Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 305 of 352
Found at i:99856140 original size:23 final size:21
Alignment explanation
Indices: 99856086--99856144 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
99856076 ACTTTATCTA
99856086 TGTTTTATTTATT-TTTTACTT
1 TGTTTTA-TTATTATTTTACTT
*
99856107 AGTTATT-TTATTATTATTACTT
1 TGTT-TTATTATTATT-TTACTT
99856129 TGTTCTTATTATTATT
1 TGTT-TTATTATTATT
99856145 CTAACCATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.16
21 5 0.16
22 13 0.42
23 8 0.26
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.69
Consensus pattern (21 bp):
TGTTTTATTATTATTTTACTT
Found at i:99859293 original size:21 final size:21
Alignment explanation
Indices: 99859254--99859293 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99859244 AAATCTGACT
* * *
99859254 AAGATTGAAGAGTTGAAGGGA
1 AAGATAGAAGAGCTCAAGGGA
99859275 AAGATAGAAGAGCTCAAGG
1 AAGATAGAAGAGCTCAAGG
99859294 CCGCATTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.35, T:0.15
Consensus pattern (21 bp):
AAGATAGAAGAGCTCAAGGGA
Found at i:99867855 original size:22 final size:22
Alignment explanation
Indices: 99867827--99867872 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
99867817 CTACACCCCT
99867827 AAAGTCGTAGTGGGATGGATTG
1 AAAGTCGTAGTGGGATGGATTG
99867849 AAAGTCGTAGTGGGATGGATTG
1 AAAGTCGTAGTGGGATGGATTG
99867871 AA
1 AA
99867873 TCTACCATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.39, T:0.26
Consensus pattern (22 bp):
AAAGTCGTAGTGGGATGGATTG
Found at i:99868080 original size:44 final size:44
Alignment explanation
Indices: 99867883--99868070 Score: 229
Period size: 44 Copynumber: 4.3 Consensus size: 44
99867873 TCTACCATAG
99867883 CAAATCTTATCT-CACTGAAGATGTA-A-TGGAGCAAATTAAAGCTA
1 CAAATCTTATCTCCA-TGAA-AT-TACAGTGGAGCAAATTAAAGCTA
* * *
99867927 CAAATCATATCTCCCTGAAATTACAGTGAAGCAAATTAAAGCTA
1 CAAATCTTATCTCCATGAAATTACAGTGGAGCAAATTAAAGCTA
* * * * *
99867971 CAAAACTTATCTCCTTGAAATTGCAGTGGAGCGAATTGAAGCTA
1 CAAATCTTATCTCCATGAAATTACAGTGGAGCAAATTAAAGCTA
* * *
99868015 CAAATCTTATCTCCATGAAGTTGCAGTGGAGCAGATTAAAGCTA
1 CAAATCTTATCTCCATGAAATTACAGTGGAGCAAATTAAAGCTA
99868059 CAAATCTTATCT
1 CAAATCTTATCT
99868071 TGCTAAAGTT
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.02
43 3 0.02
44 119 0.95
45 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCATGAAATTACAGTGGAGCAAATTAAAGCTA
Found at i:99869487 original size:13 final size:13
Alignment explanation
Indices: 99869469--99869496 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
99869459 TCTATCTTAT
99869469 TTAGATTTAATCC
1 TTAGATTTAATCC
99869482 TTAGATTTAATCC
1 TTAGATTTAATCC
99869495 TT
1 TT
99869497 TATATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (13 bp):
TTAGATTTAATCC
Found at i:99869833 original size:21 final size:21
Alignment explanation
Indices: 99869809--99869849 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99869799 TTAAACATGA
99869809 CATTAATTA-AATCATTATCAT
1 CATT-ATTATAATCATTATCAT
*
99869830 CATTATTATTATCATTATCA
1 CATTATTATAATCATTATCA
99869850 ATTTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (21 bp):
CATTATTATAATCATTATCAT
Found at i:99873741 original size:60 final size:60
Alignment explanation
Indices: 99873648--99873767 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
99873638 TGCTTGCTTG
99873648 TAGCAGCTTTAATGTTCAAGGTTGTTTCTTTCCTGAATAGGGGCCTAATGGTAATGCATC
1 TAGCAGCTTTAATGTTCAAGGTTGTTTCTTTCCTGAATAGGGGCCTAATGGTAATGCATC
99873708 TAGCAGCTTTAATGTTCAAGGTTGTTTCTTTCCTGAATAGGGGCCTAATGGTAATGCATC
1 TAGCAGCTTTAATGTTCAAGGTTGTTTCTTTCCTGAATAGGGGCCTAATGGTAATGCATC
99873768 GATGACAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (60 bp):
TAGCAGCTTTAATGTTCAAGGTTGTTTCTTTCCTGAATAGGGGCCTAATGGTAATGCATC
Found at i:99874616 original size:3 final size:3
Alignment explanation
Indices: 99874610--99874647 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
99874600 GAAGCATACG
*
99874610 AGA AGA AGA AGA AGA AGA AGA GGA AG- AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
99874648 GAAAATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:99874639 original size:17 final size:18
Alignment explanation
Indices: 99874614--99874648 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
99874604 CATACGAGAA
99874614 GAAGAAGAAGAAGAAGAG
1 GAAGAAGAAGAAGAAGAG
99874632 GAAG-AGAAGAAGAAGAG
1 GAAGAAGAAGAAGAAGAG
99874649 AAAATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAGAAGAAGAG
Found at i:99875411 original size:29 final size:31
Alignment explanation
Indices: 99875355--99875425 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
99875345 GGAGAAGAAG
* *
99875355 AAGTATAAACATATTGGGCCATTTATG-TAAA
1 AAGTAAAAAAATATTGGGCCA-TTATGTTAAA
99875386 AAGTAAAAAAATATTGGGCCA-TATGTTAAA
1 AAGTAAAAAAATATTGGGCCATTATGTTAAA
99875416 AACG-AAAAAA
1 AA-GTAAAAAA
99875426 GAAGGACGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 4 0.11
30 12 0.33
31 20 0.56
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.25
Consensus pattern (31 bp):
AAGTAAAAAAATATTGGGCCATTATGTTAAA
Found at i:99876883 original size:24 final size:24
Alignment explanation
Indices: 99876855--99876900 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
99876845 TTTTTTTGGT
*
99876855 ATTTTATATGTTCAATTATTTTTA
1 ATTTTATATATTCAATTATTTTTA
* *
99876879 ATTTTATTTATTTAATTATTTT
1 ATTTTATATATTCAATTATTTT
99876901 ATTAATTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTTATATATTCAATTATTTTTA
Found at i:99877192 original size:27 final size:27
Alignment explanation
Indices: 99877103--99877192 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
99877093 AATTGAACTT
*
99877103 AAAAAAAATCTTAGGTATCAAATTAGAA
1 AAAAAAAAT-TTAGGTACCAAATTAGAA
* * * * **
99877131 AAAATGCCAAGTTTAGGTACTAAATTGGCC
1 AAAA---AAAATTTAGGTACCAAATTAGAA
*
99877161 CAAAAAAATTTAGGTACCAAATTAGAA
1 AAAAAAAATTTAGGTACCAAATTAGAA
99877188 AAAAA
1 AAAAA
99877193 GTGTCAAGTT
Statistics
Matches: 44, Mismatches: 15, Indels: 7
0.67 0.23 0.11
Matches are distributed among these distances:
27 21 0.48
28 4 0.09
30 16 0.36
31 3 0.07
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.23
Consensus pattern (27 bp):
AAAAAAAATTTAGGTACCAAATTAGAA
Found at i:99877215 original size:59 final size:57
Alignment explanation
Indices: 99877104--99877229 Score: 148
Period size: 59 Copynumber: 2.2 Consensus size: 57
99877094 ATTGAACTTA
* * * *
99877104 AAAAAAATCTTAGGTATCAAATTAGAAAAAATGCCAAGTTTAGGTACTAAATTG-GCCC
1 AAAAAAAT-TTAGGTACCAAATTAGAAAAAATGCCAAGTTCAGATACTAAATTGAG-AC
*
99877162 AAAAAAATTTAGGTACCAAATTAGAAAAAAAGTGTCAAGTTCAGATA-TCAAATTGAGAC
1 AAAAAAATTTAGGTACCAAATTAG-AAAAAA-TGCCAAGTTCAGATACT-AAATTGAGAC
99877221 AAAAAAATT
1 AAAAAAATT
99877230 AATAACAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
57 15 0.25
58 15 0.25
59 28 0.47
60 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (57 bp):
AAAAAAATTTAGGTACCAAATTAGAAAAAATGCCAAGTTCAGATACTAAATTGAGAC
Found at i:99878767 original size:3 final size:3
Alignment explanation
Indices: 99878759--99878828 Score: 72
Period size: 3 Copynumber: 23.7 Consensus size: 3
99878749 AAAAATAAAA
* * ** *
99878759 AAT AAT AAT AAC AAC AAT AAT AAT GGT AAC AA- AA- ACAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
99878803 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
99878829 AATCTAAAGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 3 0.05
3 54 0.93
4 1 0.02
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:99879424 original size:42 final size:42
Alignment explanation
Indices: 99879365--99879450 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
99879355 AAGGCCAAAA
99879365 CGATGCCGTTTTGGGCTATTGAAATCAGCCCCTAAACAACAT
1 CGATGCCGTTTTGGGCTATTGAAATCAGCCCCTAAACAACAT
*
99879407 CGATGCCGTTTTGGGCTATTGGAATCAGCCCCTAAACAACAT
1 CGATGCCGTTTTGGGCTATTGAAATCAGCCCCTAAACAACAT
99879449 CG
1 CG
99879451 TTTTACAGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (42 bp):
CGATGCCGTTTTGGGCTATTGAAATCAGCCCCTAAACAACAT
Found at i:99885513 original size:5 final size:5
Alignment explanation
Indices: 99885503--99885537 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
99885493 ATCTGTGTTC
99885503 TTTAT TTTAT TTTATTT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA--T TTTAT TTTAT TTTAT TTT
99885538 CACAAATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:99885524 original size:12 final size:12
Alignment explanation
Indices: 99885507--99885532 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99885497 GTGTTCTTTA
99885507 TTTTATTTTATT
1 TTTTATTTTATT
99885519 TTTTATTTTATT
1 TTTTATTTTATT
99885531 TT
1 TT
99885533 ATTTTCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:99885525 original size:17 final size:17
Alignment explanation
Indices: 99885503--99885537 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
99885493 ATCTGTGTTC
99885503 TTTATTTTATTTTATTT
1 TTTATTTTATTTTATTT
99885520 TTTATTTTATTTTATTT
1 TTTATTTTATTTTATTT
99885537 T
1 T
99885538 CACAAATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTATTTTATTT
Found at i:99891601 original size:20 final size:21
Alignment explanation
Indices: 99891556--99891607 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
99891546 CAAAAGATAA
* *
99891556 ATAATAAAATTATATTATTTT
1 ATAATAAAATTATATTATGTG
99891577 A-AATAAAATTA-ATTATGTG
1 ATAATAAAATTATATTATGTG
99891596 ATAAT-AAATTAT
1 ATAATAAAATTAT
99891608 TATTTTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 13 0.48
20 13 0.48
21 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
ATAATAAAATTATATTATGTG
Found at i:99901335 original size:6 final size:6
Alignment explanation
Indices: 99901324--99901366 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
99901314 TTGTGTGTTC
*
99901324 TTTATT TTTATT TTTATC TTTATT TTTA-T TTTA-T TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
99901367 CTCACCCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 10 0.29
6 24 0.71
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:99901345 original size:18 final size:17
Alignment explanation
Indices: 99901322--99901366 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
99901312 ATTTGTGTGT
99901322 TCTTTATTTTTATTTTTA
1 TCTTTATTTTTA-TTTTA
99901340 TCTTTATTTTTATTTTA
1 TCTTTATTTTTATTTTA
99901357 T-TTTATTTTT
1 TCTTTATTTTT
99901367 CTCACCCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 12 0.44
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTATTTTTATTTTA
Found at i:99902210 original size:18 final size:18
Alignment explanation
Indices: 99902187--99902228 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
99902177 ACAATTACAT
99902187 AGAATATCTCATATATTA
1 AGAATATCTCATATATTA
99902205 AGAATATCTCATATATTA
1 AGAATATCTCATATATTA
*
99902223 ATAATA
1 AGAATA
99902229 GTTTAATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (18 bp):
AGAATATCTCATATATTA
Found at i:99903154 original size:80 final size:82
Alignment explanation
Indices: 99903021--99903178 Score: 248
Period size: 80 Copynumber: 2.0 Consensus size: 82
99903011 ATAAGGTAAT
* *
99903021 ATTTAACTTAAAGGGACCATGAATATCCTATGAGGGTAATACACATATGACAAGTTCATTGGAT-
1 ATTTAACCTAAAGGGACCATGAATATCCTATGAGGATAATACACATATGACAAGTTCATTGGATA
99903085 AAA-TTTAATTAAGTAG
66 AAAGTTTAATTAAGTAG
* * * *
99903101 ATTTAACCTAAATGGATCATGAATATCCTATGAGGATAATACATATATGACAAGTTTATTGGATA
1 ATTTAACCTAAAGGGACCATGAATATCCTATGAGGATAATACACATATGACAAGTTCATTGGATA
99903166 AAAGTTTAATTAA
66 AAAGTTTAATTAA
99903179 TCAAGATATA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 58 0.83
81 3 0.04
82 9 0.13
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (82 bp):
ATTTAACCTAAAGGGACCATGAATATCCTATGAGGATAATACACATATGACAAGTTCATTGGATA
AAAGTTTAATTAAGTAG
Found at i:99905151 original size:21 final size:21
Alignment explanation
Indices: 99905122--99905162 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99905112 AATTAAGTAA
*
99905122 AATAAGATTAATTAGAATTAG
1 AATAAGATTAATTAAAATTAG
*
99905143 AATATGATTAATTAAAATTA
1 AATAAGATTAATTAAAATTA
99905163 ATTTAATGTT
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:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (21 bp):
AATAAGATTAATTAAAATTAG
Found at i:99914720 original size:24 final size:23
Alignment explanation
Indices: 99914689--99914733 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
99914679 GTTTGAGAGT
99914689 TGTTATGAAA-GAGATAATGGTGA
1 TGTTATGAAAGGAG-TAATGGTGA
*
99914712 TGTTGATGATAGGAGTAATGGT
1 TGTT-ATGAAAGGAGTAATGGT
99914734 TATAAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 12 0.63
25 3 0.16
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (23 bp):
TGTTATGAAAGGAGTAATGGTGA
Found at i:99918501 original size:78 final size:79
Alignment explanation
Indices: 99918391--99918683 Score: 340
Period size: 81 Copynumber: 3.7 Consensus size: 79
99918381 CCCTCCGTTT
* * * * * * * *
99918391 TGGTGAAGGTGTATCATTTCTCG--CCCTTCGTTTCCGAGGTGGTGACAGATCAG-CACCTGCTC
1 TGGTGAAGGTGTGTCA-TTC-CGAACCCTCCGTTTCCTAGGAGGAGATAAATCAGACATCTGCTC
*
99918453 TGTTTGCTAAAGGTTC
64 TGTTTACTAAAGGTTC
* *
99918469 TGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTTGGAGGAGATAAATCAGTACCATCTGTTC
1 TGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAATCAG-A-CATCTGCTC
*
99918534 GGTTTACTAAAGGTTC
64 TGTTTACTAAAGGTTC
**
99918550 TGGTGAAGGTGTGTCATTCCGAACCCTATGTTTCCTAGGAGGAGATAAATCAGTACCATCTGCTC
1 TGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAATCAG-A-CATCTGCTC
99918615 TGTTTACTAAAGGTTC
64 TGTTTACTAAAGGTTC
* * * * *
99918631 TGGTGAGGGTGTGCCATTCCTAACCCTCCGCTTCCAAGGAGGAGATAAATCAG
1 TGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAATCAG
99918684 TACCACCTCT
Statistics
Matches: 186, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
76 2 0.01
77 3 0.02
78 38 0.20
81 143 0.77
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (79 bp):
TGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGAGATAAATCAGACATCTGCTCTG
TTTACTAAAGGTTC
Found at i:99918558 original size:81 final size:81
Alignment explanation
Indices: 99918447--99918688 Score: 376
Period size: 81 Copynumber: 3.0 Consensus size: 81
99918437 AGATCAGCAC
* * *
99918447 CTGCTCTGTTTGCTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTTGGAGGA
1 CTGCTCGGTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGA
99918512 GATAAATCAGTACCAT
66 GATAAATCAGTACCAT
* **
99918528 CTGTTCGGTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTATGTTTCCTAGGAGGA
1 CTGCTCGGTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGA
99918593 GATAAATCAGTACCAT
66 GATAAATCAGTACCAT
* * * * * *
99918609 CTGCTCTGTTTACTAAAGGTTCTGGTGAGGGTGTGCCATTCCTAACCCTCCGCTTCCAAGGAGGA
1 CTGCTCGGTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGA
99918674 GATAAATCAGTACCA
66 GATAAATCAGTACCA
99918689 CCTCTAGAAG
Statistics
Matches: 146, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 146 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (81 bp):
CTGCTCGGTTTACTAAAGGTTCTGGTGAAGGTGTGTCATTCCGAACCCTCCGTTTCCTAGGAGGA
GATAAATCAGTACCAT
Found at i:99922935 original size:21 final size:21
Alignment explanation
Indices: 99922911--99922950 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
99922901 TTAACGGGAC
*
99922911 AGCTGATGTGGCAAGTTAATT
1 AGCTGATATGGCAAGTTAATT
*
99922932 AGCTGATATGGCCAGTTAA
1 AGCTGATATGGCAAGTTAA
99922951 CTTGCCACGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (21 bp):
AGCTGATATGGCAAGTTAATT
Found at i:99922996 original size:3 final size:3
Alignment explanation
Indices: 99922990--99923025 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
99922980 AATAATAGAG
99922990 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
99923026 GAAAAAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:99924567 original size:25 final size:24
Alignment explanation
Indices: 99924503--99924570 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 24
99924493 TCTCATTTTT
*
99924503 TATTTGTTTTTTTG-TTTT-AA--
1 TATTTGTTTTTATGATTTTAAATG
99924523 TATTTGTTTTTATGATTTTAAATG
1 TATTTGTTTTTATGATTTTAAATG
99924547 TATTTGATTTATTAT-ATTTTAAAT
1 TATTTG-TTT-TTATGATTTTAAAT
99924571 TTTTTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
20 13 0.32
21 4 0.10
22 2 0.05
24 6 0.15
25 12 0.29
26 4 0.10
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (24 bp):
TATTTGTTTTTATGATTTTAAATG
Found at i:99925127 original size:3 final size:3
Alignment explanation
Indices: 99925121--99925158 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
99925111 CTTTCTCCTC
*
99925121 CTT CTT CTT CTT CTT CTT CTT CTT CTT CAT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
99925159 CTTATTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:99927629 original size:63 final size:63
Alignment explanation
Indices: 99927524--99927646 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 63
99927514 AAATGGTACC
* * *
99927524 AATATCATATTGTAGTAGCTATGGAACTTTTATAAAAAGATTTGGATCGGATATATATATACG
1 AATATCATATTGTAGTAGCTATGAAACTTTTACAAAAAGATTTGGATCGGATATACATATACG
* * * * *
99927587 AATATCATGTTGTAGTAGCTATGAAATTTTTACAATACGATTTGGATTGGATATACATAT
1 AATATCATATTGTAGTAGCTATGAAACTTTTACAAAAAGATTTGGATCGGATATACATAT
99927647 TGATCTCTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (63 bp):
AATATCATATTGTAGTAGCTATGAAACTTTTACAAAAAGATTTGGATCGGATATACATATACG
Found at i:99929272 original size:28 final size:28
Alignment explanation
Indices: 99929238--99929301 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
99929228 CGTGTCCCTG
99929238 GCCCGTGTCCCTCACACGGCCTAGACAC
1 GCCCGTGTCCCTCACACGGCCTAGACAC
*
99929266 GCTCGTGTCCCTCACACGGCCTAGACAC
1 GCCCGTGTCCCTCACACGGCCTAGACAC
99929294 GCCCGTGT
1 GCCCGTGT
99929302 TGTCACCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.17
Consensus pattern (28 bp):
GCCCGTGTCCCTCACACGGCCTAGACAC
Found at i:99940818 original size:40 final size:40
Alignment explanation
Indices: 99940758--99940837 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
99940748 TAACCGATCG
99940758 ACTAACCCATGTGAGATATTATAATAAGAAGAAAAAAAAA
1 ACTAACCCATGTGAGATATTATAATAAGAAGAAAAAAAAA
*
99940798 ACTAGCCCATGTGAGATATTATAATAAGAAGAAAAAAAAA
1 ACTAACCCATGTGAGATATTATAATAAGAAGAAAAAAAAA
99940838 CTATCCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.20
Consensus pattern (40 bp):
ACTAACCCATGTGAGATATTATAATAAGAAGAAAAAAAAA
Found at i:99942414 original size:21 final size:21
Alignment explanation
Indices: 99942329--99942416 Score: 58
Period size: 21 Copynumber: 4.2 Consensus size: 21
99942319 CCATCATAAC
* *
99942329 TTTTTGTACTTCATC-TGATTT
1 TTTTTATACTTCTTCAT-ATTT
* *
99942350 TTTTTATA-TTCCCTCGTATTT
1 TTTTTATACTT-CTTCATATTT
** *
99942371 TTTTGGTACTTTCTT-ATA-AT
1 TTTTTATAC-TTCTTCATATTT
99942391 TTTTTATACTTCTTCATATTT
1 TTTTTATACTTCTTCATATTT
99942412 TTTTT
1 TTTTT
99942417 GGGTATTCCT
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
19 5 0.10
20 13 0.25
21 28 0.55
22 3 0.06
23 2 0.04
ACGTcount: A:0.16, C:0.14, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTTTATACTTCTTCATATTT
Found at i:99942415 original size:20 final size:20
Alignment explanation
Indices: 99942348--99942415 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
99942338 TTCATCTGAT
* *
99942348 TTTTTTTATA-TTCCCTCGTA
1 TTTTTTTATACTT-CTTCATA
*
99942368 TTTTTTTGGTACTTTCTT-ATA
1 TTTTTTT-ATAC-TTCTTCATA
*
99942389 ATTTTTTATACTTCTTCATA
1 TTTTTTTATACTTCTTCATA
99942409 TTTTTTT
1 TTTTTTT
99942416 TGGGTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 5 0.13
20 19 0.50
21 10 0.26
22 2 0.05
23 2 0.05
ACGTcount: A:0.16, C:0.13, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTTTTATACTTCTTCATA
Found at i:99942503 original size:20 final size:20
Alignment explanation
Indices: 99942430--99942505 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
99942420 TATTCCTTTG
*
99942430 TAATTTTTGGTATTCCTTAA
1 TAATTTTTGGTACTCCTTAA
** *
99942450 TTTTTCTTTTGTACTCCTTAA
1 TAATT-TTTGGTACTCCTTAA
*
99942471 TAGTTTTTAGGTACTCCCTT-A
1 TAATTTTT-GGTACT-CCTTAA
99942492 TAATTTTTGGTACT
1 TAATTTTTGGTACT
99942506 TTTTAGTACT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 12 0.27
21 29 0.64
22 4 0.09
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (20 bp):
TAATTTTTGGTACTCCTTAA
Found at i:99943503 original size:72 final size:71
Alignment explanation
Indices: 99943422--99943554 Score: 194
Period size: 72 Copynumber: 1.9 Consensus size: 71
99943412 TTCGAATCCT
* * * * *
99943422 TGAAAAGGTTGAAAAGGAAGTTATTCGCAAGGGATAACACATGGAAATGATGTATTTGAAAAAGA
1 TGAAAAGGTTGAAAAGGAAGTTATTCGAAAAGGATAACAAATGAAAATGATGT-GTTGAAAAAGA
99943487 TATCAAA
65 TATCAAA
* *
99943494 TGAAAAGGTTGAAAAGGATGTTATTCGAAAAGGATGACAAATGAAAATGATGTGTTGAAAA
1 TGAAAAGGTTGAAAAGGAAGTTATTCGAAAAGGATAACAAATGAAAATGATGTGTTGAAAA
99943555 GGGAATCATG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
71 7 0.13
72 47 0.87
ACGTcount: A:0.46, C:0.05, G:0.25, T:0.24
Consensus pattern (71 bp):
TGAAAAGGTTGAAAAGGAAGTTATTCGAAAAGGATAACAAATGAAAATGATGTGTTGAAAAAGAT
ATCAAA
Found at i:99944281 original size:30 final size:30
Alignment explanation
Indices: 99944247--99944306 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
99944237 TTTTTGAATG
99944247 ATTTTAGTATTCGATTTGATCCCAGGTTGT
1 ATTTTAGTATTCGATTTGATCCCAGGTTGT
99944277 ATTTTAGTATTCGATTTGATCCCAGGTTGT
1 ATTTTAGTATTCGATTTGATCCCAGGTTGT
99944307 TTCCAAACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (30 bp):
ATTTTAGTATTCGATTTGATCCCAGGTTGT
Found at i:99946460 original size:46 final size:46
Alignment explanation
Indices: 99946396--99946515 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 46
99946386 ATCCGAACTT
99946396 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCACACCCAAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCACACCCAAGCTC
* *
99946442 GTTGAGTTGAGTCTGAGTTCACTTATGGATGCGCACACCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCACACCCAAGCTC
*
99946488 ATTGAGTTGAGTCCGAGTTCACTTATGG
1 GTTGAGTTGAGTCCGAGTTCACTTATGG
99946516 GTGGGTTACA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.29
Consensus pattern (46 bp):
GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGCACACCCAAGCTC
Found at i:99949374 original size:37 final size:37
Alignment explanation
Indices: 99949333--99949406 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
99949323 ATTTCATGTT
*
99949333 GATGATTTTGTTAGATAGATGTTACTTGCAAAAGTGG
1 GATGATTTTGGTAGATAGATGTTACTTGCAAAAGTGG
99949370 GATGATTTTGGTAGATAGATGTTACTTGCAAAAGTGG
1 GATGATTTTGGTAGATAGATGTTACTTGCAAAAGTGG
99949407 TACACTCCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.36
Consensus pattern (37 bp):
GATGATTTTGGTAGATAGATGTTACTTGCAAAAGTGG
Found at i:99949615 original size:6 final size:6
Alignment explanation
Indices: 99949606--99949632 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
99949596 AAATGGGACT
99949606 GGGAGG GGGAGG GGGAGG GGGAGG GGG
1 GGGAGG GGGAGG GGGAGG GGGAGG GGG
99949633 GCCTATACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.85, T:0.00
Consensus pattern (6 bp):
GGGAGG
Found at i:99950035 original size:20 final size:22
Alignment explanation
Indices: 99950017--99950066 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
99950007 TCATAAATAT
99950017 TTTTAAAA-ATATAACAATAAA
1 TTTTAAAATATATAACAATAAA
**
99950038 TTTTAAAATATATATTAA-AAA
1 TTTTAAAATATATAACAATAAA
99950059 TTTTAAAA
1 TTTTAAAA
99950067 AAAATAACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTTAAAATATATAACAATAAA
Found at i:99958728 original size:11 final size:11
Alignment explanation
Indices: 99958712--99958739 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
99958702 TTAGGTTATA
99958712 TATATAAATAT
1 TATATAAATAT
99958723 TATATAAATAT
1 TATATAAATAT
99958734 TATATA
1 TATATA
99958740 TAATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATAAATAT
Found at i:99958728 original size:13 final size:12
Alignment explanation
Indices: 99958708--99958747 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
99958698 TTATTTAGGT
99958708 TATATATATAAA
1 TATATATATAAA
99958720 TAT-TATATAAA
1 TATATATATAAA
*
99958731 TATTATATATAAT
1 TA-TATATATAAA
99958744 TATA
1 TATA
99958748 AACCATCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 10 0.40
12 6 0.24
13 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATATATAAA
Found at i:99958775 original size:3 final size:3
Alignment explanation
Indices: 99958767--99958807 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
99958757 TATGGTTTTA
* *
99958767 TAT TAT TAT TAT TAT TAT TAG TAT TGT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
99958808 AATGAAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:99960724 original size:23 final size:23
Alignment explanation
Indices: 99960694--99960782 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 23
99960684 GCTTTACTGA
* *
99960694 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
99960717 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
* *
99960738 TCAGACACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
99960760 T-AGGCACTTTTATGTGTCGTATT
1 TCAGGCAC-CTCATGTGTCGTATT
99960783 CTGATCAGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
21 24 0.44
22 10 0.19
23 20 0.37
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:99962035 original size:3 final size:3
Alignment explanation
Indices: 99962027--99962064 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
99962017 TTACTTCATT
* *
99962027 TAA TAA TAA TAA CAA TAC TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
99962065 TAAAACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:99963503 original size:3 final size:3
Alignment explanation
Indices: 99963497--99963571 Score: 51
Period size: 3 Copynumber: 23.3 Consensus size: 3
99963487 ATTATTTCAC
* * * * *
99963497 TAT TAT TAT CAT TAT TAT CAT ATAG TAT TAT TAAT TGAA TAT TTT TCAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-AT T-AT TAT TAT T-AT
*
99963546 TAT TGT TAT TAT TATT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT T
99963572 GTGTTCATTA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
3 44 0.80
4 11 0.20
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:99968892 original size:39 final size:40
Alignment explanation
Indices: 99968849--99968953 Score: 104
Period size: 44 Copynumber: 2.5 Consensus size: 40
99968839 TTCCATTATG
99968849 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
** *** *
99968888 CTATTATGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
99968933 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
99968954 ACACCTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
39 14 0.27
40 5 0.10
44 17 0.33
45 16 0.31
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:99968948 original size:45 final size:44
Alignment explanation
Indices: 99968847--99968956 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
99968837 TTTTCCATTA
99968847 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* ** ***
99968886 TACTATTATGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
99968931 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
99968957 CCTCTATTCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 16 0.29
45 24 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:99968956 original size:16 final size:16
Alignment explanation
Indices: 99968935--99968988 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
99968925 TTGATTTGCT
99968935 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
99968951 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
99968967 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
99968983 AATACA
1 ATTACA
99968989 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:99979655 original size:11 final size:11
Alignment explanation
Indices: 99979639--99979663 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99979629 AAAAAATTGC
99979639 CCATACTACCA
1 CCATACTACCA
99979650 CCATACTACCA
1 CCATACTACCA
99979661 CCA
1 CCA
99979664 ATACAATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (11 bp):
CCATACTACCA
Found at i:99986665 original size:38 final size:38
Alignment explanation
Indices: 99986621--99986717 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 38
99986611 TGAAACCAAT
*
99986621 TACCAGCACAAGCCTGCGGGAATTTAAACCCGG-TATAA
1 TACCAGCACAAGCCTGCGGGAATTT-AACCCGGACATAA
** * * *
99986659 TACCAGCTTGAAGCCTGCGGGACTTTAGCCCGGACATAT
1 TACCAGC-ACAAGCCTGCGGGAATTTAACCCGGACATAA
*
99986698 TTCCAGCACATAGCCTGCGG
1 TACCAGCACA-AGCCTGCGG
99986718 ACCCTAAGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
38 14 0.30
39 33 0.70
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.21
Consensus pattern (38 bp):
TACCAGCACAAGCCTGCGGGAATTTAACCCGGACATAA
Found at i:99986771 original size:39 final size:39
Alignment explanation
Indices: 99986688--99986772 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
99986678 GGACTTTAGC
* *
99986688 CCGGACATATTTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
99986727 CCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
99986766 CCGGATA
1 CCGGATA
99986773 CACATCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:99995123 original size:24 final size:23
Alignment explanation
Indices: 99995075--99995145 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
99995065 AAGGTCTTTT
* *
99995075 AAGAAAATGATAAATAAAGACAAA
1 AAGAAAA-GAAAAATAAAAACAAA
* *
99995099 AAGAAATGCAAAAATAAAAATAAA
1 AAGAAAAG-AAAAATAAAAACAAA
* *
99995123 AATAAAAGAAAAAGAAAAACAAA
1 AAGAAAAGAAAAATAAAAACAAA
99995146 TCGAAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 14 0.37
24 24 0.63
ACGTcount: A:0.76, C:0.04, G:0.10, T:0.10
Consensus pattern (23 bp):
AAGAAAAGAAAAATAAAAACAAA
Found at i:100004814 original size:20 final size:20
Alignment explanation
Indices: 100004785--100004838 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
100004775 AGGGGCACAC
100004785 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
100004805 GCCTGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
100004825 GCCCATGTGGCCTG
1 GCCCGTGTGGCCTG
100004839 CCCATGGGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.09, C:0.30, G:0.39, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:100005701 original size:53 final size:52
Alignment explanation
Indices: 100005632--100005785 Score: 186
Period size: 52 Copynumber: 2.9 Consensus size: 52
100005622 ACATAACATG
* *
100005632 CCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCACA
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-TATCACATCACA
* * **
100005685 CCGATGCCATAGCCCAGCTATGGTCTTATATGGGAACTC-GA-ATCACATTGCA
1 CCGATGCCATAGCCCAGCTATGGTCTTATA-CGGAA-TCACATATCACATCACA
* * *
100005737 CCAATGCCATAGTCCAGCTATGGTCTTATACGGAAGCACATATCACATC
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACATC
100005786 TTTTCCGTCA
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
50 1 0.01
51 5 0.06
52 44 0.52
53 28 0.33
54 5 0.06
55 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (52 bp):
CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACATCACA
Found at i:100013135 original size:52 final size:51
Alignment explanation
Indices: 100012988--100013139 Score: 162
Period size: 52 Copynumber: 2.9 Consensus size: 51
100012978 TAACATGCCG
* * * *
100012988 ATGCCATATCCCAGATATGGTCTTATATGGAATCACATTATCACATCACACCG
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACA-TATCACATCACACCA
* * ***
100013041 ATGTCATAGCCCAGCTATGGTCTTATACGGGAACTCGA-ATCACATTGTACCA
1 ATGCCATAGCCCAGCTATGGTCTTATAC-GGAACAC-ATATCACATCACACCA
*
100013093 ATGCCATAGCCCAGCTATGGTCTTATACAGAAGCACATATCACATCA
1 ATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACATATCACATCA
100013140 TTTCCATCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
51 4 0.05
52 46 0.57
53 26 0.32
54 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (51 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGGAACACATATCACATCACACCA
Found at i:100013298 original size:22 final size:22
Alignment explanation
Indices: 100013271--100013312 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
100013261 ATTATACTTA
100013271 AAAACAATAATATTT-TCATAAC
1 AAAACAATAA-ATTTGTCATAAC
*
100013293 AAAACATTAAATTTGTCATA
1 AAAACAATAAATTTGTCATA
100013313 TGAGCTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAACAATAAATTTGTCATAAC
Found at i:100015005 original size:55 final size:55
Alignment explanation
Indices: 100014897--100015026 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
100014887 GGGCGAATCC
** * ** *
100014897 GCCAAAACAACATAGGCGTGCGACAGGCCCGTGCCTTGAAACTGTGGCTGAACCT
1 GCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCGTGGCTGAACCT
* * * *
100014952 G-TAAAATTAACACGGGCGTGCGACACGTCCGTGCCAAGCAACCGTGGGC-GAACCT
1 GCCAAAA-CAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCGT-GGCTGAACCT
100015007 GCCAAAACAACACGGGCGTG
1 GCCAAAACAACACGGGCGTG
100015027 GACCTTCATA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
54 4 0.07
55 49 0.82
56 7 0.12
ACGTcount: A:0.28, C:0.29, G:0.28, T:0.14
Consensus pattern (55 bp):
GCCAAAACAACACGGGCGTGCGACACGCCCGTGCCAAGAAACCGTGGCTGAACCT
Found at i:100033105 original size:24 final size:24
Alignment explanation
Indices: 100033061--100033110 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
100033051 GTTGTTTCAT
100033061 AAAAAAAACTGAACTGGAAAAGAG
1 AAAAAAAACTGAACTGGAAAAGAG
* *
100033085 AAAAAAAA-TCGAATTGTAAAAGAG
1 AAAAAAAACT-GAACTGGAAAAGAG
100033109 AA
1 AA
100033111 GGAGAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.64, C:0.06, G:0.18, T:0.12
Consensus pattern (24 bp):
AAAAAAAACTGAACTGGAAAAGAG
Found at i:100034055 original size:185 final size:185
Alignment explanation
Indices: 100033743--100034112 Score: 731
Period size: 185 Copynumber: 2.0 Consensus size: 185
100033733 AATCGGTAAG
100033743 AAAATTAATCCATCCAACCAACTGTTTCAACCGATTCCTCCCCTTACTGTTAATGCTAAAGGACT
1 AAAATTAATCCATCCAACCAACTGTTTCAACCGATTCCTCCCCTTACTGTTAATGCTAAAGGACT
100033808 AGAGCTCATCAATATAAACTATGGTTGTTTGGACTATTCCTTTTCCTAAAGAAACTTTACTATGA
66 AGAGCTCATCAATATAAACTATGGTTGTTTGGACTATTCCTTTTCCTAAAGAAACTTTACTATGA
*
100033873 TTTTTTTTTAATTACAATAACAAGGAAAAGTGTGAACAACAAATGCGTTTAACGC
131 TTTTTTTTTAATTACAATAACAAGAAAAAGTGTGAACAACAAATGCGTTTAACGC
100033928 AAAATTAATCCATCCAACCAACTGTTTCAACCGATTCCTCCCCTTACTGTTAATGCTAAAGGACT
1 AAAATTAATCCATCCAACCAACTGTTTCAACCGATTCCTCCCCTTACTGTTAATGCTAAAGGACT
100033993 AGAGCTCATCAATATAAACTATGGTTGTTTGGACTATTCCTTTTCCTAAAGAAACTTTACTATGA
66 AGAGCTCATCAATATAAACTATGGTTGTTTGGACTATTCCTTTTCCTAAAGAAACTTTACTATGA
100034058 TTTTTTTTTAATTACAATAACAAGAAAAAGTGTGAACAACAAATGCGTTTAACGC
131 TTTTTTTTTAATTACAATAACAAGAAAAAGTGTGAACAACAAATGCGTTTAACGC
100034113 GACTCAAATT
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 184 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (185 bp):
AAAATTAATCCATCCAACCAACTGTTTCAACCGATTCCTCCCCTTACTGTTAATGCTAAAGGACT
AGAGCTCATCAATATAAACTATGGTTGTTTGGACTATTCCTTTTCCTAAAGAAACTTTACTATGA
TTTTTTTTTAATTACAATAACAAGAAAAAGTGTGAACAACAAATGCGTTTAACGC
Found at i:100039980 original size:30 final size:32
Alignment explanation
Indices: 100039921--100039983 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
100039911 ATTATTTTTA
* *
100039921 AATTTTTGGAAAGTTTAATATGAAAATTTTCT
1 AATTTTTAGAAAGTATAATATGAAAATTTTCT
*
100039953 AATTTTTAGAAAGTATGAT-TG-AAATTTTCT
1 AATTTTTAGAAAGTATAATATGAAAATTTTCT
100039983 A
1 A
100039984 GTAATTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 10 0.36
31 2 0.07
32 16 0.57
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (32 bp):
AATTTTTAGAAAGTATAATATGAAAATTTTCT
Found at i:100040481 original size:19 final size:20
Alignment explanation
Indices: 100040459--100040512 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
100040449 TAAAAATTAT
100040459 AAAAATAATAAATTTT-AGA
1 AAAAATAATAAATTTTAAGA
* * *
100040478 AAAATTATTAAATTTTAATA
1 AAAAATAATAAATTTTAAGA
100040498 AAAATATAATAAATT
1 AAAA-ATAATAAATT
100040513 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 14 0.50
20 6 0.21
21 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAATAATAAATTTTAAGA
Found at i:100040530 original size:28 final size:30
Alignment explanation
Indices: 100040477--100040540 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 30
100040467 TAAATTTTAG
100040477 AAAAATTATTAAATTTTAATAAAAATA-TA
1 AAAAATTATTAAATTTTAATAAAAATAGTA
* * *
100040506 ATAAATTA-TAATTTTTTATAAAAATAGTA
1 AAAAATTATTAAATTTTAATAAAAATAGTA
100040535 AAAAAT
1 AAAAAT
100040541 AAAAATTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 16 0.53
29 14 0.47
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAAATTATTAAATTTTAATAAAAATAGTA
Found at i:100040544 original size:16 final size:16
Alignment explanation
Indices: 100040523--100040557 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
100040513 ATAATTTTTT
100040523 ATAAAAATAGTAAAAA
1 ATAAAAATAGTAAAAA
*
100040539 ATAAAAATTGTAAAAA
1 ATAAAAATAGTAAAAA
100040555 ATA
1 ATA
100040558 GCGACCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAAAAATAGTAAAAA
Found at i:100040547 original size:29 final size:28
Alignment explanation
Indices: 100040490--100040547 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
100040480 AATTATTAAA
* * *
100040490 TTTTAATAAAAATATAATAAATTATAAT
1 TTTTAATAAAAATATAAAAAATAAAAAT
*
100040518 TTTTTATAAAAATAGTAAAAAATAAAAAT
1 TTTTAATAAAAATA-TAAAAAATAAAAAT
100040547 T
1 T
100040548 GTAAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
TTTTAATAAAAATATAAAAAATAAAAAT
Found at i:100040793 original size:28 final size:25
Alignment explanation
Indices: 100040727--100040831 Score: 66
Period size: 28 Copynumber: 3.8 Consensus size: 25
100040717 TTCTTACAAC
100040727 TTTATAAAATTTTAAATTTTTTTATATT
1 TTTAT-AAATTTTAAA--TTTTTATATT
* *
100040755 TCTATATATTTTATAATTTTTACTATT
1 TTTATAAATTTTA-AATTTTTA-TATT
* *
100040782 TTTATGAAATTTAACAATTTTTTATAAAT
1 TTTAT-AAATTTTA-AA-TTTTTAT-ATT
* **
100040811 TTTATATATTTTCTATTTTTA
1 TTTATAAATTTTAAATTTTTA
100040832 ATAAATTTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
26 12 0.20
27 16 0.26
28 20 0.33
29 13 0.21
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (25 bp):
TTTATAAATTTTAAATTTTTATATT
Found at i:100040801 original size:56 final size:54
Alignment explanation
Indices: 100040727--100040831 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 54
100040717 TTCTTACAAC
* *
100040727 TTTATAAAATTTTAAATTTTTT-TATATTTCTATATATTTTATAATTTTTACTATT
1 TTTATAAAATTTAAAATTTTTTATAAATTT-TATATATTTTAT-ATTTTTACTATT
* *
100040782 TTTATGAAATTTAACAATTTTTTATAAATTTTATATATTTTCTATTTTTA
1 TTTATAAAATTTAA-AATTTTTTATAAATTTTATATATTTTATATTTTTA
100040832 ATAAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 19 0.43
56 19 0.43
57 6 0.14
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (54 bp):
TTTATAAAATTTAAAATTTTTTATAAATTTTATATATTTTATATTTTTACTATT
Found at i:100040821 original size:20 final size:20
Alignment explanation
Indices: 100040727--100040822 Score: 66
Period size: 20 Copynumber: 5.0 Consensus size: 20
100040717 TTCTTACAAC
100040727 TTTATAAAATTTTA-A-ATTT
1 TTTAT-AAATTTTATATATTT
*
100040746 TTT-TATATTTCTATATA--T
1 TTTATAAATTT-TATATATTT
100040764 TTTAT-AATTTT-TACTA-TT
1 TTTATAAATTTTATA-TATTT
* *
100040782 TTTATGAAATTTAACA-ATTT
1 TTTAT-AAATTTTATATATTT
100040802 TTTATAAATTTTATATATTT
1 TTTATAAATTTTATATATTT
100040822 T
1 T
100040823 CTATTTTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
16 2 0.03
17 8 0.13
18 17 0.28
19 14 0.23
20 18 0.30
21 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (20 bp):
TTTATAAATTTTATATATTT
Found at i:100041163 original size:92 final size:92
Alignment explanation
Indices: 100040927--100041164 Score: 257
Period size: 92 Copynumber: 2.6 Consensus size: 92
100040917 AATTTTTAAT
* * *
100040927 AAAAGCAGAGGCCTAATTGTGTTTTTTTTTGAAAAAGTTTAAGGGCCTTTTTGATGTATTTTGAA
1 AAAAGCAGAGGCTTAATTGT-TTTTTTTTTAAAAAAGTTTAAGGG-CTTTTTGATGCATTTTGAA
*
100040992 AGTTCAAGAACCCAATTGAATGCAAAAAA
64 AGTTCAAGAACCCAAATGAATGCAAAAAA
* * * * * * *
100041021 AAAAGTTAAAGGCTTTATTG--TTTTTATTAAAAAGGTTTGAGGGCATTTTTTATGCATTTTGAA
1 AAAAG-CAGAGGCTTAATTGTTTTTTTTTTAAAAAAGTTTAAGGGC-TTTTTGATGCATTTTGAA
* * *
100041084 AGTTCAAGTACCCAAATGAGTG-TAAAAA
64 AGTTCAAGAACCCAAATGAATGCAAAAAA
* *
100041112 AAAAGCAGGGGCTTAATTGTTTTTTTTTTAAAAAAAAGTTTTAGGGCTTTTTG
1 AAAAGCAGAGGCTTAATTGTTTTTTTTTT--AAAAAAGTTTAAGGGCTTTTTG
100041165 CATCAAACTT
Statistics
Matches: 116, Mismatches: 22, Indels: 13
0.77 0.15 0.09
Matches are distributed among these distances:
90 10 0.09
91 11 0.09
92 61 0.53
93 5 0.04
94 19 0.16
95 10 0.09
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.37
Consensus pattern (92 bp):
AAAAGCAGAGGCTTAATTGTTTTTTTTTTAAAAAAGTTTAAGGGCTTTTTGATGCATTTTGAAAG
TTCAAGAACCCAAATGAATGCAAAAAA
Found at i:100042365 original size:12 final size:12
Alignment explanation
Indices: 100042350--100042375 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
100042340 AACTAAATTG
100042350 AATAGACTTCAA
1 AATAGACTTCAA
100042362 AATAGACTTCAA
1 AATAGACTTCAA
100042374 AA
1 AA
100042376 CCTAGAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (12 bp):
AATAGACTTCAA
Found at i:100045050 original size:19 final size:18
Alignment explanation
Indices: 100045014--100045059 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 18
100045004 TTAAAAGATA
100045014 TTTTTTTTAATTATTTTC
1 TTTTTTTTAATTATTTTC
100045032 TTTTCTTTTACATTATTTCTC
1 TTTT-TTTTA-ATTATTT-TC
100045053 TCTTTTT
1 T-TTTTT
100045060 ATTTTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 7 0.29
21 5 0.21
22 3 0.12
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTAATTATTTTC
Found at i:100049035 original size:23 final size:22
Alignment explanation
Indices: 100049005--100049048 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
100048995 AATTTCTACT
* *
100049005 TCATAATGCTTTGTTTACTAAAA
1 TCATAATGATTTGCTT-CTAAAA
100049028 TCATAATGATTTGCTTCTAAA
1 TCATAATGATTTGCTTCTAAA
100049049 GTTAGGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (22 bp):
TCATAATGATTTGCTTCTAAAA
Found at i:100050125 original size:22 final size:20
Alignment explanation
Indices: 100050100--100050140 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
100050090 GTTCTGATCC
100050100 TTTAATATTTATAAAATTTTAA
1 TTTAATATTT-T-AAATTTTAA
100050122 TTTAATATTTTAAATTTTA
1 TTTAATATTTTAAATTTTA
100050141 TAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAATATTTTAAATTTTAA
Found at i:100054219 original size:2 final size:2
Alignment explanation
Indices: 100054212--100054247 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
100054202 ACAAAAATAT
100054212 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
100054248 AAGCAAAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:100057417 original size:21 final size:21
Alignment explanation
Indices: 100057392--100057434 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
100057382 TAACTCTAAC
*
100057392 AATTTCATTTGATTCGACTCG
1 AATTTCATTTCATTCGACTCG
*
100057413 AATTTCATTTCATTTGACTCG
1 AATTTCATTTCATTCGACTCG
100057434 A
1 A
100057435 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.44
Consensus pattern (21 bp):
AATTTCATTTCATTCGACTCG
Found at i:100065439 original size:104 final size:104
Alignment explanation
Indices: 100065260--100065462 Score: 230
Period size: 104 Copynumber: 2.0 Consensus size: 104
100065250 CCACACTGCC
* * * * * ** *
100065260 AGGGATATGGGCGTGTGCCCAGGCCGTGTGAGCTACACGGGCAAAGACATGGGCATGTGTTTAGT
1 AGGGACATGGGCATGTGCCCAGGCCGTGTAAGCCACACAGGCAAAGACATGGGCATGTGTCCAGG
** * *
100065325 CCATGTAACTCATTATTTACGCTTTAGAACCACATGGCT
66 CCATACAACTCACTATTTACGATTTAGAACCACATGGCT
*
100065364 AGGGACATGGGCATGTGCCTAGGCCGTGTAAGCCACACAGG-AAAGGACATGGGCGA-GTGTCCA
1 AGGGACATGGGCATGTGCCCAGGCCGTGTAAGCCACACAGGCAAA-GACATGGGC-ATGTGTCCA
* * *
100065427 GGCTATACAACTCACTGTTTATGATTTAGAACCACA
64 GGCCATACAACTCACTATTTACGATTTAGAACCACA
100065463 CGGATGTGTG
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
103 3 0.04
104 77 0.95
105 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (104 bp):
AGGGACATGGGCATGTGCCCAGGCCGTGTAAGCCACACAGGCAAAGACATGGGCATGTGTCCAGG
CCATACAACTCACTATTTACGATTTAGAACCACATGGCT
Found at i:100069493 original size:42 final size:42
Alignment explanation
Indices: 100069357--100069540 Score: 179
Period size: 42 Copynumber: 4.4 Consensus size: 42
100069347 TATCGATGCT
* * * * * *
100069357 ACACGGCCAGGGACATGGGCGTGTGCCCAAGCCGTATGAGCC
1 ACACGGGCAAGGACATAGGCATGTGCCCAGGCCGTGTGAGCC
* * * * *
100069399 ACACGAGCAAAGACATGGGCATGTGTCTAGGCCGTGTGAGCC
1 ACACGGGCAAGGACATAGGCATGTGCCCAGGCCGTGTGAGCC
** *
100069441 ACACATGCAAGGACATAGGCATGTGCCCAGGCCGTTTGAGCC
1 ACACGGGCAAGGACATAGGCATGTGCCCAGGCCGTGTGAGCC
* * * * * * *
100069483 ATATGGGCAAGGATATAGACGTATGCCGAGGCCGTGTGAGCC
1 ACACGGGCAAGGACATAGGCATGTGCCCAGGCCGTGTGAGCC
100069525 ACACGGGCAAGGACAT
1 ACACGGGCAAGGACAT
100069541 GTGTGTGTGT
Statistics
Matches: 113, Mismatches: 29, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 113 1.00
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (42 bp):
ACACGGGCAAGGACATAGGCATGTGCCCAGGCCGTGTGAGCC
Found at i:100073241 original size:25 final size:26
Alignment explanation
Indices: 100073206--100073267 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
100073196 TAACAAAATA
100073206 AAAAAATAAACAAAAAGAA-GAAACAC
1 AAAAAA-AAACAAAAAGAAGGAAACAC
* * *
100073232 AAAAAAAAACGAAAGGAAGGAAACTC
1 AAAAAAAAACAAAAAGAAGGAAACAC
100073258 AAAAAGAAAA
1 AAAAA-AAAA
100073268 GGAATACATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.32
26 17 0.55
27 4 0.13
ACGTcount: A:0.74, C:0.10, G:0.13, T:0.03
Consensus pattern (26 bp):
AAAAAAAAACAAAAAGAAGGAAACAC
Found at i:100078762 original size:10 final size:10
Alignment explanation
Indices: 100078728--100078755 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
100078718 TAAATACATT
100078728 TAATTAAAGA
1 TAATTAAAGA
100078738 TAATTAAAGA
1 TAATTAAAGA
100078748 TAATTAAA
1 TAATTAAA
100078756 AAAAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:100080259 original size:21 final size:23
Alignment explanation
Indices: 100080218--100080259 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
100080208 TAACAGATAG
*
100080218 GCACCGGGTGTCAACTTATTTTA
1 GCACCGGGCGTCAACTTATTTTA
100080241 GCACCGGGCG-CAA-TTATTT
1 GCACCGGGCGTCAACTTATTT
100080260 ACTTTGGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 3 0.17
23 9 0.50
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (23 bp):
GCACCGGGCGTCAACTTATTTTA
Found at i:100081790 original size:43 final size:43
Alignment explanation
Indices: 100081707--100081790 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
100081697 GTTTCCAACA
* **
100081707 TGTGATTACATGTAAAACCATGTCATGGACATTGGCATTGTAT
1 TGTGATTACATGCAAAACCATGTCATGGACATTGAAATTGTAT
* *
100081750 TGTGATTACGTGCAAGACCATGTC-TGGGACATTGAAATTGT
1 TGTGATTACATGCAAAACCATGTCAT-GGACATTGAAATTGT
100081791 TAACCGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGCAAAACCATGTCATGGACATTGAAATTGTAT
Found at i:100088664 original size:43 final size:43
Alignment explanation
Indices: 100088616--100088768 Score: 152
Period size: 43 Copynumber: 3.6 Consensus size: 43
100088606 TACCAAGATG
*
100088616 TGATTACATGTAAGACCATGTCTGAGACATTGGCA-C-TGTATTT
1 TGATTACATGTAAGACCATGTCTGAGACATTGGCATCGT-TA-AT
100088659 TGATTACATGTAAGACCATGTCT-AGGACATTGGCATCGTTAAT
1 TGATTACATGTAAGACCATGTCTGA-GACATTGGCATCGTTAAT
* * * * * *
100088702 CGATTTCGTGTAAGACCCTGTCTGAGACAGTGGCATCGAT-AT
1 TGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTTAAT
* * *
100088744 GTGATAATATGTAAGACCATATCTG
1 -TGATTACATGTAAGACCATGTCTG
100088769 GGATGTGGCA
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.03
43 83 0.91
44 4 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGAGACATTGGCATCGTTAAT
Found at i:100094054 original size:7 final size:7
Alignment explanation
Indices: 100094037--100094069 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
100094027 TAATAGTAGT
100094037 TTAAA-A
1 TTAAATA
100094043 TTAAATA
1 TTAAATA
100094050 TTAAATA
1 TTAAATA
100094057 TTAAATA
1 TTAAATA
100094064 TTAAAT
1 TTAAAT
100094070 TGTTTGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAATA
Found at i:100100744 original size:28 final size:28
Alignment explanation
Indices: 100100704--100100761 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
100100694 AATTCTATCG
100100704 TTTGATTTTTATTTTACGCAATAAAGAC
1 TTTGATTTTTATTTTACGCAATAAAGAC
100100732 TTTGATTTTTATTTTACGCAATAAAGAC
1 TTTGATTTTTATTTTACGCAATAAAGAC
100100760 TT
1 TT
100100762 AGATATTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (28 bp):
TTTGATTTTTATTTTACGCAATAAAGAC
Found at i:100102436 original size:15 final size:18
Alignment explanation
Indices: 100102398--100102444 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
100102388 TCTTACTTTT
100102398 ATAATTAAATATATTTAA
1 ATAATTAAATATATTTAA
100102416 ATAATTAAA-AT-TTTAA
1 ATAATTAAATATATTTAA
*
100102432 A-AATTAAGTATAT
1 ATAATTAAATATAT
100102445 ACTCTTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 3 0.12
18 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATAATTAAATATATTTAA
Found at i:100102668 original size:15 final size:15
Alignment explanation
Indices: 100102638--100102667 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
100102628 CAAGTGTCCT
100102638 ATAAAGTATTTAAAA
1 ATAAAGTATTTAAAA
100102653 ATAAA-TATTTAAAA
1 ATAAAGTATTTAAAA
100102667 A
1 A
100102668 AAGAGACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
ATAAAGTATTTAAAA
Found at i:100103926 original size:60 final size:60
Alignment explanation
Indices: 100103855--100103973 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
100103845 AATTTTTTAA
* *
100103855 TAATTATTTTAAAATTAATTTGTTAGTAATTTAAGATTATATTATAAATTGATGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAATAATTTAAGATTATATTATAAATTGATGTGTTTG
* * *
100103915 TAATTATTTTAAAATTAATTTATTAATAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAATAATTTAAGATTATATTATAAATTGATGTGTTT
100103974 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAATAATTTAAGATTATATTATAAATTGATGTGTTTG
Found at i:100104050 original size:84 final size:79
Alignment explanation
Indices: 100103956--100104130 Score: 229
Period size: 72 Copynumber: 2.2 Consensus size: 79
100103946 TAGGATTATG
*
100103956 TTATAAATTGTTGTGTTTAGTTTAGTATTTGATGAGTTTTTAGTAATGTAAAATTATTTTATTAA
1 TTATAAATTGTTGTGTTT--TCT-G-ATTTG-TGAGTTTTTAGTAATGTAAAATTATTTTATTAA
*
100104021 ATATTTTGTTGGTAATTTA
61 ATATTTTGTTAGTAATTTA
*
100104040 TTATAAA----T-TG--TTCTGCTTTGTGAGTTTTTAGTAATGTAAAATTATTTTATTAAATATT
1 TTATAAATTGTTGTGTTTTCTGATTTGTGAGTTTTTAGTAATGTAAAATTATTTTATTAAATATT
100104098 TTGTTAGTAATTTA
66 TTGTTAGTAATTTA
100104112 TTATAAATTGTTGTGTTTT
1 TTATAAATTGTTGTGTTTT
100104131 GTGAGTTTTT
Statistics
Matches: 81, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
72 58 0.72
73 4 0.05
74 1 0.01
75 2 0.02
76 1 0.01
77 3 0.04
79 4 0.05
80 1 0.01
84 7 0.09
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.55
Consensus pattern (79 bp):
TTATAAATTGTTGTGTTTTCTGATTTGTGAGTTTTTAGTAATGTAAAATTATTTTATTAAATATT
TTGTTAGTAATTTA
Found at i:100104105 original size:34 final size:34
Alignment explanation
Indices: 100103995--100104108 Score: 88
Period size: 34 Copynumber: 3.2 Consensus size: 34
100103985 TGATGAGTTT
100103995 TTAGTAATGTAAAATTATTTTATTAAATATTTTG
1 TTAGTAATGTAAAATTATTTTATTAAATATTTTG
* * * ** ** *
100104029 TTGGTAATTTATTATAAATTGTTCTGCTT-TGTGAGTTT-
1 TTAGTAA--T-GTA-AAATTATT-TTATTAAAT-ATTTTG
100104067 TTAGTAATGTAAAATTATTTTATTAAATATTTTG
1 TTAGTAATGTAAAATTATTTTATTAAATATTTTG
100104101 TTAGTAAT
1 TTAGTAAT
100104109 TTATTATAAA
Statistics
Matches: 56, Mismatches: 16, Indels: 16
0.64 0.18 0.18
Matches are distributed among these distances:
33 7 0.12
34 22 0.39
35 2 0.04
36 2 0.04
37 2 0.04
38 14 0.25
39 7 0.12
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (34 bp):
TTAGTAATGTAAAATTATTTTATTAAATATTTTG
Found at i:100104108 original size:72 final size:72
Alignment explanation
Indices: 100103983--100104159 Score: 302
Period size: 72 Copynumber: 2.5 Consensus size: 72
100103973 TAGTTTAGTA
*
100103983 TTTGATGAGTTTTTAGTAATGTAAAATTATTTTATTAAATATTTTGTTGGTAATTTATTATAAAT
1 TTTG-TGAGTTTTTAGTAATGTAAAATTATTTTATTAAATATTTTGTTAGTAATTTATTATAAAT
100104048 TGTTCTGC
65 TGTTCTGC
100104056 TTTGTGAGTTTTTAGTAATGTAAAATTATTTTATTAAATATTTTGTTAGTAATTTATTATAAATT
1 TTTGTGAGTTTTTAGTAATGTAAAATTATTTTATTAAATATTTTGTTAGTAATTTATTATAAATT
* *
100104121 GTTGTGT
66 GTTCTGC
*
100104128 TTTGTGAGTTTTTAGTAATGT-AAATTTTTTTA
1 TTTGTGAGTTTTTAGTAATGTAAAATTATTTTA
100104160 AAAAAATTAT
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
71 10 0.10
72 86 0.86
73 4 0.04
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.55
Consensus pattern (72 bp):
TTTGTGAGTTTTTAGTAATGTAAAATTATTTTATTAAATATTTTGTTAGTAATTTATTATAAATT
GTTCTGC
Found at i:100104143 original size:38 final size:38
Alignment explanation
Indices: 100104032--100104146 Score: 96
Period size: 38 Copynumber: 3.1 Consensus size: 38
100104022 TATTTTGTTG
*
100104032 GTAATTTATTATAAATTGTTCTGCTTTGTGAGTTTTTA
1 GTAATTTATTATAAATTGTTCTGTTTTGTGAGTTTTTA
* * * * *** *
100104070 GTAA--T-GTA-AAATTATTTTATTAAAT-ATTTTGTTA
1 GTAATTTATTATAAATTGTTCTGTTTTGTGAGTTT-TTA
*
100104104 GTAATTTATTATAAATTGTTGTGTTTTGTGAGTTTTTA
1 GTAATTTATTATAAATTGTTCTGTTTTGTGAGTTTTTA
100104142 GTAAT
1 GTAAT
100104147 GTAAATTTTT
Statistics
Matches: 54, Mismatches: 17, Indels: 12
0.65 0.20 0.14
Matches are distributed among these distances:
33 4 0.07
34 17 0.31
35 2 0.04
36 2 0.04
37 2 0.04
38 23 0.43
39 4 0.07
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (38 bp):
GTAATTTATTATAAATTGTTCTGTTTTGTGAGTTTTTA
Found at i:100104222 original size:27 final size:27
Alignment explanation
Indices: 100104184--100104240 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
100104174 ATTTTGTTCA
** *
100104184 ACCAGTCGCGCCTGTCAGATAGGCTCC
1 ACCAGTCGCGCCTACCAGATAGGCGCC
100104211 ACCAGTCGCGCCTACCAGATAGGCGCC
1 ACCAGTCGCGCCTACCAGATAGGCGCC
100104238 ACC
1 ACC
100104241 TACCCCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.40, G:0.25, T:0.14
Consensus pattern (27 bp):
ACCAGTCGCGCCTACCAGATAGGCGCC
Found at i:100107980 original size:21 final size:21
Alignment explanation
Indices: 100107942--100107982 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100107932 GTTAAATAAA
*
100107942 AATATGATTTTTTTTTAAAAC
1 AATATGATTTTTTATTAAAAC
100107963 AATAT-ATTTTTTAATTAAAA
1 AATATGATTTTTT-ATTAAAA
100107983 TTAATAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATATGATTTTTTATTAAAAC
Found at i:100120301 original size:20 final size:21
Alignment explanation
Indices: 100120258--100120303 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
100120248 ATTTAAAAAA
100120258 TAAA-ATAAAGAATGAAAACG
1 TAAATATAAAGAATGAAAACG
*
100120278 -AAATATAAAGAAT-AAAATG
1 TAAATATAAAGAATGAAAACG
100120297 TAAATAT
1 TAAATAT
100120304 GCACATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.22
Consensus pattern (21 bp):
TAAATATAAAGAATGAAAACG
Found at i:100123396 original size:3 final size:3
Alignment explanation
Indices: 100123390--100123420 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
100123380 CATCATCATC
100123390 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
100123421 AAAACTAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:100127089 original size:17 final size:17
Alignment explanation
Indices: 100127059--100127091 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
100127049 TATTTGAACT
100127059 AATTGATAACATTAAAA
1 AATTGATAACATTAAAA
100127076 AATT-ATAACGATTAAA
1 AATTGATAAC-ATTAAA
100127092 TTATGTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
AATTGATAACATTAAAA
Found at i:100128740 original size:20 final size:20
Alignment explanation
Indices: 100128717--100128754 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
100128707 GTCACCTAGT
100128717 TTTTATTTCAATCACTCAGA
1 TTTTATTTCAATCACTCAGA
*
100128737 TTTTATTTCAGTCACTCA
1 TTTTATTTCAATCACTCA
100128755 ACTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTATTTCAATCACTCAGA
Found at i:100128779 original size:30 final size:31
Alignment explanation
Indices: 100128745--100128805 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
100128735 GATTTTATTT
*
100128745 CAGTCACTCAAC-TT-TAAAAAAGTTACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTGACAAAA
100128775 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTGACAAAA
100128806 TGTAGCAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 3 0.11
30 10 0.36
31 15 0.54
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTGACAAAA
Found at i:100129368 original size:12 final size:12
Alignment explanation
Indices: 100129351--100129416 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 12
100129341 AAACACTCAC
*
100129351 TGATTTTGATTT
1 TGATTTCGATTT
*
100129363 TGATTTCAATTT
1 TGATTTCGATTT
*
100129375 TGATCTCGATTT
1 TGATTTCGATTT
* **
100129387 AGATTTATATTT
1 TGATTTCGATTT
* *
100129399 AGATTTGGATTT
1 TGATTTCGATTT
*
100129411 CGATTT
1 TGATTT
100129417 AGGGTAATTT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.23, C:0.06, G:0.15, T:0.56
Consensus pattern (12 bp):
TGATTTCGATTT
Found at i:100129392 original size:18 final size:19
Alignment explanation
Indices: 100129352--100129392 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
100129342 AACACTCACT
* *
100129352 GATTTTGATTTTGATTTCA
1 GATTTTGATCTCGATTTCA
100129371 -ATTTTGATCTCGATTT-A
1 GATTTTGATCTCGATTTCA
100129388 GATTT
1 GATTT
100129393 ATATTTAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (19 bp):
GATTTTGATCTCGATTTCA
Found at i:100129428 original size:16 final size:16
Alignment explanation
Indices: 100129407--100129448 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
100129397 TTAGATTTGG
*
100129407 ATTTCGATTTAGGGTA
1 ATTTCGATTTAGAGTA
*
100129423 ATTTCGATTTAGAGTT
1 ATTTCGATTTAGAGTA
100129439 ATTTCGATTT
1 ATTTCGATTT
100129449 GTATGACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (16 bp):
ATTTCGATTTAGAGTA
Found at i:100129683 original size:62 final size:62
Alignment explanation
Indices: 100129617--100129739 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
100129607 ACCTTCTTTA
* *
100129617 TTGTACTGGTTATTGTCTGCCATGTGCATGACA-AAAATGGTTGTGTTTGTATTAAATTATTT
1 TTGTACTGGTTATTGTCTACCATGTACATGACAGAAAATGGTT-TGTTTGTATTAAATTATTT
* * *
100129679 TTGTATTGGTTGTTGTCTACCATGTACATGACAGAAATTGGTTTGTTTGTATTAAATTATT
1 TTGTACTGGTTATTGTCTACCATGTACATGACAGAAAATGGTTTGTTTGTATTAAATTATT
100129740 GGGTATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 47 0.85
63 8 0.15
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.46
Consensus pattern (62 bp):
TTGTACTGGTTATTGTCTACCATGTACATGACAGAAAATGGTTTGTTTGTATTAAATTATTT
Found at i:100129893 original size:15 final size:15
Alignment explanation
Indices: 100129869--100129919 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
100129859 GAAGAAGACA
100129869 TGTCTAGTAGTGATG
1 TGTCTAGTAGTGATG
*
100129884 TGTCTGGTAGTGATG
1 TGTCTAGTAGTGATG
** **
100129899 CATCTAAAAGTGATG
1 TGTCTAGTAGTGATG
100129914 TGTCTA
1 TGTCTA
100129920 ATAGGATAGG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (15 bp):
TGTCTAGTAGTGATG
Found at i:100131642 original size:40 final size:40
Alignment explanation
Indices: 100131579--100131680 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
100131569 TTAGCGAATG
* *
100131579 TTTTTTAATATGCATGCACTGATTGTTAGTGTGTTGACTA
1 TTTTTTAATATGCATGCAGTGATTGATAGTGTGTTGACTA
* * *
100131619 TTTTTTAATATGCATACAGTGATTGATGGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGATAGTGTGTTGACTA
100131659 TTTTTTAATATGCATGCAGTGA
1 TTTTTTAATATGCATGCAGTGA
100131681 GTATTTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.46
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTGATAGTGTGTTGACTA
Found at i:100131695 original size:28 final size:25
Alignment explanation
Indices: 100131659--100131715 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 25
100131649 GTGTTGCCTA
100131659 TTTTTTAATATGCATGCAGTGAGTATT
1 TTTTTTAATATGCATGCAGTGA-T-TT
*
100131686 TTTTTATAATATGCATGTAGTGATTT
1 TTTTT-TAATATGCATGCAGTGATTT
100131712 TTTT
1 TTTT
100131716 AGGGGTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 6 0.21
27 6 0.21
28 16 0.57
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (25 bp):
TTTTTTAATATGCATGCAGTGATTT
Found at i:100132458 original size:21 final size:21
Alignment explanation
Indices: 100132357--100132458 Score: 70
Period size: 21 Copynumber: 5.0 Consensus size: 21
100132347 AAGTTGGTGT
* *
100132357 CCCAACTCAGCAACAAGCTAC
1 CCCAACTCATCAACAAGCTGC
* * * *
100132378 CCCAAATC-TGCAAGAGGGTGC
1 CCCAACTCAT-CAACAAGCTGC
100132399 CCCAA--C-TCAACAAGCTGC
1 CCCAACTCATCAACAAGCTGC
* * *
100132417 CCCAACTCAGTTACCTA-CTGC
1 CCCAACTCA-TCAACAAGCTGC
100132438 CCCAACTCATCAACAAGCTGC
1 CCCAACTCATCAACAAGCTGC
100132459 TCTAAGAGAA
Statistics
Matches: 60, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
18 13 0.22
19 2 0.03
20 5 0.08
21 36 0.60
22 4 0.07
ACGTcount: A:0.31, C:0.40, G:0.14, T:0.15
Consensus pattern (21 bp):
CCCAACTCATCAACAAGCTGC
Found at i:100133567 original size:27 final size:28
Alignment explanation
Indices: 100133523--100133575 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
100133513 AGAGAGGACG
100133523 AGAGGCAGAAATATATTTTTTTAAAAGC
1 AGAGGCAGAAATATATTTTTTTAAAAGC
100133551 AGAGG-AGAAATGA-ATTTTTTTAAAA
1 AGAGGCAGAAAT-ATATTTTTTTAAAA
100133576 AAACTCAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (28 bp):
AGAGGCAGAAATATATTTTTTTAAAAGC
Found at i:100134102 original size:12 final size:12
Alignment explanation
Indices: 100134085--100134125 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
100134075 TTATTTATTC
100134085 ATTATCATTGTT
1 ATTATCATTGTT
100134097 ATTATCATTGTT
1 ATTATCATTGTT
*
100134109 ATT-TACATGGTT
1 ATTAT-CATTGTT
100134121 ATTAT
1 ATTAT
100134126 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (12 bp):
ATTATCATTGTT
Found at i:100134346 original size:34 final size:34
Alignment explanation
Indices: 100134301--100134379 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
100134291 ACTATTTCTT
100134301 TCATGTCTATTTTTTATAATACTATTATTATAATA
1 TCAT-TCTATTTTTTATAATACTATTATTATAATA
100134336 TCATTCTATTTTTTATAATACTATTATTATAATA
1 TCATTCTATTTTTTATAATACTATTATTATAATA
*
100134370 TCATTTTATT
1 TCATTCTATT
100134380 ATTATCATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
34 39 0.91
35 4 0.09
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (34 bp):
TCATTCTATTTTTTATAATACTATTATTATAATA
Found at i:100134524 original size:21 final size:22
Alignment explanation
Indices: 100134498--100134566 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 22
100134488 CTTATTATTA
100134498 TTATTA-ATAT-TAGTATATGTT
1 TTATTATATATATAGTATATG-T
* *
100134519 TTATTATATATGTA-TATATCT
1 TTATTATATATATAGTATATGT
*
100134540 TTAATATATATATAGGTATATGT
1 TTATTATATATATA-GTATATGT
100134563 TTAT
1 TTAT
100134567 GTAATATTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 19 0.49
22 9 0.23
23 11 0.28
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (22 bp):
TTATTATATATATAGTATATGT
Found at i:100134644 original size:24 final size:24
Alignment explanation
Indices: 100134616--100134665 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
100134606 CCAATATGTA
*
100134616 TATATTATGTAAATATTTTAATAT
1 TATATTATATAAATATTTTAATAT
** *
100134640 TATATTATATATGTATTTTTATAT
1 TATATTATATAAATATTTTAATAT
100134664 TA
1 TA
100134666 CGTATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
TATATTATATAAATATTTTAATAT
Found at i:100134673 original size:25 final size:24
Alignment explanation
Indices: 100134629--100134693 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
100134619 ATTATGTAAA
100134629 TATTTTAATATTATATTATATATG
1 TATTTTAATATTATATTATATATG
* *
100134653 TATTTTTATATTACGTA-TATATATC
1 TATTTTAATATTA--TATTATATATG
*
100134678 T-TTTTAATATTGTATT
1 TATTTTAATATTATATT
100134694 TTTATATATG
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 21 0.62
25 8 0.24
26 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (24 bp):
TATTTTAATATTATATTATATATG
Found at i:100134713 original size:37 final size:38
Alignment explanation
Indices: 100134646--100134723 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
100134636 ATATTATATT
* *
100134646 ATATATGTATTTTTATATTACGTATATATATCTTTTTA
1 ATATATGTATTTTTATATTACGTATATATATATTTCTA
* *
100134684 ATAT-TGTATTTTTATA-TATGTCATGTATATATTTCTA
1 ATATATGTATTTTTATATTACGT-ATATATATATTTCTA
100134721 ATA
1 ATA
100134724 CTATATTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 4 0.11
37 27 0.77
38 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.56
Consensus pattern (38 bp):
ATATATGTATTTTTATATTACGTATATATATATTTCTA
Found at i:100134831 original size:23 final size:21
Alignment explanation
Indices: 100134796--100134858 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
100134786 TATTTTCAAC
100134796 ACTATATTATGTACATACTTTT
1 ACTATATTATGTACATA-TTTT
**
100134818 ACTATCATTATGTATTTATTTT
1 ACTAT-ATTATGTACATATTTT
*
100134840 AATATA-TATGTACATATTT
1 ACTATATTATGTACATATTT
100134859 ATGTAGTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.31
21 1 0.03
22 13 0.37
23 10 0.29
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (21 bp):
ACTATATTATGTACATATTTT
Found at i:100134857 original size:20 final size:21
Alignment explanation
Indices: 100134798--100134858 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
100134788 TTTTCAACAC
*
100134798 TATATTATGTACATACTTTTAC
1 TATATTATGTACATA-TTTTAA
**
100134820 TATCATTATGTATTTATTTTAA
1 TAT-ATTATGTACATATTTTAA
100134842 TATA-TATGTACATATTT
1 TATATTATGTACATATTT
100134859 ATGTAGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 11 0.33
21 1 0.03
22 11 0.33
23 10 0.30
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (21 bp):
TATATTATGTACATATTTTAA
Found at i:100147244 original size:14 final size:14
Alignment explanation
Indices: 100147225--100147260 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
100147215 CGTCGAGCTA
* *
100147225 TTTTCAAATTTTGT
1 TTTTCAAATTCTAT
100147239 TTTTCAAATTCTAT
1 TTTTCAAATTCTAT
100147253 TTTTCAAA
1 TTTTCAAA
100147261 AATCAACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTTCAAATTCTAT
Found at i:100147329 original size:89 final size:86
Alignment explanation
Indices: 100147169--100147792 Score: 426
Period size: 89 Copynumber: 7.4 Consensus size: 86
100147159 TGCTTTTCAA
* * * * * *
100147169 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCTCACGTCGAGCTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTC-AAT
*
100147234 TTTGTTTTTCAAATTCTATTTTTC
65 TCTGTTTTTC-AATT-TATTTTTC
* *
100147258 AAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTCTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAATT
100147323 CCTGTTTTTC-A---A------
66 -CTGTTTTTCAATTTATTTTTC
* * * **
100147335 AAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTCAGG-TCTCACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCCAAGGTATTTTCAA-
* *
100147399 TTCTGCTTTTCACTTTATGTTTGTC
64 TTCTGTTTTTCAATTTAT-TTT-TC
* *
100147424 AAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTTAA-
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAAT
* **
100147488 ------TTTC---TGA-TCGTC
65 TCTGTTTTTCAATTTATTTTTC
** * ** *
100147500 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCCGCTCACATGCTGAGGTATTTTCAGTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCA-AT
*
100147565 TTTGTTTTTCAATTTATATTTTTC
65 TCTGTTTTTCAA-TT-TATTTTTC
* * * * *
100147589 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTC--AA
* *
100147654 TT-TGCTTTTC-----A-GTTTC
64 TTCTGTTTTTCAATTTATTTTTC
* * * * ** *** *
100147670 AAAAACCAACTCATATTGCGAGAGGTGAGTTAAACTTTGGCTCACGTGTTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAA-T
* *
100147735 TCTGTTTTT-AATTTCTGTTTTT
65 TCTGTTTTTCAATTTAT-TTTTC
* * **
100147757 AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
100147793 TCAAGATCAC
Statistics
Matches: 426, Mismatches: 66, Indels: 87
0.74 0.11 0.15
Matches are distributed among these distances:
75 55 0.13
76 2 0.00
77 62 0.15
78 4 0.01
79 4 0.01
80 2 0.00
81 63 0.15
82 5 0.01
83 5 0.01
87 8 0.02
88 30 0.07
89 130 0.31
90 55 0.13
91 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCCAAGGTATTTTCAATT
CTGTTTTTCAATTTATTTTTC
Done.