Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold385
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: 1395621
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 10
Found at i:2611 original size:16 final size:16
Alignment explanation
Indices: 2590--2623 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
2580 GACAAAATTT
2590 TGCAAGACTCAGTGAG
1 TGCAAGACTCAGTGAG
2606 TGCAAGACTCAGTGAG
1 TGCAAGACTCAGTGAG
2622 TG
1 TG
2624 AGTACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (16 bp):
TGCAAGACTCAGTGAG
Found at i:2789 original size:21 final size:23
Alignment explanation
Indices: 2763--2810 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
2753 ATAAATAATT
*
2763 AAAAATTA-AA-TTTAATATATA
1 AAAAATTATAATTTTAATACATA
2784 AAAAATTATTAATTTTAATACATA
1 AAAAATTA-TAATTTTAATACATA
2808 AAA
1 AAA
2811 TAACATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
23 2 0.09
24 13 0.57
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATTATAATTTTAATACATA
Found at i:2795 original size:31 final size:32
Alignment explanation
Indices: 2733--2795 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
2723 GATTAAATTT
*
2733 AAATTAAATAATAATAATAGATAAATAATTAA
1 AAATTAAATAATAATAATAGAAAAATAATTAA
* *
2765 AAATTAAAT-TTAATATATA-AAAAATTATTAA
1 AAATTAAATAATAATA-ATAGAAAAATAATTAA
2796 TTTTAATACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (32 bp):
AAATTAAATAATAATAATAGAAAAATAATTAA
Found at i:4038 original size:15 final size:17
Alignment explanation
Indices: 4020--4051 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4010 TAAAAAAATT
4020 AAATATA-ATC-ATATC
1 AAATATATATCTATATC
4035 AAATATATATCTATATC
1 AAATATATATCTATATC
4052 CGATACTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATATATCTATATC
Found at i:5722 original size:2 final size:2
Alignment explanation
Indices: 5715--5747 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5705 TAAACGAAAG
5715 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
5748 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8401 original size:21 final size:23
Alignment explanation
Indices: 8361--8402 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
8351 TTATATAATC
8361 AATTAGAATTTTATAAATTTAAA
1 AATTAGAATTTTATAAATTTAAA
8384 AATTA-AATTTTA-AAATTTA
1 AATTAGAATTTTATAAATTTA
8403 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATTAGAATTTTATAAATTTAAA
Found at i:8415 original size:22 final size:22
Alignment explanation
Indices: 8390--8435 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
8380 TAAAAATTAA
*
8390 ATTTTAAAATTTAT-ATTTTTTT
1 ATTTT-AAAGTTATGATTTTTTT
*
8412 ATTTTTAAGTTATGATTTTTTT
1 ATTTTAAAGTTATGATTTTTTT
8434 AT
1 AT
8436 ACAAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
ATTTTAAAGTTATGATTTTTTT
Found at i:10902 original size:7 final size:7
Alignment explanation
Indices: 10890--10918 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
10880 TAAGCCTGCC
10890 TTTTCCT
1 TTTTCCT
10897 TTTTCCT
1 TTTTCCT
10904 TTTTCC-
1 TTTTCCT
10910 TTTTCCT
1 TTTTCCT
10917 TT
1 TT
10919 AAAGATCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTCCT
Found at i:10904 original size:13 final size:14
Alignment explanation
Indices: 10890--10918 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10880 TAAGCCTGCC
10890 TTTTCCTTTTTCCT
1 TTTTCCTTTTTCCT
10904 TTTTCC-TTTTCCT
1 TTTTCCTTTTTCCT
10917 TT
1 TT
10919 AAAGATCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCCTTTTTCCT
Found at i:12038 original size:27 final size:27
Alignment explanation
Indices: 12000--12051 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
11990 CTTTAATTTA
*
12000 TAAAAATTTA-TTTTATTTTAAAAAAT
1 TAAAAATTTATTTTTATATTAAAAAAT
12026 TAAAAATTTTATTTTTATATTAAAAA
1 TAAAAA-TTTATTTTTATATTAAAAA
12052 TAAATTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 4 0.17
28 13 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TAAAAATTTATTTTTATATTAAAAAAT
Found at i:12050 original size:26 final size:25
Alignment explanation
Indices: 11999--12055 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
11989 TCTTTAATTT
*
11999 ATAAAAATTTATTTTATTTTAAAAA
1 ATAAAAATTTATTTTATATTAAAAA
12024 ATTAAAAATTTTATTTTTATATT-AAAA
1 A-TAAAAA-TTTA-TTTTATATTAAAAA
12051 ATAAA
1 ATAAA
12056 TTACATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.04
26 10 0.36
27 9 0.32
28 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAAAAATTTATTTTATATTAAAAA
Found at i:12769 original size:45 final size:43
Alignment explanation
Indices: 12691--12775 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 43
12681 TTAAATAATA
12691 AAATAAAATATTAAATTAATATAAATTTAACTCGAATCAAATTT
1 AAATAAAATATTAAA-TAATATAAATTTAACTCGAATCAAATTT
* *
12735 AAATAAATATTTTAAA-AATATTAAATTATAACTCGACTCAA
1 AAATAAA-ATATTAAATAATA-TAAATT-TAACTCGAATCAA
12776 TACATAACCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
43 4 0.11
44 13 0.36
45 19 0.53
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.35
Consensus pattern (43 bp):
AAATAAAATATTAAATAATATAAATTTAACTCGAATCAAATTT
Found at i:13407 original size:20 final size:20
Alignment explanation
Indices: 13373--13413 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13363 AATAACATAT
13373 TAAAGAAATTAAAATATATAA
1 TAAAGAAATTAAAATAT-TAA
*
13394 TAAA-AAATTTAAATATTAA
1 TAAAGAAATTAAAATATTAA
13413 T
1 T
13414 TGCAATGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAGAAATTAAAATATTAA
Found at i:13650 original size:26 final size:26
Alignment explanation
Indices: 13621--13717 Score: 69
Period size: 25 Copynumber: 3.8 Consensus size: 26
13611 TTTAAAAGGT
13621 TTTATAAATAAATATAAATAATTTTA
1 TTTATAAATAAATATAAATAATTTTA
* * * *
13647 TTTATTAATAAATGAT--ATCATATAA
1 TTTATAAATAAAT-ATAAATAATTTTA
*
13672 TTTATCAAT-AATATAAA-AATTTATA
1 TTTATAAATAAATATAAATAATTT-TA
*
13697 TATT-TAAAAAAATATCAAATA
1 T-TTATAAATAAATAT-AAATA
13718 TAGATGTAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
23 2 0.04
24 6 0.11
25 20 0.38
26 19 0.36
27 5 0.09
28 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (26 bp):
TTTATAAATAAATATAAATAATTTTA
Found at i:14642 original size:29 final size:29
Alignment explanation
Indices: 14588--14643 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
14578 GTATTAATAT
* *
14588 AAATATATTTTATTTAAATTTAAATATAA
1 AAATATATATTATATAAATTTAAATATAA
14617 AAATATATATTA-ATAAATTTATAATAT
1 AAATATATATTATATAAATTTA-AATAT
14644 TTTTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
AAATATATATTATATAAATTTAAATATAA
Found at i:16553 original size:15 final size:16
Alignment explanation
Indices: 16533--16563 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16523 TTTTAAAAAA
16533 TTATATA-TTTAATAT
1 TTATATATTTTAATAT
16548 TTATATATTTTAATAT
1 TTATATATTTTAATAT
16564 ATATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATATATTTTAATAT
Found at i:16566 original size:12 final size:12
Alignment explanation
Indices: 16534--16576 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
16524 TTTAAAAAAT
16534 TATATATTTAATA
1 TATATATTTAA-A
*
16547 TTTATATATTTTAA
1 --TATATATTTAAA
16561 TATATATTTAAA
1 TATATATTTAAA
16573 TATA
1 TATA
16577 AATATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 15 0.58
14 1 0.04
15 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATATTTAAA
Found at i:16581 original size:14 final size:14
Alignment explanation
Indices: 16537--16604 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
16527 AAAAAATTAT
* *
16537 ATATTTAATATTTAT
1 ATATTTAA-ATATAA
*
16552 ATATTTTAATAT--
1 ATATTTAAATATAA
16564 ATATTTAAATATAA
1 ATATTTAAATATAA
* *
16578 ATATATAATTATAA
1 ATATTTAAATATAA
* *
16592 TTTTTTAAATATA
1 ATATTTAAATATA
16605 TAAATAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
12 11 0.26
14 24 0.57
15 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTAAATATAA
Found at i:16603 original size:22 final size:21
Alignment explanation
Indices: 16575--16615 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
16565 TATTTAAATA
*
16575 TAAATATATAATTATAATTTTT
1 TAAATATATAAATA-AATTTTT
16597 TAAATATATAAATAAATTT
1 TAAATATATAAATAAATTT
16616 ATACAGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAATATATAAATAAATTTTT
Found at i:16916 original size:19 final size:22
Alignment explanation
Indices: 16892--16937 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
16882 TAATTGATAA
16892 TAAATA-AAAA-AAT-ATAATT
1 TAAATATAAAACAATAATAATT
16911 TAAATATAAAATCAATAATAATT
1 TAAATATAAAA-CAATAATAATT
16934 TAAA
1 TAAA
16938 ATTTAACCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.26
20 4 0.17
22 3 0.13
23 10 0.43
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATATAAAACAATAATAATT
Found at i:18430 original size:14 final size:15
Alignment explanation
Indices: 18413--18452 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
18403 TAATAATATA
18413 AAAATATTTTAAAT-
1 AAAATATTTTAAATG
18427 AAAATATATTTAAATG
1 AAAATAT-TTTAAATG
*
18443 TAAATATTTT
1 AAAATATTTT
18453 TATACAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 7 0.30
15 10 0.43
16 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
AAAATATTTTAAATG
Found at i:18435 original size:16 final size:16
Alignment explanation
Indices: 18410--18454 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
18400 ATATAATAAT
18410 ATAAAA-ATATTTTAA
1 ATAAAATATATTTTAA
18425 ATAAAATATA-TTTAA
1 ATAAAATATATTTTAA
*
18440 ATGTAAATAT-TTTTA
1 AT-AAAATATATTTTA
18455 TACAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATAAAATATATTTTAA
Found at i:18471 original size:30 final size:30
Alignment explanation
Indices: 18414--18471 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
18404 AATAATATAA
* *
18414 AAATATTTTAAATAAAATATATTTAAATGT
1 AAATATTTTAAACAAAATATATATAAATGT
*
18444 AAATATTTTTATACAAAAT-TATATAAAT
1 AAATA-TTTTAAACAAAATATATATAAAT
18472 AAATATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (30 bp):
AAATATTTTAAACAAAATATATATAAATGT
Found at i:25322 original size:21 final size:21
Alignment explanation
Indices: 25298--25340 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
25288 TAAATATTTT
25298 TATTTAAAT-TTAATTATAAAA
1 TATTTAAATATTAA-TATAAAA
25319 TATTTAAATATTAATATAAAA
1 TATTTAAATATTAATATAAAA
25340 T
1 T
25341 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTTAAATATTAATATAAAA
Found at i:25821 original size:11 final size:11
Alignment explanation
Indices: 25762--25833 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
25752 ATTTATAATT
25762 ATATAATATAA
1 ATATAATATAA
* *
25773 ATAAAATAT-G
1 ATATAATATAA
*
25783 ATATGATAATAA
1 ATATAAT-ATAA
25795 ATATATATATATA
1 ATATA-ATATA-A
*
25808 ATATAATTTAA
1 ATATAATATAA
*
25819 ATATAATAAAA
1 ATATAATATAA
25830 ATAT
1 ATAT
25834 TGTATTCAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
10 5 0.10
11 24 0.50
12 11 0.23
13 8 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (11 bp):
ATATAATATAA
Found at i:26642 original size:17 final size:17
Alignment explanation
Indices: 26620--26652 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
26610 ATCATTTAAA
26620 TATAATTTTATTTATAG
1 TATAATTTTATTTATAG
26637 TATAATTTTATTTATA
1 TATAATTTTATTTATA
26653 AAATATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATAATTTTATTTATAG
Found at i:26777 original size:18 final size:18
Alignment explanation
Indices: 26754--26859 Score: 60
Period size: 18 Copynumber: 5.7 Consensus size: 18
26744 ATTAAAGTTT
*
26754 TATTTATA-ATATATTATA
1 TATTTATATTTATA-TATA
*
26772 TATTTATATTTATATTTA
1 TATTTATATTTATATATA
* *
26790 TATTTTTTGTTTATATAT-
1 TA-TTTATATTTATATATA
*
26808 TATTTAT-TTTATTTATAGTG
1 TATTTATATTTA--TATA-TA
26828 TAATTT-TATTTATA-ATA
1 T-ATTTATATTTATATATA
26845 TATTTTATATATTAT
1 TA-TTTATAT-TTAT
26860 GTTAAAATTA
Statistics
Matches: 70, Mismatches: 7, Indels: 21
0.71 0.07 0.21
Matches are distributed among these distances:
16 5 0.07
17 9 0.13
18 23 0.33
19 23 0.33
20 2 0.03
21 8 0.11
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTTATATTTATATATA
Found at i:26792 original size:20 final size:20
Alignment explanation
Indices: 26754--26824 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
26744 ATTAAAGTTT
*
26754 TATTTATA-ATATA-TTATA
1 TATTTATATTTATATTTATA
26772 TATTTATATTTATATTTATA
1 TATTTATATTTATATTTATA
* * *
26792 T-TTTTTGTTTATATATTATT
1 TATTTATATTTATAT-TTATA
26812 TATTT-TATTTATA
1 TATTTATATTTATA
26825 GTGTAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 8 0.18
19 15 0.34
20 18 0.41
21 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (20 bp):
TATTTATATTTATATTTATA
Found at i:26846 original size:40 final size:41
Alignment explanation
Indices: 26751--26859 Score: 127
Period size: 40 Copynumber: 2.7 Consensus size: 41
26741 GTCATTAAAG
*
26751 TTTTATTTATAATATATTATATATTTATATTTATATTTATA
1 TTTTATTTATAATATATTATATATTTATATTTATATGTATA
* *
26792 TTTT-TTGT-TTATATATTATTTATTT-TATTTATAGTGTA-A
1 TTTTATT-TATAATATATTATATATTTATATTTATA-TGTATA
*
26831 TTTTATTTATAATATATTTTATATATTAT
1 TTTTATTTATAATATATTATATAT-TTAT
26860 GTTAAAATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
39 14 0.25
40 34 0.61
41 7 0.12
42 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (41 bp):
TTTTATTTATAATATATTATATATTTATATTTATATGTATA
Found at i:27260 original size:15 final size:15
Alignment explanation
Indices: 27226--27269 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27216 AGTAATTATC
*
27226 TTAAATTGATTTTAAA
1 TTAAATT-AATTTAAA
*
27242 TTAAATTAATTTGAA
1 TTAAATTAATTTAAA
*
27257 TTAAATTATTTTA
1 TTAAATTAATTTA
27270 TATTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (15 bp):
TTAAATTAATTTAAA
Found at i:27343 original size:16 final size:16
Alignment explanation
Indices: 27324--27375 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
27314 TAATTTAAAT
*
27324 TTTAGATTATTTTGAG
1 TTTAGATTATTTTAAG
*
27340 TTTA-AGTTATTTTAAT
1 TTTAGA-TTATTTTAAG
* *
27356 TTTAGATCATTTTAAA
1 TTTAGATTATTTTAAG
27372 TTTA
1 TTTA
27376 TATAATTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (16 bp):
TTTAGATTATTTTAAG
Found at i:27433 original size:21 final size:21
Alignment explanation
Indices: 27412--27468 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
27402 ATTAATTTTA
27412 AATT-ATTTTAAATTTTAATT
1 AATTAATTTTAAATTTTAATT
* *
27432 AATTAAATTT-AATACTTAATTT
1 AATTAATTTTAAAT-TTTAA-TT
27454 AATTAATTTTAAATT
1 AATTAATTTTAAATT
27469 ATTTAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 7 0.24
21 8 0.28
22 11 0.38
23 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTAATTTTAAATTTTAATT
Found at i:27998 original size:67 final size:67
Alignment explanation
Indices: 27885--28080 Score: 290
Period size: 67 Copynumber: 2.9 Consensus size: 67
27875 CATGGCAAAT
*
27885 TTTTTTTAATT-AAAATTTTCAAATAGGG-ATTTGTATTTAGACAAATTCTTACTAATTTTTTTC
1 TTTTTTTAATTAAAAATTTTCAAAT-GGGAATTTATATTTAGACAAATTCTTACTAATTTTTTTC
27948 TAA
65 TAA
* * *
27951 TTTTTTTAATTAAAAATTTTCAAATGGGAATTTATATTCAGAAAAATTCTTTCTAATTTTTTTTC
1 TTTTTTTAATTAAAAATTTTCAAATGGGAATTTATATTTAGACAAATTCTTACTAA-TTTTTTTC
28016 TAA
65 TAA
* **
28019 -TTTTTTAATTAAAAAATTTCAAATGGGAATTTATATTTAGACAAATTCTTACTTTTTTTTTT
1 TTTTTTTAATTAAAAATTTTCAAATGGGAATTTATATTTAGACAAATTCTTACTAATTTTTTT
28081 TTTCTAACTT
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
66 21 0.18
67 85 0.73
68 11 0.09
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (67 bp):
TTTTTTTAATTAAAAATTTTCAAATGGGAATTTATATTTAGACAAATTCTTACTAATTTTTTTCT
AA
Found at i:28024 original size:11 final size:12
Alignment explanation
Indices: 28000--28024 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27990 AGAAAAATTC
28000 TTTCTAATTTTT
1 TTTCTAATTTTT
28012 TTTCTAATTTTT
1 TTTCTAATTTTT
28024 T
1 T
28025 AATTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTAATTTTT
Found at i:28976 original size:34 final size:33
Alignment explanation
Indices: 28910--28978 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
28900 CAATTAATTC
*
28910 AAAAATTCATAGTAATGCTTAAATTAATATTAA
1 AAAAATTCATAGTAATACTTAAATTAATATTAA
* *
28943 AAAAATGTCATATTAATATTTATAATTAA-ATTAA
1 AAAAAT-TCATAGTAATACTTA-AATTAATATTAA
28977 AA
1 AA
28979 TAAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 6 0.19
34 19 0.61
35 6 0.19
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (33 bp):
AAAAATTCATAGTAATACTTAAATTAATATTAA
Found at i:29775 original size:2 final size:2
Alignment explanation
Indices: 29768--29793 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
29758 ATGATGAAAC
29768 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
29794 GAATTTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29842 original size:2 final size:2
Alignment explanation
Indices: 29835--29897 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
29825 ATTTCATTTC
* *
29835 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
29877 TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
29898 GTGTGTGTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31320 original size:14 final size:14
Alignment explanation
Indices: 31303--31342 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
31293 ATAATAAAAA
31303 ATATATTTTAAATT
1 ATATATTTTAAATT
31317 ATATATTATTAAATT
1 ATATATT-TTAAATT
31332 -TATTATTTTAA
1 ATA-TATTTTAA
31343 TTTTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATATTTTAAATT
Found at i:32907 original size:22 final size:21
Alignment explanation
Indices: 32869--32910 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
32859 TTATTATTAA
32869 AATTATTTATAGATTAAATTG
1 AATTATTTATAGATTAAATTG
32890 AATTATATTATA-ATTTAAATT
1 AATTAT-TTATAGA-TTAAATT
32911 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTATTTATAGATTAAATTG
Found at i:33025 original size:46 final size:40
Alignment explanation
Indices: 32930--33007 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
32920 AATTTTATTC
*
32930 AAATTTAAATTAATTTATAAATTTATTTTATTATATTAAA
1 AAATTTAAATTAATTTATAAATTAATTTTATTATATTAAA
*
32970 AAAATTAAATTATTATTT-TAAATTAATATTTA-TATATT
1 AAATTTAAATTA--ATTTATAAATTAAT-TTTATTATATT
33008 TTATAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 11 0.33
41 14 0.42
42 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (40 bp):
AAATTTAAATTAATTTATAAATTAATTTTATTATATTAAA
Found at i:33496 original size:2 final size:2
Alignment explanation
Indices: 33489--33540 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
33479 CTACTTGCTC
33489 TA TA TA 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 TA TA TA
33531 TA TA TA TA TA
1 TA TA TA TA TA
33541 GTTTATCATC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34074 original size:21 final size:21
Alignment explanation
Indices: 34050--34092 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34040 TAATTTTATA
*
34050 ATTAAATTTTAATATAAAAAT
1 ATTAAATATTAATATAAAAAT
*
34071 ATTAACTATTAATATAAAAAT
1 ATTAAATATTAATATAAAAAT
34092 A
1 A
34093 AAGTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTAAATATTAATATAAAAAT
Found at i:34561 original size:2 final size:2
Alignment explanation
Indices: 34554--34596 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
34544 ATACATACAA
*
34554 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34595 AT
1 AT
34597 GAAAATGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:35359 original size:19 final size:21
Alignment explanation
Indices: 35337--35384 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
35327 AAAAATTAAA
35337 ATATTAAAA-AATATTT-TTT
1 ATATTAAAATAATATTTATTT
*
35356 ATATTAATAATTATATTTATTT
1 ATATTAA-AATAATATTTATTT
35378 A-ATTAAA
1 ATATTAAA
35385 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.28
20 3 0.12
21 11 0.44
22 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTAAAATAATATTTATTT
Found at i:35387 original size:26 final size:25
Alignment explanation
Indices: 35358--35456 Score: 78
Period size: 26 Copynumber: 3.8 Consensus size: 25
35348 TATTTTTTAT
*
35358 ATTAATAATTATATTTATTTAATTAA
1 ATTAATAA-AATATTTATTTAATTAA
*
35384 ATTAAATAAAAATATTT-TTATTATTAA
1 ATT-AAT-AAAATATTTATT-TAATTAA
*
35411 A-TAATAATAA-ATTAATTTAATTTAA
1 ATTAATAA-AATATTTATTTAA-TTAA
* *
35436 ATTTATAAAATTTTTATTTAA
1 ATTAATAAAATATTTATTTAA
35457 AAATCAATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
24 7 0.12
25 14 0.24
26 19 0.33
27 16 0.28
28 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTAATAAAATATTTATTTAATTAA
Found at i:35398 original size:27 final size:26
Alignment explanation
Indices: 35358--35456 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
35348 TATTTTTTAT
**
35358 ATTAATAATTATATTTATTTAATTAA
1 ATTAATAAAAATATTTATTTAATTAA
*
35384 ATTAAATAAAAATATTT-TTATTATTAA
1 ATT-AATAAAAATATTTATT-TAATTAA
* *
35411 A-TAATAATAA-ATTAATTTAATTTAA
1 ATTAATAAAAATATTTATTTAA-TTAA
* *
35436 ATTTAT-AAAATTTTTATTTAA
1 ATTAATAAAAATATTTATTTAA
35457 AAATCAATTA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
24 5 0.09
25 17 0.30
26 17 0.30
27 18 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTAATAAAAATATTTATTTAATTAA
Found at i:38229 original size:24 final size:25
Alignment explanation
Indices: 38192--38238 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
38182 CAAAATATTA
38192 TATATTTATATAAATTTTAATAATT
1 TATATTTATATAAATTTTAATAATT
*
38217 TATA-TTATATAAATTTTCATAA
1 TATATTTATATAAATTTTAATAA
38239 AATCATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TATATTTATATAAATTTTAATAATT
Found at i:40632 original size:18 final size:18
Alignment explanation
Indices: 40609--40644 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
40599 AAATCTAAAC
40609 TTCAAATCCAACCAAGAA
1 TTCAAATCCAACCAAGAA
40627 TTCAAATCCAACCAAGAA
1 TTCAAATCCAACCAAGAA
40645 ACAATCTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.17
Consensus pattern (18 bp):
TTCAAATCCAACCAAGAA
Found at i:41271 original size:17 final size:17
Alignment explanation
Indices: 41249--41285 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
41239 CTCTCAAAAC
41249 TTTTCCCTTTCTTTTCT
1 TTTTCCCTTTCTTTTCT
*
41266 TTTTCCCTTTCTTTTGT
1 TTTTCCCTTTCTTTTCT
41283 TTT
1 TTT
41286 GTTTCGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTCCCTTTCTTTTCT
Found at i:41625 original size:12 final size:11
Alignment explanation
Indices: 41568--41625 Score: 55
Period size: 12 Copynumber: 5.1 Consensus size: 11
41558 ATAAAATATT
41568 TTTATATTAATA
1 TTTATATTAA-A
*
41580 TTTATA-TAAT
1 TTTATATTAAA
*
41590 TTTATAAATAAA
1 TTTAT-ATTAAA
*
41602 TTTATATAAAA
1 TTTATATTAAA
41613 TTTATTATTAAA
1 TTTA-TATTAAA
41625 T
1 T
41626 AATTATTCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 5 0.13
11 12 0.32
12 21 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTATATTAAA
Found at i:41869 original size:34 final size:35
Alignment explanation
Indices: 41800--41875 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
41790 TATATAATTA
* *
41800 TATAATTTATATCATATAAAAAATATTTATAATAT
1 TATAATTTAAATCATATAAAAAATATTAATAATAT
*
41835 TATAATTTAAAT-AT-TAAAAAATTATTAATCATAT
1 TATAATTTAAATCATATAAAAAA-TATTAATAATAT
*
41869 TAAAATT
1 TATAATT
41876 AAAAAAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 7 0.19
34 18 0.50
35 11 0.31
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (35 bp):
TATAATTTAAATCATATAAAAAATATTAATAATAT
Found at i:41878 original size:33 final size:33
Alignment explanation
Indices: 41816--41878 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
41806 TTATATCATA
* *
41816 TAAAAAATATTTATAATATTATAATTTAAATAT
1 TAAAAAATATTAATAATATTATAAATTAAATAT
*
41849 TAAAAAATTATTAATCATATTA-AAATTAAA
1 TAAAAAA-TATTAATAATATTATAAATTAAA
41879 AAAGTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 14 0.54
34 12 0.46
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (33 bp):
TAAAAAATATTAATAATATTATAAATTAAATAT
Found at i:41940 original size:20 final size:19
Alignment explanation
Indices: 41911--41957 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
41901 TTATAATTAT
41911 TTTAAATATTATAAATAAA
1 TTTAAATATTATAAATAAA
*
41930 TTTAAACTATTATAAATATA
1 TTTAAA-TATTATAAATAAA
41950 TTTAAATA
1 TTTAAATA
41958 AAAACTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAAATATTATAAATAAA
Found at i:41947 original size:29 final size:31
Alignment explanation
Indices: 41897--41959 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
41887 TTACTAAAAA
* *
41897 AAATTTATAATTATTTTAAATAT-TATAAAT
1 AAATTTATAACTATTATAAATATATATAAAT
*
41927 AAATTTA-AACTATTATAAATATATTTAAAT
1 AAATTTATAACTATTATAAATATATATAAAT
41957 AAA
1 AAA
41960 AACTTAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
AAATTTATAACTATTATAAATATATATAAAT
Found at i:42058 original size:15 final size:14
Alignment explanation
Indices: 42024--42058 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
42014 ACTCAATCTT
42024 TTTTAAAAATTATA
1 TTTTAAAAATTATA
42038 TATTTAATAAATTATA
1 T-TTTAA-AAATTATA
42054 TTTTA
1 TTTTA
42059 TATTCATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 9 0.47
16 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTAAAAATTATA
Found at i:45742 original size:18 final size:18
Alignment explanation
Indices: 45721--45771 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
45711 ATGTATATGA
45721 TAAATATAAATAAATTAT
1 TAAATATAAATAAATTAT
*
45739 TAAATCATAAA-AATTTAT
1 TAAAT-ATAAATAAATTAT
* *
45757 AAAAT-TAAATTAATT
1 TAAATATAAATAAATT
45772 TTATAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 4 0.15
17 3 0.11
18 15 0.56
19 5 0.19
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATATAAATAAATTAT
Found at i:53648 original size:11 final size:11
Alignment explanation
Indices: 53632--53680 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
53622 TTTTTTATCA
53632 AATTATATTTT
1 AATTATATTTT
*
53643 AATTATTTTTT
1 AATTATATTTT
53654 ATATTATA-TTT
1 A-ATTATATTTT
*
53665 ATATTATATTTG
1 A-ATTATATTTT
53677 AATT
1 AATT
53681 CATCATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 25 0.76
12 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
AATTATATTTT
Found at i:53773 original size:74 final size:73
Alignment explanation
Indices: 53662--53807 Score: 197
Period size: 74 Copynumber: 2.0 Consensus size: 73
53652 TTATATTATA
* * *
53662 TTTATATTATATTTGAATTCATCATAATTTTATATAATTTATTATTA-AAATTTAATTT-AAAAA
1 TTTATATTATATCTCAATTCATCATAATTTTACATAATTTATT-TTATAAATTTAATTTAAAAAA
53725 ATTTATATG
65 ATTTATATG
* * *
53734 TTTATACTTATATCTCAATTTATGATATATTTTACATAATTTATTTTATTAATTTAATTTAAAAA
1 TTTATA-TTATATCTCAATTCATCATA-ATTTTACATAATTTATTTTATAAATTTAATTTAAAAA
53799 AATTTATAT
64 AATTTATAT
53808 TCGTGTTTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
72 6 0.09
73 19 0.30
74 26 0.41
75 13 0.20
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (73 bp):
TTTATATTATATCTCAATTCATCATAATTTTACATAATTTATTTTATAAATTTAATTTAAAAAAA
TTTATATG
Found at i:55461 original size:25 final size:24
Alignment explanation
Indices: 55433--55482 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
55423 TAATATTTAA
55433 TAATTAAAAATAAT-TTATTTAAATT
1 TAATTAAAAA-AATATT-TTTAAATT
*
55458 TAATTATAAAAATATTTTTAAATT
1 TAATTAAAAAAATATTTTTAAATT
55482 T
1 T
55483 TTTATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATTAAAAAAATATTTTTAAATT
Found at i:56346 original size:19 final size:19
Alignment explanation
Indices: 56324--56373 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
56314 TATTTTAATA
56324 ATTAATTATAAATAA-AAAT
1 ATTAATT-TAAATAATAAAT
* *
56343 ATTATTTTAATTAATAAAT
1 ATTAATTTAAATAATAAAT
*
56362 AATAATTTAAAT
1 ATTAATTTAAAT
56374 TAAATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAATTTAAATAATAAAT
Found at i:56352 original size:31 final size:32
Alignment explanation
Indices: 56283--56368 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 32
56273 TGATTTAAAT
56283 TATTA-TTTAA-AATATAATAAAAATTAAAAA
1 TATTATTTTAATAATATAATAAAAATTAAAAA
*
56313 -A-TATTTTAATAAT-TAATTATAAA-TAAAAA
1 TATTATTTTAATAATATAA-TAAAAATTAAAAA
*
56342 TATTATTTTAATTAATA-AATAATAATT
1 TATTATTTTAA-TAATATAATAAAAATT
56369 TAAATTAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
28 2 0.04
29 15 0.33
30 9 0.20
31 12 0.27
32 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (32 bp):
TATTATTTTAATAATATAATAAAAATTAAAAA
Found at i:56365 original size:28 final size:28
Alignment explanation
Indices: 56283--56366 Score: 68
Period size: 28 Copynumber: 2.9 Consensus size: 28
56273 TGATTTAAAT
*
56283 TATTATTTAAAATATAATAAA-AATTAAAAA
1 TATTATTT-TAAT-TAATAAATAA-TAAAAA
56313 -A-TATTTTAA-TAATTAATTATAAATAAAAA
1 TATTATTTTAATTAA-TAA--AT-AATAAAAA
56342 TATTATTTTAATTAATAAATAATAA
1 TATTATTTTAATTAATAAATAATAA
56367 TTTAAATTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 18
0.70 0.02 0.28
Matches are distributed among these distances:
25 3 0.07
26 3 0.07
27 2 0.04
28 11 0.24
29 9 0.20
30 3 0.07
31 11 0.24
32 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TATTATTTTAATTAATAAATAATAAAAA
Found at i:56374 original size:20 final size:19
Alignment explanation
Indices: 56320--56377 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
56310 AAAATATTTT
56320 AATAATTAATTATAAA-TAAA
1 AATAA-TAATT-TAAATTAAA
* *
56340 AAT-ATTATTTTAATTAATA
1 AATAATAATTTAAATTAA-A
56359 AATAATAATTTAAATTAAA
1 AATAATAATTTAAATTAAA
56378 TTAAATCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 3 0.10
18 7 0.23
19 6 0.19
20 15 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATAATAATTTAAATTAAA
Found at i:56376 original size:24 final size:25
Alignment explanation
Indices: 56323--56381 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
56313 ATATTTTAAT
56323 AATTAATT-ATAAATAAAAATATTA
1 AATTAATTAATAAATAAAAATATTA
** *
56347 TTTTAATTAATAAATAATAAT-TTA
1 AATTAATTAATAAATAAAAATATTA
56371 AATTAAATTAA
1 AATT-AATTAA
56382 ATCATAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTAATTAATAAATAAAAATATTA
Found at i:57722 original size:2 final size:2
Alignment explanation
Indices: 57715--57740 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57705 CACCTTCTTT
57715 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
57741 ATTAAGATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58007 original size:2 final size:2
Alignment explanation
Indices: 58000--58031 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57990 TGTTGTTTTC
58000 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
58032 CCCTGAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58477 original size:3 final size:3
Alignment explanation
Indices: 58469--58511 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
58459 AATTAAACAA
58469 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
58512 GAAGCAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:60005 original size:13 final size:12
Alignment explanation
Indices: 59970--60010 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
59960 AGTTTAATCG
59970 TATTA-AAATAT
1 TATTATAAATAT
*
59981 TA-TATCAATAT
1 TATTATAAATAT
59992 TAATTATAAATAT
1 T-ATTATAAATAT
60005 TATTAT
1 TATTAT
60011 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
10 2 0.08
11 8 0.32
12 6 0.24
13 9 0.36
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
TATTATAAATAT
Found at i:60531 original size:11 final size:11
Alignment explanation
Indices: 60517--60554 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
60507 GTAAAATTTT
*
60517 TATATTTAATA
1 TATATATAATA
*
60528 TATAAATAATA
1 TATATATAATA
60539 TATA-ATAATA
1 TATATATAATA
60549 TATATA
1 TATATA
60555 AAAATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TATATATAATA
Found at i:60547 original size:10 final size:10
Alignment explanation
Indices: 60523--60552 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
60513 TTTTTATATT
60523 TAATATATAAA
1 TAATATAT-AA
60534 TAATATATAA
1 TAATATATAA
60544 TAATATATA
1 TAATATATA
60553 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAATATATAA
Found at i:61848 original size:2 final size:2
Alignment explanation
Indices: 61841--61871 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
61831 TTCTTCTCTT
*
61841 TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
61872 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (2 bp):
TG
Found at i:62625 original size:35 final size:35
Alignment explanation
Indices: 62586--62744 Score: 120
Period size: 35 Copynumber: 4.7 Consensus size: 35
62576 TAATTAAATT
62586 TTATATTTATATTAAATAATAATATATAAATAAAA
1 TTATATTTATATTAAATAATAATATATAAATAAAA
* * * * *
62621 TTATATTTGTTGTTGGATAATAATTAA-AAATTATTAAAA
1 TTATATTT-ATATT--A-AATAA-TAATATATAAATAAAA
*
62660 TTATATTTATA-T-GA-AA-AAT-TAT---TAAAA
1 TTATATTTATATTAAATAATAATATATAAATAAAA
* *
62687 TTATAATTATATTAAATAATAAAATATAAATAAAA
1 TTATATTTATATTAAATAATAATATATAAATAAAA
* *
62722 TTATATTTATGTTAAGTAATAAT
1 TTATATTTATATTAAATAATAAT
62745 TAAAAGTTAT
Statistics
Matches: 94, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
27 15 0.16
28 1 0.01
29 1 0.01
30 6 0.06
31 2 0.02
32 5 0.05
33 1 0.01
35 32 0.34
36 3 0.03
37 1 0.01
38 2 0.02
39 22 0.23
40 3 0.03
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (35 bp):
TTATATTTATATTAAATAATAATATATAAATAAAA
Found at i:62680 original size:27 final size:27
Alignment explanation
Indices: 62646--62698 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
62636 GATAATAATT
*
62646 AAAAATTATTAAAATTATATTTATATG
1 AAAAATTATTAAAATTATAATTATATG
62673 AAAAATTATTAAAATTATAATTATAT
1 AAAAATTATTAAAATTATAATTATAT
62699 TAAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
AAAAATTATTAAAATTATAATTATATG
Found at i:62754 original size:29 final size:26
Alignment explanation
Indices: 62685--62880 Score: 98
Period size: 29 Copynumber: 7.1 Consensus size: 26
62675 AAATTATTAA
* * *
62685 AATTATAATTATATTAAATAATAAAATAT
1 AATTAAAATTATATT-TAT-ATTAAA-AT
* *
62714 AAATAAAATTATATTTATGTTAAGTAAT
1 AATTAAAATTATATTTATATTAA--AAT
62742 AATTAAAAGTTATATTTATATTAAAAT
1 AATTAAAA-TTATATTTATATTAAAAT
* * * *
62769 AATTATTTAAGTTATAGTAATAATAAAATAT
1 AATTA---AAATTATATTTAT-ATTAAA-AT
*
62800 AAATTTAAAA-TATATTTTATGTTAAATAT
1 -AA-TTAAAATTATA-TTTATATTAAA-AT
62829 AATTAAAAATTATA-TT-TATTAAAAT
1 AATT-AAAATTATATTTATATTAAAAT
*
62854 AA--AAAA-TATATTTATGTTCAAAAT
1 AATTAAAATTATATTTATATT-AAAAT
62878 AAT
1 AAT
62881 ATTTATATTA
Statistics
Matches: 132, Mismatches: 18, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
21 4 0.03
22 6 0.05
23 3 0.02
24 7 0.05
25 4 0.03
26 6 0.05
27 15 0.11
28 17 0.13
29 51 0.39
30 12 0.09
31 2 0.02
32 2 0.02
33 3 0.02
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.43
Consensus pattern (26 bp):
AATTAAAATTATATTTATATTAAAAT
Found at i:62806 original size:47 final size:46
Alignment explanation
Indices: 62717--62806 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 46
62707 AAAATATAAA
* * *
62717 TAAAATTATATTTATGTTAAGTAATAATTAAAAGTTATATTTATAT
1 TAAAATAATATTTAAGTTAAGTAATAATTAAAAGTTAAATTTATAT
62763 TAAAATAATTATTTAAGTTATAGTAATAA-TAAAA-TATAAATTTA
1 TAAAATAA-TATTTAAGTTA-AGTAATAATTAAAAGT-TAAATTTA
62807 AAATATATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
46 8 0.21
47 22 0.58
48 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (46 bp):
TAAAATAATATTTAAGTTAAGTAATAATTAAAAGTTAAATTTATAT
Found at i:62881 original size:27 final size:26
Alignment explanation
Indices: 62806--62881 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 26
62796 ATATAAATTT
62806 AAAATATATTTTATGTTAAATATAATTAA
1 AAAATATA-TTTATGTTAAA-ATAA-TAA
*
62835 AAATTATATTTA--TT--AA-AATAA
1 AAAATATATTTATGTTAAAATAATAA
62856 AAAATATATTTATGTTCAAAATAATA
1 AAAATATATTTATGTT-AAAATAATA
62882 TTTATATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
21 14 0.36
22 2 0.05
23 3 0.08
24 1 0.03
26 4 0.10
27 4 0.10
28 4 0.10
29 7 0.18
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (26 bp):
AAAATATATTTATGTTAAAATAATAA
Found at i:62883 original size:39 final size:42
Alignment explanation
Indices: 62834--62913 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 42
62824 AATATAATTA
* *
62834 AAAATTATATTTAT-TAAAATAA-AAAA-TATATTTATGTTC
1 AAAATAATATTTATATAAAATAATAAAATTATATTGATGTTC
*
62873 AAAATAATATTTATATTAAATAATTAAAATTATATTGATGT
1 AAAATAATATTTATATAAAATAA-TAAAATTATATTGATGT
62914 CTAAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 13 0.38
40 7 0.21
42 4 0.12
43 10 0.29
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (42 bp):
AAAATAATATTTATATAAAATAATAAAATTATATTGATGTTC
Found at i:62924 original size:45 final size:39
Alignment explanation
Indices: 62831--62920 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 39
62821 TTAAATATAA
* *
62831 TTAAAAATTATATTTATTAAAATAAAAAATATATTTATG
1 TTAAAAATAATATTTATTAAAATAAAAAATATATTGATG
* *
62870 TTCAAAATAATATTTATATTAAATAATTAAAATTATATTGATG
1 TTAAAAATAATATTTAT-TAAAATAA--AAAA-TATATTGATG
62913 TCTAAAAA
1 T-TAAAAA
62921 ATAAATTAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 15 0.37
40 7 0.17
42 4 0.10
43 10 0.24
44 5 0.12
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.42
Consensus pattern (39 bp):
TTAAAAATAATATTTATTAAAATAAAAAATATATTGATG
Found at i:67178 original size:15 final size:16
Alignment explanation
Indices: 67155--67200 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
67145 TATGAAGTTT
67155 GAAA-AAAA-AAATGAA
1 GAAATAAAATAAA-GAA
67170 GAAATAAAATAAAGAA
1 GAAATAAAATAAAGAA
67186 -AAATAAAAT-AAGAA
1 GAAATAAAATAAAGAA
67200 G
1 G
67201 CTTTTTCTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.18
15 13 0.46
16 7 0.25
17 3 0.11
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (16 bp):
GAAATAAAATAAAGAA
Found at i:68988 original size:22 final size:22
Alignment explanation
Indices: 68963--69014 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
68953 TAGTATTAAA
* *
68963 ATATTATTTTATATTAATATTT
1 ATATTATTTTATAATAAAATTT
68985 ATA-TATTTTTATAATAAAATTT
1 ATATTA-TTTTATAATAAAATTT
*
69007 TTATTATT
1 ATATTATT
69015 AAAAAATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATATTATTTTATAATAAAATTT
Found at i:69824 original size:4 final size:4
Alignment explanation
Indices: 69815--69840 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
69805 AATCATTGCC
69815 GTCT GTCT GTCT GTCT GTCT GTCT GT
1 GTCT GTCT GTCT GTCT GTCT GTCT GT
69841 GCATTAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.27, T:0.50
Consensus pattern (4 bp):
GTCT
Found at i:70084 original size:20 final size:19
Alignment explanation
Indices: 70061--70147 Score: 52
Period size: 23 Copynumber: 4.2 Consensus size: 19
70051 AAATTAATTT
70061 AAATTATTATATAATGATAA
1 AAATTATTATATAAT-ATAA
*
70081 AAATAATATATATTTAATTATAA
1 AAAT--TAT-TATATAA-TATAA
70104 AAA-TA-TATATTAATATAA
1 AAATTATTATA-TAATATAA
* *
70122 AATAATATTTTAATAATATAA
1 AA-ATTATTAT-ATAATATAA
70143 TAAAT
1 -AAAT
70148 AATAAAATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
18 10 0.19
19 4 0.08
20 8 0.15
21 11 0.21
22 6 0.11
23 13 0.25
24 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (19 bp):
AAATTATTATATAATATAA
Found at i:70111 original size:18 final size:18
Alignment explanation
Indices: 70085--70136 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
70075 TGATAAAAAT
70085 AATATATATTTAATTATAAA
1 AATATATA-TTAA-TATAAA
70105 AATATATATTAATAT-AA
1 AATATATATTAATATAAA
*
70122 AATAATATTTTAATA
1 AAT-ATATATTAATA
70137 ATATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 5 0.17
18 13 0.43
19 4 0.13
20 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATATATTAATATAAA
Found at i:70148 original size:20 final size:20
Alignment explanation
Indices: 70082--70148 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
70072 TAATGATAAA
70082 AATAATATATATTTAAT-TAT
1 AATAA-ATATATTTAATATAT
*
70102 AA-AAATATATATTAATATAA
1 AATAAATATAT-TTAATATAT
70122 AAT-AATAT-TTTAATAATAT
1 AATAAATATATTTAAT-ATAT
70141 AATAAATA
1 AATAAATA
70149 ATAAAATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 11 0.28
19 14 0.35
20 15 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATAAATATATTTAATATAT
Found at i:70153 original size:31 final size:31
Alignment explanation
Indices: 70096--70165 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
70086 ATATATATTT
* * *
70096 AATTATAAAAATATATATTAATATAAAA-TA
1 AATTTTAATAATATATATAAATATAAAATTA
70126 ATATTTTAATAATATA-ATAAATAATAAAATTA
1 A-ATTTTAATAATATATATAAAT-ATAAAATTA
70158 AATTTTAA
1 AATTTTAA
70166 ATTAATTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 6 0.18
31 25 0.74
32 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
AATTTTAATAATATATATAAATATAAAATTA
Found at i:72085 original size:147 final size:153
Alignment explanation
Indices: 71804--72110 Score: 412
Period size: 147 Copynumber: 2.0 Consensus size: 153
71794 TATATATGCT
* * *
71804 TTTTATCAAGACTATTTTCTTCAAATAGGCAATGTACTGTTGTAATTGTGTATTATATTATTCGG
1 TTTTATCAAGACTATTTCCTTCAAATAGGCAATGCACTCTTGTAATTGTGTATTATATTATTCGG
* * * *
71869 AGGTATGAGTATCAAATAGATTATATTTAATTATAACTATTAATATTTTCAAATCCTATCTATCT
66 AGATATAAATATCAAATA-ATTATATTTAATTATAACTATTAATATTTCCAAATCCTATCTATCT
*
71934 AAACAAGGAAATTTCAAATCCATG
130 AAACAACGAAATTTCAAATCCATG
* * *
71958 TTTTGTCAAGACTATTTCCTTTAAATAGAG-AATGCATTCTTGTAATTGTGTATTATATTATTC-
1 TTTTATCAAGACTATTTCCTTCAAATAG-GCAATGCACTCTTGTAATTGTGTATTATATTATTCG
* * *
72021 GA-ATTTAAATAT-AAAT-A-T-TATTTAATTATGATTATTAATATTTCCAAATCCTATCTATCT
65 GAGATATAAATATCAAATAATTATATTTAATTATAACTATTAATATTTCCAAATCCTATCTATCT
*
72081 AAACAACGAAATTTCAAATCCGTG
130 AAACAACGAAATTTCAAATCCATG
72105 TTTTAT
1 TTTTAT
72111 ACACGTAATC
Statistics
Matches: 136, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
147 66 0.49
148 1 0.01
149 1 0.01
151 4 0.03
152 6 0.04
153 2 0.01
154 55 0.40
155 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.43
Consensus pattern (153 bp):
TTTTATCAAGACTATTTCCTTCAAATAGGCAATGCACTCTTGTAATTGTGTATTATATTATTCGG
AGATATAAATATCAAATAATTATATTTAATTATAACTATTAATATTTCCAAATCCTATCTATCTA
AACAACGAAATTTCAAATCCATG
Found at i:78234 original size:17 final size:15
Alignment explanation
Indices: 78204--78234 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78194 TTGAAAATAG
78204 TAATTTACTTATATA
1 TAATTTACTTATATA
*
78219 TAATTTACTTTTATA
1 TAATTTACTTATATA
78234 T
1 T
78235 GCATATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTTACTTATATA
Found at i:78399 original size:69 final size:69
Alignment explanation
Indices: 78262--78391 Score: 251
Period size: 69 Copynumber: 1.9 Consensus size: 69
78252 TATATATATA
*
78262 TATATATGAATTAATTTACTATTAAAATTCAACTAATTCTTGAGAATTTTTGAACAATAGAGAAT
1 TATATATGAATTAATTTACTATTAAAATTCAACTAATTCTTGACAATTTTTGAACAATAGAGAAT
78327 TTTC
66 TTTC
78331 TATATATGAATTAATTTACTATTAAAATTCAACTAATTCTTGACAATTTTTGAACAATAGA
1 TATATATGAATTAATTTACTATTAAAATTCAACTAATTCTTGACAATTTTTGAACAATAGA
78392 TATTTTTCCC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (69 bp):
TATATATGAATTAATTTACTATTAAAATTCAACTAATTCTTGACAATTTTTGAACAATAGAGAAT
TTTC
Found at i:78920 original size:25 final size:25
Alignment explanation
Indices: 78895--78952 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
78885 GTATTTTATA
78895 TATATATATATAAATAAAAATAATAT
1 TATAT-TATATAAATAAAAATAATAT
* *
78921 TATATTATATTATTAAAAAATAA-AT
1 TATATTATATAAAT-AAAAATAATAT
*
78946 TAAATTA
1 TATATTA
78953 AGTTAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TATATTATATAAATAAAAATAATAT
Found at i:79068 original size:19 final size:19
Alignment explanation
Indices: 79044--79083 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
79034 TTTTCAAACT
*
79044 TCCCAAAGTATTAAATAAA
1 TCCCAAAATATTAAATAAA
79063 TCCCAAAATATTAAATAAA
1 TCCCAAAATATTAAATAAA
79082 TC
1 TC
79084 TTAATTCGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (19 bp):
TCCCAAAATATTAAATAAA
Found at i:84634 original size:19 final size:19
Alignment explanation
Indices: 84610--84815 Score: 87
Period size: 19 Copynumber: 11.0 Consensus size: 19
84600 AAATTTAATA
*
84610 ATTTATGTAATTATATTAT
1 ATTTATATAATTATATTAT
* *
84629 ATTTATATAGTTTTATTAT
1 ATTTATATAATTATATTAT
*
84648 ATTATAATAATATTTTAAATATTTTAT
1 ATT-T-AT-ATA-ATT--ATA--TTAT
84675 ATTTATATAATT-T-TTA-
1 ATTTATATAATTATATTAT
*
84691 ATATAT-TAATTAT-TTAT
1 ATTTATATAATTATATTAT
* **
84708 A-TTATATAAATTTTAAAAT
1 ATTTATAT-AATTATATTAT
* *
84727 ATTTATATATTTTTATTAT
1 ATTTATATAATTATATTAT
* *
84746 ATTTATATTATT-TTTTAT
1 ATTTATATAATTATATTAT
*
84764 -TTTATAT-A-TATTTTA-
1 ATTTATATAATTATATTAT
*
84779 ATTT-TTTATATTAT-TTAT
1 ATTTATATA-ATTATATTAT
**
84797 ATACATATAATTATATTAT
1 ATTTATATAATTATATTAT
84816 GGACAGCCAA
Statistics
Matches: 144, Mismatches: 21, Indels: 44
0.69 0.10 0.21
Matches are distributed among these distances:
15 8 0.06
16 21 0.15
17 16 0.11
18 20 0.14
19 47 0.33
20 8 0.06
21 2 0.01
22 3 0.02
23 4 0.03
24 3 0.02
25 4 0.03
26 1 0.01
27 7 0.05
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
ATTTATATAATTATATTAT
Found at i:84636 original size:11 final size:11
Alignment explanation
Indices: 84620--84775 Score: 53
Period size: 11 Copynumber: 14.6 Consensus size: 11
84610 ATTTATGTAA
84620 TTATATTATAT
1 TTATATTATAT
*
84631 TTATA-TAGTTTT
1 TTATATTA--TAT
*
84643 ATTATATTATAA
1 -TTATATTATAT
* * *
84655 TAATATTTTAA
1 TTATATTATAT
* *
84666 ATATTTTATAT
1 TTATATTATAT
84677 TTATA-TA-AT
1 TTATATTATAT
* *
84686 TTTTAATATAT
1 TTATATTATAT
*
84697 TAATTATT-TAT
1 TTA-TATTATAT
*
84708 ATTATA-TAAAT
1 -TTATATTATAT
**
84719 TT-TAAAATAT
1 TTATATTATAT
84729 TTATA-TAT-T
1 TTATATTATAT
84738 TT-TATTATAT
1 TTATATTATAT
84748 TTATATTAT-T
1 TTATATTATAT
* *
84758 TTTTATTTTAT
1 TTATATTATAT
*
84769 ATATATT
1 TTATATT
84776 TTAATTTTTT
Statistics
Matches: 105, Mismatches: 25, Indels: 30
0.66 0.16 0.19
Matches are distributed among these distances:
8 2 0.02
9 14 0.13
10 27 0.26
11 47 0.45
12 8 0.08
13 5 0.05
14 2 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.62
Consensus pattern (11 bp):
TTATATTATAT
Found at i:84684 original size:27 final size:27
Alignment explanation
Indices: 84620--84790 Score: 111
Period size: 28 Copynumber: 6.0 Consensus size: 27
84610 ATTTATGTAA
* *
84620 TTATATTATA-TTTATATAGTTTTATTAT
1 TTATATAATATTTTAAATA-TTTTA-TAT
84648 ATTATAATAATATTTTAAATATTTTATAT
1 -TTAT-ATAATATTTTAAATATTTTATAT
84677 TTATATAAT-TTTTAATATATTAATTATTTAT
1 TTATATAATATTTTAA-ATATT--TTA--TAT
84708 ATTATATAA-ATTTTAAAATATTTATATAT
1 -TTATATAATATTTT-AAATATTT-TATAT
* * * *
84737 TTTTATTATA-TTTATATTATTTTTTAT
1 TTATATAATATTTTA-AATATTTTATAT
*
84764 TT-TATATATATTTT-AATTTTTTATAT
1 TTATATA-ATATTTTAAATATTTTATAT
84790 T
1 T
84791 ATTTATATAC
Statistics
Matches: 117, Mismatches: 10, Indels: 33
0.73 0.06 0.21
Matches are distributed among these distances:
26 19 0.16
27 20 0.17
28 22 0.19
29 14 0.12
30 11 0.09
31 12 0.10
32 17 0.15
33 2 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.63
Consensus pattern (27 bp):
TTATATAATATTTTAAATATTTTATAT
Found at i:84705 original size:34 final size:33
Alignment explanation
Indices: 84655--84747 Score: 109
Period size: 32 Copynumber: 2.8 Consensus size: 33
84645 TATATTATAA
* * *
84655 TAATATTTTAAATATTTTATATTTATATAATTTT
1 TAATATATTAATTATTTTATA-TTATATAAATTT
84689 TAATATATTAATTA-TTTATATTATATAAATTT
1 TAATATATTAATTATTTTATATTATATAAATTT
* *
84721 TAAAATATTTATATATTTT-TATTATAT
1 TAATATATTAAT-TATTTTATATTATAT
84748 TTATATTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
32 21 0.40
33 16 0.31
34 15 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
TAATATATTAATTATTTTATATTATATAAATTT
Found at i:84736 original size:60 final size:55
Alignment explanation
Indices: 84610--84815 Score: 173
Period size: 56 Copynumber: 3.5 Consensus size: 55
84600 AAATTTAATA
* * * *
84610 ATTTATGTAATTATATTATATTTATA-TAGTTTTATTATATTATAATAATATTTTAAAT
1 ATTTATATATTTATATAATATTTATATTA-TTAT-TTATATTAT-ATAA-ATTTTAAAT
*
84668 ATTT-TATATTTATATAATTTTTAATATATTAATTATTTATATTATATAAATTTTAAAAT
1 ATTTATATATTTATATAA-TATT--TATATT-ATTATTTATATTATATAAATTTT-AAAT
* * * * * *
84727 ATTTATATATTTTTATTATATTTATATTATTTTTTATTTTATATATATTTTAATT
1 ATTTATATATTTATATAATATTTATATTATTATTTATATTATATAAATTTTAAAT
*
84782 TTTTATATTATTTATATACATATAATTATATTAT
1 ATTTATA-TATTTATATA-ATAT--TTATATTAT
84816 GGACAGCCAA
Statistics
Matches: 122, Mismatches: 15, Indels: 21
0.77 0.09 0.13
Matches are distributed among these distances:
55 9 0.07
56 28 0.23
57 20 0.16
58 12 0.10
59 24 0.20
60 24 0.20
61 4 0.03
62 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (55 bp):
ATTTATATATTTATATAATATTTATATTATTATTTATATTATATAAATTTTAAAT
Found at i:84777 original size:11 final size:11
Alignment explanation
Indices: 84620--84799 Score: 67
Period size: 9 Copynumber: 18.6 Consensus size: 11
84610 ATTTATGTAA
84620 TTATAT-TATAT
1 TTATATATAT-T
*
84631 TTATATA-GTT
1 TTATATATATT
84641 TTAT-TATATT
1 TTATATATATT
*
84651 ATA-ATAATATT
1 TTATAT-ATATT
84662 TTA-A-ATA-T
1 TTATATATATT
84670 TT-TATAT-TT
1 TTATATATATT
*
84679 ATATA-AT-TT
1 TTATATATATT
84688 TTA-ATATATT
1 TTATATATATT
*
84698 AATTAT-T-TATA
1 --TTATATATATT
*
84709 TTATATAAATT
1 TTATATATATT
*
84720 TTA-AAATA-T
1 TTATATATATT
84729 TTATATAT-TT
1 TTATATATATT
84739 TTAT-TATA-T
1 TTATATATATT
84748 TTATAT-TA-T
1 TTATATATATT
84757 TT-T-T-TATT
1 TTATATATATT
84765 TTATATATATT
1 TTATATATATT
84776 TTA-AT-T-TT
1 TTATATATATT
84784 TTATAT-TA-T
1 TTATATATATT
84793 TTATATA
1 TTATATA
84800 CATATAATTA
Statistics
Matches: 131, Mismatches: 12, Indels: 53
0.67 0.06 0.27
Matches are distributed among these distances:
7 3 0.02
8 14 0.11
9 50 0.38
10 30 0.23
11 30 0.23
12 4 0.03
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (11 bp):
TTATATATATT
Found at i:84785 original size:26 final size:27
Alignment explanation
Indices: 84657--84799 Score: 92
Period size: 27 Copynumber: 5.5 Consensus size: 27
84647 TATTATAATA
* * *
84657 ATATTTTAAATAT-TTTATATTTATATA
1 ATATTTTATATATATTTATA-TTATTTT
84684 AT-TTTTA-ATATA-TTA-ATTATTT-
1 ATATTTTATATATATTTATATTATTTT
* * * *
84706 ATATTATATAAAT-TTTAAAATATTTAT
1 ATATTTTATATATATTTATATTATTT-T
84733 ATATTTT-TATTATATTTATATTATTTT
1 ATATTTTATA-TATATTTATATTATTTT
*
84760 TTATTTTATATATATTT-TAATT-TTTT
1 ATATTTTATATATATTTAT-ATTATTTT
84786 ATATTATT-TATATA
1 ATATT-TTATATATA
84800 CATATAATTA
Statistics
Matches: 94, Mismatches: 10, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.02
23 9 0.10
24 7 0.07
25 13 0.14
26 22 0.23
27 29 0.31
28 12 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATTTTATATATATTTATATTATTTT
Found at i:84810 original size:98 final size:97
Alignment explanation
Indices: 84627--84812 Score: 225
Period size: 98 Copynumber: 1.9 Consensus size: 97
84617 TAATTATATT
*
84627 ATATTTATATAGTTTTATTATATTATAATAATATTTTAAATATTTTATATTTATATAATTTTTAA
1 ATATTTATATAGTTTTATTATATTATAATAATATTTT-AATATTTTATATATATATAATTTTTAA
**
84692 TATATTAATTATTTATATTATATAAATTTTAAA
65 TATATTAATTACATATATTATATAAATTTTAAA
* * * * *
84725 ATATTTATATATTTTTATTATATT-T-ATATTATTTT-TTATTTTATATATATTTTAATTTTTTA
1 ATATTTATATAGTTTTATTATATTATAATAATATTTTAATATTTTATATATA-TATAATTTTTAA
*
84787 TATTATTTATATACATATAATTATAT
65 TA-TATTAAT-TACATAT-ATTATAT
84813 TATGGACAGC
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
94 12 0.16
95 12 0.16
96 15 0.20
97 6 0.08
98 30 0.40
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.61
Consensus pattern (97 bp):
ATATTTATATAGTTTTATTATATTATAATAATATTTTAATATTTTATATATATATAATTTTTAAT
ATATTAATTACATATATTATATAAATTTTAAA
Found at i:84935 original size:18 final size:19
Alignment explanation
Indices: 84912--84951 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
84902 TTCTTTAACG
84912 TATTGATCTA-TTTATATA
1 TATTGATCTATTTTATATA
84930 TATTGATCTATTTTATATA
1 TATTGATCTATTTTATATA
84949 TAT
1 TAT
84952 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTGATCTATTTTATATA
Found at i:85029 original size:22 final size:24
Alignment explanation
Indices: 84987--85043 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
84977 TAAAAATTAT
84987 AAATATTAAA-ATTTATATTTTAA
1 AAATATTAAATATTTATATTTTAA
**
85010 ATTTATTAAATA-TTAT-TTTTAA
1 AAATATTAAATATTTATATTTTAA
85032 AAATATTAAATA
1 AAATATTAAATA
85044 AATTAGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 16 0.55
23 12 0.41
24 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATATTAAATATTTATATTTTAA
Found at i:88578 original size:16 final size:14
Alignment explanation
Indices: 88553--88591 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
88543 ATTTTTACAA
*
88553 AAATTTAATTTAATAT
1 AAATTAAATTT-AT-T
88569 AAATTAAATTTATT
1 AAATTAAATTTATT
88583 AAATTAAAT
1 AAATTAAAT
88592 AAATTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 2 0.09
16 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTAAATTTATT
Found at i:90379 original size:15 final size:15
Alignment explanation
Indices: 90359--90403 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
90349 CGCCTATATG
90359 ATTGCTTGTTTAATA
1 ATTGCTTGTTTAATA
90374 ATTGCTTGTTTAATA
1 ATTGCTTGTTTAATA
*
90389 ATTGCTTGGTTAATA
1 ATTGCTTGTTTAATA
90404 TCGTAGTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.51
Consensus pattern (15 bp):
ATTGCTTGTTTAATA
Found at i:92191 original size:21 final size:21
Alignment explanation
Indices: 92156--92219 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
92146 AAGGACCAAA
92156 TAAT-ATAAT-ATAGTAGTAG
1 TAATAATAATAATAGTAGTAG
92175 TAATAATAATAATAGTAGTAG
1 TAATAATAATAATAGTAGTAG
* *
92196 TACTAACAATAAT-G-A-TAG
1 TAATAATAATAATAGTAGTAG
92214 TAATAA
1 TAATAA
92220 CAGTTATGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 8 0.20
19 5 0.12
20 6 0.15
21 21 0.52
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (21 bp):
TAATAATAATAATAGTAGTAG
Found at i:92192 original size:18 final size:17
Alignment explanation
Indices: 92160--92194 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
92150 ACCAAATAAT
*
92160 ATAATATAGTAGTAGTA
1 ATAATATAATAGTAGTA
92177 ATAATAATAATAGTAGTA
1 ATAAT-ATAATAGTAGTA
92195 GTACTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.34
Consensus pattern (17 bp):
ATAATATAATAGTAGTA
Found at i:93232 original size:13 final size:13
Alignment explanation
Indices: 93216--93249 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
93206 TATATATTTA
*
93216 AAATATATGTATT
1 AAATATAAGTATT
*
93229 AAATACAAGTATT
1 AAATATAAGTATT
93242 AAATATAA
1 AAATATAA
93250 ATATCTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (13 bp):
AAATATAAGTATT
Found at i:93460 original size:2 final size:2
Alignment explanation
Indices: 93453--93484 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
93443 GTGAAGTATC
93453 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
93485 TCATCTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96594 original size:13 final size:13
Alignment explanation
Indices: 96544--96594 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
96534 ATCATATTAT
*
96544 ATTAATTATAATT
1 ATTAATTATAATA
*
96557 ATAAATT-TAATA
1 ATTAATTATAATA
* *
96569 AAT-ATTATCATA
1 ATTAATTATAATA
96581 ATTAATTATAATA
1 ATTAATTATAATA
96594 A
1 A
96595 ATATCGATTA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
11 3 0.10
12 11 0.38
13 15 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATTATAATA
Found at i:96760 original size:2 final size:2
Alignment explanation
Indices: 96755--96798 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
96745 GTGGGTGTAA
* * *
96755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96797 AT
1 AT
96799 TTGAACGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97757 original size:2 final size:2
Alignment explanation
Indices: 97750--97783 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
97740 ATTATTGTCA
97750 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
97784 GTTAAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98063 original size:20 final size:20
Alignment explanation
Indices: 98025--98063 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
98015 AGTAAGTATG
*
98025 TATTATAATTATATTTAAAA
1 TATTATAATTATATATAAAA
98045 TATTATATATT-TATATAAA
1 TATTATA-ATTATATATAAA
98064 TTTTAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATAATTATATATAAAA
Found at i:98118 original size:31 final size:30
Alignment explanation
Indices: 98049--98123 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
98039 TTAAAATATT
*
98049 ATATATTTATATAAATTTTAATATATTAATA
1 ATAT-TTTATATAAATTTTAATATATAAATA
98080 ATTTATTTTATATAAA-TTTAATATAACTAAATA
1 A--TATTTTATATAAATTTTAATAT-A-TAAATA
98113 ATATTTTATAT
1 ATATTTTATAT
98124 TTAAATTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 19 0.49
32 11 0.28
33 9 0.23
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (30 bp):
ATATTTTATATAAATTTTAATATATAAATA
Found at i:98128 original size:18 final size:18
Alignment explanation
Indices: 98033--98129 Score: 55
Period size: 16 Copynumber: 5.7 Consensus size: 18
98023 TGTATTATAA
98033 TTATATTT-AA-AATATT
1 TTATATTTAAATAATATT
* *
98049 ATATATTTATATAA-ATT
1 TTATATTTAAATAATATT
* * *
98066 TTA-ATAT-ATTAATAAT
1 TTATATTTAAATAATATT
*
98082 TTAT-TTTATATAA-ATT
1 TTATATTTAAATAATATT
**
98098 TAATATAACTAAATAATATT
1 T--TATATTTAAATAATATT
98118 TTATATTTAAAT
1 TTATATTTAAAT
98130 TATTTTTTTT
Statistics
Matches: 56, Mismatches: 16, Indels: 16
0.64 0.18 0.18
Matches are distributed among these distances:
15 3 0.05
16 20 0.36
17 9 0.16
18 14 0.25
19 6 0.11
20 4 0.07
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATATTTAAATAATATT
Found at i:98323 original size:9 final size:9
Alignment explanation
Indices: 98309--98350 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
98299 ATTCATCGAA
98309 TAAATTAAT
1 TAAATTAAT
98318 TAAATTAAT
1 TAAATTAAT
98327 TAAAATTAAT
1 T-AAATTAAT
*
98337 TATATT-AT
1 TAAATTAAT
98345 TAAATT
1 TAAATT
98351 TTTACTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 7 0.23
9 14 0.47
10 9 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TAAATTAAT
Found at i:98334 original size:19 final size:18
Alignment explanation
Indices: 98310--98348 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
98300 TTCATCGAAT
98310 AAATTAATTAAATTAATTA
1 AAATTAATTAAATT-ATTA
*
98329 AAATTAATTATATTATTA
1 AAATTAATTAAATTATTA
98347 AA
1 AA
98349 TTTTTACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTAATTAAATTATTA
Found at i:98410 original size:9 final size:9
Alignment explanation
Indices: 98398--98425 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
98388 TAATTTGTAA
98398 TTTTTTAAT
1 TTTTTTAAT
98407 TTTTTTAAT
1 TTTTTTAAT
98416 TTTTTTAAT
1 TTTTTTAAT
98425 T
1 T
98426 ATTAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:98787 original size:22 final size:23
Alignment explanation
Indices: 98754--98796 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
98744 TATATTAAAA
*
98754 TTAATATATTTTGAAGTATAATT
1 TTAATATATTTTGAAATATAATT
*
98777 TTAA-ATATTTTTAAATATAA
1 TTAATATATTTTGAAATATAA
98797 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (23 bp):
TTAATATATTTTGAAATATAATT
Found at i:98964 original size:22 final size:23
Alignment explanation
Indices: 98939--98993 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
98929 AATTAAAAAG
*
98939 TAATTATTA-TTAA-ATTTATGTA
1 TAATTATTATTTAATATTT-TGAA
98961 TAATT-TTATTTAATATTTTGAA
1 TAATTATTATTTAATATTTTGAA
98983 TAATTA-TATTT
1 TAATTATTATTT
98994 TATTTATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 3 0.10
22 22 0.76
23 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TAATTATTATTTAATATTTTGAA
Found at i:99084 original size:22 final size:22
Alignment explanation
Indices: 99043--99084 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
99033 AAAAAATATC
* **
99043 AATAATATAATTAATGTAAATA
1 AATAATAAAATTAAAATAAATA
99065 AATAATAAAATTAAAATAAA
1 AATAATAAAATTAAAATAAA
99085 ATTTATTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAATAAAATTAAAATAAATA
Found at i:99813 original size:19 final size:19
Alignment explanation
Indices: 99712--99850 Score: 61
Period size: 17 Copynumber: 7.9 Consensus size: 19
99702 AAATTATTTT
* *
99712 TATATTTTT-TTATTATAA
1 TATATTTTTATAATTATTA
* *
99730 T-TATGTTTA-AAATATTA
1 TATATTTTTATAATTATTA
*
99747 TATATTTATATAAATT-TTA
1 TATATTTTTAT-AATTATTA
* *
99766 -ATATATTAATAA-T-TTA
1 TATATTTTTATAATTATTA
* *
99782 TAT-TATATA-AATT-TTGA
1 TATATTTTTATAATTATT-A
*
99799 TATATTTTTATAATTATTT
1 TATATTTTTATAATTATTA
*
99818 TATATTTTTATTA-TATT-
1 TATATTTTTATAATTATTA
*
99835 TATTTTTTTAT-ATTAT
1 TATATTTTTATAATTAT
99851 ATTCATATTA
Statistics
Matches: 93, Mismatches: 17, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
15 2 0.02
16 12 0.13
17 33 0.35
18 22 0.24
19 19 0.20
20 5 0.05
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (19 bp):
TATATTTTTATAATTATTA
Found at i:99817 original size:22 final size:22
Alignment explanation
Indices: 99792--99840 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
99782 TATTATATAA
99792 ATTTTGATATATTT-TTATAATT
1 ATTTT-ATATATTTATTATAATT
* *
99814 ATTTTATATTTTTATTATATTT
1 ATTTTATATATTTATTATAATT
99836 ATTTT
1 ATTTT
99841 TTTATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
ATTTTATATATTTATTATAATT
Done.