Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 308 of 373
Found at i:104230795 original size:3 final size:3
Alignment explanation
Indices: 104230787--104230835 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
104230777 TATATATTAG
* *
104230787 ATA ATA ATA TTA ATA ATA ATA ATA CATT ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
104230832 ATA A
1 ATA A
104230836 ATATATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:104231258 original size:5 final size:5
Alignment explanation
Indices: 104231250--104231299 Score: 57
Period size: 5 Copynumber: 10.0 Consensus size: 5
104231240 TATTTATTTC
* * *
104231250 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -TATT ATAAT TTAAC ATAAT
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
104231300 TAAATTTATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:104231275 original size:16 final size:16
Alignment explanation
Indices: 104231250--104231301 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
104231240 TATTTATTTC
104231250 ATAA-TATAATATAAT
1 ATAATTATAATATAAT
104231265 ATAATTATAATATAAT
1 ATAATTATAATATAAT
* *
104231281 -T-ATTATAATTTAAC
1 ATAATTATAATATAAT
104231295 ATAATTA
1 ATAATTA
104231302 AATTTATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 11 0.34
15 6 0.19
16 15 0.47
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTATAATATAAT
Found at i:104232141 original size:27 final size:26
Alignment explanation
Indices: 104232097--104232147 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
104232087 ATATAATGTT
*
104232097 ATTGATGATTTGCGATTTTTAATTAG
1 ATTGATGATTTGCGATTTTGAATTAG
104232123 ATTGAATGATTTGTC-ATTTTGAATT
1 ATTG-ATGATTTG-CGATTTTGAATT
104232148 GCAAGCAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 4 0.18
27 17 0.77
28 1 0.05
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (26 bp):
ATTGATGATTTGCGATTTTGAATTAG
Found at i:104236276 original size:15 final size:15
Alignment explanation
Indices: 104236253--104236296 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
104236243 AAACAGATCT
104236253 GCAATGCAAGGCAAG
1 GCAATGCAAGGCAAG
*
104236268 GCAAGGCAAGGCAAG
1 GCAATGCAAGGCAAG
*
104236283 GCAATGCAATGCAA
1 GCAATGCAAGGCAA
104236297 TGAGAATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.32, T:0.07
Consensus pattern (15 bp):
GCAATGCAAGGCAAG
Found at i:104236298 original size:5 final size:5
Alignment explanation
Indices: 104236253--104236296 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
104236243 AAACAGATCT
* * *
104236253 GCAAT GCAAG GCAAG GCAAG GCAAG GCAAG GCAAT GCAAT GCAA
1 GCAAG GCAAG GCAAG GCAAG GCAAG GCAAG GCAAG GCAAG GCAA
104236297 TGAGAATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.41, C:0.20, G:0.32, T:0.07
Consensus pattern (5 bp):
GCAAG
Found at i:104238726 original size:4 final size:4
Alignment explanation
Indices: 104238717--104238743 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
104238707 ACACACGTAT
104238717 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
104238744 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:104241031 original size:21 final size:21
Alignment explanation
Indices: 104241004--104241056 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
104240994 CATCAGCGAC
* * *
104241004 AATGAGATTACGTACTGTAGT
1 AATGAGATTAAGTACTATAGA
*
104241025 AGTGAGATTAAGTACTATAGA
1 AATGAGATTAAGTACTATAGA
104241046 AATGAGATTAA
1 AATGAGATTAA
104241057 AATCGGTGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.30
Consensus pattern (21 bp):
AATGAGATTAAGTACTATAGA
Found at i:104244635 original size:18 final size:18
Alignment explanation
Indices: 104244612--104244647 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
104244602 ATACTAAATC
104244612 GCCATTCTAGCGTACTAT
1 GCCATTCTAGCGTACTAT
* *
104244630 GCCATTTTGGCGTACTAT
1 GCCATTCTAGCGTACTAT
104244648 CTTATGATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (18 bp):
GCCATTCTAGCGTACTAT
Found at i:104247505 original size:20 final size:20
Alignment explanation
Indices: 104247480--104247528 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
104247470 ATCAATCTGA
*
104247480 TATCGATACT-TTTCTTAAGG
1 TATCGATA-TATTTCCTAAGG
*
104247500 TATCGACATATTTCCTAAGG
1 TATCGATATATTTCCTAAGG
104247520 TATCGATAT
1 TATCGATAT
104247529 TCATGCTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
TATCGATATATTTCCTAAGG
Found at i:104257316 original size:30 final size:30
Alignment explanation
Indices: 104257275--104257334 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
104257265 TTTATTGTTA
*
104257275 AATTTTTTTATTATTTTAAAGACATTTGCT
1 AATTTTGTTATTATTTTAAAGACATTTGCT
* * *
104257305 AATTTTGTTATTGTTTTAGAGGCATTTGCT
1 AATTTTGTTATTATTTTAAAGACATTTGCT
104257335 TGTTAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.55
Consensus pattern (30 bp):
AATTTTGTTATTATTTTAAAGACATTTGCT
Found at i:104257510 original size:12 final size:11
Alignment explanation
Indices: 104257455--104257506 Score: 95
Period size: 11 Copynumber: 4.6 Consensus size: 11
104257445 TATATATTTT
104257455 AAAATTATATA
1 AAAATTATATA
104257466 AAAATTATATA
1 AAAATTATATA
104257477 AAAATTATATA
1 AAAATTATATA
104257488 AAAATTAATATA
1 AAAATT-ATATA
104257500 AAAATTA
1 AAAATTA
104257507 ATATGGGCGG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
11 29 0.73
12 11 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTATATA
Found at i:104258381 original size:18 final size:19
Alignment explanation
Indices: 104258353--104258402 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
104258343 TGTGACGGAT
*
104258353 ATAACTTAAAAAATA-AAA
1 ATAATTTAAAAAATATAAA
*
104258371 ATATTTTAAAAAATATAAA
1 ATAATTTAAAAAATATAAA
*
104258390 TTAATTTAAAAAA
1 ATAATTTAAAAAA
104258403 AGTATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAATTTAAAAAATATAAA
Found at i:104259703 original size:16 final size:14
Alignment explanation
Indices: 104259665--104259712 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
104259655 GAGAGAATAG
104259665 AAAAT-AAAGAAAA
1 AAAATAAAAGAAAA
**
104259678 AAAAGGAAAGCTAAAA
1 AAAATAAAAG--AAAA
104259694 AAAATAAAAGAAAA
1 AAAATAAAAGAAAA
104259708 AAAAT
1 AAAAT
104259713 TAAATTGCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
16 12 0.41
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (14 bp):
AAAATAAAAGAAAA
Found at i:104259706 original size:20 final size:20
Alignment explanation
Indices: 104259669--104259706 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104259659 GAATAGAAAA
*
104259669 TAAAGAAAAAAAAGGAAAGC
1 TAAAGAAAAAAAAAGAAAGC
104259689 TAAA-AAAAATAAAAGAAA
1 TAAAGAAAAA-AAAAGAAA
104259707 AAAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.76, C:0.03, G:0.13, T:0.08
Consensus pattern (20 bp):
TAAAGAAAAAAAAAGAAAGC
Found at i:104261998 original size:3 final size:3
Alignment explanation
Indices: 104261990--104262023 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
104261980 CCCTTGTCCT
**
104261990 TCA TCA TCA TCA TTG TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
104262024 TTTGATCACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:104264639 original size:19 final size:17
Alignment explanation
Indices: 104264611--104264832 Score: 99
Period size: 17 Copynumber: 11.9 Consensus size: 17
104264601 CTAGAAGCAT
104264611 TATAAAAATTATTAAAAA
1 TATAAAAATTA-TAAAAA
*
104264629 TATAGAAAATTATAAAATT
1 TATA-AAAATTATAAAA-A
*
104264648 TATTGACAAAAATATATAAAA
1 TA-T-A-AAAATTATA-AAAA
* *
104264669 TATCAAAA-TAAAAATAA
1 TATAAAAATTATAAA-AA
*
104264686 TATTAAAATATTTTTTTAAAAAA
1 TA-TAAAA-A---TTAT-AAAAA
*
104264709 TTATATAAATTATAAAAA
1 -TATAAAAATTATAAAAA
*
104264727 TATATAAATTA-AAAAA
1 TATAAAAATTATAAAAA
104264743 CTATAAAAATTATAAAAA
1 -TATAAAAATTATAAAAA
* *
104264761 TATTTAAAA-TATAGATAAT
1 TA-TAAAAATTATA-A-AAA
* **
104264780 TATTAAAAATAATAATATT
1 TA-TAAAAATTATAA-AAA
*
104264799 TACAAAATATTATAAAAA
1 TATAAAA-ATTATAAAAA
*
104264817 CATAAAAATTATAAAA
1 TATAAAAATTATAAAA
104264833 CAAATTAAAA
Statistics
Matches: 160, Mismatches: 23, Indels: 43
0.71 0.10 0.19
Matches are distributed among these distances:
16 7 0.04
17 43 0.27
18 43 0.27
19 35 0.22
20 5 0.03
21 11 0.07
22 4 0.03
23 7 0.04
24 5 0.03
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (17 bp):
TATAAAAATTATAAAAA
Found at i:104264650 original size:9 final size:9
Alignment explanation
Indices: 104264609--104264832 Score: 97
Period size: 9 Copynumber: 24.0 Consensus size: 9
104264599 AACTAGAAGC
104264609 ATTATAAAA
1 ATTATAAAA
104264618 ATTATTAAAA
1 ATTA-TAAAA
104264628 A-TATAGAAA
1 ATTATA-AAA
104264637 ATTATAAAA
1 ATTATAAAA
*
104264646 TTTATTGACAAA
1 ATTA-T-A-AAA
*
104264658 AATATATAAA
1 ATTATA-AAA
*
104264668 A-TATCAAA
1 ATTATAAAA
104264676 A-TA-AAAA
1 ATTATAAAA
*
104264683 TAATATTAAAA
1 -ATTA-TAAAA
*
104264694 TATTTTTTTAAAAA
1 -A---TTATA-AAA
*
104264708 ATTATATAA
1 ATTATAAAA
104264717 ATTATAAAA
1 ATTATAAAA
*
104264726 A-TATATAA
1 ATTATAAAA
104264734 ATTA-AAAA
1 ATTATAAAA
*
104264742 ACTATAAAA
1 ATTATAAAA
104264751 ATTATAAAA
1 ATTATAAAA
*
104264760 A-TATTTAAA
1 ATTA-TAAAA
*
104264769 A-TATAGATA
1 ATTATA-AAA
104264778 ATTATTAAAA
1 ATTA-TAAAA
* *
104264788 ATAATAATA
1 ATTATAAAA
* *
104264797 TTTACAAAA
1 ATTATAAAA
104264806 TATTATAAAA
1 -ATTATAAAA
*
104264816 A-CATAAAA
1 ATTATAAAA
104264824 ATTATAAAA
1 ATTATAAAA
104264833 CAAATTAAAA
Statistics
Matches: 164, Mismatches: 29, Indels: 44
0.69 0.12 0.19
Matches are distributed among these distances:
7 3 0.02
8 32 0.20
9 73 0.45
10 34 0.21
11 10 0.06
12 5 0.03
13 3 0.02
14 4 0.02
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (9 bp):
ATTATAAAA
Found at i:104264662 original size:31 final size:28
Alignment explanation
Indices: 104264609--104264677 Score: 77
Period size: 31 Copynumber: 2.4 Consensus size: 28
104264599 AACTAGAAGC
*
104264609 ATTATAAAAATTATTAAAAATATAGAAA
1 ATTATAAAATTTATTAAAAATATAGAAA
*
104264637 ATTATAAAATTTATTGACAAAAATATATAAA
1 ATTATAAAATTTATT---AAAAATATAGAAA
104264668 A-TATCAAAAT
1 ATTAT-AAAAT
104264678 AAAAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 14 0.40
30 3 0.09
31 18 0.51
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
ATTATAAAATTTATTAAAAATATAGAAA
Found at i:104264753 original size:34 final size:34
Alignment explanation
Indices: 104264701--104264768 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
104264691 AAATATTTTT
* *
104264701 TTAAAAAATTATATAAATTATAAAAATATATAAA
1 TTAAAAAACTATAAAAATTATAAAAATATATAAA
*
104264735 TTAAAAAACTATAAAAATTATAAAAATATTTAAA
1 TTAAAAAACTATAAAAATTATAAAAATATATAAA
104264769 ATATAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (34 bp):
TTAAAAAACTATAAAAATTATAAAAATATATAAA
Found at i:104264841 original size:19 final size:18
Alignment explanation
Indices: 104264703--104264859 Score: 67
Period size: 19 Copynumber: 8.5 Consensus size: 18
104264693 ATATTTTTTT
104264703 AAAAAATTATATAAATTATA
1 AAAAAATTA-A-AAATTATA
* *
104264723 AAAATA-TATAAA-T-TA
1 AAAAAATTAAAAATTATA
*
104264738 AAAAACTATAAAAATTATA
1 AAAAAAT-TAAAAATTATA
* *
104264757 AAAATATTTAAAA-TATA
1 AAAAAATTAAAAATTATA
**
104264774 GATAATTATTAAAAA-TA-A
1 -A-AAAAATTAAAAATTATA
* * *
104264792 TAATATTTACAAAATATTATA
1 AAAAAATT--AAAA-ATTATA
*
104264813 AAAACA-TAAAAATTATA
1 AAAAAATTAAAAATTATA
104264830 AAACAAATTAAAAATATATGA
1 AAA-AAATTAAAAAT-TAT-A
104264851 AAAAAATTA
1 AAAAAATTA
104264860 CAGAAATCAT
Statistics
Matches: 104, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
15 6 0.06
16 6 0.06
17 21 0.20
18 18 0.17
19 29 0.28
20 17 0.16
21 7 0.07
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (18 bp):
AAAAAATTAAAAATTATA
Found at i:104264857 original size:20 final size:19
Alignment explanation
Indices: 104264736--104264859 Score: 71
Period size: 19 Copynumber: 6.6 Consensus size: 19
104264726 ATATATAAAT
*
104264736 TAAAAAACTATAAAAAT-TA
1 TAAAAAAAT-TAAAAATATA
* *
104264755 TAAAAATATTTAAAATATA
1 TAAAAAAATTAAAAATATA
* * **
104264774 GATAATTATTAAAAATA-A
1 TAAAAAAATTAAAAATATA
* *
104264792 T--AATATTTACAAAATATTA
1 TAAAAAAATTA-AAAATA-TA
*
104264811 TAAAAACA-TAAAAAT-TA
1 TAAAAAAATTAAAAATATA
104264828 TAAAACAAATTAAAAATATA
1 TAAAA-AAATTAAAAATATA
104264848 TGAAAAAAATTA
1 T-AAAAAAATTA
104264860 CAGAAATCAT
Statistics
Matches: 81, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
16 6 0.07
17 13 0.16
18 9 0.11
19 36 0.44
20 11 0.14
21 6 0.07
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAAAATTAAAAATATA
Found at i:104266008 original size:18 final size:18
Alignment explanation
Indices: 104265985--104266032 Score: 51
Period size: 23 Copynumber: 2.4 Consensus size: 18
104265975 ATAATGCAAT
104265985 TACAAATACAAGACATGG
1 TACAAATACAAGACATGG
104266003 TACAAATTGCATACAAGACATGG
1 TAC-AA----ATACAAGACATGG
104266026 TACAAAT
1 TACAAAT
104266033 TGCACATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
22 2 0.08
23 16 0.64
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (18 bp):
TACAAATACAAGACATGG
Found at i:104266016 original size:23 final size:23
Alignment explanation
Indices: 104265990--104266036 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
104265980 GCAATTACAA
104265990 ATACAAGACATGGTACAAATTGC
1 ATACAAGACATGGTACAAATTGC
104266013 ATACAAGACATGGTACAAATTGC
1 ATACAAGACATGGTACAAATTGC
104266036 A
1 A
104266037 CATACAAGTA
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:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (23 bp):
ATACAAGACATGGTACAAATTGC
Found at i:104272452 original size:19 final size:21
Alignment explanation
Indices: 104272428--104272466 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
104272418 AAAGAATCAC
104272428 TTAGGA-AATAGAAA-ATAAG
1 TTAGGAGAATAGAAATATAAG
*
104272447 TTAGGAGAATTGAAATATAA
1 TTAGGAGAATAGAAATATAA
104272467 CTCGTTCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.26
Consensus pattern (21 bp):
TTAGGAGAATAGAAATATAAG
Found at i:104277082 original size:18 final size:17
Alignment explanation
Indices: 104277042--104277083 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
104277032 GTTTAGAAAT
104277042 TATTTTTATCATATTAA
1 TATTTTTATCATATTAA
104277059 TAATTTTTAT-AGTAATTAA
1 T-ATTTTTATCA-T-ATTAA
104277078 TATTTT
1 TATTTT
104277084 AAAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 14 0.64
19 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTTTTATCATATTAA
Found at i:104278405 original size:16 final size:18
Alignment explanation
Indices: 104278370--104278408 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
104278360 ATCCTTATTT
104278370 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
104278388 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
104278404 AAATA
1 AAATA
104278409 CATATAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 10 0.48
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:104284817 original size:26 final size:26
Alignment explanation
Indices: 104284788--104284895 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
104284778 TGATACAAAT
104284788 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
104284814 TGATAACGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
104284840 TGATTATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104284866 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104284892 TGAT
1 TGAT
104284896 TGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104290048 original size:19 final size:18
Alignment explanation
Indices: 104290014--104290087 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 18
104290004 GTATGATTTT
*
104290014 ATGCACTTACGTGCCAGG
1 ATGCACTTATGTGCCAGG
104290032 ATGCACTTCATGTGCCAGG
1 ATGCACTT-ATGTGCCAGG
* *
104290051 ATGC-CCTATGTACGCCAGT
1 ATGCACTTATGT--GCCAGG
104290070 ATGCACTTTATGTGCCAG
1 ATGCAC-TTATGTGCCAG
104290088 TTTCCTTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.09
18 10 0.21
19 27 0.57
20 1 0.02
21 5 0.11
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (18 bp):
ATGCACTTATGTGCCAGG
Found at i:104290485 original size:6 final size:6
Alignment explanation
Indices: 104290474--104290503 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
104290464 CCACCAATCG
104290474 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
104290504 TTTAGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:104294141 original size:17 final size:17
Alignment explanation
Indices: 104294105--104294142 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
104294095 TGCCACCTAT
*
104294105 TTTATTTTATGTTTGAA
1 TTTATTTTATGTTAGAA
104294122 TTTATTTATATGTTAG-A
1 TTTATTT-TATGTTAGAA
104294139 TTTA
1 TTTA
104294143 AGTAGAGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (17 bp):
TTTATTTTATGTTAGAA
Found at i:104296235 original size:24 final size:24
Alignment explanation
Indices: 104296208--104296282 Score: 141
Period size: 24 Copynumber: 3.1 Consensus size: 24
104296198 AAGAGCCATA
104296208 ATCAGGAAGTTCACAAAGAACCTT
1 ATCAGGAAGTTCACAAAGAACCTT
104296232 ATCAGGAAGTTCACAAAGAACCTT
1 ATCAGGAAGTTCACAAAGAACCTT
*
104296256 ATCAGGAAGTTCACAAAGAACCAT
1 ATCAGGAAGTTCACAAAGAACCTT
104296280 ATC
1 ATC
104296283 GAGAATCTCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (24 bp):
ATCAGGAAGTTCACAAAGAACCTT
Found at i:104297367 original size:27 final size:26
Alignment explanation
Indices: 104297269--104297426 Score: 158
Period size: 27 Copynumber: 5.9 Consensus size: 26
104297259 GCGAGGCTGC
* * *
104297269 CAGATATTGTGACGGAGTCACCAGAT
1 CAGATATTGTGGCAGAGCCACCAGAT
* *
104297295 ACAGATATTGTGGCAGAGCCGCCAAAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
104297322 CAGAT-TATGTGGTAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
**
104297348 CAGATAATTGTGGCCTAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
*
104297375 CAGATATATGTGACAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
104297402 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
104297427 GATGCTTCCT
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.01
26 30 0.28
27 72 0.67
28 5 0.05
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:104297400 original size:54 final size:55
Alignment explanation
Indices: 104297269--104297429 Score: 206
Period size: 54 Copynumber: 3.0 Consensus size: 55
104297259 GCGAGGCTGC
* * * * *
104297269 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCGCCA-AAT
1 CAGATATATGTGACAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGAT
** *
104297322 CAGAT-TATGTGGTAGAGCCACCAGATCAGATAATTGTGGCCTAGCCACCAGGA-
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAT
104297375 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAT
1 CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAT
104297430 GCTTCCTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
52 6 0.07
53 40 0.43
54 46 0.50
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (55 bp):
CAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAT
Found at i:104299056 original size:26 final size:26
Alignment explanation
Indices: 104299025--104299132 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
104299015 TGAAATGCCC
*
104299025 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
104299051 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
104299077 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
104299103 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
104299129 ATCA
1 ATCA
104299133 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:104301377 original size:129 final size:127
Alignment explanation
Indices: 104301187--104301533 Score: 317
Period size: 129 Copynumber: 2.7 Consensus size: 127
104301177 TATGTGAAAA
* * * *** * * *
104301187 AAACGCCGCTAAAGAATATGACCTTTAGCGGCGCTTTGCCCATAAACCCCGCTAAAGAACATGAC
1 AAACACCGCTAAAGAACATGACCTTTAGCGGC-ATTTTTTCACAAACGCCACTAAAGAACATGAC
* * * *
104301252 CTTTAGTGGCACTTTT-TC-CATAATCGCCGCTATAGAACATGACCTTTAGTGGCGCTTTTATC-
65 CTTTAGTGGCGCTTTTATCACA-AA-CACCGCTAAAGAACATGACCTTTAGCGGCG-TTTTA-CA
104301314 AC
126 AC
** * * * * *
104301316 AAATTCTGCTAAAGAACATGACCTTTAGCGGTGC-TTTTTTTACAAATGCCACTATAGAACATGT
1 AAACACCGCTAAAGAACATGACCTTTAGC-G-GCATTTTTTCACAAACGCCACTAAAGAACATGA
** * * *
104301380 CCTTTAGCAGTGGTTTTATCACAAACACCGCTAAAGAACATGACTTTTAGCGGCGTTTTACAAAC
64 CCTTTAGTGGCGCTTTTATCACAAACACCGCTAAAGAACATGACCTTTAGCGGCGTTTTAC-AAC
* * *
104301445 AAACACCGCTATAGAGCATGACTTTTAGCGGCATTTTTTCACAAACGCCACTAAAGAACA-GTAC
1 AAACACCGCTAAAGAACATGACCTTTAGCGGCATTTTTTCACAAACGCCACTAAAGAACATG-AC
*
104301509 CTTTAGTGGCGCTTTTATTACAAAC
65 CTTTAGTGGCGCTTTTATCACAAAC
104301534 GCCATTAAAA
Statistics
Matches: 172, Mismatches: 38, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
127 4 0.02
128 51 0.30
129 108 0.63
130 5 0.03
131 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (127 bp):
AAACACCGCTAAAGAACATGACCTTTAGCGGCATTTTTTCACAAACGCCACTAAAGAACATGACC
TTTAGTGGCGCTTTTATCACAAACACCGCTAAAGAACATGACCTTTAGCGGCGTTTTACAAC
Found at i:104301537 original size:43 final size:43
Alignment explanation
Indices: 104301187--104301536 Score: 280
Period size: 43 Copynumber: 8.2 Consensus size: 43
104301177 TATGTGAAAA
* **** *
104301187 AAACGCCGCTAAAGAATATGACCTTTAGCGGCGCTTTGCCCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTAC
* * * *
104301230 AAACCCCGCTAAAGAACATGACCTTTAGTGGCAC-TTT-TTCC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTAC
* * *
104301271 ATAATCGCCGCTATAGAACATGACCTTTAGTGGCGCTTTTATCAC
1 A-AA-CGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTAC
** * * *
104301316 AAATTCTGCTAAAGAACATGACCTTTAGCGGTGCTTTTTTTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTAC
* * * * * * * *
104301359 AAATGCCACTATAGAACATGTCCTTTAGCAGTGGTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTAC
* * **
104301402 AAACACCGCTAAAGAACATGACTTTTAGCGGCG-TTTTACAAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TTAC
* * * * *
104301445 AAACACCGCTATAGAGCATGACTTTTAGCGGC-ATTTT-TTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATT-AC
* *
104301487 AAACGCCACTAAAGAACA-GTACCTTTAGTGGCGCTTTTATTAC
1 AAACGCCGCTAAAGAACATG-ACCTTTAGCGGCGCTTTTATTAC
104301530 AAACGCC
1 AAACGCC
104301537 ATTAAAAGTA
Statistics
Matches: 245, Mismatches: 52, Indels: 20
0.77 0.16 0.06
Matches are distributed among these distances:
41 2 0.01
42 35 0.14
43 198 0.81
44 7 0.03
45 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATTAC
Found at i:104301902 original size:21 final size:21
Alignment explanation
Indices: 104301877--104301926 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
104301867 TTCTGCTCTG
104301877 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
* *
104301898 CTCTGCTTCCTTTGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
*
104301919 CTCCGCTT
1 CTCTGCTT
104301927 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.00, C:0.44, G:0.18, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTGC
Found at i:104302388 original size:13 final size:14
Alignment explanation
Indices: 104302362--104302390 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
104302352 ACTAACGATG
104302362 AATTAAACCATTAT
1 AATTAAACCATTAT
104302376 AATTAAA-CATTAT
1 AATTAAACCATTAT
104302389 AA
1 AA
104302391 ATATTTAAAA
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:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:104318317 original size:9 final size:9
Alignment explanation
Indices: 104318301--104318368 Score: 75
Period size: 9 Copynumber: 7.3 Consensus size: 9
104318291 TATTTATGTA
104318301 TTATGTAAG
1 TTATGTAAG
*
104318310 TAATGTAAG
1 TTATGTAAG
104318319 TTATGTAAG
1 TTATGTAAG
104318328 TTATGTAAG
1 TTATGTAAG
*
104318337 TTATGATATG
1 TTATG-TAAG
*
104318347 ATATATTTAAG
1 -T-TATGTAAG
104318358 TTAT-TAAG
1 TTATGTAAG
104318366 TTA
1 TTA
104318369 AGATCCAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
8 7 0.14
9 33 0.65
10 4 0.08
11 4 0.08
12 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:104322615 original size:40 final size:40
Alignment explanation
Indices: 104322525--104322603 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
104322515 TAAGTTTTTT
* ** *
104322525 GCAGCGATTTTCAAAAAGCGCCGCTAATTCTTGATCTATA
1 GCAGCGTTTTTCAAAAAAAGCCGCTAATTCTTAATCTATA
*
104322565 GCAGCGTTTTTCAAAAAAAGCTGCTAATTCTTAATCTAT
1 GCAGCGTTTTTCAAAAAAAGCCGCTAATTCTTAATCTAT
104322604 TGCTACGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (40 bp):
GCAGCGTTTTTCAAAAAAAGCCGCTAATTCTTAATCTATA
Found at i:104322978 original size:22 final size:20
Alignment explanation
Indices: 104322934--104322979 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
104322924 TTTTAAAAAA
* *
104322934 TAAAACCAAACCTTAAACTC
1 TAAAACCAAACCCTAAACCC
104322954 TAAAACCATAATCCCTAAACCC
1 TAAAACCA-AA-CCCTAAACCC
104322976 TAAA
1 TAAA
104322980 CCCTAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 2 0.09
22 12 0.55
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAACCAAACCCTAAACCC
Found at i:104323282 original size:21 final size:21
Alignment explanation
Indices: 104323257--104323311 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
104323247 TCATATACCC
104323257 TAAACTTTAAACCCAAAATAA
1 TAAACTTTAAACCCAAAATAA
**
104323278 TAAACTCCAAACCCAAAATAA
1 TAAACTTTAAACCCAAAATAA
* *
104323299 CAAACCTTAAACC
1 TAAACTTTAAACC
104323312 ATAAACTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAACTTTAAACCCAAAATAA
Found at i:104323289 original size:28 final size:28
Alignment explanation
Indices: 104323221--104323289 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
104323211 TGCTACGCAT
* *
104323221 TAAATCCCAAACTCTAAAGCCTAAAATCA
1 TAAA-CCCAAACTCTAAAGCCCAAAATAA
* *
104323250 TATACCCTAAACTTTAAA-CCCAAAATAA
1 TAAACCC-AAACTCTAAAGCCCAAAATAA
104323278 TAAACTCCAAAC
1 TAAAC-CCAAAC
104323290 CCAAAATAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.22
Consensus pattern (28 bp):
TAAACCCAAACTCTAAAGCCCAAAATAA
Found at i:104323317 original size:28 final size:28
Alignment explanation
Indices: 104323286--104323344 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
104323276 AATAAACTCC
*
104323286 AAACCCAAAATAAC-AAACCTTAAACCAT
1 AAACCCAAAAT-ACTAAACATTAAACCAT
** *
104323314 AAACTTAAAATACTAAACATTAAACCCT
1 AAACCCAAAATACTAAACATTAAACCAT
104323342 AAA
1 AAA
104323345 TTGTAAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.19
Consensus pattern (28 bp):
AAACCCAAAATACTAAACATTAAACCAT
Found at i:104323954 original size:41 final size:41
Alignment explanation
Indices: 104323916--104324028 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 41
104323906 AAATAAAAGT
104323916 GCCACTATTGACCAACTTTTTGCGGCGTTTGGGCTAAAAAC
1 GCCACTATTGACCAACTTTTTGCGGCGTTTGGGCTAAAAAC
* ** * *
104323957 ACCA-TAATTG-CTTAGTTTTTAGCGGCGTTTGGTCTAAAAAC
1 GCCACT-ATTGACCAACTTTTT-GCGGCGTTTGGGCTAAAAAC
104323998 GCCACTATT-ACTCAACTTTTTGCGGCGTTTG
1 GCCACTATTGAC-CAACTTTTTGCGGCGTTTG
104324029 CTAAATTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
40 8 0.14
41 43 0.74
42 7 0.12
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (41 bp):
GCCACTATTGACCAACTTTTTGCGGCGTTTGGGCTAAAAAC
Found at i:104323995 original size:82 final size:82
Alignment explanation
Indices: 104323829--104324028 Score: 224
Period size: 82 Copynumber: 2.5 Consensus size: 82
104323819 TTTTGGATAA
* ** * * *
104323829 AAAAATGCCACTATAGTTCAACCTTTTGCTGCGTTT-GGATAAAAACGCCACAATTGCTCAGCTT
1 AAAAATGCCACTATTGACCAACTTTTTGCGGCGTTTGGGATAAAAACACCACAATTGCTCAGCTT
104323893 TTAGCAGCATTTGAAAT
66 TTAGCAGCATTTGAAAT
* * * * *
104323910 AAAAGTGCCACTATTGACCAACTTTTTGCGGCGTTTGGGCTAAAAACACCATAATTGCTTAGTTT
1 AAAAATGCCACTATTGACCAACTTTTTGCGGCGTTTGGGATAAAAACACCACAATTGCTCAGCTT
* * ***
104323975 TTAGCGGCGTTTGGTCT
66 TTAGCAGCATTTGAAAT
*
104323992 AAAAACGCCACTATT-ACTCAACTTTTTGCGGCGTTTG
1 AAAAATGCCACTATTGAC-CAACTTTTTGCGGCGTTTG
104324029 CTAAATTATA
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 32 0.32
82 67 0.68
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (82 bp):
AAAAATGCCACTATTGACCAACTTTTTGCGGCGTTTGGGATAAAAACACCACAATTGCTCAGCTT
TTAGCAGCATTTGAAAT
Found at i:104326759 original size:89 final size:91
Alignment explanation
Indices: 104326602--104326778 Score: 209
Period size: 90 Copynumber: 2.0 Consensus size: 91
104326592 AAACCTATGT
* * *
104326602 ACCATAATAAAGCACATATTAATAGTTTAAGTACTATATATGATACTTTTAAAGTACAAATACCA
1 ACCATAATAAAACACATATTAACAGTTTAAGTACTATATATGATACTTTTAAAATACAAATACCA
* *
104326667 CATT-GATATTTATGAACGTACATTA
66 CATTGGACATTTATGAAAGTACATTA
* * * * *
104326692 ACCATAATAAAACATATATTGACAG-TTCAGTACTATAT-TGAATA-TTTTCAAAATGCAAATTC
1 ACCATAATAAAACACATATTAACAGTTTAAGTACTATATATG-ATACTTTT-AAAATACAAATAC
*
104326754 TACATTGGACATTTATGAAAGTACA
64 CACATTGGACATTTATGAAAGTACA
104326779 AAAACCAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
88 6 0.08
89 30 0.41
90 37 0.51
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.34
Consensus pattern (91 bp):
ACCATAATAAAACACATATTAACAGTTTAAGTACTATATATGATACTTTTAAAATACAAATACCA
CATTGGACATTTATGAAAGTACATTA
Found at i:104330066 original size:15 final size:15
Alignment explanation
Indices: 104330046--104330078 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
104330036 AAAATTTTCA
104330046 AAAAATAT-AAGGACT
1 AAAAATATCAA-GACT
104330061 AAAAATATCAAGACT
1 AAAAATATCAAGACT
104330076 AAA
1 AAA
104330079 TCTGTAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAATATCAAGACT
Found at i:104331660 original size:52 final size:52
Alignment explanation
Indices: 104331582--104331687 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
104331572 AATTAAGTTG
104331582 ACAAATTATTAGGTTTTGGCATCGAAAGGTGGCTAATTAGATATGAATTCAT
1 ACAAATTATTAGGTTTTGGCATCGAAAGGTGGCTAATTAGATATGAATTCAT
104331634 ACAAATTATTAGGTTTTGGCATCGAAAGGTGGCTAATTAGATATGAATTCAT
1 ACAAATTATTAGGTTTTGGCATCGAAAGGTGGCTAATTAGATATGAATTCAT
104331686 AC
1 AC
104331688 TTAAAAGAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (52 bp):
ACAAATTATTAGGTTTTGGCATCGAAAGGTGGCTAATTAGATATGAATTCAT
Found at i:104332111 original size:18 final size:18
Alignment explanation
Indices: 104332088--104332122 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
104332078 AAAAAAATCT
* *
104332088 AGTTATTTGAGTTAATTG
1 AGTTATTCGAGTCAATTG
104332106 AGTTATTCGAGTCAATT
1 AGTTATTCGAGTCAATT
104332123 CGAATTTTTT
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:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (18 bp):
AGTTATTCGAGTCAATTG
Found at i:104332443 original size:19 final size:20
Alignment explanation
Indices: 104332413--104332453 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
104332403 CAAAAACTCT
*
104332413 CAAAACTTTTTATTTTCTCC
1 CAAAACTTTTTACTTTCTCC
104332433 CAAAA-TTTTTACTTTCTCC
1 CAAAACTTTTTACTTTCTCC
104332452 CA
1 CA
104332454 CTTTCCCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (20 bp):
CAAAACTTTTTACTTTCTCC
Found at i:104333547 original size:43 final size:41
Alignment explanation
Indices: 104333474--104333559 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 41
104333464 ATACATATCT
* * ** *
104333474 TTTATTTTATATATTAAAGACATCATTTTTTTTATTTCATAAA
1 TTTACTTTATATACTAAAGACAT-AAATTTTTAATTT-ATAAA
*
104333517 TTTACTTTATATACTAAAGAGATAAATTTTTAATTTATAAA
1 TTTACTTTATATACTAAAGACATAAATTTTTAATTTATAAA
104333558 TT
1 TT
104333560 AATTTTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 7 0.19
42 10 0.27
43 20 0.54
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.52
Consensus pattern (41 bp):
TTTACTTTATATACTAAAGACATAAATTTTTAATTTATAAA
Found at i:104333843 original size:36 final size:37
Alignment explanation
Indices: 104333803--104333873 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
104333793 AAAGAGAATG
* *
104333803 ATTTTTTAAAACTTTT-TAGGTTTATTTTCTTTTCAT
1 ATTTTTGAAAACTTTTATAGGTTTATTTTATTTTCAT
* *
104333839 ATTTTTGAAAACTTTTATATGTTTTTTTTATTTTC
1 ATTTTTGAAAACTTTTATAGGTTTATTTTATTTTC
104333874 TTAGATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 15 0.50
37 15 0.50
ACGTcount: A:0.23, C:0.07, G:0.06, T:0.65
Consensus pattern (37 bp):
ATTTTTGAAAACTTTTATAGGTTTATTTTATTTTCAT
Found at i:104334356 original size:21 final size:20
Alignment explanation
Indices: 104334332--104334380 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
104334322 AAATTATTAT
104334332 TATAATTTAAAAAATTTAAGA
1 TATAATTTAAAAAATTT-AGA
* * * *
104334353 TATAATATATAAACTTTATA
1 TATAATTTAAAAAATTTAGA
104334373 TATAATTT
1 TATAATTT
104334381 TTTAAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATAATTTAAAAAATTTAGA
Found at i:104334494 original size:42 final size:44
Alignment explanation
Indices: 104334440--104334535 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
104334430 TTAATAAATT
*
104334440 ATAAAACTTACTTAATATTTCTAAAAA-A-ATGTAAAATGTGAAA
1 ATAAAA-TTACTTAATATTTCTAAAAATATATGTAAAATCTGAAA
*
104334483 ATAAAATTACTTAATATTTCTAAAAATATGTGTAAAATCTGAAA
1 ATAAAATTACTTAATATTTCTAAAAATATATGTAAAATCTGAAA
104334527 ATAAAATTA
1 ATAAAATTA
104334536 TAAAATTTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
42 20 0.41
43 7 0.14
44 22 0.45
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (44 bp):
ATAAAATTACTTAATATTTCTAAAAATATATGTAAAATCTGAAA
Found at i:104337776 original size:19 final size:19
Alignment explanation
Indices: 104337754--104337796 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
104337744 TATTATTGGA
104337754 TTTTTATTTTGTTATTTTG
1 TTTTTATTTTGTTATTTTG
* * *
104337773 TTTTTCTTTTTTTCTTTTG
1 TTTTTATTTTGTTATTTTG
*
104337792 GTTTT
1 TTTTT
104337797 GGTATGGGCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.05, C:0.05, G:0.09, T:0.81
Consensus pattern (19 bp):
TTTTTATTTTGTTATTTTG
Found at i:104340539 original size:54 final size:55
Alignment explanation
Indices: 104340480--104340591 Score: 190
Period size: 54 Copynumber: 2.1 Consensus size: 55
104340470 TAAATTTCTT
* *
104340480 CTATTTTATCGTGATAATTACAAAACAAAGCTAATGAA-ATATACACACAACTAA
1 CTATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTAA
*
104340534 CTATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTGA
1 CTATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTAA
104340589 CTA
1 CTA
104340592 CCTAATTGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (55 bp):
CTATTTTATCGTGATAATTACAAAACAAAACCAATGAATATATACACACAACTAA
Found at i:104343712 original size:53 final size:53
Alignment explanation
Indices: 104343650--104343755 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
104343640 TTAAGATAGC
*
104343650 CCTATAATTGTTGATTTATGGATATGATGTATAAATGTATGTAAACACCGTTG
1 CCTATAATTGTTGATTTATGGACATGATGTATAAATGTATGTAAACACCGTTG
*
104343703 CCTATAATTGTTGATTTATGGACATGATGTATAAATGTATGTAAACACTGTTG
1 CCTATAATTGTTGATTTATGGACATGATGTATAAATGTATGTAAACACCGTTG
104343756 ATGACTATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (53 bp):
CCTATAATTGTTGATTTATGGACATGATGTATAAATGTATGTAAACACCGTTG
Found at i:104345521 original size:41 final size:39
Alignment explanation
Indices: 104345409--104345521 Score: 113
Period size: 37 Copynumber: 2.9 Consensus size: 39
104345399 ATCAGATAAT
* ** *
104345409 TCGAAGTAATAAGTTGACACCCAGTGTCTTATCGGCTAAA
1 TCGAAGTAATAA-TTGACACCCAGTGTCTCATCGAATTAA
* * *
104345449 TCGAAGT-A-AATTGGCACCCAATGCCTCATCGAATTAA
1 TCGAAGTAATAATTGACACCCAGTGTCTCATCGAATTAA
*
104345486 TCCGAAGTAATAGATTGACACCTAGTGTCTCATCGA
1 T-CGAAGTAATA-ATTGACACCCAGTGTCTCATCGA
104345522 CTCGAAGTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
37 21 0.36
38 8 0.14
39 2 0.03
40 8 0.14
41 19 0.33
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (39 bp):
TCGAAGTAATAATTGACACCCAGTGTCTCATCGAATTAA
Found at i:104345653 original size:15 final size:15
Alignment explanation
Indices: 104345633--104345665 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
104345623 TGCCACAATC
104345633 ATCCAATATTCAAAT
1 ATCCAATATTCAAAT
104345648 ATCCAATATTCAAAT
1 ATCCAATATTCAAAT
104345663 ATC
1 ATC
104345666 ACATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (15 bp):
ATCCAATATTCAAAT
Found at i:104345988 original size:19 final size:19
Alignment explanation
Indices: 104345925--104345988 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
104345915 CCCTTATTCT
*
104345925 TTTTCTTTTCTGTTTCGTTTG
1 TTTTCTTTTCT-TTT-ATTTG
*
104345946 TTCTT-GTTTCTTTCTATTCT-
1 TT-TTCTTTTCTTT-TATT-TG
104345966 TTTTCTTTTCTTTTATTTG
1 TTTTCTTTTCTTTTATTTG
104345985 TTTT
1 TTTT
104345989 ATGTTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
18 1 0.03
19 10 0.29
20 13 0.37
21 9 0.26
22 2 0.06
ACGTcount: A:0.03, C:0.14, G:0.08, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTCTTTTATTTG
Found at i:104358860 original size:19 final size:19
Alignment explanation
Indices: 104358836--104358873 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
104358826 CTCTGATAAT
* *
104358836 CTCAAAATGTTGAAACTGA
1 CTCAAAACGATGAAACTGA
104358855 CTCAAAACGATGAAACTGA
1 CTCAAAACGATGAAACTGA
104358874 GTCTAGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (19 bp):
CTCAAAACGATGAAACTGA
Found at i:104363164 original size:53 final size:53
Alignment explanation
Indices: 104363023--104363173 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
104363013 ATAAGTGCGC
* **
104363023 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
104363076 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* * *
104363129 CCGTATAAGGCCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
104363174 ACAATGTAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:104365413 original size:14 final size:14
Alignment explanation
Indices: 104365394--104365432 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
104365384 ATATTTAACT
104365394 TGTTCTTAATTATG
1 TGTTCTTAATTATG
104365408 TGTTCTTAATTATG
1 TGTTCTTAATTATG
104365422 TGTTCTTAATT
1 TGTTCTTAATT
104365433 CTTGTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:104375959 original size:50 final size:49
Alignment explanation
Indices: 104375842--104376161 Score: 237
Period size: 46 Copynumber: 6.8 Consensus size: 49
104375832 TGGGGTAAGT
* *
104375842 TGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGA
* * * *
104375891 GGCCGATGCTATGTCCCAGACATGATCTTACACTAGCTCTCGCAT-ATCCG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT--CATCAT-CGA
* *
104375941 TGCCGATGCCATATCCCAGACATGGTCTTACACTAAC-A-CATC-TCG-
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGA
* * * *
104375986 TAGTCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACGTC-TCGA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCATCGA
* * ** **
104376033 AGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTTGTC-TTAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATCGA
* * *
104376079 TGCCGATGCCATGTCCC-GAACATGGTCTTACACTGGCTCTCATAAT-G-
1 TGCCGATGCCATGTCCCAG-ACATGGTCTTACACTAGCTATCATCATCGA
*
104376126 TGGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
104376162 CCACAATAAC
Statistics
Matches: 217, Mismatches: 36, Indels: 39
0.74 0.12 0.13
Matches are distributed among these distances:
44 11 0.05
45 15 0.07
46 70 0.32
47 26 0.12
48 21 0.10
49 35 0.16
50 34 0.16
51 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGA
Found at i:104376031 original size:99 final size:99
Alignment explanation
Indices: 104375842--104376018 Score: 249
Period size: 99 Copynumber: 1.8 Consensus size: 99
104375832 TGGGGTAAGT
* * **
104375842 TGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCTATGTCC
1 TGCCGATGCCATATCCCAGACATGGTCTTACACTAACTATCATCATCGAGGCCGATGCTATGTCC
*
104375907 CAGACATGATCTTACACTAGCTCTCGCATATCCG
66 CAAACATGATCTTACACTAGCTCTCGCATATCCG
*
104375941 TGCCGATGCCATATCCCAGACATGGTCTTACACTAAC-A-CATC-TCGTA-GTCGATGC-ATGTC
1 TGCCGATGCCATATCCCAGACATGGTCTTACACTAACTATCATCATCG-AGGCCGATGCTATGTC
104376001 CCAAACATG-TCTTACACT
65 CCAAACATGATCTTACACT
104376019 GGCTTACGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
94 9 0.13
95 13 0.18
96 10 0.14
97 5 0.07
98 1 0.01
99 33 0.46
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (99 bp):
TGCCGATGCCATATCCCAGACATGGTCTTACACTAACTATCATCATCGAGGCCGATGCTATGTCC
CAAACATGATCTTACACTAGCTCTCGCATATCCG
Found at i:104376107 original size:94 final size:90
Alignment explanation
Indices: 104375846--104376161 Score: 264
Period size: 94 Copynumber: 3.3 Consensus size: 90
104375836 GTAAGTTGCC
* * *
104375846 GATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCG-AGGCCGATGCTATGTCCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-A-CATC-TCGTA-GCCGATGC-ATGTCCCAA
* * *
104375910 ACATGATCTTACACTAGCTCTCGCAT-ATCCG-TGCC
59 ACATG-TCTTACACTGGCTCT--CATAAT--GAAGCT
* * *
104375945 GATGCCATATCCCAGACATGGTCTTACACTAACACATCTCGTAGTCGATGCATGTCCCAAACATG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATCTCGTAGCCGATGCATGTCCCAAACATG
* *
104376010 TCTTACACTGGCT-TACGT-CTCGAAGCT
64 TCTTACACTGGCTCT-CATAAT-GAAGCT
* * * *
104376037 GATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTTAATGCCGATGCCATGTCCCGAACAT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGT-A-GCCGATG-CATGTCCCAAACAT
**
104376102 GGTCTTACACTGGCTCTCATAATGTGGCT
63 -GTCTTACACTGGCTCTCATAATGAAGCT
104376131 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
104376162 CCACAATAAC
Statistics
Matches: 186, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
90 18 0.10
91 16 0.09
92 15 0.08
93 14 0.08
94 63 0.34
95 15 0.08
96 10 0.05
97 5 0.03
98 1 0.01
99 29 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (90 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGTAGCCGATGCATGTCCCAAACATGTC
TTACACTGGCTCTCATAATGAAGCT
Found at i:104376149 original size:140 final size:142
Alignment explanation
Indices: 104375845--104376158 Score: 342
Period size: 140 Copynumber: 2.2 Consensus size: 142
104375835 GGTAAGTTGC
* *
104375845 CGATGCCATGTCCCAGATATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCTATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAAGCCGATGCTATGTCCCAG
* **
104375910 ACATGATCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATATCCCAGACATGGTCTTACACT
64 ACATGATCTTACACTAGCACTCGCATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACT
*
104375975 AACACATCTCGTAGT
129 -ACACATCTCATAGT
* * *
104375990 CGATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTC-TCGAAGCTGATGC-ATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCATCGAAGCCGATGCTATGTCCCAGA
* *
104376052 CATG-TCTTACACTAGCACTTGTC-T-T-AATGCCGATGCCATGTCCC-GAACATGGTCTTACAC
65 CATGATCTTACACTAGCACTCG-CATATCAATGCCGATGCCATATCCCAG-ACATGGTCTTACAC
**
104376112 T-GGC-TCTCATAATGT
128 TACACATCTCAT-A-GT
104376127 GGCTGATGCATGTCCCAGACATGTCTTACACT
1 --C-GATGCATGTCCCAGACATGTCTTACACT
104376159 AGCCCACAAT
Statistics
Matches: 147, Mismatches: 14, Indels: 21
0.81 0.08 0.12
Matches are distributed among these distances:
135 5 0.03
136 2 0.01
137 3 0.02
138 31 0.21
139 2 0.01
140 43 0.29
141 15 0.10
142 12 0.08
143 17 0.12
144 12 0.08
145 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (142 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAAGCCGATGCTATGTCCCAGAC
ATGATCTTACACTAGCACTCGCATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTAC
ACATCTCATAGT
Found at i:104378031 original size:33 final size:33
Alignment explanation
Indices: 104377994--104378091 Score: 88
Period size: 42 Copynumber: 2.7 Consensus size: 33
104377984 CTTCCCCTTA
104377994 ATAAAAGTTATTTTCAATCTAAGTTCCCCCTGT
1 ATAAAAGTTATTTTCAATCTAAGTTCCCCCTGT
104378027 ATAAAAATCATTTTCGTTATTTTCAATCTAAGTTCCCCCTGT
1 AT--AAA--A-----GTTATTTTCAATCTAAGTTCCCCCTGT
* * *
104378069 ATAAAAATCATTTTCAATTTAAG
1 ATAAAAGTTATTTTCAATCTAAG
104378092 GCATAAAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
33 16 0.30
35 3 0.06
37 1 0.02
38 1 0.02
40 3 0.06
42 29 0.55
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (33 bp):
ATAAAAGTTATTTTCAATCTAAGTTCCCCCTGT
Found at i:104378059 original size:42 final size:42
Alignment explanation
Indices: 104378000--104378083 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
104377990 CTTAATAAAA
104378000 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
1 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
104378042 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
1 GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
104378084 AATTTAAGGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (42 bp):
GTTATTTTCAATCTAAGTTCCCCCTGTATAAAAATCATTTTC
Found at i:104384458 original size:23 final size:23
Alignment explanation
Indices: 104384428--104384475 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
104384418 GTTTTTATAC
*
104384428 TTTTATATTTAAGAATTTAATAT
1 TTTTATATTTAAGAATTTAAAAT
* *
104384451 TTTTATATTTTAGATTTTAAAAT
1 TTTTATATTTAAGAATTTAAAAT
104384474 TT
1 TT
104384476 AAGTGGAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTATATTTAAGAATTTAAAAT
Found at i:104386708 original size:13 final size:12
Alignment explanation
Indices: 104386686--104386716 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
104386676 ACCTATATAA
104386686 TTTTTTTTTTAT
1 TTTTTTTTTTAT
104386698 TTTTTTGTTTTAT
1 TTTTTT-TTTTAT
104386711 TTTTTT
1 TTTTTT
104386717 CAAACGTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTAT
Found at i:104391467 original size:20 final size:21
Alignment explanation
Indices: 104391426--104391467 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
104391416 GCTAGATTTT
104391426 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTAT--CTAAATAA
104391449 TTCTAAATATTAT-TAAATA
1 TTCTAAATATTATCTAAATA
104391468 TTATCACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
23 13 0.68
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (21 bp):
TTCTAAATATTATCTAAATAA
Found at i:104391516 original size:12 final size:12
Alignment explanation
Indices: 104391499--104391523 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104391489 TTTAAAAATC
104391499 GAATTTAAATTA
1 GAATTTAAATTA
104391511 GAATTTAAATTA
1 GAATTTAAATTA
104391523 G
1 G
104391524 TTACAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (12 bp):
GAATTTAAATTA
Found at i:104396250 original size:17 final size:17
Alignment explanation
Indices: 104396219--104396275 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
104396209 TAACAGATTT
*
104396219 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
104396237 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
104396254 ATAATA-A-TTAT-ATA
1 AAAATATATTTATAATA
104396268 AAAATATA
1 AAAATATA
104396276 AAATATATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:104396605 original size:47 final size:45
Alignment explanation
Indices: 104396553--104396665 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 45
104396543 ATAAAGGTAT
* *
104396553 AAAATATAAAATAATTATAATTTATAATATGAAAGT-GTATATATGTA
1 AAAATATAAAATAA-TATAATTAATAATATGAAA-TAATATAT-TGTA
*
104396600 AAAATAATATATAATAA-ATAA-TAATAATATGAAATAATATATTGTT
1 AAAAT-ATA-A-AATAATATAATTAATAATATGAAATAATATATTGTA
*
104396646 AAAATGTAAAATAATATAAT
1 AAAATATAAAATAATATAAT
104396666 AGTATAAAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
43 5 0.09
44 5 0.09
45 2 0.04
46 9 0.16
47 22 0.39
48 7 0.12
49 1 0.02
50 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (45 bp):
AAAATATAAAATAATATAATTAATAATATGAAATAATATATTGTA
Found at i:104403586 original size:28 final size:27
Alignment explanation
Indices: 104403546--104403646 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
104403536 AGCACGTCAA
*
104403546 AAAAAGAATGCCTTTGTGGCAAAATTAT
1 AAAAGGAATGCCTTTGTGGCAAAA-TAT
* * *
104403574 AAAAGGAACGCCTTTGTGGCGAAGTAT
1 AAAAGGAATGCCTTTGTGGCAAAATAT
* * * * *
104403601 GAAAGAAATGCCTCTGTGGTACAATAT
1 AAAAGGAATGCCTTTGTGGCAAAATAT
* *
104403628 AAAATGAAAGCCTTTGTGG
1 AAAAGGAATGCCTTTGTGG
104403647 TGTAATATGT
Statistics
Matches: 56, Mismatches: 17, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
27 36 0.64
28 20 0.36
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (27 bp):
AAAAGGAATGCCTTTGTGGCAAAATAT
Found at i:104403613 original size:27 final size:25
Alignment explanation
Indices: 104403547--104403668 Score: 84
Period size: 27 Copynumber: 4.6 Consensus size: 25
104403537 GCACGTCAAA
*
104403547 AAAAGAATGCCTTTGTGGCAAAATTAT
1 AAAAGAATGCCTTTGTGGC-GAA-TAT
*
104403574 AAAAGGAACGCCTTTGTGGCGAAGTAT
1 AAAA-GAATGCCTTTGTGGCGAA-TAT
* *
104403601 GAAAGAAATGCCTCTGTGGTAC-AATAT
1 AAAAG-AATGCCTTTGTGG--CGAATAT
* *
104403628 AAAATGAAAGCCTTTGTGGTGTAATAT
1 AAAA-GAATGCCTTTGTGGCG-AATAT
**
104403655 GTAAGAATGCCTTT
1 AAAAGAATGCCTTT
104403669 TTGGAAAACT
Statistics
Matches: 75, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
26 10 0.13
27 47 0.63
28 17 0.23
29 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGAATGCCTTTGTGGCGAATAT
Found at i:104403661 original size:54 final size:54
Alignment explanation
Indices: 104403548--104403666 Score: 143
Period size: 54 Copynumber: 2.2 Consensus size: 54
104403538 CACGTCAAAA
* *
104403548 AAAGAATGCCTTTGTGGCAAAATTATAAAAGGAACGCCTTTGTGGCGAAGTATG
1 AAAGAATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCGAAGTATG
* * * *
104403602 AAAGAAATGCCTCTGTGGTACAA-TATAAAATGAAAGCCTTTGTGGTGTAA-TATG
1 AAAG-AATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCG-AAGTATG
*
104403656 TAAGAATGCCT
1 AAAGAATGCCT
104403667 TTTTGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
53 7 0.12
54 32 0.57
55 17 0.30
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (54 bp):
AAAGAATGCCTCTGTGGCAAAATTATAAAAGGAAAGCCTTTGTGGCGAAGTATG
Found at i:104416849 original size:14 final size:13
Alignment explanation
Indices: 104416831--104416869 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
104416821 CAAAAGTAAA
104416831 AAATAAAAAAATT
1 AAATAAAAAAATT
*
104416844 AGAATATAAAAATT
1 A-AATAAAAAAATT
104416858 AAATTAAAAAAA
1 AAA-TAAAAAAA
104416870 ATATTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATAAAAAAATT
Found at i:104416867 original size:12 final size:13
Alignment explanation
Indices: 104416831--104416890 Score: 65
Period size: 12 Copynumber: 4.8 Consensus size: 13
104416821 CAAAAGTAAA
*
104416831 AAATAAAAAAATT
1 AAATATAAAAATT
104416844 AGAATATAAAAATT
1 A-AATATAAAAATT
104416858 AAAT-TAAAAA--
1 AAATATAAAAATT
*
104416868 AAATATTAAAATT
1 AAATATAAAAATT
104416881 AAA-ATAAAAA
1 AAATATAAAAA
104416891 CGACTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 4 0.10
11 5 0.12
12 12 0.30
13 7 0.17
14 12 0.30
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (13 bp):
AAATATAAAAATT
Found at i:104416872 original size:23 final size:23
Alignment explanation
Indices: 104416846--104416890 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
104416836 AAAAAATTAG
*
104416846 AATATAAAAATTAAATTAAAAAA
1 AATATAAAAATTAAAATAAAAAA
*
104416869 AATATTAAAATTAAAATAAAAA
1 AATATAAAAATTAAAATAAAAA
104416891 CGACTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AATATAAAAATTAAAATAAAAAA
Found at i:104421755 original size:43 final size:42
Alignment explanation
Indices: 104421675--104421916 Score: 123
Period size: 43 Copynumber: 5.7 Consensus size: 42
104421665 ATTTATGTGA
* * ** *
104421675 AAAAAGCCGCTATAGAACATGACCTTTAGCGGCGCTTCTCTTG
1 AAAACGCCGCTA-AAAACATGACCTTTAGCAACGCTTCTCCTG
* * *
104421718 CAAACGCCGTTAAAATACATGACCTTTAGCAATGCTTCTCCTG
1 AAAACGCCGCTAAAA-ACATGACCTTTAGCAACGCTTCTCCTG
* ** * *
104421761 AAAATGCCGCTAAAAAGCATGACCTTTAGTGACACTTCTAC--
1 AAAACGCCGCTAAAAA-CATGACCTTTAGCAACGCTTCTCCTG
* * * * * *
104421802 -AAATGCCACTAAAAATCATAACATTTAGCGACGCTTCTCC-C
1 AAAACGCCGCTAAAAA-CATGACCTTTAGCAACGCTTCTCCTG
* * * *** **
104421843 ACAATCGCCGTTAAATAGCATGACCTTTAGCAATTTTTCTCCCC
1 A-AAACGCCGCTAAA-AACATGACCTTTAGCAACGCTTCTCCTG
* * *
104421887 AAAATGCCACTAAAGAACATAACCTTTAGC
1 AAAACGCCGCTAAA-AACATGACCTTTAGC
104421917 GGCACTTCTT
Statistics
Matches: 151, Mismatches: 41, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
40 33 0.22
42 3 0.02
43 112 0.74
44 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (42 bp):
AAAACGCCGCTAAAAACATGACCTTTAGCAACGCTTCTCCTG
Found at i:104421829 original size:40 final size:40
Alignment explanation
Indices: 104421762--104421839 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
104421752 CTTCTCCTGA
* * * *
104421762 AAATGCCGCTAAAAAGCATGACCTTTAGTGACACTTCTAC
1 AAATGCCACTAAAAAGCATAACATTTAGCGACACTTCTAC
* *
104421802 AAATGCCACTAAAAATCATAACATTTAGCGACGCTTCT
1 AAATGCCACTAAAAAGCATAACATTTAGCGACACTTCT
104421840 CCCACAATCG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (40 bp):
AAATGCCACTAAAAAGCATAACATTTAGCGACACTTCTAC
Found at i:104421924 original size:126 final size:126
Alignment explanation
Indices: 104421699--104421925 Score: 305
Period size: 126 Copynumber: 1.8 Consensus size: 126
104421689 GAACATGACC
* *** **
104421699 TTTAGCGGCGCTTCTCTTGCAAACGCCGTTAAAATACATGACCTTTAGCAATGCTTCTCCTGAAA
1 TTTAGCGACGCTTCTCCCACAAACGCCGTTAAAATACATGACCTTTAGCAATGCTTCTCCCCAAA
* * *
104421764 ATGCCGCTAAAAAGCATGACCTTTAGTGACACTTCTACAAATGCCACTAAAAATCATAACA
66 ATGCCACTAAAAAGCATAACCTTTAGCGACACTTCTACAAATGCCACTAAAAATCATAACA
* **
104421825 TTTAGCGACGCTTCTCCCACAATCGCCGTT-AAATAGCATGACCTTTAGCAATTTTTCTCCCCAA
1 TTTAGCGACGCTTCTCCCACAAACGCCGTTAAAATA-CATGACCTTTAGCAATGCTTCTCCCCAA
*
104421889 AATGCCACTAAAGAA-CATAACCTTTAGCGGCACTTCT
65 AATGCCACTAAA-AAGCATAACCTTTAGCGACACTTCT
104421926 TATACAAACG
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
125 5 0.06
126 79 0.92
127 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (126 bp):
TTTAGCGACGCTTCTCCCACAAACGCCGTTAAAATACATGACCTTTAGCAATGCTTCTCCCCAAA
ATGCCACTAAAAAGCATAACCTTTAGCGACACTTCTACAAATGCCACTAAAAATCATAACA
Found at i:104424766 original size:16 final size:16
Alignment explanation
Indices: 104424745--104424775 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104424735 TGAGATTATC
104424745 ATTTTTTGAAATTTTT
1 ATTTTTTGAAATTTTT
*
104424761 ATTTTTTTAAATTTT
1 ATTTTTTGAAATTTT
104424776 GAATATTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTTTGAAATTTTT
Found at i:104425938 original size:28 final size:28
Alignment explanation
Indices: 104425880--104425939 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
104425870 AATAAACCCC
* **
104425880 AAACTCTAAACTCTAAACCATAAATCCT
1 AAACTCAAAACTCTAAACCATAAATAAT
*
104425908 AAACTCAAAACTCTAATCACA-AAATAAT
1 AAACTCAAAACTCTAAAC-CATAAATAAT
104425936 AAAC
1 AAAC
104425940 ATTATATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (28 bp):
AAACTCAAAACTCTAAACCATAAATAAT
Found at i:104425993 original size:21 final size:22
Alignment explanation
Indices: 104425945--104426011 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 22
104425935 TAAACATTAT
** * *
104425945 ATCATAAACCCTAAAACCCAAA
1 ATCATAAACATTAAATCCTAAA
* * *
104425967 ACCATAGACATTAAA-CCTTAA
1 ATCATAAACATTAAATCCTAAA
*
104425988 ATCATAAACCTTAAATCCTAAA
1 ATCATAAACATTAAATCCTAAA
104426010 AT
1 AT
104426012 AAAATATTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.51, C:0.25, G:0.01, T:0.22
Consensus pattern (22 bp):
ATCATAAACATTAAATCCTAAA
Found at i:104425995 original size:14 final size:14
Alignment explanation
Indices: 104425978--104426009 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
104425968 CCATAGACAT
104425978 TAAACCTTAAATCA
1 TAAACCTTAAATCA
*
104425992 TAAACCTTAAATCC
1 TAAACCTTAAATCA
104426006 TAAA
1 TAAA
104426010 ATAAAATATT
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:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAACCTTAAATCA
Found at i:104426162 original size:40 final size:40
Alignment explanation
Indices: 104426118--104426232 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
104426108 AAAAGCGCAG
104426118 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
* * * * * * *
104426158 CTAATTCTCGATCTATTGCAGCATTTTCCTAAAAGCGCCA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
* *
104426198 CTAATGCTCAATCTTTAGCGGCATTTTTCAAAAAA
1 CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAA
104426233 GTGCCGCTAG
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (40 bp):
CTAATGCTCGATCTTTTGCGGCATTTTTCAAAAAACGACA
Found at i:104432635 original size:18 final size:18
Alignment explanation
Indices: 104432581--104432653 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
104432571 CAATCCCAAC
104432581 TACTGTATACGTGAAC-AG
1 TACTGTATACGTG-ACTAG
* * *
104432599 TACTATATACGTAAATAG
1 TACTGTATACGTGACTAG
*
104432617 TACTGTATACATGACTAG
1 TACTGTATACGTGACTAG
* * *
104432635 TGCCGTATACGTGAATAG
1 TACTGTATACGTGACTAG
104432653 T
1 T
104432654 GTCGTAAATG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
17 1 0.02
18 42 0.98
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (18 bp):
TACTGTATACGTGACTAG
Found at i:104432659 original size:18 final size:18
Alignment explanation
Indices: 104432621--104432659 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
104432611 AAATAGTACT
*
104432621 GTATACATGACTAGTGCC
1 GTATACATGAATAGTGCC
* *
104432639 GTATACGTGAATAGTGTC
1 GTATACATGAATAGTGCC
104432657 GTA
1 GTA
104432660 AATGGTCGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (18 bp):
GTATACATGAATAGTGCC
Found at i:104435136 original size:3 final size:3
Alignment explanation
Indices: 104435128--104435179 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
104435118 TTAACTCCAA
104435128 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
104435176 AAT A
1 AAT A
104435180 CCAGGCAGGT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:104437618 original size:20 final size:20
Alignment explanation
Indices: 104437582--104437619 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104437572 GATTTTTGGG
*
104437582 AAAATTAATTTTGATCAAGT
1 AAAATTAATTTTAATCAAGT
104437602 AAAATTTAA-TTTAATCAA
1 AAAA-TTAATTTTAATCAA
104437620 TTTAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (20 bp):
AAAATTAATTTTAATCAAGT
Found at i:104438132 original size:31 final size:31
Alignment explanation
Indices: 104438083--104438214 Score: 144
Period size: 31 Copynumber: 4.3 Consensus size: 31
104438073 TTAATAAATT
* *
104438083 TAATATTTAATTTAATTTAATTTTTATCTAGA
1 TAATATTTTA-TTAATTTAATATTTATCTAGA
* * *
104438115 TAGTATTTTATTAATTTAATATTAATAT-GA
1 TAATATTTTATTAATTTAATATTTATCTAGA
**
104438145 -AATATTAAATTTAATTTAATATTTATCTAGA
1 TAATATTTTA-TTAATTTAATATTTATCTAGA
*
104438176 TAATATTTTATTAATTTAATATTTATGT-GA
1 TAATATTTTATTAATTTAATATTTATCTAGA
104438206 TTAATATTT
1 -TAATATTT
104438215 AACTAGATAA
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
29 6 0.07
30 20 0.24
31 42 0.51
32 15 0.18
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (31 bp):
TAATATTTTATTAATTTAATATTTATCTAGA
Found at i:104438157 original size:61 final size:61
Alignment explanation
Indices: 104438084--104438198 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
104438074 TAATAAATTT
* * *
104438084 AATATTTAATTTAATTTAATTTTTATCTAGATAGTATTTTATTAATTTAATATTAATATGA
1 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGA
104438145 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATT
1 AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATT
104438199 TATGTGATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (61 bp):
AATATTAAATTTAATTTAATATTTATCTAGATAATATTTTATTAATTTAATATTAATATGA
Found at i:104438181 original size:15 final size:16
Alignment explanation
Indices: 104438160--104438229 Score: 69
Period size: 15 Copynumber: 4.6 Consensus size: 16
104438150 TAAATTTAAT
104438160 TTAATATTTATCTAGA
1 TTAATATTTATCTAGA
104438176 -TAATATTTTAT-TA-A
1 TTAATA-TTTATCTAGA
*
104438190 TTTAATATTTATGT-GA
1 -TTAATATTTATCTAGA
*
104438206 TTAATATTTAACTAGA
1 TTAATATTTATCTAGA
104438222 -TAATATTT
1 TTAATATTT
104438230 TATTAATTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
14 1 0.02
15 31 0.67
16 14 0.30
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TTAATATTTATCTAGA
Found at i:104447455 original size:35 final size:35
Alignment explanation
Indices: 104447411--104447577 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
104447401 TCCTCATTGA
* *
104447411 AATACCATACCTACATTTTTCAACTCGGTATGAGA-
1 AATACCATACCTACATTTTACAACTCAGTATG-GAT
* * *
104447446 AATGCCATACCTACATTTCT-TAACTCGGTATGGATTTGAT
1 AATACCATACCTACATTT-TACAACTCAGTAT-G----GAT
* *
104447486 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTTACAACTCAGTATGGAT
*
104447521 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTTACAACTCAGTATGGAT
**
104447556 GCTACCATACCTACATTTTACA
1 AATACCATACCTACATTTTACA
104447578 CTTTTCCATG
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
35 83 0.73
36 2 0.02
39 3 0.03
40 25 0.22
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTTACAACTCAGTATGGAT
Found at i:104447494 original size:75 final size:74
Alignment explanation
Indices: 104447407--104447555 Score: 201
Period size: 75 Copynumber: 2.0 Consensus size: 74
104447397 GTTTTCCTCA
** * * **
104447407 TTGAAATACCATACCTACATTTTTCAACTCGGTATGAGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTATG-GATAATACCATACCTACATTTCACAACT
*
104447471 CGGTATGGAT
65 CAGTATGGAT
*
104447481 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
104447546 CAGTATGGAT
65 CAGTATGGAT
104447556 GCTACCATAC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
74 6 0.09
75 59 0.91
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:104454959 original size:35 final size:36
Alignment explanation
Indices: 104454915--104455081 Score: 196
Period size: 35 Copynumber: 4.6 Consensus size: 36
104454905 TCCTCATTGA
** *
104454915 AATACCATACCTACATTTTTCAACTCGGTATGAGA-
1 AATACCATACCTACATTTCACAACTCAGTATGAGAT
* * **
104454950 AATGCCATACCTATATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-GA---GAT
*
104454990 AATACCATACCTACATTTCACAGCTCAGTATGA-AT
1 AATACCATACCTACATTTCACAACTCAGTATGAGAT
104455025 AATACCATACCTACATTTCACAACTCAGTATG-GAT
1 AATACCATACCTACATTTCACAACTCAGTATGAGAT
*
104455060 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
104455082 CTTTGCCATG
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
35 82 0.72
36 2 0.02
39 4 0.04
40 26 0.23
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGAGAT
Found at i:104454998 original size:75 final size:73
Alignment explanation
Indices: 104454910--104455081 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
104454900 GGTTTTCCTC
** * * * **
104454910 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGAGA-AATGCCATACCTATATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTATGA-ATAATACCATACCTACATTTCACAAC
104454974 TCAGTATGG
65 TCAGTATGG
*
104454983 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGAATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGAATAATACCATACCTACATTTCACAA
104455048 CTCAGTATGG
64 CTCAGTATGG
104455058 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
104455082 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 5 0.06
75 59 0.67
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGAATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:104458021 original size:11 final size:11
Alignment explanation
Indices: 104458005--104458034 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
104457995 GCAAAATTGT
104458005 AATTAAAGCAA
1 AATTAAAGCAA
*
104458016 AATTAAAACAA
1 AATTAAAGCAA
104458027 AATTAAAG
1 AATTAAAG
104458035 GAAGAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (11 bp):
AATTAAAGCAA
Found at i:104458892 original size:40 final size:40
Alignment explanation
Indices: 104458790--104458941 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
104458780 ATTGTATGAT
* * * *
104458790 TGCAAATACGTGCCTCTATTTGTACTTTGGTACCCCTGAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCTCTAAA
***
104458830 TGCACATACGTGCTGTTATTTGTACTTTGGTACCTCTAAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCTCTAAA
* * * * *
104458870 TGCACATAAGTGCCCCTGTTTGTACTTCGATACCTTTGAAA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTACCTCT-AAA
* * * *
104458911 -GCACATACGAGCCCCTGTTTATACTCTGGTA
1 TGCACATACGTGCCCCTATTTGTACTTTGGTA
104458942 ACTTTGAATC
Statistics
Matches: 91, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
40 88 0.97
41 3 0.03
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (40 bp):
TGCACATACGTGCCCCTATTTGTACTTTGGTACCTCTAAA
Found at i:104458947 original size:40 final size:40
Alignment explanation
Indices: 104458871--104458949 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
104458861 ACCTCTAAAT
* * *
104458871 GCACATAAGTGCCCCTGTTTGTACTTCGATACCTTTGAAA
1 GCACATAAGAGCCCCTGTTTATACTTCGATAACTTTGAAA
* *
104458911 GCACATACGAGCCCCTGTTTATAC-TCTGGTAACTTTGAA
1 GCACATAAGAGCCCCTGTTTATACTTC-GATAACTTTGAA
104458950 TCAAATAGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (40 bp):
GCACATAAGAGCCCCTGTTTATACTTCGATAACTTTGAAA
Found at i:104469722 original size:19 final size:20
Alignment explanation
Indices: 104469672--104469722 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
104469662 GTTAAGTGAG
104469672 AGGTTAATTAGATCTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
104469693 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
104469712 AGGTTAATTAG
1 AGGTTAATTAG
104469723 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.50
20 8 0.31
21 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:104469928 original size:17 final size:18
Alignment explanation
Indices: 104469887--104469929 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
104469877 TGTATTTACT
104469887 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
104469905 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
104469922 TATTATAT
1 TATTATAT
104469930 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:104470056 original size:6 final size:6
Alignment explanation
Indices: 104470028--104470067 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
104470018 AACATCAGAG
*
104470028 AAAGAA AGAAGGAA AAAGGA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA A-AA-GAA AAAGAA AAAGAA AAAGAA AAAGAA AA
104470068 TTTAGGGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 22 0.73
7 4 0.13
8 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:104476812 original size:19 final size:20
Alignment explanation
Indices: 104476762--104476812 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
104476752 GTTAAGTGAG
*
104476762 AGGTTAATTAGATTTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
104476783 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
104476802 AGGTTAATTAG
1 AGGTTAATTAG
104476813 GTATAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:104480313 original size:27 final size:26
Alignment explanation
Indices: 104480282--104480361 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
104480272 ATTGACAGTA
104480282 TTAATATATTTTATTTAGTCATTAATT
1 TTAATATATTTTATTTAGT-ATTAATT
*
104480309 TTAATAGTTTTTTAATTTAGT-TTACATT
1 TTAATA-TATTTT-ATTTAGTATTA-ATT
*
104480337 TT-ATATGATTTT-TTTAATTATTAAT
1 TTAATAT-ATTTTATTT-AGTATTAAT
104480362 GTCTTTGTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
25 3 0.07
26 5 0.11
27 19 0.43
28 10 0.23
29 7 0.16
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (26 bp):
TTAATATATTTTATTTAGTATTAATT
Found at i:104481534 original size:29 final size:29
Alignment explanation
Indices: 104481502--104481561 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
104481492 TAATGATACT
* *
104481502 AAACTTATATGAAAAAAAATAAATTAAAA
1 AAACATATAAGAAAAAAAATAAATTAAAA
* * *
104481531 AAACATGTAAGAGAAAAACTAAATTAAAA
1 AAACATATAAGAAAAAAAATAAATTAAAA
104481560 AA
1 AA
104481562 TATTAAATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (29 bp):
AAACATATAAGAAAAAAAATAAATTAAAA
Found at i:104481867 original size:28 final size:29
Alignment explanation
Indices: 104481815--104481884 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 29
104481805 AGGTTCCATG
104481815 TTATTTTGATAAATAATTTATATTTTATA
1 TTATTTTGATAAATAATTTATATTTTATA
*
104481844 TTATTTCTGA-AATTAATTT-TATTTTATA
1 TTATTT-TGATAAATAATTTATATTTTATA
*
104481872 TTATTTTCATAAA
1 TTATTTTGATAAA
104481885 AAAACCTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 2 0.06
28 17 0.47
29 14 0.39
30 3 0.08
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TTATTTTGATAAATAATTTATATTTTATA
Found at i:104484270 original size:57 final size:57
Alignment explanation
Indices: 104484182--104484297 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
104484172 TTTCTTTTAT
*
104484182 TATTATAATGCACGAATGGTGATGTATTAGAGAATAACTGGAGTGAGGACATCCATC
1 TATTATAATGCACGAATGGTGATGTATTAGAGAATAACTGGAGTAAGGACATCCATC
*
104484239 TATTATAATGCACGAATGGTGATGTATTAGAGAATAGCTGGAGTAAGGACATCCATC
1 TATTATAATGCACGAATGGTGATGTATTAGAGAATAACTGGAGTAAGGACATCCATC
104484296 TA
1 TA
104484298 CAAAGTTGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (57 bp):
TATTATAATGCACGAATGGTGATGTATTAGAGAATAACTGGAGTAAGGACATCCATC
Found at i:104485645 original size:93 final size:93
Alignment explanation
Indices: 104485486--104485675 Score: 380
Period size: 93 Copynumber: 2.0 Consensus size: 93
104485476 CTTCCATTGC
104485486 TTAAGTATGATGGTAGTGGAGGAGAGCAAAGTGTTAATCCTAGTTTTTAGGTATGGGACATGAAC
1 TTAAGTATGATGGTAGTGGAGGAGAGCAAAGTGTTAATCCTAGTTTTTAGGTATGGGACATGAAC
104485551 AGCAAGAAAATGGTCAGTCGTGGGAATA
66 AGCAAGAAAATGGTCAGTCGTGGGAATA
104485579 TTAAGTATGATGGTAGTGGAGGAGAGCAAAGTGTTAATCCTAGTTTTTAGGTATGGGACATGAAC
1 TTAAGTATGATGGTAGTGGAGGAGAGCAAAGTGTTAATCCTAGTTTTTAGGTATGGGACATGAAC
104485644 AGCAAGAAAATGGTCAGTCGTGGGAATA
66 AGCAAGAAAATGGTCAGTCGTGGGAATA
104485672 TTAA
1 TTAA
104485676 CTTTATGAAG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 97 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.27
Consensus pattern (93 bp):
TTAAGTATGATGGTAGTGGAGGAGAGCAAAGTGTTAATCCTAGTTTTTAGGTATGGGACATGAAC
AGCAAGAAAATGGTCAGTCGTGGGAATA
Found at i:104486143 original size:20 final size:20
Alignment explanation
Indices: 104486118--104486156 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
104486108 AGGGATGAAA
* *
104486118 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
104486138 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
104486157 TATAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:104491439 original size:3 final size:3
Alignment explanation
Indices: 104491431--104491470 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
104491421 AATAAAGGAA
* *
104491431 AAT AAT AAT AAC AAT AAG AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
104491471 AGGGACTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:104491666 original size:3 final size:3
Alignment explanation
Indices: 104491658--104491684 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
104491648 TCGATGACTC
104491658 GGT GGT GGT GGT GGT GGT GGT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT
104491685 TATGGGTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GGT
Found at i:104498870 original size:26 final size:24
Alignment explanation
Indices: 104498828--104498876 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
104498818 ACACACCTTA
104498828 GCTCTTATGAGCATCCCGATTAAAG
1 GCTCTTATGAGCATCCC-ATTAAAG
**
104498853 GCTCTTCATGAGTTTCCCATTAAA
1 GCTCTT-ATGAGCATCCCATTAAA
104498877 TTGGCTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (24 bp):
GCTCTTATGAGCATCCCATTAAAG
Found at i:104499277 original size:23 final size:23
Alignment explanation
Indices: 104499251--104499335 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 23
104499241 TGATGATACA
104499251 TGATATATGAAAGTATGAGATGG
1 TGATATATGAAAGTATGAGATGG
* **
104499274 TGATATATGAACATGGAATGATGATACA
1 TGATATATGAA-A--GTATGA-GAT-GG
*
104499302 TGATATATGGAAGTATGAGATGG
1 TGATATATGAAAGTATGAGATGG
104499325 TGATATATGAA
1 TGATATATGAA
104499336 CATGGAACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
23 21 0.43
24 4 0.08
25 5 0.10
26 5 0.10
27 4 0.08
28 10 0.20
ACGTcount: A:0.40, C:0.02, G:0.27, T:0.31
Consensus pattern (23 bp):
TGATATATGAAAGTATGAGATGG
Found at i:104499300 original size:51 final size:51
Alignment explanation
Indices: 104499240--104499342 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
104499230 ATATATGAGT
104499240 ATGATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGA
1 ATGATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGA
*
104499291 ATGATGATACATGATATATGGAAGTATGAGATGGTGATATATGAACATGGA
1 ATGATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGA
104499342 A
1 A
104499343 CTTGTTTGAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.29
Consensus pattern (51 bp):
ATGATGATACATGATATATGAAAGTATGAGATGGTGATATATGAACATGGA
Done.