Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold412
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: 4645160
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 4 of 32
Found at i:667210 original size:43 final size:47
Alignment explanation
Indices: 667157--667265 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
667147 ACAAATTTAT
*
667157 ATATTATAAATTATTA-AA-ATAATAAAATTTA-T-AT-AAATATAAA
1 ATATTATAAATTATTATAATATAATAAAATATATTAATAAAATAT-AA
*
667200 ATATTTTAAATATAATTATAATATAATAAAATATATTAATAAAATATAA
1 ATATTATAAAT-T-ATTATAATATAATAAAATATATTAATAAAATATAA
667249 ATA-TATAAATTATTATA
1 ATATTATAAATTATTATA
667266 TCTATTGGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
43 10 0.18
44 1 0.02
45 4 0.07
46 8 0.14
47 13 0.23
48 7 0.12
49 7 0.12
50 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (47 bp):
ATATTATAAATTATTATAATATAATAAAATATATTAATAAAATATAA
Found at i:667550 original size:26 final size:26
Alignment explanation
Indices: 667521--667575 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
667511 GTTTATAAAT
667521 TTTA-AAAT-TATTATATATTTATATTA
1 TTTATAAATATATTATAT-TTTA-ATTA
*
667547 TTTATATATATATTATATTTTAATTA
1 TTTATAAATATATTATATTTTAATTA
667573 TTT
1 TTT
667576 TTTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 11 0.42
27 7 0.27
28 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTATAAATATATTATATTTTAATTA
Found at i:667554 original size:11 final size:10
Alignment explanation
Indices: 667536--667595 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 10
667526 AATTATTATA
667536 TATTTATA-T
1 TATTTATATT
*
667545 TATTTATATA
1 TATTTATATT
667555 TATATTATATTT
1 TAT-TTATA-TT
*
667567 TAATTAT-TT
1 TATTTATATT
667576 T-TTTATATT
1 TATTTATATT
667585 TCATTTATATT
1 T-ATTTATATT
667596 AGATCGTATC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 4 0.10
9 14 0.34
10 3 0.07
11 17 0.41
12 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TATTTATATT
Found at i:667558 original size:15 final size:16
Alignment explanation
Indices: 667527--667562 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
667517 AAATTTTAAA
*
667527 ATTATTATATATTTAT
1 ATTATTATATATATAT
667543 ATTATT-TATATATAT
1 ATTATTATATATATAT
667558 ATTAT
1 ATTAT
667563 ATTTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTATATATATAT
Found at i:667566 original size:17 final size:17
Alignment explanation
Indices: 667527--667559 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
667517 AAATTTTAAA
*
667527 ATTA-TTATATATTTAT
1 ATTATTTATATATATAT
667543 ATTATTTATATATATAT
1 ATTATTTATATATATAT
667560 TATATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATTTATATATATAT
Found at i:668283 original size:16 final size:16
Alignment explanation
Indices: 668257--668308 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
668247 TTTTTATTTT
*
668257 TATAAATTTTAATATA
1 TATAAAATTTAATATA
668273 T-TAATAATTT-ATATTA
1 TATAA-AATTTAATA-TA
*
668289 TATAAATTTTAATATA
1 TATAAAATTTAATATA
668305 TATA
1 TATA
668309 TTCATGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 6 0.20
16 18 0.60
17 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAAAATTTAATATA
Found at i:668304 original size:14 final size:14
Alignment explanation
Indices: 668257--668306 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 14
668247 TTTTTATTTT
668257 TATAAATTTTAATA
1 TATAAATTTTAATA
*
668271 TATTAATAATTTATATTA
1 TA-T-A-AATTT-TAATA
668289 TATAAATTTTAATA
1 TATAAATTTTAATA
668303 TATA
1 TATA
668307 TATTCATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 10 0.33
15 6 0.20
16 2 0.07
17 6 0.20
18 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATAAATTTTAATA
Found at i:668308 original size:18 final size:18
Alignment explanation
Indices: 668257--668309 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 18
668247 TTTTTATTTT
668257 TATAAATTTTAATATAT-
1 TATAAATTTTAATATATA
668274 TA-ATAA-TTT-ATAT-TA
1 TATA-AATTTTAATATATA
668289 TATAAATTTTAATATATA
1 TATAAATTTTAATATATA
668307 TAT
1 TAT
668310 TCATGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
14 1 0.03
15 8 0.27
16 8 0.27
17 8 0.27
18 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATAAATTTTAATATATA
Found at i:669248 original size:22 final size:21
Alignment explanation
Indices: 669207--669300 Score: 63
Period size: 22 Copynumber: 4.6 Consensus size: 21
669197 TAAATTTATT
*
669207 TATTTATTTAATATAA-TAAATA
1 TATTTATATAAT-TAATTAAA-A
669229 TATTTATATAATTAATTAAAA
1 TATTTATATAATTAATTAAAA
* * *
669250 TAATTAAATAAATATATTAAAA
1 TATTTATATAATTA-ATTAAAA
* *
669272 T-TTTAAAT-A-TCATTAAAA
1 TATTTATATAATTAATTAAAA
*
669290 AATTTAT-TAAT
1 TATTTATATAAT
669301 ACTCTTTTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
18 8 0.14
19 6 0.10
20 1 0.02
21 21 0.36
22 23 0.39
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
TATTTATATAATTAATTAAAA
Found at i:670424 original size:20 final size:20
Alignment explanation
Indices: 670401--670441 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
670391 TGATTTTAAA
670401 TATATTTTATAAAATAAATT
1 TATATTTTATAAAATAAATT
* *
670421 TATATTTTATTAAATATATT
1 TATATTTTATAAAATAAATT
670441 T
1 T
670442 TAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATTTTATAAAATAAATT
Found at i:670617 original size:27 final size:27
Alignment explanation
Indices: 670565--670618 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
670555 TAACTAAATC
* *
670565 AATTAAATAAATTTAATTAATTTTTTT
1 AATTAAATAAATTTAATCAATCTTTTT
*
670592 AATTAAATTAATTTTAATCAA-CTTTTT
1 AATTAAA-TAAATTTAATCAATCTTTTT
670619 CTGTGTATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
AATTAAATAAATTTAATCAATCTTTTT
Found at i:671381 original size:17 final size:17
Alignment explanation
Indices: 671359--671393 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
671349 ATACCAATAA
671359 TTAA-TTTATTTATATTT
1 TTAATTTTATTTA-ATTT
671376 TTAATTTTATTTAATTT
1 TTAATTTTATTTAATTT
671393 T
1 T
671394 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTAATTTTATTTAATTT
Found at i:671821 original size:24 final size:25
Alignment explanation
Indices: 671780--671828 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
671770 AAAATTTAAT
* *
671780 TTTTAAAAATATATATTTATTTTTA
1 TTTTAAAAATATAAATTTAATTTTA
*
671805 TTTT-AAATTATAAATTTAATTTTA
1 TTTTAAAAATATAAATTTAATTTTA
671829 CTATGAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTAAAAATATAAATTTAATTTTA
Found at i:672166 original size:15 final size:14
Alignment explanation
Indices: 672119--672168 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 14
672109 ATCCGTAAAA
672119 ATTTTA-ATTAATT
1 ATTTTATATTAATT
* *
672132 TTTTTATAATAA-T
1 ATTTTATATTAATT
672145 A-TTTATATTAACTT
1 ATTTTATATTAA-TT
672159 ATTTTATATT
1 ATTTTATATT
672169 TAAACTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 9 0.31
13 6 0.21
14 6 0.21
15 8 0.28
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTATATTAATT
Found at i:672234 original size:34 final size:34
Alignment explanation
Indices: 672180--672256 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 34
672170 AAACTTAATA
* * *
672180 ATTTTAAATATAATTTAAAAA-GATGAAAATATATT
1 ATTTTTAATATAATATAAAAATAAT--AAATATATT
672215 ATTTTTAATA-AATATAAAAATAATAAATATATT
1 ATTTTTAATATAATATAAAAATAATAAATATATT
672248 ATATTTTAA
1 AT-TTTTAA
672257 AATATTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 11 0.30
34 15 0.41
35 11 0.30
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (34 bp):
ATTTTTAATATAATATAAAAATAATAAATATATT
Found at i:676016 original size:23 final size:23
Alignment explanation
Indices: 675968--676019 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
675958 CGAGCTTAAT
** *
675968 TTAAT-TATTTAAAATATATTTT
1 TTAATATATTTAAAATATAAATA
*
675990 TTAATATATTTAAAATTTAAATA
1 TTAATATATTTAAAATATAAATA
676013 TTAATAT
1 TTAATAT
676020 TAAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATATATTTAAAATATAAATA
Found at i:676220 original size:9 final size:9
Alignment explanation
Indices: 676206--676235 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
676196 AATAAATATA
676206 AAATATTTT
1 AAATATTTT
676215 AAATATTTT
1 AAATATTTT
*
676224 AAATATTAT
1 AAATATTTT
676233 AAA
1 AAA
676236 AAATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AAATATTTT
Found at i:677306 original size:24 final size:25
Alignment explanation
Indices: 677258--677315 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
677248 TATATTTATG
**
677258 TTATATTTAAATTATTTTTTATTTTA
1 TTATA-TTAAATTATTAATTATTTTA
*
677284 TTATATTAAATT-TTAATTATTTTT
1 TTATATTAAATTATTAATTATTTTA
677308 TTATATTA
1 TTATATTA
677316 TGTAATCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 17 0.59
25 7 0.24
26 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATATTAAATTATTAATTATTTTA
Found at i:679505 original size:22 final size:21
Alignment explanation
Indices: 679466--679515 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
679456 AAATCGTATC
679466 ATTTTAA-AAAATTAATTA-A
1 ATTTTAATAAAATTAATTATA
679485 ATATTTAATAAAATTATATTATA
1 AT-TTTAATAAAATTA-ATTATA
679508 ATTTTAAT
1 ATTTTAAT
679516 TTTTTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.07
20 5 0.19
21 7 0.26
22 10 0.37
23 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTAATAAAATTAATTATA
Found at i:679766 original size:14 final size:13
Alignment explanation
Indices: 679743--679787 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 13
679733 TAATAAAAAA
679743 AATT-ATATTTAT
1 AATTAATATTTAT
679755 ATATTAATATTTAT
1 A-ATTAATATTTAT
679769 AATTAA-ATTTA-
1 AATTAATATTTAT
679780 AA-TAATAT
1 AATTAATAT
679788 AAAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.10
11 4 0.13
12 6 0.20
13 8 0.27
14 9 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTAATATTTAT
Found at i:679806 original size:33 final size:35
Alignment explanation
Indices: 679759--679847 Score: 100
Period size: 33 Copynumber: 2.7 Consensus size: 35
679749 ATTTATATAT
679759 TAAT-ATTTATAATTAAATTTAAATA-AT-ATAAAA
1 TAATAATTTA-AATTAAATTTAAATATATAATAAAA
* * *
679792 TAATAATTTAAATT--ATTAAAATATTTAATTAAA
1 TAATAATTTAAATTAAATTTAAATATATAATAAAA
679825 TAATAA-TTAAATTAAATTTAAAT
1 TAATAATTTAAATTAAATTTAAAT
679848 TTTTTCGAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
31 8 0.17
32 8 0.17
33 19 0.40
34 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (35 bp):
TAATAATTTAAATTAAATTTAAATATATAATAAAA
Found at i:679823 original size:21 final size:22
Alignment explanation
Indices: 679774--679847 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
679764 TTTATAATTA
679774 AATTTAAATAATATAAAATAAT
1 AATTTAAATAATATAAAATAAT
* *
679796 AATTTAAATTAT-TAAAATATTT
1 AATTTAAATAATATAAAATA-AT
* *
679818 AA-TTAAATAATAATTAAATTA-
1 AATTTAAATAAT-ATAAAATAAT
679839 AATTTAAAT
1 AATTTAAAT
679848 TTTTTCGAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 17 0.40
22 20 0.48
23 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAATAATATAAAATAAT
Found at i:679837 original size:16 final size:16
Alignment explanation
Indices: 679789--679841 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
679779 AAATAATATA
679789 AAATAATAATTTAAATT
1 AAATAATAA-TTAAATT
*
679806 ATTAA-AAT-ATTTAATT
1 A--AATAATAATTAAATT
679822 AAATAATAATTAAATT
1 AAATAATAATTAAATT
679838 AAAT
1 AAAT
679842 TTAAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 3 0.10
16 18 0.60
17 2 0.07
18 3 0.10
19 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAATAATTAAATT
Found at i:682272 original size:2 final size:2
Alignment explanation
Indices: 682267--682316 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
682257 TTTTTCTTTG
* *
682267 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
682309 TT CT CT CT
1 CT CT CT CT
682317 GAAACTGGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
CT
Found at i:693006 original size:13 final size:13
Alignment explanation
Indices: 692988--693016 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
692978 AATTTATGTA
692988 TTATTTTATTAAT
1 TTATTTTATTAAT
693001 TTATTTTATTAAT
1 TTATTTTATTAAT
693014 TTA
1 TTA
693017 AAATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTTATTAAT
Found at i:693910 original size:14 final size:16
Alignment explanation
Indices: 693876--693922 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 16
693866 AATAACACGA
*
693876 TATATTTAGTATATAT
1 TATATTTAATATATAT
693892 TATATTTAATAATTTATAT
1 TATATTTAAT-A--TATAT
693911 TATATTTAATAT
1 TATATTTAATAT
693923 TTATATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 10 0.37
17 1 0.04
18 1 0.04
19 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TATATTTAATATATAT
Found at i:693911 original size:19 final size:18
Alignment explanation
Indices: 693887--693929 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 18
693877 ATATTTAGTA
693887 TATATTATATTTAATAATT
1 TATATTATATTTAAT-ATT
693906 TATATTATATTTAATATT
1 TATATTATATTTAATATT
693924 TATATT
1 TATATT
693930 TACTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTATATTTAATATT
Found at i:693924 original size:7 final size:6
Alignment explanation
Indices: 693885--693937 Score: 54
Period size: 7 Copynumber: 8.2 Consensus size: 6
693875 ATATATTTAG
693885 TATATAT TATATT TAATAATT TATA-T TATATT TAATATT TATATT TACTATT
1 TATAT-T TATATT T-AT-ATT TATATT TATATT T-ATATT TATATT TA-TATT
693937 T
1 T
693938 TAACTCGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.12
6 12 0.29
7 20 0.49
8 4 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (6 bp):
TATATT
Found at i:693928 original size:13 final size:12
Alignment explanation
Indices: 693885--693937 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 12
693875 ATATATTTAG
693885 TATATATTATATT
1 TATAT-TTATATT
693898 TAATAATTTATA-T
1 T-AT-ATTTATATT
693911 TATATTTAATATT
1 TATATTT-ATATT
693924 TATATTTACTATT
1 TATATTTA-TATT
693937 T
1 T
693938 TAACTCGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
11 4 0.11
12 6 0.17
13 16 0.46
14 7 0.20
15 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTTATATT
Found at i:696977 original size:28 final size:29
Alignment explanation
Indices: 696923--696998 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
696913 GATATCACTT
* *
696923 TAAAATATAAATAATAATAGGTTATCATGCA
1 TAAAATATATAT-AT-ATAGGTTATCATACA
696954 TAAAATATATATATA-AGGTTATCATACA
1 TAAAATATATATATATAGGTTATCATACA
*
696982 TAATATATATATATATA
1 TAAAATATATATATATA
696999 TATATAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 26 0.63
29 2 0.05
30 2 0.05
31 11 0.27
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (29 bp):
TAAAATATATATATATAGGTTATCATACA
Found at i:697447 original size:5 final size:5
Alignment explanation
Indices: 697437--697462 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
697427 TGAAAAGCAA
697437 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
697463 TAAAGAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:697609 original size:8 final size:8
Alignment explanation
Indices: 697596--697626 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
697586 CATTATTTGC
697596 AAAAAAA-
1 AAAAAAAG
697603 AAAAAAAG
1 AAAAAAAG
697611 AAAAAAAG
1 AAAAAAAG
697619 AAAAAAAG
1 AAAAAAAG
697627 TTAACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:698943 original size:22 final size:19
Alignment explanation
Indices: 698914--698954 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 19
698904 TTTTTATTTA
698914 AAATTTAATCATAAAATATAT
1 AAATTTAAT-ATAAAA-ATAT
698935 AAATATTAATATAAAAATAT
1 AAAT-TTAATATAAAAATAT
698955 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTTAATATAAAAATAT
Found at i:699144 original size:2 final size:2
Alignment explanation
Indices: 699137--699172 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
699127 GAATATTGTA
699137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
699173 GAGAAAGTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:700225 original size:2 final size:2
Alignment explanation
Indices: 700218--700242 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
700208 TGTTTTGAAT
700218 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
700243 GAAAAATATT
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:701180 original size:18 final size:18
Alignment explanation
Indices: 701167--701206 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
701157 AAAAATGATG
701167 AAAA-AATAAAAAATAAC
1 AAAAGAATAAAAAATAAC
701184 AAAAGAATAAAAAATAAC
1 AAAAGAATAAAAAATAAC
701202 AAAAG
1 AAAAG
701207 TTATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAAGAATAAAAAATAAC
Found at i:702887 original size:7 final size:7
Alignment explanation
Indices: 702877--702909 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
702867 ATGTTTAATT
702877 AATTTAA
1 AATTTAA
702884 AATTTAA
1 AATTTAA
702891 AATTTAA
1 AATTTAA
702898 AATTTAA
1 AATTTAA
702905 AATTT
1 AATTT
702910 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
AATTTAA
Found at i:703396 original size:46 final size:46
Alignment explanation
Indices: 703305--703396 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 46
703295 GAGCTGGTTA
* * * * *
703305 TAATTTAAAAATTTTTATTTATTTTTAAATTAAATTATATTAAAAT
1 TAATTTAAAAATATTTATTAATATTTAAATTAAATTAAATAAAAAT
703351 TAATTTAAAAATATTT-TTAATATTTATAA-TAAATTTAAATAAAAAT
1 TAATTTAAAAATATTTATTAATATTTA-AATTAAA-TTAAATAAAAAT
703397 AATCATATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
45 12 0.31
46 27 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (46 bp):
TAATTTAAAAATATTTATTAATATTTAAATTAAATTAAATAAAAAT
Found at i:706876 original size:2 final size:2
Alignment explanation
Indices: 706839--706863 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
706829 TGTCATTACA
706839 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
706864 AAAGTTATAT
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:708530 original size:15 final size:14
Alignment explanation
Indices: 708498--708572 Score: 71
Period size: 14 Copynumber: 5.3 Consensus size: 14
708488 ACCTGTACAA
708498 AAAATACTTATG-C
1 AAAATACTTATGTC
708511 TAAAAGTACTTATGTC
1 -AAAA-TACTTATGTC
* *
708527 AAAATATTTGTGTC
1 AAAATACTTATGTC
* * *
708541 AAAGTATTTTTGTC
1 AAAATACTTATGTC
*
708555 AAAATACTTATGTT
1 AAAATACTTATGTC
708569 AAAA
1 AAAA
708573 ATATTTTTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
14 38 0.75
15 12 0.24
16 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (14 bp):
AAAATACTTATGTC
Found at i:708530 original size:29 final size:29
Alignment explanation
Indices: 708498--708672 Score: 103
Period size: 29 Copynumber: 6.1 Consensus size: 29
708488 ACCTGTACAA
*
708498 AAAATACTTATGCTAAAAGTACTTATGTC
1 AAAATACTTATGTTAAAAGTACTTATGTC
* * *
708527 AAAATA-TT-TGTGTCAAAGTATTTTTGTC
1 AAAATACTTATGT-TAAAAGTACTTATGTC
* * *
708555 AAAATACTTATGTTAAAAATATTTTTG-C
1 AAAATACTTATGTTAAAAGTACTTATGTC
* *** *
708583 TAAAATATTTATACCAAAAGTA-TATGTGTC
1 -AAAATACTTATGTTAAAAGTACT-TATGTC
* * * *
708613 AAAGTACTTGTATTAAAAGTAC-TATATC
1 AAAATACTTATGTTAAAAGTACTTATGTC
*
708641 AAAGCA-ACTT-TGTTAAAAGTACATATGTC
1 AAA--ATACTTATGTTAAAAGTACTTATGTC
708670 AAA
1 AAA
708673 GCACTTGTAT
Statistics
Matches: 114, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
27 2 0.02
28 41 0.36
29 67 0.59
30 4 0.04
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (29 bp):
AAAATACTTATGTTAAAAGTACTTATGTC
Found at i:708542 original size:14 final size:14
Alignment explanation
Indices: 708523--708615 Score: 64
Period size: 14 Copynumber: 6.5 Consensus size: 14
708513 AAAGTACTTA
708523 TGTCAAAATATTTG
1 TGTCAAAATATTTG
* *
708537 TGTCAAAGTATTTT
1 TGTCAAAATATTTG
708551 TGTCAAAATACTTATG
1 TGTCAAAATA-TT-TG
* *
708567 T-TAAAAATATTTT
1 TGTCAAAATATTTG
*
708580 TG-CTAAAATATTTA
1 TGTC-AAAATATTTG
** *
708594 TACCAAAAGTATATG
1 TGTCAAAA-TATTTG
708609 TGTCAAA
1 TGTCAAA
708616 GTACTTGTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
13 2 0.03
14 37 0.62
15 19 0.32
16 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.41
Consensus pattern (14 bp):
TGTCAAAATATTTG
Found at i:708554 original size:28 final size:27
Alignment explanation
Indices: 708511--708592 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 27
708501 ATACTTATGC
* *
708511 TAAAAGTACTTATGTCAAAATATTTGT
1 TAAAAGTATTTTTGTCAAAATATTTGT
*
708538 GTCAAAGTATTTTTGTCAAAATACTTATGT
1 -TAAAAGTATTTTTGTCAAAATA-TT-TGT
*
708568 TAAAAATATTTTTG-CTAAAATATTT
1 TAAAAGTATTTTTGTC-AAAATATTT
708593 ATACCAAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 1 0.02
28 22 0.48
29 20 0.43
30 3 0.07
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (27 bp):
TAAAAGTATTTTTGTCAAAATATTTGT
Found at i:708746 original size:29 final size:29
Alignment explanation
Indices: 708598--708749 Score: 105
Period size: 29 Copynumber: 5.3 Consensus size: 29
708588 TATTTATACC
* *
708598 AAAAGTA-TATGTGTCAAAGTACTTGTATT
1 AAAAGTACT-TGTGTCAAAGCACTTATATT
* * *
708627 AAAAGTAC-TATATCAAAGCAACTT-TGTT
1 AAAAGTACTTGTGTCAAAGC-ACTTATATT
* * * *
708655 AAAAGTACATATGTCAAAGCACTTGTATC
1 AAAAGTACTTGTGTCAAAGCACTTATATT
* * ** * *
708684 AAAAATACTTGTGTTAAAAATATTTATACT
1 AAAAGTACTTGTG-TCAAAGCACTTATATT
*
708714 -AAAGTACTTGTGCCAAAGCACTTATATT
1 AAAAGTACTTGTGTCAAAGCACTTATATT
708742 AAAAGTAC
1 AAAAGTAC
708750 GTGTTACAAA
Statistics
Matches: 93, Mismatches: 24, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
28 33 0.35
29 51 0.55
30 9 0.10
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (29 bp):
AAAAGTACTTGTGTCAAAGCACTTATATT
Found at i:708803 original size:115 final size:115
Alignment explanation
Indices: 708553--708805 Score: 250
Period size: 115 Copynumber: 2.2 Consensus size: 115
708543 AGTATTTTTG
* * * * * * *
708553 TCAAAATACTTATGTTAAAAATATTTTTGCTAAAATATTTATACCAAAAGTATATGTGTCAAAGT
1 TCAAAGTATTTATGCTAAAAATACTTGTGCTAAAATATTTATACCAAAAGTATATGTGCCAAAGC
* * *
708618 ACTTGTATTAAAAGTACTATATCAAAGCAACTTTGTTAAAAGTACATATG
66 ACTTATATTAAAAGTACTATATCAAAGCAACTATGTTAAAAGTACATATA
* * *
708668 TCAAAGCACTTGTAT-C-AAAAATACTTGTGTTAAAAATATTTATA-CTAAAGTACT-TGTGCCA
1 TCAAAGTA-TT-TATGCTAAAAATACTTGTGCT-AAAATATTTATACCAAAAGTA-TATGTGCCA
* * *
708729 AAGCACTTATATTAAAAGTACGTGT-TACAAAGTATCTATGTTAAAA-TA-ATTATA
62 AAGCACTTATATTAAAAGTAC-TATAT-CAAAGCAACTATGTTAAAAGTACA-TATA
708783 TCAAAGTATTTATGCTAAAAATA
1 TCAAAGTATTTATGCTAAAAATA
708806 TCTATACTAA
Statistics
Matches: 112, Mismatches: 17, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
113 3 0.03
114 4 0.04
115 70 0.62
116 32 0.29
117 3 0.03
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (115 bp):
TCAAAGTATTTATGCTAAAAATACTTGTGCTAAAATATTTATACCAAAAGTATATGTGCCAAAGC
ACTTATATTAAAAGTACTATATCAAAGCAACTATGTTAAAAGTACATATA
Found at i:709581 original size:33 final size:30
Alignment explanation
Indices: 709529--709599 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 30
709519 AATAAAATAA
*
709529 TAAATTTAATATTGAGTTAAAATATTA-TG
1 TAAATTTAATATTGAGTTAAAATATAATTG
*
709558 TTAAATTTAATATTTATCGGTTAAAATATAATTG
1 -TAAATTTAATATTGA---GTTAAAATATAATTG
709592 TAAATTTA
1 TAAATTTA
709600 TCTTTAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 14 0.40
33 19 0.54
34 2 0.06
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.46
Consensus pattern (30 bp):
TAAATTTAATATTGAGTTAAAATATAATTG
Found at i:709820 original size:31 final size:30
Alignment explanation
Indices: 709785--709849 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
709775 TAATTTTTAA
*
709785 TTAAATAAAAGTAAAATAATAAAATTTATTG
1 TTAAATAAAAGTAAAATAAT-AAATTTATTC
* * * *
709816 TTAAATTAAATTATAATGATAAATTTATTC
1 TTAAATAAAAGTAAAATAATAAATTTATTC
709846 TTAA
1 TTAA
709850 TTAATTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (30 bp):
TTAAATAAAAGTAAAATAATAAATTTATTC
Found at i:710919 original size:16 final size:17
Alignment explanation
Indices: 710898--710944 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
710888 AAAAAATTTA
*
710898 AAATATTAAAT-ATAAT
1 AAATATTAAATAAAAAT
*
710914 AAATATTTAATAAAAAT
1 AAATATTAAATAAAAAT
*
710931 AAATATTAATTAAA
1 AAATATTAAATAAA
710945 TTGTATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATTAAATAAAAAT
Found at i:711101 original size:19 final size:19
Alignment explanation
Indices: 711079--711137 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
711069 ATAATGTATA
711079 TTAAATTAAATT-ATTAAAT
1 TTAAATTAAATTAATT-AAT
*
711098 TTAAATTTAATTAATTAAT
1 TTAAATTAAATTAATTAAT
*
711117 TT-AA-TAAATTTAATTTAT
1 TTAAATTAAA-TTAATTAAT
711135 TTA
1 TTA
711138 TTTTTTAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.09
18 12 0.35
19 16 0.47
20 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAATTAAATTAATTAAT
Found at i:711127 original size:22 final size:22
Alignment explanation
Indices: 711099--711140 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
711089 TTATTAAATT
711099 TAAATTTAATTAATTAATTTAA
1 TAAATTTAATTAATTAATTTAA
* *
711121 TAAATTTAATTTATTTATTT
1 TAAATTTAATTAATTAATTT
711141 TTTAACACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAATTTAATTAATTAATTTAA
Found at i:711560 original size:7 final size:6
Alignment explanation
Indices: 711529--711567 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
711519 ATCGTATTTA
*
711529 TTATAT TTATAAA TTATAT TTATAT TTAATAT TTATAT T
1 TTATAT TTAT-AT TTATAT TTATAT TT-ATAT TTATAT T
711568 AAATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TTATAT
Found at i:711560 original size:13 final size:13
Alignment explanation
Indices: 711531--711578 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
711521 CGTATTTATT
*
711531 ATATTTATAAATT-
1 ATATTTAT-ATTTA
711544 ATATTTATATTTA
1 ATATTTATATTTA
*
711557 ATATTTATATTAA
1 ATATTTATATTTA
*
711570 ATATATATA
1 ATATTTATA
711579 AAAATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 3 0.10
13 28 0.90
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTATATTTA
Found at i:711560 original size:26 final size:27
Alignment explanation
Indices: 711506--711565 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
711496 ATTATAAATT
*
711506 TATTT-TAAATTATATCGTATTTATTA
1 TATTTATAAATTATATCGTATTTATAA
*
711532 TATTTATAAATTATAT-TTATATT-TAA
1 TATTTATAAATTATATCGTAT-TTATAA
711558 TATTTATA
1 TATTTATA
711566 TTAAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TATTTATAAATTATATCGTATTTATAA
Found at i:711616 original size:25 final size:24
Alignment explanation
Indices: 711556--711616 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
711546 ATTTATATTT
711556 AATATTTATATTAAATATATATAAA
1 AATATTTATA-TAAATATATATAAA
**
711581 AATATAAATATACAGATAT-TATAAA
1 AATATTTATATA-A-ATATATATAAA
*
711606 TATATTTATAT
1 AATATTTATAT
711617 TTGACTAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 2 0.07
25 23 0.79
26 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AATATTTATATAAATATATATAAA
Found at i:717689 original size:19 final size:20
Alignment explanation
Indices: 717665--717704 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
717655 AGTGTTCCAA
717665 AATATTATT-ATACCAAATC
1 AATATTATTAATACCAAATC
717684 AATATTATTAATACCAAATC
1 AATATTATTAATACCAAATC
717704 A
1 A
717705 TGCATATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATTATTAATACCAAATC
Found at i:724193 original size:42 final size:42
Alignment explanation
Indices: 724147--724244 Score: 112
Period size: 42 Copynumber: 2.3 Consensus size: 42
724137 TTTTAAAAAT
* *
724147 TAAATATAAATATAAATT-AAATTATTTAAA-TTTATTATTTAA
1 TAAATATAAATATAAATTAAAATTA--AAAATTTTAATATTTAA
**
724189 TAAATATAAAT-TAAAATTAAAATTAAAAATTTTAATATTTTT
1 TAAATATAAATAT-AAATTAAAATTAAAAATTTTAATATTTAA
724231 TAAATATAAATATA
1 TAAATATAAATATA
724245 TATATAATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
41 4 0.08
42 37 0.77
43 7 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (42 bp):
TAAATATAAATATAAATTAAAATTAAAAATTTTAATATTTAA
Found at i:724242 original size:17 final size:16
Alignment explanation
Indices: 724222--724277 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
724212 TAAAAATTTT
*
724222 AATATTTTTTAAATATA
1 AATATTATTTAAAT-TA
*
724239 AATA-TATATATAATTA
1 AATATTATTTA-AATTA
724255 ATATATTATTTAAATTA
1 A-ATATTATTTAAATTA
724272 AATATT
1 AATATT
724278 TAAATATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 12 0.36
17 16 0.48
18 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATATTATTTAAATTA
Found at i:724777 original size:37 final size:37
Alignment explanation
Indices: 724736--724807 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
724726 CGAATTTAGA
724736 CCAACAAAGATGATCTTTTCTCGTATATCAAACACAT
1 CCAACAAAGATGATCTTTTCTCGTATATCAAACACAT
724773 CCAACAAAGATGATCTTTTCTCGTATATCAAACAC
1 CCAACAAAGATGATCTTTTCTCGTATATCAAACAC
724808 TATCAAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (37 bp):
CCAACAAAGATGATCTTTTCTCGTATATCAAACACAT
Found at i:726368 original size:12 final size:12
Alignment explanation
Indices: 726351--726376 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
726341 CTTAGCTTTT
726351 AACCAATAGCGA
1 AACCAATAGCGA
726363 AACCAATAGCGA
1 AACCAATAGCGA
726375 AA
1 AA
726377 AAAAGGAAAG
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:0.23, G:0.15, T:0.08
Consensus pattern (12 bp):
AACCAATAGCGA
Found at i:728420 original size:17 final size:17
Alignment explanation
Indices: 728400--728476 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 17
728390 TTAAAAGTAG
728400 TATAATTATATAAAAAA
1 TATAATTATATAAAAAA
* *
728417 TATAATTA-A-ATATAA
1 TATAATTATATAAAAAA
* *
728432 TAT-ATTATATGATAAA
1 TATAATTATATAAAAAA
728448 TAT--TTATATAATATAAA
1 TATAATTATATAA-A-AAA
*
728465 TATAATAATATA
1 TATAATTATATA
728477 TTAATATTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
14 4 0.09
15 15 0.33
16 6 0.13
17 14 0.31
19 6 0.13
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (17 bp):
TATAATTATATAAAAAA
Found at i:728456 original size:22 final size:22
Alignment explanation
Indices: 728416--728513 Score: 64
Period size: 21 Copynumber: 4.5 Consensus size: 22
728406 TATATAAAAA
728416 ATATAATTAAATA-TAATATATT
1 ATATAA-TAAATATTAATATATT
* *
728438 ATATGATAAATATTTATATAATATAA
1 ATATAATAAATA-TTA-AT-ATAT-T
728464 ATATAATAATATATT-A-ATATT
1 ATATAATAA-ATATTAATATATT
*
728485 -TAT-ATAAATA-TAATATTTT
1 ATATAATAAATATTAATATATT
*
728504 ATATATTAAA
1 ATATAATAAA
728514 ATTTATGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
17 1 0.02
18 4 0.07
19 8 0.13
20 6 0.10
21 10 0.17
22 9 0.15
23 2 0.03
24 3 0.05
25 4 0.07
26 10 0.17
27 3 0.05
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (22 bp):
ATATAATAAATATTAATATATT
Found at i:728483 original size:33 final size:33
Alignment explanation
Indices: 728416--728519 Score: 106
Period size: 32 Copynumber: 3.1 Consensus size: 33
728406 TATATAAAAA
728416 ATATAAT-TAAATATAATATATTATATGATAAATATTT
1 ATATAATATAAATATAATA-A-TATAT--T-AATATTT
728453 ATATAATATAAATATAATAATATATTAATATTT
1 ATATAATATAAATATAATAATATATTAATATTT
* * *
728486 ATATAA-ATATAATAT-TTTATATATTAAAATTT
1 ATATAATATA-AATATAATAATATATTAATATTT
728518 AT
1 AT
728520 GTAAATGTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
32 19 0.31
33 18 0.29
34 1 0.02
36 5 0.08
37 8 0.13
38 11 0.18
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (33 bp):
ATATAATATAAATATAATAATATATTAATATTT
Found at i:732644 original size:2 final size:2
Alignment explanation
Indices: 732639--732677 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
732629 ATTTTACTTG
732639 AT AT AT 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 AT AT AT A
732678 ATTAAGTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:738164 original size:16 final size:16
Alignment explanation
Indices: 738124--738165 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
738114 AAATAATAAA
* *
738124 ATTTTAAAATTTTTAT
1 ATTTTATAATGTTTAT
738140 -TTTTAATAATGTTTAT
1 ATTTT-ATAATGTTTAT
738156 ATTTTATAAT
1 ATTTTATAAT
738166 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTTATAATGTTTAT
Found at i:739029 original size:21 final size:21
Alignment explanation
Indices: 738983--739029 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
738973 CATGTATCTT
* *
738983 TAAAATATATTTAAAAATTAA
1 TAAAATAAATATAAAAATTAA
*
739004 AAAAATAAATATAATAAA-TAA
1 TAAAATAAATATAA-AAATTAA
739025 TAAAA
1 TAAAA
739030 ATACAATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAATAAATATAAAAATTAA
Found at i:740299 original size:10 final size:10
Alignment explanation
Indices: 740283--740350 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
740273 TATTTCGATA
*
740283 AATTTAATTT
1 AATTTAAATT
*
740293 AAATTAAATT
1 AATTTAAATT
740303 AAATTTGAAA-T
1 -AATTT-AAATT
*
740314 AATTT--TTT
1 AATTTAAATT
740322 AATTTAAATT
1 AATTTAAATT
*
740332 AATTTAAATC
1 AATTTAAATT
740342 AATTTAAAT
1 AATTTAAAT
740351 AAATATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
8 6 0.13
10 33 0.70
11 5 0.11
12 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (10 bp):
AATTTAAATT
Found at i:741341 original size:18 final size:18
Alignment explanation
Indices: 741290--741341 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
741280 TTAAATTAGT
741290 TTAAAAAA-CTTAAAAATA
1 TTAAAAAATCTT-AAAATA
*
741308 TTATAAAAATTTTAAAA-A
1 TTA-AAAAATCTTAAAATA
741326 TTAAAAAATCTATAAA
1 TTAAAAAATCT-TAAA
741342 TCAAATTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 7 0.24
18 11 0.38
19 9 0.31
20 2 0.07
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAAATCTTAAAATA
Found at i:741418 original size:16 final size:16
Alignment explanation
Indices: 741380--741421 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
741370 ATTCGAATCG
741380 ATTTAATTATAAATATT
1 ATTTAATT-TAAATATT
741397 ATTTAATTT-AATATT
1 ATTTAATTTAAATATT
741412 AATTTAATTT
1 -ATTTAATTT
741422 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.25
16 10 0.42
17 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTAATTTAAATATT
Found at i:742195 original size:22 final size:21
Alignment explanation
Indices: 742170--742217 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
742160 TATATAATTA
*
742170 TTATATTTAAATTATTA-TATAT
1 TTATA-TTAAATT-TGAGTATAT
742192 TTATA-TAAATTTGAGTATAT
1 TTATATTAAATTTGAGTATAT
742212 TTATAT
1 TTATAT
742218 ATTTTTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 2 0.09
20 16 0.70
22 5 0.22
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TTATATTAAATTTGAGTATAT
Found at i:742213 original size:10 final size:8
Alignment explanation
Indices: 742156--742267 Score: 57
Period size: 8 Copynumber: 12.6 Consensus size: 8
742146 ATTTATATTG
742156 TATTTATA
1 TATTTATA
*
742164 TAATTATTA
1 TATTTA-TA
*
742173 TATTTAAA
1 TATTTATA
742181 T-TATTATA
1 TAT-TTATA
742189 TATTTATA
1 TATTTATA
742197 TAAATTTGAGTA
1 T--ATTT-A-TA
742209 TATTTATA
1 TATTTATA
742217 TATTTTTATGA
1 TA--TTTAT-A
742228 TATTT-TAA
1 TATTTAT-A
*
742236 TTATTTTTA
1 -TATTTATA
*
742245 TATTATATT
1 TATT-TATA
742254 TATATTATA
1 TAT-TTATA
742263 TATTT
1 TATTT
742268 TATTTCCTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 28
0.69 0.07 0.24
Matches are distributed among these distances:
7 1 0.01
8 30 0.37
9 29 0.35
10 15 0.18
11 4 0.05
12 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (8 bp):
TATTTATA
Found at i:742232 original size:11 final size:11
Alignment explanation
Indices: 742211--742271 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
742201 TTTGAGTATA
742211 TTTA-TATATT
1 TTTATTATATT
*
742221 TTTATGATATT
1 TTTATTATATT
*
742232 TTAATTAT-TT
1 TTTATTATATT
742242 TTATATTATATT
1 TT-TATTATATT
*
742254 TATATTATATAT
1 TTTATTATAT-T
742266 TTTATT
1 TTTATT
742272 TCCTAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 8 0.20
11 24 0.59
12 9 0.22
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTATTATATT
Found at i:742240 original size:28 final size:27
Alignment explanation
Indices: 742156--742248 Score: 82
Period size: 28 Copynumber: 3.4 Consensus size: 27
742146 ATTTATATTG
* *
742156 TATTTATATAATTAT-TATATTTAAAT
1 TATTTATATATTTTTATATATTTAAAT
* * * *
742182 TA-TTATATATTTATATAAATTTGAGT
1 TATTTATATATTTTTATATATTTAAAT
*
742208 ATATTTATATATTTTTATGATATTTTAAT
1 -TATTTATATATTTTTAT-ATATTTAAAT
*
742237 TATTTTTATATT
1 TATTTATATATT
742249 ATATTTATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
25 11 0.20
26 10 0.19
27 2 0.04
28 24 0.44
29 7 0.13
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
TATTTATATATTTTTATATATTTAAAT
Found at i:742260 original size:22 final size:22
Alignment explanation
Indices: 742181--742261 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 22
742171 TATATTTAAA
* * *
742181 TTATTATATATTTATATAAATT
1 TTATGATATATTTATATTATTT
*
742203 TGA-G-TATATTTATA-TATTT
1 TTATGATATATTTATATTATTT
742222 TTATGATAT-TTTA-ATTATTT
1 TTATGATATATTTATATTATTT
742242 TTAT-ATTATATTTATATTAT
1 TTATGA-TATATTTATATTAT
742262 ATATTTTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
19 7 0.15
20 27 0.56
21 7 0.15
22 7 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATGATATATTTATATTATTT
Found at i:742376 original size:2 final size:2
Alignment explanation
Indices: 742369--742393 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
742359 AAGAGTCCCT
742369 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
742394 GAAGAACGGG
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:742650 original size:25 final size:23
Alignment explanation
Indices: 742589--742650 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 23
742579 TATAAAAATA
742589 TAATATTAATATTATATTTTAAT
1 TAATATTAATATTATATTTTAAT
*
742612 TAATTTATATATATTATATTATATAAT
1 TAATAT-TA-ATATTATATT-T-TAAT
742639 T-ATATCTAATAT
1 TAATAT-TAATAT
742651 CCATCCTCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 5 0.16
24 2 0.06
25 14 0.44
26 6 0.19
27 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAATATTAATATTATATTTTAAT
Found at i:749399 original size:2 final size:2
Alignment explanation
Indices: 749387--749442 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
749377 TGGTAGTTTC
* * *
749387 AT AT AT TT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
749429 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
749443 GTGTGTGTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
AT
Found at i:757335 original size:12 final size:12
Alignment explanation
Indices: 757318--757343 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
757308 CCCAGATAAC
757318 AAGAAAAAAGAA
1 AAGAAAAAAGAA
757330 AAGAAAAAAGAA
1 AAGAAAAAAGAA
757342 AA
1 AA
757344 TAGTTCCAAA
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:758213 original size:3 final size:3
Alignment explanation
Indices: 758205--758284 Score: 72
Period size: 3 Copynumber: 26.7 Consensus size: 3
758195 CCTCAGCTCT
* * *
758205 TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC CTC CTC TTC TTC TT- TCTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC
* * * * *
758253 TTC CTC TTC CTC TTC TTC ATC CTC TTC CTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
758285 TCTCTTTCCC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 1 0.02
3 62 0.97
4 1 0.02
ACGTcount: A:0.01, C:0.41, G:0.00, T:0.57
Consensus pattern (3 bp):
TTC
Found at i:758228 original size:18 final size:18
Alignment explanation
Indices: 758205--758284 Score: 90
Period size: 18 Copynumber: 4.4 Consensus size: 18
758195 CCTCAGCTCT
*
758205 TTCTTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTCCTC
* *
758223 TTCTTCTTCCTCCTCCTC
1 TTCTTCTTCTTCTTCCTC
758241 TTCTTCTT-TCTCTTCCTC
1 TTCTTCTTCT-TCTTCCTC
* *
758259 TTCCTCTTCTTCATCCTC
1 TTCTTCTTCTTCTTCCTC
*
758277 TTCCTCTT
1 TTCTTCTT
758285 TCTCTTTCCC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
18 52 0.98
19 1 0.02
ACGTcount: A:0.01, C:0.41, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCTTCTTCTTCTTCCTC
Found at i:758283 original size:24 final size:24
Alignment explanation
Indices: 758209--758290 Score: 110
Period size: 24 Copynumber: 3.4 Consensus size: 24
758199 AGCTCTTTCT
* *
758209 TCTTCTTCTTCTTCTTCTTCTTCC
1 TCTTCCTCTTCTTCTTCCTCTTCC
* *
758233 TCCTCCTCTTCTTCTTTCTCTTCC
1 TCTTCCTCTTCTTCTTCCTCTTCC
*
758257 TCTTCCTCTTCTTCATCCTCTTCC
1 TCTTCCTCTTCTTCTTCCTCTTCC
*
758281 TCTTTCTCTT
1 TCTTCCTCTT
758291 TCCCTTTTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.01, C:0.41, G:0.00, T:0.57
Consensus pattern (24 bp):
TCTTCCTCTTCTTCTTCCTCTTCC
Found at i:767504 original size:13 final size:13
Alignment explanation
Indices: 767486--767520 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
767476 TTTTTTTCGG
767486 GGGGGGGGGGGGT
1 GGGGGGGGGGGGT
*
767499 GGGGGGGGGGTGT
1 GGGGGGGGGGGGT
767512 GGGGAGGGG
1 GGGG-GGGG
767521 TGATTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.03, C:0.00, G:0.89, T:0.09
Consensus pattern (13 bp):
GGGGGGGGGGGGT
Found at i:767521 original size:12 final size:11
Alignment explanation
Indices: 767484--767522 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
767474 GTTTTTTTTC
767484 GGGG-GGGGGG
1 GGGGTGGGGGG
767494 GGGGTGGGGGG
1 GGGGTGGGGGG
*
767505 GGGGTGTGGGGA
1 GGGGTG-GGGGG
767517 GGGGTG
1 GGGGTG
767523 ATTATTATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 4 0.15
11 12 0.46
12 10 0.38
ACGTcount: A:0.03, C:0.00, G:0.87, T:0.10
Consensus pattern (11 bp):
GGGGTGGGGGG
Found at i:767865 original size:16 final size:16
Alignment explanation
Indices: 767819--767871 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
767809 ACTTTTTTTT
767819 TTATAGTTTTTTAT-A
1 TTATAGTTTTTTATAA
* ** *
767834 TATAAAGAGTTATATAA
1 T-TATAGTTTTTTATAA
767851 TTATAGTTTTTTATAA
1 TTATAGTTTTTTATAA
767867 TTATA
1 TTATA
767872 TAATTATAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
15 1 0.04
16 25 0.89
17 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (16 bp):
TTATAGTTTTTTATAA
Found at i:767893 original size:12 final size:12
Alignment explanation
Indices: 767876--767904 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
767866 ATTATATAAT
767876 TATAAAGAGTTA
1 TATAAAGAGTTA
767888 TATAAAGAGTTA
1 TATAAAGAGTTA
767900 TATAA
1 TATAA
767905 TTATACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (12 bp):
TATAAAGAGTTA
Found at i:770112 original size:9 final size:9
Alignment explanation
Indices: 770052--770125 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
770042 ATATTCTTAA
770052 TATATTTAT
1 TATATTTAT
*
770061 TAAATTTAT
1 TATATTTAT
*
770070 TATATTAAT
1 TATATTTAT
* *
770079 AATATTAAT
1 TATATTTAT
* *
770088 TGTATTTAAA
1 TATATTT-AT
770098 TATATTGTAT
1 TATATT-TAT
770108 T-TATTATAT
1 TATATT-TAT
*
770117 TATTTTTAT
1 TATATTTAT
770126 ATTTGTGTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
9 38 0.76
10 11 0.22
11 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TATATTTAT
Found at i:770117 original size:14 final size:14
Alignment explanation
Indices: 770081--770138 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
770071 ATATTAATAA
770081 TATTA-ATTGTATT
1 TATTATATTGTATT
*
770094 TAAATATATTGTATT
1 T-ATTATATTGTATT
770109 TATTATA-T-TATT
1 TATTATATTGTATT
*
770121 T-TTATATTTGTGTT
1 TATTATA-TTGTATT
770135 TATT
1 TATT
770139 GAATGTGTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
11 5 0.14
12 5 0.14
13 3 0.08
14 12 0.33
15 11 0.31
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
TATTATATTGTATT
Found at i:775150 original size:59 final size:59
Alignment explanation
Indices: 775080--775256 Score: 300
Period size: 59 Copynumber: 3.0 Consensus size: 59
775070 CACTTTTCAG
* * *
775080 TCCAATCGGGAAATCAAGGATCCATGGAGCTTCAAGGATTTTCTTTGAATTCTTTCCAA
1 TCCAATTGGGAAATCAAGCATCCATGGGGCTTCAAGGATTTTCTTTGAATTCTTTCCAA
775139 TCCAATTGGGAAATCAAGCATCCATGGGGCTTCAAGGATTTTCTTTGAATTCTTTCCAA
1 TCCAATTGGGAAATCAAGCATCCATGGGGCTTCAAGGATTTTCTTTGAATTCTTTCCAA
* * *
775198 TCCGATTCGGAAATCAAGTATCCATGGGGCTTCAAGGATTTTCTTTGAATTCTTTCCAA
1 TCCAATTGGGAAATCAAGCATCCATGGGGCTTCAAGGATTTTCTTTGAATTCTTTCCAA
775257 CATGGAAGAA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 112 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (59 bp):
TCCAATTGGGAAATCAAGCATCCATGGGGCTTCAAGGATTTTCTTTGAATTCTTTCCAA
Found at i:777688 original size:9 final size:9
Alignment explanation
Indices: 777676--777702 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
777666 GTATTAATCG
777676 ATTTAAATT
1 ATTTAAATT
777685 ATTTAAATT
1 ATTTAAATT
777694 ATTTAAATT
1 ATTTAAATT
777703 TATAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTAAATT
Found at i:777900 original size:21 final size:20
Alignment explanation
Indices: 777835--777900 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
777825 AAATTATATG
* *
777835 ATATAA-TATATTATTTAAT
1 ATATAATTATTTTATATAAT
*
777854 ATAT-ATTATATTTATATAAC
1 ATATAATTAT-TTTATATAAT
777874 ATATAATTATTTTATATAAT
1 ATATAATTATTTTATATAAT
777894 AATATAA
1 -ATATAA
777901 ATAATTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.03
19 7 0.18
20 20 0.51
21 11 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAATTATTTTATATAAT
Found at i:777908 original size:21 final size:20
Alignment explanation
Indices: 777863--777909 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
777853 TATATATTAT
* *
777863 ATTTATATAACATATAATTA
1 ATTTATATAAAATATAAATA
*
777883 TTTTATATAATAATATAAATA
1 ATTTATATAA-AATATAAATA
777904 ATTTAT
1 ATTTAT
777910 TTTTTAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTATATAAAATATAAATA
Found at i:778011 original size:18 final size:18
Alignment explanation
Indices: 777970--778012 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
777960 AATTTTAAAT
* *
777970 TTAATTTTTTTAATTTTA
1 TTAATTTATTTAATTTAA
* *
777988 TAAATTTATTTAGTTTAA
1 TTAATTTATTTAATTTAA
778006 TTAATTT
1 TTAATTT
778013 TAAAAATTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTAATTTATTTAATTTAA
Found at i:779070 original size:25 final size:26
Alignment explanation
Indices: 779042--779091 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
779032 AATATAATAT
*
779042 ATATATATATATTTAA-ATAAGATTA
1 ATATAAATATATTTAATATAAGATTA
* *
779067 ATATAAATATGTTTAATATACGATT
1 ATATAAATATATTTAATATAAGATT
779092 GATACAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (26 bp):
ATATAAATATATTTAATATAAGATTA
Found at i:784232 original size:17 final size:17
Alignment explanation
Indices: 784189--784234 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
784179 ATAAATAAAT
*
784189 TTTTTATTCATTAATTA
1 TTTTTATTAATTAATTA
784206 TATTTT-TTAATGT-ATTA
1 T-TTTTATTAAT-TAATTA
784223 TTTTTATTAATT
1 TTTTTATTAATT
784235 TTATATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTATTAATTAATTA
Found at i:784316 original size:17 final size:18
Alignment explanation
Indices: 784282--784316 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
784272 AAAAATATGA
784282 ATAAATAATTTTTATTAT
1 ATAAATAATTTTTATTAT
784300 ATAAATAATTTTT-TTAT
1 ATAAATAATTTTTATTAT
784317 TTTTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAAATAATTTTTATTAT
Found at i:784363 original size:18 final size:21
Alignment explanation
Indices: 784318--784365 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
784308 TTTTTTTATT
*
784318 TTTTTAATAAAAATATTATAA
1 TTTTAAATAAAAATATTATAA
784339 TTTTAAATAAAAA-ATTAT-A
1 TTTTAAATAAAAATATTATAA
784358 -TTTAAATA
1 TTTTAAATA
784366 TTTAAAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 5 0.19
21 12 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTAAATAAAAATATTATAA
Found at i:784433 original size:26 final size:27
Alignment explanation
Indices: 784332--784433 Score: 77
Period size: 26 Copynumber: 3.7 Consensus size: 27
784322 TAATAAAAAT
*
784332 ATTATAATTTTAAA-TAAA-AAATTAT
1 ATTATAATTTTAAATTAAATAAATTAA
**
784357 ATT-TAAATATTTAAAAGTTAAATTTATTAAA
1 ATTAT-AAT-TTT-AAA-TTAAATAAATT-AA
* *
784388 TATTATTATTTTAAAATAAATAAATTAA
1 -ATTATAATTTTAAATTAAATAAATTAA
784416 ATTA-AATTTTAAATTAAA
1 ATTATAATTTTAAATTAAA
784434 GTGTATAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
24 1 0.02
25 6 0.10
26 15 0.25
27 7 0.12
28 2 0.03
29 12 0.20
30 6 0.10
31 4 0.07
32 5 0.08
33 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (27 bp):
ATTATAATTTTAAATTAAATAAATTAA
Found at i:784448 original size:57 final size:57
Alignment explanation
Indices: 784327--784448 Score: 144
Period size: 57 Copynumber: 2.1 Consensus size: 57
784317 TTTTTTAATA
* *
784327 AAAATATTATAATTTTAAATAAAAAATTATATTTAAATATTTAAAAGTTAAATTTAT
1 AAAATATTATAATTTTAAATAAAAAATTATAATTAAATATTTAAAAGTTAAATGTAT
* *
784384 TAAATATTATTATTTTAAAATAAATAAATTA-AATTAAAT-TTT-AAA-TTAAAGTGTAT
1 AAAATATTATAATTTT-AAATAAA-AAATTATAATTAAATATTTAAAAGTTAAA-TGTAT
784440 AAAGATATT
1 AAA-ATATT
784449 TCGATATCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
55 5 0.09
56 9 0.16
57 22 0.39
58 14 0.25
59 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (57 bp):
AAAATATTATAATTTTAAATAAAAAATTATAATTAAATATTTAAAAGTTAAATGTAT
Found at i:784691 original size:21 final size:22
Alignment explanation
Indices: 784656--784705 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
784646 AATTATGTGG
* *
784656 TTAAAAAATTAATCA-ATTTTTT
1 TTAAAAAAATAATCATA-TATTT
784678 TTAAAAAAAT-ATCATATATTT
1 TTAAAAAAATAATCATATATTT
784699 TTAAAAA
1 TTAAAAA
784706 TGTAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAAAAATAATCATATATTT
Found at i:785402 original size:15 final size:15
Alignment explanation
Indices: 785367--785470 Score: 74
Period size: 15 Copynumber: 6.9 Consensus size: 15
785357 TATATAAATT
785367 TTTTTATATTA-ATA
1 TTTTTATATTATATA
*
785381 -ATTTATATTATATA
1 TTTTTATATTATATA
*
785395 TTTTTATATTTTA-A
1 TTTTTATATTATATA
*
785409 TAATTTATATTATATAA
1 T-TTTTATATTATAT-A
* *
785426 ATTTTA-AATATATA
1 TTTTTATATTATATA
*
785440 TTTATAT-TATATTATA
1 TTTTTATAT-TA-TATA
785456 TTTTTATAATTATAT
1 TTTTTAT-ATTATAT
785471 CAAATATTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
13 9 0.13
14 10 0.15
15 28 0.41
16 17 0.25
17 3 0.04
18 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTATATTATATA
Found at i:785409 original size:30 final size:30
Alignment explanation
Indices: 785344--785451 Score: 114
Period size: 30 Copynumber: 3.6 Consensus size: 30
785334 TCATATTTAA
* *
785344 AATATTTTATATTTATATAAATTTTTTTATATT
1 AATAATTTATA-TTATAT--ATTTTTATATATT
*
785377 AATAATTTATATTATATATTTTTATATTTT
1 AATAATTTATATTATATATTTTTATATATT
* *
785407 AATAATTTATATTATATAAATTTTAAATA-T
1 AATAATTTATATTATAT-ATTTTTATATATT
785437 -AT-ATTTATATTATAT
1 AATAATTTATATTATAT
785452 TATATTTTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 13 0.19
29 2 0.03
30 29 0.43
31 8 0.12
32 6 0.09
33 10 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
AATAATTTATATTATATATTTTTATATATT
Found at i:785431 original size:24 final size:25
Alignment explanation
Indices: 785375--785470 Score: 70
Period size: 28 Copynumber: 3.6 Consensus size: 25
785365 TTTTTTTATA
*
785375 TTAATAATTTATATTATATATTTTTATATT
1 TTAATAATTTATA-T-TATA---TTAAATT
785405 TTAATAATTTATATTATA-TAAATT
1 TTAATAATTTATATTATATTAAATT
*
785429 TTAAATATATATTTATATTATATTATATT
1 TT--A-ATA-ATTTATATTATATTAAATT
*
785458 TTTATAA-TTATAT
1 TTAATAATTTATAT
785471 CAAATATTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
24 13 0.22
25 1 0.02
26 4 0.07
27 3 0.05
28 16 0.28
29 8 0.14
30 13 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTAATAATTTATATTATATTAAATT
Found at i:785749 original size:18 final size:18
Alignment explanation
Indices: 785728--785769 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
785718 TTAAATAAAA
*
785728 AATTTTATAT-TTAAATTT
1 AATTTTAAATATT-AATTT
*
785746 AATTATAAATATTAATTT
1 AATTTTAAATATTAATTT
785764 AATTTT
1 AATTTT
785770 TTTAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTAAATATTAATTT
Found at i:785796 original size:20 final size:20
Alignment explanation
Indices: 785707--785796 Score: 58
Period size: 20 Copynumber: 4.3 Consensus size: 20
785697 TAATTTAATT
785707 TAAAATATTA-TTTAAATAA
1 TAAAATATTATTTTAAATAA
*
785726 -AAAATTTTATATTTAAATTTAA
1 TAAAATATTAT-TTTAAA--TAA
* * **
785748 TTATAAATATTAATTTAATTTT
1 -TA-AAATATTATTTTAAATAA
**
785770 TTTAATATTATTTTAAATAA
1 TAAAATATTATTTTAAATAA
785790 TAAAATA
1 TAAAATA
785797 AATTTTCATA
Statistics
Matches: 50, Mismatches: 14, Indels: 13
0.65 0.18 0.17
Matches are distributed among these distances:
18 8 0.16
20 24 0.48
21 1 0.02
22 4 0.08
24 6 0.12
25 7 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATATTATTTTAAATAA
Found at i:785948 original size:20 final size:20
Alignment explanation
Indices: 785923--785960 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
785913 TTATGATTAA
*
785923 ATTTATTTAAAAATTAAATT
1 ATTTATTCAAAAATTAAATT
*
785943 ATTTATTCAAAACTTAAA
1 ATTTATTCAAAAATTAAA
785961 AGTTTCTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTATTCAAAAATTAAATT
Found at i:786349 original size:34 final size:34
Alignment explanation
Indices: 786291--786371 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 34
786281 ATAATATAAA
786291 TAAAA-AATATTT-TTATTGAAAAAATTTTATTTT
1 TAAAATAA-ATTTATTATTGAAAAAATTTTATTTT
*
786324 TAAAATAAATTTATTATTGAGAAAATTTTATTTT
1 TAAAATAAATTTATTATTGAAAAAATTTTATTTT
786358 TAAAAT-AATTTATT
1 TAAAATAAATTTATT
786372 TTTTAAGTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
33 17 0.38
34 28 0.62
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (34 bp):
TAAAATAAATTTATTATTGAAAAAATTTTATTTT
Found at i:786367 original size:17 final size:16
Alignment explanation
Indices: 786291--786374 Score: 73
Period size: 17 Copynumber: 5.1 Consensus size: 16
786281 ATAATATAAA
786291 TAAAAAATATTT-TTATT
1 TAAAAAAT-TTTATT-TT
*
786308 GAAAAAATTTTATTTT
1 TAAAAAATTTTATTTT
*
786324 TAAAATAAATTTATTATT
1 TAAAA-AATTTTATT-TT
* *
786342 GAGAAAATTTTATTTT
1 TAAAAAATTTTATTTT
786358 TAAAATAA-TTTATTTT
1 TAAAA-AATTTTATTTT
786374 T
1 T
786375 TAAGTGAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
16 23 0.42
17 27 0.49
18 5 0.09
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
TAAAAAATTTTATTTT
Found at i:786384 original size:17 final size:16
Alignment explanation
Indices: 786316--786374 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
786306 TTGAAAAAAT
786316 TTTATTTTTAAAATAAA
1 TTTATTTTTAAAAT-AA
* *
786333 TTTATTATTGAGAAA-AT
1 TTTATT-TTTA-AAATAA
786350 TTTATTTTTAAAATAA
1 TTTATTTTTAAAATAA
786366 TTTATTTTT
1 TTTATTTTT
786375 TAAGTGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 3 0.09
16 13 0.37
17 13 0.37
18 3 0.09
19 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTATTTTTAAAATAA
Found at i:790887 original size:16 final size:17
Alignment explanation
Indices: 790863--790895 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
790853 ATCCACATTC
790863 CAACCAACT-CAAACCA
1 CAACCAACTGCAAACCA
*
790879 CAACTAACTGCAAACCA
1 CAACCAACTGCAAACCA
790896 AATACTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.39, G:0.03, T:0.09
Consensus pattern (17 bp):
CAACCAACTGCAAACCA
Found at i:794981 original size:67 final size:67
Alignment explanation
Indices: 794873--795006 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
794863 ACCTGTAAAT
794873 AGCACGGACAAGGAGAGATTATGACAACAGAAAATTATTCTAAATTTTTTATTCTCTCTCATTTA
1 AGCACGGACAAGGAGAGATTATGACAACAGAAAATTATTCTAAATTTTTTATTCTCTCTCATTTA
794938 AC
66 AC
*
794940 AGCACGGACAAGGGGAGATTATGACAACAGAAAATTATTCTAAATTTTTTATTCTCTCTCATTTA
1 AGCACGGACAAGGAGAGATTATGACAACAGAAAATTATTCTAAATTTTTTATTCTCTCTCATTTA
795005 AC
66 AC
795007 GGTTTTCTTC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (67 bp):
AGCACGGACAAGGAGAGATTATGACAACAGAAAATTATTCTAAATTTTTTATTCTCTCTCATTTA
AC
Found at i:797922 original size:12 final size:12
Alignment explanation
Indices: 797905--797931 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
797895 AACTAAAGTC
797905 AGCTCGAAATTG
1 AGCTCGAAATTG
797917 AGCTCGAAATTG
1 AGCTCGAAATTG
797929 AGC
1 AGC
797932 ACAATTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (12 bp):
AGCTCGAAATTG
Found at i:798721 original size:17 final size:19
Alignment explanation
Indices: 798694--798746 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 19
798684 AATAATATTT
798694 TTATATAAATTTTAATAAA
1 TTATATAAATTTTAATAAA
798713 TTA-AT-AA-TTT-AT--A
1 TTATATAAATTTTAATAAA
798726 TTATATAAATTTTAATAAA
1 TTATATAAATTTTAATAAA
798745 TT
1 TT
798747 TACATATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
13 4 0.14
14 2 0.07
15 4 0.14
16 6 0.21
17 4 0.14
18 2 0.07
19 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATATAAATTTTAATAAA
Found at i:801714 original size:17 final size:16
Alignment explanation
Indices: 801678--801715 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
801668 CGTTTCAATT
801678 TATAA-AATATAAAAA
1 TATAATAATATAAAAA
801693 T-TAATAATATAATAAA
1 TATAATAATATAA-AAA
801709 TATAATA
1 TATAATA
801716 TAATTAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 8 0.40
16 4 0.20
17 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TATAATAATATAAAAA
Found at i:801715 original size:14 final size:16
Alignment explanation
Indices: 801683--801719 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
801673 CAATTTATAA
801683 AATATAA-AAATTAAT
1 AATATAATAAATTAAT
801698 AATATAATAAA-T-AT
1 AATATAATAAATTAAT
801712 AATATAAT
1 AATATAAT
801720 TAGTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 8 0.38
16 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATAATAAATTAAT
Found at i:802584 original size:4 final size:4
Alignment explanation
Indices: 802545--802603 Score: 66
Period size: 4 Copynumber: 13.8 Consensus size: 4
802535 ATAAAATTTA
802545 TATT TATAT TATT T-TT ATATT ATATT ATATTT TATT TATT TATT TATT
1 TATT TAT-T TATT TATT -TATT -TATT -TA-TT TATT TATT TATT TATT
802593 TATT TATT TAT
1 TATT TATT TAT
802604 GTGATGTCTT
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
3 2 0.04
4 31 0.61
5 16 0.31
6 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:803233 original size:17 final size:16
Alignment explanation
Indices: 803195--803252 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
803185 AAAAATTTAA
803195 ATATTTAATAAATATT
1 ATATTTAATAAATATT
803211 ATTATTTAATTTAAAT-TT
1 A-TATTTAA--TAAATATT
* *
803229 ATATTAAAT-AATAAT
1 ATATTTAATAAATATT
803244 AT-TTTAATA
1 ATATTTAATA
803253 TTAATTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
14 8 0.24
15 4 0.12
16 1 0.03
17 13 0.38
18 3 0.09
19 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTTAATAAATATT
Found at i:803237 original size:30 final size:31
Alignment explanation
Indices: 803188--803308 Score: 83
Period size: 30 Copynumber: 3.9 Consensus size: 31
803178 TTATTTTAAA
* *
803188 AATTTAAATATTTAATAAATATTATTA-TTT
1 AATTTAAATATTTAATAAATAATAATATTTT
*
803218 AATTTAAAT-TTATATTAAATAATAATATTTT
1 AATTTAAATATT-TAATAAATAATAATATTTT
* * *
803249 AATATTAATTAATTT-TTAAA-AATAA-A-TTA
1 AAT-TTAAAT-ATTTAATAAATAATAATATTTT
* *
803278 AATTTAAATATATTAAAAAATTATGAATATT
1 AATTTAAATAT-TTAATAAATAAT-AATATT
803309 CTACTAAGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
27 2 0.03
28 7 0.10
29 10 0.14
30 24 0.34
31 13 0.18
32 11 0.15
33 2 0.03
34 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
AATTTAAATATTTAATAAATAATAATATTTT
Found at i:804085 original size:19 final size:19
Alignment explanation
Indices: 804061--804098 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
804051 TGAATTAAAC
804061 AGCCTATGGTAAAAATAAT
1 AGCCTATGGTAAAAATAAT
804080 AGCCTATGGTAAAAATAAT
1 AGCCTATGGTAAAAATAAT
804099 CTTATAATCT
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:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (19 bp):
AGCCTATGGTAAAAATAAT
Found at i:804389 original size:3 final size:3
Alignment explanation
Indices: 804381--804409 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
804371 AATTTTATAT
804381 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
804410 TCATATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:805178 original size:16 final size:15
Alignment explanation
Indices: 805144--805181 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
805134 ATCTCATATT
805144 TATATAAATATTTAA
1 TATATAAATATTTAA
*
805159 -ATATAATATTTTTAA
1 TATATAA-ATATTTAA
805174 TATATAAA
1 TATATAAA
805182 AAATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 6 0.30
15 8 0.40
16 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATATAAATATTTAA
Found at i:805386 original size:18 final size:18
Alignment explanation
Indices: 805365--805403 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
805355 ATTTTTTTAA
**
805365 ATATTTATATTTAATAAT
1 ATATTTATACATAATAAT
*
805383 ATATTTTTACATAATAAT
1 ATATTTATACATAATAAT
805401 ATA
1 ATA
805404 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTATACATAATAAT
Done.