Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold291
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: 742724
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 5 of 5
Found at i:573567 original size:39 final size:39
Alignment explanation
Indices: 573524--573635 Score: 101
Period size: 39 Copynumber: 2.9 Consensus size: 39
573514 ATATAAAGTA
*
573524 ATTAAAATATAAAATAATATAAAATATAAATTTTAATA-T
1 ATTAAAATATAAAATAATATAAAATAT-AATTTAAATATT
* *
573563 ATTAAAAT-TAATATAAATATTAAATAT--TTTAAATATT
1 ATTAAAATATAAAAT-AATATAAAATATAATTTAAATATT
*
573600 ATTATAATATAATAAAAT-ATATAAAA-ATAATATAAA
1 ATTA-AA-AT-ATAAAATAATATAAAATATAATTTAAA
573636 ATATAAGTGG
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
36 7 0.12
37 5 0.08
38 9 0.15
39 28 0.47
40 5 0.08
41 5 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (39 bp):
ATTAAAATATAAAATAATATAAAATATAATTTAAATATT
Found at i:573576 original size:12 final size:14
Alignment explanation
Indices: 573539--573600 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 14
573529 AATATAAAAT
*
573539 AATATAAAATA-TA
1 AATATTAAATATTA
*
573552 AATTTTAATATATTA
1 AATATTAA-ATATTA
573567 AA-ATT-AATA-TA
1 AATATTAAATATTA
573578 AATATTAAATATTTTA
1 AATATTAAATA--TTA
573594 AATATTA
1 AATATTA
573601 TTATAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
11 4 0.10
12 6 0.15
13 11 0.28
14 5 0.13
15 4 0.10
16 9 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTAAATATTA
Found at i:573618 original size:37 final size:33
Alignment explanation
Indices: 573525--573625 Score: 91
Period size: 37 Copynumber: 2.9 Consensus size: 33
573515 TATAAAGTAA
* *
573525 TTAAAATA-TAAAATAATATAAAATA-T-AAATT
1 TTAATATATTAAAATTA-ATAAAATATTAAAATT
573556 TTAATATATTAAAATTAATATAAATATTAAATATT
1 TTAATATATTAAAATTAATA-AAATATTAAA-ATT
*
573591 TTAAATATTATTATAATATAATAAAATATATAAAA
1 TT-AATA-TATTAAAAT-TAATAAAATAT-TAAAA
573626 ATAATATAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
31 10 0.17
32 12 0.21
33 1 0.02
34 2 0.03
35 5 0.09
36 4 0.07
37 15 0.26
38 9 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
TTAATATATTAAAATTAATAAAATATTAAAATT
Found at i:573625 original size:9 final size:9
Alignment explanation
Indices: 573505--573640 Score: 59
Period size: 10 Copynumber: 14.3 Consensus size: 9
573495 GATTATATTA
*
573505 ATATAATAT
1 ATATAAAAT
*
573514 ATATAAAGT
1 ATATAAAAT
*
573523 A-ATTAAA-
1 ATATAAAAT
573530 ATATAAAAT
1 ATATAAAAT
573539 AATATAAAAT
1 -ATATAAAAT
573549 ATA-AATTTTAAT
1 ATATAA----AAT
573561 ATATTAAAAT
1 ATA-TAAAAT
573571 -TAATATAAAT
1 AT-ATA-AAAT
573581 AT-T-AAAT
1 ATATAAAAT
* *
573588 ATTTTAAAT
1 ATATAAAAT
*
573597 ATTATTATAAT
1 A-TA-TAAAAT
573608 ATAATAAAAT
1 AT-ATAAAAT
573618 ATATAAAAAT
1 ATAT-AAAAT
573628 AATATAAAAT
1 -ATATAAAAT
573638 ATA
1 ATA
573641 AGTGGTTATT
Statistics
Matches: 99, Mismatches: 9, Indels: 38
0.68 0.06 0.26
Matches are distributed among these distances:
7 7 0.07
8 12 0.12
9 25 0.25
10 36 0.36
11 11 0.11
12 6 0.06
14 2 0.02
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (9 bp):
ATATAAAAT
Found at i:580993 original size:25 final size:25
Alignment explanation
Indices: 580963--581043 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 25
580953 TAATTACATG
580963 AATATGATACATATAAAGTAATAAA
1 AATATGATACATATAAAGTAATAAA
*
580988 AATATG--ACATA-ATA-TAATACATA
1 AATATGATACATATAAAGTAATA-A-A
*
581011 AATATGATATATATATAAAGTAATAAA
1 AATATG--ATACATATAAAGTAATAAA
581038 AATATG
1 AATATG
581044 GCATGATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
21 5 0.11
22 3 0.07
23 12 0.27
25 6 0.13
27 11 0.24
28 3 0.07
29 5 0.11
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (25 bp):
AATATGATACATATAAAGTAATAAA
Found at i:581041 original size:50 final size:48
Alignment explanation
Indices: 580957--581063 Score: 146
Period size: 50 Copynumber: 2.2 Consensus size: 48
580947 GGTTAGTAAT
*
580957 TACATGAATATGATACATATAAAGTAATAAAAATATGACATAATATAA
1 TACATAAATATGATACATATAAAGTAATAAAAATATGACATAATATAA
* * *
581005 TACATAAATATGATATATATATAAAGTAATAAAAATATGGCATGATATAA
1 TACATAAATATG--ATACATATAAAGTAATAAAAATATGACATAATATAA
581055 T--ATAAATAT
1 TACATAAATAT
581064 TTTTTCAAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
48 19 0.36
50 34 0.64
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (48 bp):
TACATAAATATGATACATATAAAGTAATAAAAATATGACATAATATAA
Found at i:581110 original size:18 final size:18
Alignment explanation
Indices: 581088--581136 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
581078 TATAACACTG
581088 ATTATTAATATATTAAAAT
1 ATTATTAA-ATATTAAAAT
581107 -TTATATAAATA-TAAAAT
1 ATTAT-TAAATATTAAAAT
581124 ATT-TTAAATATTA
1 ATTATTAAATATTA
581137 TTATAGTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 6 0.22
17 9 0.33
18 9 0.33
19 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATTAAATATTAAAAT
Found at i:581990 original size:26 final size:27
Alignment explanation
Indices: 581942--581993 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 27
581932 TTGATACATA
581942 TTTAAATATGAATATAAAAATATAAATT
1 TTTAAATAT-AATATAAAAATATAAATT
581970 TTTAAATAT-ATA-AAAACATATAAA
1 TTTAAATATAATATAAAA-ATATAAA
581994 AAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
26 10 0.43
28 9 0.39
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
TTTAAATATAATATAAAAATATAAATT
Found at i:582475 original size:20 final size:18
Alignment explanation
Indices: 582431--582467 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
582421 ATGTAATATG
*
582431 AATTTTAATATATTTATA
1 AATTTTAATATAGTTATA
582449 AATTTTAATATAGTTATA
1 AATTTTAATATAGTTATA
582467 A
1 A
582468 TCATTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AATTTTAATATAGTTATA
Found at i:582478 original size:25 final size:25
Alignment explanation
Indices: 582440--582504 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 25
582430 GAATTTTAAT
*
582440 ATATTTATAAATTTTAATATAG-TTATA
1 ATATTT-T-AATTTT-ATATAGCATATA
*
582467 ATCATTTT-ATTTTTTATAGCATATA
1 AT-ATTTTAATTTTATATAGCATATA
582492 ATATTTTAATTTT
1 ATATTTTAATTTT
582505 TTTCGTGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
24 10 0.30
25 16 0.48
27 3 0.09
28 4 0.12
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (25 bp):
ATATTTTAATTTTATATAGCATATA
Found at i:587860 original size:21 final size:22
Alignment explanation
Indices: 587800--587860 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 22
587790 AATGTCAAAA
* *
587800 ATAGGTTGGGAATGTG-GTTGT
1 ATAGGTTGGGAATGTGACTGGT
* * * *
587821 ATAGGCTGTGACTGAGACTGGT
1 ATAGGTTGGGAATGTGACTGGT
587843 -TAGGTTGGGAATGTGACT
1 ATAGGTTGGGAATGTGACT
587861 CTGTAGACTG
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.21, C:0.07, G:0.39, T:0.33
Consensus pattern (22 bp):
ATAGGTTGGGAATGTGACTGGT
Found at i:597935 original size:5 final size:5
Alignment explanation
Indices: 597925--597987 Score: 56
Period size: 5 Copynumber: 12.0 Consensus size: 5
597915 AAGATTTTTA
* *
597925 TATAT TATATT TATAT TATAT TATAT TTTAAT TATTTT TATAT TATAT
1 TATAT TATA-T TATAT TATAT TATAT TAT-AT TA-TAT TATAT TATAT
*
597973 T-TATT TATAT AATAT
1 TATA-T TATAT TATAT
597988 AATGTTTTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
4 2 0.04
5 32 0.67
6 13 0.27
7 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:597939 original size:11 final size:11
Alignment explanation
Indices: 597922--597982 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
597912 TAAAAGATTT
597922 TTATATATTATA
1 TTATAT-TTATA
597934 TT-TATATTATA
1 TTATAT-TTATA
597945 TTATATTT-TAA
1 TTATATTTAT-A
*
597956 TTATTTTTATA
1 TTATATTTATA
597967 TTATATTTAT-
1 TTATATTTATA
597977 TTATAT
1 TTATAT
597983 AATATAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 7 0.16
11 31 0.70
12 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATATTTATA
Found at i:597959 original size:27 final size:26
Alignment explanation
Indices: 597928--597978 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
597918 ATTTTTATAT
597928 ATTATATTTATATTATATTATATTTTA
1 ATTATATTTATATTATATT-TATTTTA
*
597955 ATTATTTTTATATTATATTTATTT
1 ATTATATTTATATTATATTTATTT
597979 ATATAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
ATTATATTTATATTATATTTATTTTA
Found at i:597965 original size:17 final size:17
Alignment explanation
Indices: 597945--597990 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
597935 TTATATTATA
*
597945 TTATATTTTAATTATTT
1 TTATATTATAATTATTT
*
597962 TTATATTATATTTATTT
1 TTATATTATAATTATTT
* *
597979 ATATAATATAAT
1 TTATATTATAAT
597991 GTTTTTAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATATTATAATTATTT
Found at i:601676 original size:2 final size:2
Alignment explanation
Indices: 601669--601699 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
601659 AATAGTTTCT
601669 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
601700 TTGGTTAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:604044 original size:16 final size:15
Alignment explanation
Indices: 604022--604058 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
604012 ATATTATTAT
604022 AATTAATTATAATAAA
1 AATTAATTATAA-AAA
*
604038 TATTAATTATAAAAA
1 AATTAATTATAAAAA
604053 AATTAA
1 AATTAA
604059 AATCATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTAATTATAAAAA
Found at i:604049 original size:13 final size:12
Alignment explanation
Indices: 604008--604050 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
603998 TACAAACATA
604008 ATAAATATTATT
1 ATAAATATTATT
* *
604020 ATAATTAATTATA
1 ATAAAT-ATTATT
604033 ATAAATATTAATT
1 ATAAATATT-ATT
604046 ATAAA
1 ATAAA
604051 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAAATATTATT
Found at i:610291 original size:23 final size:22
Alignment explanation
Indices: 610264--610314 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
610254 AAATTTTATT
**
610264 TTTATTTTTTTTATTGA-ATTAA
1 TTTATTTAATTTA-TGACATTAA
610286 TATTATTTAATTTATGACATTAA
1 T-TTATTTAATTTATGACATTAA
610309 TTTATT
1 TTTATT
610315 CAATCATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
TTTATTTAATTTATGACATTAA
Found at i:610388 original size:12 final size:12
Alignment explanation
Indices: 610371--610396 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
610361 GAATTATTGA
610371 AAAATTTAACTT
1 AAAATTTAACTT
610383 AAAATTTAACTT
1 AAAATTTAACTT
610395 AA
1 AA
610397 TTAATTATTA
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:0.08, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATTTAACTT
Found at i:615494 original size:2 final size:2
Alignment explanation
Indices: 615487--615529 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
615477 TTGTTAATCT
615487 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
615529 T
1 T
615530 ATCTATCTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:615534 original size:4 final size:4
Alignment explanation
Indices: 615527--615567 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
615517 TCTCTCTCTC
615527 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA T
615568 AGTGTGTGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (4 bp):
TCTA
Found at i:617950 original size:27 final size:26
Alignment explanation
Indices: 617909--617962 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 26
617899 GTTTTAAAAT
617909 TTTTTAAATTAATTAAATTGATTAAA
1 TTTTTAAATTAATTAAATTGATTAAA
*
617935 TTTTTAAATTCGATTAAATTGATTAAA
1 TTTTTAAATT-AATTAAATTGATTAAA
617962 T
1 T
617963 AAATATCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTTAAATTAATTAAATTGATTAAA
Found at i:617960 original size:9 final size:9
Alignment explanation
Indices: 617912--617962 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
617902 TTAAAATTTT
*
617912 TTAAATTAA
1 TTAAATTGA
617921 TTAAATTGA
1 TTAAATTGA
*
617930 TTAAATT-T
1 TTAAATTGA
617938 TTAAATTCGA
1 TTAAATT-GA
617948 TTAAATTGA
1 TTAAATTGA
617957 TTAAAT
1 TTAAAT
617963 AAATATCTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 7 0.19
9 23 0.62
10 7 0.19
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (9 bp):
TTAAATTGA
Found at i:618132 original size:20 final size:19
Alignment explanation
Indices: 618058--618135 Score: 54
Period size: 18 Copynumber: 4.0 Consensus size: 19
618048 ATTATTTATA
618058 TTATTATATAAATGATATATT
1 TTATTATATAAAT-ATA-ATT
* * * *
618079 GTATTATAGT-ATTTTAA-A
1 TTATTATA-TAAATATAATT
618097 TTATTATATAAATATAATT
1 TTATTATATAAATATAATT
618116 TTATT-TATAATATTATAATT
1 TTATTATATAA-A-TATAATT
618136 AAAAATAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
17 1 0.02
18 17 0.39
19 7 0.16
20 9 0.20
21 9 0.20
22 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (19 bp):
TTATTATATAAATATAATT
Found at i:618250 original size:17 final size:17
Alignment explanation
Indices: 618226--618260 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
618216 ATAAATCAAG
618226 TTTTAAAATTAAA-AAA
1 TTTTAAAATTAAATAAA
618242 TTTTAAAAATTAAATAAA
1 TTTT-AAAATTAAATAAA
618260 T
1 T
618261 CAAATCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 9 0.53
18 4 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTTAAAATTAAATAAA
Found at i:620784 original size:27 final size:27
Alignment explanation
Indices: 620754--620805 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
620744 ATATCTCATC
*
620754 TTTTTATATTAT-TTTATTTTTAATTA
1 TTTTTATATTATATTTATATTTAATTA
620780 TTTTTATATTATATTTATATTTAATT
1 TTTTTATATTATATTTATATTTAATT
620806 TTAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTATATTATATTTATATTTAATTA
Found at i:620790 original size:11 final size:11
Alignment explanation
Indices: 620762--620800 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
620752 TCTTTTTATA
*
620762 TTATTTTATTT
1 TTATATTATTT
620773 TTA-ATTATTT
1 TTATATTATTT
*
620783 TTATATTATAT
1 TTATATTATTT
620794 TTATATT
1 TTATATT
620801 TAATTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATATTATTT
Found at i:620807 original size:23 final size:23
Alignment explanation
Indices: 620763--620808 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
620753 CTTTTTATAT
* * *
620763 TATTTTATTTTTAATTATTTTTA
1 TATTATATTTATAATTAATTTTA
*
620786 TATTATATTTATATTTAATTTTA
1 TATTATATTTATAATTAATTTTA
620809 AAATTATCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTATATTTATAATTAATTTTA
Found at i:620948 original size:20 final size:20
Alignment explanation
Indices: 620925--620985 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
620915 ATCTAATAAT
620925 ATTAAATAAGATATAAAAAA
1 ATTAAATAAGATATAAAAAA
* *
620945 ATTAAA-AATATGATAAGAATA
1 ATTAAATAAGAT-ATAA-AAAA
*
620966 ATATAAATATGATATAAAAA
1 AT-TAAATAAGATATAAAAA
620986 TAAAAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 4 0.12
20 10 0.31
21 7 0.22
22 8 0.25
23 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
ATTAAATAAGATATAAAAAA
Found at i:620959 original size:22 final size:21
Alignment explanation
Indices: 620928--620994 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 21
620918 TAATAATATT
*
620928 AAATAAGATATAAAAAAATTAA
1 AAATATGATATAAAAAAA-TAA
* * *
620950 AAATATGATA-AGAATAATAT
1 AAATATGATATAAAAAAATAA
620970 AAATATGATAT--AAAAATAA
1 AAATATGATATAAAAAAATAA
620989 AAATAT
1 AAATAT
620995 TTATATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 12 0.32
20 12 0.32
21 5 0.13
22 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (21 bp):
AAATATGATATAAAAAAATAA
Found at i:620993 original size:25 final size:24
Alignment explanation
Indices: 620965--621016 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
620955 TGATAAGAAT
*
620965 AATATAAATATGATATAAAAATAAA
1 AATATAAATATAATAT-AAAATAAA
** *
620990 AATATTTATATAATATAAATTAAA
1 AATATAAATATAATATAAAATAAA
621014 AAT
1 AAT
621017 GCATCAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AATATAAATATAATATAAAATAAA
Found at i:633061 original size:22 final size:22
Alignment explanation
Indices: 633036--633082 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
633026 TAAATTAAAT
*
633036 TAATTAAAATTTAATAA-TTTAA
1 TAATTAAAATTCAA-AATTTTAA
*
633058 TAATTTAAATTCAAAATTTTAA
1 TAATTAAAATTCAAAATTTTAA
633080 TAA
1 TAA
633083 AATAATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATTAAAATTCAAAATTTTAA
Found at i:634289 original size:22 final size:20
Alignment explanation
Indices: 634240--634295 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 20
634230 AACTATTTTT
634240 TGTTATTTATTTATTTTATTA
1 TGTTA-TTATTTATTTTATTA
634261 T-TT-TTATTTATTTTATATA
1 TGTTATTATTTATTTTAT-TA
634280 GTGTTATTA-TTATTTT
1 -TGTTATTATTTATTTT
634296 GATGCTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 13 0.42
19 2 0.06
20 3 0.10
21 10 0.32
22 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TGTTATTATTTATTTTATTA
Found at i:636652 original size:15 final size:15
Alignment explanation
Indices: 636632--636660 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
636622 GTTACTTAAG
636632 CTATAATTAATATTT
1 CTATAATTAATATTT
636647 CTATAATTAATATT
1 CTATAATTAATATT
636661 CATTGGCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
CTATAATTAATATTT
Found at i:640652 original size:20 final size:21
Alignment explanation
Indices: 640622--640676 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
640612 AAAATAAAAT
*
640622 TATAATTATTATTGTAAAATATA
1 TATAATTA-TA-TATAAAATATA
640645 TATAATTATATATAAAA-ATA
1 TATAATTATATATAAAATATA
*
640665 TAAAATTATATA
1 TATAATTATATA
640677 ACAGCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 14 0.47
21 6 0.20
22 2 0.07
23 8 0.27
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAATTATATATAAAATATA
Found at i:641948 original size:25 final size:25
Alignment explanation
Indices: 641903--641950 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
641893 TATTATCAGT
* *
641903 AAATTAAATTATTTTATTTTATTAA
1 AAATAAAATTATTTTAATTTATTAA
641928 AAATAAAATTA-TTTACATTTATT
1 AAATAAAATTATTTTA-ATTTATT
641951 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
AAATAAAATTATTTTAATTTATTAA
Found at i:647712 original size:3 final size:3
Alignment explanation
Indices: 647706--647746 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
647696 ATTTTTCTCT
647706 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
647747 TATGGGCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:651353 original size:2 final size:2
Alignment explanation
Indices: 651340--651371 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
651330 GAATAGCCAA
*
651340 AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
651372 GGAGGAGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:652180 original size:30 final size:30
Alignment explanation
Indices: 652144--652240 Score: 85
Period size: 30 Copynumber: 3.2 Consensus size: 30
652134 TTTTCAAAAA
652144 TTTATATTTGATGTATTAATAATATATAAC
1 TTTATATTTGATGTATTAATAATATATAAC
* * *
652174 TTTATATACT-AT-TAGTAATAATATCACT-CC
1 TTTATAT-TTGATGTATTAATAATAT-A-TAAC
* *
652204 TTTATATTTGAAGTATTAATAATGTATAGA-
1 TTTATATTTGATGTATTAATAATATATA-AC
652234 TTTATAT
1 TTTATAT
652241 ACGGTCAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
29 13 0.25
30 27 0.52
31 12 0.23
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTATATTTGATGTATTAATAATATATAAC
Found at i:653185 original size:16 final size:16
Alignment explanation
Indices: 653128--653181 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
653118 GTTATGTCAG
*
653128 GTTCGGATCATTTCGG
1 GTTCGGATCATTTCGA
*
653144 GTTCGGATCATTACGA
1 GTTCGGATCATTTCGA
*
653160 GTTC-AAGTCATTTCGA
1 GTTCGGA-TCATTTCGA
*
653176 ATTCGG
1 GTTCGG
653182 GTCAATCGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 1 0.03
16 29 0.97
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (16 bp):
GTTCGGATCATTTCGA
Found at i:653277 original size:53 final size:53
Alignment explanation
Indices: 653160--653279 Score: 127
Period size: 53 Copynumber: 2.3 Consensus size: 53
653150 ATCATTACGA
* * *
653160 GTTCAAGTCATTTCGAATTCGGGTCAATCGGGTTTAACACTCGGGTTAATCAG
1 GTTCAAGTCATTTTGAATTCGGGTCAATCAGATTTAACACTCGGGTTAATCAG
* * * * * *
653213 GTT-TAGATCATTTTGAATTC-GGTCAATTAGATTTAATATTTGGGTTAAATCGG
1 GTTCAAG-TCATTTTGAATTCGGGTCAATCAGATTTAACACTCGGGTT-AATCAG
653266 GTTCAAGTCATTTT
1 GTTCAAGTCATTTT
653280 AGGTTTAGGT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
52 22 0.41
53 30 0.56
54 2 0.04
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (53 bp):
GTTCAAGTCATTTTGAATTCGGGTCAATCAGATTTAACACTCGGGTTAATCAG
Found at i:654000 original size:16 final size:16
Alignment explanation
Indices: 653981--654051 Score: 70
Period size: 16 Copynumber: 4.4 Consensus size: 16
653971 TAATTTCGGG
*
653981 TCATTTCGGGTTCGAA
1 TCATTTCGAGTTCGAA
*
653997 TCATTTCGAGTTAGAA
1 TCATTTCGAGTTCGAA
* * * *
654013 TTATTTTGGGTTCCAA
1 TCATTTCGAGTTCGAA
* *
654029 TCATTTCGAATTCGGA
1 TCATTTCGAGTTCGAA
654045 TCATTTC
1 TCATTTC
654052 AAATTTCGAG
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (16 bp):
TCATTTCGAGTTCGAA
Found at i:654144 original size:22 final size:24
Alignment explanation
Indices: 654101--654148 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
654091 TATCAATTTA
654101 AATTAAATTAAATTTAAGTTCAAATT
1 AATTAAATTAAATTT-A-TTCAAATT
654127 AATT-AATTAAATTT-TTCAAATT
1 AATTAAATTAAATTTATTCAAATT
654149 CAAGTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTAAATTAAATTTATTCAAATT
Found at i:654272 original size:38 final size:38
Alignment explanation
Indices: 654220--654318 Score: 189
Period size: 38 Copynumber: 2.6 Consensus size: 38
654210 AGGCTCCACG
*
654220 AAACCAGTTCGTGGAAGACCTTGACTTGTATCAAAGCA
1 AAACCAGTTAGTGGAAGACCTTGACTTGTATCAAAGCA
654258 AAACCAGTTAGTGGAAGACCTTGACTTGTATCAAAGCA
1 AAACCAGTTAGTGGAAGACCTTGACTTGTATCAAAGCA
654296 AAACCAGTTAGTGGAAGACCTTG
1 AAACCAGTTAGTGGAAGACCTTG
654319 TATCAATCGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (38 bp):
AAACCAGTTAGTGGAAGACCTTGACTTGTATCAAAGCA
Found at i:654439 original size:17 final size:17
Alignment explanation
Indices: 654383--654439 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
654373 TTTTGTCGAT
*
654383 TTAAATT-TTTTAATTA
1 TTAAATTATATTAATTA
* * *
654399 TTTATATTATTATCAATAA
1 -TTAAATTA-TATTAATTA
654418 TTAAATTATATTAATTA
1 TTAAATTATATTAATTA
654435 TTAAA
1 TTAAA
654440 AATAAAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 18 0.58
18 7 0.23
19 6 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAAATTATATTAATTA
Found at i:654447 original size:24 final size:23
Alignment explanation
Indices: 654400--654454 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
654390 TTTTAATTAT
* *
654400 TTATATTATTATCAATAATTAAA
1 TTATATTATTATCAAAAATAAAA
*
654423 TTATATTAATTATTAAAAATAAAA
1 TTATATT-ATTATCAAAAATAAAA
654447 TTAT-TTAT
1 TTATATTAT
654455 ATTTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.07
23 9 0.32
24 17 0.61
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATATTATTATCAAAAATAAAA
Found at i:654449 original size:29 final size:29
Alignment explanation
Indices: 654392--654471 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 29
654382 TTTAAATTTT
*
654392 TTAATTAT-TTATATTATTAT-CAAT--AA
1 TTAATTATATTA-ATTATTATAAAATAAAA
654418 TTAAATTATATTAATTATTA-AAAATAAAA
1 TT-AATTATATTAATTATTATAAAATAAAA
* * *
654447 TTATTTATATTTATTTTTATAAAAT
1 TTAATTATATTAATTATTATAAAAT
654472 TTTAATAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
26 2 0.05
27 16 0.36
28 17 0.39
29 9 0.20
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAATTATATTAATTATTATAAAATAAAA
Found at i:656613 original size:21 final size:21
Alignment explanation
Indices: 656587--656626 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
656577 CCAACCAAAA
* *
656587 TTATATTTTATATTATAATAT
1 TTATATTTTACACTATAATAT
656608 TTATATTTTACACTATAAT
1 TTATATTTTACACTATAAT
656627 TATAGGTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATATTTTACACTATAATAT
Found at i:656857 original size:30 final size:32
Alignment explanation
Indices: 656795--656859 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
656785 AAATACCCCA
656795 AAACCCAATATTTTAAACCCATCAAAACACAT
1 AAACCCAATATTTTAAACCCATCAAAACACAT
* *
656827 AAACGCAAT-TTTTAAGCCCATCAAAA-ACAT
1 AAACCCAATATTTTAAACCCATCAAAACACAT
656857 AAA
1 AAA
656860 TTAAAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 7 0.23
31 16 0.52
32 8 0.26
ACGTcount: A:0.51, C:0.25, G:0.03, T:0.22
Consensus pattern (32 bp):
AAACCCAATATTTTAAACCCATCAAAACACAT
Found at i:658844 original size:77 final size:76
Alignment explanation
Indices: 658717--658870 Score: 193
Period size: 77 Copynumber: 2.0 Consensus size: 76
658707 CAAAGATAAT
* * * * * * * *
658717 TTTATGATTTCTTTGTTTATAGTTTAGAGAATATTTGTAAATTATGTAAATGTATTTTGTCGAGC
1 TTTATGATTTCTTAGTTTATAATTTAGAGAATATCTATAAATTATGTAAATATA-GTTATCGAAC
658782 TTAAAAACTCTA
65 TTAAAAACTCTA
* *
658794 TTTATGATTTCATTAG-TTATAATTTAGTGAATATCTATAAATTATGTAAATATAGTTATCGAAT
1 TTTATGATTTC-TTAGTTTATAATTTAGAGAATATCTATAAATTATGTAAATATAGTTATCGAAC
658858 TTAAAAACTCTA
65 TTAAAAACTCTA
658870 T
1 T
658871 CTATCAGTAG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
76 19 0.29
77 44 0.67
78 3 0.05
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (76 bp):
TTTATGATTTCTTAGTTTATAATTTAGAGAATATCTATAAATTATGTAAATATAGTTATCGAACT
TAAAAACTCTA
Found at i:663646 original size:50 final size:50
Alignment explanation
Indices: 663587--663684 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 50
663577 ATACATATCT
*
663587 ATATCTAATACTCACATAAAATCAGATAACATAGCTTGAAAGTAAAAAGA
1 ATATCTAATACTCACACAAAATCAGATAACATAGCTTGAAAGTAAAAAGA
*
663637 ATATCTAATACTCATACAAAATCAGATAACATAGCTTGAAAGTAAAAA
1 ATATCTAATACTCACACAAAATCAGATAACATAGCTTGAAAGTAAAAA
663685 AAAAAAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.24
Consensus pattern (50 bp):
ATATCTAATACTCACACAAAATCAGATAACATAGCTTGAAAGTAAAAAGA
Found at i:673259 original size:2 final size:2
Alignment explanation
Indices: 673252--673285 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
673242 ATTTAAATAG
673252 TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
673286 CCTTTGGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.90
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:674596 original size:18 final size:18
Alignment explanation
Indices: 674573--674607 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
674563 TTTGGCATTG
674573 ATTATTATTGCATTAATA
1 ATTATTATTGCATTAATA
674591 ATTATTATTGCATTAAT
1 ATTATTATTGCATTAAT
674608 TAAATTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
ATTATTATTGCATTAATA
Found at i:674607 original size:15 final size:15
Alignment explanation
Indices: 674567--674609 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 15
674557 CTTGACTTTG
*
674567 GCATTGATTATTATT
1 GCATTAATTATTATT
674582 GCATTAATAATTATTATT
1 GCA-T--TAATTATTATT
674600 GCATTAATTA
1 GCATTAATTA
674610 AATTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 9 0.38
16 1 0.04
17 1 0.04
18 13 0.54
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (15 bp):
GCATTAATTATTATT
Found at i:676910 original size:2 final size:2
Alignment explanation
Indices: 676903--676938 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
676893 AGTAAAAAGT
676903 TA 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 TA
676939 GTGTGAATAA
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):
TA
Found at i:677907 original size:21 final size:21
Alignment explanation
Indices: 677878--677917 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
677868 CTGACCAGAA
*
677878 TTATGTTTTATATTATAATAT
1 TTATATTTTATATTATAATAT
677899 TTATATTTTATATTATAAT
1 TTATATTTTATATTATAAT
677918 TATAAGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATATTTTATATTATAATAT
Found at i:678682 original size:58 final size:60
Alignment explanation
Indices: 678600--678724 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 60
678590 TATTGATTTT
* *
678600 TTTTTTCGCAATTGTTGTC-CTTTTTTTTTC-CACTTTATGGAATCAATTGTTTATTTGC
1 TTTTGTCGCAATTGTAGTCTCTTTTTTTTTCTCACTTTATGGAATCAATTGTTTATTTGC
* *
678658 TTTTGTCGCAATTGTAGTCTTTTTTTTTTTTCTTTTCACTTTATGGAATTAATTGTTTATTTGC
1 TTTTGTCGCAATTGTAGTC-TCTTTTTTTTTC---TCACTTTATGGAATCAATTGTTTATTTGC
678722 TTT
1 TTT
678725 AACTGCAAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
58 17 0.30
60 10 0.18
64 30 0.53
ACGTcount: A:0.15, C:0.13, G:0.12, T:0.60
Consensus pattern (60 bp):
TTTTGTCGCAATTGTAGTCTCTTTTTTTTTCTCACTTTATGGAATCAATTGTTTATTTGC
Found at i:679374 original size:34 final size:34
Alignment explanation
Indices: 679328--679546 Score: 316
Period size: 34 Copynumber: 6.5 Consensus size: 34
679318 GTAAAAACCA
* *
679328 CCATTTAATCAACAATGGCAACCTTACCAAATCT-
1 CCATTTAATCAACAATGGTAAGC-TACCAAATCTC
* * * *
679362 CCATTTAGTCAACAATGGTAAACCACCAAATCAC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
679396 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
679430 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
*
679464 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* ** *
679498 CCATTTAGTCAACAATGGTAAATTACCAAATC-A
1 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
679531 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
679547 TCTCCCACTT
Statistics
Matches: 168, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
33 23 0.14
34 145 0.86
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:683640 original size:19 final size:19
Alignment explanation
Indices: 683618--683674 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
683608 TACAGTAACC
* *
683618 GTATACTTGAATAGTATCT
1 GTATACATGAATAGTACCT
* *
683637 GTATACATAAATAGTGCCT
1 GTATACATGAATAGTACCT
* *
683656 ATATACGTGAATAGTACCT
1 GTATACATGAATAGTACCT
683675 CGACAACCAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (19 bp):
GTATACATGAATAGTACCT
Found at i:684026 original size:34 final size:34
Alignment explanation
Indices: 683980--684162 Score: 226
Period size: 34 Copynumber: 5.4 Consensus size: 34
683970 GTAAAAACCA
*
683980 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
684014 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
*
684048 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
684082 TCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * ** *
684116 CCATTTAGTCAACAATGATAAATTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
684149 CTATTTAATCAACA
1 CCATTTAATCAACA
684163 GAAAGTGCCA
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
33 15 0.12
34 111 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.27
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:687565 original size:17 final size:16
Alignment explanation
Indices: 687532--687588 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
687522 GATTTTTACT
687532 AAAATAAAAAAAA--G
1 AAAATAAAAAAAATTG
687546 AAAATAATAAAAAATTG
1 AAAATAA-AAAAAATTG
*
687563 AAAAGAAAAAAAGAATTG
1 AAAA-TAAAAAA-AATTG
687581 AAAATAAA
1 AAAATAAA
687589 TGATAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
14 7 0.19
15 6 0.17
17 12 0.33
18 11 0.31
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAAATTG
Found at i:688018 original size:25 final size:26
Alignment explanation
Indices: 687977--688027 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
687967 ATAATCCATC
687977 TTATTTATTTTTGTAAATTATTAAAT
1 TTATTTATTTTTGTAAATTATTAAAT
*
688003 TTATTT-TTTTTTTAAATTATTAAAT
1 TTATTTATTTTTGTAAATTATTAAAT
688028 CATTAATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTATTTATTTTTGTAAATTATTAAAT
Found at i:689704 original size:29 final size:29
Alignment explanation
Indices: 689641--689704 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
689631 TAAATATACT
* **
689641 ATTA-TAT-CTTAAAATAAGTATGTATTG
1 ATTAGTATCCTTAAAATAAGTATATATCA
*
689668 ATTAGTATCCTTAAAATAAGTATATCTCA
1 ATTAGTATCCTTAAAATAAGTATATATCA
*
689697 ATTGGTAT
1 ATTAGTAT
689705 AATTGGTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 4 0.13
28 3 0.10
29 23 0.77
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (29 bp):
ATTAGTATCCTTAAAATAAGTATATATCA
Found at i:690271 original size:7 final size:7
Alignment explanation
Indices: 690259--690291 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
690249 TTTTGTTATG
690259 TTATATA
1 TTATATA
690266 TTATATA
1 TTATATA
690273 TTATATA
1 TTATATA
690280 TTATATA
1 TTATATA
690287 TTATA
1 TTATA
690292 AGACTAGGAT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTATATA
Found at i:699933 original size:17 final size:17
Alignment explanation
Indices: 699902--699943 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
699892 TTTTTACCAA
699902 AATAAA-AAATGAAAAC
1 AATAAAGAAATGAAAAC
* *
699918 AATAAAGAATTGAAAAG
1 AATAAAGAAATGAAAAC
*
699935 AAAAAAGAA
1 AATAAAGAA
699944 GAATTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (17 bp):
AATAAAGAAATGAAAAC
Found at i:709670 original size:27 final size:26
Alignment explanation
Indices: 709632--709683 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
709622 TGCAACTTTT
709632 ACTATTTCAAATTGAATTTCAAAATTA
1 ACTATTTCAAATTGAA-TTCAAAATTA
709659 ACTATTTCAAATTGAATTCAAAATT
1 ACTATTTCAAATTGAATTCAAAATT
709684 GGCTGCACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (26 bp):
ACTATTTCAAATTGAATTCAAAATTA
Found at i:709684 original size:12 final size:13
Alignment explanation
Indices: 709635--709684 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
709625 AACTTTTACT
709635 ATTTC-AAATTGA
1 ATTTCAAAATTGA
*
709647 ATTTCAAAATTAA
1 ATTTCAAAATTGA
709660 CTATTTC-AAATTGA
1 --ATTTCAAAATTGA
709674 A-TTCAAAATTG
1 ATTTCAAAATTG
709685 GCTGCACAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 3 0.09
12 12 0.38
13 6 0.19
14 6 0.19
15 5 0.16
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (13 bp):
ATTTCAAAATTGA
Found at i:714447 original size:27 final size:26
Alignment explanation
Indices: 714409--714460 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
714399 TGCAACTTTT
714409 ACTATTTCAAATTGAATTTCAAAATTA
1 ACTATTTCAAATTGAA-TTCAAAATTA
714436 ACTATTTCAAATTGAATTCAAAATT
1 ACTATTTCAAATTGAATTCAAAATT
714461 GGCTGCACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (26 bp):
ACTATTTCAAATTGAATTCAAAATTA
Found at i:714461 original size:12 final size:13
Alignment explanation
Indices: 714412--714461 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
714402 AACTTTTACT
714412 ATTTC-AAATTGA
1 ATTTCAAAATTGA
*
714424 ATTTCAAAATTAA
1 ATTTCAAAATTGA
714437 CTATTTC-AAATTGA
1 --ATTTCAAAATTGA
714451 A-TTCAAAATTG
1 ATTTCAAAATTG
714462 GCTGCACAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 3 0.09
12 12 0.38
13 6 0.19
14 6 0.19
15 5 0.16
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (13 bp):
ATTTCAAAATTGA
Found at i:715866 original size:1 final size:1
Alignment explanation
Indices: 715862--715905 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
715852 CAATTTTTTT
* * * *
715862 AAAAAAAAAAACAAAAACAAAAAAAAAACAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
715906 GTGAAGATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:715885 original size:17 final size:16
Alignment explanation
Indices: 715862--715905 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 16
715852 CAATTTTTTT
715862 AAAAAAAAAAACAAAA
1 AAAAAAAAAAACAAAA
715878 ACAAAAAAAAAACAAAA
1 A-AAAAAAAAAACAAAA
715895 AAAAAGAAAAA
1 AAAAA-AAAAA
715906 GTGAAGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAACAAAA
Found at i:721634 original size:22 final size:21
Alignment explanation
Indices: 721604--721656 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
721594 ATTCAAAATG
*
721604 ATTTTAAATTAAATTAATTAAA
1 ATTTAAAATTAAA-TAATTAAA
* *
721626 ATTTAAAATTTAATAATTTAA
1 ATTTAAAATTAAATAATTAAA
*
721647 ATTCAAAATT
1 ATTTAAAATT
721657 TTAATAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTAAAATTAAATAATTAAA
Found at i:721659 original size:22 final size:21
Alignment explanation
Indices: 721609--721663 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
721599 AAATGATTTT
* *
721609 AAATTAAATTAATTAAAATTTA
1 AAATTTAA-TAATTAAAATTCA
*
721631 AAATTTAATAATTTAAATTCA
1 AAATTTAATAATTAAAATTCA
721652 AAATTTTAATAA
1 AAA-TTTAATAA
721664 AATAATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTAATAATTAAAATTCA
Found at i:722817 original size:22 final size:20
Alignment explanation
Indices: 722768--722829 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 20
722758 TATTATGTTT
722768 TGTTATTTATTTATTTTATTA
1 TGTTA-TTATTTATTTTATTA
722789 T-TT-TTATTTATTTTATATA
1 TGTTATTATTTATTTTAT-TA
722808 GTGTTATTA-TTATTATTATTA
1 -TGTTATTATTTATT-TTATTA
722829 T
1 T
722830 TTTGATGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
18 13 0.36
19 2 0.06
20 4 0.11
21 10 0.28
22 7 0.19
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TGTTATTATTTATTTTATTA
Found at i:725353 original size:3 final size:3
Alignment explanation
Indices: 725345--725380 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
725335 TATCATTATA
725345 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
725381 CAAATTTTCA
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:728865 original size:23 final size:21
Alignment explanation
Indices: 728830--728886 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
728820 CTGGTAAAAT
728830 AAAAT-TATAATTATTATTGTA
1 AAAATATATAATTATTA-TGTA
728851 AAATATATATAATTA-TATGTA
1 AAA-ATATATAATTATTATGTA
*
728872 AAAATATAAAATTAT
1 AAAATATATAATTAT
728887 ATAACAGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.31
21 10 0.31
22 4 0.12
23 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AAAATATATAATTATTATGTA
Found at i:730147 original size:29 final size:30
Alignment explanation
Indices: 730126--730183 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
730116 TATTATCAGT
730126 AAATTATATTATATTATTTTATTAAAAATA
1 AAATTATATTATATTATTTTATTAAAAATA
*
730156 AAATTAT-TTATATTTATTTT-TAAAAAAT
1 AAATTATATTATA-TTATTTTATTAAAAAT
730184 TTAATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
AAATTATATTATATTATTTTATTAAAAATA
Found at i:731283 original size:32 final size:32
Alignment explanation
Indices: 731207--731283 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
731197 TCTTTTTCTT
* *
731207 TATTTTTA-ATTATTTATTTTAAAATAATTTTA
1 TATTTTTATATT-TTTAATGTAAAATAATTTTA
*
731239 TATTAATT-TATTTTTAATGTAAATATAA-TTTA
1 TATT-TTTATATTTTTAATGTAAA-ATAATTTTA
731271 TATTTTTATATTT
1 TATTTTTATATTT
731284 ACGTTCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
31 2 0.05
32 26 0.70
33 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (32 bp):
TATTTTTATATTTTTAATGTAAAATAATTTTA
Found at i:731762 original size:19 final size:19
Alignment explanation
Indices: 731721--731763 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
731711 ATTATATCAT
*
731721 TAAAAATAAAATAAAATTT
1 TAAAAATAAAATAAAATTA
*
731740 TAAAAATAAAA-ATAATTAA
1 TAAAAATAAAATAAAATT-A
731759 TAAAA
1 TAAAA
731764 TATTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAATAAAATAAAATTA
Found at i:731878 original size:15 final size:17
Alignment explanation
Indices: 731853--731885 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
731843 TCTCCTCTTC
731853 ATAAGAATAAAAT-AAA
1 ATAAGAATAAAATCAAA
731869 ATAA-AATAAAATCAAA
1 ATAAGAATAAAATCAAA
731885 A
1 A
731886 AGATACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
ATAAGAATAAAATCAAA
Found at i:732085 original size:2 final size:2
Alignment explanation
Indices: 732078--732114 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
732068 GGATCAGTGC
732078 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 A
732115 ATGAAAGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:734090 original size:66 final size:66
Alignment explanation
Indices: 733966--734090 Score: 180
Period size: 66 Copynumber: 1.9 Consensus size: 66
733956 TTTTTGAAGG
* *
733966 ATTTATATTTGATATATTGATAATATATATATTTATATACTGTCAGTAAATTAAATAATATCAAT
1 ATTTATATTTGATATATTGATAATATATAAATTTATATACTGTCAGTAAATCAAATAATATCAAT
734031 T
66 T
* * * *
734032 ATTTATA-TTGAATATATTGATAATGTATAAATTTATATACTGTTAGTGAATCAGATAAT
1 ATTTATATTTG-ATATATTGATAATATATAAATTTATATACTGTCAGTAAATCAAATAAT
734091 GTCATTTTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
65 3 0.06
66 49 0.94
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.46
Consensus pattern (66 bp):
ATTTATATTTGATATATTGATAATATATAAATTTATATACTGTCAGTAAATCAAATAATATCAAT
T
Found at i:737811 original size:34 final size:33
Alignment explanation
Indices: 737765--737983 Score: 278
Period size: 34 Copynumber: 6.5 Consensus size: 33
737755 GTAAAAACCA
*
737765 CCATTTAATCAACAATGGCAACTTACCAAATCTC
1 CCATTTAATCAACAATGGAAAC-TACCAAATCTC
* * *
737799 CCATTTAGTCAACAATGGTAAACCACCAAATCAC
1 CCATTTAATCAACAATGG-AAACTACCAAATCTC
*
737833 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGG-AAACTACCAAATCTC
*
737867 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGG-AAACTACCAAATCTC
* * *
737901 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
1 CCATTTAATCAACAATGG-AAACTACCAAATCTC
* *
737935 CCATTTAATCAACAATGGTAAACTACTAAAT-TA
1 CCATTTAATCAACAATGG-AAACTACCAAATCTC
737968 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
737984 TCTCCCACTT
Statistics
Matches: 165, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 16 0.10
34 146 0.88
35 3 0.02
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (33 bp):
CCATTTAATCAACAATGGAAACTACCAAATCTC
Found at i:737879 original size:68 final size:67
Alignment explanation
Indices: 737765--737983 Score: 314
Period size: 68 Copynumber: 3.2 Consensus size: 67
737755 GTAAAAACCA
* *
737765 CCATTTAATCAACAATGGCAACTTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGCAAC-TACCAAATCTCCCATTTAATCAACAATGGTAAACTACCAAAT
737830 CAC
65 CAC
* *
737833 CCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAA-CTACCAAATCTCCCATTTAATCAACAATGGTAAACTACCAAAT
*
737898 CTC
65 CAC
* * * *
737901 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAAAT
1 CCATTTAATCAACAATGGC-AACTACCAAATCTCCCATTTAATCAACAATGGTAAACTACCAAAT
*
737966 TA-
65 CAC
737968 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
737984 TCTCCCACTT
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
67 15 0.11
68 117 0.87
69 3 0.02
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAACTACCAAATCTCCCATTTAATCAACAATGGTAAACTACCAAATC
AC
Found at i:737941 original size:102 final size:101
Alignment explanation
Indices: 737764--737983 Score: 370
Period size: 102 Copynumber: 2.2 Consensus size: 101
737754 GGTAAAAACC
*
737764 ACCATTTAATCAACAATGGCAACTTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAA
1 ACCATTTAATCAACAATGGCAACTTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAAA
*
737829 TCACCCATTTAATCAACAATGGTAAGCTACCAAATCT
66 TCACCCATTTAATCAACAATGGTAAACTACCAAAT-T
* *
737866 CCCATTTAATCAACAATGGTAAGC-TACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
1 ACCATTTAATCAACAATGGCAA-CTTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAA
*
737930 ATCACCCATTTAATCAACAATGGTAAACTACTAAATT
65 ATCACCCATTTAATCAACAATGGTAAACTACCAAATT
737967 ACCATTTAATCAACAAT
1 ACCATTTAATCAACAAT
737984 TCTCCCACTT
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
101 17 0.15
102 93 0.84
103 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (101 bp):
ACCATTTAATCAACAATGGCAACTTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCAAA
TCACCCATTTAATCAACAATGGTAAACTACCAAATT
Found at i:742469 original size:33 final size:33
Alignment explanation
Indices: 742399--742521 Score: 174
Period size: 33 Copynumber: 3.6 Consensus size: 33
742389 GTAAAAACCA
*
742399 CCATTTAATCAACAATGGCAACTTACCAAATCTC
1 CCATTTAATCAACAATGGTAAC-TACCAAATCTC
* * *
742433 CCATTTAGTCAACAATGGTAACCACCAAATCAC
1 CCATTTAATCAACAATGGTAACTACCAAATCTC
*
742466 CCATTTAATCAACAATGGTAGCTACCAAATCCTC
1 CCATTTAATCAACAATGGTAACTACCAAAT-CTC
742500 CCATTTAATACAACAATGGTAA
1 CCATTTAAT-CAACAATGGTAA
742522 GCTTGATGGA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
33 36 0.46
34 31 0.40
35 11 0.14
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (33 bp):
CCATTTAATCAACAATGGTAACTACCAAATCTC
Done.