Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold726
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: 990522
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.25
Warning! 295012 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:692186 original size:80 final size:80
Alignment explanation
Indices: 692085--692245 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
692075 TCATAGATTT
* *
692085 TGATTGACCAGGACAACAGAATAAAGAATTCTGATAATTTAATCACTACAAATTTTCAATAATCT
1 TGATTGACCAGGACAACAGAATAAAGAATTATGATAATTTAATCACTACAAATTTCCAATAATCT
692150 GATTATCTTGATGAA
66 GATTATCTTGATGAA
692165 TGATTGACCAGGACAACAGAATAAAGAATTATGATAATTTAATCACTACAAATTTCCAATAATCT
1 TGATTGACCAGGACAACAGAATAAAGAATTATGATAATTTAATCACTACAAATTTCCAATAATCT
692230 GATTATCTTGATGAA
66 GATTATCTTGATGAA
692245 T
1 T
692246 TAAATCGGCC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (80 bp):
TGATTGACCAGGACAACAGAATAAAGAATTATGATAATTTAATCACTACAAATTTCCAATAATCT
GATTATCTTGATGAA
Found at i:695231 original size:21 final size:22
Alignment explanation
Indices: 695207--695252 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
695197 ATAATATTTT
*
695207 ATATTTAAAT-TTAAT-TATAAA
1 ATATATAAATATTAATGTA-AAA
695228 ATATATAAATATTAATGTAAAA
1 ATATATAAATATTAATGTAAAA
695250 ATA
1 ATA
695253 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 11 0.50
23 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATATAAATATTAATGTAAAA
Found at i:728465 original size:17 final size:17
Alignment explanation
Indices: 728440--728479 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
728430 CTGATCAAAC
*
728440 ACTCTTTAATTAACTCG
1 ACTCATTAATTAACTCG
728457 ACTCATTAATTAACTCG
1 ACTCATTAATTAACTCG
728474 ACTCAT
1 ACTCAT
728480 GAACACTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (17 bp):
ACTCATTAATTAACTCG
Found at i:729229 original size:16 final size:16
Alignment explanation
Indices: 729208--729238 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
729198 AAAATTTTAT
*
729208 TTAATATTTTTATATA
1 TTAATATTTATATATA
729224 TTAATATTTATATAT
1 TTAATATTTATATAT
729239 TTTTATAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATATTTATATATA
Found at i:729985 original size:17 final size:17
Alignment explanation
Indices: 729965--729998 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
729955 CTATATATTT
*
729965 TTTATTTATCATTTTAA
1 TTTATTGATCATTTTAA
*
729982 TTTATTGATTATTTTAA
1 TTTATTGATCATTTTAA
729999 ATATATTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTATTGATCATTTTAA
Found at i:730576 original size:25 final size:25
Alignment explanation
Indices: 730539--730608 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
730529 CTCATTACTT
** *
730539 TATAATTGTTATTTTTTACTAA-TAA
1 TATAATTAATATTTATTA-TAATTAA
730564 TATAATTAATATTTATTATAATTAA
1 TATAATTAATATTTATTATAATTAA
730589 TCATAA-TAATATTTATTATA
1 T-ATAATTAATATTTATTATA
730609 TAATTAATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 3 0.08
25 33 0.82
26 4 0.10
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (25 bp):
TATAATTAATATTTATTATAATTAA
Found at i:731815 original size:17 final size:17
Alignment explanation
Indices: 731793--731839 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
731783 ATTATTATTT
731793 AATTTAAAATTAAATCG
1 AATTTAAAATTAAATCG
*
731810 AATTT-AAATAAAAATCG
1 AATTTAAAAT-TAAATCG
731827 AA-TTAAAATTAAA
1 AATTTAAAATTAAA
731840 CTGAAACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (17 bp):
AATTTAAAATTAAATCG
Found at i:732578 original size:20 final size:20
Alignment explanation
Indices: 732555--732609 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
732545 TAATCTCATT
*
732555 TAAATTATTTTATATTTAT-A
1 TAAA-TATTTTATATTAATAA
732575 TAAA-ATTTAATATATTAATAA
1 TAAATATTT--TATATTAATAA
732596 TAAATATTTTATAT
1 TAAATATTTTATAT
732610 ATTTTGAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 4 0.13
20 17 0.57
21 5 0.17
22 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAATATTTTATATTAATAA
Found at i:732609 original size:22 final size:20
Alignment explanation
Indices: 732555--732612 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
732545 TAATCTCATT
732555 TAAATTATTTTATAT-TTATA
1 TAAA-TATTTTATATATTATA
*
732575 TAAA-ATTTAATATATTAATAA
1 TAAATATTTTATATATT-AT-A
732596 TAAATATTTTATATATT
1 TAAATATTTTATATATT
732613 TTGAGATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.25
19 2 0.06
20 6 0.19
21 5 0.16
22 11 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAATATTTTATATATTATA
Found at i:737489 original size:2 final size:2
Alignment explanation
Indices: 737484--737510 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
737474 ATATATATAT
737484 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 A
737511 TCATTTCCAA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:739045 original size:22 final size:23
Alignment explanation
Indices: 739010--739061 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
739000 AATTTTTATT
739010 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAATTATAAAAATATA
*
739032 TAAATATTAA-TATAAAAATATT
1 TAAATATTAATTATAAAAATATA
*
739054 TTAATATT
1 TAAATATT
739062 TTTAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATATTAATTATAAAAATATA
Found at i:740155 original size:22 final size:24
Alignment explanation
Indices: 740114--740158 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
740104 CGTAAATCTA
740114 AAAAATAATAATATAATTATATTCT
1 AAAAATAATAATAT-ATTATATTCT
740139 AAAAATAATAAT-T-TTATATT
1 AAAAATAATAATATATTATATT
740159 TTATGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
24 1 0.05
25 12 0.60
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAAATAATAATATATTATATTCT
Found at i:741068 original size:25 final size:25
Alignment explanation
Indices: 741040--741089 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
741030 CAGATTCAAT
* *
741040 TACACTCTATTTTTAAATTTTAAAA
1 TACACTCTATTCTTAAATCTTAAAA
*
741065 TACATTCTATTCTTAAATCTTAAAA
1 TACACTCTATTCTTAAATCTTAAAA
741090 AAATAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (25 bp):
TACACTCTATTCTTAAATCTTAAAA
Found at i:741657 original size:2 final size:2
Alignment explanation
Indices: 741650--741683 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
741640 AAAGACTATG
741650 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
741684 CACACACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:743690 original size:38 final size:38
Alignment explanation
Indices: 743648--743758 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 38
743638 GCGATTGATT
* *
743648 TATTTATATTATATTCGTATTATTTTTTATTATAA-TAA
1 TATTTATATTATATTCATATTATTTTTTATCA-AATTAA
* *
743686 TATTTAAAATATTATATATTTATATTAATTTTTA-CAAATTAA
1 TATTT---ATA-T-TATATTCATATTATTTTTTATCAAATTAA
*
743728 TAATTTATATCATATTCATATTATTTTTTAT
1 T-ATTTATATTATATTCATATTATTTTTTAT
743759 ATCTCATTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
38 22 0.38
39 1 0.02
40 3 0.05
41 5 0.09
42 6 0.10
43 21 0.36
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.58
Consensus pattern (38 bp):
TATTTATATTATATTCATATTATTTTTTATCAAATTAA
Found at i:743726 original size:27 final size:28
Alignment explanation
Indices: 743677--743737 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
743667 TTATTTTTTA
*
743677 TTATAATAATATTTAAAATATT-ATATAT
1 TTATATTAATATTTAAAATATTAATA-AT
* *
743705 TTATATTAATTTTTACAA-ATTAATAAT
1 TTATATTAATATTTAAAATATTAATAAT
743732 TTATAT
1 TTATAT
743738 CATATTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TTATATTAATATTTAAAATATTAATAAT
Found at i:743773 original size:22 final size:23
Alignment explanation
Indices: 743731--743780 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
743721 AAATTAATAA
743731 TTTATATCATATTCATATTATTT
1 TTTATATCATATTCATATTATTT
743754 TTTATATC-TCATT-ATATTATTT
1 TTTATATCAT-ATTCATATTATTT
743776 TTTAT
1 TTTAT
743781 TATAATCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTATATCATATTCATATTATTT
Found at i:743809 original size:103 final size:103
Alignment explanation
Indices: 743665--743874 Score: 339
Period size: 103 Copynumber: 2.0 Consensus size: 103
743655 ATTATATTCG
* *
743665 TATTATTTTTTATTATAATAATATTTAAAATATTATATATTTATATTAATTTTTACAAATTAATA
1 TATTATTTTTTATTATAATAATATTTAAAACATTATATATTTATATCAATTTTTACAAATTAATA
*
743730 ATTTATATCATATTCATATTATTTTTTATATCTCATTA
66 ATTTATATCATATTCATATTATTTTTCATATCTCATTA
** * *
743768 TATTATTTTTTATTATAATCGTATTTAAAACATTATATATTTGTATCAATTTTTACACATTAATA
1 TATTATTTTTTATTATAATAATATTTAAAACATTATATATTTATATCAATTTTTACAAATTAATA
* *
743833 ATTTATATCGTATTCATATTATTTTTCATGTCTCATTA
66 ATTTATATCATATTCATATTATTTTTCATATCTCATTA
743871 TATT
1 TATT
743875 TTAATTACTT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (103 bp):
TATTATTTTTTATTATAATAATATTTAAAACATTATATATTTATATCAATTTTTACAAATTAATA
ATTTATATCATATTCATATTATTTTTCATATCTCATTA
Found at i:744269 original size:10 final size:10
Alignment explanation
Indices: 744254--744287 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
744244 CAAATTTAAT
*
744254 TATAAAAATA
1 TATAAAAAAA
744264 TATAAAAAAA
1 TATAAAAAAA
744274 TAATAAAAAAA
1 T-ATAAAAAAA
744285 TAT
1 TAT
744288 TTTTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
TATAAAAAAA
Found at i:744279 original size:11 final size:12
Alignment explanation
Indices: 744257--744287 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
744247 ATTTAATTAT
744257 AAAAATATATAA
1 AAAAATATATAA
744269 AAAAATA-ATAA
1 AAAAATATATAA
744280 AAAAATAT
1 AAAAATAT
744288 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATATATAA
Found at i:746795 original size:21 final size:21
Alignment explanation
Indices: 746771--746810 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
746761 TATTAGAAAA
746771 TGATCAGATCCGAAGTAAATT
1 TGATCAGATCCGAAGTAAATT
746792 TGATCAGATCCGAAGTAAA
1 TGATCAGATCCGAAGTAAA
746811 ATTTTGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (21 bp):
TGATCAGATCCGAAGTAAATT
Found at i:748872 original size:2 final size:2
Alignment explanation
Indices: 748865--748906 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
748855 CTGGCTCTAT
748865 TA TA TA TA -A TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
748904 TA T
1 TA T
748907 TAATGTTCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:751808 original size:2 final size:2
Alignment explanation
Indices: 751799--751832 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
751789 GAAAAAAAAA
*
751799 AT AT -T AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
751833 GATAGGATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:752528 original size:3 final size:3
Alignment explanation
Indices: 752515--752544 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
752505 TTTTTGTCAG
*
752515 CTT CCT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
752545 ATTATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:752549 original size:3 final size:3
Alignment explanation
Indices: 752543--752647 Score: 72
Period size: 3 Copynumber: 34.3 Consensus size: 3
752533 CTTCTTCTTC
* ** *
752543 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA ATA AAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
752590 TGA TTA TTA TTT TTGA TAA TTTA TATA TTTA TTA TATA TT- TTA TTA
1 TTA TTA TTA TTA TT-A TTA -TTA T-TA -TTA TTA T-TA TTA TTA TTA
*
752636 -TA TTA TAA TTA T
1 TTA TTA TTA TTA T
752648 ATTTAATATA
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
2 6 0.07
3 65 0.79
4 10 0.12
5 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:752621 original size:8 final size:8
Alignment explanation
Indices: 752608--752763 Score: 55
Period size: 8 Copynumber: 19.6 Consensus size: 8
752598 ATTTTTGATA
752608 ATTTATAT
1 ATTTATAT
752616 ATTTAT-T
1 ATTTATAT
752623 A--TATAT
1 ATTTATAT
752629 -TTTATTAT
1 ATTTA-TAT
752637 ATTATAATTAT
1 ATT-T-A-TAT
752648 ATTTAATAT
1 ATTT-ATAT
752657 ATTTTATAT
1 A-TTTATAT
* *
752666 TTTTATAA
1 ATTTATAT
*
752674 ATTTTAATAC
1 A-TTT-ATAT
* *
752684 AATAATA-
1 ATTTATAT
752691 ATTTATAT
1 ATTTATAT
* *
752699 TTTTAAAT
1 ATTTATAT
*
752707 -TTTAAAAT
1 ATTT-ATAT
* *
752715 ATATATTT
1 ATTTATAT
752723 ATTT-TAT
1 ATTTATAT
752730 A-TTATAT
1 ATTTATAT
752737 -TTTA-ATT
1 ATTTATA-T
752744 ATTT-TAT
1 ATTTATAT
752751 ATTTATAT
1 ATTTATAT
752759 ATTTA
1 ATTTA
752764 AAATTATTAA
Statistics
Matches: 114, Mismatches: 15, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
5 3 0.03
6 4 0.04
7 27 0.24
8 45 0.39
9 16 0.14
10 11 0.10
11 8 0.07
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTATAT
Found at i:752626 original size:11 final size:11
Alignment explanation
Indices: 752610--752663 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
752600 TTTTGATAAT
752610 TTATATATTTA
1 TTATATATTTA
752621 TTATATATTTTA
1 TTATATA-TTTA
*
752633 TTATAT-TATA
1 TTATATATTTA
*
752643 AT-TATATTTA
1 TTATATATTTA
*
752653 ATATAT-TTTA
1 TTATATATTTA
752663 T
1 T
752664 ATTTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 3 0.08
10 13 0.36
11 10 0.28
12 10 0.28
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATATTTA
Found at i:752646 original size:23 final size:20
Alignment explanation
Indices: 752609--752677 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
752599 TTTTTGATAA
752609 TTTATATATTTATTATATAT
1 TTTATATATTTATTATATAT
*
752629 TTTAT-TATATTATAATTATAT
1 TTTATATAT-TTATTA-TATAT
*
752650 TTAATATA-TT-TTATAT-T
1 TTTATATATTTATTATATAT
*
752667 TTTATAAATTT
1 TTTATATATTT
752678 TAATACAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 7 0.17
18 5 0.12
19 5 0.12
20 12 0.30
21 9 0.22
22 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTATATATTTATTATATAT
Found at i:752658 original size:32 final size:30
Alignment explanation
Indices: 752613--752759 Score: 94
Period size: 30 Copynumber: 4.9 Consensus size: 30
752603 TGATAATTTA
*
752613 TATATTTATTATATATTTTAT-TATATTATAAT
1 TATATTTA--ATATATTTTATAT-TTTTATAAT
752645 TATATTTAATATATTTTATATTTTTATAAAT
1 TATATTTAATATATTTTATATTTTTAT-AAT
* ** *
752676 TTTAATACAATAATAATTTATATTTTTA-AAT
1 TAT-ATTTAAT-ATATTTTATATTTTTATAAT
** *
752707 T-T-TAAAATATATATT-TA-TTTTAT-AT
1 TATATTTAATATATTTTATATTTTTATAAT
*
752732 TATATTTTAAT-TATTTTATATTTATATA
1 TATA-TTTAATATATTTTATATTTTTATA
752760 TTTAAAATTA
Statistics
Matches: 92, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
25 8 0.09
26 3 0.03
27 10 0.11
28 11 0.12
29 5 0.05
30 17 0.18
31 10 0.11
32 13 0.14
33 15 0.16
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
TATATTTAATATATTTTATATTTTTATAAT
Found at i:752663 original size:16 final size:16
Alignment explanation
Indices: 752586--752762 Score: 60
Period size: 15 Copynumber: 11.6 Consensus size: 16
752576 TTTTAATAAA
*
752586 AATATGATTATTATTTTT
1 AATAT-ATT-TTATATTT
*
752604 GATA-ATTTATATATTT
1 AATATATTT-TATATTT
*
752620 ATTATATATTTTAT-TAT
1 A--ATATATTTTATATTT
* *
752637 ATTATA-ATTATATTT
1 AATATATTTTATATTT
752652 AATATATTTTATATTTT
1 AATATATTTTATA-TTT
* * **
752669 TATAAATTTTA-ATAC
1 AATATATTTTATATTT
*
752684 AATAATAATTTATATTT
1 AAT-ATATTTTATATTT
* *
752701 -TTAAATTTTA-A---
1 AATATATTTTATATTT
*
752712 AATATATATT-TATTT
1 AATATATTTTATATTT
*
752727 --TATATTATAT-TTT
1 AATATATTTTATATTT
752740 AAT-TATTTTATATTT
1 AATATATTTTATATTT
752755 -ATATATTT
1 AATATATTT
752763 AAAATTATTA
Statistics
Matches: 113, Mismatches: 27, Indels: 41
0.62 0.15 0.23
Matches are distributed among these distances:
12 7 0.06
13 9 0.08
14 15 0.13
15 30 0.27
16 22 0.19
17 17 0.15
18 9 0.08
19 4 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (16 bp):
AATATATTTTATATTT
Found at i:752729 original size:33 final size:34
Alignment explanation
Indices: 752606--752732 Score: 107
Period size: 37 Copynumber: 3.7 Consensus size: 34
752596 TTATTTTTGA
* * * * *
752606 TAATTTATATATTTATTATATATTTTATTATATTA
1 TAATATATATATATATTTTATATTTT-TTAAATTT
*
752641 TAATTATATTTAATATATTTTATATTTTTATAAATTT
1 TAA-TATATAT-ATATATTTTATATTTTT-TAAATTT
* *
752678 TAATACA-ATA-ATAATTTATA-TTTTTAAATTT
1 TAATATATATATATATTTTATATTTTTTAAATTT
* *
752709 TAAAATATATATTTATTTTATATT
1 TAATATATATATATATTTTATATT
752733 ATATTTTAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
31 12 0.16
32 7 0.10
33 17 0.23
34 2 0.03
35 4 0.05
36 9 0.12
37 22 0.30
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (34 bp):
TAATATATATATATATTTTATATTTTTTAAATTT
Found at i:752732 original size:11 final size:11
Alignment explanation
Indices: 752716--752756 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
752706 TTTTAAAATA
752716 TATATTTATTT
1 TATATTTATTT
752727 TATATTATATTT
1 TATATT-TATTT
752739 TA-A-TTATTT
1 TATATTTATTT
752748 TATATTTAT
1 TATATTTAT
752757 ATATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 11 0.41
12 7 0.26
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATATTTATTT
Found at i:752747 original size:21 final size:23
Alignment explanation
Indices: 752721--752764 Score: 74
Period size: 21 Copynumber: 2.0 Consensus size: 23
752711 AAATATATAT
752721 TTATTTTATA-TTATAT-TTTAA
1 TTATTTTATATTTATATATTTAA
752742 TTATTTTATATTTATATATTTAA
1 TTATTTTATATTTATATATTTAA
752765 AATTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.48
22 6 0.29
23 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTATTTTATATTTATATATTTAA
Found at i:753181 original size:17 final size:17
Alignment explanation
Indices: 753161--753216 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
753151 ATAGTTTAAA
753161 ATTTTAATAATAAAATT
1 ATTTTAATAATAAAATT
* *
753178 ATTTTTATAAGATAAATT
1 ATTTTAATAATA-AAATT
*
753196 -TTTTAATTATATTAAATT
1 ATTTTAA-TA-ATAAAATT
753214 ATT
1 ATT
753217 ATGATTAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 15 0.50
18 12 0.40
19 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTTAATAATAAAATT
Found at i:758667 original size:17 final size:17
Alignment explanation
Indices: 758645--758680 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
758635 TAATCGTATA
* *
758645 ATATAAATTACAATAAT
1 ATATAAATAAAAATAAT
758662 ATATAAATAAAAATAAT
1 ATATAAATAAAAATAAT
758679 AT
1 AT
758681 GTTATATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAATAAAAATAAT
Found at i:758793 original size:13 final size:13
Alignment explanation
Indices: 758747--758793 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
758737 GTTAAAGTTT
758747 AATCTATTTTTTTA
1 AATCT-TTTTTTTA
758761 AAT-TTTTTTTTA
1 AATCTTTTTTTTA
** *
758773 AAAATTTTATTTA
1 AATCTTTTTTTTA
758786 AATCTTTT
1 AATCTTTT
758794 CAAATATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
12 10 0.36
13 15 0.54
14 3 0.11
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
AATCTTTTTTTTA
Found at i:760091 original size:21 final size:20
Alignment explanation
Indices: 760057--760097 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
760047 ACACCCATGA
*
760057 TATTATTTTGTTAATAAATT
1 TATTATTTTATTAATAAATT
*
760077 TATTATTTTTATTAATTAATT
1 TATTA-TTTTATTAATAAATT
760098 CAAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTATTTTATTAATAAATT
Found at i:760203 original size:7 final size:7
Alignment explanation
Indices: 760191--760218 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
760181 AAAACTAAGC
760191 TAAAATT
1 TAAAATT
760198 TAAAATT
1 TAAAATT
760205 TAAAATT
1 TAAAATT
760212 TAAAATT
1 TAAAATT
760219 ATCAACCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAAAATT
Found at i:762011 original size:3 final size:3
Alignment explanation
Indices: 762005--762040 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
761995 AAAAAAAGAA
762005 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
762041 CACCAAACGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:762164 original size:23 final size:22
Alignment explanation
Indices: 762103--762164 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
762093 GAGATGATAT
* *
762103 TAATATTTAAATTTTAATTTAAT
1 TAAT-TTTAAATTTTAAGTTAAA
**
762126 TAATTTTAAAAATTAACGTTAAA
1 TAATTTTAAATTTTAA-GTTAAA
762149 TAATTTTAAATTTTAA
1 TAATTTTAAATTTTAA
762165 ATTTTAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TAATTTTAAATTTTAAGTTAAA
Found at i:762281 original size:24 final size:23
Alignment explanation
Indices: 762213--762298 Score: 61
Period size: 24 Copynumber: 3.7 Consensus size: 23
762203 TAAAATAAAA
* * *
762213 ATTAAAAAATTATTTTATATTAAT
1 ATTAAATAATAATTTT-TTTTAAT
*
762237 ATT-TATAA-AATTTTATATTTAA-
1 ATTAAATAATAATTTT-T-TTTAAT
*
762259 ATTTAAATAATATATTTTTTTTATT
1 A-TTAAATAATA-ATTTTTTTTAAT
762284 ATTAAATAATAATTT
1 ATTAAATAATAATTT
762299 AAATTATATC
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
22 8 0.16
23 13 0.26
24 21 0.42
25 3 0.06
26 5 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAAATAATAATTTTTTTTAAT
Found at i:762332 original size:20 final size:20
Alignment explanation
Indices: 762294--762330 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
762284 ATTAAATAAT
762294 AATTTAAATTATATCAAATA
1 AATTTAAATTATATCAAATA
762314 AATTTAAATTATA-CAAA
1 AATTTAAATTATATCAAA
762331 ATTATATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTAAATTATATCAAATA
Found at i:762650 original size:11 final size:11
Alignment explanation
Indices: 762613--762658 Score: 65
Period size: 11 Copynumber: 3.9 Consensus size: 11
762603 TTAAGATTCG
762613 ATAATATTAAAT
1 ATAATA-TAAAT
762625 ATAATATAATTAT
1 ATAATATAA--AT
762638 ATAATATAAAT
1 ATAATATAAAT
762649 ATAATATAAA
1 ATAATATAAA
762659 AAAATTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.47
12 6 0.19
13 11 0.34
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:762706 original size:38 final size:35
Alignment explanation
Indices: 762613--762712 Score: 94
Period size: 38 Copynumber: 2.7 Consensus size: 35
762603 TTAAGATTCG
* * *
762613 ATAATATTAAATATAATATAATTATATAATATAAAT
1 ATAAT-TTAAATAAAATAAAATTATATAATATAAAA
* *
762649 ATAATATAAA-AAAATTAAAATATGATATGATATAAAAA
1 ATAATTTAAATAAAA-TAAAAT-T-ATATAATAT-AAAA
*
762687 ATAATTTAAATAAAATAAAAATATAT
1 ATAATTTAAATAAAATAAAATTATAT
762713 TAATGATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
34 3 0.06
35 9 0.17
36 10 0.19
37 9 0.17
38 17 0.33
39 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (35 bp):
ATAATTTAAATAAAATAAAATTATATAATATAAAA
Found at i:762719 original size:40 final size:40
Alignment explanation
Indices: 762627--762725 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
762617 TATTAAATAT
* * *
762627 AATATAATTATATAATAT-AAATATAATATAAAAAAATTAA
1 AATATAATTA-ATGATATAAAAAATAATATAAAAAAATAAA
* *
762667 AATATGA-T-ATGATATAAAAAATAATTTAAATAAAATAAA
1 AATATAATTAATGATATAAAAAATAATATAAA-AAAATAAA
*
762706 AATAT-ATTAATGATTTAAAA
1 AATATAATTAATGATATAAAA
762726 TTTATATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
37 6 0.12
38 13 0.27
39 14 0.29
40 16 0.33
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
AATATAATTAATGATATAAAAAATAATATAAAAAAATAAA
Found at i:762751 original size:14 final size:15
Alignment explanation
Indices: 762723--762752 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
762713 TAATGATTTA
762723 AAATTTATATAATAT
1 AAATTTATATAATAT
762738 AAATTTAT-TAATAT
1 AAATTTATATAATAT
762752 A
1 A
762753 TCAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTATATAATAT
Found at i:762763 original size:33 final size:34
Alignment explanation
Indices: 762689--762779 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 34
762679 TATAAAAAAT
* * *
762689 AATTTAAATAAAATAAAAATATATTAATGATTTAA
1 AATTTATAT-AAATATAAATATATTAATGATTCAA
*
762724 AATTTATAT-AATATAAATTTATTAAT-ATATCAA
1 AATTTATATAAATATAAATATATTAATGAT-TCAA
*
762757 ATTTTATATAAATATAAA-ATATT
1 AATTTATATAAATATAAATATATT
762780 TTAAATATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
32 2 0.04
33 30 0.62
34 8 0.17
35 8 0.17
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (34 bp):
AATTTATATAAATATAAATATATTAATGATTCAA
Found at i:762776 original size:18 final size:17
Alignment explanation
Indices: 762721--762776 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
762711 ATTAATGATT
762721 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
762737 T-AAATTTAT-TAATATA
1 TAAAATTTATATAA-ATA
*
762753 TCAAATTTTATATAAATA
1 T-AAAATTTATATAAATA
762771 TAAAAT
1 TAAAAT
762777 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 9 0.27
16 5 0.15
17 4 0.12
18 11 0.33
19 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:769326 original size:15 final size:14
Alignment explanation
Indices: 769300--769371 Score: 83
Period size: 14 Copynumber: 5.1 Consensus size: 14
769290 ATAAACTTGC
769300 TAATATTATTTTTTA
1 TAAT-TTATTTTTTA
769315 TAATTTATTTTTTA
1 TAATTTATTTTTTA
* *
769329 AAATAT-TTTTTTA
1 TAATTTATTTTTTA
*
769342 TAATTTAATTTTTA
1 TAATTTATTTTTTA
*
769356 TTAATTTAATTTTTA
1 -TAATTTATTTTTTA
769371 T
1 T
769372 TTTATTAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
13 11 0.22
14 21 0.42
15 18 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TAATTTATTTTTTA
Found at i:769365 original size:20 final size:21
Alignment explanation
Indices: 769342--769385 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
769332 TATTTTTTTA
769342 TAATTTA-ATTTTTATTAA-TT
1 TAATTTATA-TTTTATTAAGTT
*
769362 TAATTTTTATTTTATTAAGTT
1 TAATTTATATTTTATTAAGTT
769383 TAA
1 TAA
769386 AAATATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TAATTTATATTTTATTAAGTT
Found at i:769379 original size:15 final size:15
Alignment explanation
Indices: 769336--769372 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
769326 TTAAAATATT
769336 TTTTTA-TAATTTAA
1 TTTTTATTAATTTAA
769350 TTTTTATTAATTTAA
1 TTTTTATTAATTTAA
769365 TTTTTATT
1 TTTTTATT
769373 TTATTAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATTAATTTAA
Found at i:769504 original size:18 final size:18
Alignment explanation
Indices: 769483--769518 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
769473 TTTTTTAAAT
*
769483 TAAATTTAATTTTTTATC
1 TAAACTTAATTTTTTATC
*
769501 TAAACTTATTTTTTTATC
1 TAAACTTAATTTTTTATC
769519 ATAATAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (18 bp):
TAAACTTAATTTTTTATC
Found at i:769673 original size:14 final size:14
Alignment explanation
Indices: 769650--769690 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
769640 GGATTCCAAA
769650 TATATATATATATT
1 TATATATATATATT
*
769664 TATTTATATATATT
1 TATATATATATATT
769678 TATATATATATAT
1 TATATATATATAT
769691 ATAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATATATATATATT
Found at i:769712 original size:2 final size:2
Alignment explanation
Indices: 769649--769693 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
769639 AGGATTCCAA
* * *
769649 AT AT AT AT AT AT AT TT AT TT AT AT AT AT TT 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
769691 AT A
1 AT A
769694 ATTTGTTAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:770109 original size:15 final size:15
Alignment explanation
Indices: 770089--770118 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
770079 ATAATAATTG
*
770089 TAATATTTAAATTTA
1 TAATATTCAAATTTA
770104 TAATATTCAAATTTA
1 TAATATTCAAATTTA
770119 CAAAAAATAA
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:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATATTCAAATTTA
Found at i:770717 original size:50 final size:50
Alignment explanation
Indices: 770653--770871 Score: 348
Period size: 50 Copynumber: 4.4 Consensus size: 50
770643 TTGATTATCT
* * * *
770653 TTCACCAACCTTTGATAATAGAGAGAGGTAGTCGTAATTGTTGACGATTC
1 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
* *
770703 TTCACCAACTTTTGACAATAGAGAGAGGTGGCCATTATTGTTGACGATTC
1 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
*
770753 TTCACCAACCTTTGACAATAGAGAGAGGTGACCATAATTGTTGACGATTC
1 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
* *
770803 TTCACCAACCTTTGACAAATGGAGAGAGGTGGCCATTATTGTTGACGATTC
1 TTCACCAACCTTTGAC-AATAGAGAGAGGTGGCCATAATTGTTGACGATTC
770854 TTCACCAACCTTTGACAA
1 TTCACCAACCTTTGACAA
770872 ATGTGGCCAT
Statistics
Matches: 156, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 109 0.70
51 47 0.30
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (50 bp):
TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
Found at i:775360 original size:50 final size:50
Alignment explanation
Indices: 775285--775517 Score: 376
Period size: 50 Copynumber: 4.6 Consensus size: 50
775275 AGTTGTTGCC
* * * * *
775285 ATTGTTGACTATCCTTCACTAACCTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
775335 ATTGTTGATGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
775385 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
* *
775435 ATTGTTGACGATTCTTCACCAACCTTTGACAAATGGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGAC-AATAGAGAGAGGTGGCCATA
775486 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
775518 ATGTGGCCAT
Statistics
Matches: 171, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 123 0.72
51 48 0.28
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATA
Found at i:778651 original size:19 final size:19
Alignment explanation
Indices: 778627--778664 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
778617 GTTGCATTAG
778627 GCCTTCTAATACCCACAAT
1 GCCTTCTAATACCCACAAT
778646 GCCTTCTAATACCCACAAT
1 GCCTTCTAATACCCACAAT
778665 CAAACCAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (19 bp):
GCCTTCTAATACCCACAAT
Found at i:780886 original size:102 final size:101
Alignment explanation
Indices: 780726--780929 Score: 311
Period size: 102 Copynumber: 2.0 Consensus size: 101
780716 GTTAAGACAG
* * * *
780726 TTGCAATTCTCCAAGTGTAATTTGGAATAAGATTGCTTGGCATTTAATCGATTTATTATTATAAT
1 TTGCAAATCTCCAAGTGTAATTCGGAATAAGATTGCTTGGCATTTAATCGATTAATTATTATAAC
* *
780791 GTTAGTGGAATAATCAAAATTTTATTTTTAAATCAT
66 GTTAGTGAAATAAGCAAAATTTTATTTTTAAATCAT
*
780827 TTGCAAATCTCCAAATTGTAATTCGGAAT-AGAATTGCTTGGCATTTAATCGATTAATTATTATA
1 TTGCAAATCTCC-AAGTGTAATTCGGAATAAG-ATTGCTTGGCATTTAATCGATTAATTATTATA
*
780891 ACGTTAGTGAAATAAGCAAAATTTTATTTTTTAATCAT
64 ACGTTAGTGAAATAAGCAAAATTTTATTTTTAAATCAT
780929 T
1 T
780930 AATCCAATTG
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
101 13 0.14
102 80 0.86
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (101 bp):
TTGCAAATCTCCAAGTGTAATTCGGAATAAGATTGCTTGGCATTTAATCGATTAATTATTATAAC
GTTAGTGAAATAAGCAAAATTTTATTTTTAAATCAT
Found at i:781220 original size:11 final size:12
Alignment explanation
Indices: 781203--781234 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
781193 TTATTTTAAC
781203 AAATTAATTATT
1 AAATTAATTATT
781215 -AATTAATT-TT
1 AAATTAATTATT
781225 AAATTAATTA
1 AAATTAATTA
781235 ATCCTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 2 0.11
11 16 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AAATTAATTATT
Found at i:781892 original size:17 final size:17
Alignment explanation
Indices: 781861--781907 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
781851 TATGACAGTC
*
781861 AAATTAAAAAA-TATAA
1 AAATAAAAAAATTATAA
*
781877 ATATAAAAAAATTATAA
1 AAATAAAAAAATTATAA
*
781894 AAATATAAAAATTA
1 AAATAAAAAAATTA
781908 ATTTCATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATAAAAAAATTATAA
Found at i:781900 original size:8 final size:8
Alignment explanation
Indices: 781867--781905 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
781857 AGTCAAATTA
781867 AAAAATAT
1 AAAAATAT
* *
781875 AAATATAA
1 AAAAATAT
781883 AAAAATTAT
1 AAAAA-TAT
781892 AAAAATAT
1 AAAAATAT
781900 AAAAAT
1 AAAAAT
781906 TAATTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:782124 original size:15 final size:15
Alignment explanation
Indices: 782104--782138 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
782094 TTTTATTTAT
*
782104 TATAAATTTGAATAC
1 TATAAATTTAAATAC
*
782119 TATAAATTTAAATAT
1 TATAAATTTAAATAC
782134 TATAA
1 TATAA
782139 CTATTATCTA
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:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (15 bp):
TATAAATTTAAATAC
Found at i:782481 original size:25 final size:25
Alignment explanation
Indices: 782453--782510 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
782443 ATATTCAATG
* *
782453 AATAATATTATTT-AATTTAAATTAA
1 AATAATAATATTTAAATTT-AATGAA
782478 AATAATAATATTTAAATTTAATGAA
1 AATAATAATATTTAAATTTAATGAA
782503 AATAATAA
1 AATAATAA
782511 ATAAATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
AATAATAATATTTAAATTTAATGAA
Found at i:783809 original size:23 final size:22
Alignment explanation
Indices: 783765--783809 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
783755 TATAATATTA
**
783765 AAATTTAAATCTTAAATCTAAT
1 AAATTTAAATCTTAAAAATAAT
*
783787 AAATATTAAATTTTAAAAATAAT
1 AAAT-TTAAATCTTAAAAATAAT
783810 TATATATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTTAAATCTTAAAAATAAT
Found at i:785758 original size:79 final size:80
Alignment explanation
Indices: 785663--785817 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 80
785653 TGCTCACACA
* *
785663 GCACTCATTTTCATTTTTCTCCAGCTCTTGGCGACCATTAAAAAGAAAAGTG-GCCAAGGGAACA
1 GCACTCATTTACATTTTGCTCCAGCTCTTGGCGACCATT-AAAAGAAAAG-GAGCCAAGGGAACA
785727 TG-TT-AAGGCCAAACT
64 TGTTTAAAGGCCAAACT
* *** *
785742 GCACTCATTTACATTTTGCTTCAGCTCTTGGCGTTTATTAAAAGAAAAGGAGCCAGGGGAACATG
1 GCACTCATTTACATTTTGCTCCAGCTCTTGGCGACCATTAAAAGAAAAGGAGCCAAGGGAACATG
785807 TTTAAAGGCCA
66 TTTAAAGGCCA
785818 GTACAATGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
77 1 0.02
78 23 0.35
79 35 0.53
80 7 0.11
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (80 bp):
GCACTCATTTACATTTTGCTCCAGCTCTTGGCGACCATTAAAAGAAAAGGAGCCAAGGGAACATG
TTTAAAGGCCAAACT
Found at i:785883 original size:17 final size:16
Alignment explanation
Indices: 785861--785910 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
785851 TATTTAAAAT
785861 AATTTATATTTATATAA
1 AATTTATATTTATAT-A
*
785878 AATTTAACATTTATATA
1 AATTT-ATATTTATATA
*
785895 AATATTCTATTTATAT
1 AAT-TTATATTTATAT
785911 TAGTTCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTATATTTATATA
Found at i:792291 original size:16 final size:16
Alignment explanation
Indices: 792272--792327 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
792262 ATTTTTTTAA
*
792272 ATATTTATTTTAATAT
1 ATATTTATTTAAATAT
*
792288 ATATATATTTAAATAT
1 ATATTTATTTAAATAT
*
792304 AAATTTA-TT-AATAT
1 ATATTTATTTAAATAT
792318 A-ATTT-TTTAA
1 ATATTTATTTAA
792328 TAATTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 6 0.18
14 7 0.21
15 2 0.06
16 19 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATTTATTTAAATAT
Found at i:792326 original size:28 final size:27
Alignment explanation
Indices: 792264--792327 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
792254 GATTTTTTAT
**
792264 TTTTTTAAATATTTATTTTAATATATA
1 TTTTTTAAATATAAATTTTAATATATA
*
792291 TATATTTAAATATAAATTTATTAATATA-A
1 T-TTTTTAAATATAAA-TT-TTAATATATA
792320 TTTTTTAA
1 TTTTTTAA
792328 TAATTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
27 1 0.03
28 17 0.57
29 4 0.13
30 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTTAAATATAAATTTTAATATATA
Found at i:792371 original size:18 final size:18
Alignment explanation
Indices: 792326--792359 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
792316 ATAATTTTTT
792326 AATAATTTTAAATAAATA
1 AATAATTTTAAATAAATA
792344 AATAATTTTAAA-AAAT
1 AATAATTTTAAATAAAT
792360 TAATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATTTTAAATAAATA
Found at i:795689 original size:79 final size:78
Alignment explanation
Indices: 795559--795792 Score: 254
Period size: 79 Copynumber: 3.0 Consensus size: 78
795549 TATCAATGTT
* * * * *
795559 TTTATTTCCAAAATAT-AATTTTTCACCATCGGGAACACTCCAACCTCGTTATTTCTGAGGGGAT
1 TTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGA-GGGAT
* *
795623 ACTCCTACCCCGGC
65 ACTCCAACCCCGAC
** ** * ** *
795637 TTTATTTCTGAAACATCGATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTCCAAAAGGAT
1 TTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTT-CTGAGGGAT
* *
795702 ACTCCAACCCTGAT
65 ACTCCAACCCCGAC
* *
795716 TTTATTTCCAAAACATCGATTTTTCACCATTGGGGATATTCCAACCCCGTTATTTCTGAGGGAGT
1 TTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGA-T
795781 ACTCCAATCCCC
65 ACTCCAA-CCCC
795793 TTTTTATCTC
Statistics
Matches: 124, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
78 18 0.15
79 101 0.81
80 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
TTTATTTCCAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGATA
CTCCAACCCCGAC
Found at i:798203 original size:2 final size:2
Alignment explanation
Indices: 798191--798228 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
798181 CTCAAAGATC
*
798191 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
798229 GTGGCTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:798476 original size:2 final size:2
Alignment explanation
Indices: 798469--798511 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
798459 ATCATCAACA
798469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
798510 AT
1 AT
798512 TACAATTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:802541 original size:17 final size:19
Alignment explanation
Indices: 802505--802541 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
802495 TATTTTTTAC
*
802505 ATATTTAATAATTTATATT
1 ATATTTAATAATTTACATT
802524 ATATTT-AT-ATTTACATT
1 ATATTTAATAATTTACATT
802541 A
1 A
802542 ATATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
ATATTTAATAATTTACATT
Found at i:803161 original size:11 final size:10
Alignment explanation
Indices: 803142--803191 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
803132 AAATTTAATT
803142 TAAA-AAATA
1 TAAATAAATA
803151 TAAATAGAATA
1 TAAATA-AATA
*
803162 TAAATAAATT
1 TAAATAAATA
803172 TAAA-ATAA-A
1 TAAATA-AATA
803181 TAAATAAATA
1 TAAATAAATA
803191 T
1 T
803192 GATTAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 11 0.32
10 13 0.38
11 10 0.29
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
TAAATAAATA
Found at i:803170 original size:15 final size:14
Alignment explanation
Indices: 803150--803191 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
803140 TTTAAAAAAT
803150 ATAAATAGAATATAA
1 ATAAATA-AATATAA
803165 ATAAATTTAAA-ATAA
1 ATAAA--TAAATATAA
803180 ATAAATAAATAT
1 ATAAATAAATAT
803192 GATTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.17
14 2 0.08
15 14 0.58
16 2 0.08
17 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
ATAAATAAATATAA
Found at i:803202 original size:35 final size:35
Alignment explanation
Indices: 803131--803207 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
803121 ATTTGAAATT
** *
803131 TAAATTTAATTTAAAAAATATAAATAGAATATAAA
1 TAAATTTAAAATAAAAAATATAAATAGAATAAAAA
* *
803166 TAAATTTAAAATAAATAA-ATAAATATGATTAAAAA
1 TAAATTTAAAATAAAAAATATAAATA-GAATAAAAA
*
803201 TATATTT
1 TAAATTT
803208 GTTTAATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 7 0.20
35 28 0.80
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (35 bp):
TAAATTTAAAATAAAAAATATAAATAGAATAAAAA
Found at i:803988 original size:16 final size:15
Alignment explanation
Indices: 803944--804025 Score: 65
Period size: 16 Copynumber: 5.2 Consensus size: 15
803934 TCGAATTTAA
803944 TTTAAATTTAATATTT
1 TTTAAATTTAA-ATTT
* ** *
803960 TTGAGGTTAAAATTT
1 TTTAAATTTAAATTT
803975 TTTAAGATTTAAATTAT
1 TTTAA-ATTTAAATT-T
* *
803992 TTTATATTTAATTTT
1 TTTAAATTTAAATTT
*
804007 TTTAAATATAAATCTT
1 TTTAAATTTAAAT-TT
804023 TTT
1 TTT
804026 TGAATTTTCA
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
15 18 0.36
16 27 0.54
17 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (15 bp):
TTTAAATTTAAATTT
Found at i:804240 original size:3 final size:3
Alignment explanation
Indices: 804232--804270 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
804222 TTGAACCTGC
804232 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
804271 CTTTTTTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:804580 original size:11 final size:11
Alignment explanation
Indices: 804566--804627 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
804556 ATTATTTTAT
804566 AATATAATATA
1 AATATAATATA
*
804577 AATATGATATAA
1 AATATAATAT-A
* *
804589 AAAATTAAAAT-
1 AATA-TAATATA
*
804600 AATATTATATA
1 AATATAATATA
*
804611 AAAATAATATA
1 AATATAATATA
804622 AATATA
1 AATATA
804628 TAAATTTATT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
10 4 0.11
11 26 0.68
12 4 0.11
13 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
AATATAATATA
Found at i:804608 original size:21 final size:20
Alignment explanation
Indices: 804583--804631 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
804573 TATAAATATG
804583 ATATAAAAAATTAAAAT-AAT
1 ATATAAAAAA-TAAAATAAAT
*
804603 ATTATATAAAAATAATATAAAT
1 A-TATA-AAAAATAAAATAAAT
804625 ATATAAA
1 ATATAAA
804632 TTTATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 3 0.12
21 13 0.52
22 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATAAAAAATAAAATAAAT
Found at i:804670 original size:29 final size:27
Alignment explanation
Indices: 804617--804670 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
804607 TATAAAAATA
**
804617 ATATAAATATATAAATTTATTTATATT
1 ATATAAATATATAAATTTAAATATATT
*
804644 ATATAATTATATAATATTTTAAATATA
1 ATATAAATATATAA-A-TTTAAATATA
804671 AATTTTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 13 0.59
28 1 0.05
29 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATAAATATATAAATTTAAATATATT
Found at i:805585 original size:18 final size:17
Alignment explanation
Indices: 805562--805596 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
805552 AAAATATAAA
805562 ATATTACAAATTTATTTT
1 ATATTA-AAATTTATTTT
*
805580 ATATTAATATTTATTTT
1 ATATTAAAATTTATTTT
805597 TAAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTAAAATTTATTTT
Found at i:806415 original size:11 final size:12
Alignment explanation
Indices: 806379--806422 Score: 63
Period size: 11 Copynumber: 3.7 Consensus size: 12
806369 CTTAAAAATA
*
806379 TATTTTTAGTAAT
1 TATTTTTAGT-TT
806392 TATTTTTAGTTT
1 TATTTTTAGTTT
806404 TATTTTTA-TTT
1 TATTTTTAGTTT
806415 TATTTTTA
1 TATTTTTA
806423 AATAATGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 11 0.37
12 9 0.30
13 10 0.33
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (12 bp):
TATTTTTAGTTT
Found at i:807524 original size:12 final size:12
Alignment explanation
Indices: 807507--807532 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
807497 TAATAATAAA
807507 AAAATTTAATTT
1 AAAATTTAATTT
807519 AAAATTTAATTT
1 AAAATTTAATTT
807531 AA
1 AA
807533 TTAATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAATTTAATTT
Found at i:807900 original size:23 final size:23
Alignment explanation
Indices: 807870--807916 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
807860 TTTAAAATTT
*
807870 ATTTTTAT-ATTAATATTTATATA
1 ATTTTTATAATTAA-ATTTAAATA
807893 ATTTTTATAATTAAATTTAAATA
1 ATTTTTATAATTAAATTTAAATA
807916 A
1 A
807917 AAAATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTTATAATTAAATTTAAATA
Found at i:807966 original size:10 final size:10
Alignment explanation
Indices: 807943--807976 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
807933 AAATAAATAA
*
807943 TAATTAAAAT
1 TAATTTAAAT
*
807953 TAATTTAAAC
1 TAATTTAAAT
807963 TAATTTAAAT
1 TAATTTAAAT
807973 TAAT
1 TAAT
807977 AAAAAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:809275 original size:23 final size:24
Alignment explanation
Indices: 809232--809313 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 24
809222 AAAGAACTAG
* *
809232 TAAAATTTTATTTTAATTAAAAAT
1 TAAAAATTTATTTTAAATAAAAAT
809256 TAAAAATTTA-TTTAAAT-AAAA-
1 TAAAAATTTATTTTAAATAAAAAT
* *
809277 TAATAAATTTTATTTTAACAAAAAAAA
1 TAA-AAA-TTTATTTTAA-ATAAAAAT
809304 TATAAAATTT
1 TA-AAAATTT
809314 GGATCGAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.06
22 7 0.15
23 10 0.21
24 14 0.29
25 1 0.02
26 7 0.15
27 5 0.10
28 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAAAATTTATTTTAAATAAAAAT
Found at i:814101 original size:13 final size:14
Alignment explanation
Indices: 814083--814130 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
814073 TATAGCTCGA
814083 TTTAT-TTATATTT
1 TTTATATTATATTT
814096 TTTATTAATTATATTT
1 TTTA-T-ATTATATTT
*
814112 TTTATATT-TATTG
1 TTTATATTATATTT
814125 TTTATA
1 TTTATA
814131 ATTAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 14 0.45
14 4 0.13
15 1 0.03
16 12 0.39
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTATATTATATTT
Found at i:814647 original size:13 final size:13
Alignment explanation
Indices: 814629--814654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
814619 CTATAAAAAA
814629 TTTTTATTTAAAT
1 TTTTTATTTAAAT
814642 TTTTTATTTAAAT
1 TTTTTATTTAAAT
814655 CTAGTTCACT
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:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTATTTAAAT
Found at i:814706 original size:340 final size:348
Alignment explanation
Indices: 814314--814966 Score: 1038
Period size: 340 Copynumber: 1.9 Consensus size: 348
814304 TGTAAATAAT
* * *
814314 TCTAGTTCACTCATAAATATAAATGAAATTTTTTGATAAGAATTTGATGAATGAGTTTAGTAAGC
1 TCTAGTTCACTCATAAATATAAATGAAATTTTTTGACAAGAATTTAATGAATGAGTTTAGAAAGC
* *
814379 TAAAAAGTTAATTAGGAAGACACCTTTTTGGAAATGATAAAAATTAGACGTTTTAATTTATTAAT
66 TAAAAAGTTAATTAGGAAGAAACCTTTTTGGAAATGATAAAAATTAGACATTTTAATTTATTAAT
*
814444 TCAATCTT-AATTAATATTTAATAAAAAATATTTATTTTTAAATTTGAT-AAAA-A-A-A-A-TA
131 TCAAT-TTGAATTAATATTTAATAAAAAATATTTATATTTAAATTTGATAAAAATATAGATATTA
* * *
814502 TAGATATTTATATAAAAATAAAATTTTTAATCTTTTAATATATTTCTAATAATAAAATGAGTTTC
195 TAAATATTTATATAAAAATAAAATTTTTAATCTTTTAATACATTTCAAATAATAAAATGAGTTTC
*
814567 AAGGCAAAAT-A-ATGTGAATCAATTCTATACAAATAGTTTTTTTATTTAAAGTCTATAAAAAAT
260 AAGGCAAAATCAGATGTGAATCAAGTCTATACAAATAGTTTTTTTATTTAAAGTCTATAAAAAAT
814630 TTTTATTTAAATTTTTTATTTAAA
325 TTTTATTTAAATTTTTTATTTAAA
* *
814654 TCTAGTTCACTCATAACTATAAATGAATTTTTTTTG-CAAGAATTTAATGAATGAGTTTAGAAAG
1 TCTAGTTCACTCATAAATATAAATGAA-ATTTTTTGACAAGAATTTAATGAATGAGTTTAGAAAG
*
814718 CTAAAAAGTTAATTAGGAAGAAATCTTTTTGGAAATGATAAAAATTAGACATTTTAATTTATTAA
65 CTAAAAAGTTAATTAGGAAGAAACCTTTTTGGAAATGATAAAAATTAGACATTTTAATTTATTAA
* * *
814783 TTTAGTTTGAATTATTATTTAATAAAAAATATTTATATTTAAATTTGATAAAAAATATAGATATT
130 TTCAATTTGAATTAATATTTAATAAAAAATATTTATATTTAAATTTGAT-AAAAATATAGATA-T
814848 TATAAATATTTATATAAAAATAAAATTTTTAATCTTTTAATACATTTCAAATAATAAAATGAGTT
193 TATAAATATTTATATAAAAATAAAATTTTTAATCTTTTAATACATTTCAAATAATAAAATGAGTT
**
814913 TTTAGGCAAAATCAGATGTGAATCAAGTCTATACAAATAGTTTTTTTATTTAAA
258 TCAAGGCAAAATCAGATGTGAATCAAGTCTATACAAATAGTTTTTTTATTTAAA
814967 TTTGGCTCCA
Statistics
Matches: 283, Mismatches: 18, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
339 2 0.01
340 155 0.55
341 7 0.02
342 4 0.01
343 1 0.00
344 1 0.00
345 1 0.00
346 1 0.00
348 72 0.25
349 1 0.00
350 38 0.13
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (348 bp):
TCTAGTTCACTCATAAATATAAATGAAATTTTTTGACAAGAATTTAATGAATGAGTTTAGAAAGC
TAAAAAGTTAATTAGGAAGAAACCTTTTTGGAAATGATAAAAATTAGACATTTTAATTTATTAAT
TCAATTTGAATTAATATTTAATAAAAAATATTTATATTTAAATTTGATAAAAATATAGATATTAT
AAATATTTATATAAAAATAAAATTTTTAATCTTTTAATACATTTCAAATAATAAAATGAGTTTCA
AGGCAAAATCAGATGTGAATCAAGTCTATACAAATAGTTTTTTTATTTAAAGTCTATAAAAAATT
TTTATTTAAATTTTTTATTTAAA
Found at i:814828 original size:26 final size:26
Alignment explanation
Indices: 814799--814849 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
814789 TTGAATTATT
**
814799 ATTTAATAAAAAATATTTATATTTAA
1 ATTTAATAAAAAATATAGATATTTAA
*
814825 ATTTGATAAAAAATATAGATATTTA
1 ATTTAATAAAAAATATAGATATTTA
814850 TAAATATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (26 bp):
ATTTAATAAAAAATATAGATATTTAA
Found at i:816334 original size:19 final size:20
Alignment explanation
Indices: 816310--816347 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
816300 ATAATTAAAT
816310 TTATATAAA-AAAAATTTTA
1 TTATATAAATAAAAATTTTA
*
816329 TTATATAAATAATAATTTT
1 TTATATAAATAAAAATTTT
816348 GATCAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATATAAATAAAAATTTTA
Found at i:817056 original size:2 final size:2
Alignment explanation
Indices: 817049--817099 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
817039 TTCACTCTCC
* * * *
817049 AT AT AT AT TT AT AT TT GT AT GT 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
*
817091 AT GT AT AT A
1 AT AT AT AT A
817100 GATGCATCCA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (2 bp):
AT
Found at i:818191 original size:2 final size:2
Alignment explanation
Indices: 818184--818208 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
818174 CAGATATTGT
818184 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
818209 TAGTAAGGAA
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:818674 original size:15 final size:17
Alignment explanation
Indices: 818634--818675 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
818624 TATTAAATTC
*
818634 ATATATTTATTATTTAT
1 ATATATTTATTATTAAT
818651 ATATAATTT-TT-TTAAT
1 ATAT-ATTTATTATTAAT
818667 ATATATTTA
1 ATATATTTA
818676 ATGGTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 6 0.27
18 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTTATTATTAAT
Found at i:821053 original size:17 final size:15
Alignment explanation
Indices: 821031--821067 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 15
821021 CTTTTAGTAC
821031 ATATATTAAATATGTAT
1 ATATATT-AATAT-TAT
821048 ATATATTAATATTAT
1 ATATATTAATATTAT
821063 ATATA
1 ATATA
821068 CTTTTAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
16 5 0.25
17 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATATTAATATTAT
Found at i:821654 original size:2 final size:2
Alignment explanation
Indices: 821647--821680 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
821637 TAAAAAGCTT
821647 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
821681 GGATTAACAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:821934 original size:2 final size:2
Alignment explanation
Indices: 821927--821970 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
821917 ATGTATGCTT
821927 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
821969 TC
1 TC
821971 ACAATCCTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:823485 original size:20 final size:20
Alignment explanation
Indices: 823444--823487 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
823434 ATATATTTAA
*
823444 TAAAAATATATTTAATTTTT
1 TAAAAATATATTTAATTATT
*
823464 TAAAAATAT-TTTTATGTATT
1 TAAAAATATATTTAAT-TATT
823484 TAAA
1 TAAA
823488 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TAAAAATATATTTAATTATT
Found at i:824831 original size:25 final size:24
Alignment explanation
Indices: 824803--824862 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
824793 TTTTTTTATG
824803 TATTTAAAAAGTTAT-TTTAAGATTA
1 TATTTAAAAAGTTATATTTAA-A-TA
** *
824828 TATTTTTAAATTTATATTTAAATA
1 TATTTAAAAAGTTATATTTAAATA
824852 TATGTTAAAAA
1 TAT-TTAAAAA
824863 TAAATTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 5 0.18
25 18 0.64
26 5 0.18
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
TATTTAAAAAGTTATATTTAAATA
Found at i:833759 original size:19 final size:19
Alignment explanation
Indices: 833724--833761 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
833714 TGACTTTTGG
*
833724 GCCTTTAATTTTGAATTTT
1 GCCTTTAATTTTAAATTTT
833743 GCCTTT-ATTTTCAAATTTT
1 GCCTTTAATTTT-AAATTTT
833762 TGAACAGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (19 bp):
GCCTTTAATTTTAAATTTT
Found at i:834413 original size:29 final size:29
Alignment explanation
Indices: 834350--834414 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
834340 CATTTTATAT
834350 TTATATATTTGTTATGTTATAATTACATA
1 TTATATATTTGTTATGTTATAATTACATA
* *
834379 TAATATATTT-TATATGTTAATAATT-CGTA
1 TTATATATTTGT-TATGTT-ATAATTACATA
834408 TTATATA
1 TTATATA
834415 AATTTTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 24 0.77
30 6 0.19
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (29 bp):
TTATATATTTGTTATGTTATAATTACATA
Found at i:834595 original size:15 final size:17
Alignment explanation
Indices: 834570--834601 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
834560 TTTTTTACCT
834570 TTTTCTTTAAA-TAATA
1 TTTTCTTTAAACTAATA
834586 TTTT-TTTAAACTAATA
1 TTTTCTTTAAACTAATA
834602 ATCTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTCTTTAAACTAATA
Found at i:834682 original size:2 final size:2
Alignment explanation
Indices: 834623--834665 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
834613 CATGAATGTC
* *
834623 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
834665 A
1 A
834666 CATGCATGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:835152 original size:191 final size:194
Alignment explanation
Indices: 834823--835212 Score: 687
Period size: 191 Copynumber: 2.0 Consensus size: 194
834813 TACAAAACTT
834823 CAAATAAAAATATTATAAGTAAAATACTCCCGTATTTATAATCATAGATGAAATTAGGTTTGAAA
1 CAAATAAAAATATTATAAGTAAAATACTCCCGTATTTATAATCATAGATGAAATTAGGTTTGAAA
**
834888 GATAGGATTACAACATCAACTCTAATAACAAAAAATATATATTACTTTATTGTATAAGTATATTG
66 GATAAAATTACAACATCAACTCTAATAACAAAAAATATATATTACTTTATTGTATAAGTATATTG
*
834953 TGTTTAAAGTTTTCGAGTTTAGCGAT-A-G-TGATGAGAATTAGTTTGTGTTGCTAACTTGAAC
131 TATTTAAAGTTTTCGAGTTTAGCGATGATGATGATGAGAATTAGTTTGTGTTGCTAACTTGAAC
* * *
835014 CAAATAAAAATATTATAAGTAAAATATTCTCGTTTTTATAATCATAGATGAAATTAGGTTTGAAA
1 CAAATAAAAATATTATAAGTAAAATACTCCCGTATTTATAATCATAGATGAAATTAGGTTTGAAA
*
835079 GATAAAATTACAATATCAACTCTAATAACAAAAAATATATATTACTTTATTGTATAAGTATATTG
66 GATAAAATTACAACATCAACTCTAATAACAAAAAATATATATTACTTTATTGTATAAGTATATTG
*
835144 TATTTAAAGTTTTCGAGTTTAGCGATGATGATGATGAGAATTAGTTTGTGTTGCTCACTTGAAC
131 TATTTAAAGTTTTCGAGTTTAGCGATGATGATGATGAGAATTAGTTTGTGTTGCTAACTTGAAC
835208 CAAAT
1 CAAAT
835213 TATTTTTAGG
Statistics
Matches: 188, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
191 149 0.79
192 1 0.01
193 1 0.01
194 37 0.20
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (194 bp):
CAAATAAAAATATTATAAGTAAAATACTCCCGTATTTATAATCATAGATGAAATTAGGTTTGAAA
GATAAAATTACAACATCAACTCTAATAACAAAAAATATATATTACTTTATTGTATAAGTATATTG
TATTTAAAGTTTTCGAGTTTAGCGATGATGATGATGAGAATTAGTTTGTGTTGCTAACTTGAAC
Found at i:835359 original size:2 final size:2
Alignment explanation
Indices: 835352--835376 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
835342 AATAATCCTT
835352 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
835377 CAAACCAATG
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:835554 original size:21 final size:20
Alignment explanation
Indices: 835509--835559 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
835499 AGTAAATAGG
*
835509 AAAAATTAATTAATGATATTA
1 AAAAATTATTTAA-GATATTA
835530 AAAAATTATTTAA-ATATTGA
1 AAAAATTATTTAAGATATT-A
*
835550 TAAAATTATT
1 AAAAATTATT
835560 GACACATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 10 0.37
21 12 0.44
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (20 bp):
AAAAATTATTTAAGATATTA
Found at i:836646 original size:23 final size:25
Alignment explanation
Indices: 836605--836653 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
836595 TTAAATTATT
836605 ATTTAAATAATAAAAATTAAT-TAA
1 ATTTAAATAATAAAAATTAATATAA
* *
836629 ATTT-AATTATAAATATTAATATAA
1 ATTTAAATAATAAAAATTAATATAA
836653 A
1 A
836654 AATAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTTAAATAATAAAAATTAATATAA
Found at i:838409 original size:2 final size:2
Alignment explanation
Indices: 838396--838437 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
838386 TCAGTGTATG
* * *
838396 TA TA TT TA TA TA TA TA TA TA TA TA CA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
838438 ATTTTAATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:839648 original size:20 final size:20
Alignment explanation
Indices: 839619--839662 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
839609 TATTAAAAAT
* * *
839619 TTTATGTTTTAATATTTATA
1 TTTATATTTTAATAATTAAA
*
839639 TTTATATTTTTATAATTAAA
1 TTTATATTTTAATAATTAAA
839659 TTTA
1 TTTA
839663 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTATATTTTAATAATTAAA
Found at i:839906 original size:20 final size:21
Alignment explanation
Indices: 839883--839933 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
839873 ATATATTTTG
* *
839883 TTAAAAAAAT-ATATAAAATA
1 TTAAAAAAATAAAATAAAAGA
*
839903 TTAAAAAAATAAAATAACAGA
1 TTAAAAAAATAAAATAAAAGA
839924 TTAAAAAAAT
1 TTAAAAAAAT
839934 CAAAGCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
TTAAAAAAATAAAATAAAAGA
Found at i:841060 original size:19 final size:18
Alignment explanation
Indices: 841031--841080 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
841021 ATTTCTTAAT
* *
841031 ATATAAATATAATGTTTG
1 ATATAATTATAATGTTTC
* *
841049 ATTATAGTTATAATTTTTC
1 A-TATAATTATAATGTTTC
841068 ATATAATTATAAT
1 ATATAATTATAAT
841081 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (18 bp):
ATATAATTATAATGTTTC
Found at i:841077 original size:18 final size:18
Alignment explanation
Indices: 841031--841083 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
841021 ATTTCTTAAT
* * *
841031 ATATAAATATAATGTTTG
1 ATATAATTATAATTTTTC
*
841049 ATTATAGTTATAATTTTTC
1 A-TATAATTATAATTTTTC
841068 ATATAATTATAATTTT
1 ATATAATTATAATTTT
841084 AAAAAATCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (18 bp):
ATATAATTATAATTTTTC
Found at i:841666 original size:20 final size:20
Alignment explanation
Indices: 841643--841701 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
841633 TTTAATTTAA
841643 AAAAATTAATTATTTATTAT
1 AAAAATTAATTATTTATTAT
**
841663 AAAAATT-ATTAATAAATTAT
1 AAAAATTAATT-ATTTATTAT
* *
841683 TAAAA-TAAATATTTATTAT
1 AAAAATTAATTATTTATTAT
841702 TTAATTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATTAATTATTTATTAT
Found at i:841673 original size:23 final size:24
Alignment explanation
Indices: 841632--841709 Score: 67
Period size: 23 Copynumber: 3.4 Consensus size: 24
841622 TTCAAATATA
841632 ATTTAATT-TAAA-AAA-ATTAATT
1 ATTT-ATTATAAATAAATATTAATT
* *
841654 ATTTATTATAAA-AATTATTAATA
1 ATTTATTATAAATAAATATTAATT
* *
841677 AATTATTA-AAATAAATATTTATT
1 ATTTATTATAAATAAATATTAATT
841700 ATTTAATTAT
1 ATTT-ATTAT
841710 TACATATAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.07
22 13 0.30
23 24 0.55
24 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTATTATAAATAAATATTAATT
Found at i:842063 original size:16 final size:16
Alignment explanation
Indices: 842042--842109 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
842032 TATTTTAAAA
842042 TTATA-TATAAAATATT
1 TTATATTATAAAA-ATT
842058 TTATATTTATAAAAATT
1 TTATA-TTATAAAAATT
* *
842075 TTA-ATAAGTAATTAA-T
1 TTATATTA-TAA-AAATT
*
842091 TTATATTATATAAATT
1 TTATATTATAAAAATT
842107 TTA
1 TTA
842110 ATATATTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
15 4 0.10
16 19 0.46
17 11 0.27
18 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
TTATATTATAAAAATT
Found at i:842123 original size:16 final size:16
Alignment explanation
Indices: 842104--842160 Score: 62
Period size: 15 Copynumber: 3.5 Consensus size: 16
842094 TATTATATAA
842104 ATTTTAATATATTTATAT
1 ATTTTAATAT-TTT-TAT
* *
842122 TTTTTAATATTTTTAA
1 ATTTTAATATTTTTAT
*
842138 ATTTT-ATTTTTTTAT
1 ATTTTAATATTTTTAT
842153 ATTTTAAT
1 ATTTTAAT
842161 TAATTTTTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 13 0.39
16 8 0.24
17 3 0.09
18 9 0.27
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTAATATTTTTAT
Found at i:842126 original size:18 final size:18
Alignment explanation
Indices: 842105--842142 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
842095 ATTATATAAA
*
842105 TTTTAATATATTTATATT
1 TTTTAATATATTTAAATT
*
842123 TTTTAATATTTTTAAATT
1 TTTTAATATATTTAAATT
842141 TT
1 TT
842143 ATTTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTAATATATTTAAATT
Found at i:842381 original size:18 final size:18
Alignment explanation
Indices: 842353--842421 Score: 67
Period size: 18 Copynumber: 4.0 Consensus size: 18
842343 ATTATATTTA
842353 AAATATTTTATATTTATAT
1 AAAT-TTTTATATTTATAT
842372 AAATTTTTATATATTA-AT
1 AAATTTTTATAT-TTATAT
842390 -AA--TTTAT-TTTATAT
1 AAATTTTTATATTTATAT
* *
842404 AAATTTTAAAATTTATAT
1 AAATTTTTATATTTATAT
842422 TTGTATCAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
13 3 0.07
14 3 0.07
15 7 0.17
17 5 0.12
18 17 0.40
19 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AAATTTTTATATTTATAT
Done.