Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold187
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: 2169796
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 45208 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:764205 original size:20 final size:20
Alignment explanation
Indices: 764180--764250 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
764170 AAACAGAATA
*
764180 TATCGATATATTGAAAAATG
1 TATCGATACATTGAAAAATG
* * *
764200 TATCGATACATTCATACATG
1 TATCGATACATTGAAAAATG
764220 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
764240 TATCGATACAT
1 TATCGATACAT
764251 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.34
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:770262 original size:1 final size:1
Alignment explanation
Indices: 770256--770289 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
770246 TGAAAATCAG
770256 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
770290 CTCCGAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:776793 original size:14 final size:14
Alignment explanation
Indices: 776774--776800 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
776764 TAGTAAGTTT
776774 TTTCTTTTTTTTTA
1 TTTCTTTTTTTTTA
776788 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
776801 TTGCAACTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.07, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTCTTTTTTTTTA
Found at i:778665 original size:17 final size:17
Alignment explanation
Indices: 778645--778677 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
778635 AACTTTATTA
778645 TATTTTAATATAATAAT
1 TATTTTAATATAATAAT
*
778662 TATTTTATTATAATAA
1 TATTTTAATATAATAA
778678 ACCAAACGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTAATATAATAAT
Found at i:778907 original size:15 final size:16
Alignment explanation
Indices: 778887--778916 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
778877 TTCTTTTACA
778887 AATCAA-AAATAAAAC
1 AATCAATAAATAAAAC
778902 AATCAATAAATAAAA
1 AATCAATAAATAAAA
778917 ATTGTAACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (16 bp):
AATCAATAAATAAAAC
Found at i:779715 original size:19 final size:21
Alignment explanation
Indices: 779664--779706 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
779654 ATTTAAATTG
779664 AAATAA-ATAATAAAAATATTT
1 AAATAATA-AATAAAAATATTT
779685 AAATAATAAATAAAAAT-TTT
1 AAATAATAAATAAAAATATTT
779705 AA
1 AA
779707 TTTAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 15 0.71
22 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAATAAATAAAAATATTT
Found at i:785274 original size:13 final size:13
Alignment explanation
Indices: 785256--785280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
785246 ATATAAGTGT
785256 TGTATCGATACAA
1 TGTATCGATACAA
785269 TGTATCGATACA
1 TGTATCGATACA
785281 TAAGTTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:792557 original size:11 final size:11
Alignment explanation
Indices: 792524--792558 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
792514 ATAGAAAAAA
792524 AGAAAAAGAAG
1 AGAAAAAGAAG
792535 -GAAAAAGAAAG
1 AGAAAAAG-AAG
792546 AGAAAAAGAAG
1 AGAAAAAGAAG
792557 AG
1 AG
792559 TTTCTTCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 7 0.32
11 8 0.36
12 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAG
Found at i:793285 original size:26 final size:28
Alignment explanation
Indices: 793255--793313 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
793245 TGACTTAGGG
* *
793255 ATTTTTAATGTCTT-ACA-TTTTATGTC
1 ATTTTTAATATCTTAAAATTTTTATGTC
*
793281 ATTTTTTATATCTTAGAAATTTTTATGTC
1 ATTTTTAATATCTTA-AAATTTTTATGTC
793310 ATTT
1 ATTT
793314 CATACATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.44
28 2 0.07
29 13 0.48
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.59
Consensus pattern (28 bp):
ATTTTTAATATCTTAAAATTTTTATGTC
Found at i:793309 original size:43 final size:43
Alignment explanation
Indices: 793228--793309 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
793218 TTTTTATGTT
**
793228 ATTTTAGTCATTTTCTATGACTTAGGGATTTTTAATGTCTTAC
1 ATTTTAGTCATTTTCTATGACTTAGAAATTTTTAATGTCTTAC
*
793271 ATTTTATGTCATTTTTTAT-ATCTTAGAAATTTTT-ATGTC
1 ATTTTA-GTCATTTTCTATGA-CTTAGAAATTTTTAATGTC
793310 ATTTCATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 12 0.35
44 22 0.65
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.55
Consensus pattern (43 bp):
ATTTTAGTCATTTTCTATGACTTAGAAATTTTTAATGTCTTAC
Found at i:793592 original size:58 final size:57
Alignment explanation
Indices: 793408--793635 Score: 165
Period size: 58 Copynumber: 3.9 Consensus size: 57
793398 TTTTTTAGGG
* * *
793408 GACTTTTATATAAATTTATGTATGTTGAGATCATTTAGATCA-TTTTCATAATCTA-A
1 GACTTTTATATAAATTTATGTATTTTGAGATCATTTAGGTCATTTTTCATGATC-AGA
* * * * * * * *
793464 GAACTTTTATGTAAATATATGTATATATGTTAGGGTCTTTTAGGTTATTTTTCATGATATAGG
1 G-ACTTTTATATAAATTTATGTAT-T-T-TGA-GATCATTTAGGTCATTTTTCATGAT-CAGA
* * * *
793527 GGCTTTTATGTAAATTTATCTATTTTGAGGTCATTTAGGTCATTTTTCATGATCAGCA
1 GACTTTTATATAAATTTATGTATTTTGAGATCATTTAGGTCATTTTTCATGATCAG-A
* * * * *
793585 GATTTTTATACAAATTTTATATATTTTTAAGAT-ATTTAAGTCATTTTTCAT
1 GACTTTTATATAAA-TTTATGTA-TTTTGAGATCATTTAGGTCATTTTTCAT
793636 AACTTAAGAA
Statistics
Matches: 134, Mismatches: 27, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
56 1 0.01
57 22 0.16
58 33 0.25
59 27 0.20
60 10 0.07
61 11 0.08
62 29 0.22
63 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (57 bp):
GACTTTTATATAAATTTATGTATTTTGAGATCATTTAGGTCATTTTTCATGATCAGA
Found at i:797474 original size:22 final size:22
Alignment explanation
Indices: 797439--797480 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
797429 AATTTTTATT
797439 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
797461 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
797481 ATTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:797535 original size:17 final size:16
Alignment explanation
Indices: 797506--797566 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
797496 TTAATTATAA
797506 ATAATAAATATAAAAAT
1 ATAATAAA-ATAAAAAT
797523 ATAATTAAAATAAATTAA-
1 ATAA-TAAAATAAA--AAT
*
797541 ATAAAAAAATAAAAAT
1 ATAATAAAATAAAAAT
*
797557 TTAAATAAAA
1 AT-AATAAAA
797567 AATTAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
15 2 0.06
16 1 0.03
17 23 0.64
18 8 0.22
19 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATAAAATAAAAAT
Found at i:797544 original size:26 final size:27
Alignment explanation
Indices: 797497--797552 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
797487 AATTTTTTAT
*
797497 TAATTATAAATAATAAATATAAAAATA
1 TAATTATAAATAATAAATATAAAAAAA
*
797524 TAATTA-AAATAAATTAA-ATAAAAAAA
1 TAATTATAAAT-AATAAATATAAAAAAA
797550 TAA
1 TAA
797553 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (27 bp):
TAATTATAAATAATAAATATAAAAAAA
Found at i:797547 original size:27 final size:26
Alignment explanation
Indices: 797497--797552 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
797487 AATTTTTTAT
797497 TAATTATAAATAATAAATATAAAAATA
1 TAATTATAAATAATAAATATAAAAA-A
797524 TAATTA-AAATAAATTAAATA-AAAAAA
1 TAATTATAAAT-AA-TAAATATAAAAAA
797550 TAA
1 TAA
797553 AAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.30
27 13 0.48
28 6 0.22
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (26 bp):
TAATTATAAATAATAAATATAAAAAA
Found at i:797568 original size:14 final size:14
Alignment explanation
Indices: 797504--797556 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
797494 TATTAATTAT
*
797504 AAATAATAAATATAA
1 AAAT-ATAAATAAAA
*
797519 AAATATAATTAAAA
1 AAATATAAATAAAA
797533 TAAAT-TAAATAAAA
1 -AAATATAAATAAAA
*
797547 AAATAAAAAT
1 AAATATAAAT
797557 TTAAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 4 0.12
14 20 0.62
15 8 0.25
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATAAATAAAA
Found at i:799017 original size:16 final size:17
Alignment explanation
Indices: 798991--799030 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
798981 TTTTTAAATA
*
798991 AATTTTA-TTAATT-AT
1 AATTTTATTTAATTAAC
799006 AATTTTATTTAATTAAC
1 AATTTTATTTAATTAAC
799023 AATTTTAT
1 AATTTTAT
799031 AACTATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTTATTTAATTAAC
Found at i:799397 original size:11 final size:10
Alignment explanation
Indices: 799381--799419 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
799371 GAATATATAA
*
799381 TTTTTTTCAT
1 TTTTTTTCTT
799391 TTTTTTTCTT
1 TTTTTTTCTT
799401 TTTTTTTCTT
1 TTTTTTTCTT
799411 TTTCTTTTC
1 TTT-TTTTC
799420 AGCCTACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 22 0.81
11 5 0.19
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:799534 original size:22 final size:22
Alignment explanation
Indices: 799470--799550 Score: 67
Period size: 22 Copynumber: 3.6 Consensus size: 22
799460 GGCAAGTGTC
799470 AAATATAAAAATAT-ATATAAA
1 AAATATAAAAATATAATATAAA
* *
799491 ATAAAAT-AAATTATTAATATATAAA
1 A-AATATAAAAATA-T-A-ATATAAA
***
799516 AAATATAAAAATATAATATTTT
1 AAATATAAAAATATAATATAAA
799538 AAATATAAAAATA
1 AAATATAAAAATA
799551 GCACAAAACA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
21 6 0.13
22 22 0.47
23 1 0.02
24 5 0.11
25 13 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATAAAAATATAATATAAA
Found at i:799744 original size:11 final size:11
Alignment explanation
Indices: 799730--799771 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
799720 TGAACATAAT
799730 ATAAATAAAAA
1 ATAAATAAAAA
* *
799741 ATAATTAAAAC
1 ATAAATAAAAA
799752 AT-AATAAAAA
1 ATAAATAAAAA
799762 ATAACATAAA
1 ATAA-ATAAA
799772 CATGATACGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 8 0.32
11 12 0.48
12 5 0.20
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAATAAAAA
Found at i:799913 original size:24 final size:25
Alignment explanation
Indices: 799886--799932 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
799876 ATATAAAATT
* *
799886 AAAAATTAATTAAAACAT-AATACA
1 AAAAAATAAATAAAACATGAATACA
*
799910 AAAAAATAAATATAACATGAATA
1 AAAAAATAAATAAAACATGAATA
799933 TATAAATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (25 bp):
AAAAAATAAATAAAACATGAATACA
Found at i:799970 original size:19 final size:19
Alignment explanation
Indices: 799915--799978 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 19
799905 ATACAAAAAA
* * *
799915 ATAAATATAACATGAATAT
1 ATAAATATTACATAAATTT
* * *
799934 ATAAATA-CAAAAAAATTT
1 ATAAATATTACATAAATTT
799952 ATAAATATTACATAAATTT
1 ATAAATATTACATAAATTT
799971 AT-AATATT
1 ATAAATATT
799979 TTAAATAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 19 0.53
19 17 0.47
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAATATTACATAAATTT
Found at i:800078 original size:25 final size:24
Alignment explanation
Indices: 800050--800119 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 24
800040 AAATACTTAA
800050 AATATATAAAATAAAATAAATTATT
1 AATATATAAAATAAAATAAATT-TT
* * *
800075 AATACATTAAA-AATATAATATTTT
1 AATATATAAAATAAAATAA-ATTTT
*
800099 AA-ATAAAAAATAAATATAAAT
1 AATATATAAAATAAA-ATAAAT
800120 ATTTTTCTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
23 5 0.14
24 14 0.40
25 16 0.46
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (24 bp):
AATATATAAAATAAAATAAATTTT
Found at i:800675 original size:51 final size:51
Alignment explanation
Indices: 800615--800716 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
800605 TGAGCAAATA
* *
800615 AACGGCGCCACCGTAGTCAAAAATAGTTGCAGCCATAGTGAGGAAACGCTC
1 AACGGCGCCACCGTACTCAAAAATAATTGCAGCCATAGTGAGGAAACGCTC
*
800666 AACGGCGCCACCGTACTCAAAAATAATTGCAGCCATAGTGAGGAAATGCTC
1 AACGGCGCCACCGTACTCAAAAATAATTGCAGCCATAGTGAGGAAACGCTC
800717 TACGATGCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (51 bp):
AACGGCGCCACCGTACTCAAAAATAATTGCAGCCATAGTGAGGAAACGCTC
Found at i:803378 original size:2 final size:2
Alignment explanation
Indices: 803371--803403 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
803361 TAATTGGTCC
803371 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
803404 ATGCTTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:805046 original size:42 final size:44
Alignment explanation
Indices: 804973--805057 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 44
804963 AAACAAGCAT
804973 AACTCCTCTTTTTTCATTTTTTTTTTCTCCTTATATTTTTGTTA
1 AACTCCTCTTTTTTCATTTTTTTTTTCTCCTTATATTTTTGTTA
*
805017 AACTTCTC-TTTTTC-TTTTTTTTTTCTCCTTATATTTTTGTT
1 AACTCCTCTTTTTTCATTTTTTTTTTCTCCTTATATTTTTGTT
805058 TCCTTTAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 27 0.68
43 6 0.15
44 7 0.17
ACGTcount: A:0.12, C:0.18, G:0.02, T:0.68
Consensus pattern (44 bp):
AACTCCTCTTTTTTCATTTTTTTTTTCTCCTTATATTTTTGTTA
Found at i:805846 original size:23 final size:22
Alignment explanation
Indices: 805787--805846 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
805777 TTAATTTTAT
*
805787 ATTAAAAATTATTATTTATTAAG
1 ATTAAAAATTATT-TGTATTAAG
*
805810 ATT-AAAATTGATTTGTATTTAAT
1 ATTAAAAATT-ATTTGTA-TTAAG
*
805833 TTTAAAAATTATTT
1 ATTAAAAATTATTT
805847 TAAATAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATTAAAAATTATTTGTATTAAG
Found at i:805963 original size:3 final size:3
Alignment explanation
Indices: 805955--805982 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
805945 ATTTATACAC
805955 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
805983 CAACAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:806229 original size:9 final size:9
Alignment explanation
Indices: 806206--806246 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
806196 GAAAATTATG
806206 ATTTTAAAA
1 ATTTTAAAA
806215 ACTTTTAAAA
1 A-TTTTAAAA
806225 ATTTTAAAA
1 ATTTTAAAA
* *
806234 AATTTAAAT
1 ATTTTAAAA
806243 ATTT
1 ATTT
806247 AATTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:814131 original size:2 final size:2
Alignment explanation
Indices: 814124--814151 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
814114 TACCAGTATG
814124 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
814152 TACACAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:816182 original size:2 final size:2
Alignment explanation
Indices: 816175--816207 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
816165 CTTATTTGTT
816175 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
816208 GTTTTTGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:823827 original size:17 final size:18
Alignment explanation
Indices: 823779--823827 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
823769 GCAGGTACAA
823779 AATTAATTAATTTTTAATT
1 AATTAATT-ATTTTTAATT
*
823798 AATTAATTA-TTTTATTT
1 AATTAATTATTTTTAATT
*
823815 TATT-ATTATTTTT
1 AATTAATTATTTTT
823828 TTATTTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 14 0.52
18 1 0.04
19 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTAATTATTTTTAATT
Found at i:826482 original size:32 final size:32
Alignment explanation
Indices: 826441--826621 Score: 362
Period size: 32 Copynumber: 5.7 Consensus size: 32
826431 TTTCAACAAT
826441 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATGCATAAGTG
826473 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATGCATAAGTG
826505 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATGCATAAGTG
826537 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATGCATAAGTG
826569 TTGTATCGATACAATGTATCGATGCATAAGTG
1 TTGTATCGATACAATGTATCGATGCATAAGTG
826601 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
826622 TTACGAAGCT
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 149 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATGCATAAGTG
Found at i:826672 original size:96 final size:96
Alignment explanation
Indices: 826451--826687 Score: 230
Period size: 96 Copynumber: 2.5 Consensus size: 96
826441 TTGTATCGAT
* * ** *
826451 ACAATGTATCGATGCATAAGTGTTGTATCGATACAATGTATCGATGCATAAGTGTTGTATCGATA
1 ACAATGTATCGATACATAACTAATATATCGATACAATGTATCGATGCATAAGTGTTGTATCGATA
* * ** * * *
826516 CAATGTATCGATGCATAAGTGTTGTATCGAT
66 CAATGTATCGATACAGAAGTACTGCATAGAG
* * ** *
826547 ACAATGTATCGATGCATAAGTGTTGTATCGATACAATGTATCGATGCATAAGTGTTGTATCGATA
1 ACAATGTATCGATACATAACTAATATATCGATACAATGTATCGATGCATAAGTGTTGTATCGATA
*
826612 CAATGTATCGTTAC-GAAGCTACTGCCA-AG-G
66 CAATGTATCGATACAGAAG-TACTG-CATAGAG
* *
826642 A-AATGTATCGATACATTACTCAAATATATCGATACATTGTATCGAT
1 ACAATGTATCGATACATAACT--AATATATCGATACAATGTATCGAT
826688 ACATTGATCT
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
94 16 0.13
95 4 0.03
96 101 0.83
97 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (96 bp):
ACAATGTATCGATACATAACTAATATATCGATACAATGTATCGATGCATAAGTGTTGTATCGATA
CAATGTATCGATACAGAAGTACTGCATAGAG
Found at i:826686 original size:13 final size:13
Alignment explanation
Indices: 826668--826693 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
826658 TACTCAAATA
826668 TATCGATACATTG
1 TATCGATACATTG
826681 TATCGATACATTG
1 TATCGATACATTG
826694 ATCTTTGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:827634 original size:21 final size:23
Alignment explanation
Indices: 827590--827639 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 23
827580 CCATCTCCAT
827590 CATTTTGACAGCTCATGATTCATG
1 CATTTTGA-AGCTCATGATTCATG
*
827614 CATTTTG-AGCT-ATGCTTCATG
1 CATTTTGAAGCTCATGATTCATG
827635 CATTT
1 CATTT
827640 ATAGCATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 14 0.56
22 4 0.16
24 7 0.28
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (23 bp):
CATTTTGAAGCTCATGATTCATG
Found at i:831099 original size:16 final size:17
Alignment explanation
Indices: 831073--831106 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
831063 TTGAGAAAAC
831073 AAAGAAATTTTTGTCAA
1 AAAGAAATTTTTGTCAA
831090 AAAG-AATTTTTGTCAA
1 AAAGAAATTTTTGTCAA
831106 A
1 A
831107 CAACTTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
AAAGAAATTTTTGTCAA
Found at i:835933 original size:2 final size:2
Alignment explanation
Indices: 835928--835954 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
835918 AATATATTAT
835928 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
835955 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:835959 original size:2 final size:2
Alignment explanation
Indices: 835954--836003 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
835944 TCTCTCTCTC
* * * * *
835954 TA TA TA TA TA TA TA TA TA TA TA CA CA CA CA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
835996 TA TA TA TA
1 TA TA TA TA
836004 CTTATTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (2 bp):
TA
Found at i:838506 original size:7 final size:7
Alignment explanation
Indices: 838490--838531 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
838480 AAAGCTTAGC
838490 TTTA-TT
1 TTTATTT
838496 TTTATTT
1 TTTATTT
838503 TTTATTT
1 TTTATTT
*
838510 TCTATTT
1 TTTATTT
*
838517 TTAATTT
1 TTTATTT
*
838524 TTAATTT
1 TTTATTT
838531 T
1 T
838532 GAAGGGGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
6 4 0.12
7 28 0.88
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTATTT
Found at i:838508 original size:13 final size:13
Alignment explanation
Indices: 838490--838531 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
838480 AAAGCTTAGC
838490 TTTATTTTTATTT
1 TTTATTTTTATTT
838503 TTTATTTTCTATTT
1 TTTATTTT-TATTT
*
838517 TTAATTTTTAATTT
1 TTTATTTTT-ATTT
838531 T
1 T
838532 GAAGGGGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:838517 original size:20 final size:21
Alignment explanation
Indices: 838492--838531 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
838482 AGCTTAGCTT
*
838492 TATTTTT-ATTTTTTATTTTC
1 TATTTTTAATTTTTAATTTTC
838512 TATTTTTAATTTTTAATTTT
1 TATTTTTAATTTTTAATTTT
838532 GAAGGGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (21 bp):
TATTTTTAATTTTTAATTTTC
Found at i:839276 original size:15 final size:15
Alignment explanation
Indices: 839258--839297 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
839248 TCTCGGATTG
*
839258 ATTTTAAGTTAAATT
1 ATTTTAAATTAAATT
839273 ATTTTAAATTAAATT
1 ATTTTAAATTAAATT
839288 ATTTTAAATT
1 ATTTTAAATT
839298 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTTTAAATTAAATT
Found at i:840209 original size:16 final size:16
Alignment explanation
Indices: 840196--840274 Score: 70
Period size: 16 Copynumber: 4.9 Consensus size: 16
840186 GGTCATTTTG
840196 AGTTCAGATTATTTCA
1 AGTTCAGATTATTTCA
*
840212 AGTTCGGATTATTTCA
1 AGTTCAGATTATTTCA
** * *
840228 AGTTTGGATCATTTTA
1 AGTTCAGATTATTTCA
*
840244 GGTTC-GAATTATTTCA
1 AGTTCAG-ATTATTTCA
* *
840260 AATTCAGATCATTTC
1 AGTTCAGATTATTTC
840275 GAATTGATCA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
15 1 0.02
16 48 0.96
17 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (16 bp):
AGTTCAGATTATTTCA
Found at i:840231 original size:48 final size:48
Alignment explanation
Indices: 840174--840274 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
840164 AATAAAATAA
* * *
840174 TATTT-AAGTTCGGGTCATTTT-GAGTTC-AGATTATTTCAAGTTCGGAT
1 TATTTCAAGTTCGGATCATTTTAG-GTTCGA-ATTATTTCAAATTCAGAT
*
840221 TATTTCAAGTTTGGATCATTTTAGGTTCGAATTATTTCAAATTCAGAT
1 TATTTCAAGTTCGGATCATTTTAGGTTCGAATTATTTCAAATTCAGAT
*
840269 CATTTC
1 TATTTC
840275 GAATTGATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 5 0.11
48 39 0.85
49 2 0.04
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.46
Consensus pattern (48 bp):
TATTTCAAGTTCGGATCATTTTAGGTTCGAATTATTTCAAATTCAGAT
Found at i:840270 original size:32 final size:32
Alignment explanation
Indices: 840198--840274 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
840188 TCATTTTGAG
* * *
840198 TTCAGATTATTTCAAGTTCGGATTATTTCAAG
1 TTCAGATCATTTCAAGTTCGAATTATTTCAAA
** * *
840230 TTTGGATCATTTTAGGTTCGAATTATTTCAAA
1 TTCAGATCATTTCAAGTTCGAATTATTTCAAA
840262 TTCAGATCATTTC
1 TTCAGATCATTTC
840275 GAATTGATCA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (32 bp):
TTCAGATCATTTCAAGTTCGAATTATTTCAAA
Found at i:840364 original size:14 final size:15
Alignment explanation
Indices: 840328--840369 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
840318 ATTGGATCAA
840328 ATTTAAATTCAAATT
1 ATTTAAATTCAAATT
*
840343 AATT-AATT-AAATT
1 ATTTAAATTCAAATT
*
840356 TTTTAAATTCAAAT
1 ATTTAAATTCAAAT
840370 CAAAATTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.32
14 8 0.36
15 7 0.32
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTTAAATTCAAATT
Found at i:840655 original size:12 final size:11
Alignment explanation
Indices: 840639--840706 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
840629 TCTATCAGCT
840639 TAAAAATATAA
1 TAAAAATATAA
*
840650 TTAAAATATAA
1 TAAAAATATAA
*
840661 T-ATAATATAA
1 TAAAAATATAA
*
840671 AAAATAATATTAA
1 TAAA-AATA-TAA
840684 TAAAAATATAA
1 TAAAAATATAA
840695 -AATAAATA-AA
1 TAA-AAATATAA
840705 TA
1 TA
840707 TTTTAAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
10 12 0.26
11 21 0.45
12 8 0.17
13 6 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAAAAATATAA
Found at i:840672 original size:29 final size:28
Alignment explanation
Indices: 840639--840794 Score: 86
Period size: 29 Copynumber: 5.3 Consensus size: 28
840629 TCTATCAGCT
840639 TAAAAATATAATTAAAATATAATATAATA
1 TAAAAATATAATTAAAATA-AATATAATA
*
840668 TAAAAA-ATAATATTAATAA-AAATATAAAA
1 TAAAAATAT-A-ATTAA-AATAAATATAATA
* ** *
840697 TAAATAA-ATATTTTAAAATTTATGTAATA
1 TAAA-AATATA-ATTAAAATAAATATAATA
*
840726 T-AAATTATTAATATATAAATAATATATAATA
1 TAAAAATA-TAAT-TA-AAATAA-ATATAATA
*** *
840757 TTTTAATATAATTATAATAAATATATATA
1 TAAAAATATAATTAAAATAAATATA-ATA
*
840786 TATAAATAT
1 TAAAAATAT
840795 GATATAAATA
Statistics
Matches: 98, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
27 1 0.01
28 13 0.13
29 51 0.52
30 16 0.16
31 14 0.14
32 3 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.40
Consensus pattern (28 bp):
TAAAAATATAATTAAAATAAATATAATA
Found at i:840677 original size:17 final size:17
Alignment explanation
Indices: 840643--840809 Score: 77
Period size: 16 Copynumber: 10.1 Consensus size: 17
840633 TCAGCTTAAA
840643 AATATAAT-TAAAATAT
1 AATATAATATAAAATAT
*
840659 AATATAATATAAAAAAT
1 AATATAATATAAAATAT
840676 AATATTAATA-AAAATAT
1 AATA-TAATATAAAATAT
* *
840693 AAAATAA-ATAAATATTTT
1 AATATAATATAAA-A-TAT
* * **
840711 AAAAT-TTATGTAATAT
1 AATATAATATAAAATAT
* *
840727 AA-ATTAT-TAATATAT
1 AATATAATATAAAATAT
*
840742 AA-ATAATATATAATAT
1 AATATAATATAAAATAT
* *
840758 --TTTAATAT-AATTAT
1 AATATAATATAAAATAT
*
840772 AATA-AATATATATATAT
1 AATATAATATA-AAATAT
*
840789 AAATATGATATAAATATAT
1 -AATATAATATAAA-ATAT
840808 AA
1 AA
840810 ATTTTTAAAT
Statistics
Matches: 112, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
14 4 0.04
15 25 0.22
16 26 0.23
17 26 0.23
18 22 0.20
19 9 0.08
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (17 bp):
AATATAATATAAAATAT
Found at i:840714 original size:26 final size:24
Alignment explanation
Indices: 840639--840696 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 24
840629 TCTATCAGCT
**
840639 TAAAAATATAATTAA-AATA-TAA
1 TAAAAATATAAAAAATAATATTAA
*
840661 T-ATAATATAAAAAATAATATTAA
1 TAAAAATATAAAAAATAATATTAA
840684 TAAAAATATAAAA
1 TAAAAATATAAAA
840697 TAAATAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.34
22 5 0.17
23 4 0.14
24 10 0.34
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAAAATATAAAAAATAATATTAA
Found at i:840741 original size:15 final size:15
Alignment explanation
Indices: 840723--840825 Score: 54
Period size: 15 Copynumber: 6.5 Consensus size: 15
840713 AATTTATGTA
840723 ATATAAATTATTAAT
1 ATATAAATTATTAAT
840738 ATATAAATAATATATAAT
1 ATATAAAT--TAT-TAAT
* *
840756 ATTTTAA-TA-TAATT
1 ATATAAATTATTAA-T
840770 ATAATAAA-TA-TATAT
1 AT-ATAAATTATTA-AT
840785 ATATAAATATGATATAAAT
1 ATATAAAT-T-AT-T-AAT
*
840804 ATATAAATTTTTAA-
1 ATATAAATTATTAAT
840818 ATATAAAT
1 ATATAAAT
840826 CTAAACATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 25
0.70 0.05 0.25
Matches are distributed among these distances:
13 3 0.04
14 16 0.23
15 22 0.31
16 3 0.04
17 5 0.07
18 10 0.14
19 11 0.15
20 1 0.01
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (15 bp):
ATATAAATTATTAAT
Found at i:840788 original size:23 final size:25
Alignment explanation
Indices: 840723--840808 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 25
840713 AATTTATGTA
840723 ATATAAAT-TATTAATATATAAATA--
1 ATATAAATATA-T-ATATATAAATATG
* *
840747 ATATATAATAT-TTTAATATAATTAT-
1 ATATA-AATATATAT-ATATAAATATG
840772 A-ATAAATATATATATATAAATATG
1 ATATAAATATATATATATAAATATG
840796 ATATAAATATATA
1 ATATAAATATATA
840809 AATTTTTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
23 15 0.29
24 20 0.39
25 15 0.29
26 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
ATATAAATATATATATATAAATATG
Found at i:841437 original size:18 final size:18
Alignment explanation
Indices: 841416--841519 Score: 65
Period size: 17 Copynumber: 5.8 Consensus size: 18
841406 TTATTTTTGT
841416 ATTTAAATTATTTTTTAA
1 ATTTAAATTATTTTTTAA
* *
841434 ATTTTAATT-TTTTAATTAT
1 ATTTAAATTATTTT--TTAA
* *
841453 TTTTAATTTTAATTTTATT-A
1 ATTTAA-ATT-ATTTT-TTAA
*
841473 ATTTAAA-TA-ATTTTAA
1 ATTTAAATTATTTTTTAA
* *
841489 ATTTAAATAATTATTT-A
1 ATTTAAATTATTTTTTAA
841506 ATTTAAATTATTTT
1 ATTTAAATTATTTT
841520 AAATTACGAA
Statistics
Matches: 64, Mismatches: 14, Indels: 17
0.67 0.15 0.18
Matches are distributed among these distances:
15 2 0.03
16 10 0.16
17 19 0.30
18 12 0.19
19 7 0.11
20 7 0.11
21 3 0.05
22 4 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTAAATTATTTTTTAA
Found at i:841445 original size:16 final size:15
Alignment explanation
Indices: 841425--841521 Score: 53
Period size: 15 Copynumber: 6.7 Consensus size: 15
841415 TATTTAAATT
* *
841425 ATTTTTTAAATTTTA
1 ATTTTTTTAATTTAA
841440 A-TTTTTTAA-TT--
1 ATTTTTTTAATTTAA
*
841451 A-TTTT-TAATTTTA
1 ATTTTTTTAATTTAA
*
841464 ATTTTATTAATTTAA
1 ATTTTTTTAATTTAA
* *
841479 ATAATTTTAAATTTAA
1 AT-TTTTTTAATTTAA
*
841495 ATAATTATTTAATTTAA
1 AT--TTTTTTAATTTAA
*
841512 ATTATTTTAA
1 ATTTTTTTAA
841522 ATTACGAAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
10 3 0.05
11 7 0.11
13 3 0.05
14 10 0.16
15 16 0.25
16 12 0.19
17 13 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTTTAATTTAA
Found at i:841455 original size:25 final size:26
Alignment explanation
Indices: 841421--841475 Score: 87
Period size: 24 Copynumber: 2.2 Consensus size: 26
841411 TTTGTATTTA
841421 AATTATTTTTTAAATTTTAATTTT-TT
1 AATTATTTTTT-AATTTTAATTTTATT
841447 AATTA-TTTTTAATTTTAATTTTATT
1 AATTATTTTTTAATTTTAATTTTATT
841472 AATT
1 AATT
841476 TAAATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 12 0.43
25 11 0.39
26 5 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
AATTATTTTTTAATTTTAATTTTATT
Found at i:841483 original size:24 final size:25
Alignment explanation
Indices: 841433--841502 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
841423 TTATTTTTTA
***
841433 AATTTTAATTTT-TTAATTATTTTT
1 AATTTTAATTTTATTAATTATAAAT
841457 AATTTTAATTTTATTAATT-TAAAT
1 AATTTTAATTTTATTAATTATAAAT
* *
841481 AATTTTAAATTTAAATAATTAT
1 AATTTT-AATTTTATTAATTAT
841503 TTAATTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 20 0.53
25 17 0.45
26 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
AATTTTAATTTTATTAATTATAAAT
Found at i:841507 original size:24 final size:24
Alignment explanation
Indices: 841416--841514 Score: 69
Period size: 24 Copynumber: 4.1 Consensus size: 24
841406 TTATTTTTGT
* *
841416 ATTTAAATTATTTTTTAAATTTTAA
1 ATTTAAATAATTATTT-AATTTTAA
* * *
841441 TTTTTTAATTATT-TTTAATTTT-A
1 -ATTTAAATAATTATTTAATTTTAA
* * **
841464 ATTTTATTAATTTAAATAATTTTAA
1 ATTTAAATAA-TTATTTAATTTTAA
841489 ATTTAAATAATTATTTAA-TTTAA
1 ATTTAAATAATTATTTAATTTTAA
841512 ATT
1 ATT
841515 ATTTTAAATT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
22 7 0.12
23 11 0.19
24 19 0.32
25 12 0.20
26 10 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTTAAATAATTATTTAATTTTAA
Found at i:842521 original size:13 final size:13
Alignment explanation
Indices: 842503--842527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
842493 CATAACGTGT
842503 TGTATCGATACAA
1 TGTATCGATACAA
842516 TGTATCGATACA
1 TGTATCGATACA
842528 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:842543 original size:32 final size:33
Alignment explanation
Indices: 842483--842548 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
842473 TTCAACGATT
842483 TGTATCGATACATAACGTGTTGTATCGATACAA
1 TGTATCGATACATAACGTGTTGTATCGATACAA
** *
842516 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAACGTGTTGTATCGATACAA
842548 T
1 T
842549 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAACGTGTTGTATCGATACAA
Found at i:842607 original size:13 final size:13
Alignment explanation
Indices: 842589--842613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
842579 ATTACTCAAA
842589 TGTATCGATACAT
1 TGTATCGATACAT
842602 TGTATCGATACA
1 TGTATCGATACA
842614 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:846129 original size:22 final size:22
Alignment explanation
Indices: 846104--846152 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
846094 AATTTTAAAA
846104 AAATATTTTTAT-ATTAATATGT
1 AAATATTTTTATAATTAA-ATGT
* *
846126 AAAT-CTTTTATAATTAAATTT
1 AAATATTTTTATAATTAAATGT
846147 AAATAT
1 AAATAT
846153 AAAATATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
AAATATTTTTATAATTAAATGT
Found at i:847461 original size:13 final size:13
Alignment explanation
Indices: 847443--847469 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
847433 ACATTATGCT
847443 TTGTATCGATACA
1 TTGTATCGATACA
847456 TTGTATCGATACA
1 TTGTATCGATACA
847469 T
1 T
847470 GGACAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:849798 original size:22 final size:22
Alignment explanation
Indices: 849767--849844 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
849757 GCATCTTAGA
* *
849767 CATATGTACATTTAGTTATAGT
1 CATATATACATTCAGTTATAGT
* *
849789 TATATTTACATTCAGTTATAGT
1 CATATATACATTCAGTTATAGT
*
849811 CATATATACATTCGGTTATCA-T
1 CATATATACATTCAGTTAT-AGT
*
849833 CATATGTACATT
1 CATATATACATT
849845 TCACATGATT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 47 0.98
23 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (22 bp):
CATATATACATTCAGTTATAGT
Found at i:850216 original size:22 final size:22
Alignment explanation
Indices: 850191--850243 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
850181 CGTGTTTTAA
850191 TCATATGTATACTTCATTATAC
1 TCATATGTATACTTCATTATAC
* * **
850213 TCATATATATATTTCATTATGG
1 TCATATGTATACTTCATTATAC
850235 TCATATGTA
1 TCATATGTA
850244 CAGTTAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (22 bp):
TCATATGTATACTTCATTATAC
Found at i:850500 original size:20 final size:20
Alignment explanation
Indices: 850440--850501 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
850430 TTAGGGTTTT
* * *
850440 TATATATACATTTATTTATGC
1 TATATGTACATTTACTTAT-A
* * *
850461 TCATATGTCCATTCAGTTATA
1 T-ATATGTACATTTACTTATA
850482 TATATGTACATTTACTTATA
1 TATATGTACATTTACTTATA
850502 GCCATTATAC
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 16 0.50
21 2 0.06
22 14 0.44
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.48
Consensus pattern (20 bp):
TATATGTACATTTACTTATA
Found at i:855498 original size:64 final size:64
Alignment explanation
Indices: 855343--855511 Score: 171
Period size: 64 Copynumber: 2.6 Consensus size: 64
855333 AATAAAGTAG
* * * * ** *
855343 AACCTTACAACACTATCTTTCAAAGCTGAGATAGAAACCTCCCTATCTTTTCACGGGCTAAGCTA
1 AACCTT-CTACACTATCTTTTAAGGCTAAGATA-AAACCTCCCTATCTTTTCAAAGGCTAAGATA
855408 A
64 A
* * * *
855409 AACCTTTTTC-CTATCTTTTGCAGGCTAAGATAAAACCTCCCTATCTTTTACAAAGGTTAAGATA
1 AACCTTCTACACTATCTTTT-AAGGCTAAGATAAAACCTCCCTATCTTTT-CAAAGGCTAAGATA
*
855473 G
64 A
*
855474 AACC-TCTACACTATCTTTTAAGGCTAAGATAGAACCTC
1 AACCTTCTACACTATCTTTTAAGGCTAAGATAAAACCTC
855512 TCAATCACTT
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
64 45 0.54
65 33 0.39
66 6 0.07
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.31
Consensus pattern (64 bp):
AACCTTCTACACTATCTTTTAAGGCTAAGATAAAACCTCCCTATCTTTTCAAAGGCTAAGATAA
Found at i:855512 original size:32 final size:31
Alignment explanation
Indices: 855355--855513 Score: 119
Period size: 32 Copynumber: 5.0 Consensus size: 31
855345 CCTTACAACA
* *
855355 CTATCTTTCAAA-GCTGAGATAGAAACCTC-C
1 CTATCTTTTAAAGGCTAAGATAG-AACCTCTC
** * * *
855385 CTATCTTTTCACGGGCTAAGCTAAAACCTTTTTC
1 CTATCTTTT-AAAGGCTAAGATAGAACC--TCTC
** *
855419 CTATCTTTTGCAGGCTAAGATAAAACCTC-C
1 CTATCTTTTAAAGGCTAAGATAGAACCTCTC
*
855449 CTATCTTTTACAAAGGTTAAGATAGAACCTCTAC
1 CTATCTTTT--AAAGGCTAAGATAGAACCTCT-C
855483 ACTATCTTTT-AAGGCTAAGATAGAACCTCTC
1 -CTATCTTTTAAAGGCTAAGATAGAACCTCTC
855514 AATCACTTAG
Statistics
Matches: 103, Mismatches: 16, Indels: 19
0.75 0.12 0.14
Matches are distributed among these distances:
30 18 0.17
31 7 0.07
32 42 0.41
33 16 0.16
34 11 0.11
35 9 0.09
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (31 bp):
CTATCTTTTAAAGGCTAAGATAGAACCTCTC
Found at i:855775 original size:140 final size:140
Alignment explanation
Indices: 855523--855944 Score: 808
Period size: 140 Copynumber: 3.0 Consensus size: 140
855513 CAATCACTTA
855523 GAGAATTATACTCCAAATTCTTAAGTGATTTCTTAACAAGGTTGAACACAACCTTACAAAGAATA
1 GAGAATTATACTCCAAATTCTTAAGTGATTTCTTAACAAGGTTGAACACAACCTTACAAAGAATA
*
855588 AATAATCACAAACTAAATAGACTTCTACAAGGTTGGTGTTTGTGGAAGTTTGACTACAAAGAAAT
66 AATAATCACAAACTAAATAGACCTCTACAAGGTTGGTGTTTGTGGAAGTTTGACTACAAAGAAAT
855653 AAAAGAGCTT
131 AAAAGAGCTT
855663 GAGAATTATACTCCAAATTCTTAAGTGATTTCTTAACAAGGTTGAACACAACCTTACAAAGAATA
1 GAGAATTATACTCCAAATTCTTAAGTGATTTCTTAACAAGGTTGAACACAACCTTACAAAGAATA
*
855728 AATAATCACAAACTAAATAGGCCTCTACAAGGTTGGTGTTTGTGGAAGTTTGACTACAAAGAAAT
66 AATAATCACAAACTAAATAGACCTCTACAAGGTTGGTGTTTGTGGAAGTTTGACTACAAAGAAAT
855793 AAAAGAGCTT
131 AAAAGAGCTT
*
855803 GAGAATTATACTCCAAATTCTTAAGTGATTTCTTAACAAGGTTGAACACAACTTTACAAAGAATA
1 GAGAATTATACTCCAAATTCTTAAGTGATTTCTTAACAAGGTTGAACACAACCTTACAAAGAATA
*
855868 AATATTCACAAACTAAATAGACCTCTACAAGGTTGGTGTTTGTGGAAGTTTGACTACAAAGAAAT
66 AATAATCACAAACTAAATAGACCTCTACAAGGTTGGTGTTTGTGGAAGTTTGACTACAAAGAAAT
855933 AAAAGAGCTT
131 AAAAGAGCTT
855943 GA
1 GA
855945 AAGAATAACA
Statistics
Matches: 277, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 277 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (140 bp):
GAGAATTATACTCCAAATTCTTAAGTGATTTCTTAACAAGGTTGAACACAACCTTACAAAGAATA
AATAATCACAAACTAAATAGACCTCTACAAGGTTGGTGTTTGTGGAAGTTTGACTACAAAGAAAT
AAAAGAGCTT
Found at i:856348 original size:19 final size:20
Alignment explanation
Indices: 856324--856373 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
856314 AATTTAGTGT
*
856324 GTATCGATACCAAG-AACAC
1 GTATCGATACAAAGCAACAC
* *
856343 GTATCGATACAAAGCAATAT
1 GTATCGATACAAAGCAACAC
856363 GTATCGATACA
1 GTATCGATACA
856374 TATGGGCGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (20 bp):
GTATCGATACAAAGCAACAC
Found at i:860148 original size:10 final size:10
Alignment explanation
Indices: 860112--860141 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
860102 CAGAATGGTA
860112 GAAAGAAAAG
1 GAAAGAAAAG
860122 GAAAGAAAAG
1 GAAAGAAAAG
860132 GAAAGAAAAG
1 GAAAGAAAAG
860142 AATAGAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:862218 original size:17 final size:17
Alignment explanation
Indices: 862183--862229 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
862173 CATTTTCTTT
* *
862183 AATTT-TTTATAAAATA
1 AATTTATTTTTAATATA
862199 AATTTATTTTTAATATA
1 AATTTATTTTTAATATA
* *
862216 AATATAATTTTAAT
1 AATTTATTTTTAAT
862230 TATTATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTATTTTTAATATA
Found at i:862224 original size:22 final size:20
Alignment explanation
Indices: 862184--862225 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
862174 ATTTTCTTTA
*
862184 ATTTTTTATAAAATAAATTT
1 ATTTTTAATAAAATAAATTT
862204 ATTTTTAATATAAATATAATTT
1 ATTTTTAATA-AAATA-AATTT
862226 TAATTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 5 0.26
22 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTAATAAAATAAATTT
Found at i:862230 original size:28 final size:28
Alignment explanation
Indices: 862202--862254 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
862192 TAAAATAAAT
862202 TTATT-TTTAATATAAATATAATTTTAA
1 TTATTATTTAATATAAATATAATTTTAA
*
862229 TTATTATTTATTATAAATATAATTTT
1 TTATTATTTAATATAAATATAATTTT
862255 TTTAACATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATTATTTAATATAAATATAATTTTAA
Found at i:863112 original size:19 final size:21
Alignment explanation
Indices: 863078--863116 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
863068 ATTAATATTC
863078 AATTATTTATTATATTTTAAG
1 AATTATTTATTATATTTTAAG
863099 AATT-TTTA-TATATTTTAA
1 AATTATTTATTATATTTTAA
863117 TTTTACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 4 0.22
21 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
AATTATTTATTATATTTTAAG
Found at i:863696 original size:72 final size:72
Alignment explanation
Indices: 863482--863696 Score: 297
Period size: 72 Copynumber: 3.0 Consensus size: 72
863472 TTATCAAACC
* * * * *
863482 AAGAGTTCGATAAGGTCCAAATGCATTTTTAATATATAAAACTAATGATAATTAATATATTTTT-
1 AAGAGTTCGATACGGTCTAAATGCACTTTTAATGTATAAACCTAATGATAATTAATATATTTTTA
*
863546 TTAAACT
66 TTAAATT
* * * *
863553 AAGAGTTCGATACGGTCTAAATGCACTTTTAATGCATAAACTTAATAATAATGAATATATTTTTA
1 AAGAGTTCGATACGGTCTAAATGCACTTTTAATGTATAAACCTAATGATAATTAATATATTTTTA
*
863618 TCAAATT
66 TTAAATT
* * *
863625 AAGAGTTTGATACGGTCTAAATACACTTTTAGTGTATAAACCTAATGATAATTAATATATTTTTA
1 AAGAGTTCGATACGGTCTAAATGCACTTTTAATGTATAAACCTAATGATAATTAATATATTTTTA
863690 TTAAATT
66 TTAAATT
863697 TGATGAGAAT
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
71 55 0.44
72 69 0.56
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (72 bp):
AAGAGTTCGATACGGTCTAAATGCACTTTTAATGTATAAACCTAATGATAATTAATATATTTTTA
TTAAATT
Found at i:863885 original size:17 final size:17
Alignment explanation
Indices: 863843--863885 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
863833 TCTGAAAAAC
863843 TAAAGAATATTATTTTTT
1 TAAA-AATATTATTTTTT
**
863861 TATTAATATTATTTTTT
1 TAAAAATATTATTTTTT
863878 TAAAAATA
1 TAAAAATA
863886 AATGTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TAAAAATATTATTTTTT
Found at i:863940 original size:17 final size:18
Alignment explanation
Indices: 863918--863955 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
863908 ATATAATTTT
* *
863918 AAATTTTTA-TTACAATA
1 AAATTTTCATTTAAAATA
863935 AAATTTTCATTTAAAATA
1 AAATTTTCATTTAAAATA
863953 AAA
1 AAA
863956 AAATCTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTTTCATTTAAAATA
Found at i:863997 original size:23 final size:24
Alignment explanation
Indices: 863962--864016 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
863952 AAAAAAATCT
*
863962 TAATCAAAAT-AAAAACTAATTTA
1 TAATTAAAATAAAAAACTAATTTA
* *
863985 TAATTAAATTAAAAAACTAATTTT
1 TAATTAAAATAAAAAACTAATTTA
*
864009 TAAGTAAA
1 TAATTAAA
864017 CAAAATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (24 bp):
TAATTAAAATAAAAAACTAATTTA
Found at i:864893 original size:2 final size:2
Alignment explanation
Indices: 864886--864930 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
864876 ATTATTTTGA
864886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
864928 AT A
1 AT A
864931 GTTCTTGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:865044 original size:15 final size:15
Alignment explanation
Indices: 865020--865049 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
865010 TGCAACAAAA
*
865020 ATTAATATTGAATTT
1 ATTAAAATTGAATTT
865035 ATTAAAATTGAATTT
1 ATTAAAATTGAATTT
865050 TATAGAACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
ATTAAAATTGAATTT
Found at i:866623 original size:23 final size:22
Alignment explanation
Indices: 866597--866652 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
866587 TAAAAATTAT
* *
866597 TTTTATATTAATATTTATATATA
1 TTTTATATTAA-ATTTAAATAAA
866620 TTTTATAATTAAATTTAAATAAA
1 TTTTAT-ATTAAATTTAAATAAA
*
866643 TTTTTTATTA
1 TTTTATATTA
866653 TATAAACAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 20 0.69
24 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATATTAAATTTAAATAAA
Found at i:872413 original size:36 final size:38
Alignment explanation
Indices: 872373--872445 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
872363 AGTTAGTCCG
**
872373 ATTTAAATT-ATTATTTAAA-TAATAAAAATATTTTAT
1 ATTTAAATTAATTATAAAAATTAATAAAAATATTTTAT
*
872409 ATTTAAATTAAATTATAAAAATTAATATAAATATTTT
1 ATTTAAATT-AATTATAAAAATTAATAAAAATATTTT
872446 TAATATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 9 0.29
38 8 0.26
39 14 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (38 bp):
ATTTAAATTAATTATAAAAATTAATAAAAATATTTTAT
Found at i:872872 original size:21 final size:20
Alignment explanation
Indices: 872840--872916 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 20
872830 AAACTATAAC
872840 TATAAT-TATTTTATTTTAT
1 TATAATATATTTTATTTTAT
*
872859 TTTAACTATATTTTATTATTA-
1 TATAA-TATATTTTATT-TTAT
872880 TATAATA-A--TTATTTTAT
1 TATAATATATTTTATTTTAT
*
872897 TATAAATTTATTTTATTTTA
1 TAT-AATATATTTTATTTTA
872917 GTAAACTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
16 3 0.06
17 8 0.17
18 3 0.06
19 6 0.13
20 3 0.06
21 21 0.45
22 3 0.06
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (20 bp):
TATAATATATTTTATTTTAT
Found at i:872907 original size:16 final size:17
Alignment explanation
Indices: 872870--872913 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
872860 TTAACTATAT
872870 TTTATTATTA-TATAATA
1 TTTATT-TTATTATAATA
*
872887 ATTATTTTATTATAA-A
1 TTTATTTTATTATAATA
872903 TTTATTTTATT
1 TTTATTTTATT
872914 TTAGTAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTTTATTATAATA
Found at i:873082 original size:17 final size:17
Alignment explanation
Indices: 873059--873107 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
873049 TTTAGTTCTG
873059 ATTATTTTTAAATTTAA-
1 ATTA-TTTTAAATTTAAT
* *
873076 GTTATTTTAAGTTTAAT
1 ATTATTTTAAATTTAAT
873093 ATTATTTTAAATTTA
1 ATTATTTTAAATTTA
873108 GATTTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
ATTATTTTAAATTTAAT
Found at i:873104 original size:33 final size:34
Alignment explanation
Indices: 873059--873124 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
873049 TTTAGTTCTG
873059 ATTATTTTTAAATTTA-AGTTATTTTA-AGTTTAAT
1 ATTATTTTTAAATTTAGA-TT-TTTTAGAGTTTAAT
873093 ATTA-TTTTAAATTTAGATTTTTTAGAGTTTAA
1 ATTATTTTTAAATTTAGATTTTTTAGAGTTTAA
873125 ATAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 5 0.17
33 20 0.67
34 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (34 bp):
ATTATTTTTAAATTTAGATTTTTTAGAGTTTAAT
Found at i:873727 original size:24 final size:24
Alignment explanation
Indices: 873703--873749 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
873693 TGAGCTCTTA
*
873703 TTTATTTATTTTAATAATTTTTTAT
1 TTTATTT-TGTTAATAATTTTTTAT
*
873728 TTTATTTTGTTATTAATTTTTT
1 TTTATTTTGTTAATAATTTTTT
873750 TTATAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTATTTTGTTAATAATTTTTTAT
Found at i:873746 original size:12 final size:12
Alignment explanation
Indices: 873717--873778 Score: 56
Period size: 12 Copynumber: 4.9 Consensus size: 12
873707 TTTATTTTAA
873717 TAATTTTTTATT
1 TAATTTTTTATT
*
873729 TTATTTTGTTA-T
1 TAATTTT-TTATT
873741 TAATTTTTT-TT
1 TAATTTTTTATT
873752 ATAAGTTTTTATATT
1 -TAA-TTTTT-TATT
873767 ATAATTTTTTAT
1 -TAATTTTTTAT
873779 GTTATATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
11 3 0.07
12 16 0.38
13 11 0.26
14 6 0.14
15 6 0.14
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TAATTTTTTATT
Found at i:873768 original size:15 final size:15
Alignment explanation
Indices: 873750--873784 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
873740 TTAATTTTTT
873750 TTATAAGTTTTTATA
1 TTATAAGTTTTTATA
* *
873765 TTATAATTTTTTATG
1 TTATAAGTTTTTATA
873780 TTATA
1 TTATA
873785 TTATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (15 bp):
TTATAAGTTTTTATA
Found at i:874064 original size:20 final size:20
Alignment explanation
Indices: 874041--874093 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
874031 TGAACATATT
874041 TTTATAAATTAAATATTTTA
1 TTTATAAATTAAATATTTTA
* * *
874061 TTTATCATTTATATATTTTA
1 TTTATAAATTAAATATTTTA
*
874081 TTT-TAAATAAAAT
1 TTTATAAATTAAAT
874094 CATATAATTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATAAATTAAATATTTTA
Found at i:874216 original size:32 final size:32
Alignment explanation
Indices: 874179--874246 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
874169 AAGTTTTGAG
* * * *
874179 TTTTTTGATTTTGAATTTTTTTAGACTTAAAT
1 TTTTTTGAGTTCGAATTTATTTAAACTTAAAT
*
874211 TTTTTTGAGTTCGAATTTATTTAAATTTAAAT
1 TTTTTTGAGTTCGAATTTATTTAAACTTAAAT
874243 TTTT
1 TTTT
874247 AATTTTTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (32 bp):
TTTTTTGAGTTCGAATTTATTTAAACTTAAAT
Found at i:874270 original size:10 final size:10
Alignment explanation
Indices: 874252--874295 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
874242 TTTTTAATTT
874252 TTTAAATTAA
1 TTTAAATTAA
874262 TTTAAATTAA
1 TTTAAATTAA
* *
874272 ATTAAATCAA
1 TTTAAATTAA
*
874282 ATTAAATTTAA
1 TTTAAA-TTAA
874293 TTT
1 TTT
874296 TGAATTAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 24 0.83
11 5 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTAAATTAA
Found at i:874273 original size:15 final size:15
Alignment explanation
Indices: 874253--874295 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
874243 TTTTAATTTT
874253 TTAAATTAATTTAAA
1 TTAAATTAATTTAAA
* *
874268 TTAAATTAAATCAAA
1 TTAAATTAATTTAAA
874283 TTAAATTTAATTT
1 TTAAA-TTAATTT
874296 TGAATTAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATTAATTTAAA
Found at i:874493 original size:4 final size:4
Alignment explanation
Indices: 874486--874516 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
874476 CATCCAAGAT
*
874486 ATTA ATTA ATTA ATTA ATTA GTTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
874517 TATTTCTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:874721 original size:17 final size:16
Alignment explanation
Indices: 874699--874755 Score: 62
Period size: 16 Copynumber: 3.4 Consensus size: 16
874689 TGTATCGGAT
874699 TTATTTATAATTTAAAA
1 TTATTTATAATTT-AAA
*
874716 TTATTTTTTAATTTAAA
1 TTA-TTTATAATTTAAA
*
874733 TTATTT-TAAATTTTAA
1 TTATTTAT-AATTTAAA
874749 TTATTTA
1 TTATTTA
874756 AGTTTGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 1 0.03
16 16 0.46
17 9 0.26
18 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTATAATTTAAA
Found at i:874729 original size:18 final size:17
Alignment explanation
Indices: 874706--874754 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
874696 GATTTATTTA
874706 TAATTTAAAATTATTTTT
1 TAATTT-AAATTATTTTT
874724 TAATTTAAATTA-TTTT
1 TAATTTAAATTATTTTT
* *
874740 AAATTTTAATTATTT
1 TAATTTAAATTATTT
874755 AAGTTTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 14 0.50
17 8 0.29
18 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TAATTTAAATTATTTTT
Found at i:875525 original size:19 final size:19
Alignment explanation
Indices: 875499--875539 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
875489 TATTTAAGAG
*
875499 ATTATTATATA-TTAAA-A
1 ATTATTTTATATTTAAATA
*
875516 ATTATTTTATCTTTAAATA
1 ATTATTTTATATTTAAATA
875535 ATTAT
1 ATTAT
875540 CTTGAAGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATTTTATATTTAAATA
Found at i:876087 original size:22 final size:23
Alignment explanation
Indices: 876050--876102 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
876040 TTTTAAAAAA
876050 ATTTAAAAATTAATAT-TTT-TT
1 ATTTAAAAATTAATATATTTCTT
*
876071 ATTTAATAAATTTATATATTTCTT
1 ATTTAA-AAATTAATATATTTCTT
876095 ATCTTAAA
1 AT-TTAAA
876103 TTTTTAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 3 0.11
24 5 0.19
25 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTAAAAATTAATATATTTCTT
Found at i:876089 original size:24 final size:21
Alignment explanation
Indices: 876050--876102 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 21
876040 TTTTAAAAAA
*
876050 ATTTAAAAATTAATATTTTTT
1 ATTTAAAAATTAATATTTCTT
876071 ATTTAATAAATTTATATATTTCTT
1 ATTTAA-AAA-TTA-ATATTTCTT
876095 ATCTTAAA
1 AT-TTAAA
876103 TTTTTAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 6 0.22
22 3 0.11
23 3 0.11
24 11 0.41
25 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAAAAATTAATATTTCTT
Found at i:877238 original size:23 final size:22
Alignment explanation
Indices: 877211--877254 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
877201 TATGTATTCA
*
877211 TATTATGTTTATATTATTTTTCG
1 TATTATATTTATA-TATTTTTCG
*
877234 TATTATATTTTTATATTTTTC
1 TATTATATTTATATATTTTTC
877255 ATATATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TATTATATTTATATATTTTTCG
Found at i:877735 original size:15 final size:15
Alignment explanation
Indices: 877712--877747 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
877702 TTATCATAAT
*
877712 AATTCAATTTAAAAA
1 AATTAAATTTAAAAA
877727 AATTAAATTTAAAAA
1 AATTAAATTTAAAAA
877742 AATTAA
1 AATTAA
877748 TACAGTCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTAAATTTAAAAA
Found at i:877832 original size:31 final size:32
Alignment explanation
Indices: 877797--877859 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
877787 TTCAAAGTAT
* *
877797 TATAAATTTTTATATATTAAT-AATTTTTTTA
1 TATAAACTTTAATATATTAATGAATTTTTTTA
* *
877828 TATAAACTTTAATATATTCATGCATTTTTTTA
1 TATAAACTTTAATATATTAATGAATTTTTTTA
877860 GTCTTCATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (32 bp):
TATAAACTTTAATATATTAATGAATTTTTTTA
Found at i:878043 original size:17 final size:18
Alignment explanation
Indices: 877994--878045 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
877984 ATTTAAAAAT
877994 TAAATTATTATATATATATA
1 TAAA-TATTATAT-TATATA
*
878014 TATATATCATATATTA-ATA
1 TAAATAT--TATATTATATA
878033 TAAATATTATATT
1 TAAATATTATATT
878046 TAAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 6 0.21
19 12 0.43
20 5 0.18
21 5 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATATTATATTATATA
Found at i:878637 original size:19 final size:18
Alignment explanation
Indices: 878610--878684 Score: 68
Period size: 19 Copynumber: 4.2 Consensus size: 18
878600 ATTTTAATCG
878610 ATTTT-ATTAATTTTAAA
1 ATTTTAATTAATTTTAAA
*
878627 TTTTTTAATTAATTTTAAA
1 -ATTTTAATTAATTTTAAA
*
878646 ATTTTATTTAA-TTTAATTA
1 ATTTTAATTAATTTTAA--A
878665 ATTTTAA--AATTTTTAAA
1 ATTTTAATTAA-TTTTAAA
878682 ATT
1 ATT
878685 AAACCAAACA
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
17 11 0.23
18 13 0.27
19 24 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTAATTAATTTTAAA
Found at i:878648 original size:27 final size:26
Alignment explanation
Indices: 878626--878677 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
878616 TTAATTTTAA
878626 ATTT-TTTAATTAATTTTAAAATTTT
1 ATTTATTTAATTAATTTTAAAATTTT
878651 ATTTAATTTAATTAATTTTAAAATTTT
1 ATTT-ATTTAATTAATTTTAAAATTTT
878678 TAAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 4 0.16
27 21 0.84
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTATTTAATTAATTTTAAAATTTT
Found at i:878958 original size:26 final size:26
Alignment explanation
Indices: 878940--878992 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
878930 TAAATATTTT
878940 TAAATAA-TTTATTTATTAAATATAA
1 TAAATAACTTTATTTATTAAATATAA
878965 TAAATAACTTTATTTAATT--ATATAA
1 TAAATAACTTTATTT-ATTAAATATAA
878990 TAA
1 TAA
878993 TTAGTTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 16 0.62
26 7 0.27
27 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TAAATAACTTTATTTATTAAATATAA
Found at i:879013 original size:23 final size:23
Alignment explanation
Indices: 878987--879054 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
878977 TTTAATTATA
* *
878987 TAATAATTAGTTAAGTAATATTT
1 TAATAAATAGTTAAATAATATTT
*
879010 TAATAAATATTTAAATAATATATAT
1 TAATAAATAGTTAAATAATAT-T-T
*
879035 TAA-AAATA-TTAAATATTATT
1 TAATAAATAGTTAAATAATATT
879055 AAAATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 1 0.03
23 28 0.72
24 6 0.15
25 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (23 bp):
TAATAAATAGTTAAATAATATTT
Found at i:879049 original size:31 final size:30
Alignment explanation
Indices: 879013--879074 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
879003 AATATTTTAA
*
879013 TAAATATT-TAAATAATATATATTAAAAATAT
1 TAAATATTATAAA-AATATATA-AAAAAATAT
*
879044 TAAATATTATTAAAATATATAAAAAAATAT
1 TAAATATTATAAAAATATATAAAAAAATAT
879074 T
1 T
879075 TATTATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.32
31 16 0.57
32 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TAAATATTATAAAAATATATAAAAAAATAT
Found at i:879066 original size:19 final size:20
Alignment explanation
Indices: 879026--879063 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
879016 ATATTTAAAT
879026 AATATATATTAAAAATATTA
1 AATATATATTAAAAATATTA
879046 AATAT-TATTAAAATATAT
1 AATATATATTAAAA-ATAT
879064 AAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATATATTAAAAATATTA
Found at i:879193 original size:20 final size:20
Alignment explanation
Indices: 879170--879219 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
879160 TATCTTATGG
879170 TAAT-TTTAACCTTATTATTA
1 TAATATTTAACCTTA-TATTA
**
879190 TAATATTTAATTTTATATTA
1 TAATATTTAACCTTATATTA
*
879210 TAATAATTAA
1 TAATATTTAA
879220 TTTCATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATATTTAACCTTATATTA
Found at i:879229 original size:23 final size:20
Alignment explanation
Indices: 879185--879222 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
879175 TTAACCTTAT
*
879185 TATTATAATATTTAATTTTA
1 TATTATAATAATTAATTTTA
879205 TATTATAATAATTAATTT
1 TATTATAATAATTAATTT
879223 CATTATAAGT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATAATAATTAATTTTA
Found at i:879281 original size:2 final size:2
Alignment explanation
Indices: 879274--879302 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
879264 TTACAAGAAA
879274 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
879303 TTGGGGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:879854 original size:11 final size:12
Alignment explanation
Indices: 879836--879891 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 12
879826 ATATGAACAC
879836 AATATAAAAAAT
1 AATATAAAAAAT
*
879848 AAT-TAAAATAT
1 AATATAAAAAAT
879859 AATATGATAAAAAT
1 AATAT-A-AAAAAT
* *
879873 AATAT-TAATAT
1 AATATAAAAAAT
879884 AATATAAA
1 AATATAAA
879892 TATATAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
11 19 0.54
12 5 0.14
13 1 0.03
14 10 0.29
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (12 bp):
AATATAAAAAAT
Found at i:879928 original size:27 final size:26
Alignment explanation
Indices: 879874--879999 Score: 89
Period size: 27 Copynumber: 4.7 Consensus size: 26
879864 GATAAAAATA
*
879874 ATATT-AATATAATATAAATATATAAAT
1 ATATTAAATAT-ATATAAAT-TATTAAT
*
879901 ATCTTAATATATATATAAATTATTAAT
1 ATATTAA-ATATATATAAATTATTAAT
* * *
879928 ATATTACAATTTATATAAATAAATAAT
1 ATATTA-AATATATATAAATTATTAAT
* **
879955 ATTTTAAATATAATTATAAAAAATTAAT
1 ATATTAAATAT-A-TATAAATTATTAAT
879983 A-A--AAATAATATATAAAT
1 ATATTAAAT-ATATATAAAT
880000 CTATAAATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
24 6 0.07
25 5 0.06
26 6 0.07
27 37 0.46
28 23 0.28
29 4 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (26 bp):
ATATTAAATATATATAAATTATTAAT
Found at i:879973 original size:24 final size:25
Alignment explanation
Indices: 879946--879999 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
879936 ATTTATATAA
* *
879946 ATAAATAATATT-TTAAATATAAT-T
1 ATAAATAA-ATTAATAAAAATAATAT
879970 ATAAA-AAATTAATAAAAATAATAT
1 ATAAATAAATTAATAAAAATAATAT
879994 ATAAAT
1 ATAAAT
880000 CTATAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 3 0.12
23 11 0.44
24 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAAATAAATTAATAAAAATAATAT
Found at i:880166 original size:2 final size:2
Alignment explanation
Indices: 880159--880184 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
880149 TACTTCAACA
880159 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
880185 TAAAAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:880934 original size:3 final size:3
Alignment explanation
Indices: 880920--880962 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
880910 ATTCATTCAA
880920 ATT ATCT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
880963 TCTTCCTGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:881169 original size:2 final size:2
Alignment explanation
Indices: 881158--881203 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
881148 ATCATGCTTC
881158 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
881199 AT AT A
1 AT AT A
881204 AATACGCTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:881279 original size:38 final size:37
Alignment explanation
Indices: 881245--881314 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
881235 TCTTTAATAC
**
881245 AAATATATTTATTAT-TTTAT-TTTATTTATATTTAAA
1 AAATATATTT-TTATATTTATATTTAAATATATTTAAA
881281 AAATATATTTTTATATTTATATTTAAATATATTT
1 AAATATATTTTTATATTTATATTTAAATATATTT
881315 TATTAAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 4 0.13
36 15 0.50
37 11 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (37 bp):
AAATATATTTTTATATTTATATTTAAATATATTTAAA
Done.