Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013965.1 Kokia drynarioides strain JFW-HI SEQ_128996, whole genome shotgun sequence
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: 196737
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
File 1 of 2
Found at i:1428 original size:14 final size:14
Alignment explanation
Indices: 1409--1438 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1399 TTAACAGCTT
1409 CTCTTCTCCACCTC
1 CTCTTCTCCACCTC
*
1423 CTCTTCTCCACTTC
1 CTCTTCTCCACCTC
1437 CT
1 CT
1439 ATGTCACTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.53, G:0.00, T:0.40
Consensus pattern (14 bp):
CTCTTCTCCACCTC
Found at i:2693 original size:20 final size:20
Alignment explanation
Indices: 2665--2702 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2655 AAATATATAA
* *
2665 TATATAAATATTTTTTAAAG
1 TATAAAAATATTTCTTAAAG
2685 TATAAAAATATTTCTTAA
1 TATAAAAATATTTCTTAA
2703 TTAGAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
TATAAAAATATTTCTTAAAG
Found at i:2713 original size:20 final size:21
Alignment explanation
Indices: 2668--2713 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 21
2658 TATATAATAT
* *
2668 ATAAATATTTTTTAAAGTATA
1 ATAAATATTTCTTAAAGTAGA
*
2689 A-AAATATTTCTT-AATTAGA
1 ATAAATATTTCTTAAAGTAGA
2708 ATAAAT
1 ATAAAT
2714 CTAGCCAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.29
20 14 0.67
21 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (21 bp):
ATAAATATTTCTTAAAGTAGA
Found at i:8923 original size:27 final size:29
Alignment explanation
Indices: 8863--8938 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
8853 GGTCCATTTT
*
8863 TTTTAAGGGGCTCAAATTTTTTTTATCAAC
1 TTTTAAGGGCCTCAAATTTTTTTTAT-AAC
* *
8893 TTTTAAAGGTCC-CAAATTTTTTTT-T-AT
1 TTTT-AAGGGCCTCAAATTTTTTTTATAAC
8920 TTTTAAGGGCCTCAAATTT
1 TTTTAAGGGCCTCAAATTT
8939 GTTCTTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 6 0.15
27 12 0.30
29 1 0.03
30 16 0.40
31 5 0.12
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTTAAGGGCCTCAAATTTTTTTTATAAC
Found at i:10799 original size:17 final size:17
Alignment explanation
Indices: 10755--10810 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
10745 ATAAAATTAG
* *
10755 AATTAAATTGAAAAAATT
1 AATT-AATTTAAAAATTT
*
10773 ATTTAA-TTAAAAATTT
1 AATTAATTTAAAAATTT
10789 AATTAATTTAAATTAATTT
1 AATTAATTTAAA--AATTT
10808 AAT
1 AAT
10811 AAACAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 13 0.42
17 7 0.23
18 3 0.10
19 8 0.26
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AATTAATTTAAAAATTT
Found at i:16903 original size:20 final size:21
Alignment explanation
Indices: 16861--16908 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
16851 TGGCTGAACC
*
16861 AATAAAAATATGAATTAAAAA
1 AATAATAATATGAATTAAAAA
16882 AATAATAATATGAATT-AAAA
1 AATAATAATATGAATTAAAAA
16902 AATAATA
1 AATAATA
16909 TTTTCTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (21 bp):
AATAATAATATGAATTAAAAA
Found at i:18761 original size:21 final size:21
Alignment explanation
Indices: 18737--18790 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
18727 TTCATTTGTA
*
18737 AAAAAAATATTTTGAAAATAT
1 AAAAAAATATATTGAAAATAT
* *
18758 AAAAAAAAAAATTGAAAATAT
1 AAAAAAATATATTGAAAATAT
*
18779 AAAAATATATAT
1 AAAAAAATATAT
18791 GTAAAAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAAAAATATATTGAAAATAT
Found at i:18796 original size:21 final size:21
Alignment explanation
Indices: 18739--18796 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 21
18729 CATTTGTAAA
*
18739 AAAAATAT-TTTG-AAAATAT
1 AAAAATATATATGTAAAATAT
* * *
18758 AAAAAAAAAAAT-TGAAAATAT
1 AAAAATATATATGT-AAAATAT
18779 AAAAATATATATGTAAAA
1 AAAAATATATATGTAAAA
18797 AAATTCATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
19 6 0.21
20 1 0.04
21 20 0.71
22 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAAATATATATGTAAAATAT
Found at i:18856 original size:20 final size:20
Alignment explanation
Indices: 18831--18870 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
18821 TTTTTAAAAA
*
18831 TTCGAAAATCTAAAACATAT
1 TTCGAAAATCTAAAAAATAT
18851 TTCGAAAATCTAAAAAATAT
1 TTCGAAAATCTAAAAAATAT
18871 ATGTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (20 bp):
TTCGAAAATCTAAAAAATAT
Found at i:18886 original size:34 final size:34
Alignment explanation
Indices: 18842--18914 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
18832 TCGAAAATCT
* * *
18842 AAAACATATTTCGAAAATCTAAAAAATATATGTA
1 AAAAAATATTTCAAAAATATAAAAAATATATGTA
* *
18876 AAAAAATATTTCAAAAATATAAGAAATATATTTA
1 AAAAAATATTTCAAAAATATAAAAAATATATGTA
18910 AAAAA
1 AAAAA
18915 TTCGAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (34 bp):
AAAAAATATTTCAAAAATATAAAAAATATATGTA
Found at i:18914 original size:84 final size:81
Alignment explanation
Indices: 18771--18966 Score: 241
Period size: 84 Copynumber: 2.4 Consensus size: 81
18761 AAAAAAAATT
* * * * *
18771 GAAAATATAAAAATATATATGTAAAAAAATTCATTTCGAAGATATAATTTTTTTTAAAAATTCGA
1 GAAAATATAAAAA-ATATATGTAAAAAAA-TCATTTCAAAAATATAATATATTTAAAAAATTCGA
* * *
18836 AAATCTAAAACATATTTC
64 AAATATAAAAAAGATTTC
*
18854 GAAAATCTAAAAAATATATGTAAAAAAAT-ATTTCAAAAATATAAGAAATATATTTAAAAAATTC
1 GAAAATATAAAAAATATATGTAAAAAAATCATTTCAAAAATAT----AATATATTTAAAAAATTC
18918 GAAAATATAAAAAAGATTTC
62 GAAAATATAAAAAAGATTTC
*
18938 GAAAATATAAAAAATATATTTAAAAAAAT
1 GAAAATATAAAAAATATATGTAAAAAAAT
18967 TCGAAAATAT
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
80 11 0.11
81 1 0.01
82 15 0.15
83 12 0.12
84 59 0.60
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.32
Consensus pattern (81 bp):
GAAAATATAAAAAATATATGTAAAAAAATCATTTCAAAAATATAATATATTTAAAAAATTCGAAA
ATATAAAAAAGATTTC
Found at i:18937 original size:50 final size:51
Alignment explanation
Indices: 18876--18977 Score: 170
Period size: 50 Copynumber: 2.0 Consensus size: 51
18866 AATATATGTA
* *
18876 AAAAAATATTTCAAAAATATAAGAAATATATTT-AAAAAATTCGAAAATAT
1 AAAAAAGATTTCAAAAATATAAAAAATATATTTAAAAAAATTCGAAAATAT
*
18926 AAAAAAGATTTCGAAAATATAAAAAATATATTTAAAAAAATTCGAAAATAT
1 AAAAAAGATTTCAAAAATATAAAAAATATATTTAAAAAAATTCGAAAATAT
18977 A
1 A
18978 TCTTACCATA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 30 0.62
51 18 0.38
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (51 bp):
AAAAAAGATTTCAAAAATATAAAAAATATATTTAAAAAAATTCGAAAATAT
Found at i:18976 original size:20 final size:20
Alignment explanation
Indices: 18878--18945 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 20
18868 TATATGTAAA
* **
18878 AAAATATTTCAAAAATATAAG
1 AAAATATTT-AAAAAAATTCG
18899 AAATATATTT-AAAAAATTCG
1 AAA-ATATTTAAAAAAATTCG
18919 AAAATA--TAAAAAAGATTTCG
1 AAAATATTTAAAAAA-A-TTCG
18939 AAAATAT
1 AAAATAT
18946 AAAAAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.03
18 5 0.13
19 4 0.10
20 20 0.51
21 3 0.08
22 6 0.15
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAATATTTAAAAAAATTCG
Found at i:20416 original size:27 final size:28
Alignment explanation
Indices: 20359--20417 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
20349 ATTTAAATCG
* * **
20359 TTTTTTAATTATTTTAATTTGATTATCA
1 TTTTTAAATTATTTTAATTTGAGTAAAA
*
20387 TTTTTAAATTATTTTTATTTG-GTAAAA
1 TTTTTAAATTATTTTAATTTGAGTAAAA
20414 TTTT
1 TTTT
20418 AATTTAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (28 bp):
TTTTTAAATTATTTTAATTTGAGTAAAA
Found at i:20462 original size:10 final size:9
Alignment explanation
Indices: 20443--20482 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
20433 TTCAATGGTT
20443 TTTTAATTA
1 TTTTAATTA
20452 TTTTAATTTA
1 TTTTAA-TTA
*
20462 TTATAATT-
1 TTTTAATTA
20470 TTTTAATTA
1 TTTTAATTA
20479 TTTT
1 TTTT
20483 GGTATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 7 0.26
9 12 0.44
10 8 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTAATTA
Found at i:20892 original size:20 final size:21
Alignment explanation
Indices: 20859--20920 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
20849 TCAATTATTT
20859 TAATTATTTT-AATTTAATTA
1 TAATTATTTTAAATTTAATTA
* *
20879 TAATT-TTTTAAA-TTATGTTT
1 TAATTATTTTAAATTTA-ATTA
20899 TAATTATTTTAAAATTTAATTA
1 TAATTATTTT-AAATTTAATTA
20921 ATTAAAATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 7 0.21
20 14 0.42
21 4 0.12
22 5 0.15
23 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATTATTTTAAATTTAATTA
Found at i:20918 original size:16 final size:16
Alignment explanation
Indices: 20897--20939 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
20887 TAAATTATGT
20897 TTTAATTATTTTAAAA
1 TTTAATTATTTTAAAA
*
20913 TTTAATTA-ATTAAAA
1 TTTAATTATTTTAAAA
*
20928 TCTAATTATTTT
1 TTTAATTATTTT
20940 TTATTAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTATTTTAAAA
Found at i:20923 original size:9 final size:9
Alignment explanation
Indices: 20846--20910 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 9
20836 TTAAATTTTG
*
20846 ATTTCAATT
1 ATTTTAATT
20855 ATTTTAATT
1 ATTTTAATT
20864 ATTTTAATTT
1 ATTTTAA-TT
*
20874 AATTATAATT
1 -ATTTTAATT
20884 -TTTTAAATT
1 ATTTT-AATT
20893 ATGTTTTAATT
1 A--TTTTAATT
20904 ATTTTAA
1 ATTTTAA
20911 AATTTAATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
8 3 0.06
9 25 0.53
10 4 0.09
11 11 0.23
12 4 0.09
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTAATT
Found at i:21199 original size:11 final size:11
Alignment explanation
Indices: 21167--21224 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
21157 ATACCCCAAT
21167 TTTTAAATTTCA
1 TTTT-AATTTCA
*
21179 TTTT-ATTTAA
1 TTTTAATTTCA
*
21189 TTTTAATTTAA
1 TTTTAATTTCA
* *
21200 GTTCAATTTCA
1 TTTTAATTTCA
*
21211 TTTCAATTTCA
1 TTTTAATTTCA
21222 TTT
1 TTT
21225 AAAATTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
10 9 0.22
11 27 0.68
12 4 0.10
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTTAATTTCA
Found at i:21579 original size:31 final size:31
Alignment explanation
Indices: 21527--21585 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
21517 TTTAATTTTC
* * *
21527 ATTTCAACTGTAATTTCAATTTTAATTTCAA
1 ATTTAAACTATAATTTCAATTTCAATTTCAA
*
21558 ATTTAAACTATAATTTTAATTTCAATTT
1 ATTTAAACTATAATTTCAATTTCAATTT
21586 TATTTAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (31 bp):
ATTTAAACTATAATTTCAATTTCAATTTCAA
Found at i:21581 original size:71 final size:71
Alignment explanation
Indices: 21498--21653 Score: 312
Period size: 71 Copynumber: 2.2 Consensus size: 71
21488 TTTTCTTTTC
21498 AATTTTAATTTCAATTTTATTTAATTTTCATTTCAACTGTAATTTCAATTTTAATTTCAAATTTA
1 AATTTTAATTTCAATTTTATTTAATTTTCATTTCAACTGTAATTTCAATTTTAATTTCAAATTTA
21563 AACTAT
66 AACTAT
21569 AATTTTAATTTCAATTTTATTTAATTTTCATTTCAACTGTAATTTCAATTTTAATTTCAAATTTA
1 AATTTTAATTTCAATTTTATTTAATTTTCATTTCAACTGTAATTTCAATTTTAATTTCAAATTTA
21634 AACTAT
66 AACTAT
21640 AATTTTAATTTCAA
1 AATTTTAATTTCAA
21654 ACTAGTATTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 85 1.00
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (71 bp):
AATTTTAATTTCAATTTTATTTAATTTTCATTTCAACTGTAATTTCAATTTTAATTTCAAATTTA
AACTAT
Found at i:21633 original size:12 final size:12
Alignment explanation
Indices: 21481--21653 Score: 153
Period size: 12 Copynumber: 14.7 Consensus size: 12
21471 TTTAATTCCG
21481 AATTT-AATTTT
1 AATTTCAATTTT
**
21492 CTTTTCAATTTT
1 AATTTCAATTTT
21504 AATTTCAATTTT
1 AATTTCAATTTT
21516 -ATTT-AATTTT
1 AATTTCAATTTT
* * *
21526 CATTTCAACTGT
1 AATTTCAATTTT
21538 AATTTCAATTTT
1 AATTTCAATTTT
*
21550 AATTTCAAATTTA
1 AATTTC-AATTTT
*
21563 AACTAT-AATTTT
1 AA-TTTCAATTTT
21575 AATTTCAATTTT
1 AATTTCAATTTT
21587 -ATTT-AATTTT
1 AATTTCAATTTT
* * *
21597 CATTTCAACTGT
1 AATTTCAATTTT
21609 AATTTCAATTTT
1 AATTTCAATTTT
*
21621 AATTTCAAATTTA
1 AATTTC-AATTTT
*
21634 AACTAT-AATTTT
1 AA-TTTCAATTTT
21646 AATTTCAA
1 AATTTCAA
21654 ACTAGTATTT
Statistics
Matches: 129, Mismatches: 22, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
10 12 0.09
11 23 0.18
12 76 0.59
13 14 0.11
14 4 0.03
ACGTcount: A:0.35, C:0.10, G:0.01, T:0.54
Consensus pattern (12 bp):
AATTTCAATTTT
Found at i:21642 original size:19 final size:19
Alignment explanation
Indices: 21620--21657 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21610 ATTTCAATTT
21620 TAATTTCAAATTT-AAACTA
1 TAATTT-AAATTTCAAACTA
*
21639 TAATTTTAATTTCAAACTA
1 TAATTTAAATTTCAAACTA
21658 GTATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATTTAAATTTCAAACTA
Found at i:21650 original size:6 final size:6
Alignment explanation
Indices: 21483--21650 Score: 85
Period size: 6 Copynumber: 28.3 Consensus size: 6
21473 TAATTCCGAA
* * *
21483 TTTAAT TTT-CT TTTCAAT TTTAAT TTCAAT TTT-A- TTTAAT TTTCAT
1 TTTAAT TTTAAT TTT-AAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
* * * * * * * *
21529 TTCAAC TGTAAT TTCAAT TTTAAT TTCAAAT TTAAAC TATAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TT-TAAT TTTAAT TTTAAT TTTAAT
* * * * * *
21578 TTCAAT TTT-A- TTTAAT TTTCAT TTCAAC TGTAAT TTCAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
* * * *
21624 TTCAAAT TTAAAC TATAAT TTTAAT TT
1 TT-TAAT TTTAAT TTTAAT TTTAAT TT
21651 CAAACTAGTA
Statistics
Matches: 116, Mismatches: 38, Indels: 16
0.68 0.22 0.09
Matches are distributed among these distances:
4 6 0.05
5 8 0.07
6 88 0.76
7 14 0.12
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAT
Found at i:21668 original size:18 final size:19
Alignment explanation
Indices: 21628--21673 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
21618 TTTAATTTCA
21628 AATTT-AAACTATAATTTT
1 AATTTCAAACTATAATTTT
21646 AATTTCAAACTAGT-ATTTT
1 AATTTCAAACTA-TAATTTT
*
21665 ATTTTCAAA
1 AATTTCAAA
21674 TTCAATTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 19 0.76
20 1 0.04
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (19 bp):
AATTTCAAACTATAATTTT
Found at i:21677 original size:25 final size:24
Alignment explanation
Indices: 21641--21692 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
21631 TTAAACTATA
*
21641 ATTTTAATTTCAAACTAGTATTTT
1 ATTTTAAATTCAAACTAGTATTTT
**
21665 ATTTTCAAATTCAATTTAGTATTTT
1 ATTTT-AAATTCAAACTAGTATTTT
21690 ATT
1 ATT
21693 AATTTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTTAAATTCAAACTAGTATTTT
Found at i:21892 original size:3 final size:3
Alignment explanation
Indices: 21790--21873 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
21780 TTAAATTGAA
21790 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21838 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21874 GTATTTAATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24973 original size:59 final size:58
Alignment explanation
Indices: 24860--24991 Score: 131
Period size: 59 Copynumber: 2.2 Consensus size: 58
24850 ACAAGCACCT
* * * *
24860 AAAAAAATATTTTTGAGACCTGAAAAAGGGGGTGTCGATCATGAAATGGTAAACACCGGA
1 AAAAAAATATTTTTGAGACATGAAAAAGGGGGTGTCGACCATGAAATGGCAAACA-C-AA
* * * * ***
24920 AAAAAAATATTTTTG-GGCATGGAAAAGTGGGTGTCGGCCATGGGTTGGCAAACACAA
1 AAAAAAATATTTTTGAGACATGAAAAAGGGGGTGTCGACCATGAAATGGCAAACACAA
24977 AAAAAAATAGTTTTT
1 AAAAAAATA-TTTTT
24992 TATTCGTATT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
57 10 0.17
58 6 0.10
59 29 0.48
60 15 0.25
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGACATGAAAAAGGGGGTGTCGACCATGAAATGGCAAACACAA
Found at i:26423 original size:27 final size:27
Alignment explanation
Indices: 26386--26444 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
26376 AAAGTTATTA
26386 AAAAAAT-AAAAAT--TTCTTAAAATTT
1 AAAAAATAAAAAATAATT-TTAAAATTT
*
26411 AAAAAATAAAAAATAATTTTAAAATAT
1 AAAAAATAAAAAATAATTTTAAAATTT
26438 AAAAAAT
1 AAAAAAT
26445 TCCAAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 7 0.23
26 6 0.20
27 15 0.50
28 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (27 bp):
AAAAAATAAAAAATAATTTTAAAATTT
Found at i:26633 original size:23 final size:23
Alignment explanation
Indices: 26593--26642 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
26583 TATTCAAAGC
*
26593 AAATAAATTATTAAAAAATTA-A
1 AAATAAAATATTAAAAAATTATA
*
26615 AAATAAAAATATTATAAAATTATA
1 AAAT-AAAATATTAAAAAATTATA
26639 AAAT
1 AAAT
26643 CGATTCCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 15 0.62
24 5 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATAAAATATTAAAAAATTATA
Found at i:27332 original size:23 final size:23
Alignment explanation
Indices: 27306--27351 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
27296 TAAATATATA
27306 TTTTTATATTAT-AATTTTCATTT
1 TTTTTA-ATTATAAATTTTCATTT
*
27329 TTTTTAATTATAAATTTTTATTT
1 TTTTTAATTATAAATTTTCATTT
27352 AAAATATGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTAATTATAAATTTTCATTT
Found at i:27986 original size:12 final size:12
Alignment explanation
Indices: 27969--27993 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27959 TGTTATGTTC
27969 TAATAGAGCACT
1 TAATAGAGCACT
27981 TAATAGAGCACT
1 TAATAGAGCACT
27993 T
1 T
27994 TTTCCACTTT
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TAATAGAGCACT
Found at i:29358 original size:32 final size:32
Alignment explanation
Indices: 29322--29419 Score: 103
Period size: 32 Copynumber: 3.1 Consensus size: 32
29312 TTATAAATTG
29322 ATGATAGAAAATGTGATTTAAATGAATCATGC
1 ATGATAGAAAATGTGATTTAAATGAATCATGC
* * **
29354 ATGATACGTAAATGGTACATTTTTATGAAT--TG-
1 ATGATA-GAAAAT-GT-GATTTAAATGAATCATGC
*
29386 ATGATAGAAAATGTGATTAAAATGAATCATGC
1 ATGATAGAAAATGTGATTTAAATGAATCATGC
29418 AT
1 AT
29420 ACTTGGTACA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
29 9 0.18
30 2 0.04
31 7 0.14
32 14 0.27
33 7 0.14
34 2 0.04
35 10 0.20
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (32 bp):
ATGATAGAAAATGTGATTTAAATGAATCATGC
Found at i:29392 original size:64 final size:64
Alignment explanation
Indices: 29291--29419 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 64
29281 TTGAAAGGTT
* * *
29291 TGATATGTAAATGGTATATTTTTATAAATTGATGATAGAAAATGTGATTTAAATGAATCATGCA
1 TGATACGTAAATGGTACATTTTTATAAATTGATGATAGAAAATGTGATTAAAATGAATCATGCA
*
29355 TGATACGTAAATGGTACATTTTTATGAATTGATGATAGAAAATGTGATTAAAATGAATCATGCA
1 TGATACGTAAATGGTACATTTTTATAAATTGATGATAGAAAATGTGATTAAAATGAATCATGCA
29419 T
1 T
29420 ACTTGGTACA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (64 bp):
TGATACGTAAATGGTACATTTTTATAAATTGATGATAGAAAATGTGATTAAAATGAATCATGCA
Found at i:29410 original size:29 final size:29
Alignment explanation
Indices: 29317--29412 Score: 93
Period size: 29 Copynumber: 3.1 Consensus size: 29
29307 TATTTTTATA
29317 AATTGATGATAGAAAATGTGATTTAAATG
1 AATTGATGATAGAAAATGTGATTTAAATG
* * **
29346 AATCATGCATGATACGTAAATGGTACATTTTTATG
1 AAT--TG-ATGATA-GAAAAT-GT-GATTTAAATG
*
29381 AATTGATGATAGAAAATGTGATTAAAATG
1 AATTGATGATAGAAAATGTGATTTAAATG
29410 AAT
1 AAT
29413 CATGCATACT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
29 12 0.23
30 2 0.04
31 7 0.13
32 12 0.23
33 7 0.13
34 2 0.04
35 10 0.19
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (29 bp):
AATTGATGATAGAAAATGTGATTTAAATG
Found at i:33022 original size:5 final size:5
Alignment explanation
Indices: 33014--33044 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
33004 TTAGGTTAGG
33014 TTTTC TTTTC TTTTCC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTT-C TTTTC TTTTC TTTTC
33045 ATTCTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:33035 original size:16 final size:16
Alignment explanation
Indices: 33014--33044 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
33004 TTAGGTTAGG
33014 TTTTCTTTTCTTTTCC
1 TTTTCTTTTCTTTTCC
33030 TTTTCTTTTCTTTTC
1 TTTTCTTTTCTTTTC
33045 ATTCTTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTCTTTTCTTTTCC
Found at i:37837 original size:158 final size:156
Alignment explanation
Indices: 37550--37863 Score: 459
Period size: 158 Copynumber: 2.0 Consensus size: 156
37540 ATTTCAGGAT
*
37550 TTACAGGATTTATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAATCCGACATTTGTTGCGG
1 TTACAGGATTTATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAATCCGACATTTGTAGCGG
* ** *
37615 ATTTTTTACAGCTCGTATGAACAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGC
66 ATTCTCCACAGCTCATATGAACAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGC
* *
37680 AGGCCCACTTCATAGCTCGTGTGAGCA
131 A-GACCAATTCATAGCTCGTGTGAGCA
* * * * *
37707 TTACAGG-TTATATGGGTGTTGGTCTTAGATGTCCTACCGATGGTTGAGATCTGGCATTTGTAGC
1 TTACAGGATT-TATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGA-ATCCGACATTTGTAGC
* * *
37771 GGATTCTCCACAGCTCATGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCATAGCTCGTGTGA
64 GGATTCTCCACAGCTCATATGAACAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGA
37836 GCAGACCAATTCATAGCTCGTGTGAGCA
129 GCAGACCAATTCATAGCTCGTGTGAGCA
37864 AGACATGATT
Statistics
Matches: 140, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
156 2 0.01
157 64 0.46
158 74 0.53
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.29
Consensus pattern (156 bp):
TTACAGGATTTATGGGTGCTAGTCTTAGATGTCCTACCGATGGCTGAATCCGACATTTGTAGCGG
ATTCTCCACAGCTCATATGAACAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGC
AGACCAATTCATAGCTCGTGTGAGCA
Found at i:37842 original size:21 final size:22
Alignment explanation
Indices: 37818--37863 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 22
37808 CTAACATCTC
37818 GACC-CATAGCTCGTGTGAGCA
1 GACCACATAGCTCGTGTGAGCA
37839 GACCAATTCATAGCTCGTGTGAGCA
1 GACC-A--CATAGCTCGTGTGAGCA
37864 AGACATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
25 17 0.81
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (22 bp):
GACCACATAGCTCGTGTGAGCA
Found at i:38690 original size:13 final size:13
Alignment explanation
Indices: 38648--38705 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
38638 TTTGTAGTCA
*
38648 TTAAAATTATAAA
1 TTAAAATTATAAT
*
38661 TTAAAATGATAATT
1 TTAAAATTATAA-T
*
38675 TTAAAATTATTAT
1 TTAAAATTATAAT
*
38688 TT-AAAGTATAAT
1 TTAAAATTATAAT
38700 TATAAA
1 T-TAAA
38706 TATGTAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
12 9 0.25
13 15 0.42
14 12 0.33
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TTAAAATTATAAT
Found at i:38705 original size:26 final size:27
Alignment explanation
Indices: 38649--38705 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
38639 TTGTAGTCAT
*
38649 TAAAATTATAAATTAAAATGATAATTT
1 TAAAATTATAAATTAAAATGATAATTA
* * *
38676 TAAAATTATTATTTAAAGT-ATAATTA
1 TAAAATTATAAATTAAAATGATAATTA
38702 TAAA
1 TAAA
38706 TATGTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
TAAAATTATAAATTAAAATGATAATTA
Found at i:41334 original size:26 final size:26
Alignment explanation
Indices: 41293--41343 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
41283 GAAAATAAAT
41293 AATACTGAAAAGTAAATGGTAAACTA
1 AATACTGAAAAGTAAATGGTAAACTA
41319 AATACTG-AAAGATAAATGGTAAACT
1 AATACTGAAAAG-TAAATGGTAAACT
41344 GTAAATGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.24
Consensus pattern (26 bp):
AATACTGAAAAGTAAATGGTAAACTA
Found at i:43052 original size:3 final size:3
Alignment explanation
Indices: 43046--43071 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43036 TTCAAAGCAA
43046 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
43072 GATACTTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:43316 original size:9 final size:9
Alignment explanation
Indices: 43302--43332 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
43292 CATCAATTTG
43302 TTATTCGAA
1 TTATTCGAA
*
43311 TTATTCGAG
1 TTATTCGAA
43320 TTATTCGAA
1 TTATTCGAA
43329 TTAT
1 TTAT
43333 GAAAGTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:44336 original size:28 final size:28
Alignment explanation
Indices: 44296--44372 Score: 154
Period size: 28 Copynumber: 2.8 Consensus size: 28
44286 AAACTAGACT
44296 TATTTTATTTTAATTAGAATATGTCATC
1 TATTTTATTTTAATTAGAATATGTCATC
44324 TATTTTATTTTAATTAGAATATGTCATC
1 TATTTTATTTTAATTAGAATATGTCATC
44352 TATTTTATTTTAATTAGAATA
1 TATTTTATTTTAATTAGAATA
44373 AGGTGTTTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (28 bp):
TATTTTATTTTAATTAGAATATGTCATC
Found at i:47991 original size:17 final size:17
Alignment explanation
Indices: 47969--48007 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
47959 AGGTGGAGAA
*
47969 CTTGTTCGTTA-AGAGTT
1 CTTGTTCG-TACAGAATT
47986 CTTGTTCGTACAGAATT
1 CTTGTTCGTACAGAATT
48003 CTTGT
1 CTTGT
48008 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTACAGAATT
Found at i:55920 original size:16 final size:16
Alignment explanation
Indices: 55899--55930 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55889 CAATCATTAA
55899 AACATATTTAAGAGAT
1 AACATATTTAAGAGAT
55915 AACATATTTAAGAGAT
1 AACATATTTAAGAGAT
55931 GATAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (16 bp):
AACATATTTAAGAGAT
Found at i:56287 original size:7 final size:7
Alignment explanation
Indices: 56275--56300 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56265 GGAAAGTTTC
56275 AAAGTGG
1 AAAGTGG
56282 AAAGTGG
1 AAAGTGG
56289 AAAGTGG
1 AAAGTGG
56296 AAAGT
1 AAAGT
56301 TGGGAGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.38, T:0.15
Consensus pattern (7 bp):
AAAGTGG
Found at i:57590 original size:16 final size:17
Alignment explanation
Indices: 57565--57596 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
57555 AAAAAAATAT
57565 TTTTTATTTAATTTTTC
1 TTTTTATTTAATTTTTC
57582 TTTTT-TTTAATTTTT
1 TTTTTATTTAATTTTT
57597 AATTTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTATTTAATTTTTC
Found at i:58500 original size:16 final size:16
Alignment explanation
Indices: 58479--58509 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58469 TTATTAGAAA
58479 TAAAATAAAATATTTT
1 TAAAATAAAATATTTT
*
58495 TAAAATGAAATATTT
1 TAAAATAAAATATTT
58510 AAATTATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAAATAAAATATTTT
Found at i:62580 original size:22 final size:21
Alignment explanation
Indices: 62555--62597 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
62545 GTCTTCAGGG
*
62555 CTATCTCGTGACACCCTCTGGT
1 CTATCTCGCGACACCCT-TGGT
* *
62577 CTATGTCGCGACATCCTTGGT
1 CTATCTCGCGACACCCTTGGT
62598 AGTTTTCTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.14, C:0.33, G:0.21, T:0.33
Consensus pattern (21 bp):
CTATCTCGCGACACCCTTGGT
Found at i:63692 original size:22 final size:22
Alignment explanation
Indices: 63652--63693 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63642 ACCAATGTGC
* *
63652 AATGAAATAACATATATGCATA
1 AATGAAATAACAGAAATGCATA
*
63674 AATGAAATAAGAGAAATGCA
1 AATGAAATAACAGAAATGCA
63694 AACTCATAAT
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:0.57, C:0.07, G:0.14, T:0.21
Consensus pattern (22 bp):
AATGAAATAACAGAAATGCATA
Found at i:64555 original size:15 final size:15
Alignment explanation
Indices: 64537--64587 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
64527 GACTGTGTGC
64537 CACACACGGCCTCCT
1 CACACACGGCCTCCT
* ** *
64552 CACACAACCGTGT-GT
1 CACAC-ACGGCCTCCT
64567 CACACACGGCCTCCT
1 CACACACGGCCTCCT
64582 CACACA
1 CACACA
64588 ACCGTGTGTC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.25, C:0.47, G:0.14, T:0.14
Consensus pattern (15 bp):
CACACACGGCCTCCT
Found at i:64596 original size:30 final size:30
Alignment explanation
Indices: 64521--64597 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
64511 ACCCAGGCTG
* * *
64521 TCACACGACTGTGTGCCACACACGGCCTCC
1 TCACACAACCGTGTGTCACACACGGCCTCC
64551 TCACACAACCGTGTGTCACACACGGCCTCC
1 TCACACAACCGTGTGTCACACACGGCCTCC
64581 TCACACAACCGTGTGTC
1 TCACACAACCGTGTGTC
64598 TTAATGACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.22, C:0.42, G:0.18, T:0.18
Consensus pattern (30 bp):
TCACACAACCGTGTGTCACACACGGCCTCC
Found at i:66844 original size:38 final size:38
Alignment explanation
Indices: 66804--66887 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
66794 CAACAAATTT
* * *
66804 AAAAAATATATAATATATCAAATACACTTAAAA-ACATTA
1 AAAAAATAT-TAAAAAAT-AAATAAACTTAAAATACATTA
*
66843 AAACAAATATTAAAAAATAAATAAATTTAAAATACATTA
1 AAA-AAATATTAAAAAATAAATAAACTTAAAATACATTA
66882 AAAAAA
1 AAAAAA
66888 ATTTATATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
38 15 0.38
39 18 0.46
40 6 0.15
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (38 bp):
AAAAAATATTAAAAAATAAATAAACTTAAAATACATTA
Found at i:67024 original size:20 final size:19
Alignment explanation
Indices: 67001--67059 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 19
66991 AAAATGCATA
67001 AAAAATAACATCCAAACAAC
1 AAAAATAACA-CCAAACAAC
*
67021 AAAAATAACAACCAAA-AGC
1 AAAAATAAC-ACCAAACAAC
* *
67040 AAAAAAAACAGCAAACAAC
1 AAAAATAACACCAAACAAC
67059 A
1 A
67060 TTAAAAACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 5 0.15
19 13 0.39
20 14 0.42
21 1 0.03
ACGTcount: A:0.69, C:0.22, G:0.03, T:0.05
Consensus pattern (19 bp):
AAAAATAACACCAAACAAC
Found at i:67042 original size:19 final size:20
Alignment explanation
Indices: 67001--67133 Score: 75
Period size: 19 Copynumber: 6.8 Consensus size: 20
66991 AAAATGCATA
*
67001 AAAAATAACATCCAAACAAC
1 AAAAATAACAACCAAACAAC
*
67021 AAAAATAACAACCAAA-AGC
1 AAAAATAACAACCAAACAAC
* *
67040 AAAAAAAAC-AGCAAACAAC
1 AAAAATAACAACCAAACAAC
* *
67059 ATTAAA-AACAA-CAAA-AAT
1 A-AAAATAACAACCAAACAAC
** *
67077 AGCAATAA-AA--ATAGCAAC
1 AAAAATAACAACCA-AACAAC
*
67095 AAAAATAACAACAAAAACAAC
1 AAAAATAACAAC-CAAACAAC
67116 ACGAAAATAACAACCAAA
1 A--AAAATAACAACCAAA
67134 ACAGTAAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
16 1 0.01
17 5 0.06
18 18 0.21
19 22 0.26
20 19 0.22
21 6 0.07
22 4 0.05
23 11 0.13
ACGTcount: A:0.69, C:0.20, G:0.04, T:0.08
Consensus pattern (20 bp):
AAAAATAACAACCAAACAAC
Found at i:67069 original size:38 final size:40
Alignment explanation
Indices: 67013--67111 Score: 104
Period size: 36 Copynumber: 2.6 Consensus size: 40
67003 AAATAACATC
*
67013 CAAACAACAAAAATAACAAC-CAAA-AGCAAAAAAAACAG
1 CAAACAACAAAAATAACAACAAAAATAGCAAAAAAAACAG
* * *
67051 CAAACAACATTAAA-AACAACAAAAATAGCAATAAAAATAG
1 CAAACAACA-AAAATAACAACAAAAATAGCAAAAAAAACAG
67091 ----CAACAAAAATAACAACAAAAA
1 CAAACAACAAAAATAACAACAAAAA
67112 CAACACGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
35 3 0.06
36 16 0.31
38 15 0.29
39 6 0.12
40 12 0.23
ACGTcount: A:0.71, C:0.18, G:0.04, T:0.07
Consensus pattern (40 bp):
CAAACAACAAAAATAACAACAAAAATAGCAAAAAAAACAG
Found at i:67110 original size:23 final size:22
Alignment explanation
Indices: 67001--67134 Score: 85
Period size: 24 Copynumber: 5.8 Consensus size: 22
66991 AAAATGCATA
*
67001 AAAAATAACATCC--AAACAAC
1 AAAAATAACAACCAAAAACAAC
* *
67021 AAAAATAACAACCAAAAGCAAAA
1 AAAAATAACAACCAAAAAC-AAC
* *
67044 AAAACAGCAAACAACATTAAAAACAAC
1 AAAA-A--TAACAAC--CAAAAACAAC
* **
67071 AAAAATAGCAATAAAAATAGCAAC
1 AAAAATAACAACCAAAA-A-CAAC
67095 AAAAATAACAA-CAAAAACAAC
1 AAAAATAACAACCAAAAACAAC
67116 ACGAAAATAACAACCAAAA
1 A--AAAATAACAACCAAAA
67135 CAGTAAAAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 22
0.72 0.11 0.18
Matches are distributed among these distances:
20 12 0.14
21 5 0.06
22 8 0.09
23 21 0.24
24 24 0.27
26 7 0.08
27 6 0.07
28 5 0.06
ACGTcount: A:0.69, C:0.19, G:0.04, T:0.07
Consensus pattern (22 bp):
AAAAATAACAACCAAAAACAAC
Found at i:67116 original size:12 final size:12
Alignment explanation
Indices: 67065--67134 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
67055 CAACATTAAA
67065 AACAACAAAAAT
1 AACAACAAAAAT
* *
67077 AGCAATAAAAAT
1 AACAACAAAAAT
*
67089 AGCAACAAAAAT
1 AACAACAAAAAT
*
67101 AACAACAAAAAC
1 AACAACAAAAAT
*
67113 AAC-ACGAAAAT
1 AACAACAAAAAT
67124 AACAACCAAAA
1 AACAA-CAAAA
67135 CAGTAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
11 9 0.19
12 35 0.73
13 4 0.08
ACGTcount: A:0.70, C:0.19, G:0.04, T:0.07
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:67143 original size:97 final size:95
Alignment explanation
Indices: 66989--67174 Score: 236
Period size: 97 Copynumber: 1.9 Consensus size: 95
66979 GAAACAATAG
* * *
66989 TAAAAATGCATAAAAAATAACATCCAAACAACAAAAATAACAACCAAAAGCAAAAAAAACAGCA-
1 TAAAAATGCATAAAAAATAACAACAAAACAACAAAAATAACAACCAAAAGCAAAAAAAAAAGCAC
* *
67053 AACAACATT-AAAAACAACAAAAATAGCAA
66 AAAAACATTAAAAAACAAAAAAAATAGCAA
*
67082 TAAAAATAGCA-ACAAAAATAACAACAAAAACAACACGAAAATAACAACCAAAA-CAGTAAAAAA
1 TAAAAAT-GCATA-AAAAATAACAAC-AAAACAACA--AAAATAACAACCAAAAGCA-AAAAAAA
67145 AAGCACAAAAACATTAAAAAACAAAAAAAA
60 AAGCACAAAAACATTAAAAAACAAAAAAAA
67175 ACAACCACCA
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
93 8 0.10
94 14 0.18
95 8 0.10
96 2 0.03
97 26 0.33
98 8 0.10
99 13 0.16
ACGTcount: A:0.70, C:0.17, G:0.04, T:0.09
Consensus pattern (95 bp):
TAAAAATGCATAAAAAATAACAACAAAACAACAAAAATAACAACCAAAAGCAAAAAAAAAAGCAC
AAAAACATTAAAAAACAAAAAAAATAGCAA
Found at i:67145 original size:23 final size:23
Alignment explanation
Indices: 67015--67157 Score: 69
Period size: 24 Copynumber: 6.0 Consensus size: 23
67005 ATAACATCCA
*
67015 AACAACAAAAATAACAACCAAAAGC
1 AACAA-AAAAATAACAA-CAAAAAC
* *
67040 AA-AAAAAACAGCAAACAACATTAAA-
1 AACAAAAAA-A--TAACAACA-AAAAC
* * *
67065 AACAACAAAAATAGCAATAAAAAT
1 AACAA-AAAAATAACAACAAAAAC
*
67089 AGCAACAAAAATAACAACAAAAAC
1 AACAA-AAAAATAACAACAAAAAC
** *
67113 AACACGAAAATAACAACCAAAAC
1 AACAAAAAAATAACAACAAAAAC
** *
67136 AGTAAAAAAA-AGC-ACAAAAAC
1 AACAAAAAAATAACAACAAAAAC
67157 A
1 A
67158 TTAAAAAACA
Statistics
Matches: 90, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
21 8 0.09
22 2 0.02
23 29 0.32
24 31 0.34
25 6 0.07
26 10 0.11
27 4 0.04
ACGTcount: A:0.70, C:0.19, G:0.05, T:0.06
Consensus pattern (23 bp):
AACAAAAAAATAACAACAAAAAC
Found at i:67195 original size:22 final size:21
Alignment explanation
Indices: 67170--67210 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
67160 AAAAAACAAA
67170 AAAAAACAACCACCAAAACAGT
1 AAAAAACAA-CACCAAAACAGT
**
67192 AAAAAATGACACCAAAACA
1 AAAAAACAACACCAAAACA
67211 ACAATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.66, C:0.24, G:0.05, T:0.05
Consensus pattern (21 bp):
AAAAAACAACACCAAAACAGT
Found at i:68321 original size:21 final size:22
Alignment explanation
Indices: 68290--68331 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
68280 ATATTTCTCC
*
68290 TCTTAAATTATGTTATTTATAT
1 TCTTAAATTATATTATTTATAT
68312 TCTT-AATTATATTATTTATA
1 TCTTAAATTATATTATTTATA
68332 CTTATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (22 bp):
TCTTAAATTATATTATTTATAT
Found at i:68347 original size:21 final size:21
Alignment explanation
Indices: 68297--68348 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
68287 TCCTCTTAAA
68297 TTATGTTATTTATATTCTTAATT
1 TTAT-TTATTTATA-TCTTAATT
*
68320 ATA-TTATTTATA-CTTATATT
1 TTATTTATTTATATCTTA-ATT
68340 TTATTTATT
1 TTATTTATT
68349 ATTGATTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.16
20 5 0.20
21 14 0.56
23 2 0.08
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTTATTTATATCTTAATT
Found at i:68684 original size:70 final size:70
Alignment explanation
Indices: 68512--68793 Score: 228
Period size: 73 Copynumber: 3.9 Consensus size: 70
68502 AAAAGAATTG
* * * * *
68512 AAAGATCTATCCCAACTTTTTTAAGGTTGCTTTAGATAAGATCTATTCTAACCCTTTTTAAAGGT
1 AAAGATCTATCCCAACCTTTTTAAGGTTGCTTTAGA-CAGGTCTATCCCAA-CCTTTTTAAA-GT
68577 TGTCTCAA
63 TGTCTCAA
* * * *
68585 AAAGGGTCAAT-CCAACCTTTTTAAGGTTGCTTTAGACGGGTCTATCCCAACCTTTTTAAA-TTT
1 AAA-GATCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACCTTTTTAAAGTTG
*
68648 TCTTAGA
65 TCTCA-A
* * *
68655 CAAGATCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTTAAAAGTT
1 AAAGATCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACC-TTTTT-AAAGTT
* * *
68720 GCCTTAG
64 GTCTCAA
* * * * * * * *
68727 ATAGGTTTATCCCAACCTTTTTTAAAAGTTACCTTAGACAAGG-CTTATCTCAACTTTTTTAAAG
1 AAAGATCTATCCCAACC-TTTTT-AAGGTTGCTTTAGAC-AGGTC-TATCCCAACCTTTTTAAAG
68791 TTG
62 TTG
68794 CCTTAGACGA
Statistics
Matches: 171, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
69 11 0.06
70 41 0.24
71 15 0.09
72 25 0.15
73 45 0.26
74 24 0.14
75 10 0.06
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (70 bp):
AAAGATCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCCAACCTTTTTAAAGTTGT
CTCAA
Found at i:68738 original size:37 final size:36
Alignment explanation
Indices: 68519--68800 Score: 193
Period size: 37 Copynumber: 7.8 Consensus size: 36
68509 TTGAAAGATC
* * * *
68519 TATCCCAA-CTTTTTTAAGGTTGCTTTAGATAAGATC
1 TATCCCAACCTTTTTTAAAGTTGCCTTAGA-AAGGTT
* * * * * * *
68555 TATTCTAACCCTTTTTAAAGGTTGTCTCAAAAAGGGTC
1 TATCCCAACCTTTTTTAAA-GTTGCCTTAGAAA-GGTT
* * * ** *
68593 AAT-CCAACC-TTTTTAAGGTTGCTTTAGACGGGTC
1 TATCCCAACCTTTTTTAAAGTTGCCTTAGAAAGGTT
** * *
68627 TATCCCAACC-TTTTTAAA-TTTTCTTAGACAAGATC
1 TATCCCAACCTTTTTTAAAGTTGCCTTAGA-AAGGTT
* *
68662 TATCCCAACC-TTTTTAAGGTTGCCTTAGACAA-GTC
1 TATCCCAACCTTTTTTAAAGTTGCCTTAGA-AAGGTT
*
68697 TATCCCAACCTTTTTTAAAAGTTGCCTTAGATAGGTT
1 TATCCCAACCTTTTTT-AAAGTTGCCTTAGAAAGGTT
* *
68734 TATCCCAACCTTTTTTAAAAGTTACCTTAGACAAGGCT
1 TATCCCAACCTTTTTT-AAAGTTGCCTTAGA-AAGGTT
*
68772 TATCTCAA-CTTTTTTAAAGTTGCCTTAGA
1 TATCCCAACCTTTTTTAAAGTTGCCTTAGA
68801 CGAGTTTATC
Statistics
Matches: 198, Mismatches: 38, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
34 13 0.07
35 52 0.26
36 43 0.22
37 67 0.34
38 23 0.12
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (36 bp):
TATCCCAACCTTTTTTAAAGTTGCCTTAGAAAGGTT
Found at i:68784 original size:74 final size:71
Alignment explanation
Indices: 68596--68800 Score: 211
Period size: 70 Copynumber: 2.9 Consensus size: 71
68586 AAGGGTCAAT
* * * * ** *
68596 CCAACCTTTTTAAGGTTGCTTTAGAC-GGGTCTATCCCAACC-TTTTTAAA-TTTTCTTAGACAA
1 CCAACCTTTTTAAAGTTACCTTAGACAAGG-CTATCCCAACCTTTTTTAAAGTTGCCTTAGA-TA
* *
68658 GATCTATC
64 GGTTTATC
* * *
68666 CCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCCAACCTTTTTTAAAAGTTGCCTTAGATAG
1 CCAACCTTTTTAAAGTTACCTTAGACAAGGCTATCCCAACCTTTTTT-AAAGTTGCCTTAGATAG
68731 GTTTATC
65 GTTTATC
*
68738 CCAACCTTTTTTAAAAGTTACCTTAGACAAGGCTTATCTCAA-CTTTTTTAAAGTTGCCTTAGA
1 CCAACC-TTTTT-AAAGTTACCTTAGACAAGGC-TATCCCAACCTTTTTTAAAGTTGCCTTAGA
68801 CGAGTTTATC
Statistics
Matches: 116, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
70 36 0.31
71 6 0.05
72 16 0.14
73 27 0.23
74 24 0.21
75 7 0.06
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (71 bp):
CCAACCTTTTTAAAGTTACCTTAGACAAGGCTATCCCAACCTTTTTTAAAGTTGCCTTAGATAGG
TTTATC
Found at i:72074 original size:13 final size:12
Alignment explanation
Indices: 72056--72103 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
72046 TAAATCAAGT
72056 TTTTCAAAAGTAC
1 TTTTCAAAA-TAC
72069 TTTTCAAAATCAC
1 TTTTCAAAAT-AC
*
72082 TTTTCCAAAAAAC
1 TTTT-CAAAATAC
*
72095 TTTTTAAAA
1 TTTTCAAAA
72104 GCAATGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 5 0.16
13 21 0.68
14 5 0.16
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (12 bp):
TTTTCAAAATAC
Found at i:73522 original size:14 final size:15
Alignment explanation
Indices: 73503--73532 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
73493 AAATAAAAAT
73503 ATTTTAAA-AAATTA
1 ATTTTAAAGAAATTA
73517 ATTTTAAAGAAATTA
1 ATTTTAAAGAAATTA
73532 A
1 A
73533 ATAATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
ATTTTAAAGAAATTA
Found at i:74652 original size:22 final size:22
Alignment explanation
Indices: 74622--74663 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
74612 CAAAAAAATC
* * *
74622 TGCTTTTTTTTTGTTTTTTTAA
1 TGCTATTTTCTTGTTGTTTTAA
74644 TGCTATTTTCTTGTTGTTTT
1 TGCTATTTTCTTGTTGTTTT
74664 CTCCCTATTT
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:0.07, C:0.07, G:0.12, T:0.74
Consensus pattern (22 bp):
TGCTATTTTCTTGTTGTTTTAA
Found at i:74781 original size:30 final size:30
Alignment explanation
Indices: 74745--74809 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
74735 ACTTATTTTA
* *
74745 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATATTGTTATTATTTTAGAGACAT
74775 TTGTTAATATTGTTATTATTTTAGAGACAT
1 TTGTTAATATTGTTATTATTTTAGAGACAT
74805 TTGTT
1 TTGTT
74810 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (30 bp):
TTGTTAATATTGTTATTATTTTAGAGACAT
Found at i:76753 original size:40 final size:40
Alignment explanation
Indices: 76709--76790 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
76699 ACTGAAGGTG
76709 TATGAATATGTATGGTATTTAATTATAGCTAAATCGGGTT
1 TATGAATATGTATGGTATTTAATTATAGCTAAATCGGGTT
76749 TATGAATATGTATGGTATTTAATTATAGCTAAATCGGGTT
1 TATGAATATGTATGGTATTTAATTATAGCTAAATCGGGTT
76789 TA
1 TA
76791 ATTGGCCATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (40 bp):
TATGAATATGTATGGTATTTAATTATAGCTAAATCGGGTT
Found at i:76790 original size:21 final size:21
Alignment explanation
Indices: 76726--76793 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
76716 ATGTATGGTA
76726 TTTAATTATAGCTAAATCGGG
1 TTTAATTATAGCTAAATCGGG
* *
76747 TTT-ATGAATATG-T--AT-GGTA
1 TTTAAT-TATA-GCTAAATCGG-G
76766 TTTAATTATAGCTAAATCGGG
1 TTTAATTATAGCTAAATCGGG
76787 TTTAATT
1 TTTAATT
76794 GGCCATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 3 0.09
19 9 0.26
20 4 0.11
21 16 0.46
22 3 0.09
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (21 bp):
TTTAATTATAGCTAAATCGGG
Found at i:86210 original size:9 final size:9
Alignment explanation
Indices: 86198--86241 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
86188 GAAGGAAACT
86198 AAAGAAGAG
1 AAAGAAGAG
86207 AAAGAAGA-
1 AAAGAAGAG
86215 AAAGAAGAAG
1 AAAGAAG-AG
**
86225 AGTGAAGAG
1 AAAGAAGAG
86234 AAAGAAGA
1 AAAGAAGA
86242 TGCCCCGATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 7 0.24
9 17 0.59
10 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (9 bp):
AAAGAAGAG
Found at i:86235 original size:20 final size:19
Alignment explanation
Indices: 86199--86241 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
86189 AAGGAAACTA
86199 AAGAAGAGAAAGAAGAAAAG
1 AAGAAGAGAAAGAAG-AAAG
*
86219 AAGAAGAGTGAAG-AGAAAG
1 AAGAAGAG-AAAGAAGAAAG
86238 AAGA
1 AAGA
86242 TGCCCCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 10 0.48
21 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (19 bp):
AAGAAGAGAAAGAAGAAAG
Found at i:86680 original size:17 final size:17
Alignment explanation
Indices: 86638--86681 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
86628 ATGCATCTCA
* *
86638 TTTAGTTGTCATTGCAT
1 TTTATTTGTCACTGCAT
86655 TTCTATTTGTCACTGCAT
1 TT-TATTTGTCACTGCAT
86673 TTTATTTGT
1 TTTATTTGT
86682 TAGTACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57
Consensus pattern (17 bp):
TTTATTTGTCACTGCAT
Found at i:91099 original size:94 final size:94
Alignment explanation
Indices: 90969--91160 Score: 294
Period size: 94 Copynumber: 2.0 Consensus size: 94
90959 TGTCAATAAG
*
90969 TTTGTTGATGGGGTACTAGACATTGATTGTTGTTATTTGACTATTTCATTGTGTTTGTAACTGAC
1 TTTGTTGATGGGGTACTAGACATTGATTGTTGTTATTTGACTATTTCATTGTGTTTGTAACTGAA
91034 TACTAGGTTCTTATTTGATGTCTTCATTA
66 TACTAGGTTCTTATTTGATGTCTTCATTA
** * * * *
91063 TTTGTTGATGGTTTATTAGACATTGATTGTTTTTATTTGGCTATTTCATTGTGTTTGTAATTGAA
1 TTTGTTGATGGGGTACTAGACATTGATTGTTGTTATTTGACTATTTCATTGTGTTTGTAACTGAA
** *
91128 TGTTAGGTTCTTATTTGATGTCTTCATTT
66 TACTAGGTTCTTATTTGATGTCTTCATTA
91157 TTTG
1 TTTG
91161 GGATGTGCTG
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.19, C:0.08, G:0.20, T:0.53
Consensus pattern (94 bp):
TTTGTTGATGGGGTACTAGACATTGATTGTTGTTATTTGACTATTTCATTGTGTTTGTAACTGAA
TACTAGGTTCTTATTTGATGTCTTCATTA
Found at i:91920 original size:73 final size:73
Alignment explanation
Indices: 91746--92202 Score: 527
Period size: 73 Copynumber: 6.3 Consensus size: 73
91736 CACAGTAGAT
* * * *
91746 GGTCTA-CCACAACCTTTTTAAGGTTGCTTTAGAC-AGTTTA-CCACAACC-TTTTT-AAGGTTT
1 GGTCTATCC-CAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCC-TAACCTTTTTTAAAGGTTG
*
91806 CTTTAGAC-A
64 CCTTAGACAA
* * * * *
91815 CGTCTA-CCCTAACCTTTTTAAGGTTGCTTTAGACAAGTCTATCCCT-ATCGTATTTAAAGGTTG
1 GGTCTATCCC-AACCTTTTTAAGGTTGCCTTAGACAAGTCTAT-CCTAACCTTTTTTAAAGGTTG
** *
91878 TTTTAGATAA
64 CCTTAGACAA
* *
91888 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATCCTAACCTTTTTTAAAGGTTGCC
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCTAACCTTTTTTAAAGGTTGCC
91953 TTAGACAA
66 TTAGACAA
*** * *
91961 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTGTTCC-AACCTTTTTTTATAGGTTG
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCT-ATCCTAACC-TTTTTTAAAGGTTG
*
92025 CCTTAGACTA
64 CCTTAGACAA
* * *
92035 GGTCTATCCCAACCTTTTTAAGATTGCTTTAGACAGGTCTATCCTAACCTTTTTTAAAGGTTGCC
1 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCTAACCTTTTTTAAAGGTTGCC
92100 TTAGACAA
66 TTAGACAA
*
92108 GGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGATAAGGTCTATCCTAACCTTTTTTAAAGGTT
1 GGTCTATCCCAACCTTTTT--AAGGTTGCCTTAGACAA-GTCTATCCTAACCTTTTTTAAAGGTT
92173 GCCTTAGACAA
63 GCCTTAGACAA
**
92184 GACCTATCCCAACCTTTTT
1 GGTCTATCCCAACCTTTTT
92203 TAAAGGTCGA
Statistics
Matches: 338, Mismatches: 35, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
68 1 0.00
69 31 0.09
70 7 0.02
71 4 0.01
72 17 0.05
73 143 0.42
74 68 0.20
75 13 0.04
76 54 0.16
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (73 bp):
GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGTCTATCCTAACCTTTTTTAAAGGTTGCC
TTAGACAA
Found at i:91975 original size:38 final size:37
Alignment explanation
Indices: 91746--92209 Score: 474
Period size: 38 Copynumber: 12.7 Consensus size: 37
91736 CACAGTAGAT
*
91746 GGTCTA-CCACAACCTTTTT-AAGGTTGCTTTAGAC-A
1 GGTCTATCC-CAACCTTTTTAAAGGTTGCCTTAGACAA
* * *
91781 -GTTTA-CCACAACCTTTTT-AAGGTTTCTTTAGAC-A
1 GGTCTATCC-CAACCTTTTTAAAGGTTGCCTTAGACAA
* *
91815 CGTCTA-CCCTAACCTTTTT-AAGGTTGCTTTAGACAA
1 GGTCTATCCC-AACCTTTTTAAAGGTTGCCTTAGACAA
* * * ** *
91851 -GTCTATCCCTATCGTATTTAAAGGTTGTTTTAGATAA
1 GGTCTATCCC-AACCTTTTTAAAGGTTGCCTTAGACAA
*
91888 GGTCTATCCCAACCTTTTT-AAGGTTGCCTTAGA-TA
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
*
91923 GGTCTATCCTAACCTTTTTTAAAGGTTGCCTTAGACAA
1 GGTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAA
**
91961 GGTCTATCCCAACCTTTTT-AAGGTTGCCTTAGA-TG
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
* * * *
91996 GGTCTGTTCCAACCTTTTTTTATAGGTTGCCTTAGACTA
1 GGTCTATCCCAACC--TTTTTAAAGGTTGCCTTAGACAA
* *
92035 GGTCTATCCCAACCTTTTT-AAGATTGCTTTAGAC-A
1 GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
*
92070 GGTCTATCCTAACCTTTTTTAAAGGTTGCCTTAGACAA
1 GGTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAA
*
92108 GGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGATAA
1 GGTCTATCCCAACCTTTTT-AAAGGTTGCCTTAGACAA
*
92146 GGTCTATCCTAACCTTTTTTAAAGGTTGCCTTAGACAA
1 GGTCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAA
**
92184 GACCTATCCCAACCTTTTTTAAAGGT
1 GGTCTATCCCAACC-TTTTTAAAGGT
92210 CGACCTTGAA
Statistics
Matches: 372, Mismatches: 39, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
34 33 0.09
35 74 0.20
36 59 0.16
37 68 0.18
38 120 0.32
39 18 0.05
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (37 bp):
GGTCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAA
Found at i:92049 original size:147 final size:145
Alignment explanation
Indices: 91746--92202 Score: 543
Period size: 147 Copynumber: 3.1 Consensus size: 145
91736 CACAGTAGAT
* * *
91746 GGTCTA-CCACAACCTTTTTAAGGTTGCTTTAGACA-GTTTA-CCACAACC-TTTTT-AAGGTTT
1 GGTCTATCC-CAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCC-TAACCTTTTTTAAAGGTTG
* * * * * * * * * *
91806 CTTTAGAC-ACGTCTA-CCCTAACCTTTTTAAGGTTGCTTTAGACAAGTCTATCCCTATCGTATT
64 CCTTAGACAAGGTCTATCCC-AACCTTTTTAAGGTTGCCTTAGATAGGTCT-TTCCAACCTTTTT
**
91869 TAAAGGTTGTTTTAGA-TAA
127 TAAAGGTTGCCTTAGACT-A
* *
91888 GGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTATCCTAACCTTTTTTAAAGGTTGCC
1 GGTCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCTAACCTTTTTTAAAGGTTGCC
*
91953 TTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATGGGTCTGTTCCAACCTTTTTTTA
66 TTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCT-TTCCAACC-TTTTTTA
*
92018 TAGGTTGCCTTAGACTA
129 AAGGTTGCCTTAGACTA
*
92035 GGTCTATCCCAACCTTTTTAAGATTGCTTTAGACAGGTCTATCCTAACCTTTTTTAAAGGTTGCC
1 GGTCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCTAACCTTTTTTAAAGGTTGCC
*
92100 TTAGACAAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGATAAGGTCTATCCTAACCTTTTT
66 TTAGACAAGGTCTATCCCAACCTTTTT--AAGGTTGCCTTAGAT-AGGTCTTTCC-AACCTTTTT
*
92165 TAAAGGTTGCCTTAGACAA
127 TAAAGGTTGCCTTAGACTA
**
92184 GACCTATCCCAACCTTTTT
1 GGTCTATCCCAACCTTTTT
92203 TAAAGGTCGA
Statistics
Matches: 273, Mismatches: 29, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
142 30 0.11
143 10 0.04
144 7 0.03
145 13 0.05
146 37 0.14
147 109 0.40
148 1 0.00
149 57 0.21
150 9 0.03
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (145 bp):
GGTCTATCCCAACCTTTTTAAGGTTGCTTTAGACAGGTCTATCCTAACCTTTTTTAAAGGTTGCC
TTAGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAGATAGGTCTTTCCAACCTTTTTTAAA
GGTTGCCTTAGACTA
Found at i:99005 original size:20 final size:20
Alignment explanation
Indices: 98963--99006 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
98953 TCATCTCATC
*
98963 AGTTTGACAGAAAAAACATA
1 AGTTTGACAGAAAAAACAAA
* *
98983 AGTTTGACAGGAAAAAGAAA
1 AGTTTGACAGAAAAAACAAA
99003 AGTT
1 AGTT
99007 GCAGACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.20
Consensus pattern (20 bp):
AGTTTGACAGAAAAAACAAA
Found at i:100530 original size:35 final size:36
Alignment explanation
Indices: 100491--100576 Score: 147
Period size: 36 Copynumber: 2.4 Consensus size: 36
100481 AAAAAAAAAA
*
100491 AAACAATTCCTCTTGAT-TTGACATTGATGAAGAGC
1 AAACAATTCCTCTTGATATTGACATTGATGAAGAAC
100526 AAACAATTCCTCTTGATATTGACATTGATGAAGAAC
1 AAACAATTCCTCTTGATATTGACATTGATGAAGAAC
100562 AAACAATTCCATCTT
1 AAACAATTCC-TCTT
100577 TGAATATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 17 0.35
36 27 0.56
37 4 0.08
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (36 bp):
AAACAATTCCTCTTGATATTGACATTGATGAAGAAC
Found at i:103084 original size:115 final size:115
Alignment explanation
Indices: 102877--103110 Score: 423
Period size: 115 Copynumber: 2.0 Consensus size: 115
102867 TCGATTTTAT
*
102877 TTTAATCCTTATTATATTTCTTTTTTCTAAACTTCCCCTTATTCTGTTTTATTTCTTTGACTTGG
1 TTTAATCCTTATTATATTTCTTTTTTCGAAACTTCCCCTTATTCTGTTTTATTTCTTTGACTTGG
102942 TCCTTTATTTTATAAATTTATTATTTCTTTGTTTATTTATCCATTAATTA
66 TCCTTTATTTTATAAATTTATTATTTCTTTGTTTATTTATCCATTAATTA
* * *
102992 TTTAATCCTTATTATATTTCTTTTTTCGAAACTTTCGCTTATTCTGTTTTATTTCTTTGATTTGG
1 TTTAATCCTTATTATATTTCTTTTTTCGAAACTTCCCCTTATTCTGTTTTATTTCTTTGACTTGG
*
103057 TCCTTTATTTTATAAATTTATTGTTTCTTTGTTTATTTATCCATTAATTA
66 TCCTTTATTTTATAAATTTATTATTTCTTTGTTTATTTATCCATTAATTA
103107 TTTA
1 TTTA
103111 TTCGTCTATC
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.61
Consensus pattern (115 bp):
TTTAATCCTTATTATATTTCTTTTTTCGAAACTTCCCCTTATTCTGTTTTATTTCTTTGACTTGG
TCCTTTATTTTATAAATTTATTATTTCTTTGTTTATTTATCCATTAATTA
Found at i:104201 original size:24 final size:24
Alignment explanation
Indices: 104174--104446 Score: 393
Period size: 24 Copynumber: 11.4 Consensus size: 24
104164 TAGCCCACAT
104174 GAGCCCAGAATGATTAGCTCTTAC
1 GAGCCCAGAATGATTAGCTCTTAC
*
104198 GAGCCTAGAATGATTAGCTCTTAC
1 GAGCCCAGAATGATTAGCTCTTAC
* * *
104222 GAGCCCAAAATGGTTAGCTCTTAT
1 GAGCCCAGAATGATTAGCTCTTAC
* * *
104246 GCGCCTAGAATGATTAGCTCTTAT
1 GAGCCCAGAATGATTAGCTCTTAC
*
104270 GAGCCCAGGATGATTAGCTCTTAC
1 GAGCCCAGAATGATTAGCTCTTAC
* * *
104294 GAGCCTAGAATGGTTAGCTCTTAT
1 GAGCCCAGAATGATTAGCTCTTAC
*
104318 GAGCCCAAAATGATTAGCTCTTAC
1 GAGCCCAGAATGATTAGCTCTTAC
* *
104342 AAGCCCAGAATGGTTAGCTCTTAC
1 GAGCCCAGAATGATTAGCTCTTAC
104366 GAGCCCAGAATGATTAGCTCTTAC
1 GAGCCCAGAATGATTAGCTCTTAC
*
104390 GAGCCCAAAATGATTAGCTCTTAC
1 GAGCCCAGAATGATTAGCTCTTAC
* *
104414 GATCCCAGAATGGTTAGCTCTTAC
1 GAGCCCAGAATGATTAGCTCTTAC
104438 GAGCCCAGA
1 GAGCCCAGA
104447 CAGAGTTTAA
Statistics
Matches: 218, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 218 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
GAGCCCAGAATGATTAGCTCTTAC
Found at i:105730 original size:33 final size:33
Alignment explanation
Indices: 105688--105754 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
105678 AGTAAGTGGA
* *
105688 AGATAATCATGTCACCACGGCTTTGACTTTTTG
1 AGATAATCATGTCACCACCGCTTGGACTTTTTG
105721 AGATAATCATGTCACCACCGCTTGGACTTTTTG
1 AGATAATCATGTCACCACCGCTTGGACTTTTTG
105754 A
1 A
105755 CCATGGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (33 bp):
AGATAATCATGTCACCACCGCTTGGACTTTTTG
Found at i:108992 original size:6 final size:6
Alignment explanation
Indices: 108981--109024 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
108971 TTTAAAGCAA
108981 TTTTTC TTTTTC -TTTTC TCTTTTC TTTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC T-TTTTC -TTTTTC TTTTTC TTTTTC T
109025 CATTCAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.14
6 19 0.54
7 10 0.29
8 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:111878 original size:20 final size:20
Alignment explanation
Indices: 111846--111897 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
111836 TTATTCCTAC
*
111846 ATAAAATTGAAAAGAAACAA
1 ATAAAAGTGAAAAGAAACAA
*
111866 ATAGAAGTGAAAAGAAACAA
1 ATAAAAGTGAAAAGAAACAA
*
111886 GTAAAAGTGAAA
1 ATAAAAGTGAAA
111898 CAAATACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.65, C:0.04, G:0.17, T:0.13
Consensus pattern (20 bp):
ATAAAAGTGAAAAGAAACAA
Found at i:125096 original size:46 final size:46
Alignment explanation
Indices: 125029--125374 Score: 413
Period size: 46 Copynumber: 7.5 Consensus size: 46
125019 TACATCACTA
* *
125029 CATCCAATATTTTACCCCTAAATCAATAGGGGTAGATTAAAACCAC
1 CATCCAATCTTTTACCCCTAAATCAATAGGGGTAGATTAAAGCCAC
* *
125075 CATCCAATCTTTTACCCCTAAATTAATAGGGGTAAATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAAATCAATAGGGGTAGATTAAAGCCAC
* * *
125121 CATTCAATATTTTACCCCTAAATCAATAGGGGCAGATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAAATCAATAGGGGTAGATTAAAGCCAC
* * * * * *
125167 CATCCAATCTTTTACCCCTAAATCAAGAGGGGCAAATTGAAGTCAT
1 CATCCAATCTTTTACCCCTAAATCAATAGGGGTAGATTAAAGCCAC
* * *
125213 CATCCAATCTTTTTCCCCTAAACCAAGAGGGGTAGATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAAATCAATAGGGGTAGATTAAAGCCAC
* * * * * * * *
125259 CATCCAACCTTTTACCCTTAAATCTAGAGAGGTAAATTGAAGCCAT
1 CATCCAATCTTTTACCCCTAAATCAATAGGGGTAGATTAAAGCCAC
* * * * * *
125305 CATCTAATCTTTTACCCTTAAATCAATAGAGGCAGATTGAAGCCAG
1 CATCCAATCTTTTACCCCTAAATCAATAGGGGTAGATTAAAGCCAC
*
125351 CATCCAATCTTTTACCTCTAAATC
1 CATCCAATCTTTTACCCCTAAATC
125375 CAGAAGGGCA
Statistics
Matches: 258, Mismatches: 42, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 258 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (46 bp):
CATCCAATCTTTTACCCCTAAATCAATAGGGGTAGATTAAAGCCAC
Found at i:130676 original size:25 final size:25
Alignment explanation
Indices: 130648--130742 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
130638 AGAAGACAAG
* *
130648 GAAATTATGTCTGGGTCGTAAGAGT
1 GAAATTATGTCTAGCTCGTAAGAGT
*
130673 GAAATTTTGTCTAGCTCGTAAGAG-
1 GAAATTATGTCTAGCTCGTAAGAGT
* * ** *
130697 CATAATTCTGTCTAAATCGTAAGAGC
1 GA-AATTATGTCTAGCTCGTAAGAGT
* * *
130723 GTAATTCTGTCTGGCTCGTA
1 GAAATTATGTCTAGCTCGTA
130743 TGAACGATAT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.98
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (25 bp):
GAAATTATGTCTAGCTCGTAAGAGT
Found at i:131516 original size:21 final size:21
Alignment explanation
Indices: 131490--131540 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
131480 AAGACTTGTT
*
131490 TCGGTAGAA-TAGTCACCTGTA
1 TCGGTAGAACT-GACACCTGTA
*
131511 TCGGTAGAACTGACACTTGTA
1 TCGGTAGAACTGACACCTGTA
131532 TCGGTAGAA
1 TCGGTAGAA
131541 GTATGCACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (21 bp):
TCGGTAGAACTGACACCTGTA
Found at i:135994 original size:24 final size:24
Alignment explanation
Indices: 135967--136261 Score: 405
Period size: 24 Copynumber: 12.3 Consensus size: 24
135957 ACTCTTTTTA
* *
135967 GGCTCGAAAGAGCTAATCATTTTG
1 GGCTCGTAAGAGCTAATCATTCTG
* *
135991 GGCTCGTAAGAGCTAACCATTTTG
1 GGCTCGTAAGAGCTAATCATTCTG
*
136015 AGCTCGTAAGAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
136039 GGCTCGTAAGAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
* * *
136063 AGCTCGTAAGAGCTAACCATTCTA
1 GGCTCGTAAGAGCTAATCATTCTG
*
136087 GGCTCGTAAAAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
136111 GGCTCGTAAGAGCTAA-CTATTCTG
1 GGCTCGTAAGAGCTAATC-ATTCTG
136135 GGCTCGTAAGAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
*
136159 GGCTCATAAGAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
* *
136183 GGCTCATAAGAGCTAACCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
* *
136207 GGCTCGTAAGAGCTAA-CTATTTTA
1 GGCTCGTAAGAGCTAATC-ATTCTG
* * *
136231 GGCTCATAAGAGCTAACCATTTTG
1 GGCTCGTAAGAGCTAATCATTCTG
136255 GGCTCGT
1 GGCTCGT
136262 GTGGGCTAAA
Statistics
Matches: 245, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
23 2 0.01
24 241 0.98
25 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
GGCTCGTAAGAGCTAATCATTCTG
Found at i:140975 original size:28 final size:29
Alignment explanation
Indices: 140930--141002 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 29
140920 AATTAAATAG
* * *
140930 TTAAAATTTAAAAGTTATAATATGTT-ATTT
1 TTAAAATTT-TAATTTAT-ATATGTTCATTA
* *
140960 TTGAAA-TTTAATTTATATATTTTCATTA
1 TTAAAATTTTAATTTATATATGTTCATTA
140988 TTAAAATTTTAATTT
1 TTAAAATTTTAATTT
141003 TTTAATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 6 0.17
28 14 0.40
29 10 0.29
30 5 0.14
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (29 bp):
TTAAAATTTTAATTTATATATGTTCATTA
Found at i:141011 original size:7 final size:8
Alignment explanation
Indices: 140994--141019 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
140984 ATTATTAAAA
140994 TTTTAATT
1 TTTTAATT
141002 TTTTAATT
1 TTTTAATT
141010 TTTTAATT
1 TTTTAATT
141018 TT
1 TT
141020 AAAAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTAATT
Found at i:143368 original size:24 final size:23
Alignment explanation
Indices: 143324--143369 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
143314 GAAACGTGGG
**
143324 TAGAAAAAAATTGAGAATTAGGT
1 TAGAAAAAAAAAGAGAATTAGGT
*
143347 TAGAAAAAAAAAGGGAACTTAGG
1 TAGAAAAAAAAAGAGAA-TTAGG
143370 AAAAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.54, C:0.02, G:0.24, T:0.20
Consensus pattern (23 bp):
TAGAAAAAAAAAGAGAATTAGGT
Found at i:154519 original size:30 final size:29
Alignment explanation
Indices: 154423--154523 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 29
154413 GTCAAATTCA
**
154423 AATTTTTGGAAAGT-TTGGGGTCAAATTTG
1 AATTTTTGGAAAGTCAAGGGGT-AAATTTG
* * *
154452 AATTTTTGG-AAGTTCGAGGGTTAAA-TTC
1 AATTTTTGGAAAG-TCAAGGGGTAAATTTG
*
154480 AAATTTTGGAAAGTGCAAGGGGTAAATTTG
1 AATTTTTGGAAAGT-CAAGGGGTAAATTTG
154510 AATTTTTGGAAAGT
1 AATTTTTGGAAAGT
154524 TTGAGGGTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
28 14 0.24
29 25 0.43
30 19 0.33
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.38
Consensus pattern (29 bp):
AATTTTTGGAAAGTCAAGGGGTAAATTTG
Found at i:154538 original size:30 final size:30
Alignment explanation
Indices: 154290--154595 Score: 205
Period size: 30 Copynumber: 10.3 Consensus size: 30
154280 CATTAAAACC
* *
154290 GGGTCAAATTTGATTTTTTTGGAAACTTT-A
1 GGGTCAAATTTGA-ATTTTTGGAAAGTTTGA
* * * *
154320 GGGATCAAA-TCGAAATTTTTGAAAAATTTAA
1 GGG-TCAAATTTG-AATTTTTGGAAAGTTTGA
* * * *
154351 GGGTTAAATTAGAATTTTTAGAAAATTT-A
1 GGGTCAAATTTGAATTTTTGGAAAGTTTGA
** * *
154380 GGGGTCAAATTCAAATTTCTAGAAAGTTT-A
1 -GGGTCAAATTTGAATTTTTGGAAAGTTTGA
**
154410 GTGGTCAAATTCAAATTTTTGGAAAGTTTG-
1 G-GGTCAAATTTGAATTTTTGGAAAGTTTGA
*
154440 GGGTCAAATTTGAATTTTTGG-AAGTTCGA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTGA
* * * ***
154469 GGGTTAAA-TTCAAATTTTGGAAAGTGCAA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTGA
154498 GGGGT-AAATTTGAATTTTTGGAAAGTTTGA
1 -GGGTCAAATTTGAATTTTTGGAAAGTTTGA
* ** *
154528 GGGTCTAATTTGAATTTTTTTAAAGTTCGA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTGA
* * ** * *
154558 GGATCTAATTTGAATTAATGGAAAATTTAA
1 GGGTCAAATTTGAATTTTTGGAAAGTTTGA
154588 GGGTCAAA
1 GGGTCAAA
154596 ACATAATTGT
Statistics
Matches: 222, Mismatches: 42, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
28 16 0.07
29 40 0.18
30 154 0.69
31 12 0.05
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.38
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAGTTTGA
Found at i:155797 original size:25 final size:25
Alignment explanation
Indices: 155755--155803 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
155745 TTAGTTAAAT
155755 TTGGGCTAGTGAGAGTATTTGGGCA
1 TTGGGCTAGTGAGAGTATTTGGGCA
* * *
155780 TTGGGCTTGTGGGTGTATTTGGGC
1 TTGGGCTAGTGAGAGTATTTGGGC
155804 TTGCTTGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.12, C:0.08, G:0.43, T:0.37
Consensus pattern (25 bp):
TTGGGCTAGTGAGAGTATTTGGGCA
Found at i:156654 original size:40 final size:39
Alignment explanation
Indices: 156592--156706 Score: 131
Period size: 40 Copynumber: 2.9 Consensus size: 39
156582 TTGGACTACC
*
156592 TCAATCTGCCTCATGGTCGGGGTAAGAGATCAGATGGTCT
1 TCAATCTGCCCCATGGTCGGGGTAAGAGATCAGATGG-CT
* * * ** *
156632 TTAATCTGCCCCATGGTTGGGGTAAAAGATTGGATTGCT
1 TCAATCTGCCCCATGGTCGGGGTAAGAGATCAGATGGCT
* * *
156671 TCAATTTTCCCCATGGTCCGGGTAAGAGATCAGATG
1 TCAATCTGCCCCATGGTCGGGGTAAGAGATCAGATG
156707 ATGTTTTCAA
Statistics
Matches: 59, Mismatches: 16, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
39 29 0.49
40 30 0.51
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (39 bp):
TCAATCTGCCCCATGGTCGGGGTAAGAGATCAGATGGCT
Found at i:168091 original size:30 final size:30
Alignment explanation
Indices: 168057--168386 Score: 278
Period size: 30 Copynumber: 11.0 Consensus size: 30
168047 AAAATCGTGA
* *
168057 CAAATTTGAATTTTTGGAAACTTCAGGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGT
*** * * *
168087 CAAATCAAAATTTTTAGAAAATTTAAGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGT
* * *
168117 CAAATTGGAATTTTTGGAAAATTTA-AGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGT
*
168146 CAAA-TTCACATTTTTGGAAAGTTTAGGGGT
1 CAAATTTGA-ATTTTTGGAAAGTTTAGGGGT
* *
168176 TAAATTTGAATTTTTTGGAAAGTTTAAGGGT
1 CAAATTTGAA-TTTTTGGAAAGTTTAGGGGT
* ** ** *
168207 TAAATTCAAATTTTTAAAAAGTTT-GAAGGT
1 CAAATTTGAATTTTTGGAAAGTTTAG-GGGT
* * *
168237 TAAATTTAAATTTTT-AAAAGTTTAGGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGT
* * *
168266 CAAATTTGAAATTTTAGAAAGTTTAAGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGT
168296 CAAATTTGAATTTTTGGAAAGTTTAGGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGT
* * * *
168326 CTAAA-TTAAATTTATGAAAAATTTAGGGGT
1 C-AAATTTGAATTTTTGGAAAGTTTAGGGGT
*
168356 CAAAATAT-AATTTTTGGATAA-TTTAGGGGT
1 C-AAATTTGAATTTTTGGA-AAGTTTAGGGGT
168386 C
1 C
168387 GAAACATAAT
Statistics
Matches: 247, Mismatches: 43, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
28 2 0.01
29 45 0.18
30 164 0.66
31 36 0.15
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (30 bp):
CAAATTTGAATTTTTGGAAAGTTTAGGGGT
Found at i:168128 original size:60 final size:60
Alignment explanation
Indices: 168057--168386 Score: 329
Period size: 60 Copynumber: 5.5 Consensus size: 60
168047 AAAATCGTGA
* *
168057 CAAATTTGAATTTTTGGAAACTTCAGGGGTCAAA-TCAAAATTTTTAGAAAATTTAAGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGTCAAATTC-AAATTTTTAGAAAATTTAAGGGT
* * * * * * *
168117 CAAATTGGAATTTTTGGAAAATTTA-AGGTCAAATTCACATTTTTGGAAAGTTTAGGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGTCAAATTCAAATTTTTAGAAAATTTAAGGGT
* * *
168176 TAAATTTGAATTTTTTGGAAAGTTTAAGGGTTAAATTCAAATTTTTA-AAAAGTTTGAA-GGT
1 CAAATTTGAA-TTTTTGGAAAGTTTAGGGGTCAAATTCAAATTTTTAGAAAA-TTT-AAGGGT
* * * * *
168237 TAAATTTAAATTTTT-AAAAGTTTAGGGGTCAAATTTGAAA-TTTTAGAAAGTTTAAGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGTCAAA-TTCAAATTTTTAGAAAATTTAAGGGT
* *
168296 CAAATTTGAATTTTTGGAAAGTTTAGGGGTCTAAATT-AAATTTAT-GAAAAATTTAGGGGT
1 CAAATTTGAATTTTTGGAAAGTTTAGGGGTC-AAATTCAAATTTTTAG-AAAATTTAAGGGT
*
168356 CAAAATAT-AATTTTTGGATAA-TTTAGGGGTC
1 C-AAATTTGAATTTTTGGA-AAGTTTAGGGGTC
168387 GAAACATAAT
Statistics
Matches: 226, Mismatches: 30, Indels: 28
0.80 0.11 0.10
Matches are distributed among these distances:
58 2 0.01
59 77 0.34
60 105 0.46
61 41 0.18
62 1 0.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (60 bp):
CAAATTTGAATTTTTGGAAAGTTTAGGGGTCAAATTCAAATTTTTAGAAAATTTAAGGGT
Found at i:168257 original size:90 final size:88
Alignment explanation
Indices: 168058--168359 Score: 302
Period size: 89 Copynumber: 3.4 Consensus size: 88
168048 AAATCGTGAC
* * * * *** *
168058 AAATTTGAATTTTTGGAAACTTCAGGGGTCAAATCAAAATTTTTAGAAAATTTAAGGGTCAAATT
1 AAATTTAAATTTTT-AAAAGTTTAGGGGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAATT
* *
168123 GGAATTTTTGGAAAA-TTTAAGGTC
65 CGAATTTTT-GAAAAGTTTAAGGTT
* * * * * *
168147 AAATTCACATTTTTGGAAAGTTTAGGGGTTAAATTTGAATTTTTTGGAAAGTTTAAGGGTTAAAT
1 AAATTTAAATTTTT-AAAAGTTTAGGGGTCAAATTTGAA-TTTTTAGAAAGTTTAAGGGTCAAAT
* *
168212 TCAAATTTTTAAAAAGTTTGAAGGTT
64 TCGAATTTTTGAAAAGTTT-AAGGTT
* *
168238 AAATTTAAATTTTTAAAAGTTTAGGGGTCAAATTTGAAATTTTAGAAAGTTTAAGGGTCAAATTT
1 AAATTTAAATTTTTAAAAGTTTAGGGGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAATTC
* *
168303 GAATTTTTGGAAAGTTTAGGGGTCT
66 GAATTTTTGAAAAGTTTA-AGGT-T
* *
168328 AAA-TTAAATTTATGAAAAATTTAGGGGTCAAA
1 AAATTTAAATTT-TTAAAAGTTTAGGGGTCAAA
168360 ATATAATTTT
Statistics
Matches: 177, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
88 1 0.01
89 82 0.46
90 77 0.44
91 17 0.10
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (88 bp):
AAATTTAAATTTTTAAAAGTTTAGGGGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAATTC
GAATTTTTGAAAAGTTTAAGGTT
Found at i:169159 original size:2 final size:2
Alignment explanation
Indices: 169125--169151 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
169115 ATTTATTTGA
169125 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
169152 GAATATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:169629 original size:8 final size:9
Alignment explanation
Indices: 169616--169648 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
169606 AAATAATAAA
169616 ATTTATTTT
1 ATTTATTTT
169625 A-TTATTTT
1 ATTTATTTT
169633 ATTTA-TTT
1 ATTTATTTT
169641 ATTTATTT
1 ATTTATTT
169649 ACATTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTATTTT
Found at i:177394 original size:22 final size:22
Alignment explanation
Indices: 177347--177395 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
177337 AAATTTTAGC
* **
177347 ATAATTTTATTATTATATTTTT
1 ATAATGTTATTATTATATTTAA
177369 ATAATGTTATTATT-TAATTTAA
1 ATAATGTTATTATTAT-ATTTAA
177391 ATAAT
1 ATAAT
177396 TAATAGCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATAATGTTATTATTATATTTAA
Found at i:178047 original size:21 final size:21
Alignment explanation
Indices: 178022--178063 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
178012 AATTTGAATT
178022 TTTAAATT-TAAAAAAATAAAA
1 TTTAAATTCT-AAAAAATAAAA
*
178043 TTTAAATTCTTAAAAATAAAA
1 TTTAAATTCTAAAAAATAAAA
178064 ATAAATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTAAATTCTAAAAAATAAAA
Found at i:178062 original size:29 final size:28
Alignment explanation
Indices: 178007--178064 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
177997 TAATGACTAC
* * **
178007 AAATAAATTTGAATTTTTAAATTTAAAA
1 AAATAAATTTAAATTCTTAAAAATAAAA
178035 AAATAAAATTTAAATTCTTAAAAATAAAA
1 AAAT-AAATTTAAATTCTTAAAAATAAAA
178064 A
1 A
178065 TAAATGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
AAATAAATTTAAATTCTTAAAAATAAAA
Found at i:178623 original size:22 final size:23
Alignment explanation
Indices: 178569--178623 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
178559 TCAATCGAGT
178569 TTATT-TT-TTTAATTAAATTTTA
1 TTATTATTCTTTAATTAAA-TTTA
*
178591 TTATTTATTCTTTAATTAAA-TTC
1 TTA-TTATTCTTTAATTAAATTTA
178614 TTATTATTCT
1 TTATTATTCT
178624 AGAAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 10 0.34
23 7 0.24
24 2 0.07
25 10 0.34
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTATTCTTTAATTAAATTTA
Found at i:178882 original size:35 final size:34
Alignment explanation
Indices: 178813--178877 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
178803 CTTCTGTAAA
* *
178813 TGTTTTATGAAATTTAAAATTTTATTTATCGATT
1 TGTTTTATGAAATTTAAAACTTTATATATCGATT
* *
178847 TGTTTTTTGAAATTTTAAACTTTATAT-TCGA
1 TGTTTTATGAAATTTAAAACTTTATATATCGA
178878 GATTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (34 bp):
TGTTTTATGAAATTTAAAACTTTATATATCGATT
Found at i:180142 original size:5 final size:5
Alignment explanation
Indices: 180132--180157 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
180122 TATTTTTATA
180132 TAGTT TAGTT TAGTT TAGTT TAGTT T
1 TAGTT TAGTT TAGTT TAGTT TAGTT T
180158 GATGTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (5 bp):
TAGTT
Found at i:180243 original size:19 final size:19
Alignment explanation
Indices: 180200--180245 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
180190 ATATATTTTT
*
180200 AATTTA-TTTTTTTATTGA
1 AATTTATTTTTTTTAATGA
180218 AATTTTATTTATTTTTAAT-A
1 AA-TTTATTT-TTTTTAATGA
180238 AATTTATT
1 AATTTATT
180246 GAAGATGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 2 0.08
19 10 0.42
20 5 0.21
21 7 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
AATTTATTTTTTTTAATGA
Found at i:184380 original size:43 final size:43
Alignment explanation
Indices: 184318--184414 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 43
184308 AACTGCACAA
*
184318 TTAATAACATGTCACGATATTAACAAGGGTCAAGTAATATAAT
1 TTAATAACATGCCACGATATTAACAAGGGTCAAGTAATATAAT
* * * *
184361 TTAATTACATGCCATGATATTAACACGGGTTAAGTAATATAAT
1 TTAATAACATGCCACGATATTAACAAGGGTCAAGTAATATAAT
184404 TTAATAACATG
1 TTAATAACATG
184415 TCAAGGAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.33
Consensus pattern (43 bp):
TTAATAACATGCCACGATATTAACAAGGGTCAAGTAATATAAT
Found at i:186231 original size:19 final size:17
Alignment explanation
Indices: 186207--186259 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
186197 TATTTTCAAT
186207 TTGTTTGTTGTTTTACGAA
1 TTGTTTGTTGTTTTA--AA
* * *
186226 TTGTTTATCGTTTTTAAT
1 TTGTTTGTTG-TTTTAAA
186244 TTGTTTGTTGTTTTAA
1 TTGTTTGTTGTTTTAA
186260 TATTTGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 6 0.21
18 9 0.32
19 8 0.29
20 5 0.18
ACGTcount: A:0.15, C:0.04, G:0.17, T:0.64
Consensus pattern (17 bp):
TTGTTTGTTGTTTTAAA
Found at i:186249 original size:18 final size:19
Alignment explanation
Indices: 186226--186268 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
186216 GTTTTACGAA
*
186226 TTGTTTATCGTTTTTA-AT
1 TTGTTTATCGTTTTAATAT
* *
186244 TTGTTTGTTGTTTTAATAT
1 TTGTTTATCGTTTTAATAT
186263 TTGTTT
1 TTGTTT
186269 TACTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.70
Consensus pattern (19 bp):
TTGTTTATCGTTTTAATAT
Found at i:186266 original size:19 final size:18
Alignment explanation
Indices: 186199--186268 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 18
186189 TTTTATTGTA
*
186199 TTTTCAATTTGTTTGTTG
1 TTTTAAATTTGTTTGTTG
* *
186217 TTTTACGAA-TTGTTTATCG
1 TTTTA--AATTTGTTTGTTG
*
186236 TTTTTAATTTGTTTGTTG
1 TTTTAAATTTGTTTGTTG
186254 TTTTAATATTTGTTT
1 TTTTAA-ATTTGTTT
186269 TACTATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
17 2 0.05
18 17 0.41
19 20 0.49
20 2 0.05
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.66
Consensus pattern (18 bp):
TTTTAAATTTGTTTGTTG
Found at i:186497 original size:29 final size:27
Alignment explanation
Indices: 186465--186523 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 27
186455 CAAAATTAAA
186465 TTAAATTAAATTAAAAAAAAAAACAAAAC
1 TTAAATTAAATT--AAAAAAAAACAAAAC
186494 TTAAATTAAATTAAAAAAAAACAAAAC
1 TTAAATTAAATTAAAAAAAAACAAAAC
186521 TTA
1 TTA
186524 CCTTTCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 18 0.60
29 12 0.40
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (27 bp):
TTAAATTAAATTAAAAAAAAACAAAAC
Found at i:186500 original size:34 final size:31
Alignment explanation
Indices: 186453--186520 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 31
186443 TCTACTTACT
186453 AACAAAATTAAATTAAATTAAATTAAAAAAAAA
1 AACAAAATTAAATTAAATTAAA--AAAAAAAAA
*
186486 AACAAAACTTAAATTAAATTAAAAAAAAACAA
1 AACAAAA-TTAAATTAAATTAAAAAAAAAAAA
186518 AAC
1 AAC
186521 TTACCTTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 11 0.33
33 7 0.21
34 15 0.45
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (31 bp):
AACAAAATTAAATTAAATTAAAAAAAAAAAA
Found at i:188752 original size:43 final size:43
Alignment explanation
Indices: 188651--188837 Score: 198
Period size: 43 Copynumber: 4.4 Consensus size: 43
188641 GCGCTTCTCG
* * * *
188651 CACAAATGCTGCTAAAGAACATGGTCTTTAGCGGTGC-TTACC
1 CACAAAAGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCC
* * * * *
188693 CACAATCA-CTGCTAAAGACCATGTTCTTTAGCGGTGCTTTCCC
1 CACAA-AAGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCC
*
188736 CACAAAAGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTCCC
1 CACAAAAGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCC
* * * * *
188779 CACAAACGCCGCTAAAGAACACGGTCTTTAGTGGCGCTTTTCT
1 CACAAAAGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCC
**
188822 CACAAGCGCCGCTAAA
1 CACAAAAGCCGCTAAA
188838 TTAACAGATT
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
42 33 0.27
43 91 0.73
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
CACAAAAGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTCCC
Found at i:188826 original size:86 final size:85
Alignment explanation
Indices: 188639--188837 Score: 218
Period size: 86 Copynumber: 2.3 Consensus size: 85
188629 CTAAAAATAA
* * * * ** * *
188639 TGGCGCTTCTCGCACAAATGCTGCTAAAGAACATGGTCTTTAGCGGTGCTTACCCACAATCACTG
1 TGGCGCTTTTCCCACAAAAGCCGCTAAAGAACATGGTCTTTAGCGACGCTTACCCACAAACACCG
* * *
188704 CTAAAGACCATGTTCTTTAG
66 CTAAAGAACACGGTCTTTAG
* * * * *
188724 CGGTGCTTTCCCCACAAAAGCCGCTAAAGAACATGGTCTTTAGCGACGCTTTCCCCACAAACGCC
1 TGGCGCTTTTCCCACAAAAGCCGCTAAAGAACATGGTCTTTAGCGACGC-TTACCCACAAACACC
188789 GCTAAAGAACACGGTCTTTAG
65 GCTAAAGAACACGGTCTTTAG
* **
188810 TGGCGCTTTTCTCACAAGCGCCGCTAAA
1 TGGCGCTTTTCCCACAAAAGCCGCTAAA
188838 TTAACAGATT
Statistics
Matches: 91, Mismatches: 22, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
85 40 0.44
86 51 0.56
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (85 bp):
TGGCGCTTTTCCCACAAAAGCCGCTAAAGAACATGGTCTTTAGCGACGCTTACCCACAAACACCG
CTAAAGAACACGGTCTTTAG
Found at i:188925 original size:15 final size:15
Alignment explanation
Indices: 188902--188934 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
188892 TTTTCCTGTA
*
188902 AATTCAAATCCAACC
1 AATTAAAATCCAACC
188917 AATTAAAATCCAACC
1 AATTAAAATCCAACC
188932 AAT
1 AAT
188935 AACTTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (15 bp):
AATTAAAATCCAACC
Done.