Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008195.1 Hibiscus syriacus cultivar Beakdansim tig00110814_pilon, 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: 1119982
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:18995 original size:2 final size:2
Alignment explanation
Indices: 18988--19012 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18978 CTTTAAGGTT
18988 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
19013 GGTTGTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26627 original size:12 final size:12
Alignment explanation
Indices: 26610--26636 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26600 GAATGCTTCC
26610 TATGAACTGTGA
1 TATGAACTGTGA
26622 TATGAACTGTGA
1 TATGAACTGTGA
26634 TAT
1 TAT
26637 TCTTGGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (12 bp):
TATGAACTGTGA
Found at i:33881 original size:19 final size:19
Alignment explanation
Indices: 33814--33900 Score: 61
Period size: 19 Copynumber: 4.4 Consensus size: 19
33804 CAAACGTGAG
*
33814 AATAATAAATAAAACAAGAAAA
1 AATAA-AAAT-AAACAA-AATA
*
33836 AATAGAAAAT-AACAAAACA
1 AATA-AAAATAAACAAAATA
**
33855 CGTAAAAAATAATA-AAAATA
1 AAT-AAAAATAA-ACAAAATA
*
33875 AATAAAAATAAACAAAATG
1 AATAAAAATAAACAAAATA
33894 AATAAAA
1 AATAAAA
33901 TGTTAAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
18 1 0.02
19 29 0.55
20 13 0.25
21 1 0.02
22 8 0.15
23 1 0.02
ACGTcount: A:0.75, C:0.06, G:0.05, T:0.15
Consensus pattern (19 bp):
AATAAAAATAAACAAAATA
Found at i:33902 original size:9 final size:10
Alignment explanation
Indices: 33859--33900 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
33849 AAAACACGTA
33859 AAAAAT-AAT
1 AAAAATAAAT
33868 AAAAATAAAT
1 AAAAATAAAT
33878 AAAAATAAA-
1 AAAAATAAAT
* *
33887 CAAAATGAAT
1 AAAAATAAAT
33897 AAAA
1 AAAA
33901 TGTTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:33966 original size:18 final size:17
Alignment explanation
Indices: 33945--33992 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
33935 TATTAATGGA
33945 GTAAAAAAAATAAAAGAG
1 GTAAAAAAAATAAAA-AG
*
33963 GTAAAAGAAACTAAAAAG
1 GTAAAA-AAAATAAAAAG
*
33981 G-AATAAAAATAA
1 GTAAAAAAAATAA
33993 TGTGTACACA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.23
17 3 0.12
18 9 0.35
19 8 0.31
ACGTcount: A:0.71, C:0.02, G:0.15, T:0.12
Consensus pattern (17 bp):
GTAAAAAAAATAAAAAG
Found at i:34117 original size:17 final size:17
Alignment explanation
Indices: 34095--34150 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
34085 TATTACGAAA
34095 AAAATAATAGAAAAAAT
1 AAAATAATAGAAAAAAT
*
34112 AAAATAA-AGTAAAAAT
1 AAAATAATAGAAAAAAT
* *
34128 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAA-AAAT
34147 AAAA
1 AAAA
34151 ATAAAAATAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 13 0.42
17 8 0.26
18 3 0.10
19 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (17 bp):
AAAATAATAGAAAAAAT
Found at i:34190 original size:17 final size:16
Alignment explanation
Indices: 34106--34191 Score: 63
Period size: 17 Copynumber: 5.3 Consensus size: 16
34096 AAATAATAGA
*
34106 AAAAATAAA-ATAAAGT
1 AAAAATAAATATATA-T
34122 AAAAATATAATATATAT
1 AAAAATA-AATATATAT
* *
34139 --AAATAAATAAAAAT
1 AAAAATAAATATATAT
*
34153 AAAAATAGAATAT-TAAG
1 AAAAATA-AATATAT-AT
34170 AAAAATAATATATATAT
1 AAAAATAA-ATATATAT
34187 AAAAA
1 AAAAA
34192 CGTATAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
14 7 0.13
15 5 0.09
16 13 0.24
17 25 0.45
18 5 0.09
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAATAAATATATAT
Found at i:34263 original size:2 final size:2
Alignment explanation
Indices: 34256--34312 Score: 82
Period size: 2 Copynumber: 29.0 Consensus size: 2
34246 TTAATACATT
34256 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
*
34298 TA TA -A GA TA TA TA TA
1 TA TA TA TA TA TA TA TA
34313 ATAAAAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
1 2 0.04
2 47 0.92
3 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:34325 original size:14 final size:14
Alignment explanation
Indices: 34308--34381 Score: 53
Period size: 14 Copynumber: 5.4 Consensus size: 14
34298 TATAAGATAT
34308 ATATAATAAAAATA
1 ATATAATAAAAATA
*
34322 ATATAATATAAATA
1 ATATAATAAAAATA
* * ** *
34336 AAAAAAGGAATATA
1 ATATAATAAAAATA
*
34350 GTA-AATAAAAATA
1 ATATAATAAAAATA
*
34363 ATA-ATTAAAAATA
1 ATATAATAAAAATA
34376 TATATA
1 -ATATA
34382 TATATAGGGG
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
13 18 0.41
14 25 0.57
15 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:34341 original size:23 final size:22
Alignment explanation
Indices: 34304--34367 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 22
34294 ATGATATAAG
* *
34304 ATATATATAATAAAAATAATAT
1 ATATAAATAAAAAAAATAATAT
**
34326 AATATAAATAAAAAAAGGAATAT
1 -ATATAAATAAAAAAAATAATAT
* *
34349 A-GTAAATAAAAATAATAAT
1 ATATAAATAAAAAAAATAAT
34368 TAAAAATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
21 14 0.42
22 1 0.03
23 18 0.55
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (22 bp):
ATATAAATAAAAAAAATAATAT
Found at i:34365 original size:18 final size:20
Alignment explanation
Indices: 34306--34365 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
34296 GATATAAGAT
34306 ATATATAATAAAAATAATATA
1 ATATA-AATAAAAATAATATA
*
34327 ATATAAATAAAAA-AAGGA-A
1 ATATAAATAAAAATAA-TATA
34346 TATAGTAAATAAAAATAATA
1 -ATA-TAAATAAAAATAATA
34366 ATTAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 3 0.09
20 12 0.36
21 16 0.48
22 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
ATATAAATAAAAATAATATA
Found at i:34861 original size:23 final size:23
Alignment explanation
Indices: 34831--34885 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
34821 CTCCTTGCTC
*
34831 GGTTGTTGTACGTTTGTTGGTGT
1 GGTTGTTGCACGTTTGTTGGTGT
34854 GGTTGTTGCACGTTTGTTGGTGT
1 GGTTGTTGCACGTTTGTTGGTGT
34877 GGTTGTTGC
1 GGTTGTTGC
34886 TTTAAAAGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.04, C:0.07, G:0.40, T:0.49
Consensus pattern (23 bp):
GGTTGTTGCACGTTTGTTGGTGT
Found at i:40693 original size:13 final size:13
Alignment explanation
Indices: 40674--40708 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
40664 CGAGAGAAAG
40674 GAAATGAAGTACT
1 GAAATGAAGTACT
*
40687 TAAATGAAGTACT
1 GAAATGAAGTACT
40700 GAAATGAAG
1 GAAATGAAG
40709 AAGATAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.23
Consensus pattern (13 bp):
GAAATGAAGTACT
Found at i:46537 original size:13 final size:14
Alignment explanation
Indices: 46515--46546 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
46505 AATGATTAGT
46515 AAAATAAAAATAAA
1 AAAATAAAAATAAA
46529 AAAAT-AAAATAAA
1 AAAATAAAAATAAA
46542 AAAAT
1 AAAAT
46547 GACGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:47637 original size:18 final size:17
Alignment explanation
Indices: 47605--47650 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
47595 TATTAATAGA
47605 GTAAAAAAATAAAAAAG
1 GTAAAAAAATAAAAAAG
*
47622 GTAAAAGAAATTAAAAAG
1 GTAAAA-AAATAAAAAAG
47640 G-AATAAAAATA
1 GTAA-AAAAATA
47651 TTGTGTACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
GTAAAAAAATAAAAAAG
Found at i:47718 original size:36 final size:36
Alignment explanation
Indices: 47677--47780 Score: 113
Period size: 36 Copynumber: 2.9 Consensus size: 36
47667 TAGTATTTAC
47677 TAAAACAAATAAAAATAATAAATATATAATACTAAG
1 TAAAACAAATAAAAATAATAAATATATAATACTAAG
* * * *
47713 TAAAACAAATAAAAAGTAAATATATACATGATATTAAG
1 TAAAACAAATAAAAA-T-AATAAATATATAATACTAAG
* *
47751 -AAAA-AAATAAAATTAAGTAAAAATATAATA
1 TAAAACAAATAAAAATAA-TAAATATATAATA
47781 TATATAAATA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
34 2 0.04
35 10 0.18
36 23 0.41
37 5 0.09
38 16 0.29
ACGTcount: A:0.66, C:0.04, G:0.05, T:0.25
Consensus pattern (36 bp):
TAAAACAAATAAAAATAATAAATATATAATACTAAG
Found at i:47767 original size:17 final size:18
Alignment explanation
Indices: 47745--47778 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47735 TATACATGAT
47745 ATTAAG-AAAAAAATAAA
1 ATTAAGTAAAAAAATAAA
*
47762 ATTAAGTAAAAATATAA
1 ATTAAGTAAAAAAATAA
47779 TATATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (18 bp):
ATTAAGTAAAAAAATAAA
Found at i:47820 original size:17 final size:17
Alignment explanation
Indices: 47743--47866 Score: 69
Period size: 16 Copynumber: 7.2 Consensus size: 17
47733 TATATACATG
*
47743 ATATTAAGAAAAAAATA
1 ATATTAAGAAAAATATA
*
47760 AAATTAAGTAAAAATATA
1 ATATTAAG-AAAAATATA
* *
47778 ATA-T-ATATAAATA-A
1 ATATTAAGAAAAATATA
** * *
47792 ATAAAAACAAAAATAGA
1 ATATTAAGAAAAATATA
47809 ATATTAAG-AAAATATA
1 ATATTAAGAAAAATATA
**
47825 TATAAAAACGTATAAAATATA
1 -ATATTAA-G-A-AAAATATA
47846 ATATTAAG-AAAATATA
1 ATATTAAGAAAAATATA
47862 CATAT
1 -ATAT
47867 ACATAGTAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
14 4 0.05
15 6 0.07
16 23 0.28
17 23 0.28
18 11 0.14
19 1 0.01
20 5 0.06
21 8 0.10
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
ATATTAAGAAAAATATA
Found at i:47948 original size:14 final size:14
Alignment explanation
Indices: 47918--47957 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 14
47908 ATATATAATG
47918 ATATAAGATATATATA
1 ATATAA-ATA-ATATA
47934 ATATAAATAATATA
1 ATATAAATAATATA
47948 ATATAAATAA
1 ATATAAATAA
47958 AAAATGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.62
15 3 0.12
16 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATATAAATAATATA
Found at i:47979 original size:17 final size:17
Alignment explanation
Indices: 47929--48004 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 17
47919 TATAAGATAT
47929 ATATAATATAAATAATATA
1 ATATAA-ATAAATAA-ATA
47948 ATATAAATAAA-AAATGA
1 ATATAAATAAATAAAT-A
*
47965 ATAT-AGTAAATAAATA
1 ATATAAATAAATAAATA
*
47981 A-AAAAATATAATTAAATA
1 ATATAAATA-AA-TAAATA
47999 TATATA
1 -ATATA
48005 TATAGGGGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
15 1 0.02
16 12 0.26
17 13 0.28
18 11 0.24
19 7 0.15
20 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATAAATAAATAAATA
Found at i:49017 original size:28 final size:28
Alignment explanation
Indices: 48978--49038 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
48968 GTTTCACAAT
*
48978 AAAA-ATATGATAGTATCTTTAATAAA-A
1 AAAATATATGATAGTATCCTTAA-AAATA
*
49005 AAAATATATGATAGTCTCCTTAAAAATA
1 AAAATATATGATAGTATCCTTAAAAATA
49033 AAAATA
1 AAAATA
49039 AAAACAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (28 bp):
AAAATATATGATAGTATCCTTAAAAATA
Found at i:52240 original size:113 final size:113
Alignment explanation
Indices: 52051--52286 Score: 463
Period size: 113 Copynumber: 2.1 Consensus size: 113
52041 GTTTTTCGAG
*
52051 TCTTCCCTTTTGGAAAAGAAGGAAAAGCATTTCTCCAAGACCTCCAAAACCAACCCAATATATCC
1 TCTTCCCTTTTGGAAAAGAAGCAAAAGCATTTCTCCAAGACCTCCAAAACCAACCCAATATATCC
52116 CTTTACTTTCTTCTTCAGATTCTTCCTCTTTGTTGTTGTTGTTCTTCT
66 CTTTACTTTCTTCTTCAGATTCTTCCTCTTTGTTGTTGTTGTTCTTCT
52164 TCTTCCCTTTTGGAAAAGAAGCAAAAGCATTTCTCCAAGACCTCCAAAACCAACCCAATATATCC
1 TCTTCCCTTTTGGAAAAGAAGCAAAAGCATTTCTCCAAGACCTCCAAAACCAACCCAATATATCC
52229 CTTTACTTTCTTCTTCAGATTCTTCCTCTTTGTTGTTGTTGTTCTTCT
66 CTTTACTTTCTTCTTCAGATTCTTCCTCTTTGTTGTTGTTGTTCTTCT
52277 TCTTCCCTTT
1 TCTTCCCTTT
52287 GTTTTTGAGC
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 122 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.40
Consensus pattern (113 bp):
TCTTCCCTTTTGGAAAAGAAGCAAAAGCATTTCTCCAAGACCTCCAAAACCAACCCAATATATCC
CTTTACTTTCTTCTTCAGATTCTTCCTCTTTGTTGTTGTTGTTCTTCT
Found at i:54531 original size:18 final size:19
Alignment explanation
Indices: 54503--54556 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
54493 TCTTCTTATT
54503 TTTACTTTAATTTCTTTTA
1 TTTACTTTAATTTCTTTTA
*
54522 TTTA-TTTAATTACTTTTA
1 TTTACTTTAATTTCTTTTA
* *
54540 -TTATTTTAATATCTTTT
1 TTTACTTTAATTTCTTTT
54557 TACCAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 3 0.10
18 24 0.77
19 4 0.13
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTACTTTAATTTCTTTTA
Found at i:56156 original size:21 final size:21
Alignment explanation
Indices: 56132--56172 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56122 AAAAAATTAC
*
56132 CTAAAACATTATTATTTTTAT
1 CTAAAACATTAATATTTTTAT
*
56153 CTAAAACATTAATGTTTTTA
1 CTAAAACATTAATATTTTTA
56173 ACATATCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (21 bp):
CTAAAACATTAATATTTTTAT
Found at i:57955 original size:38 final size:37
Alignment explanation
Indices: 57903--58185 Score: 130
Period size: 36 Copynumber: 7.6 Consensus size: 37
57893 TTTATATGTA
57903 ATTTTTG-AAA-GTATATAGTATATGTTTTGAAAACGT
1 ATTTTTGAAAACGTATATA-TATATGTTTTGAAAACGT
* * *
57939 ATTTTTGAAATCGTATAATATATAAT-TTTTGAATATGT
1 ATTTTTGAAAACGTAT-ATATAT-ATGTTTTGAAAACGT
* * *
57977 AGTTTTGAAAACATATATA-ATATAGTTTTTGAAAACAT
1 ATTTTTGAAAACGTATATATATAT-G-TTTTGAAAACGT
* * **
58015 ATTTTTTTGAAAACGTATAATATATAGTTTTTTAAAAAAAT
1 A--TTTTTGAAAACGTAT-ATATATA-TGTTTTGAAAACGT
** * **
58056 GGTTTTGAAAACATATGATATATA-GTTTT-AAAAAAT
1 ATTTTTGAAAACGTAT-ATATATATGTTTTGAAAACGT
* * * *
58092 AGTTTCGAAAACGTATCATATACAAT-TTTT-AAAA-AT
1 ATTTTTGAAAACGTAT-ATATA-TATGTTTTGAAAACGT
58128 -TGTTTTGAAAACG--TATA-ATATGATTTTGAAAA--T
1 AT-TTTTGAAAACGTATATATATATG-TTTTGAAAACGT
*
58161 AATTTTTGAAAA-ATATATAATATAT
1 -ATTTTTGAAAACGTATAT-ATATAT
58186 ATAATTTTTT
Statistics
Matches: 195, Mismatches: 28, Indels: 47
0.72 0.10 0.17
Matches are distributed among these distances:
31 2 0.01
32 1 0.01
33 8 0.04
34 14 0.07
35 6 0.03
36 47 0.24
37 22 0.11
38 40 0.21
39 25 0.13
40 13 0.07
41 13 0.07
42 3 0.02
43 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (37 bp):
ATTTTTGAAAACGTATATATATATGTTTTGAAAACGT
Found at i:58023 original size:40 final size:39
Alignment explanation
Indices: 57978--58184 Score: 147
Period size: 36 Copynumber: 5.6 Consensus size: 39
57968 TGAATATGTA
* *
57978 GTTTTGAAAACATATATAATATAGTTTTTGAAAACATATT
1 GTTTTGAAAACATATATAATATAGTTTTTGAAAA-AAATG
* * *
58018 TTTTTGAAAACGTATA-ATATATAGTTTTTTAAAAAAATG
1 GTTTTGAAAACATATATA-ATATAGTTTTTGAAAAAAATG
*
58057 GTTTTGAAAACATATGAT-ATATAG-TTTT--AAAAAATA
1 GTTTTGAAAACATAT-ATAATATAGTTTTTGAAAAAAATG
* * * * *
58093 GTTTCGAAAACGTATCAT-ATACAATTTTT---AAAAATT
1 GTTTTGAAAACATAT-ATAATATAGTTTTTGAAAAAAATG
* * *
58129 GTTTTGAAAAC--GTATAATAT-GATTTTGAAAATAAT-
1 GTTTTGAAAACATATATAATATAGTTTTTGAAAAAAATG
58164 -TTTTGAAAA-ATATATAATATA
1 GTTTTGAAAACATATATAATATA
58185 TATAATTTTT
Statistics
Matches: 135, Mismatches: 21, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
33 6 0.04
34 13 0.10
35 8 0.06
36 47 0.35
37 4 0.03
38 4 0.03
39 23 0.17
40 30 0.22
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.41
Consensus pattern (39 bp):
GTTTTGAAAACATATATAATATAGTTTTTGAAAAAAATG
Found at i:58102 original size:36 final size:38
Alignment explanation
Indices: 57941--58148 Score: 183
Period size: 36 Copynumber: 5.5 Consensus size: 38
57931 GAAAACGTAT
* * * * **
57941 TTTTGAAATCGTATAATATATAATTTTTGAATATGTAG
1 TTTTGAAAACGTATAATATATAGTTTTTAAAAAAATAG
* * **
57979 TTTTGAAAACATAT-ATAATATAGTTTTTGAAAACATATTT
1 TTTTGAAAACGTATAAT-ATATAGTTTTT-AAAA-AAATAG
*
58019 TTTTGAAAACGTATAATATATAGTTTTTTAAAAAAATGG
1 TTTTGAAAACGTATAATATATAG-TTTTTAAAAAAATAG
* *
58058 TTTTGAAAACATATGATATATAG-TTTT-AAAAAATAG
1 TTTTGAAAACGTATAATATATAGTTTTTAAAAAAATAG
* * * * *
58094 TTTCGAAAACGTATCATATACAATTTTT--AAAAATTG
1 TTTTGAAAACGTATAATATATAGTTTTTAAAAAAATAG
58130 TTTTGAAAACGTATAATAT
1 TTTTGAAAACGTATAATAT
58149 GATTTTGAAA
Statistics
Matches: 141, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
36 50 0.35
37 10 0.07
38 22 0.16
39 26 0.18
40 26 0.18
41 7 0.05
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (38 bp):
TTTTGAAAACGTATAATATATAGTTTTTAAAAAAATAG
Found at i:58190 original size:27 final size:27
Alignment explanation
Indices: 58159--58212 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
58149 GATTTTGAAA
58159 ATAA-TTTTTGAAAA-ATATATAATATAT
1 ATAATTTTTTGAAAACATAT-T-ATATAT
58186 ATAATTTTTTGAAAACATATTATATAT
1 ATAATTTTTTGAAAACATATTATATAT
58213 TTGTTGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 10 0.40
28 11 0.44
29 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
ATAATTTTTTGAAAACATATTATATAT
Found at i:58214 original size:22 final size:23
Alignment explanation
Indices: 58182--58232 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
58172 AATATATAAT
*
58182 ATATATAATTTTTTGAAAACATA
1 ATATATAATTTGTTGAAAACATA
* * *
58205 TTATAT-ATTTGTTGGAAATATA
1 ATATATAATTTGTTGAAAACATA
58227 ATATAT
1 ATATAT
58233 GTTATATAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (23 bp):
ATATATAATTTGTTGAAAACATA
Found at i:58251 original size:3 final size:3
Alignment explanation
Indices: 58243--58294 Score: 54
Period size: 3 Copynumber: 16.7 Consensus size: 3
58233 GTTATATAGT
58243 TTA TTA TTA TTA TTA TTTA TTA TTA TT- TTA TATA TTA GGTTA -TA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA --TTA TTA TTA
58290 TTA TT
1 TTA TT
58295 TATTTATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
2 4 0.09
3 30 0.70
4 6 0.14
5 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:58264 original size:10 final size:10
Alignment explanation
Indices: 58243--58298 Score: 60
Period size: 10 Copynumber: 5.2 Consensus size: 10
58233 GTTATATAGT
58243 TTATTA-TTA
1 TTATTATTTA
58252 TTATTATTTA
1 TTATTATTTA
58262 TTATTATTTTA
1 TTATTA-TTTA
58273 TATATTAGGTTATA
1 T-TATTA--TT-TA
58287 TTATTATTTA
1 TTATTATTTA
58297 TT
1 TT
58299 TATTTAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
9 6 0.15
10 13 0.32
11 7 0.17
12 5 0.12
13 7 0.17
14 3 0.07
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (10 bp):
TTATTATTTA
Found at i:59395 original size:16 final size:16
Alignment explanation
Indices: 59376--59408 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
59366 AATTCTTTCC
59376 AATTTAATCCTTCTTT
1 AATTTAATCCTTCTTT
59392 AATTTAATCCTTCTTT
1 AATTTAATCCTTCTTT
59408 A
1 A
59409 GTGATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTAATCCTTCTTT
Found at i:63332 original size:58 final size:59
Alignment explanation
Indices: 63256--63415 Score: 164
Period size: 58 Copynumber: 2.7 Consensus size: 59
63246 ATCATATGTC
* * *
63256 CCCAAACTATGACCCTTATTTTAAATTGATCCTTAATCTTTTAAATATTTCAATTTCT-T
1 CCCAAACTATGACCCTTATTTTAAATTGATCCTTAAACTTTTAAACATTCCAATTT-TAT
* ** * *
63315 -CCAAACTATGACTCTTATGCTAAATT-ATTCTTTAAACTTTTGAACATTCCAATTTTAT
1 CCCAAACTATGACCCTTATTTTAAATTGA-TCCTTAAACTTTTAAACATTCCAATTTTAT
* * **
63373 CCTCAAACTATAACCCTCATTTTAAATTGATCCCAAAACTTTT
1 CC-CAAACTATGACCCTTATTTTAAATTGATCCTTAAACTTTT
63416 CATTCTTCCA
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
57 2 0.03
58 46 0.57
59 1 0.01
60 30 0.38
61 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.42
Consensus pattern (59 bp):
CCCAAACTATGACCCTTATTTTAAATTGATCCTTAAACTTTTAAACATTCCAATTTTAT
Found at i:65252 original size:19 final size:19
Alignment explanation
Indices: 65228--65383 Score: 66
Period size: 20 Copynumber: 7.8 Consensus size: 19
65218 ATGACCAACA
*
65228 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
65247 AAATCGCAACGCGATCTCC
1 AAATCGCAACGCGATCTCT
* ** * *
65266 AGTATCGCAAATC-AGTTTCC
1 A-AATCGCAACGCGA-TCTCT
*
65286 AGATTCGCAACGCGAT-TCT
1 A-AATCGCAACGCGATCTCT
* * *
65305 GACTATCGCAACGCGATAATACA
1 -A-AATCGCAACGCGAT-CT-CT
65328 AAATCGCAACGCGAT-TCT
1 AAATCGCAACGCGATCTCT
* * *
65346 GACTATCGCAACGCGATAATACA
1 -A-AATCGCAACGCGAT-CT-CT
65369 AAATCGCAACGCGAT
1 AAATCGCAACGCGAT
65384 TCTGATTATC
Statistics
Matches: 105, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
18 1 0.01
19 23 0.22
20 48 0.46
21 27 0.26
22 4 0.04
23 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:65274 original size:20 final size:19
Alignment explanation
Indices: 65249--65385 Score: 69
Period size: 20 Copynumber: 6.8 Consensus size: 19
65239 CGATCTCTAA
*
65249 ATCGCAACGCGATCTCCAGT
1 ATCGCAACGCGAT-TCCACT
** * *
65269 ATCGCAAATCAGTTTCCA-G
1 ATCGCAACGC-GATTCCACT
*
65288 ATTCGCAACGCGATTCTGACT
1 A-TCGCAACGCGATTC-CACT
* **
65309 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGAT--TCCACT
*
65330 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTC-CACT
* **
65350 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGAT--TCCACT
65371 ATCGCAACGCGATTC
1 ATCGCAACGCGATTC
65386 TGATTATCGC
Statistics
Matches: 86, Mismatches: 22, Indels: 19
0.68 0.17 0.15
Matches are distributed among these distances:
19 7 0.08
20 46 0.53
21 31 0.36
22 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (19 bp):
ATCGCAACGCGATTCCACT
Found at i:65335 original size:21 final size:21
Alignment explanation
Indices: 65309--65383 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
65299 GATTCTGACT
65309 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
** *
65330 ATCGCAACGCGATTCTGAC--T
1 ATCGCAACGCGATAAT-ACAAA
65350 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
65371 ATCGCAACGCGAT
1 ATCGCAACGCGAT
65384 TCTGATTATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:65341 original size:41 final size:41
Alignment explanation
Indices: 65290--65395 Score: 203
Period size: 41 Copynumber: 2.6 Consensus size: 41
65280 GTTTCCAGAT
65290 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACAAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACAAAA
65331 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACAAAA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACAAAA
*
65372 TCGCAACGCGATTCTGATTATCGC
1 TCGCAACGCGATTCTGACTATCGC
65396 TACAAAATCG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (41 bp):
TCGCAACGCGATTCTGACTATCGCAACGCGATAATACAAAA
Found at i:65403 original size:31 final size:31
Alignment explanation
Indices: 65365--65445 Score: 153
Period size: 31 Copynumber: 2.6 Consensus size: 31
65355 AACGCGATAA
*
65365 TACAAAATCGCAACGCGATTCTGATTATCGC
1 TACAAAATCGCAACGCGATTCTGACTATCGC
65396 TACAAAATCGCAACGCGATTCTGACTATCGC
1 TACAAAATCGCAACGCGATTCTGACTATCGC
65427 TACAAAATCGCAACGCGAT
1 TACAAAATCGCAACGCGAT
65446 AATACAAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (31 bp):
TACAAAATCGCAACGCGATTCTGACTATCGC
Found at i:65474 original size:21 final size:21
Alignment explanation
Indices: 65427--65466 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
65417 TGACTATCGC
65427 TACAAAATCGCAACGCGATAA
1 TACAAAATCGCAACGCGATAA
*
65448 TACAAAATCGCAATGCGAT
1 TACAAAATCGCAACGCGAT
65467 TTTCCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (21 bp):
TACAAAATCGCAACGCGATAA
Found at i:65927 original size:22 final size:21
Alignment explanation
Indices: 65872--65958 Score: 65
Period size: 19 Copynumber: 4.0 Consensus size: 21
65862 TGGATTTTTC
*
65872 ACTATCGAAACACTTTTTTC--
1 ACTATCGCAACAC-TTTTTCAA
65892 ACTATCGCAACAACACGTTTTTCAA
1 ACTATCG---CAACAC-TTTTTCAA
* *
65917 ACTCTCGCAACACATTTT--A
1 ACTATCGCAACACTTTTTCAA
65936 ACTATCGCAACACATTTTTCAA
1 ACTATCGCAACAC-TTTTTCAA
65958 A
1 A
65959 ATCGCGTTGC
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
19 13 0.25
20 11 0.21
21 4 0.08
22 8 0.15
23 11 0.21
25 6 0.11
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (21 bp):
ACTATCGCAACACTTTTTCAA
Found at i:65943 original size:19 final size:19
Alignment explanation
Indices: 65916--65953 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
65906 ACGTTTTTCA
*
65916 AACTCTCGCAACACATTTT
1 AACTATCGCAACACATTTT
65935 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
65954 TCAAAATCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTATCGCAACACATTTT
Found at i:65962 original size:20 final size:20
Alignment explanation
Indices: 65865--65963 Score: 76
Period size: 20 Copynumber: 4.8 Consensus size: 20
65855 CTTATTTTGG
* *
65865 ATTTTTCACTATCGAAACAC
1 ATTTTTCAATATCGCAACAC
* *
65885 TTTTTTCACTATCGCAACAAC
1 ATTTTTCAATATCGCAAC-AC
*
65906 ACGTTTTTCAAACTCTCGCAACAC
1 A--TTTTTC-AA-TATCGCAACAC
65930 A-TTTT-AACTATCGCAACAC
1 ATTTTTCAA-TATCGCAACAC
*
65949 ATTTTTCAAAATCGC
1 ATTTTTCAATATCGC
65964 GTTGCGAATC
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
19 14 0.22
20 25 0.38
21 8 0.12
23 6 0.09
24 4 0.06
25 8 0.12
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.34
Consensus pattern (20 bp):
ATTTTTCAATATCGCAACAC
Found at i:71776 original size:16 final size:15
Alignment explanation
Indices: 71730--71776 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
71720 AATAAGCTCC
71730 AATCAATCTAAAACA
1 AATCAATCTAAAACA
*
71745 AATGCAAGCTAAAACA
1 AAT-CAATCTAAAACA
*
71761 AAGTCAATCTATAACA
1 AA-TCAATCTAAAACA
71777 TACTGGCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 3 0.11
16 23 0.85
17 1 0.04
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (15 bp):
AATCAATCTAAAACA
Found at i:73181 original size:31 final size:31
Alignment explanation
Indices: 73143--73238 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
73133 GAACCTCGGC
* *
73143 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
73174 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* * *
73205 TATTGTCCATATGTCCCGTAAG-ACATAGGTA
1 AACTGTCCATATGTTCCG-AAGAACATAGGTA
73236 AAC
1 AAC
73239 CCTCAAATCT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
31 51 0.96
32 2 0.04
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:73541 original size:2 final size:2
Alignment explanation
Indices: 73534--73577 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
73524 AATTATGTAA
73534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73576 AT
1 AT
73578 TCATGTGCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75212 original size:13 final size:13
Alignment explanation
Indices: 75194--75262 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
75184 CCAACAAATG
75194 TATGCATGAACAA
1 TATGCATGAACAA
*
75207 TATGCAAT-AACAT
1 TATGC-ATGAACAA
75220 TATGCA-GTAACAA
1 TATGCATG-AACAA
* *
75233 TATGCAAT-AATAG
1 TATGC-ATGAACAA
*
75246 TATGCATGAAGAA
1 TATGCATGAACAA
75259 TATG
1 TATG
75263 TATTACCAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
12 3 0.07
13 38 0.86
14 3 0.07
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (13 bp):
TATGCATGAACAA
Found at i:75231 original size:26 final size:26
Alignment explanation
Indices: 75193--75262 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
75183 GCCAACAAAT
75193 GTATGCATGAACAATATGCAATAACA
1 GTATGCATGAACAATATGCAATAACA
* *
75219 TTATGCA-GTAACAATATGCAATAATA
1 GTATGCATG-AACAATATGCAATAACA
*
75245 GTATGCATGAAGAATATG
1 GTATGCATGAACAATATG
75263 TATTACCAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 36 0.95
27 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.27
Consensus pattern (26 bp):
GTATGCATGAACAATATGCAATAACA
Found at i:77070 original size:45 final size:45
Alignment explanation
Indices: 77006--77122 Score: 189
Period size: 45 Copynumber: 2.6 Consensus size: 45
76996 CTATCCTCAC
* *
77006 CTCAGCAGGTTCTGGTTCATCAATTTCAGGTTCATTAATTTCTGG
1 CTCAGCTGGTTCTGGTTCATTAATTTCAGGTTCATTAATTTCTGG
*
77051 CTCAGCTGGTTCTGGTTCATTAATTTTAGGTTCATTAATTTCTGG
1 CTCAGCTGGTTCTGGTTCATTAATTTCAGGTTCATTAATTTCTGG
* *
77096 CTCAGTTTGTTCTGGTTCATTAATTTC
1 CTCAGCTGGTTCTGGTTCATTAATTTC
77123 TAGCTTAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (45 bp):
CTCAGCTGGTTCTGGTTCATTAATTTCAGGTTCATTAATTTCTGG
Found at i:77123 original size:15 final size:15
Alignment explanation
Indices: 77015--77166 Score: 99
Period size: 15 Copynumber: 10.5 Consensus size: 15
77005 CCTCAGCAGG
*
77015 TTCTGGTTCATCAAT
1 TTCTGGTTCATTAAT
*
77030 TTCAGGTTCATTAAT
1 TTCTGGTTCATTAAT
* * **
77045 TTCTGGCTCAGCT-GG
1 TTCTGGTTCA-TTAAT
77060 TTCTGGTTCATTAAT
1 TTCTGGTTCATTAAT
77075 TT-TAGGTTCATTAAT
1 TTCT-GGTTCATTAAT
*
77090 TTCTGGCTCAGTT--T
1 TTCTGGTTCA-TTAAT
77104 GTTCTGGTTCATTAAT
1 -TTCTGGTTCATTAAT
*
77120 TTCTAG--C-TT-A-
1 TTCTGGTTCATTAAT
*
77130 GT-TGGTTCATTAAT
1 TTCTGGTTCATTAAT
* *
77144 TTCGGGTTCAGTAAT
1 TTCTGGTTCATTAAT
77159 TTCTGGTT
1 TTCTGGTT
77167 GAACTGGTTC
Statistics
Matches: 103, Mismatches: 20, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
9 2 0.02
10 1 0.01
11 2 0.02
12 4 0.04
13 2 0.02
14 6 0.06
15 81 0.79
16 5 0.05
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.48
Consensus pattern (15 bp):
TTCTGGTTCATTAAT
Found at i:77161 original size:69 final size:69
Alignment explanation
Indices: 77063--77191 Score: 177
Period size: 69 Copynumber: 1.9 Consensus size: 69
77053 CAGCTGGTTC
* * ** * *
77063 TGGTTCATTAATTTTAGGTTCATTAATTTCTGGCTCAGTTTGTTCTGGTTCATTAATTTCTAGCT
1 TGGTTCATTAATTTCAGGTTCAGTAATTTCTGGCTCAACTGGTTCTGCTTCATTAATTTCTAGCT
77128 TAGT
66 TAGT
* * *
77132 TGGTTCATTAATTTCGGGTTCAGTAATTTCTGGTTGAACTGGTTCTGCTTCATTAATTTC
1 TGGTTCATTAATTTCAGGTTCAGTAATTTCTGGCTCAACTGGTTCTGCTTCATTAATTTC
77192 AAGTTCATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 51 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (69 bp):
TGGTTCATTAATTTCAGGTTCAGTAATTTCTGGCTCAACTGGTTCTGCTTCATTAATTTCTAGCT
TAGT
Found at i:77778 original size:17 final size:17
Alignment explanation
Indices: 77756--77794 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
77746 GTTTGTATAT
77756 ATGCACTGCATATATTC
1 ATGCACTGCATATATTC
77773 ATGCACTGCATATATTC
1 ATGCACTGCATATATTC
77790 ATGCA
1 ATGCA
77795 AAAGTCAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (17 bp):
ATGCACTGCATATATTC
Found at i:78434 original size:24 final size:24
Alignment explanation
Indices: 78399--78465 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
78389 ACGGGGAGGT
*
78399 TGAAGGCGAATGGGTTTTCTGCGA
1 TGAAGGCGAATGGGTTTTCTGCAA
*
78423 TGAAGGCTAATGGGTTTTCTGCAA
1 TGAAGGCGAATGGGTTTTCTGCAA
*
78447 TGAAGGCGAATGAGTTTTC
1 TGAAGGCGAATGGGTTTTC
78466 AGACGAAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.24, C:0.12, G:0.33, T:0.31
Consensus pattern (24 bp):
TGAAGGCGAATGGGTTTTCTGCAA
Found at i:78569 original size:98 final size:96
Alignment explanation
Indices: 78423--78750 Score: 474
Period size: 98 Copynumber: 3.5 Consensus size: 96
78413 TTTTCTGCGA
* *
78423 TGAAGGCTAATGGGTTTTCTGCAATGAAGGCGAATGAGTTTTCAGACGAAATCTTTCAAAATCTC
1 TGAAGGCGAATGGGTTTTCTGCGATGAAGGCGAATGAGTTTTCAGACGAAATC-TTC-AAATCTC
*
78488 TCTAAAGTGCGAAGGATTTTTAGACGAGGAGGT
64 TCTAAAGTGCGAAGGATTTTCAGACGAGGAGGT
* * *
78521 TGAAGGCGAATGAGTTTTCTGCGATGAAGGCAAATGGGTTTTCAGACG--------AAATCTCTC
1 TGAAGGCGAATGGGTTTTCTGCGATGAAGGCGAATGAGTTTTCAGACGAAATCTTCAAATCTCTC
78578 TAAAGTGCGAAGGATTTTCAGACGAGGAGGT
66 TAAAGTGCGAAGGATTTTCAGACGAGGAGGT
* * * *
78609 TGAAGACGAATGGGGTTTCTGCGATGAAGTCGAATGGGTTTTCAGACGAAATCTCTCGAAATCTC
1 TGAAGGCGAATGGGTTTTCTGCGATGAAGGCGAATGAGTTTTCAGACGAAATCT-TC-AAATCTC
78674 TCTAAAGTGCGAAGGATTTTCAGACGAGGAGGT
64 TCTAAAGTGCGAAGGATTTTCAGACGAGGAGGT
78707 TGAAGGCGAATGGGTTTTCTGCGATGAAGGCGAATGAGTTTTCA
1 TGAAGGCGAATGGGTTTTCTGCGATGAAGGCGAATGAGTTTTCA
78751 CTCTTTTAAC
Statistics
Matches: 205, Mismatches: 15, Indels: 20
0.85 0.06 0.08
Matches are distributed among these distances:
88 82 0.40
98 123 0.60
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.28
Consensus pattern (96 bp):
TGAAGGCGAATGGGTTTTCTGCGATGAAGGCGAATGAGTTTTCAGACGAAATCTTCAAATCTCTC
TAAAGTGCGAAGGATTTTCAGACGAGGAGGT
Found at i:84791 original size:24 final size:22
Alignment explanation
Indices: 84763--84842 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 22
84753 CACTTAACAA
84763 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
* *
84787 TGCATCAATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
84807 ATGCACCGATGCATTCCTTGAATG
1 -TGCATCGATGCA-TCCTTGAATG
84831 TGCATCGATGCA
1 TGCATCGATGCA
84843 CAAGACCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 10 0.22
22 3 0.07
23 13 0.28
24 16 0.35
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:85241 original size:18 final size:19
Alignment explanation
Indices: 85205--85242 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
85195 TTTTACTGCC
* *
85205 AATTTCTTCCAAAACAAAT
1 AATTTCTTCAAAAAAAAAT
85224 AATTT-TTCAAAAAAAAAT
1 AATTTCTTCAAAAAAAAAT
85242 A
1 A
85243 TAGTAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTTCTTCAAAAAAAAAT
Found at i:87234 original size:21 final size:21
Alignment explanation
Indices: 87210--87249 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
87200 TTTTCAAAGG
87210 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
87231 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
87250 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:87299 original size:19 final size:19
Alignment explanation
Indices: 87275--87313 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
87265 TCGAATGCAT
87275 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
87294 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
87313 T
1 T
87314 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:87346 original size:64 final size:65
Alignment explanation
Indices: 87210--87439 Score: 195
Period size: 64 Copynumber: 3.5 Consensus size: 65
87200 TTTTCAAAGG
*
87210 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCGAATGC
87273 ATTC
62 ATTC
* * * *
87277 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATTCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
* * ** ** ** *
87341 GATGCATCGATGCACAATCCATGCATCGATGCAC-CA-GGCTATTTTTCAAACATCGAATGCACT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATA-AATTAAAACATCGAATGCA-T
87404 T-
64 TC
* * *
87405 CATGCATCGATGCACTCT-TAGTGCACCGATGCACT
1 CATGCACCGATGCACTCTCCA-TGCATCGATGCACT
87440 AGGAGTCCAA
Statistics
Matches: 135, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
63 4 0.03
64 95 0.70
65 17 0.13
66 3 0.02
67 14 0.10
68 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCGAATGCATTC
Found at i:87419 original size:17 final size:19
Alignment explanation
Indices: 87391--87439 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
87381 ATTTTTCAAA
87391 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
87409 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
87428 CACCGATGCACT
1 CATCGATGCACT
87440 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:91974 original size:71 final size:72
Alignment explanation
Indices: 91868--92010 Score: 270
Period size: 71 Copynumber: 2.0 Consensus size: 72
91858 CTCAAATCCT
91868 CCAAATTCAAGCTCAAATTCTACCACAACAACAACAGAAGGAAGTGGAGCTTGCTTCCATGG-GG
1 CCAAATTCAAGCTCAAATTCTACCACAACAACAACAGAAGGAAGTGGAGCTTGCTTCCATGGCGG
91932 CTGCAAC
66 CTGCAAC
*
91939 CCAAATTCAAGCTCAAATTCTACCACAACAACAACAGAAGGAAGTGGAGCTTGCTTCCATGGCTG
1 CCAAATTCAAGCTCAAATTCTACCACAACAACAACAGAAGGAAGTGGAGCTTGCTTCCATGGCGG
92004 CTGCAAC
66 CTGCAAC
92011 AACATCCCTT
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 62 0.89
72 8 0.11
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (72 bp):
CCAAATTCAAGCTCAAATTCTACCACAACAACAACAGAAGGAAGTGGAGCTTGCTTCCATGGCGG
CTGCAAC
Found at i:93224 original size:31 final size:31
Alignment explanation
Indices: 93189--93259 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
93179 TCTTTAATTT
**
93189 TTTATCAATTTATTATA-ATATAATCATTAAA
1 TTTATCAAACTATTATACA-ATAATCATTAAA
* *
93220 TTTATCAAACTATTATACAATGATCCTTAAA
1 TTTATCAAACTATTATACAATAATCATTAAA
*
93251 GTTATCAAA
1 TTTATCAAA
93260 ATTCAGCTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (31 bp):
TTTATCAAACTATTATACAATAATCATTAAA
Found at i:95991 original size:159 final size:160
Alignment explanation
Indices: 95733--96248 Score: 725
Period size: 159 Copynumber: 3.2 Consensus size: 160
95723 AGTTCAGTTT
* *** * * *
95733 GATTAATGGTTAAAGAAAAAAATTCGGTTAATTCAATTCGGTAAATCATTTTTAAATAAATTTCA
1 GATTAATGGTTAAAGAAAAAAATTCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCA
* *
95798 ATTCGATTAACGGTTAAGGAAAAAATAATTTATTTTATTCGATTAATAATTTTCAAATAAATTTC
66 GTTCGATTAACGGTTAAAG-AAAAATAATTTATTTTATTCGATTAATAATTTTCAAATAAATTTC
* *
95863 GATTCGATTAACAGTCAAATAATTTCGATTC
130 GATTCGATTAACGGTCAAATAATTTCGGTTC
* *
95894 GATTCATGGTGAAAGAAAAAAA-TCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTAT-
1 GATTAATGGTTAAAGAAAAAAATTCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATT-TC
* *
95957 AGTTCGATTAACAGTTAAAGAAAAATAATTTATTTTATTCGGTTAATAATTTTCAAATAAATTTC
65 AGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGATTAATAATTTTCAAATAAATTTC
*
96022 GATTCAATTAACGGTCAAATAATTTCGGTTC
130 GATTCGATTAACGGTCAAATAATTTCGGTTC
*
96053 GATTAATGGTTAAAG-AAAAAA-TCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCG
1 GATTAATGGTTAAAGAAAAAAATTCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCA
96116 GTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTCGGTTAATAATTTTCAAA
66 GTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTC-G---A-----TTAATAATTTTCAAA
* * *
96181 TAAATTTGGGTTCGATTAACGGTCAAATAATTTTGGTTC
122 TAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTC
96220 GATTAATGGTTAAAGAAAAAAATTCGGTT
1 GATTAATGGTTAAAGAAAAAAATTCGGTT
96249 AATAATTTTC
Statistics
Matches: 317, Mismatches: 25, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
157 1 0.00
158 83 0.26
159 86 0.27
160 49 0.15
161 21 0.07
167 65 0.21
168 6 0.02
169 6 0.02
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (160 bp):
GATTAATGGTTAAAGAAAAAAATTCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCA
GTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGATTAATAATTTTCAAATAAATTTCG
ATTCGATTAACGGTCAAATAATTTCGGTTC
Found at i:96117 original size:67 final size:71
Alignment explanation
Indices: 96036--96203 Score: 211
Period size: 74 Copynumber: 2.4 Consensus size: 71
96026 CAATTAACGG
* * *
96036 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAG-AAAA-AA-TCGGTTGATTTGG-TTCGGTTAA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTCAGTTGATTCGGATTCGGTTAA
96096 TAATTT
66 TAATTT
* * *
96102 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTCGGT
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTCAGTTGATTCGG---ATTCGGT
96167 TAATAATTT
63 TAATAATTT
*
96176 TCAAATAAATTTGGGTTCGATTAACGGT
1 TCAAATAAATTTCGGTTCGATTAACGGT
96204 CAAATAATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
66 6 0.07
67 25 0.29
68 4 0.05
69 2 0.02
70 8 0.09
74 42 0.48
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (71 bp):
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTCAGTTGATTCGGATTCGGTTAA
TAATTT
Found at i:96290 original size:27 final size:27
Alignment explanation
Indices: 96176--96306 Score: 99
Period size: 26 Copynumber: 4.9 Consensus size: 27
96166 TTAATAATTT
*
96176 TCAAATAAATTTGGGTTCGATTAACGG
1 TCAAATAAATTTCGGTTCGATTAACGG
* *
96203 TCAAAT-AATTTTGGTTCGATTAATGG
1 TCAAATAAATTTCGGTTCGATTAACGG
* * * * ***
96229 TTAAAGAAAAAAATTCGGTT--AATAATTT
1 -T-CA-AATAAATTTCGGTTCGATTAACGG
*
96257 TCAAATAAATTTCGGTTCGATTAACAG
1 TCAAATAAATTTCGGTTCGATTAACGG
*
96284 TCAAAT-AATTTCGGTTAGATTAA
1 TCAAATAAATTTCGGTTCGATTAA
96307 TGTTAAAGAA
Statistics
Matches: 81, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
25 12 0.15
26 35 0.43
27 18 0.22
28 6 0.07
29 2 0.02
30 8 0.10
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (27 bp):
TCAAATAAATTTCGGTTCGATTAACGG
Found at i:96294 original size:81 final size:79
Alignment explanation
Indices: 96159--96330 Score: 290
Period size: 81 Copynumber: 2.2 Consensus size: 79
96149 TTATTCGGTT
* * * *
96159 AATTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTCAAATAATTTTGGTTCGATT
1 AATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAGTCAAATAATTTCGGTTAGATT
96224 AATGGTTAAAGAAAAA
66 AAT-GTTAAAG-AAAA
96240 AATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAGTCAAATAATTTCGGTTAGATT
1 AATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAGTCAAATAATTTCGGTTAGATT
96305 AATGTTAAAGAAAA
66 AATGTTAAAGAAAA
96319 AATTCGGTTAAT
1 AATTCGGTTAAT
96331 TTGGTTCGAT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 16 0.18
80 7 0.08
81 64 0.74
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (79 bp):
AATTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACAGTCAAATAATTTCGGTTAGATT
AATGTTAAAGAAAA
Found at i:98398 original size:64 final size:64
Alignment explanation
Indices: 98330--98507 Score: 169
Period size: 64 Copynumber: 2.8 Consensus size: 64
98320 GAACACTTGA
*
98330 TGCATCTG-TGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGG
1 TGCATC-GATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCTGG
***** * ** *
98394 TGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTAAAAATATTCAGAG
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCTG-G
* *** * * **
98459 TGTATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTT
98508 CAATTAATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
63 1 0.01
64 51 0.54
65 43 0.45
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCACCAAGTGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGCCTGG
Found at i:98479 original size:19 final size:19
Alignment explanation
Indices: 98455--98505 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
98445 AAAAATATTC
*
98455 AGAGTGTATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
98474 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
98493 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
98506 TTCAATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 18 0.64
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.25
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:98490 original size:65 final size:64
Alignment explanation
Indices: 98348--98507 Score: 212
Period size: 65 Copynumber: 2.5 Consensus size: 64
98338 TGCACCAAGT
* ***
98348 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
* * ** *
98412 GTGCATCGATGCATCAAATGCATTCGATGTTTTAAAAATATTCAGAGTGTATCGATGCATGGAGA
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCAG-GTGCATCGATGCATGGAGA
* *
98477 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
98508 CAATTAATTC
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
64 40 0.48
65 43 0.52
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
Found at i:98547 original size:65 final size:66
Alignment explanation
Indices: 98349--98556 Score: 216
Period size: 64 Copynumber: 3.2 Consensus size: 66
98339 GCACCAAGTG
* * ** *
98349 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATATTCAGAGTGCATCGATGCATGGAC-T
98412 G-
65 GA
* * * *
98413 TGCATCGATGCATCAAATGCATTCGATGTTTTAAAAATATTCAGAGTGTATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATATTCAGAGTGCATCGATGCATGGACTG
98476 A
66 A
* **
98477 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTA-ATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATATTCA--GAGTGCATCGATGCATGGA
98539 CTGA
63 CTGA
98543 TGCATCGGTGCATG
1 TGCATCGGTGCATG
98557 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
63 6 0.05
64 59 0.48
65 56 0.46
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (66 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAATATTCAGAGTGCATCGATGCATGGACTG
A
Found at i:98745 original size:20 final size:21
Alignment explanation
Indices: 98722--98761 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
98712 GAATCGAATA
98722 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
98742 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
98762 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:99544 original size:21 final size:21
Alignment explanation
Indices: 99520--99563 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
99510 CTGAAGGAGG
*
99520 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
*
99541 AGGAGCAGCTCGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
99562 AG
1 AG
99564 CTCCCGGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.36, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:100821 original size:58 final size:57
Alignment explanation
Indices: 100707--100822 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 57
100697 TCCAAATAAT
100707 TTTGAAAAATTATGCGTTTTTGATGAAATCGTTGTAGAAACTAGTTTAGAATCATCA
1 TTTGAAAAATTATGCGTTTTTGATGAAATCGTTGTAGAAACTAGTTTAGAATCATCA
100764 TTTGAAAAATTATGCGTTTTTGATGAAATTCGTTGTAGAAACTAGTTTAGAATCATCA
1 TTTGAAAAATTATGCGTTTTTGATGAAA-TCGTTGTAGAAACTAGTTTAGAATCATCA
100822 T
1 T
100823 ATAACCAATG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 28 0.48
58 30 0.52
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (57 bp):
TTTGAAAAATTATGCGTTTTTGATGAAATCGTTGTAGAAACTAGTTTAGAATCATCA
Found at i:101203 original size:20 final size:21
Alignment explanation
Indices: 101156--101212 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
101146 GCATGGTCTT
101156 ATGCATCGATGCATATTCAAGG
1 ATGCATCGATGCATATTCAA-G
*
101178 ATGCATCGATGCAT-TGTTAA-
1 ATGCATCGATGCATAT-TCAAG
*
101198 ATGCATCGGTGCATA
1 ATGCATCGATGCATA
101213 AAGCACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 13 0.42
21 1 0.03
22 17 0.55
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (21 bp):
ATGCATCGATGCATATTCAAG
Found at i:106941 original size:19 final size:19
Alignment explanation
Indices: 106917--106967 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
106907 GAAAATATTC
106917 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
106936 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
106955 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
106968 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:107009 original size:65 final size:63
Alignment explanation
Indices: 106811--107018 Score: 226
Period size: 65 Copynumber: 3.2 Consensus size: 63
106801 GCACCAAGTG
* * * *
106811 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGGTTTG-
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGG-ATGA
*
106875 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA-G
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCATGGATG
106938 A
63 A
* * *
106939 GTGCATCGGTGCATGGAATGCATTCGATGTTT-AATTAATTCATCGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATGGA-T
107003 GA
62 GA
*
107005 TGCATCGGTGCATG
1 TGCATCGATGCATG
107019 CCTTTGAATA
Statistics
Matches: 125, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
63 8 0.06
64 48 0.38
65 65 0.52
66 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (63 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGGATGA
Found at i:107209 original size:20 final size:21
Alignment explanation
Indices: 107186--107225 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
107176 GAATCGAATA
107186 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
107206 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
107226 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:108934 original size:17 final size:17
Alignment explanation
Indices: 108893--108938 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
108883 AAAAGAACAG
108893 AATAAAAAA-TAAAAAC
1 AATAAAAAATTAAAAAC
* *
108909 -ATATTAAAATTAAAAGC
1 AATA-AAAAATTAAAAAC
108926 AATAAAAAATTAA
1 AATAAAAAATTAA
108939 TTAAAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 3 0.12
16 4 0.17
17 14 0.58
18 3 0.12
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (17 bp):
AATAAAAAATTAAAAAC
Found at i:110383 original size:175 final size:175
Alignment explanation
Indices: 110092--110442 Score: 702
Period size: 175 Copynumber: 2.0 Consensus size: 175
110082 CAACATACGG
110092 TTGACAGGCCTGCGAGCTAAATGAAATCAAACTTGAAATGTCTTCGCTGACAGATAACTTTTCTC
1 TTGACAGGCCTGCGAGCTAAATGAAATCAAACTTGAAATGTCTTCGCTGACAGATAACTTTTCTC
110157 AACTTAAGCTATACTGCCGGAAAACGGTTTATTGTCACTAAGGCACGGCTAACCCATGTCTTCTT
66 AACTTAAGCTATACTGCCGGAAAACGGTTTATTGTCACTAAGGCACGGCTAACCCATGTCTTCTT
110222 CTCGACCTGAAAACCTCGACTGCAACCGGACAGTAGTGTGATTGA
131 CTCGACCTGAAAACCTCGACTGCAACCGGACAGTAGTGTGATTGA
110267 TTGACAGGCCTGCGAGCTAAATGAAATCAAACTTGAAATGTCTTCGCTGACAGATAACTTTTCTC
1 TTGACAGGCCTGCGAGCTAAATGAAATCAAACTTGAAATGTCTTCGCTGACAGATAACTTTTCTC
110332 AACTTAAGCTATACTGCCGGAAAACGGTTTATTGTCACTAAGGCACGGCTAACCCATGTCTTCTT
66 AACTTAAGCTATACTGCCGGAAAACGGTTTATTGTCACTAAGGCACGGCTAACCCATGTCTTCTT
110397 CTCGACCTGAAAACCTCGACTGCAACCGGACAGTAGTGTGATTGA
131 CTCGACCTGAAAACCTCGACTGCAACCGGACAGTAGTGTGATTGA
110442 T
1 T
110443 GTGTCTTCGA
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 176 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (175 bp):
TTGACAGGCCTGCGAGCTAAATGAAATCAAACTTGAAATGTCTTCGCTGACAGATAACTTTTCTC
AACTTAAGCTATACTGCCGGAAAACGGTTTATTGTCACTAAGGCACGGCTAACCCATGTCTTCTT
CTCGACCTGAAAACCTCGACTGCAACCGGACAGTAGTGTGATTGA
Found at i:110710 original size:36 final size:36
Alignment explanation
Indices: 110625--110738 Score: 174
Period size: 36 Copynumber: 3.1 Consensus size: 36
110615 TAAAGATTGG
* *
110625 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* *
110662 TGTTTTATGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
110698 TGTTTAAAGGGAAACTGTCTTAAGAGAGACAAAATT
1 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATT
110734 TGTTT
1 TGTTT
110739 CAAGATAGAC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 40 0.56
37 31 0.44
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (36 bp):
TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:111927 original size:14 final size:12
Alignment explanation
Indices: 111892--111919 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
111882 TCTTTTTTTA
111892 TTTTCTCTTTGC
1 TTTTCTCTTTGC
111904 TTTTCTCTTTGC
1 TTTTCTCTTTGC
111916 TTTT
1 TTTT
111920 TTCTCTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTTCTCTTTGC
Found at i:115117 original size:2 final size:2
Alignment explanation
Indices: 115110--115175 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
115100 AAGAACGTAA
115110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115152 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
115176 GAAACAATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116103 original size:2 final size:2
Alignment explanation
Indices: 116096--116159 Score: 89
Period size: 2 Copynumber: 33.5 Consensus size: 2
116086 TGTAAATAAG
*
116096 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
116138 -T AT A- AT AT AT AT AC AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
116160 ATGACATATT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 3 0.05
2 52 0.95
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:123550 original size:60 final size:61
Alignment explanation
Indices: 123464--123587 Score: 171
Period size: 60 Copynumber: 2.0 Consensus size: 61
123454 TTTAAATATT
* * *
123464 TTTCATCGCTAAACTATGACTATCATTCTAAATTAATCCTCAAAC-TTTTGAATATTTCAA
1 TTTCATCCCCAAACTATGACTATCATTCTAAATTAATCCTCAAACTTTTTGAACATTTCAA
* * *
123524 TTTCATCCCCAAACTATGGCCT-TCATTCTAAATTATTCCTTAAACTTTTTGAACATTTCAA
1 TTTCATCCCCAAACTAT-GACTATCATTCTAAATTAATCCTCAAACTTTTTGAACATTTCAA
123585 TTT
1 TTT
123588 TTATCTCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 36 0.64
61 20 0.36
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.42
Consensus pattern (61 bp):
TTTCATCCCCAAACTATGACTATCATTCTAAATTAATCCTCAAACTTTTTGAACATTTCAA
Found at i:123792 original size:60 final size:60
Alignment explanation
Indices: 123718--123897 Score: 195
Period size: 60 Copynumber: 3.0 Consensus size: 60
123708 TTTGGATGAA
* * * *
123718 TTTAGGGATGAAATTGGAAGATTCAAAAGTTTAGGGATTAATTTGAAAAT-AGGGTCATA-T
1 TTTA-GGATGAAATTAGAAGATTCAAAAGTTTAAGGAATAATTT-AAAATGAGAGTCATAGT
**
123778 TTTAGGAATGAAATTAGAATG-TTCAAAAGTTTAAGGAATAATTTAAAATGAGAGTTGTAGT
1 TTTAGG-ATGAAATTAGAA-GATTCAAAAGTTTAAGGAATAATTTAAAATGAGAGTCATAGT
* * * * * *
123839 TTAAGGATGAAATTTGAATATTCAAAAGTTTAATGACTAATTTAAAATGAGAGTTATAG
1 TTTAGGATGAAATTAGAAGATTCAAAAGTTTAAGGAATAATTTAAAATGAGAGTCATAG
123898 CTTCGGGACA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
59 7 0.07
60 89 0.86
61 7 0.07
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.34
Consensus pattern (60 bp):
TTTAGGATGAAATTAGAAGATTCAAAAGTTTAAGGAATAATTTAAAATGAGAGTCATAGT
Found at i:135787 original size:20 final size:20
Alignment explanation
Indices: 135764--135841 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 20
135754 TTGGTGCAGA
*
135764 GGGAATCGATACCCCCATGA-
1 GGGAACCGATACCCCC-TGAG
* *
135784 GGGAACCGATTTCCCCTTTGAAG
1 GGGAACCGA-TACCCC-CTG-AG
*
135807 GGGAACCGATTCCCCCT-AG
1 GGGAACCGATACCCCCTGAG
*
135826 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
135842 CTGGGGTTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
19 16 0.33
20 8 0.17
21 8 0.17
22 7 0.15
23 9 0.19
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.18
Consensus pattern (20 bp):
GGGAACCGATACCCCCTGAG
Found at i:135843 original size:20 final size:19
Alignment explanation
Indices: 135805--135847 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
135795 TCCCCTTTGA
*
135805 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATCCCCCCT
*
135824 AGGGGAATCGATACCCCCCT
1 AGGGGAACCGAT-CCCCCCT
135844 -GGGG
1 AGGGG
135848 TTCTGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.21, C:0.33, G:0.33, T:0.14
Consensus pattern (19 bp):
AGGGGAACCGATCCCCCCT
Found at i:141091 original size:3 final size:3
Alignment explanation
Indices: 141078--141148 Score: 124
Period size: 3 Copynumber: 23.7 Consensus size: 3
141068 TTTTTATCCA
*
141078 TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
141126 CAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
141149 AATATATATT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:141175 original size:14 final size:15
Alignment explanation
Indices: 141147--141181 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
141137 TTATTATTAT
141147 TAAATATATATTAAA
1 TAAATATATATTAAA
141162 TAAATATATA-TAAA
1 TAAATATATATTAAA
141176 TAAATA
1 TAAATA
141182 ATTACAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:141633 original size:17 final size:16
Alignment explanation
Indices: 141610--141664 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
141600 CACCGGAGAC
141610 AGAGACAGAAAAAAAG
1 AGAGACAGAAAAAAAG
* *
141626 AGGAGACAGAGAACACAG
1 A-GAGACAGA-AAAAAAG
* *
141644 AGAGACAAAAAAAAAC
1 AGAGACAGAAAAAAAG
141660 AGAGA
1 AGAGA
141665 AAAAAATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 10 0.32
17 15 0.48
18 6 0.19
ACGTcount: A:0.64, C:0.11, G:0.25, T:0.00
Consensus pattern (16 bp):
AGAGACAGAAAAAAAG
Found at i:154308 original size:16 final size:16
Alignment explanation
Indices: 154282--154326 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
154272 TTTGAATACA
*
154282 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
154299 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
154314 ATTCAATTTATTT
1 ATTCAATTTATTT
154327 TTGGAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:155271 original size:83 final size:82
Alignment explanation
Indices: 155106--155905 Score: 1174
Period size: 83 Copynumber: 9.7 Consensus size: 82
155096 AATTAAATGA
*
155106 AAGATGAATGTGTTC-ATAGCATCTTTTGGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGAC
1 AAGATGAAT-T-TTCAATAGCATCTTCT-GGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-C
*
155169 AGAA-CAATCATTGAGTTTAG
62 AGAACCAATCATTGAATTTAG
*
155189 AAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTT-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
155254 ACCAATCATTGAATTTAG
65 ACCAATCATTGAATTTAG
* *
155272 AAGATAAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTT-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
*
155336 AA-CAATCATTGAGTTTAG
64 AACCAATCATTGAATTTAG
155354 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGCAGA
1 AAGATGAATTT-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
155418 ACCAATCATTGAATTTGG
65 ACCAATCATTGAATTTAG
155436 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT-TGGTTTGGACA
1 AAGATGAAT-T-TTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CA
*
155499 GAA-CAATCATTGAGTTTAG
63 GAACCAATCATTGAATTTAG
155518 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
1 AAGATGAATTT-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGA
*
155583 ACCAATCATTGAATTTGG
65 ACCAATCATTGAATTTAG
155601 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
1 AAGATGAAT-T-TTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
*
155665 AACCAATCATTGAATTTGG
64 AACCAATCATTGAATTTAG
155684 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
1 AAGATGAAT-T-TTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
* *
155748 AACCAATCAGTGAGTTTAG
64 AACCAATCATTGAATTTAG
* * *
155767 AAGATGAATTTGCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGGTTGGGCAG
1 AAGATGAATTT-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GGTTTGGCAG
**
155832 AACCAATCATTGAATTCGG
64 AACCAATCATTGAATTTAG
*
155851 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTG
1 AAGATGAAT-T-TTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
155906 ATTCAGTAGG
Statistics
Matches: 669, Mismatches: 27, Indels: 42
0.91 0.04 0.06
Matches are distributed among these distances:
80 1 0.00
81 13 0.02
82 244 0.36
83 333 0.50
84 74 0.11
85 3 0.00
86 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (82 bp):
AAGATGAATTTTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAA
CCAATCATTGAATTTAG
Found at i:155406 original size:165 final size:165
Alignment explanation
Indices: 155106--155905 Score: 1254
Period size: 165 Copynumber: 4.8 Consensus size: 165
155096 AATTAAATGA
* *
155106 AAGATGAATGTGTTCATAGCATCTTTTGGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATGTGTCCATAGCATCTTCT-GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
**
155171 AACAATCATTGAGTTTAGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
65 AACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
155236 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTAG
130 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTAG
* *
155272 AAGATAAATTTG-CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATGTGTCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
155336 AACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
65 AACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
155401 CTGATCTGG-TTGGCAGAACCAATCATTGAATTTGG
130 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTAG
*
155436 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT-TGGTTTGGACAG
1 AAGATGAATGTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
155500 AACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
65 AACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
155565 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTGG
130 CTGATCTGGTTTGGCAGAACCAATCATTGAATTTAG
*
155601 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
1 AAGATGAATGTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
* * *
155665 AACCAATCATTGAATTTGGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTT
65 AA-CAATCATTGAGTTTAGAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTT
* *
155729 ATCTGATCTGGTTTGGCAGAACCAATCAGTGAGTTTAG
128 ATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAG
* * *
155767 AAGATGAATTTG-CCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGGTTGGGCA
1 AAGATGAATGTGTCC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GGTTGGACA
* ** *
155831 GAACCAATCATTGAATTCGGAAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGT
64 GAA-CAATCATTGAGTTTAGAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
*
155895 TATTTGATCTG
127 TATCTGATCTG
155906 ATTCAGTAGG
Statistics
Matches: 603, Mismatches: 21, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
163 3 0.00
164 154 0.26
165 195 0.32
166 172 0.29
167 79 0.13
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (165 bp):
AAGATGAATGTGTCCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTTGGCAGAACCAATCATTGAATTTAG
Found at i:156921 original size:115 final size:114
Alignment explanation
Indices: 156565--157170 Score: 766
Period size: 115 Copynumber: 5.4 Consensus size: 114
156555 TTTCCAGAGA
*
156565 AGTTCAT-ATGAGAAGAACTCG---TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * ** * * * *
156626 TTCAACCTTTTACCCGAATCCATCATTTGATGGATCAGTCTTTTCCAGAGAAG
66 TTCAATCTTTTGCTTGAATTCATCA-TTGATGGATCA-TC-ATTGCAG-GTAG
*
156679 -GTTCATAATGAGAAGAACT--T-ATCTGAAGAAGGAAGAAGAAGTTC--AATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * * * *
156738 TTCAACCTTTT-TTTGAATTCATCAAATTGACGGATTATCTTTGCCAGGTAG
66 TTCAATCTTTTGCTTGAATTCATC--ATTGATGGATCATCATTG-CAGGTAG
156789 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
*
156854 TTCAATCTTTTGCTTGAATTCATCATTTGATGGATCAACATTGCAGGTAG
66 TTCAATCTTTTGCTTGAATTCATCA-TTGATGGATCATCATTGCAGGTAG
156904 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
*
156969 TTCAATCTTTTGCTTGAATTCATCATTGATGGATCAACATTGCCAGGTAG
66 TTCAATCTTTTGCTTGAATTCATCATTGATGGATCATCATTG-CAGGTAG
157019 AGTTCATAATGAGAAGAA--CGTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* ** *
157081 TTC-ATTTTTTGCTTGAATTCATCATTGATGGATCATCATCCCCAGCAG-AA
66 TTCAATCTTTTGCTTGAATTCATCATTGATGGATCATCAT-TGCAG--GTAG
*
157131 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAAG-AGAAGAA
1 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAA
157171 TTTATTCAAT
Statistics
Matches: 452, Mismatches: 21, Indels: 41
0.88 0.04 0.08
Matches are distributed among these distances:
110 6 0.01
111 86 0.19
112 92 0.20
113 21 0.05
114 76 0.17
115 123 0.27
116 37 0.08
117 11 0.02
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (114 bp):
AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAATCTTTTGCTTGAATTCATCATTGATGGATCATCATTGCAGGTAG
Found at i:157319 original size:3 final size:3
Alignment explanation
Indices: 157307--157363 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
157297 TCCATATTTT
*
157307 TTA TTA -TA TTA TTA TTA TTA -TA TTA -TA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
157352 TTA TTA TTA TTA
1 TTA TTA TTA TTA
157364 AATATATATT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 6 0.12
3 43 0.88
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:157390 original size:12 final size:11
Alignment explanation
Indices: 157359--157394 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
157349 TTATTATTAT
*
157359 TATTAAATATA
1 TATTAAATAAA
157370 TATTAAATAAA
1 TATTAAATAAA
157381 TATATAAATAAA
1 TAT-TAAATAAA
157393 TA
1 TA
157395 ATTACAGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TATTAAATAAA
Found at i:157833 original size:17 final size:16
Alignment explanation
Indices: 157810--157856 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
157800 CACCGGAGAC
157810 AGAGACAGAAAAAAAG
1 AGAGACAGAAAAAAAG
* *
157826 AGGAGACAGAAACACAG
1 A-GAGACAGAAAAAAAG
157843 AGAGACA-AAAAAAA
1 AGAGACAGAAAAAAA
157857 AAACAGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 5 0.19
16 7 0.27
17 14 0.54
ACGTcount: A:0.66, C:0.11, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAGACAGAAAAAAAG
Found at i:162601 original size:58 final size:59
Alignment explanation
Indices: 162509--162629 Score: 172
Period size: 58 Copynumber: 2.1 Consensus size: 59
162499 AATTTAAAAA
* *
162509 AATTGTAACACCCTTACCTGTATTTCATTCCC-AAATACGAGTCAAAATGTCACAAGCT
1 AATTGTAACACCCTTACCTGTATTTAATTCCCAAAATACGAGTCAAAATGTCACAAACT
** * * *
162567 AATTGTAACAGTCTTACCTGTATTTAATTTCCAAAATATGAGTCAGAATGTCACAAACT
1 AATTGTAACACCCTTACCTGTATTTAATTCCCAAAATACGAGTCAAAATGTCACAAACT
162626 AATT
1 AATT
162630 TTATAGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 28 0.51
59 27 0.49
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (59 bp):
AATTGTAACACCCTTACCTGTATTTAATTCCCAAAATACGAGTCAAAATGTCACAAACT
Found at i:167334 original size:17 final size:17
Alignment explanation
Indices: 167309--167348 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
167299 AAATTTCTTG
*
167309 AATTTTCGATTCGATCT
1 AATTATCGATTCGATCT
167326 AATTATCGATTCGATCT
1 AATTATCGATTCGATCT
*
167343 GATTAT
1 AATTAT
167349 TTGAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (17 bp):
AATTATCGATTCGATCT
Found at i:168002 original size:5 final size:5
Alignment explanation
Indices: 167991--168023 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
167981 TCAATTTGAT
*
167991 TTTAA TTCAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
168024 TTAAGAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTAA
Found at i:168011 original size:15 final size:15
Alignment explanation
Indices: 167979--168023 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
167969 GAACACAGAT
*
167979 ATTCAATTTGATTTTA
1 ATTCAATTT-AATTTA
167995 ATTCAATTTAATTTA
1 ATTCAATTTAATTTA
*
168010 ATTTAATTTAATTT
1 ATTCAATTTAATTT
168024 TTAAGAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTCAATTTAATTTA
Found at i:170670 original size:70 final size:69
Alignment explanation
Indices: 170525--170663 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 69
170515 TTTGTCATTT
170525 CAATATCCAAAGGACAAGAAGACAAATCGCTTTTCACAAAACAAAAGGATGCCTCATATTTATTA
1 CAATATCCAAAGGACAAGAAGACAAATCGCTTTTCACAAAACAAAAGGATGCCTCATATTTATTA
170590 AACA
66 AACA
170594 CAATATCCAAAAGGACAAGAAGACAAATCGCTTTTCACAAAACAAAAGGATGCCTCATATTTATT
1 CAATATCC-AAAGGACAAGAAGACAAATCGCTTTTCACAAAACAAAAGGATGCCTCATATTTATT
170659 AAACA
65 AAACA
170664 ATATATCGAC
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 8 0.12
70 61 0.88
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.22
Consensus pattern (69 bp):
CAATATCCAAAGGACAAGAAGACAAATCGCTTTTCACAAAACAAAAGGATGCCTCATATTTATTA
AACA
Found at i:173739 original size:5 final size:5
Alignment explanation
Indices: 173731--173762 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
173721 AACCAAAGTC
173731 GTGGG GTGGG GTGGG GTGGG GTGGG GTGGG GT
1 GTGGG GTGGG GTGGG GTGGG GTGGG GTGGG GT
173763 AGACGCCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.78, T:0.22
Consensus pattern (5 bp):
GTGGG
Found at i:174029 original size:29 final size:30
Alignment explanation
Indices: 173979--174050 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
173969 TTTGGTTCGG
* * *
173979 TTAATCGAACCAAAATTTATTTGAAAATTA
1 TTAACCGAACCGAAATTAATTTGAAAATTA
174009 TTAACCGAACCGAAA-TAATTTGAAAATTA
1 TTAACCGAACCGAAATTAATTTGAAAATTA
174038 TTAACCGAACCGA
1 TTAACCGAACCGA
174051 TTTAATCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (30 bp):
TTAACCGAACCGAAATTAATTTGAAAATTA
Found at i:174115 original size:139 final size:141
Alignment explanation
Indices: 173955--174306 Score: 471
Period size: 139 Copynumber: 2.5 Consensus size: 141
173945 CGGTTAAAGA
* *
173955 AAAAATTCGGTTAATTTGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
1 AAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
* * *
174020 GAAA-TAATTTGAAAATTATTAACCGAACCGATTTAATC-ATATTTTTT-AAAATTTATTAACCG
66 -AAATTAATTTAAAAATTATTAACCGAACCGAATTAACCGATATTTTTTGAAAA-TTATTAACCG
174082 AATTAATCGAAG-
129 AATTAATCGAAGT
** * * *
174094 AAAAATTTGGTTAATTCGGTTCAATTAATCGAACCAAATTTTATTTGAAAATTATTAATCAAACC
1 AAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
* *
174159 AAATTAATTTAAAAATTATTAACCGAACCGAATTAACCGATTTTTTTTGAAAATTATTAATCGAA
66 AAATTAATTTAAAAATTATTAACCGAACCGAATTAACCGATATTTTTTGAAAATTATTAACCGAA
*
174224 TTAATTGAAGT
131 TTAATCGAAGT
** * ** *
174235 AAATTTTTGATTAATTCTATTCGGCTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAA-C
1 AAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
174299 AGAATTAA
66 A-AATTAA
174307 CCGATTTCTT
Statistics
Matches: 184, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
138 3 0.02
139 89 0.48
140 30 0.16
141 62 0.34
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (141 bp):
AAAAATTTGGTTAATTCGGTTCGGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
AAATTAATTTAAAAATTATTAACCGAACCGAATTAACCGATATTTTTTGAAAATTATTAACCGAA
TTAATCGAAGT
Found at i:174178 original size:29 final size:29
Alignment explanation
Indices: 174117--174194 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
174107 ATTCGGTTCA
* *
174117 ATTAATCGAACCAAATTTTATTTGAAAATT
1 ATTAATCGAACCAAA-TTAATTTAAAAATT
*
174147 ATTAATCAAACCAAATTAATTTAAAAATT
1 ATTAATCGAACCAAATTAATTTAAAAATT
* *
174176 ATTAACCGAACCGAATTAA
1 ATTAATCGAACCAAATTAA
174195 CCGATTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 28 0.67
30 14 0.33
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (29 bp):
ATTAATCGAACCAAATTAATTTAAAAATT
Found at i:174371 original size:107 final size:109
Alignment explanation
Indices: 174148--174393 Score: 311
Period size: 107 Copynumber: 2.3 Consensus size: 109
174138 TTGAAAATTA
* * * * *
174148 TTAATCAAACC-AAATTAATTTAAAAATTATTAACCGAACCGAATTAACCGATTTTTTTTGAAAA
1 TTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACAGAATTAACCGATTTTCTTT---AA
* * **
174212 TTATTAATCGAATTAATTGAAGTAAATTTTTGATTAATTCTATTCGG
63 TTATTAATCGAATTAATCGAAGAAAAAATTTGATTAATTCTATTCGG
*
174259 CTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACAGAATTAACCGA-TTTCTTT-ATTA
1 TTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACAGAATTAACCGATTTTCTTTAATTA
* * *
174322 TTAATCTAATTAATCGAAGAAAAAATTTGTTTAATT-TGGTTCGG
66 TTAATCGAATTAATCGAAGAAAAAATTTGATTAATTCT-ATTCGG
174366 TTAATCGAACCAAAATTTATTTGAAAAT
1 TTAATCGAACCAAAATTTATTTGAAAAT
174394 CAAATTAGTT
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
106 1 0.01
107 66 0.55
111 15 0.13
112 37 0.31
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (109 bp):
TTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACAGAATTAACCGATTTTCTTTAATTA
TTAATCGAATTAATCGAAGAAAAAATTTGATTAATTCTATTCGG
Found at i:175003 original size:20 final size:21
Alignment explanation
Indices: 174962--175007 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
174952 TATTAAGGAC
*
174962 AAATATATAATTATGCCAATT
1 AAATATAAAATTATGCCAATT
*
174983 AAATATAAAATTAT-TCAATT
1 AAATATAAAATTATGCCAATT
175003 AAATA
1 AAATA
175008 ATTGAATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATATAAAATTATGCCAATT
Found at i:180294 original size:20 final size:20
Alignment explanation
Indices: 180256--180294 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
180246 CAAGGTAGTG
*
180256 TTTAAATGAATATTTATTTA
1 TTTAAATGAATATTGATTTA
180276 TTTAAATGAGAT-TTGATTT
1 TTTAAATGA-ATATTGATTT
180295 CAAACTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (20 bp):
TTTAAATGAATATTGATTTA
Found at i:196958 original size:26 final size:26
Alignment explanation
Indices: 196929--196980 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
196919 ACATGAAGGT
*
196929 TTGAATAATCAGCTGGTTTACTAGTC
1 TTGAATAATCAGCTGGTTTACCAGTC
*
196955 TTGATTAATCAGCTGGTTTACCAGTC
1 TTGAATAATCAGCTGGTTTACCAGTC
196981 CACATCTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (26 bp):
TTGAATAATCAGCTGGTTTACCAGTC
Found at i:209919 original size:19 final size:19
Alignment explanation
Indices: 209895--209940 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
209885 TTTTGGGTAC
209895 CGATGCACATACCATGCAT
1 CGATGCACATACCATGCAT
209914 CGATGCACATACCATGCAT
1 CGATGCACATACCATGCAT
*
209933 CGTTGCAC
1 CGATGCAC
209941 TCCATGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (19 bp):
CGATGCACATACCATGCAT
Found at i:219594 original size:13 final size:13
Alignment explanation
Indices: 219576--219605 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
219566 GAGATGAAAG
219576 AAAGTAAAAGTGA
1 AAAGTAAAAGTGA
219589 AAAGTAAAAGTGA
1 AAAGTAAAAGTGA
219602 AAAG
1 AAAG
219606 AAGATAAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.13
Consensus pattern (13 bp):
AAAGTAAAAGTGA
Found at i:224908 original size:20 final size:20
Alignment explanation
Indices: 224883--224933 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
224873 AGTTAGTGAA
224883 AAATGGAATGACTGATGTGG
1 AAATGGAATGACTGATGTGG
224903 AAATGGAATGACTGATGTGG
1 AAATGGAATGACTGATGTGG
224923 AAATGGAATGA
1 AAATGGAATGA
224934 TGGTGATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.24
Consensus pattern (20 bp):
AAATGGAATGACTGATGTGG
Found at i:230107 original size:21 final size:21
Alignment explanation
Indices: 230082--230137 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
230072 TTTACACTTG
230082 ATGTATCGATGCACCTTGACT
1 ATGTATCGATGCACCTTGACT
*
230103 ATGTATCGATGCATCTTGACT
1 ATGTATCGATGCACCTTGACT
*
230124 ATGCATCGATGCAC
1 ATGTATCGATGCAC
230138 GCACGCTCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (21 bp):
ATGTATCGATGCACCTTGACT
Found at i:243537 original size:22 final size:22
Alignment explanation
Indices: 243510--243561 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
243500 AAATACGATA
*
243510 TGAACAGTGCTGAACAATATAG
1 TGAACAGTGCTGAACAATACAG
* * * *
243532 TGAACAATGTTGAACAGTACCG
1 TGAACAGTGCTGAACAATACAG
243554 TGAACAGT
1 TGAACAGT
243562 TCTACAATAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (22 bp):
TGAACAGTGCTGAACAATACAG
Found at i:244873 original size:20 final size:20
Alignment explanation
Indices: 244848--244889 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
244838 CGAAATCTCC
244848 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
244868 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
244888 AT
1 AT
244890 ACACCGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.33, G:0.14, T:0.26
Consensus pattern (20 bp):
ATGCATCGATGCACCCCTTA
Found at i:244897 original size:20 final size:20
Alignment explanation
Indices: 244854--244897 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
244844 CTCCATGCAT
* *
244854 CGATGCACCCCTTAATGCAT
1 CGATGCACCCCTTAATACAC
244874 CGATGCACCCCTTAATACAC
1 CGATGCACCCCTTAATACAC
244894 CGAT
1 CGAT
244898 ACGCATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (20 bp):
CGATGCACCCCTTAATACAC
Found at i:247354 original size:34 final size:34
Alignment explanation
Indices: 247311--247379 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
247301 TCACTTGGTC
247311 ACTTGTTATTCTCATAGTGACATTTGTCCACCAG
1 ACTTGTTATTCTCATAGTGACATTTGTCCACCAG
247345 ACTTGTTATTCTCATAGTGACATTTGTCCACCAG
1 ACTTGTTATTCTCATAGTGACATTTGTCCACCAG
247379 A
1 A
247380 TTCTCGCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (34 bp):
ACTTGTTATTCTCATAGTGACATTTGTCCACCAG
Found at i:248211 original size:21 final size:21
Alignment explanation
Indices: 248187--248230 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
248177 AGCAATATTA
*
248187 TGCATCGACGCACTGCTACAG
1 TGCATCAACGCACTGCTACAG
*
248208 TGCATCAATGCACTGCTACAG
1 TGCATCAACGCACTGCTACAG
248229 TG
1 TG
248231 ACTTTCGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (21 bp):
TGCATCAACGCACTGCTACAG
Found at i:250807 original size:36 final size:35
Alignment explanation
Indices: 250767--250880 Score: 149
Period size: 36 Copynumber: 3.2 Consensus size: 35
250757 GAACGAAATA
250767 AAGCATC-AGCACTTTCGATTCAAAGTGAACGGAAGG
1 AAGCATCGA-CACTTTCGATTC-AAGTGAACGGAAGG
* * * *
250803 AAGCATCGACACTTTGGATTCAAGAAGAACGAAAGA
1 AAGCATCGACACTTTCGATTCAAG-TGAACGGAAGG
250839 AAGCATCGACACTTTCGATTCAAGTGAACGGAAGG
1 AAGCATCGACACTTTCGATTCAAGTGAACGGAAGG
*
250874 AAACATC
1 AAGCATC
250881 AGCTCTTGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
35 17 0.25
36 49 0.73
37 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (35 bp):
AAGCATCGACACTTTCGATTCAAGTGAACGGAAGG
Found at i:253389 original size:14 final size:14
Alignment explanation
Indices: 253365--253451 Score: 61
Period size: 14 Copynumber: 6.2 Consensus size: 14
253355 ACCTGATTAC
*
253365 TTAACTTTAATGAT
1 TTAACTATAATGAT
* *
253379 TTAA-TAATAATTAC
1 TTAACT-ATAATGAT
*
253393 TTAACTTTAATGAT
1 TTAACTATAATGAT
*
253407 TTAACTTTAATGAT
1 TTAACTATAATGAT
* *
253421 TTAA-TAATAATTAC
1 TTAACT-ATAATGAT
* *
253435 TTGACTTTAATGAT
1 TTAACTATAATGAT
253449 TTA
1 TTA
253452 TATTTAATGA
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
13 2 0.04
14 51 0.93
15 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (14 bp):
TTAACTATAATGAT
Done.