Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2147
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: 101772
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
File 1 of 2
Found at i:275 original size:21 final size:22
Alignment explanation
Indices: 251--302 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
241 AAGTATAATA
251 TAAATTTAAATAATAAA-TATT
1 TAAATTTAAATAATAAATTATT
* *
272 TAAAAATT-AATATTAAATTTATT
1 T-AAATTTAAATAATAAA-TTATT
295 TAAATTTA
1 TAAATTTA
303 TTATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATTTAAATAATAAATTATT
Found at i:285 original size:14 final size:15
Alignment explanation
Indices: 245--289 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
235 ATCAATAAGT
245 ATAATATAA-ATTTAA
1 ATAATA-AATATTTAA
260 ATAATAAATATTTAA
1 ATAATAAATATTTAA
*
275 A-AATTAATA-TTAA
1 ATAATAAATATTTAA
288 AT
1 AT
290 TTATTTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.19
14 9 0.33
15 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATAAATATTTAA
Found at i:8324 original size:29 final size:28
Alignment explanation
Indices: 8292--8352 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
8282 ATTTTTAACA
**
8292 TATATTTTTCATAATAAAAATAAATAATT
1 TATATTTTAAATAA-AAAAATAAATAATT
*
8321 TATA-TTTAAATTAAAAAATAAATAATT
1 TATATTTTAAATAAAAAAATAAATAATT
8348 TATAT
1 TATAT
8353 GAAGAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 18 0.64
28 6 0.21
29 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TATATTTTAAATAAAAAAATAAATAATT
Found at i:8363 original size:27 final size:27
Alignment explanation
Indices: 8307--8374 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
8297 TTTTCATAAT
* **
8307 AAAAATAAATAATTTATATTTAAATTA
1 AAAAATAAATAATTTATATTGAAAAAA
*
8334 AAAAATAAATAATTTATA-TGAAGAAA
1 AAAAATAAATAATTTATATTGAAAAAA
*
8360 AAAAATAGA-AATTTA
1 AAAAATAAATAATTTA
8375 AAAATTAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 6 0.17
26 12 0.33
27 18 0.50
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAAATAAATAATTTATATTGAAAAAA
Found at i:8621 original size:12 final size:13
Alignment explanation
Indices: 8581--8622 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
8571 GTGTTATTTA
*
8581 AATTTTATATTAT
1 AATTTGATATTAT
8594 AATTTGAT-TTAT
1 AATTTGATATTAT
*
8606 AATTTGGTATTA-
1 AATTTGATATTAT
8618 AATTT
1 AATTT
8623 TCTTTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
AATTTGATATTAT
Found at i:9858 original size:20 final size:21
Alignment explanation
Indices: 9835--9887 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
9825 ATAGTGTATA
*
9835 TTTATATTATGTTCGTAT-TT
1 TTTATATTATATTCGTATATT
**
9855 TTTATATTATATTTTTATATT
1 TTTATATTATATTCGTATATT
9876 TTTATATTATAT
1 TTTATATTATAT
9888 AATTATATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTATATTATATTCGTATATT
Found at i:9879 original size:21 final size:21
Alignment explanation
Indices: 9835--9896 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
9825 ATAGTGTATA
* **
9835 TTTATATTATGTTCGTAT-TT
1 TTTATATTATATTATTATATT
*
9855 TTTATATTATATTTTTATATT
1 TTTATATTATATTATTATATT
*
9876 TTTATATTATATAATTATATT
1 TTTATATTATATTATTATATT
9897 ATATTCAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (21 bp):
TTTATATTATATTATTATATT
Found at i:12866 original size:2 final size:2
Alignment explanation
Indices: 12861--12915 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
12851 TCTCTCTCCC
12861 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
12903 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
12916 TCTAGTGACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16532 original size:10 final size:10
Alignment explanation
Indices: 16519--16577 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
16509 TTTTAAAATA
16519 TTTATATATT
1 TTTATATATT
16529 TTTATTATATT
1 TTTA-TATATT
16540 TAATTATAT-TT
1 T--TTATATATT
*
16551 TTTAT-TATA
1 TTTATATATT
*
16560 TTTATATAAT
1 TTTATATATT
*
16570 TATATATA
1 TTTATATA
16578 AAATATTATG
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
8 1 0.03
9 10 0.25
10 13 0.32
11 10 0.25
12 3 0.08
13 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATATATT
Found at i:16541 original size:28 final size:27
Alignment explanation
Indices: 16485--16576 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 27
16475 CAAATTCACA
*
16485 TTAAATATATT-T-TATATTTATTA-ATT
1 TTAAATAT-TTATATATTTTTATTATA-T
16511 TTAAAATATTTATATATTTTTATTATAT
1 TT-AAATATTTATATATTTTTATTATAT
16539 TT--A-A-TTATAT-TTTTTATTATAT
1 TTAAATATTTATATATTTTTATTATAT
* *
16561 TTATATAATTATATAT
1 TTAAATATTTATATAT
16577 AAAATATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
22 14 0.25
23 6 0.11
24 2 0.04
25 2 0.04
26 10 0.18
27 8 0.14
28 13 0.23
29 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTAAATATTTATATATTTTTATTATAT
Found at i:16555 original size:22 final size:23
Alignment explanation
Indices: 16520--16563 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
16510 TTTAAAATAT
16520 TTATATATTTTTATTATATTTAA
1 TTATATATTTTTATTATATTTAA
16543 TTATAT-TTTTTATTATATTTA
1 TTATATATTTTTATTATATTTA
16564 TATAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTATATATTTTTATTATATTTAA
Found at i:16559 original size:12 final size:12
Alignment explanation
Indices: 16520--16562 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
16510 TTTAAAATAT
16520 TTATATATTTTTA
1 TTATAT-TTTTTA
*
16533 TTATA--TTTAA
1 TTATATTTTTTA
16543 TTATATTTTTTA
1 TTATATTTTTTA
16555 TTATATTT
1 TTATATTT
16563 ATATAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 9 0.35
12 12 0.46
13 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATATTTTTTA
Found at i:16717 original size:22 final size:20
Alignment explanation
Indices: 16654--16789 Score: 84
Period size: 20 Copynumber: 6.7 Consensus size: 20
16644 ATATTAAAAT
* *
16654 TTTTAAAATATTAATATGATA
1 TTTTAATATATT-ATATTATA
* *
16675 ATTT-ATACATTTATATTATA
1 TTTTAATATA-TTATATTATA
16695 TTTTTAATATATTATAATTATA
1 -TTTTAATATATTAT-ATTATA
* *
16717 -TTTAAAATATTATA-TAAA
1 TTTTAATATATTATATTATA
16735 TTTTAATATATTA-ATTATTTA
1 TTTTAATATATTATATTA--TA
* * * *
16756 TATTATATAAATTTTAATATA
1 TTTTA-ATATATTATATTATA
16777 TTTTAATAT-TTAT
1 TTTTAATATATTAT
16790 TTTTTTCATA
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
18 4 0.05
19 17 0.19
20 25 0.28
21 23 0.26
22 16 0.18
23 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTTAATATATTATATTATA
Found at i:16744 original size:14 final size:14
Alignment explanation
Indices: 16727--16777 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
16717 TTTAAAATAT
16727 TATATAAATTTTAA
1 TATATAAATTTTAA
*
16741 TATATTAATTATTTATAT
1 TATA-TAA--ATTT-TAA
16759 TATATAAATTTTAA
1 TATATAAATTTTAA
16773 TATAT
1 TATAT
16778 TTTAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 11 0.35
15 7 0.23
17 7 0.23
18 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:16768 original size:18 final size:17
Alignment explanation
Indices: 16723--16775 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
16713 TATATTTAAA
16723 ATATTATATAAA-TTTT
1 ATATTATATAAATTTTT
*
16739 A-A-TATATTAATTATTT
1 ATATTATATAAATT-TTT
*
16755 ATATTATATAAATTTTA
1 ATATTATATAAATTTTT
16772 ATAT
1 ATAT
16776 ATTTTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 7 0.23
15 2 0.07
16 5 0.17
17 7 0.23
18 9 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTATATAAATTTTT
Found at i:16769 original size:15 final size:15
Alignment explanation
Indices: 16723--16769 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
16713 TATATTTAAA
16723 ATATTATATAAATTT
1 ATATTATATAAATTT
*
16738 -TAATATATTAATTATTT
1 ATATTATA-TAA--ATTT
16755 ATATTATATAAATTT
1 ATATTATATAAATTT
16770 TAATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 6 0.23
15 7 0.27
17 7 0.27
18 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATAAATTT
Found at i:16792 original size:12 final size:10
Alignment explanation
Indices: 16691--16785 Score: 61
Period size: 10 Copynumber: 9.3 Consensus size: 10
16681 ACATTTATAT
16691 TATATTTTTAA
1 TATA-TTTTAA
*
16702 TATATTATAA
1 TATATTTTAA
16712 T-TATATTTAA
1 TATAT-TTTAA
* *
16722 AATATTAT-A
1 TATATTTTAA
*
16731 TAAATTTTAA
1 TATATTTTAA
16741 TATATTAATT-A
1 TATATT--TTAA
* *
16752 TTTATATTATA
1 TATATTTTA-A
*
16763 TAAATTTTAA
1 TATATTTTAA
16773 TATATTTTAA
1 TATATTTTAA
16783 TAT
1 TAT
16786 TTATTTTTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 15
0.68 0.15 0.16
Matches are distributed among these distances:
9 11 0.17
10 31 0.49
11 19 0.30
12 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATTTTAA
Found at i:16839 original size:10 final size:10
Alignment explanation
Indices: 16824--16870 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
16814 ATCACATTTG
16824 ATATTATATT
1 ATATTATATT
16834 ATATTA-ATT
1 ATATTATATT
*
16843 ATTTTATATT
1 ATATTATATT
16853 AT-TTA-ATT
1 ATATTATATT
*
16861 ATATCATATT
1 ATATTATATT
16871 TTAAATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 5 0.16
9 13 0.41
10 14 0.44
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATATTATATT
Found at i:16843 original size:14 final size:14
Alignment explanation
Indices: 16826--16864 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16816 CACATTTGAT
16826 ATTATATTATATTA
1 ATTATATTATATTA
*
16840 ATTATTTTATATTA
1 ATTATATTATATTA
*
16854 TTTA-ATTATAT
1 ATTATATTATAT
16865 CATATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTATATTATATTA
Found at i:16849 original size:19 final size:18
Alignment explanation
Indices: 16827--16862 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
16817 ACATTTGATA
16827 TTATATTATATTAATTATT
1 TTATATTAT-TTAATTATT
16846 TTATATTATTTAATTAT
1 TTATATTATTTAATTAT
16863 ATCATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATTATTTAATTATT
Found at i:17853 original size:29 final size:26
Alignment explanation
Indices: 17807--17862 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
17797 TTTAACATAG
*
17807 TTTTTTTTACTATTTAACCATCATAATA
1 TTTTTTTTACTATGTAA-C-TCATAATA
*
17835 TTTTTTTATATTATGTAACTCATAATA
1 TTTTTTT-TACTATGTAACTCATAATA
17862 T
1 T
17863 AATATGTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.36
28 8 0.32
29 8 0.32
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTTTTTTACTATGTAACTCATAATA
Found at i:18191 original size:17 final size:17
Alignment explanation
Indices: 18171--18206 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18161 TAATATATCA
*
18171 AAATTTATATATAATAT
1 AAATATATATATAATAT
*
18188 AAATATATATGTAATAT
1 AAATATATATATAATAT
18205 AA
1 AA
18207 TGAGTATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATATATATATAATAT
Found at i:18644 original size:21 final size:19
Alignment explanation
Indices: 18620--18657 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18610 AAAACTAAAT
18620 AAAAATATAAATATATTCAA
1 AAAAATATAAA-ATATTCAA
*
18640 AAAAATTTAAAATATTCA
1 AAAAATATAAAATATTCA
18658 TTTTCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATATAAAATATTCAA
Found at i:18706 original size:21 final size:19
Alignment explanation
Indices: 18658--18706 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
18648 AAAATATTCA
*
18658 TTTTCAAATATAAATAAAT
1 TTTTAAAATATAAATAAAT
18677 TTATGTAAAATATAAACTCAAAT
1 TT-T-TAAAATATAAA-T-AAAT
18700 TTTTAAA
1 TTTTAAA
18707 TTAAACCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.08
20 1 0.04
21 14 0.56
22 2 0.08
23 6 0.24
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (19 bp):
TTTTAAAATATAAATAAAT
Found at i:21614 original size:29 final size:26
Alignment explanation
Indices: 21551--21615 Score: 62
Period size: 29 Copynumber: 2.4 Consensus size: 26
21541 ATTATTTATA
21551 AAATTTAAAT-TTTTTATTTATAATT
1 AAATTTAAATATTTTTATTTATAATT
**
21576 -AATAAAAAATATTTATATATTTTATAATT
1 AAAT-TTAAATATTT-T-TA-TTTATAATT
21605 AAATTTAAATA
1 AAATTTAAATA
21616 AAAATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
24 3 0.10
25 4 0.13
26 3 0.10
27 1 0.03
28 2 0.07
29 14 0.47
30 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
AAATTTAAATATTTTTATTTATAATT
Found at i:21801 original size:8 final size:8
Alignment explanation
Indices: 21788--21923 Score: 61
Period size: 9 Copynumber: 16.0 Consensus size: 8
21778 TATAAATATA
21788 ATATATTT
1 ATATATTT
21796 ATATATTT
1 ATATATTT
21804 AATATATTAT
1 -ATATATT-T
21814 AATTATATTT
1 -A-TATATTT
21824 GATATA-TT
1 -ATATATTT
*
21832 ATTTATTT
1 ATATATTT
21840 ATATAAAATTT
1 ATAT---ATTT
*
21851 A-AAATTT
1 ATATATTT
21858 -TAATAATTT
1 AT-AT-ATTT
21867 ATATCATTT
1 ATAT-ATTT
*
21876 AAAT-TTT
1 ATATATTT
21883 A-ATTAATTT
1 ATA-T-ATTT
21892 ATATATTT
1 ATATATTT
21900 AT-T-TTAT
1 ATATATT-T
21907 ATTATATTT
1 A-TATATTT
21916 ATATATTT
1 ATATATTT
21924 TTTTAATATA
Statistics
Matches: 102, Mismatches: 7, Indels: 38
0.69 0.05 0.26
Matches are distributed among these distances:
6 3 0.03
7 16 0.16
8 30 0.29
9 32 0.31
10 10 0.10
11 11 0.11
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (8 bp):
ATATATTT
Found at i:21808 original size:22 final size:22
Alignment explanation
Indices: 21782--21844 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
21772 TGAAAATATA
*
21782 AATATAATATATTTATATATTT
1 AATATAATATATTTATATATTG
* *
21804 AATATATTATAATTATAT-TTG
1 AATATAATATATTTATATATTG
* *
21825 ATATATTATTTATTTATATA
1 A-ATATAATATATTTATATA
21845 AAATTTAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATATAATATATTTATATATTG
Found at i:21810 original size:9 final size:9
Alignment explanation
Indices: 21786--21900 Score: 70
Period size: 8 Copynumber: 13.2 Consensus size: 9
21776 AATATAAATA
21786 TAATATATT
1 TAATATATT
21795 T-ATATATT
1 TAATATATT
21803 TAATATATT
1 TAATATATT
21812 ATAATTATATT
1 -TAA-TATATT
*
21823 TGATATA-T
1 TAATATATT
*
21831 T-ATTTATT
1 TAATATATT
*
21839 TATATAAAATT
1 TA-AT-ATATT
*
21850 TAAAAT-TT
1 TAATATATT
21858 TAATA-ATT
1 TAATATATT
21866 T-ATATCATT
1 TAATAT-ATT
21875 TAA-AT-TT
1 TAATATATT
21882 TAAT-TAATT
1 TAATAT-ATT
21891 T-ATATATT
1 TAATATATT
21899 TA
1 TA
21901 TTTTATATTA
Statistics
Matches: 83, Mismatches: 7, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
7 13 0.16
8 27 0.33
9 23 0.28
10 9 0.11
11 11 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (9 bp):
TAATATATT
Found at i:21822 original size:20 final size:18
Alignment explanation
Indices: 21786--21844 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 18
21776 AATATAAATA
21786 TAATATATT-TATATATT
1 TAATATATTATATATATT
21803 TAATATATTATAATTATATT
1 TAATATATTAT-A-TATATT
*
21823 TGATATATTAT-T-TATT
1 TAATATATTATATATATT
21839 T-ATATA
1 TAATATA
21845 AAATTTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
15 5 0.13
16 5 0.13
17 10 0.26
18 1 0.03
19 1 0.03
20 16 0.42
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TAATATATTATATATATT
Found at i:21884 original size:24 final size:24
Alignment explanation
Indices: 21847--21923 Score: 97
Period size: 24 Copynumber: 3.2 Consensus size: 24
21837 TTTATATAAA
21847 ATTTAAAATTTTAA-TAATTTATAT
1 ATTT-AAATTTTAATTAATTTATAT
21871 CATTTAAATTTTAATTAATTTATAT
1 -ATTTAAATTTTAATTAATTTATAT
21896 ATTT--ATTTTATATTATATTTATAT
1 ATTTAAATTTTA-ATTA-ATTTATAT
21920 ATTT
1 ATTT
21924 TTTTAATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.12
23 4 0.08
24 25 0.51
25 14 0.29
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTAAATTTTAATTAATTTATAT
Found at i:21907 original size:13 final size:13
Alignment explanation
Indices: 21889--21934 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
21879 TTTTAATTAA
21889 TTTATATATTTAT
1 TTTATATATTTAT
*
21902 TTTATAT-TATA-
1 TTTATATATTTAT
21913 TTTATATATTT-T
1 TTTATATATTTAT
21925 TTTAATATAT
1 TTT-ATATAT
21935 CACATTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 7 0.25
12 8 0.29
13 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATATATTTAT
Found at i:22545 original size:29 final size:29
Alignment explanation
Indices: 22492--22551 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 29
22482 AATATTTTAA
*
22492 TTTTATCAATAATTAATGAACACAATAAAT
1 TTTTATCAATAATTAA-GAACACAAAAAAT
22522 TTTTATTCAATAATTTAA-AA-ACAAAAAAT
1 TTTTA-TCAATAA-TTAAGAACACAAAAAAT
22551 T
1 T
22552 AATATAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 9 0.33
30 7 0.26
31 7 0.26
32 4 0.15
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTTATCAATAATTAAGAACACAAAAAAT
Found at i:25482 original size:15 final size:15
Alignment explanation
Indices: 25459--25504 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
25449 ATTGAATTAC
25459 GAGAAAAAAAGCAAG
1 GAGAAAAAAAGCAAG
*
25474 GTA-AAAAAAAACAATG
1 G-AGAAAAAAAGCAA-G
25490 GAGAAAAAAAGCAAG
1 GAGAAAAAAAGCAAG
25505 AAAAATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.67, C:0.07, G:0.22, T:0.04
Consensus pattern (15 bp):
GAGAAAAAAAGCAAG
Found at i:25483 original size:16 final size:15
Alignment explanation
Indices: 25462--25509 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
25452 GAATTACGAG
25462 AAAAAAAGCAAGGTAA
1 AAAAAAAGCAAGG-AA
*
25478 AAAAAAA-CAATGGAG
1 AAAAAAAGCAA-GGAA
25493 AAAAAAAGCAA-GAA
1 AAAAAAAGCAAGGAA
25507 AAA
1 AAA
25510 TTCATGCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 12 0.43
ACGTcount: A:0.73, C:0.06, G:0.17, T:0.04
Consensus pattern (15 bp):
AAAAAAAGCAAGGAA
Found at i:26033 original size:2 final size:2
Alignment explanation
Indices: 26026--26057 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
26016 GTCATAATTT
26026 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26058 TTACGTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:26096 original size:20 final size:20
Alignment explanation
Indices: 26071--26109 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26061 CGTAATTTAT
26071 TATATTATA-ATTATATTAAA
1 TATATTATATATT-TATTAAA
*
26091 TATATTTTATATTTATTAA
1 TATATTATATATTTATTAA
26110 TTTTAAAATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATTATATATTTATTAAA
Found at i:26097 original size:29 final size:29
Alignment explanation
Indices: 26029--26168 Score: 73
Period size: 27 Copynumber: 4.9 Consensus size: 29
26019 ATAATTTTAT
* *
26029 ATATATATATATATATATATATATTATATTTAC
1 ATATATTTAT-TATAT-TATA-ATTATA-TTAA
*
26062 GTA-ATTTATTATATTATAATTATATTAA
1 ATATATTTATTATATTATAATTATATTAA
*
26090 ATATA-TT-TTATATT-T-ATTAATTTTAA
1 ATATATTTATTATATTATAATT-ATATTAA
* *
26116 A-ATATTTA-TATAATT-TTATTATATTCA
1 ATATATTTATTAT-ATTATAATTATATTAA
* * *
26143 GT-TGTATTATTATATTATATTTATAT
1 ATATAT-TTATTATATTATAATTATAT
26169 AATCATATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
25 6 0.07
26 13 0.15
27 18 0.21
28 16 0.19
29 17 0.20
30 4 0.05
31 5 0.06
32 5 0.06
33 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (29 bp):
ATATATTTATTATATTATAATTATATTAA
Found at i:26107 original size:11 final size:11
Alignment explanation
Indices: 26024--26168 Score: 62
Period size: 11 Copynumber: 13.6 Consensus size: 11
26014 ATGTCATAAT
26024 TTTATA-TATA
1 TTTATATTATA
*
26034 TATATATATATA
1 TTTATAT-TATA
*
26046 TATATATTATA
1 TTTATATTATA
26057 TTTACGTAATT-TA
1 TTTA--T-ATTATA
26070 -TTATATTATA
1 TTTATATTATA
* *
26080 ATTATATTAAA
1 TTTATATTATA
* *
26091 TATATTTTATA
1 TTTATATTATA
26102 -TT-TATTA-A
1 TTTATATTATA
**
26110 TTT-TAAAATA
1 TTTATATTATA
26120 TTTATA-TA-A
1 TTTATATTATA
26129 TTT-TATTATA
1 TTTATATTATA
*
26139 TTCAGT-TGTAT-
1 TTTA-TAT-TATA
26150 TATTATATTATA
1 T-TTATATTATA
26162 TTTATAT
1 TTTATAT
26169 AATCATATAT
Statistics
Matches: 103, Mismatches: 14, Indels: 35
0.68 0.09 0.23
Matches are distributed among these distances:
8 3 0.03
9 18 0.17
10 17 0.17
11 37 0.36
12 22 0.21
13 3 0.03
14 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTATATTATA
Found at i:26139 original size:19 final size:18
Alignment explanation
Indices: 26097--26140 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
26087 TAAATATATT
26097 TTATATTTATTAATTTTA
1 TTATATTTATTAATTTTA
**
26115 AAATATTTATATAATTTTA
1 TTATATTTAT-TAATTTTA
26134 TTATATT
1 TTATATT
26141 CAGTTGTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATTTATTAATTTTA
Found at i:26335 original size:22 final size:21
Alignment explanation
Indices: 26285--26347 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
26275 ATTCATGTAT
* **
26285 TTATATTATATATTTTTAATA
1 TTATATAATATATTTAAAATA
26306 -TATCATAATTATATTTAAAATA
1 TTAT-ATAA-TATATTTAAAATA
*
26328 TTATATAA-AT-TTTAATATA
1 TTATATAATATATTTAAAATA
26347 T
1 T
26348 AAATTATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 9 0.26
20 5 0.14
21 3 0.09
22 15 0.43
23 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATATAATATATTTAAAATA
Found at i:26366 original size:18 final size:18
Alignment explanation
Indices: 26325--26375 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
26315 TATATTTAAA
26325 ATATTATATAAA-T-TTT
1 ATATTATATAAATTATTT
26341 A-A-TATATAAATTATTT
1 ATATTATATAAATTATTT
26357 ATATTATATAAATATATTT
1 ATATTATATAAAT-TATTT
26376 TAATATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.27
15 2 0.07
16 5 0.17
17 1 0.03
18 9 0.30
19 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTATATAAATTATTT
Found at i:26373 original size:28 final size:28
Alignment explanation
Indices: 26342--26395 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
26332 ATAAATTTTA
26342 ATATATAAATTATTTA-TATTATATAAAT
1 ATATATAAA-TATTTATTATTATATAAAT
* * *
26370 ATATTTTAATATTTATTTTTATATAA
1 ATATATAAATATTTATTATTATATAA
26396 TTTTTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
ATATATAAATATTTATTATTATATAAAT
Found at i:27492 original size:28 final size:29
Alignment explanation
Indices: 27458--27513 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
27448 ATATTATTAT
**
27458 TTAATATTTTAATTTTTA-TAATAATTGA
1 TTAATATAATAATTTTTATTAATAATTGA
27486 TTAATATAATAATTTTTATTTAATAATT
1 TTAATATAATAATTTTTA-TTAATAATT
27514 AAAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.67
30 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (29 bp):
TTAATATAATAATTTTTATTAATAATTGA
Found at i:28051 original size:21 final size:22
Alignment explanation
Indices: 28025--28065 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
28015 AATAATTAAT
28025 ATATCAAAA-TTTATATATAAC
1 ATATCAAAATTTTATATATAAC
28046 ATATCAAAATTTTATATATA
1 ATATCAAAATTTTATATATA
28066 TAATATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATCAAAATTTTATATATAAC
Found at i:31445 original size:2 final size:2
Alignment explanation
Indices: 31438--31471 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31428 TCACCACTTT
31438 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
31472 GAGAGAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31476 original size:2 final size:2
Alignment explanation
Indices: 31471--31515 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
31461 ATATATATAT
31471 AG AG AG AG AG AG AG AG 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 AG AG AG AG AG
31513 AG A
1 AG A
31516 CTAAACAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32890 original size:11 final size:11
Alignment explanation
Indices: 32846--32894 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
32836 TTTATAAACT
32846 TTTATATTATGA
1 TTTATATTAT-A
32858 -TTATA-TAT-
1 TTTATATTATA
*
32866 TTTA-ATTATT
1 TTTATATTATA
32876 TTTATATTATA
1 TTTATATTATA
32887 TTTATATT
1 TTTATATT
32895 GTATAAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
8 1 0.03
9 6 0.19
10 7 0.22
11 18 0.56
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTATATTATA
Found at i:33018 original size:22 final size:22
Alignment explanation
Indices: 32953--33018 Score: 53
Period size: 23 Copynumber: 2.9 Consensus size: 22
32943 TAGGTAACAA
* * *
32953 TTATTATAAATTTAATGATTTAT
1 TTATTA-AAATATAATTATATAT
* *
32976 ATATGTAAATTAT-ATTCATATAT
1 TTAT-TAAAATATAATT-ATATAT
32999 TTATTAAAATATAATTATAT
1 TTATTAAAATATAATTATAT
33019 TTAAAATATT
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
22 13 0.39
23 18 0.55
24 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (22 bp):
TTATTAAAATATAATTATATAT
Found at i:33033 original size:15 final size:16
Alignment explanation
Indices: 32993--33036 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
32983 AATTATATTC
32993 ATATATT-TA-TTAAA
1 ATATATTATATTTAAA
33007 ATATAATTATATTTAAA
1 ATAT-ATTATATTTAAA
33024 ATAT-TTATATTTA
1 ATATATTATATTTA
33037 TATAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.15
15 12 0.44
16 2 0.07
17 9 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATTATATTTAAA
Found at i:33131 original size:11 final size:10
Alignment explanation
Indices: 33109--33246 Score: 62
Period size: 10 Copynumber: 14.1 Consensus size: 10
33099 TTTAATAATT
*
33109 TATATATCTA
1 TATATATTTA
33119 TAGTATATTTA
1 TA-TATATTTA
*
33130 TATATTTTTA
1 TATATATTTA
33140 T-TATA-TTA
1 TATATATTTA
33148 TA-AT-TTTA
1 TATATATTTA
**
33156 T-TA-AAATA
1 TATATATTTA
33164 T-TAATATTTA
1 TAT-ATATTTA
*
33174 TATGAATATTAA
1 TAT--ATATTTA
*
33186 TATATAATTA
1 TATATATTTA
*
33196 TTTATA-TTA
1 TATATATTTA
*
33205 TATAAAATTTA
1 TAT-ATATTTA
*
33216 -AAATATTTA
1 TATATATTTA
33225 TAT-TATATTA
1 TATATAT-TTA
33235 TATTATATTTA
1 TA-TATATTTA
33246 T
1 T
33247 TTCATGACAA
Statistics
Matches: 97, Mismatches: 16, Indels: 29
0.68 0.11 0.20
Matches are distributed among these distances:
8 15 0.15
9 18 0.19
10 33 0.34
11 18 0.19
12 13 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (10 bp):
TATATATTTA
Found at i:33144 original size:19 final size:19
Alignment explanation
Indices: 33106--33158 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
33096 TTATTTAATA
* * *
33106 ATTTATATATCTATAGTAT
1 ATTTATATATTTTTATTAT
33125 ATTTATATATTTTTATTAT
1 ATTTATATATTTTTATTAT
33144 A-TTATA-A-TTTTATTA
1 ATTTATATATTTTTATTA
33159 AAATATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 8 0.26
17 1 0.03
18 5 0.16
19 17 0.55
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTTATATATTTTTATTAT
Found at i:33183 original size:26 final size:25
Alignment explanation
Indices: 33154--33234 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
33144 ATTATAATTT
33154 TATTAAAATATTAATATTTATATGAA
1 TATTAAAATATTAATATTTATAT-AA
* *
33180 TATTAATATA-TAATTATTTATATTA
1 TATTAAAATATTAA-TATTTATATAA
*
33205 TA-TAAAAT-TTAAAATATTTATATTA
1 TATTAAAATATT--AATATTTATATAA
33230 TATTA
1 TATTA
33235 TATTATATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 6 0.13
25 19 0.40
26 22 0.47
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (25 bp):
TATTAAAATATTAATATTTATATAA
Found at i:33210 original size:137 final size:136
Alignment explanation
Indices: 32962--33224 Score: 359
Period size: 137 Copynumber: 1.9 Consensus size: 136
32952 ATTATTATAA
* * *
32962 ATTTAATGATTTATATATGTAAATTATATTCATATATTTATTAAAATATAATTATATTTAAAATA
1 ATTTAATAATTTATATATCTAAAGTATATTCATATATTTATTAAAATATAATTATATTTAAAATA
* * *
33027 TTTATATTTATATAATTTTAATATATTAACAATTCGTATTATATAAAATTTAAAATATTTAAATT
66 TTAATATTTATATAATATTAATATATTAACAATTCATATTATATAAAATTTAAAATATTTAAATT
33092 TATCTT
131 TATCTT
* * * * *
33098 ATTTAATAATTTATATATCTATAGTATATTTATATATTTTTATTATATTATAATTTTA-TTAAAA
1 ATTTAATAATTTATATATCTAAAGTATATTCATATA--TTTATTAAAATATAATTATATTTAAAA
** *
33162 TATTAATATTTATATGAATATTAATATA-TAATTATTTATATTATATAAAATTTAAAATATTTA
64 TATTAATATTTATAT-AATATTAATATATTAACAATTCATATTATATAAAATTTAAAATATTTA
33225 TATTATATTA
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
136 31 0.28
137 51 0.46
138 28 0.25
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (136 bp):
ATTTAATAATTTATATATCTAAAGTATATTCATATATTTATTAAAATATAATTATATTTAAAATA
TTAATATTTATATAATATTAATATATTAACAATTCATATTATATAAAATTTAAAATATTTAAATT
TATCTT
Found at i:33211 original size:50 final size:48
Alignment explanation
Indices: 33123--33248 Score: 120
Period size: 50 Copynumber: 2.6 Consensus size: 48
33113 TATCTATAGT
* * *
33123 ATATTTATAT-AT-TTTTATTAT-ATTA-TAATTTTATTAAAATATT-A
1 ATATTTATATAATATTATATTATAATTATTTATATTATTAAAAT-TTAA
33167 ATATTTATATGAATATTA-ATATATAATTATTTATATTATATAAAATTTAAA
1 ATATTTATAT-AATATTATAT-TATAATTATTTATATTAT-TAAAATTT-AA
* *
33218 ATATTTATATTATATTATATTATATTTATTT
1 ATATTTATATAATATTATATTATAATTATTT
33249 CATGACAAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
44 10 0.15
46 4 0.06
47 5 0.07
48 4 0.06
49 9 0.13
50 22 0.33
51 13 0.19
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (48 bp):
ATATTTATATAATATTATATTATAATTATTTATATTATTAAAATTTAA
Found at i:33247 original size:25 final size:24
Alignment explanation
Indices: 33168--33248 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
33158 AAAATATTAA
*
33168 TATTTATATGAATATTAATATATAAT
1 TATTTATAT-TATATTAAT-TATAAT
* *
33194 TATTTATATTATATAAAATT-TAAAA
1 TATTTATATTATAT-TAATTAT-AAT
*
33219 TATTTATATTATATTATATTATATT
1 TATTTATATTATATTA-ATTATAAT
33244 TATTT
1 TATTT
33249 CATGACAAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
24 2 0.04
25 30 0.67
26 13 0.29
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (24 bp):
TATTTATATTATATTAATTATAAT
Found at i:33683 original size:5 final size:5
Alignment explanation
Indices: 33673--33848 Score: 61
Period size: 5 Copynumber: 35.8 Consensus size: 5
33663 TATGATCTAT
*
33673 TTATA TTATA TT-TA -TATA TT-TAA TTATA TT-TA ATATA TTATA -TAT-
1 TTATA TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA
* * ** * * * *
33718 TTATA -TAAA TTTTA AAATT TTA-A TAAT- TTACA TTAT- TTATA TTTTAA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A
* * *
33765 TT-TAA TTATA -TATA TATATT TTATA TTATA TTTATA TTATTT TTTTA
1 TTAT-A TTATA TTATA T-TATA TTATA TTATA -TTATA TTA-TA TTATA
* *
33812 ATATA TTATA TTTTATA TTATA ATATAA TTATA TTAT
1 TTATA TTATA --TTATA TTATA TTAT-A TTATA TTAT
33849 TTGTATAATT
Statistics
Matches: 124, Mismatches: 27, Indels: 40
0.65 0.14 0.21
Matches are distributed among these distances:
3 1 0.01
4 29 0.23
5 68 0.55
6 21 0.17
7 5 0.04
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:33698 original size:18 final size:18
Alignment explanation
Indices: 33670--33833 Score: 83
Period size: 20 Copynumber: 8.7 Consensus size: 18
33660 AAATATGATC
33670 TATTTATATTATATTTATA
1 TATTTA-ATTATATTTATA
33689 TATTTAATTATATTTA-A
1 TATTTAATTATATTTATA
33706 TATATT-A-TATATTTATA
1 TAT-TTAATTATATTTATA
*
33723 TAAATTTTAA-AAT-TTTA-A
1 T--A-TTTAATTATATTTATA
*
33741 TAATTTACATTAT-TTATATTT
1 T-ATTTA-ATTATATT-TA-TA
*
33762 TAATTTAATTATATATATA
1 T-ATTTAATTATATTTATA
33781 TATTTTATATTATATTTATA
1 TA-TTTA-ATTATATTTATA
**
33801 TTATTTTTTTAATATATTATA
1 -TATTTAATT-ATAT-TTATA
33822 T-TTTATATTATA
1 TATTTA-ATTATA
33834 ATATAATTAT
Statistics
Matches: 117, Mismatches: 10, Indels: 36
0.72 0.06 0.22
Matches are distributed among these distances:
16 12 0.10
17 10 0.09
18 19 0.16
19 29 0.25
20 32 0.27
21 15 0.13
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTAATTATATTTATA
Found at i:34112 original size:18 final size:17
Alignment explanation
Indices: 34091--34125 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34081 AAATATTTTT
34091 TAAAATAAAATATAAATA
1 TAAAATAAAATA-AAATA
*
34109 TAAAATAATATAAAATA
1 TAAAATAAAATAAAATA
34126 GTATAAATAT
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAAAATAAAATA
Found at i:34120 original size:16 final size:18
Alignment explanation
Indices: 34099--34141 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
34089 TTTAAAATAA
34099 AATATAAATA-TA-AAAT
1 AATATAAATAGTATAAAT
34115 AATATAAAATAGTATAAAT
1 AATAT-AAATAGTATAAAT
34134 -ATATAAAT
1 AATATAAAT
34142 TTAACTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 6 0.25
19 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AATATAAATAGTATAAAT
Found at i:34139 original size:18 final size:17
Alignment explanation
Indices: 34095--34140 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
34085 ATTTTTTAAA
34095 ATAAA-ATAT-AAATAT
1 ATAAATATATAAAATAT
34110 A-AAATAATATAAAATAGT
1 ATAAAT-ATATAAAATA-T
34128 ATAAATATATAAA
1 ATAAATATATAAA
34141 TTTAACTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.12
15 1 0.04
16 4 0.15
17 5 0.19
18 9 0.35
19 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAATATATAAAATAT
Found at i:34365 original size:30 final size:30
Alignment explanation
Indices: 34331--34392 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
34321 ATCCATCTCA
* *
34331 TATTATTATCTTATATTTTAATT-AATAATT
1 TATTAATATCATA-ATTTTAATTCAATAATT
* *
34361 TATTAATATGATAATTTTTATTCAATAATT
1 TATTAATATCATAATTTTAATTCAATAATT
34391 TA
1 TA
34393 AAAACAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (30 bp):
TATTAATATCATAATTTTAATTCAATAATT
Found at i:36068 original size:426 final size:426
Alignment explanation
Indices: 35378--36230 Score: 1490
Period size: 426 Copynumber: 2.0 Consensus size: 426
35368 TACCTTTTAT
* * * *
35378 ATAAAAAAAATCATCATGATCATCGATTTCACCTACATTAACTGATACCTTTACATTCTCTTTAA
1 ATAAAAAAAATAATCATGATAATCGATTTCACCTACATTAACTAATACCTTTACATTCCCTTTAA
* *
35443 ACAATTTTAGAGTCTTCAAGTCTTCTCACATTTATGGACATTGGATTGAAAGTGCCTAGCTTTTT
66 ACAATTTTAGAGTCTTCAAGTCTTCTCACATTTATGGACATTGGATTGAAAGTGCCCAGCCTTTT
35508 CACAACAATAGCACTTCATATCACCATAGTTTCTCCCTCTAGACTTTTTTCATTTTCTAATTTTA
131 CACAACAATAGCACTTCATATCACCATAGTTTCTCCCTCTAGACTTTTTTCATTTTCTAATTTTA
* *
35573 CTATAGAAAGTGTTCATCTTTGATATCTCTTCACAGCTAGTATGCTTTCACTTTCATTGGTATGA
196 CTACAAAAAGTGTTCATCTTTGATATCTCTTCACAGCTAGTATGCTTTCACTTTCATTGGTATGA
* * *
35638 TCCTTTCTATGCATCTTCTGATTCTCTTCCAGGACTGTGATCACATCATTTAGCTTGATGGTATT
261 TCCTTTCTATGCATCCTCTGATTCTCTTCCAAGACTGTGATCACATCATTTAGCTTAATGGTATT
* *
35703 TTTGCTAATCAATAGCAACCTTACTAATGATATGTAAGATTATGGTAGTGAAGCTAACAATTGCT
326 TTTGCTAATCAATAGCAACCTTACTAATGATATATAAGATTATGGTAATGAAGCTAACAATTGCT
35768 TGATTTTCATCACTTAACTCTTCTCTTATATTTAAC
391 TGATTTTCATCACTTAACTCTTCTCTTATATTTAAC
* * *
35804 ATAAAACAAATAATCTTGATAATCGATTTCACCTACATTAGCTAATACCTTTACATTCCCTTTAA
1 ATAAAAAAAATAATCATGATAATCGATTTCACCTACATTAACTAATACCTTTACATTCCCTTTAA
35869 ACAATTTTAGAGTCTTCAAGTCTTCTCACATTTATGGACATTGGATTGAAAGTGCCCAGCCTTTT
66 ACAATTTTAGAGTCTTCAAGTCTTCTCACATTTATGGACATTGGATTGAAAGTGCCCAGCCTTTT
*
35934 CACAACAATAGCACTTCATATCACCATAGTTTCTCTCTCTAGACTTTTTTCATTTTCTAATTTTA
131 CACAACAATAGCACTTCATATCACCATAGTTTCTCCCTCTAGACTTTTTTCATTTTCTAATTTTA
*
35999 CTACAAAAAGTGTTCATCTTTTATATCTCTTCACAGCTAGTATGCTTTCACTTTCATTGGTATGA
196 CTACAAAAAGTGTTCATCTTTGATATCTCTTCACAGCTAGTATGCTTTCACTTTCATTGGTATGA
* * *
36064 TCCTTTTTATGCATCCTCTGATTCTCTTCGAAGACTGTGATCACATTATTTAGCTTAATGGTATT
261 TCCTTTCTATGCATCCTCTGATTCTCTTCCAAGACTGTGATCACATCATTTAGCTTAATGGTATT
* *
36129 TTTGCTAATCAATAGCAACCTTACTAATGATCTATAAGATTATGGTAATGAAGCTAACACTTGCT
326 TTTGCTAATCAATAGCAACCTTACTAATGATATATAAGATTATGGTAATGAAGCTAACAATTGCT
*
36194 TGATTTTTATCACTTAACTCTTCTCTTATATTTAAC
391 TGATTTTCATCACTTAACTCTTCTCTTATATTTAAC
36230 A
1 A
36231 ATTGGCTAAC
Statistics
Matches: 403, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
426 403 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (426 bp):
ATAAAAAAAATAATCATGATAATCGATTTCACCTACATTAACTAATACCTTTACATTCCCTTTAA
ACAATTTTAGAGTCTTCAAGTCTTCTCACATTTATGGACATTGGATTGAAAGTGCCCAGCCTTTT
CACAACAATAGCACTTCATATCACCATAGTTTCTCCCTCTAGACTTTTTTCATTTTCTAATTTTA
CTACAAAAAGTGTTCATCTTTGATATCTCTTCACAGCTAGTATGCTTTCACTTTCATTGGTATGA
TCCTTTCTATGCATCCTCTGATTCTCTTCCAAGACTGTGATCACATCATTTAGCTTAATGGTATT
TTTGCTAATCAATAGCAACCTTACTAATGATATATAAGATTATGGTAATGAAGCTAACAATTGCT
TGATTTTCATCACTTAACTCTTCTCTTATATTTAAC
Found at i:41742 original size:65 final size:65
Alignment explanation
Indices: 41599--41746 Score: 156
Period size: 65 Copynumber: 2.3 Consensus size: 65
41589 ACATGATTAA
* * * * * * *
41599 TTAATCGTGTCATAAATATATAATCGTGTCATATCTATCCGTTTACACGGTTAATACACGATTAG
1 TTAATCATATCATAAATGTATAATCGTGTCATATCTATCCATTAACACGGTTAAAACACGATGAG
* * * *
41664 TTAATCATGTCATAAATGTATAATCGTGTTGATA-CGTATCCATTAACACGTTTAAAATACGATG
1 TTAATCATATCATAAATGTATAATCGTG-TCATATC-TATCCATTAACACGGTTAAAACACGATG
*
41728 AT
64 AG
41730 TTAAT-ATATCATAAATG
1 TTAATCATATCATAAATG
41747 AATAGATAGG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
65 38 0.54
66 32 0.46
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (65 bp):
TTAATCATATCATAAATGTATAATCGTGTCATATCTATCCATTAACACGGTTAAAACACGATGAG
Found at i:44634 original size:11 final size:12
Alignment explanation
Indices: 44618--44655 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
44608 TATATTCATG
44618 TATTTAT-ATCA
1 TATTTATAATCA
44629 TATTTATAAT-A
1 TATTTATAATCA
*
44640 TTTTTATAATCA
1 TATTTATAATCA
44652 TATT
1 TATT
44656 ATATTATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTATAATCA
Found at i:46206 original size:13 final size:13
Alignment explanation
Indices: 46188--46212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46178 ATTACTCAAA
46188 TGTATCGATACAT
1 TGTATCGATACAT
46201 TGTATCGATACA
1 TGTATCGATACA
46213 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:46265 original size:52 final size:52
Alignment explanation
Indices: 46221--46348 Score: 247
Period size: 52 Copynumber: 2.5 Consensus size: 52
46211 CACTGATCTT
46221 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
46273 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
46325 TGTATCGATACATGCAGGCAAATT
1 TGTATCGATACATGCAGGCAAATT
46349 CTCATATTTC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:50232 original size:27 final size:27
Alignment explanation
Indices: 50192--50244 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
50182 TATAAAATTT
* *
50192 ATTTATATATAAATATTTTATAATTAC
1 ATTTAAATACAAATATTTTATAATTAC
*
50219 ATTTAAATACAAATATTTTTTAATTA
1 ATTTAAATACAAATATTTTATAATTA
50245 TTAAATATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTAAATACAAATATTTTATAATTAC
Found at i:50964 original size:20 final size:21
Alignment explanation
Indices: 50941--50985 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
50931 AAAATATAGA
50941 GATATAATGTGT-ATTATATC
1 GATATAATGTGTAATTATATC
* *
50961 GATATACTTTGTAATTATATC
1 GATATAATGTGTAATTATATC
50982 GATA
1 GATA
50986 CATTTACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (21 bp):
GATATAATGTGTAATTATATC
Found at i:51213 original size:15 final size:15
Alignment explanation
Indices: 51193--51221 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51183 CTGCAATCTC
51193 TTTTTATTATTTTAT
1 TTTTTATTATTTTAT
51208 TTTTTATTATTTTA
1 TTTTTATTATTTTA
51222 ATTAAACTTT
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTATTTTAT
Found at i:51535 original size:17 final size:16
Alignment explanation
Indices: 51515--51551 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
51505 TTATATAAAA
51515 TATATTAAAATATTTAT
1 TATATTAAAATATTT-T
*
51532 TATATTAATATATTTT
1 TATATTAAAATATTTT
51548 TATA
1 TATA
51552 AATAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTAAAATATTTT
Found at i:51634 original size:16 final size:16
Alignment explanation
Indices: 51597--51638 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
51587 AAATCAAACT
51597 ATAAATTTAAATTATC
1 ATAAATTTAAATTATC
*
51613 AAAAATTTAAATTAT-
1 ATAAATTTAAATTATC
51628 ATTAAATTTAA
1 A-TAAATTTAA
51639 TTTCAATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAATTTAAATTATC
Found at i:51921 original size:13 final size:13
Alignment explanation
Indices: 51903--51930 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51893 AACACCTTAA
51903 CTTTATGTGATTG
1 CTTTATGTGATTG
51916 CTTTATGTGATTG
1 CTTTATGTGATTG
51929 CT
1 CT
51931 GATGTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.21, T:0.54
Consensus pattern (13 bp):
CTTTATGTGATTG
Found at i:53522 original size:55 final size:55
Alignment explanation
Indices: 53463--53567 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
53453 ATGATAAAGA
* *
53463 TTGAAGTTCATGCCCGC-AACAAGACTCTTGTGGGTCACCTTGGCCATGATTGAGG
1 TTGAAGTTCACG-CAGCTAACAAGACTCTTGTGGGTCACCTTGGCCATGATTGAGG
* *
53518 TTGAAGTTCACGCAGCTAATAGGACTCTTGTGGGTCACCTTGGCCATGAT
1 TTGAAGTTCACGCAGCTAACAAGACTCTTGTGGGTCACCTTGGCCATGAT
53568 CTGTTTGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 3 0.07
55 42 0.93
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (55 bp):
TTGAAGTTCACGCAGCTAACAAGACTCTTGTGGGTCACCTTGGCCATGATTGAGG
Found at i:53737 original size:16 final size:16
Alignment explanation
Indices: 53713--53803 Score: 51
Period size: 16 Copynumber: 5.6 Consensus size: 16
53703 GTTTATTTAA
*
53713 TTTTGATTTAAATAAT
1 TTTTTATTTAAATAAT
53729 TTTTTATTTAAA-AAT
1 TTTTTATTTAAATAAT
* *
53744 ATTTATATTTATA-AAT
1 -TTTTTATTTAAATAAT
*** *
53760 AAATAATTTAAATATAT
1 TTTTTATTTAAATA-AT
* *
53777 TTTTATTTTTATTATAAT
1 TTTT-TATTTA-AATAAT
53795 TTTTTATTT
1 TTTTTATTT
53804 TTAAATATAT
Statistics
Matches: 54, Mismatches: 16, Indels: 9
0.68 0.20 0.11
Matches are distributed among these distances:
15 9 0.17
16 25 0.46
17 7 0.13
18 10 0.19
19 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (16 bp):
TTTTTATTTAAATAAT
Found at i:53747 original size:17 final size:16
Alignment explanation
Indices: 53712--53784 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
53702 AGTTTATTTA
*
53712 ATTTTGATTTAAATAAT
1 ATTTTTATTTAAA-AAT
53729 -TTTTTATTTAAAAAT
1 ATTTTTATTTAAAAAT
* *
53744 ATTTATATTTATAAAT
1 ATTTTTATTTAAAAAT
** * *
53760 A-AATAATTTAAATAT
1 ATTTTTATTTAAAAAT
53775 ATTTTTATTT
1 ATTTTTATTT
53785 TTATTATAAT
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
15 12 0.29
16 30 0.71
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
ATTTTTATTTAAAAAT
Found at i:53815 original size:19 final size:19
Alignment explanation
Indices: 53766--53816 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
53756 AAATAAATAA
53766 TTTAAATATA-TTTTTATT
1 TTTAAATATATTTTTTATT
*
53784 TTT-ATTATAATTTTTTATT
1 TTTAAATAT-ATTTTTTATT
53803 TTTAAATATATTTT
1 TTTAAATATATTTT
53817 AATTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.14
18 4 0.14
19 16 0.57
20 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTAAATATATTTTTTATT
Found at i:53816 original size:18 final size:18
Alignment explanation
Indices: 53766--53821 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
53756 AAATAAATAA
53766 TTTAAATATATTTTTATT
1 TTTAAATATATTTTTATT
*
53784 TTT-ATTATAATTTTTTATT
1 TTTAAATAT-A-TTTTTATT
*
53803 TTTAAATATATTTTAATT
1 TTTAAATATATTTTTATT
53821 T
1 T
53822 AATTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.12
18 12 0.38
19 12 0.38
20 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAAATATATTTTTATT
Found at i:53825 original size:30 final size:30
Alignment explanation
Indices: 53780--53865 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
53770 AATATATTTT
* *
53780 TATTTTTATTATAATTTTTTATTTTTAAATA
1 TATTTTAATT-TAATTTTTTATTATTAAATA
* *
53811 TATTTTAATTTAATTTTTAATAATTAAATA
1 TATTTTAATTTAATTTTTTATTATTAAATA
* *
53841 TATTTTTATTATTAAATTTTTATTA
1 TA-TTTTAAT-TTAATTTTTTATTA
53866 ATATTCTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
30 19 0.42
31 15 0.33
32 11 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TATTTTAATTTAATTTTTTATTATTAAATA
Found at i:54477 original size:19 final size:18
Alignment explanation
Indices: 54434--54477 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
54424 TAAATTTATT
54434 TTTTAAAAATAAAAATATA
1 TTTT-AAAATAAAAATATA
*
54453 TATTAAAATAAAAATAATA
1 TTTTAAAATAAAAAT-ATA
54472 TTTTAA
1 TTTTAA
54478 TAATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAATAAAAATATA
Found at i:54480 original size:17 final size:18
Alignment explanation
Indices: 54439--54473 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54429 TTATTTTTTA
54439 AAAATAAAAATATATATT
1 AAAATAAAAATATATATT
54457 AAAATAAAAATA-ATATT
1 AAAATAAAAATATATATT
54474 TTAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATAAAAATATATATT
Found at i:54528 original size:23 final size:20
Alignment explanation
Indices: 54471--54531 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 20
54461 TAAAAATAAT
*
54471 ATTTTAATAATTTAATAAAA
1 ATTTTAAAAATTTAATAAAA
54491 ATTTTAATATTAATTTAAGTAAAAAA
1 ATTTTAA-A--AATTTAA-T--AAAA
54517 ATTTTAAAAATTTAA
1 ATTTTAAAAATTTAA
54532 ATCATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 7 0.21
23 14 0.41
24 1 0.03
25 1 0.03
26 11 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTTAAAAATTTAATAAAA
Found at i:54571 original size:20 final size:20
Alignment explanation
Indices: 54537--54579 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
54527 TTTAAATCAT
54537 AATTTAATATAAAAT-TAAA
1 AATTTAATATAAAATATAAA
*
54556 AATTTAAATTTAAAATATAAA
1 AATTT-AATATAAAATATAAA
54577 AAT
1 AAT
54580 ATTTTTATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTTAATATAAAATATAAA
Found at i:54658 original size:31 final size:31
Alignment explanation
Indices: 54620--54689 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
54610 TTAATATATC
*
54620 GAATGTCTTGGATTCTTCCTAGCAGCATCCA
1 GAATGTCTTGGATTCTTCCCAGCAGCATCCA
* *
54651 GAATGTCTTGGTTTCTTCCCAGCAGTATCCA
1 GAATGTCTTGGATTCTTCCCAGCAGCATCCA
54682 GAATGTCT
1 GAATGTCT
54690 AGTGTCTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (31 bp):
GAATGTCTTGGATTCTTCCCAGCAGCATCCA
Found at i:54705 original size:30 final size:31
Alignment explanation
Indices: 54620--54718 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
54610 TTAATATATC
* * *
54620 GAATGTCTTGGAT-TCTTCCTAGCAGCATCCA
1 GAATGTCTTAG-TGTCTTCCCAGCAGTATCCA
* *
54651 GAATGTCTTGGTTTCTTCCCAGCAGTATCCA
1 GAATGTCTTAGTGTCTTCCCAGCAGTATCCA
* *
54682 GAATGTC-TAGTGTCTTCCGAGCAGTAACCA
1 GAATGTCTTAGTGTCTTCCCAGCAGTATCCA
*
54712 AAATGTC
1 GAATGTC
54719 CAGTTCTGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
30 26 0.43
31 34 0.57
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (31 bp):
GAATGTCTTAGTGTCTTCCCAGCAGTATCCA
Found at i:55265 original size:14 final size:13
Alignment explanation
Indices: 55248--55296 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
55238 ATTATTTTTA
55248 ATTTATTAATTAAT
1 ATTTATTAA-TAAT
55262 ATTTA-T-A-AAT
1 ATTTATTAATAAT
*
55272 ATTGATTAATAATT
1 ATTTATTAATAA-T
55286 ATTTATTAATA
1 ATTTATTAATA
55297 TAGATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 7 0.24
11 1 0.03
12 2 0.07
13 3 0.10
14 16 0.55
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
ATTTATTAATAAT
Found at i:55288 original size:24 final size:24
Alignment explanation
Indices: 55237--55297 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
55227 TAATTAAAAA
55237 AATTATTT-TTAAT-TTATTAATT
1 AATTATTTATTAATATTATTAATT
*
55259 AA-TATTTATAAATATTGATTAA-T
1 AATTATTTATTAATATT-ATTAATT
55282 AATTATTTATTAATAT
1 AATTATTTATTAATAT
55298 AGATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 5 0.15
22 6 0.18
23 5 0.15
24 17 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
AATTATTTATTAATATTATTAATT
Found at i:55670 original size:20 final size:22
Alignment explanation
Indices: 55629--55676 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
55619 AAATAAAAAA
*
55629 TTATT-TTAAAATATTTAAATT
1 TTATTATTAAAATATTCAAATT
55650 TT-TTATTAAAA-ATTCAAATT
1 TTATTATTAAAATATTCAAATT
55670 TTATTAT
1 TTATTAT
55677 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTATTAAAATATTCAAATT
Found at i:55901 original size:9 final size:9
Alignment explanation
Indices: 55887--55918 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
55877 ATTAATAATT
55887 TTTTTTTAA
1 TTTTTTTAA
55896 TTTTTTTAA
1 TTTTTTTAA
55905 --TTTTTAA
1 TTTTTTTAA
55912 TTTTTTT
1 TTTTTTT
55919 TATCAATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:68324 original size:14 final size:14
Alignment explanation
Indices: 68283--68325 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
68273 ATAAATTTAA
* *
68283 ATTTTAAATTTTAAT
1 ATTTTTAATTTT-TT
*
68298 ATTTATAATTTTTT
1 ATTTTTAATTTTTT
68312 ATTTTTAATTTTTT
1 ATTTTTAATTTTTT
68326 TATAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:68987 original size:22 final size:20
Alignment explanation
Indices: 68960--69003 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
68950 CGTATACTAA
68960 TATTATATTCTCATGTTATTTT
1 TATTATATT-TCAT-TTATTTT
*
68982 TATTATATTTTATTTATTTT
1 TATTATATTTCATTTATTTT
69002 TA
1 TA
69004 AGATATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 3 0.14
22 9 0.43
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTATATTTCATTTATTTT
Found at i:71139 original size:34 final size:34
Alignment explanation
Indices: 71073--71191 Score: 96
Period size: 33 Copynumber: 3.4 Consensus size: 34
71063 TTATATGAAT
* * *
71073 ATATATGAAAAATAATTAAAATATAATATAATATAA
1 ATATAT-AAATATATTTAAAAT-TTATATAATATAA
* *
71109 ATATATAAATATTTTTAAAATTTATATAATATTA
1 ATATATAAATATATTTAAAATTTATATAATATAA
* ** *
71143 AT-TATTAATATATAAAAAAATTATATAAATATAAA
1 ATATATAAATATATTTAAAATTTATAT-AATAT-AA
*
71178 ATATCTTAAATATA
1 ATAT-ATAAATATA
71192 ATTATAATAC
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
33 19 0.29
34 18 0.27
35 15 0.23
36 7 0.11
37 7 0.11
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
ATATATAAATATATTTAAAATTTATATAATATAA
Found at i:71433 original size:11 final size:11
Alignment explanation
Indices: 71414--71479 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
71404 AAAATATTTA
* *
71414 TATACTTATGT
1 TATATTTATAT
71425 TATATTTATAT
1 TATATTTATAT
*
71436 TATTTTTTATAT
1 TA-TATTTATAT
71448 TATATTT-TAAT
1 TATATTTAT-AT
*
71459 TATATTTTTAT
1 TATATTTATAT
*
71470 CATATTTATA
1 TATATTTATA
71480 AACATATTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
10 1 0.02
11 34 0.74
12 11 0.24
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (11 bp):
TATATTTATAT
Found at i:71446 original size:12 final size:12
Alignment explanation
Indices: 71429--71469 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
71419 TTATGTTATA
71429 TTTATATTATTT
1 TTTATATTATTT
*
71441 TTTATATTATAT
1 TTTATATTATTT
71453 TTTA-ATTATATT
1 TTTATATTAT-TT
71465 TTTAT
1 TTTAT
71470 CATATTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:71450 original size:23 final size:23
Alignment explanation
Indices: 71419--71479 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
71409 ATTTATATAC
* *
71419 TTATGTTATATTTATATTATTTT
1 TTATATTATATTTATATTATATT
71442 TTATATTATATTT-TAATTATATT
1 TTATATTATATTTAT-ATTATATT
*
71465 TT-TATCATATTTATA
1 TTATATTATATTTATA
71480 AACATATTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 11 0.33
23 22 0.67
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTATATTATATTTATATTATATT
Found at i:72346 original size:3 final size:3
Alignment explanation
Indices: 72330--72370 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
72320 GGGAGTGTGA
*
72330 AGG AGG A-G ACGG AGG AGG AGG AGG AGG AGG AAG AGG AGG AG
1 AGG AGG AGG A-GG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
72371 ACAAGGGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.61, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:80797 original size:16 final size:17
Alignment explanation
Indices: 80778--80813 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
80768 TAAAAGGTTT
80778 GAAAT-TGAAAAAGCTC
1 GAAATCTGAAAAAGCTC
*
80794 GAAATCTGTAAAAGCTC
1 GAAATCTGAAAAAGCTC
80811 GAA
1 GAA
80814 TCCATTGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (17 bp):
GAAATCTGAAAAAGCTC
Found at i:80851 original size:22 final size:22
Alignment explanation
Indices: 80826--80899 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
80816 CATTGCAATT
80826 TGAGCCCGAAACTAATTTGATC
1 TGAGCCCGAAACTAATTTGATC
** * *
80848 TGAGCCTTAAACTCCA-TTGCAATT
1 TGAGCCCGAAACT-AATTTG--ATC
80872 TGAGCCCGAAACTAATTTGATC
1 TGAGCCCGAAACTAATTTGATC
80894 TGAGCC
1 TGAGCC
80900 TTAAACTGAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
22 22 0.55
23 2 0.05
24 16 0.40
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (22 bp):
TGAGCCCGAAACTAATTTGATC
Found at i:80864 original size:46 final size:46
Alignment explanation
Indices: 80814--80906 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
80804 AAAGCTCGAA
80814 TCCATTGCAATTTGAGCCCGAAACTAATTTGATCTGAGCCTTAAAC
1 TCCATTGCAATTTGAGCCCGAAACTAATTTGATCTGAGCCTTAAAC
80860 TCCATTGCAATTTGAGCCCGAAACTAATTTGATCTGAGCCTTAAAC
1 TCCATTGCAATTTGAGCCCGAAACTAATTTGATCTGAGCCTTAAAC
80906 T
1 T
80907 GATCCAATCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (46 bp):
TCCATTGCAATTTGAGCCCGAAACTAATTTGATCTGAGCCTTAAAC
Found at i:80883 original size:24 final size:24
Alignment explanation
Indices: 80814--80884 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
80804 AAAGCTCGAA
80814 TCCATTGCAATTTGAGCCCGAAAC
1 TCCATTGCAATTTGAGCCCGAAAC
* * **
80838 T-AATTTG--ATCTGAGCCTTAAAC
1 TCCA-TTGCAATTTGAGCCCGAAAC
80860 TCCATTGCAATTTGAGCCCGAAAC
1 TCCATTGCAATTTGAGCCCGAAAC
80884 T
1 T
80885 AATTTGATCT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
22 16 0.46
23 2 0.06
24 17 0.49
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (24 bp):
TCCATTGCAATTTGAGCCCGAAAC
Found at i:82623 original size:18 final size:17
Alignment explanation
Indices: 82579--82623 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
82569 TATACAATCA
82579 ATATTATTATAATTATAT
1 ATATTA-TATAATTATAT
**
82597 ATAGCATATAATTAATAT
1 ATATTATATAATT-ATAT
82615 ATATTATAT
1 ATATTATAT
82624 CATGTACAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
ATATTATATAATTATAT
Found at i:83347 original size:16 final size:15
Alignment explanation
Indices: 83328--83450 Score: 70
Period size: 16 Copynumber: 7.9 Consensus size: 15
83318 ATTCGAATCG
83328 ATCTAAATTCAAAATA
1 ATCTAAATT-AAAATA
*
83344 ATCTAAACTTAAAAAA
1 ATCTAAA-TTAAAATA
* **
83360 ATTTGTATCTAAAATGA
1 ATCTAAAT-TAAAAT-A
* * *
83377 CTCAAAACTAAAATA
1 ATCTAAATTAAAATA
*
83392 ATCTAAATTTAAAATT
1 ATCTAAA-TTAAAATA
* *
83408 ATTTAAA-TAAAAAA
1 ATCTAAATTAAAATA
83422 AT-TAAATTTAAAATA
1 ATCTAAA-TTAAAATA
*
83437 ATTTAAATCTAAAA
1 ATCTAAAT-TAAAA
83451 ATATATCAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 16
0.70 0.17 0.14
Matches are distributed among these distances:
13 4 0.05
14 7 0.09
15 16 0.20
16 48 0.60
17 5 0.06
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (15 bp):
ATCTAAATTAAAATA
Found at i:83429 original size:29 final size:30
Alignment explanation
Indices: 83385--83444 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
83375 GACTCAAAAC
* *
83385 TAAAATAATCTAAATTTAAAATTATTTAAA
1 TAAAAAAATCTAAATTTAAAATAATTTAAA
83415 TAAAAAAAT-TAAATTTAAAATAATTTAAA
1 TAAAAAAATCTAAATTTAAAATAATTTAAA
83444 T
1 T
83445 CTAAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
TAAAAAAATCTAAATTTAAAATAATTTAAA
Found at i:83709 original size:20 final size:17
Alignment explanation
Indices: 83670--83711 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 17
83660 TTTGATTAAG
83670 TTTAATTTATTAAAAAT
1 TTTAATTTATTAAAAAT
83687 TTTAATTTTATTATAATAAT
1 TTTAA-TTTATTA-AA-AAT
83707 TTTAA
1 TTTAA
83712 AGAATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
19 2 0.09
20 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTAATTTATTAAAAAT
Found at i:83719 original size:13 final size:13
Alignment explanation
Indices: 83701--83725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83691 ATTTTATTAT
83701 AATAATTTTAAAG
1 AATAATTTTAAAG
83714 AATAATTTTAAA
1 AATAATTTTAAA
83726 ATACTCATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATTTTAAAG
Found at i:83882 original size:16 final size:17
Alignment explanation
Indices: 83818--83886 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 17
83808 TTTAACGATG
83818 TTAATATAAAATATTTAT
1 TTAATATAAAA-ATTTAT
* * *
83836 AT-ATTTAATAAAATTA-
1 TTAATATAA-AAATTTAT
83852 -TAATATAAAAATTTAT
1 TTAATATAAAAATTTAT
*
83868 TTAAT-TAAAATTTTAT
1 TTAATATAAAAATTTAT
83884 TTA
1 TTA
83887 CCTACTCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
15 7 0.17
16 18 0.44
17 13 0.32
18 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATAAAAATTTAT
Found at i:84337 original size:15 final size:15
Alignment explanation
Indices: 84290--84338 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
84280 GAAAATATTT
84290 TAAAATTTATATAATA
1 TAAAATTTATATAA-A
* *
84306 TAAATTATTAAATAAA
1 TAAAAT-TTATATAAA
84322 TAAAATTTATATAAA
1 TAAAATTTATATAAA
84337 TA
1 TA
84339 TAAAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 10 0.36
16 11 0.39
17 7 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAAATTTATATAAA
Found at i:84341 original size:17 final size:17
Alignment explanation
Indices: 84290--84344 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
84280 GAAAATATTT
84290 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
84306 T-AAA-TTAT-TAAATAAA
1 TAAAATTTATATAAAT--A
84322 TAAAATTTATATAAATA
1 TAAAATTTATATAAATA
84339 TAAAAT
1 TAAAAT
84345 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 7 0.21
15 3 0.09
16 3 0.09
17 10 0.30
18 4 0.12
19 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:87336 original size:18 final size:17
Alignment explanation
Indices: 87303--87374 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 17
87293 TTATAATTAT
*
87303 ATTTATAATATTTTAAA
1 ATTTATAATATATTAAA
87320 ATTTATAAATATATTAATA
1 ATTTAT-AATATATTAA-A
*
87339 TATTTAATAATTTATATTATAT
1 -ATTT-ATAA--TATATTA-AA
*
87361 ATTTTTAATATATT
1 ATTTATAATATATT
87375 TTTATATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
17 6 0.13
18 15 0.33
19 1 0.02
20 9 0.20
21 6 0.13
22 7 0.16
23 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTATAATATATTAAA
Found at i:87382 original size:19 final size:18
Alignment explanation
Indices: 87299--87398 Score: 69
Period size: 20 Copynumber: 5.3 Consensus size: 18
87289 TATATTATAA
87299 TTATATTTATAATA-TTT
1 TTATATTTATAATATTTT
* * *
87316 TAAAATTTATAAATATATTA
1 TTATATTTAT-AATAT-TTT
*
87336 ATATATTTAATAAT-TTATAT
1 TTATATTT-ATAATATT-T-T
*
87356 TATATATTTTTAATATATTT
1 T-TATATTTATAATAT-TTT
*
87376 TTATATTTATATTATTTT
1 TTATATTTATAATATTTT
87394 TTATA
1 TTATA
87399 AAAAATATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
17 8 0.13
18 13 0.21
19 14 0.22
20 16 0.25
21 11 0.17
22 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATATTTATAATATTTT
Found at i:87398 original size:26 final size:25
Alignment explanation
Indices: 87329--87398 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
87319 AATTTATAAA
* *
87329 TATATTA-ATATATTTA-ATA-ATT
1 TATATTATATATTTTTATATATTTT
87351 TATATTATATATTTTTAATATATTTT
1 TATATTATATATTTTT-ATATATTTT
87377 TATATTTATATTATTTTT-TATA
1 TATA-TTATA-TATTTTTATATA
87399 AAAAATATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 7 0.17
23 7 0.17
24 1 0.03
25 3 0.08
26 10 0.25
27 5 0.12
28 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATTATATATTTTTATATATTTT
Found at i:88108 original size:14 final size:15
Alignment explanation
Indices: 88089--88121 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
88079 AATTTAAAAT
88089 TATTTTTAT-ATTAA
1 TATTTTTATAATTAA
88103 TATTTTTATAATTAA
1 TATTTTTATAATTAA
88118 -ATTT
1 TATTT
88122 ATTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTTATAATTAA
Found at i:88859 original size:27 final size:24
Alignment explanation
Indices: 88829--88877 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
88819 TAATATTTAT
88829 ATATTTTATAATTAAATTTAAATAAAA
1 ATATTTT-TAATT-AA-TTAAATAAAA
*
88856 ATATTTTTTATTAATTAAATAA
1 ATATTTTTAATTAATTAAATAA
88878 TAACTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 2 0.10
26 4 0.19
27 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATTTTTAATTAATTAAATAAAA
Found at i:89256 original size:15 final size:15
Alignment explanation
Indices: 89236--89283 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
89226 ATAAAAAGTG
*
89236 ATTAAAATTGATTTA
1 ATTAAAATTAATTTA
*
89251 ATTAAAA--AAATTA
1 ATTAAAATTAATTTA
*
89264 ATTAAATTTAATTTA
1 ATTAAAATTAATTTA
89279 ATTAA
1 ATTAA
89284 TTTAGTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 10 0.37
15 17 0.63
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
ATTAAAATTAATTTA
Found at i:89423 original size:11 final size:11
Alignment explanation
Indices: 89407--89473 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
89397 AATAGTTAAA
89407 ATATTTAAAAT
1 ATATTTAAAAT
89418 ATATTTAATAA-
1 ATATTTAA-AAT
*
89429 A-ATAT-AAAT
1 ATATTTAAAAT
*
89438 ATATTTAAAAA
1 ATATTTAAAAT
89449 ATATTTAATAAAAT
1 ATA-TT--TAAAAT
89463 ATATTTAAAAT
1 ATATTTAAAAT
89474 CGAAAAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 6 0.13
11 21 0.47
12 4 0.09
13 2 0.04
14 8 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATTTAAAAT
Found at i:89431 original size:14 final size:14
Alignment explanation
Indices: 89412--89470 Score: 64
Period size: 14 Copynumber: 4.0 Consensus size: 14
89402 TTAAAATATT
89412 TAAAATATATTTAA
1 TAAAATATATTTAA
* *
89426 TAAAATATAAATATATT
1 TAAAATAT--ATTTA-A
*
89443 TAAAAAATATTTAA
1 TAAAATATATTTAA
89457 TAAAATATATTTAA
1 TAAAATATATTTAA
89471 AATCGAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
14 21 0.58
15 4 0.11
16 4 0.11
17 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATATTTAA
Found at i:89445 original size:31 final size:30
Alignment explanation
Indices: 89403--89465 Score: 108
Period size: 31 Copynumber: 2.1 Consensus size: 30
89393 AATGAATAGT
*
89403 TAAAATATTTAAAATATATTTAATAAAATA
1 TAAAATATTTAAAAAATATTTAATAAAATA
89433 TAAATATATTTAAAAAATATTTAATAAAATA
1 TAAA-ATATTTAAAAAATATTTAATAAAATA
89464 TA
1 TA
89466 TTTAAAATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TAAAATATTTAAAAAATATTTAATAAAATA
Found at i:89458 original size:20 final size:21
Alignment explanation
Indices: 89403--89458 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
89393 AATGAATAGT
89403 TAAAATATTTAAAATATATTTAA
1 TAAAATATTT--AATATATTTAA
*
89426 TAAAATA-TAAATATATTTAA
1 TAAAATATTTAATATATTTAA
89446 -AAAATATTTAATA
1 TAAAATATTTAATA
89459 AAATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.20
20 16 0.53
22 1 0.03
23 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAATATTTAATATATTTAA
Found at i:89480 original size:31 final size:31
Alignment explanation
Indices: 89413--89482 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
89403 TAAAATATTT
* * * *
89413 AAAATATATTTAATAAAATATAAATATATTT
1 AAAAAATATTTAATAAAATATAAATAAAATC
**
89444 AAAAAATATTTAATAAAATATATTTAAAATC
1 AAAAAATATTTAATAAAATATAAATAAAATC
89475 GAAAAAAT
1 -AAAAAAT
89483 TGACCAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (31 bp):
AAAAAATATTTAATAAAATATAAATAAAATC
Found at i:91075 original size:21 final size:21
Alignment explanation
Indices: 91034--91100 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
91024 AGATTAATTG
*
91034 TAATAAAATTAAA-A-AATAA
1 TAATAAAATTAAATATTATAA
*
91053 TAATAAAATTAATTATTATAA
1 TAATAAAATTAAATATTATAA
91074 TAATAAAATTAAATATTATAA
1 TAATAAAATTAAATATTATAA
*
91095 TGATAA
1 TAATAA
91101 GAGATTATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.29
20 1 0.02
21 29 0.69
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (21 bp):
TAATAAAATTAAATATTATAA
Found at i:93327 original size:16 final size:15
Alignment explanation
Indices: 93296--93351 Score: 76
Period size: 16 Copynumber: 3.6 Consensus size: 15
93286 TGCTAATTAT
93296 TTTAAATCATTTAAA
1 TTTAAATCATTTAAA
*
93311 TTTAAATTATTTAAAA
1 TTTAAATCATTT-AAA
*
93327 TTTAAATCAATTTTAA
1 TTTAAATC-ATTTAAA
93343 TTTAAATCA
1 TTTAAATCA
93352 AATTCATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 12 0.33
16 20 0.56
17 4 0.11
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAAATCATTTAAA
Done.