421392--102421438 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
102421382 ACTGAACTTT
*
102421392 TTTTAATA-ATTTTTAAA
1 TTTTAATATTTTTTTAAA
102421409 TTTT-ATATTTTTTATAAA
1 TTTTAATATTTTTT-TAAA
102421427 TTTTAATATTTT
1 TTTTAATATTTT
102421439 AAAATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 8 0.31
18 8 0.31
19 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTAATATTTTTTTAAA
Found at i:102421453 original size:18 final size:18
Alignment explanation
Indices: 102421405--102421453 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
102421395 TAATAATTTT
**
102421405 TAAATTTTATATTTTTTA
1 TAAATTTTATATTTTAAA
102421423 TAAATTTTAATATTTTAAA
1 TAAATTTT-ATATTTTAAA
102421442 -ATAATTTTATAT
1 TA-AATTTTATAT
102421454 AATTTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TAAATTTTATATTTTAAA
Found at i:102421584 original size:32 final size:32
Alignment explanation
Indices: 102421539--102421646 Score: 173
Period size: 32 Copynumber: 3.4 Consensus size: 32
102421529 ATTGGACAAC
*
102421539 TGTC-AGGTTCATTTGAATATAGACAATTATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
* *
102421570 TGTCTAGGTTCATTTGAATATAAACAACCATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
102421602 TGTCTAGGTTCATTTGAATATAGACAACTATT
1 TGTCTAGGTTCATTTGAATATAGACAACTATT
*
102421634 TGTCTAGATTCAT
1 TGTCTAGGTTCAT
102421647 CTTCAATGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 4 0.06
32 66 0.94
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (32 bp):
TGTCTAGGTTCATTTGAATATAGACAACTATT
Found at i:102422836 original size:16 final size:17
Alignment explanation
Indices: 102422804--102422836 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102422794 TTTATAAGTA
*
102422804 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
102422821 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
102422837 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:102423257 original size:92 final size:92
Alignment explanation
Indices: 102423122--102423394 Score: 402
Period size: 92 Copynumber: 3.0 Consensus size: 92
102423112 TTTGACATGA
* * * *
102423122 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* * *
102423187 CACGGTCTTATTCTTTTCATGTCACGT
66 CATGGTCTTATTCGTTTCATATCACGT
* *
102423214 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
102423279 CATGGTCTTATTCGTTTCATATCACGT
66 CATGGTCTTATTCGTTTCATATCACGT
* * * *
102423306 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
** *
102423371 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTATTCGTTTCATATCA
102423395 GAGAGCACAC
Statistics
Matches: 163, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 163 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCGTTTCATATCACGT
Found at i:102423395 original size:46 final size:46
Alignment explanation
Indices: 102423122--102423394 Score: 359
Period size: 46 Copynumber: 5.9 Consensus size: 46
102423112 TTTGACATGA
* * * * *
102423122 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * * *
102423168 TGCCATGGTATCTTTCAACCACGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *** *
102423214 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
102423260 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
102423306 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
102423352 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
102423395 GAGAGCACAC
Statistics
Matches: 205, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 201 0.98
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:102428299 original size:16 final size:17
Alignment explanation
Indices: 102428267--102428299 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102428257 TTTATAAGTA
*
102428267 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
102428284 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
102428300 GTTCATCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:102428701 original size:46 final size:46
Alignment explanation
Indices: 102428583--102428898 Score: 395
Period size: 46 Copynumber: 6.9 Consensus size: 46
102428573 TTTGACATGA
* * * * *
102428583 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
102428629 TGCCAT-GTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *** *
102428674 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
102428720 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
102428766 TGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * * *
102428812 TGCCATGATATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
102428858 TGCCATGGTATCTTTCAA-CATGGTCTTACACATTTCATATC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATC
102428899 GAGAGCACAC
Statistics
Matches: 244, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
44 4 0.02
45 57 0.23
46 183 0.75
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:102434282 original size:90 final size:90
Alignment explanation
Indices: 102434117--102434296 Score: 279
Period size: 90 Copynumber: 2.0 Consensus size: 90
102434107 ATTTGATAAG
* * *
102434117 TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGTAACACCGTTTACCCAGTCCAGTTGCTG
1 TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCCTTTACCCAGTCCAGTTACTG
*
102434182 GGCTCAAGCTACAAGATGCTACAGT
66 GACTCAAGCTACAAGATGCTACAGT
* * *
102434207 TCAAATTAGGCTTCCCCGTTATACTTAGGGAGCTTTGCAACACCCTTTACCCGGTTCAGTTACTG
1 TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCCTTTACCCAGTCCAGTTACTG
* *
102434272 GACTCGAGCTACAGGATGCTACAGT
66 GACTCAAGCTACAAGATGCTACAGT
102434297 AAATAACATA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (90 bp):
TCAAATTAGGCTTCCCCGTTATACTTAAGGAGCTTTGCAACACCCTTTACCCAGTCCAGTTACTG
GACTCAAGCTACAAGATGCTACAGT
Found at i:102435070 original size:23 final size:22
Alignment explanation
Indices: 102435026--102435070 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
102435016 AAATGCACCA
**
102435026 ATTCAACATCTCAAATTGTAAC
1 ATTCAACATCTCAAATACTAAC
*
102435048 ATTCAAGCCTCTCAAATACTAAC
1 ATTCAA-CATCTCAAATACTAAC
102435071 CAACATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (22 bp):
ATTCAACATCTCAAATACTAAC
Found at i:102435337 original size:15 final size:15
Alignment explanation
Indices: 102435317--102435354 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
102435307 TATCCATTTA
102435317 CACTTATTTACATGC
1 CACTTATTTACATGC
102435332 CACTTATTTACATGC
1 CACTTATTTACATGC
102435347 CACTTATT
1 CACTTATT
102435355 CACAGCTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (15 bp):
CACTTATTTACATGC
Done.