Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold105
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: 2918491
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.33
Warning! 41655 characters in sequence are not A, C, G, or T
File 5 of 16
Found at i:690415 original size:18 final size:18
Alignment explanation
Indices: 690394--690430 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
690384 TAATGACATA
690394 TTAAA-ATTTTATTAATAT
1 TTAAATATTTT-TTAATAT
690412 TTAAATATTTTTTAATAT
1 TTAAATATTTTTTAATAT
690430 T
1 T
690431 ATTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATATTTTTTAATAT
Found at i:691188 original size:19 final size:19
Alignment explanation
Indices: 691142--691191 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
691132 AATTTCATAG
691142 TTTAAAATAAACGGATAATT
1 TTTAAAA-AAACGGATAATT
691162 TATTAAAAAAA-GTGATAATT
1 T-TTAAAAAAACG-GATAATT
691182 TTTAAAAAAA
1 TTTAAAAAAA
691192 AATTATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.36
20 12 0.43
21 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (19 bp):
TTTAAAAAAACGGATAATT
Found at i:691420 original size:13 final size:13
Alignment explanation
Indices: 691387--691433 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
691377 TATTATTATT
*
691387 TTAATTAAAATT-
1 TTAATTAAATTTA
*
691399 TTAAATAAATTTA
1 TTAATTAAATTTA
*
691412 TTAATTAAATTAA
1 TTAATTAAATTTA
691425 TATAATTAA
1 T-TAATTAA
691434 CGATATATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 10 0.34
13 12 0.41
14 7 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTAATTAAATTTA
Found at i:692002 original size:2 final size:2
Alignment explanation
Indices: 691995--692024 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
691985 TCAATCAATC
691995 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
692025 TTCCCCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:692626 original size:21 final size:19
Alignment explanation
Indices: 692590--692630 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
692580 TCACTATAAA
692590 ATTTAAAATTTTTTAAAAT
1 ATTTAAAATTTTTTAAAAT
692609 ATTTAATAATTATTTTAAAAT
1 ATTTAA-AATT-TTTTAAAAT
692630 A
1 A
692631 ATAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAAAATTTTTTAAAAT
Found at i:694555 original size:30 final size:31
Alignment explanation
Indices: 694514--694575 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
694504 AATTATGCAT
*
694514 GGAATATTC-TTTTTTCTTCAAGTGAATTAA
1 GGAATAGTCTTTTTTTCTTCAAGTGAATTAA
694544 GGAATAGTCTTTTTTTCTTCAAGTGAATTAA
1 GGAATAGTCTTTTTTTCTTCAAGTGAATTAA
694575 G
1 G
694576 TCAAATAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (31 bp):
GGAATAGTCTTTTTTTCTTCAAGTGAATTAA
Found at i:694678 original size:3 final size:3
Alignment explanation
Indices: 694670--694694 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
694660 GAAGAATTAC
694670 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
694695 GTAAAACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:697883 original size:2 final size:2
Alignment explanation
Indices: 697841--697866 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
697831 GTGAAAATTC
697841 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
697867 GTTTGATAGT
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:703121 original size:84 final size:84
Alignment explanation
Indices: 703018--703270 Score: 295
Period size: 84 Copynumber: 3.0 Consensus size: 84
703008 AAGATGTACC
* * * *
703018 ACAAGTAGAAGCACACCTAGCTGAGTATAAAACTTCTGCTGCTGCA-CTGGTTCAAGATGAAAAA
1 ACAAGTAGAAGCACCCCTAGCTGAGGATAAAACTCCTGCTGCTGCATC-AGTTCAAGATGAAAAA
703082 ATTGGA-GT-TGCTCCTGATGA
65 ATTGGACGTAT--TCCTGATGA
* * *
703102 GCAAGTAGAAGCACCCCTAGCTGAGGATAAAACTCCTTCTGCTGCATCAGTTCAAGATGAAGAAA
1 ACAAGTAGAAGCACCCCTAGCTGAGGATAAAACTCCTGCTGCTGCATCAGTTCAAGATGAAAAAA
703167 TTGGACGTATTCCTGATGA
66 TTGGACGTATTCCTGATGA
* * *
703186 ACAAGTACAAACACCTCC-AGCTGAGGATAAAACTCCCT-CTGCTGCATCCA-TTCAAGATGAAG
1 ACAAGTAGAAGCACC-CCTAGCTGAGGATAAAACT-CCTGCTGCTGCAT-CAGTTCAAGATGAAA
*
703248 AAGTTGGA-GCTATTCCTGATGA
63 AAATTGGACG-TATTCCTGATGA
703270 A
1 A
703271 AATGGCAGTG
Statistics
Matches: 151, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
83 1 0.01
84 139 0.92
85 10 0.07
86 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (84 bp):
ACAAGTAGAAGCACCCCTAGCTGAGGATAAAACTCCTGCTGCTGCATCAGTTCAAGATGAAAAAA
TTGGACGTATTCCTGATGA
Found at i:709859 original size:2 final size:2
Alignment explanation
Indices: 709852--709880 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
709842 AATCAAACAA
709852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
709881 AAATATGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:710864 original size:30 final size:31
Alignment explanation
Indices: 710801--710864 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
710791 TTTCATTAAT
* * *
710801 TTTTAAAATTTTAAAAATATATTTTTTAGAA
1 TTTTAAAAATTTAAAAATATATTTTCTAAAA
710832 TTTTAAAAATTT-AAAATAT-TATTTCTAAAA
1 TTTTAAAAATTTAAAAATATAT-TTTCTAAAA
710862 TTT
1 TTT
710865 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 17 0.59
31 11 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (31 bp):
TTTTAAAAATTTAAAAATATATTTTCTAAAA
Found at i:711431 original size:3 final size:3
Alignment explanation
Indices: 711423--711448 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
711413 TCAGGCATTA
711423 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
711449 GTAGCCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:715850 original size:27 final size:25
Alignment explanation
Indices: 715808--715859 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
715798 TTTAAAAGTA
*
715808 ATTTTTTAAAATTATTATATAATAAT
1 ATTTTTTAAAATTATTA-AGAATAAT
715834 ATTTTTGTCAAAA-TATTAAGAATAAT
1 ATTTTT-T-AAAATTATTAAGAATAAT
715860 GAACAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 13 0.57
27 6 0.26
28 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (25 bp):
ATTTTTTAAAATTATTAAGAATAAT
Found at i:718694 original size:13 final size:15
Alignment explanation
Indices: 718657--718691 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
718647 TTAAAAAATA
*
718657 AATATATTTATATTT
1 AATATATTTATATAT
718672 AATATATTTATATAT
1 AATATATTTATATAT
718687 AATAT
1 AATAT
718692 TTAAATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATATATTTATATAT
Found at i:723335 original size:2 final size:2
Alignment explanation
Indices: 723328--723367 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
723318 TACACTTACC
*
723328 TA TA TA TA -A AA 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 TA TA TA TA T
723368 CTACGAATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:723572 original size:25 final size:25
Alignment explanation
Indices: 723524--723592 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
723514 AGTTATTTAA
* *
723524 TATTTATATTTTATTAATTAAAAATAT
1 TATTT-TA-TTTATTATTTTAAAATAT
*
723551 TATTTTATTTATTATTTTAAAATTT
1 TATTTTATTTATTATTTTAAAATAT
*
723576 TA-GTTATTT-TTATTTTA
1 TATTTTATTTATTATTTTA
723593 TATTTAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.21
24 6 0.16
25 17 0.45
26 2 0.05
27 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (25 bp):
TATTTTATTTATTATTTTAAAATAT
Found at i:724658 original size:40 final size:36
Alignment explanation
Indices: 724587--724667 Score: 90
Period size: 36 Copynumber: 2.1 Consensus size: 36
724577 TTAATAAAAA
* *
724587 AATTATAATTTAAAAATAAAAACTTATAAATACTTG
1 AATTATAATTTAAAAATAAAAAATTAAAAATACTTG
* *
724623 AATTATAATTTAAAATATAATAAAATATTAAAAATATTTT
1 AATTATAATTTAAAA-AT-A-AAAA-ATTAAAAATACTTG
724663 AATTA
1 AATTA
724668 ATATTTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 15 0.41
37 2 0.05
38 1 0.03
39 4 0.11
40 15 0.41
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (36 bp):
AATTATAATTTAAAAATAAAAAATTAAAAATACTTG
Found at i:725617 original size:18 final size:19
Alignment explanation
Indices: 725581--725619 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
725571 AAATTTAATA
725581 ATTTAAATATTCGTATTAT
1 ATTTAAATATTCGTATTAT
*
725600 ATTTAAATATT-TTATTAT
1 ATTTAAATATTCGTATTAT
725618 AT
1 AT
725620 CATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTTAAATATTCGTATTAT
Found at i:725692 original size:9 final size:10
Alignment explanation
Indices: 725672--725713 Score: 61
Period size: 9 Copynumber: 4.3 Consensus size: 10
725662 TATATAATAC
725672 TTTATATTAT
1 TTTATATTAT
725682 TTTAT-TTAT
1 TTTATATTAT
725691 TTTATAATTAT
1 TTTAT-ATTAT
725702 TTTA-ATTAT
1 TTTATATTAT
725711 TTT
1 TTT
725714 TTTCATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 17 0.57
10 5 0.17
11 8 0.27
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTATATTAT
Found at i:725702 original size:20 final size:19
Alignment explanation
Indices: 725672--725713 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
725662 TATATAATAC
*
725672 TTTATATTATTTTATTTAT
1 TTTATATTATTTTAATTAT
725691 TTTATAATTATTTTAATTAT
1 TTTAT-ATTATTTTAATTAT
725711 TTT
1 TTT
725714 TTTCATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATATTATTTTAATTAT
Found at i:726268 original size:32 final size:33
Alignment explanation
Indices: 726206--726268 Score: 76
Period size: 32 Copynumber: 1.9 Consensus size: 33
726196 TATATTTTTT
*
726206 ATAATTAATAAATAAATATTATACATATAAAAA
1 ATAATTAATAAATAAATATTATAAATATAAAAA
* *
726239 ATAA-TAATAAATATATTTTA-AAATAATAAA
1 ATAATTAATAAATAAATATTATAAAT-ATAAA
726269 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
31 3 0.12
32 19 0.73
33 4 0.15
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (33 bp):
ATAATTAATAAATAAATATTATAAATATAAAAA
Found at i:726623 original size:28 final size:29
Alignment explanation
Indices: 726592--726649 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
726582 TTATATCATC
*
726592 TCAAAATTTAAATTTAAA-TCTTTTAATT
1 TCAAAATTTAAACTTAAATTCTTTTAATT
* *
726620 TCAAAATTTACACTTAAATTTTTTTAATT
1 TCAAAATTTAAACTTAAATTCTTTTAATT
726649 T
1 T
726650 TTAATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (29 bp):
TCAAAATTTAAACTTAAATTCTTTTAATT
Found at i:726652 original size:7 final size:7
Alignment explanation
Indices: 726640--726682 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
726630 CACTTAAATT
726640 TTTTTAA
1 TTTTTAA
726647 TTTTTAA
1 TTTTTAA
726654 TTTTTAA
1 TTTTTAA
726661 -TTTTAA
1 TTTTTAA
*
726667 ATTTTAA
1 TTTTTAA
*
726674 ATTTTAA
1 TTTTTAA
726681 TT
1 TT
726683 ACCTAATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTTTAA
Found at i:726666 original size:20 final size:20
Alignment explanation
Indices: 726641--726682 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
726631 ACTTAAATTT
* *
726641 TTTTAATTTTTAATTTTTAA
1 TTTTAAATTTTAAATTTTAA
726661 TTTTAAATTTTAAATTTTAA
1 TTTTAAATTTTAAATTTTAA
726681 TT
1 TT
726683 ACCTAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTAAATTTTAAATTTTAA
Found at i:726778 original size:2 final size:2
Alignment explanation
Indices: 726771--726795 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
726761 TAATAAAATT
726771 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 T
726796 GTGAGATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:727360 original size:12 final size:13
Alignment explanation
Indices: 727335--727413 Score: 50
Period size: 12 Copynumber: 6.5 Consensus size: 13
727325 AATATTTTTG
727335 ATTTATTATAATA
1 ATTTATTATAATA
*
727348 ATTT-TTATTATAA
1 ATTTATTATAAT-A
727361 ATTTATT-TAAT-
1 ATTTATTATAATA
727372 ATATTA-TATTAATA
1 AT-TTATTA-TAATA
*
727386 A--TATTAT-TTA
1 ATTTATTATAATA
727396 ATTTATTA-AAT-
1 ATTTATTATAATA
727407 ATTTATT
1 ATTTATT
727414 TTTATAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 22
0.67 0.05 0.28
Matches are distributed among these distances:
10 3 0.06
11 13 0.25
12 17 0.33
13 16 0.31
14 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTATTATAATA
Found at i:727386 original size:26 final size:24
Alignment explanation
Indices: 727335--727403 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 24
727325 AATATTTTTG
*
727335 ATTTATTATAATA-ATTTTTATTATAA
1 ATTTATT-TAATATA-TTATATTAT-A
727361 ATTTATTTAATATATTATATTAATA
1 ATTTATTTAATATATTATATT-ATA
*
727386 ATATTATTTAATTTATTA
1 AT-TTATTTAATATATTA
727404 AATATTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 14 0.37
26 24 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTATTTAATATATTATATTATA
Found at i:727533 original size:20 final size:21
Alignment explanation
Indices: 727504--727553 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
727494 AGTTTTAAGT
*
727504 AAAATATAAAATTATTT-TAA
1 AAAATTTAAAATTATTTATAA
*
727524 AAAATTT-AAATTTTTTATAA
1 AAAATTTAAAATTATTTATAA
727544 AAAATTTAAA
1 AAAATTTAAA
727554 TTTTATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 16 0.62
21 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTTAAAATTATTTATAA
Found at i:727554 original size:20 final size:19
Alignment explanation
Indices: 727512--727557 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
727502 GTAAAATATA
*
727512 AAATTATTTTAAAAAATTT
1 AAATTTTTTTAAAAAATTT
727531 AAATTTTTTATAAAAAATTT
1 AAATTTTTT-TAAAAAATTT
727551 AAATTTT
1 AAATTTT
727558 ATAATATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTTTTTTAAAAAATTT
Found at i:728881 original size:3 final size:3
Alignment explanation
Indices: 728873--728907 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
728863 TTCTTCCTAA
728873 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
728908 ATGTTTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:729579 original size:2 final size:2
Alignment explanation
Indices: 729574--729603 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
729564 ACACACACAC
*
729574 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
729604 TCTCAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:730637 original size:19 final size:17
Alignment explanation
Indices: 730605--730643 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
730595 CTATATATAA
730605 TTTATTTTTAAATTATT
1 TTTATTTTTAAATTATT
730622 TTTATTTTTTATAATTATT
1 TTTA-TTTTTA-AATTATT
730641 TTT
1 TTT
730644 TAACTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTTTAAATTATT
Found at i:731644 original size:15 final size:16
Alignment explanation
Indices: 731611--731648 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
731601 ATATTTTTGT
731611 AATTAAATTTAAATCA
1 AATTAAATTTAAATCA
* *
731627 AATTAAA-TTAATTTA
1 AATTAAATTTAAATCA
731642 AATTAAA
1 AATTAAA
731649 AAATAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATTTAAATCA
Found at i:732195 original size:16 final size:16
Alignment explanation
Indices: 732174--732206 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
732164 TTTTTTAGTG
732174 TTAAAATAA-TATTTCT
1 TTAAAA-AATTATTTCT
732190 TTAAAAAATTATTTCT
1 TTAAAAAATTATTTCT
732206 T
1 T
732207 ATTACAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAAAATTATTTCT
Found at i:733703 original size:62 final size:62
Alignment explanation
Indices: 733591--733711 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
733581 ATTCAAAAAA
733591 ATGCTTTAATGAATATTCGTGATGAATTTGAACTTGCAATGTATTTATTGCAATTTGCAAAT
1 ATGCTTTAATGAATATTCGTGATGAATTTGAACTTGCAATGTATTTATTGCAATTTGCAAAT
733653 ATGCTTTAATGAATATTTCGTGATGAATTTGAACTT-CAAT-TATTTAATTGCAATTTGCA
1 ATGCTTTAATGAATA-TTCGTGATGAATTTGAACTTGCAATGTATTT-ATTGCAATTTGCA
733712 CAAGCTAGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
61 5 0.09
62 32 0.56
63 20 0.35
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (62 bp):
ATGCTTTAATGAATATTCGTGATGAATTTGAACTTGCAATGTATTTATTGCAATTTGCAAAT
Found at i:734794 original size:26 final size:26
Alignment explanation
Indices: 734722--734796 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 26
734712 TTCATTAAAA
*
734722 ATTTTAAAAATAAATATTTATAATATT
1 ATTTTAAAAATATA-ATTTATAATATT
*
734749 ATTTTAATAAAAAACTTAATTTA-AATATT
1 ATTTT-A-AAAATA--TAATTTATAATATT
734778 ATTTTAAAAATTATAATTT
1 ATTTTAAAAA-TATAATTT
734797 TTACTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
26 6 0.15
27 9 0.22
28 3 0.08
29 16 0.40
30 5 0.12
31 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTTAAAAATATAATTTATAATATT
Found at i:735587 original size:24 final size:21
Alignment explanation
Indices: 735543--735587 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
735533 AATTTATATG
735543 TGATGTATTTATTAAATTAAA
1 TGATGTATTTATTAAATTAAA
735564 TGATGTTATTTTATTAGAATTAAA
1 TGATG-TA-TTTATTA-AATTAAA
735588 ATTATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 2 0.10
23 7 0.33
24 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (21 bp):
TGATGTATTTATTAAATTAAA
Found at i:735596 original size:24 final size:24
Alignment explanation
Indices: 735548--735603 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
735538 ATATGTGATG
735548 TATTTATTAAATTAAATGATGTTA
1 TATTTATTAAATTAAATGATGTTA
*
735572 T-TTTATTAGAATTAAAATTAT-TTA
1 TATTTATTA-AATT-AAATGATGTTA
735596 TATTTATT
1 TATTTATT
735604 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.25
24 9 0.32
25 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTTATTAAATTAAATGATGTTA
Found at i:736618 original size:27 final size:26
Alignment explanation
Indices: 736583--736643 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
736573 TATATTATAT
*
736583 TTATAATGATTATGAATATAA-TAAATA
1 TTATTATGATTA--AATATAATTAAATA
*
736610 TTATTATGATTAATTATAATTAAATA
1 TTATTATGATTAAATATAATTAAATA
736636 TTAATTAT
1 TT-ATTAT
736644 AATATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 6 0.20
26 8 0.27
27 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (26 bp):
TTATTATGATTAAATATAATTAAATA
Found at i:736654 original size:26 final size:26
Alignment explanation
Indices: 736599--736655 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
736589 TGATTATGAA
*
736599 TATAA-TAAATATTATTATGATTAAT
1 TATAATTAAATATTATTATGAATAAT
736624 TATAATTAAATATTAATTAT-AAT-AT
1 TATAATTAAATATT-ATTATGAATAAT
736649 TAATAAT
1 T-ATAAT
736656 AAAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.29
26 15 0.54
27 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TATAATTAAATATTATTATGAATAAT
Found at i:738997 original size:3 final size:3
Alignment explanation
Indices: 738989--739028 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
738979 TTCACTCCCA
* * *
738989 CTT CTT CTT ATT CTT CTT CTT CTT CTT CGT CCT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
739029 AGTTCCTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.35, G:0.03, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:742312 original size:2 final size:2
Alignment explanation
Indices: 742305--742331 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
742295 TTTAAAAATA
742305 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
742332 ATCCTTTGCT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:742644 original size:20 final size:22
Alignment explanation
Indices: 742615--742660 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
742605 TTATTCTTAA
742615 AATT-TTTAAAGAT-AATT-TT
1 AATTATTTAAAGATAAATTATT
742634 AATTATTTAAAGATAAATTATT
1 AATTATTTAAAGATAAATTATT
742656 AATTA
1 AATTA
742661 ACTTCAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 4 0.17
22 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
AATTATTTAAAGATAAATTATT
Found at i:746266 original size:38 final size:38
Alignment explanation
Indices: 746213--746310 Score: 108
Period size: 38 Copynumber: 2.6 Consensus size: 38
746203 CGATAAACAT
** *
746213 AATATGATATTTATAATTATAATAAATATAATGTATTGTA
1 AATAT-AT-TTTATAATTATAATAAATATAATACATCGTA
* * *
746253 AATATATTTTATAACTGTGATAAATATAATACATCGTA
1 AATATATTTTATAATTATAATAAATATAATACATCGTA
*
746291 AATATA-TTTATTATTATAAT
1 AATATATTTTATAATTATAAT
746311 TTAAATCTCT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 10 0.21
38 31 0.65
39 2 0.04
40 5 0.10
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (38 bp):
AATATATTTTATAATTATAATAAATATAATACATCGTA
Found at i:750809 original size:38 final size:38
Alignment explanation
Indices: 750767--750844 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
750757 ATAGATCCGA
750767 CAAAACAAGAGATATCATTCCATCAACAAAAACTCCAT
1 CAAAACAAGAGATATCATTCCATCAACAAAAACTCCAT
750805 CAAAACAAGAGATATCATTCCATCAACAAAAACTCCAT
1 CAAAACAAGAGATATCATTCCATCAACAAAAACTCCAT
750843 CA
1 CA
750845 TGATCCCTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.50, C:0.27, G:0.05, T:0.18
Consensus pattern (38 bp):
CAAAACAAGAGATATCATTCCATCAACAAAAACTCCAT
Found at i:752212 original size:26 final size:27
Alignment explanation
Indices: 752163--752213 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
752153 ATTAATATTT
*
752163 ATATATTTATAATTAAATATAAATAAA
1 ATATATTTATAATTAAATAAAAATAAA
*
752190 ATATATTT-TATTTAAATAAAAATA
1 ATATATTTATAATTAAATAAAAATA
752214 TTATTTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATATTTATAATTAAATAAAAATAAA
Found at i:752452 original size:32 final size:31
Alignment explanation
Indices: 752373--752469 Score: 83
Period size: 32 Copynumber: 3.0 Consensus size: 31
752363 CCTTTTTTAT
752373 TTTTTATTTGAAT-TTTTAATAAAAATTAAAA
1 TTTTTATTT-AATATTTTAATAAAAATTAAAA
* *
752404 TTTTTACATTT-TTATTTTATTAAAAAATT-AAA
1 TTTTT--ATTTAATATTTTAAT-AAAAATTAAAA
* *
752436 TTATTTATTTAATATTTAAATAAATATGTAAAA
1 TT-TTTATTTAATATTTTAATAAAAAT-TAAAA
752469 T
1 T
752470 AATTTTATAC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
31 15 0.29
32 19 0.37
33 18 0.35
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTTTATTTAATATTTTAATAAAAATTAAAA
Found at i:753843 original size:16 final size:15
Alignment explanation
Indices: 753820--753858 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
753810 ATATATTTAA
753820 TTATTTTAAAAAATT
1 TTATTTTAAAAAATT
753835 TTATATTTAAAAAATT
1 TTAT-TTTAAAAAATT
*
753851 ATATTTTA
1 TTATTTTA
753859 TATTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTTAAAAAATT
Found at i:755074 original size:10 final size:10
Alignment explanation
Indices: 755059--755089 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
755049 AAATATATTA
755059 TAATTTAAAT
1 TAATTTAAAT
755069 TAATTTAAAT
1 TAATTTAAAT
755079 TAAATTTAAAT
1 T-AATTTAAAT
755090 AAATAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:755092 original size:10 final size:10
Alignment explanation
Indices: 755060--755093 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
755050 AATATATTAT
*
755060 AATTTAAATT
1 AATTTAAATA
755070 AATTTAAATTA
1 AATTTAAA-TA
755081 AATTTAAATA
1 AATTTAAATA
755091 AAT
1 AAT
755094 AAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTTAAATA
Found at i:755648 original size:24 final size:23
Alignment explanation
Indices: 755615--755673 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
755605 ATTTAAATTA
755615 TTAATAAATTAATAAAAA-AATAAT
1 TTAATAAATTAA-AAAAATAA-AAT
*
755639 TTAATTAATTAAAAAAATAAAATT
1 TTAATAAATTAAAAAAATAAAA-T
755663 TTAA-AAATTAA
1 TTAATAAATTAA
755674 TTTAATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TTAATAAATTAAAAAAATAAAAT
Found at i:759792 original size:2 final size:2
Alignment explanation
Indices: 759785--759829 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
759775 GAATTGCAAG
759785 CT CT CT CT CT CT CT 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 CT CT CT CT CT CT CT
759827 CT C
1 CT C
759830 AGCAACTGAT
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:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:761360 original size:2 final size:2
Alignment explanation
Indices: 761353--761383 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
761343 AAGAACAAAT
761353 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
761384 TGGGGTCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:765850 original size:3 final size:3
Alignment explanation
Indices: 765842--765887 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
765832 TGATCATGCA
* *
765842 TAT TAT TAT TAT TAA TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
765888 CAGTCAACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:766158 original size:23 final size:22
Alignment explanation
Indices: 766094--766171 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 22
766084 TATAATTAAA
*
766094 AATTTAACTAAAAATAATTTATTT
1 AATTTAAATAAAAA-AA-TTATTT
* ** *
766118 TATAAAAATAATATAAATTAATTT
1 AATTTAAATAA-AAAAATT-ATTT
766142 AATTTAAATAAAAAAATTATTT
1 AATTTAAATAAAAAAATTATTT
766164 AAATTTAA
1 -AATTTAA
766172 CTTAGATTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
22 4 0.10
23 15 0.36
24 21 0.50
25 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAATAAAAAAATTATTT
Found at i:766834 original size:15 final size:15
Alignment explanation
Indices: 766814--766843 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
766804 AACCGAAGAG
766814 GAAGAAGAAGAACAA
1 GAAGAAGAAGAACAA
*
766829 GAAGAAGAATAACAA
1 GAAGAAGAAGAACAA
766844 CATTAAAGGG
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:0.67, C:0.07, G:0.23, T:0.03
Consensus pattern (15 bp):
GAAGAAGAAGAACAA
Found at i:783764 original size:24 final size:23
Alignment explanation
Indices: 783719--783764 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
783709 TTTTTTTTTT
* * *
783719 AATTTTGTTGATGATTACATTTA
1 AATTTTGTTAATAATTAAATTTA
783742 AATTTTGTTAATTAATTAAATTT
1 AATTTTGTTAA-TAATTAAATTT
783765 TTATTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (23 bp):
AATTTTGTTAATAATTAAATTTA
Found at i:783785 original size:17 final size:19
Alignment explanation
Indices: 783763--783798 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
783753 TTAATTAAAT
783763 TTTTAT-TTAAA-ATAATA
1 TTTTATATTAAATATAATA
783780 TTTTATATTAAATATAATA
1 TTTTATATTAAATATAATA
783799 ATTAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTATATTAAATATAATA
Found at i:783806 original size:19 final size:18
Alignment explanation
Indices: 783769--783807 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
783759 AAATTTTTAT
* *
783769 TTAAAATAATATTTTATA
1 TTAAAATAATAATTAATA
783787 TTAAATATAATAATTAATA
1 TTAAA-ATAATAATTAATA
783806 TT
1 TT
783808 TAATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATAATAATTAATA
Found at i:784375 original size:2 final size:2
Alignment explanation
Indices: 784364--784397 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
784354 ATAAATCAAT
784364 TA TA -A 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 TA T
784398 TGTATGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:785908 original size:34 final size:33
Alignment explanation
Indices: 785820--785912 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 33
785810 ATAATAATAA
* *
785820 TATTA-TATTAGATATAATAA-TT-AATAATTT
1 TATTATTATTATATATAATAATTTAAATAAATT
785850 TATTTATTATT-T-T-TAAT-ATATTAAATAAATT
1 TA-TTATTATTATATATAATAAT-TTAAATAAATT
785881 TATTATTATTATATATAATAATTTTAAA-AAAT
1 TATTATTATTATATATAATAA-TTTAAATAAAT
785913 ATTCTTTGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
28 1 0.02
29 4 0.08
30 13 0.25
31 13 0.25
32 5 0.10
33 8 0.16
34 6 0.12
35 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (33 bp):
TATTATTATTATATATAATAATTTAAATAAATT
Found at i:786180 original size:2 final size:2
Alignment explanation
Indices: 786173--786201 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
786163 TTTAATGATG
786173 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 T
786202 TTCTTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:786263 original size:45 final size:45
Alignment explanation
Indices: 786208--786311 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
786198 ATATTTCTTA
**
786208 TTAAAATTTTAAAAATAAAAAATTATAAT-TATTATAATAT-TATT
1 TTAAAATTTTAAAAATAAAAAATTA-AATATAAAATAATATATATT
** *
786252 TTAAATATTTTAAAAATAATTAATTAAATATAAAATAATTTATATT
1 TTAAA-ATTTTAAAAATAAAAAATTAAATATAAAATAATATATATT
786298 TTAAAATTTTAAAA
1 TTAAAATTTTAAAA
786312 TTTTTAATAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 8 0.15
45 35 0.67
46 9 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (45 bp):
TTAAAATTTTAAAAATAAAAAATTAAATATAAAATAATATATATT
Found at i:786791 original size:21 final size:22
Alignment explanation
Indices: 786767--786825 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
786757 ATAAAATAAC
786767 AAATCAAACATATAATTAAA-T
1 AAATCAAACATATAATTAAACT
* * *
786788 AAATAAAAAATAAAATTAAACT
1 AAATCAAACATATAATTAAACT
*
786810 AAATTCACACATATAA
1 AAA-TCAAACATATAA
786826 GATAAAAGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 17 0.59
22 4 0.14
23 8 0.28
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.25
Consensus pattern (22 bp):
AAATCAAACATATAATTAAACT
Found at i:786886 original size:21 final size:20
Alignment explanation
Indices: 786848--786886 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
786838 ATTTAAGATC
*
786848 ATTTGATATATTTTTCTCTG
1 ATTTGATATATTTATCTCTG
*
786868 ATTTGATGTAATTTATCTC
1 ATTTGATAT-ATTTATCTC
786887 ATATATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTGATATATTTATCTCTG
Found at i:791185 original size:15 final size:14
Alignment explanation
Indices: 791148--791198 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
791138 ATTATAGTAT
791148 AAATATTTATTTAA
1 AAATATTTATTTAA
* *
791162 ATAAAATTTATTTTTA
1 A-AATATTTA-TTTAA
*
791178 AAATATTTAATTAA
1 AAATATTTATTTAA
791192 AAATATT
1 AAATATT
791199 ATAGTAAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.37
15 14 0.47
16 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AAATATTTATTTAA
Found at i:791546 original size:17 final size:19
Alignment explanation
Indices: 791511--791547 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
791501 ACGCCAAAGC
*
791511 ATTTCAAAAGAAGAGAAAA
1 ATTTCAAAAGAAGAAAAAA
791530 ATTT-AAAA-AAGAAAAAA
1 ATTTCAAAAGAAGAAAAAA
791547 A
1 A
791548 ATAGGCATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.70, C:0.03, G:0.11, T:0.16
Consensus pattern (19 bp):
ATTTCAAAAGAAGAAAAAA
Found at i:796015 original size:2 final size:2
Alignment explanation
Indices: 796008--796040 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
795998 TTCTATTTGA
796008 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
796041 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:798192 original size:13 final size:14
Alignment explanation
Indices: 798166--798194 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
798156 AATTTTTTGT
798166 TTTTTTAAATTAAA
1 TTTTTTAAATTAAA
798180 TTTTTTAAA-TAAA
1 TTTTTTAAATTAAA
798193 TT
1 TT
798195 GATACTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTTTAAATTAAA
Found at i:798690 original size:11 final size:11
Alignment explanation
Indices: 798674--798698 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
798664 AAGAATATGT
798674 CATAATTTGTC
1 CATAATTTGTC
798685 CATAATTTGTC
1 CATAATTTGTC
798696 CAT
1 CAT
798699 TCATTGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (11 bp):
CATAATTTGTC
Found at i:798855 original size:18 final size:18
Alignment explanation
Indices: 798834--798887 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
798824 TTTATCACGT
798834 ATTTTATTTTTATTTAAA
1 ATTTTATTTTTATTTAAA
* *
798852 ATTTTAATTATATTTATAAA
1 ATTTTATTTTTA-TT-TAAA
*
798872 ATATATATTTTTATTT
1 AT-TTTATTTTTATTT
798888 TAATATTGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 10 0.36
19 3 0.11
20 8 0.29
21 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATTTTTATTTAAA
Found at i:799802 original size:3 final size:3
Alignment explanation
Indices: 799794--799833 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
799784 ATACATTACA
799794 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
799834 TCAAAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:799995 original size:3 final size:3
Alignment explanation
Indices: 799982--800027 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
799972 GATTATAGTA
*
799982 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
800028 TAGCTGCAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:800468 original size:16 final size:14
Alignment explanation
Indices: 800426--800471 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
800416 ATTTAAAAAT
*
800426 TTATTTTATTATTTA
1 TTATATTATT-TTTA
800441 TTATATTATTTTTA
1 TTATATTATTTTTA
800455 TTATATCATATTTTTA
1 TTATAT--TATTTTTA
800471 T
1 T
800472 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 10 0.36
15 9 0.32
16 9 0.32
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATTATTTTTA
Found at i:801876 original size:24 final size:23
Alignment explanation
Indices: 801849--801895 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
801839 ATTATTATTT
801849 TTATTTAATAAAATAATATTTTAA
1 TTATTTAATAAAA-AATATTTTAA
**
801873 TTATTTTTTAAAAAATATTTTAA
1 TTATTTAATAAAAAATATTTTAA
801896 AAAAACATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATTTAATAAAAAATATTTTAA
Found at i:802095 original size:5 final size:5
Alignment explanation
Indices: 802085--802116 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
802075 GTCTGCAATA
802085 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CT
1 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CT
802117 CGTCTCCTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
CTTCC
Found at i:805288 original size:45 final size:44
Alignment explanation
Indices: 805222--805362 Score: 119
Period size: 45 Copynumber: 3.1 Consensus size: 44
805212 GAAGATCATG
805222 CTGTTTCGGAA-GGAATG-AGGATTGATCATGCTTCTGAAAATGATA
1 CTGTTTCGGAAGGGAA-GAAGGATTGATCATGC-TC-GAAAATGATA
* * * *
805267 CTGTTTCGGAAGGGAA-AAGGATTGATCTTGCACCAAATAGTGGTA
1 CTGTTTCGGAAGGGAAGAAGGATTGATCATGCTCGAAA-A-TGATA
* * * *
805312 CTGTTTCTGAAGGAAAGAAGG-TTAATCCTGCATCAGAAAATGATA
1 CTGTTTCGGAAGGGAAGAAGGATTGATCATGC-TC-GAAAATGATA
805357 CTGTTT
1 CTGTTT
805363 TGGGAGGATA
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
43 3 0.04
44 2 0.03
45 60 0.77
46 10 0.13
47 3 0.04
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (44 bp):
CTGTTTCGGAAGGGAAGAAGGATTGATCATGCTCGAAAATGATA
Found at i:808493 original size:13 final size:13
Alignment explanation
Indices: 808477--808516 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
808467 AATTATATAT
808477 AATAAATAATTAA
1 AATAAATAATTAA
808490 AATAAATAA-TAA
1 AATAAATAATTAA
*
808502 AATATAT-ATTAA
1 AATAAATAATTAA
808514 AAT
1 AAT
808517 TAGAGTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 1 0.04
12 15 0.60
13 9 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAAATAATTAA
Found at i:808497 original size:17 final size:17
Alignment explanation
Indices: 808453--808498 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
808443 AATAATATTT
*
808453 TTAAAA-AAATATATAA
1 TTAAAATAAATAAATAA
*
808469 TT-ATATATAATAAATAA
1 TTAAAATA-AATAAATAA
808486 TTAAAATAAATAA
1 TTAAAATAAATAA
808499 TAAAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.08
16 3 0.12
17 15 0.62
18 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAATAAATAAATAA
Found at i:808497 original size:34 final size:31
Alignment explanation
Indices: 808432--808514 Score: 85
Period size: 34 Copynumber: 2.5 Consensus size: 31
808422 TTTATAAAAT
**
808432 TAAAATAATATAATAATATTTTTAAAAAAATATA
1 TAAAAT-ATATAATAA-ATAATTAAAAAAATA-A
*
808466 TAATTATATATAATAAATAATTAAAATAAATAA
1 TAA-AATATATAATAAATAATTAAAA-AAATAA
*
808499 TAAAATATATATTAAA
1 TAAAATATATAATAAA
808515 ATTAGAGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
32 11 0.26
33 12 0.29
34 17 0.40
35 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
TAAAATATATAATAAATAATTAAAAAAATAA
Found at i:808518 original size:30 final size:30
Alignment explanation
Indices: 808426--808518 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 30
808416 GCTATTTTTA
808426 TAAAATTAAAAT-AAT-ATAATAATAT-T-T
1 TAAAATTAAAATAAATAATAA-AATATATAT
* * * *
808453 TTAAA--AAAATATATAATTATATATA-AT
1 TAAAATTAAAATAAATAATAAAATATATAT
*
808480 AAATAATTAAAATAAATAATAAAATATATAT
1 TAA-AATTAAAATAAATAATAAAATATATAT
808511 TAAAATTA
1 TAAAATTA
808519 GAGTTAGATT
Statistics
Matches: 48, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
25 5 0.10
26 6 0.12
27 9 0.19
28 2 0.04
30 22 0.46
31 4 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
TAAAATTAAAATAAATAATAAAATATATAT
Found at i:808613 original size:23 final size:23
Alignment explanation
Indices: 808547--808613 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
808537 ATTAAAATTT
* *
808547 ATTTAAATATATTTATATTAAAA
1 ATTTAAATATATATATATAAAAA
* *
808570 A--TAAATA-ATTATTTAAAAAAA
1 ATTTAAATATA-TATATATAAAAA
*
808591 ATTTAAATATATATATATGAAAA
1 ATTTAAATATATATATATAAAAA
808614 GGGTAAAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
20 1 0.03
21 15 0.45
23 16 0.48
24 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (23 bp):
ATTTAAATATATATATATAAAAA
Found at i:809448 original size:21 final size:20
Alignment explanation
Indices: 809407--809450 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
809397 CATCTCTTTG
*
809407 TTTTTTTTTTAATTTTAACA
1 TTTTTTTTTTAATTATAACA
809427 TTTTTTTTCTTAAGTTAT-ACA
1 TTTTTTTT-TTAA-TTATAACA
809448 TTT
1 TTT
809451 ACTGAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 10 0.48
22 3 0.14
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTTTTTTAATTATAACA
Found at i:809677 original size:30 final size:29
Alignment explanation
Indices: 809641--809789 Score: 133
Period size: 30 Copynumber: 5.0 Consensus size: 29
809631 ATGTTAAGGG
809641 TTTATTTAAATATAAATTAAAATTTAAATA
1 TTTATTTAAATATAAATTAAAATTTAAA-A
* *
809671 TTTATTTAAGTATAAATTAAAAATTAAGAA
1 TTTATTTAAATATAAATTAAAATTTAA-AA
* * *
809701 TTTATTTAGATGTAAATTAAAGTTTAAAAA
1 TTTATTTAAATATAAATTAAAATTT-AAAA
*
809731 TTTATTTAAATA-CAA-TAAAATTATAAGAA
1 TTTATTTAAATATAAATTAAAATT-TAA-AA
* **
809760 CTTAACTAAATA-AAATGATAAAATTTAAAA
1 TTTATTTAAATATAAAT--TAAAATTTAAAA
809790 ACTTTTTTAC
Statistics
Matches: 97, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
28 8 0.08
29 16 0.16
30 60 0.62
31 6 0.06
32 7 0.07
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.40
Consensus pattern (29 bp):
TTTATTTAAATATAAATTAAAATTTAAAA
Found at i:811325 original size:16 final size:16
Alignment explanation
Indices: 811304--811352 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
811294 TGTATCGTAT
811304 TTATATTATTTTTATA
1 TTATATTATTTTTATA
*
811320 TTATATTATATTTA-A
1 TTATATTATTTTTATA
*
811335 AT-TATT-TTTTTATA
1 TTATATTATTTTTATA
811349 TTAT
1 TTAT
811353 GTTTAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 3 0.11
16 13 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATATTATTTTTATA
Found at i:811338 original size:27 final size:24
Alignment explanation
Indices: 811301--811359 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 24
811291 ATTTGTATCG
*
811301 TATTTATATTATTTTTATATTATATTA
1 TATTTAAATTA-TTTT-T-TTATATTA
811328 TATTTAAATTATTTTTTTATATTA
1 TATTTAAATTATTTTTTTATATTA
*
811352 TGTTTAAA
1 TATTTAAA
811360 ATTACTAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 15 0.50
25 1 0.03
26 4 0.13
27 10 0.33
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TATTTAAATTATTTTTTTATATTA
Found at i:812673 original size:186 final size:185
Alignment explanation
Indices: 812258--812632 Score: 459
Period size: 186 Copynumber: 2.0 Consensus size: 185
812248 TATTCGAATC
* ** * *
812258 CATCAAGAAAAAAAGATAGAAAATTTTCTAATATTAAATTTTTTACTATCTATTATCACCCTAAT
1 CATCAAGAAAAAAGGATA-AAAAGATTCAAATATTAAATTTTTTACTACCTATTATCACCCTAAT
* * * * *
812323 CACAAAAGTTAAAAAATTCTTTATTTTTTACAAGTCAAAGCGGATTCAAATATTGAATTTCTTAA
65 CACAAAAGTTAAAAAATTCTTTATTTTTTACAAGTAAAAACGAATTCAAATATTAAATATCTTAA
* *
812388 AATTTATATTCAAATCTGTTTGAATTTGCTATAAATAGTAAAAACAATATTCAATA
130 AATTTATATTCAAATCTCTTTGAATTTGCTATAAATAGTAAAAACAATATTAAATA
* *
812444 CATCAAGAAAAAAGGATAAAAATGTTTCAAATATTAAATTTTTTACTACCTATTATCACTCTAAT
1 CATCAAGAAAAAAGGATAAAAA-GATTCAAATATTAAATTTTTTACTACCTATTATCACCCTAAT
* **
812509 CACAAAA-TTTAAAAATTCTTTATTTCCTATTA-AAGTAAAAACGAATTCAGTTATTAAATAT-T
65 CACAAAAGTTAAAAAATTCTTTATTT--T-TTACAAGTAAAAACGAATTCAAATATTAAATATCT
** * * *
812571 TAAGGGTTTATATTTAAATCTACTTTGAATTTGTTATAAATAGTAAATACAATATTTAAATA
127 TAA-AATTTATATTCAAATCT-CTTTGAATTTGCTATAAATAGTAAAAACAATA-TTAAATA
812633 TTTAATATTT
Statistics
Matches: 162, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
185 21 0.13
186 66 0.41
187 37 0.23
188 32 0.20
189 6 0.04
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (185 bp):
CATCAAGAAAAAAGGATAAAAAGATTCAAATATTAAATTTTTTACTACCTATTATCACCCTAATC
ACAAAAGTTAAAAAATTCTTTATTTTTTACAAGTAAAAACGAATTCAAATATTAAATATCTTAAA
ATTTATATTCAAATCTCTTTGAATTTGCTATAAATAGTAAAAACAATATTAAATA
Found at i:814895 original size:2 final size:2
Alignment explanation
Indices: 814888--814915 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
814878 TTTTTGTTAA
814888 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
814916 TATTCTTTTC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:816020 original size:54 final size:54
Alignment explanation
Indices: 815938--816043 Score: 194
Period size: 54 Copynumber: 2.0 Consensus size: 54
815928 CTTTCGAAAT
*
815938 AATTGTTTTCAGCTGGTTGTCTGTATAGGAACTATATGCTTATGGTTGTCTAAC
1 AATTGTTTTCAGCTGGTTGCCTGTATAGGAACTATATGCTTATGGTTGTCTAAC
*
815992 AATTGTTTTCAGCTGGTTGCCTGTATAGGAACTATGTGCTTATGGTTGTCTA
1 AATTGTTTTCAGCTGGTTGCCTGTATAGGAACTATATGCTTATGGTTGTCTA
816044 TGTACTATCG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.42
Consensus pattern (54 bp):
AATTGTTTTCAGCTGGTTGCCTGTATAGGAACTATATGCTTATGGTTGTCTAAC
Found at i:825619 original size:2 final size:2
Alignment explanation
Indices: 825612--825636 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
825602 ATTTATGGGA
825612 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
825637 CACACACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:830050 original size:20 final size:20
Alignment explanation
Indices: 830016--830053 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
830006 AAATGTAAAA
830016 AATAAAATATATAATATAAT
1 AATAAAATATATAATATAAT
830036 AATATAAATAT-TAATATA
1 AATA-AAATATATAATATA
830054 TTTTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAAAATATATAATATAAT
Found at i:830131 original size:12 final size:13
Alignment explanation
Indices: 830099--830131 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
830089 TATTAAATTA
830099 TTAAAAAT-TAAT
1 TTAAAAATATAAT
830111 TTAAAAATAT-AT
1 TTAAAAATATAAT
830123 TTAAAAATA
1 TTAAAAATA
830132 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAAATATAAT
Found at i:837029 original size:2 final size:2
Alignment explanation
Indices: 837022--837055 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
837012 AATTTTAAGA
*
837022 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
837056 GTACTCACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:837491 original size:17 final size:17
Alignment explanation
Indices: 837436--837498 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
837426 CATATAATAA
*
837436 TATAATCATATTAAAATT
1 TATAAT-ATTTTAAAATT
*
837454 TAT-ATAATTT-AAA-T
1 TATAATATTTTAAAATT
837468 TATTAATATTTTAAAATT
1 TA-TAATATTTTAAAATT
837486 TATAATATTTTAA
1 TATAATATTTTAA
837499 TTATAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 3 0.08
15 4 0.11
16 9 0.24
17 16 0.42
18 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAAAATT
Found at i:840293 original size:17 final size:18
Alignment explanation
Indices: 840261--840300 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
840251 TTAACTAATA
840261 TTTTAAAATAAAATATTT
1 TTTTAAAATAAAATATTT
*
840279 TTTTAAAA-AATATATTT
1 TTTTAAAATAAAATATTT
840296 TTTTA
1 TTTTA
840301 CTCACGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAAAATAAAATATTT
Found at i:846622 original size:29 final size:29
Alignment explanation
Indices: 846566--846628 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
846556 TTTTAATTTT
*
846566 AATATCAATTTATATCAATTATATTAATA
1 AATATCAATTTATATCAATTATACTAATA
* * * *
846595 AATATCAATTTATTTCACTTGTACTAATC
1 AATATCAATTTATATCAATTATACTAATA
846624 AATAT
1 AATAT
846629 ATAACATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (29 bp):
AATATCAATTTATATCAATTATACTAATA
Found at i:846698 original size:32 final size:32
Alignment explanation
Indices: 846655--846738 Score: 141
Period size: 32 Copynumber: 2.6 Consensus size: 32
846645 AAAAATAGAT
846655 ATTACTTATAAATTTAATAAATATTAAATAAA
1 ATTACTTATAAATTTAATAAATATTAAATAAA
* *
846687 ATTATTTATAAATTTAATAAATATTAAATATA
1 ATTACTTATAAATTTAATAAATATTAAATAAA
*
846719 ATTACTTATGAATTTAATAA
1 ATTACTTATAAATTTAATAA
846739 TCATTCAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (32 bp):
ATTACTTATAAATTTAATAAATATTAAATAAA
Found at i:846705 original size:21 final size:25
Alignment explanation
Indices: 846666--846712 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 25
846656 TTACTTATAA
846666 ATTTAATAAATATTAAATAAA-ATT
1 ATTTAATAAATATTAAATAAATATT
846690 ATTT-ATAAAT-TT-AATAAATATT
1 ATTTAATAAATATTAAATAAATATT
846712 A
1 A
846713 AATATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 6 0.27
24 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTTAATAAATATTAAATAAATATT
Found at i:846714 original size:16 final size:16
Alignment explanation
Indices: 846663--846720 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
846653 ATATTACTTA
*
846663 TAAATTTAATAAATAT
1 TAAATATAATAAATAT
* * *
846679 TAAATAAAAT-TATTT
1 TAAATATAATAAATAT
*
846694 ATAAATTTAATAAATAT
1 -TAAATATAATAAATAT
846711 TAAATATAAT
1 TAAATATAAT
846721 TACTTATGAA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
15 3 0.10
16 25 0.81
17 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATATAATAAATAT
Found at i:846718 original size:22 final size:23
Alignment explanation
Indices: 846671--846719 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
846661 TATAAATTTA
**
846671 ATAAATATTAAATAAAATTATTT
1 ATAAATATTAAATAAAATTAAAT
846694 ATAAAT-TT-AATAAATATTAAAT
1 ATAAATATTAAATAAA-ATTAAAT
846716 ATAA
1 ATAA
846720 TTACTTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 11 0.48
23 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAAATATTAAATAAAATTAAAT
Found at i:847987 original size:17 final size:16
Alignment explanation
Indices: 847950--847991 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
847940 TTTATTATTA
847950 AATTTAAA-TAAAAAT
1 AATTTAAATTAAAAAT
*
847965 ATTTTAAATTAAATAAT
1 AATTTAAATTAAA-AAT
847982 AATTTAAATT
1 AATTTAAATT
847992 GATTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 12 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTTAAATTAAAAAT
Found at i:848017 original size:29 final size:28
Alignment explanation
Indices: 847967--848033 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
847957 ATAAAAATAT
*
847967 TTTAAATTA-AATAATAATTTAAATTGA
1 TTTAAATTATAAAAATAATTTAAATTGA
* *
847994 TTTAAATTATAAAAATTATTTTAATTTGA
1 TTTAAATTATAAAAA-TAATTTAAATTGA
*
848023 ATTAAACTTAT
1 TTTAAA-TTAT
848034 CAAGTCGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 9 0.27
28 4 0.12
29 16 0.48
30 4 0.12
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTAAATTATAAAAATAATTTAAATTGA
Found at i:848646 original size:42 final size:42
Alignment explanation
Indices: 848587--848685 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
848577 GTTGACACTT
* * ***
848587 TTTTATTTTCATTATTTTGAAAAGATAACAATATTTATGTTAA
1 TTTT-TTTTAATTATTTTGAAAAGAGAACAATATTTATACCAA
*
848630 TTTTTTTTAATTATTTTGAAAAGAGAACTATATTTATACCAA
1 TTTTTTTTAATTATTTTGAAAAGAGAACAATATTTATACCAA
848672 -TTTTTTTAATTATT
1 TTTTTTTTAATTATT
848686 ATTGTTAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 14 0.28
42 32 0.64
43 4 0.08
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (42 bp):
TTTTTTTTAATTATTTTGAAAAGAGAACAATATTTATACCAA
Found at i:849084 original size:13 final size:14
Alignment explanation
Indices: 849047--849084 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
849037 TAAATCTTCT
*
849047 ATTTATTTTTTATA
1 ATTTAATTTTTATA
*
849061 ATTTAACTTTTA-A
1 ATTTAATTTTTATA
849074 ATTTAATTTTT
1 ATTTAATTTTT
849085 TTTATTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTAATTTTTATA
Found at i:849154 original size:11 final size:12
Alignment explanation
Indices: 849087--849162 Score: 63
Period size: 11 Copynumber: 6.7 Consensus size: 12
849077 TAATTTTTTT
849087 TATTTTATATTA
1 TATTTTATATTA
*
849099 T-TTTTA-ATGA
1 TATTTTATATTA
*
849109 CATATTTATATTA
1 TAT-TTTATATTA
**
849122 TAAATT-T-TTA
1 TATTTTATATTA
*
849132 TAATTTATATTA
1 TATTTTATATTA
849144 TATTTTA-ATTA
1 TATTTTATATTA
849155 TATTTTAT
1 TATTTTAT
849163 GTGAAGTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
10 11 0.22
11 19 0.38
12 16 0.32
13 4 0.08
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (12 bp):
TATTTTATATTA
Found at i:849162 original size:45 final size:43
Alignment explanation
Indices: 849068--849162 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 43
849058 ATAATTTAAC
* * * *
849068 TTTTAAATTTAATTTTTTTTATTTTATATTATTTTTAATGACA
1 TTTTATATTTAAATTTTTATAATTTATATTATTTTTAATGACA
* *
849111 TATTTATATTATAAATTTTTATAATTTATATTATATTTTAATTATA
1 T-TTTATATT-TAAATTTTTATAATTTATATTAT-TTTTAATGACA
849157 TTTTAT
1 TTTTAT
849163 GTGAAGTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.02
44 7 0.16
45 25 0.58
46 10 0.23
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (43 bp):
TTTTATATTTAAATTTTTATAATTTATATTATTTTTAATGACA
Found at i:849311 original size:6 final size:7
Alignment explanation
Indices: 849293--849322 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
849283 AAGGAAATGG
849293 ATTTTTT
1 ATTTTTT
849300 ATTTTTT
1 ATTTTTT
849307 ATTTTTT
1 ATTTTTT
849314 ATTTTTT
1 ATTTTTT
849321 AT
1 AT
849323 CATTCGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
ATTTTTT
Found at i:849698 original size:18 final size:17
Alignment explanation
Indices: 849672--849712 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
849662 AAATTATTTA
*
849672 TTATAATTATATGTATAT
1 TTATAATTATATAT-TAT
*
849690 TTATTATTATATATTAT
1 TTATAATTATATATTAT
849707 TTATAA
1 TTATAA
849713 AAATATTACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTATAATTATATATTAT
Found at i:850203 original size:9 final size:9
Alignment explanation
Indices: 850191--850247 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
850181 AAATAATAAA
850191 AATTATATT
1 AATTATATT
850200 AATTATATT
1 AATTATATT
850209 AATCGTAT-TT
1 AAT--TATATT
*
850219 AAATATATT
1 AATTATATT
*
850228 ATATTATGTT
1 A-ATTATATT
*
850238 TATTATATT
1 AATTATATT
850247 A
1 A
850248 TTTTTATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
8 3 0.08
9 22 0.58
10 10 0.26
11 3 0.08
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (9 bp):
AATTATATT
Found at i:850243 original size:14 final size:14
Alignment explanation
Indices: 850224--850254 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
850214 TATTTAAATA
850224 TATTATATTATGTT
1 TATTATATTATGTT
*
850238 TATTATATTATTTT
1 TATTATATTATGTT
850252 TAT
1 TAT
850255 ATTTATTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (14 bp):
TATTATATTATGTT
Found at i:850254 original size:20 final size:20
Alignment explanation
Indices: 850222--850281 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
850212 CGTATTTAAA
* *
850222 TATATTA-TATTATGTTTAT
1 TATATTATTTTTATATTTAT
850241 TATATTATTTTTATATTTAT
1 TATATTATTTTTATATTTAT
* *
850261 TACATTATTTTTTTATTTAT
1 TATATTATTTTTATATTTAT
850281 T
1 T
850282 GAACATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 7 0.19
20 29 0.81
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TATATTATTTTTATATTTAT
Found at i:854127 original size:2 final size:2
Alignment explanation
Indices: 854120--854157 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
854110 TGGCAGGCAG
854120 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
854158 CGAACAGAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:856229 original size:16 final size:16
Alignment explanation
Indices: 856204--856242 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
856194 GAGGATTTAA
*
856204 TATTTATAATTTTATT
1 TATTTATAATTTAATT
*
856220 TATTTTTAATTTAATT
1 TATTTATAATTTAATT
856236 T-TTTATA
1 TATTTATA
856243 TAAAAATAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTATAATTTAATT
Found at i:856792 original size:2 final size:2
Alignment explanation
Indices: 856785--856809 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
856775 GAAATTAGTT
856785 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 T
856810 GTTCAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:858478 original size:3 final size:3
Alignment explanation
Indices: 858470--858504 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
858460 GAAATACCAC
858470 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
858505 GACAACTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:862968 original size:19 final size:20
Alignment explanation
Indices: 862944--863004 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
862934 ACCCAGATTC
862944 ATTTATTTAATAAAAAAAT-
1 ATTTATTTAATAAAAAAATA
*
862963 ATTTATTATATTAATAAAAAATA
1 ATTTATT-TAAT-A-AAAAAATA
* *
862986 ATTTAATCAATAAAAAAAT
1 ATTTATTTAATAAAAAAAT
863005 GAATGATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 7 0.21
20 10 0.29
21 2 0.06
22 9 0.26
23 6 0.18
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTTATTTAATAAAAAAATA
Found at i:862984 original size:22 final size:23
Alignment explanation
Indices: 862946--862990 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
862936 CCAGATTCAT
862946 TTATTTAATAAAAAAAT-ATTTA
1 TTATTTAATAAAAAAATAATTTA
862968 TTATATTAAT-AAAAAATAATTTA
1 TTAT-TTAATAAAAAAATAATTTA
862991 ATCAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTATTTAATAAAAAAATAATTTA
Found at i:869073 original size:30 final size:31
Alignment explanation
Indices: 869025--869082 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
869015 TTTTATAAAG
869025 TGGGATAAAAAAACTATTACAGTTCTTTCAA
1 TGGGATAAAAAAACTATTACAGTTCTTTCAA
**
869056 TGGGAT-AAAAAGTTATTACAGTTCTTT
1 TGGGATAAAAAAACTATTACAGTTCTTT
869083 GGTTACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (31 bp):
TGGGATAAAAAAACTATTACAGTTCTTTCAA
Found at i:870026 original size:8 final size:8
Alignment explanation
Indices: 870013--870047 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
870003 AAAATCTTTG
870013 AAATATAT
1 AAATATAT
870021 AAATATAT
1 AAATATAT
870029 AAATATAT
1 AAATATAT
* *
870037 ATATGTAT
1 AAATATAT
870045 AAA
1 AAA
870048 GTTCTTCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (8 bp):
AAATATAT
Found at i:870819 original size:21 final size:22
Alignment explanation
Indices: 870793--870836 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
870783 ATTTAATTTA
870793 AAAATAAAAAATT-ATAAAATT
1 AAAATAAAAAATTAATAAAATT
* *
870814 AAAATAATATATTAATAAAATT
1 AAAATAAAAAATTAATAAAATT
870836 A
1 A
870837 TATAAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATAAAAAATTAATAAAATT
Done.