Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_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: 1953294
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:8071 original size:24 final size:24
Alignment explanation
Indices: 8039--8087 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8029 ACAAGTTACA
8039 CTTATTGATGGACTGGTCTTCTAT
1 CTTATTGATGGACTGGTCTTCTAT
8063 CTTATTGATGGACTGGTCTTCTAT
1 CTTATTGATGGACTGGTCTTCTAT
8087 C
1 C
8088 ACTACCAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.45
Consensus pattern (24 bp):
CTTATTGATGGACTGGTCTTCTAT
Found at i:17940 original size:21 final size:21
Alignment explanation
Indices: 17914--17953 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17904 CCCCCTTTGA
*
17914 AGGGGAACCGATTCCCCCCAT
1 AGGGGAACCGATACCCCCCAT
*
17935 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
17954 TGGGGGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAT
Found at i:19610 original size:12 final size:12
Alignment explanation
Indices: 19593--19618 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19583 TGAGCCTGAA
19593 CAGCCCGAGGAG
1 CAGCCCGAGGAG
19605 CAGCCCGAGGAG
1 CAGCCCGAGGAG
19617 CA
1 CA
19619 ATCACAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.35, G:0.38, T:0.00
Consensus pattern (12 bp):
CAGCCCGAGGAG
Found at i:19963 original size:17 final size:17
Alignment explanation
Indices: 19930--19963 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19920 TTGAATATTT
* *
19930 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
19947 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
19964 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:25615 original size:17 final size:17
Alignment explanation
Indices: 25593--25633 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25583 TTATCCCATG
*
25593 TGCACAAGTTGGTC-ACT
1 TGCACAACTT-GTCAACT
25610 TGCACAACTTGTCAACT
1 TGCACAACTTGTCAACT
25627 TGC-CAAC
1 TGCACAAC
25634 CAAGGATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (17 bp):
TGCACAACTTGTCAACT
Found at i:25706 original size:43 final size:44
Alignment explanation
Indices: 25612--25720 Score: 157
Period size: 43 Copynumber: 2.5 Consensus size: 44
25602 TGGTCACTTG
* * *
25612 CACAACTTGTCAACTTGCCAACCAAGGATGAATTATCCCATGTG
1 CACAAGTTGGCAACTTGCCAACCAAGGATGAATTATCCCATGTA
* *
25656 CTCAAGTTGGCAACTTGCTAACCAAGGATGAA-TATCCCATGTA
1 CACAAGTTGGCAACTTGCCAACCAAGGATGAATTATCCCATGTA
*
25699 CACAAGTTGGCTACTTGCCAAC
1 CACAAGTTGGCAACTTGCCAAC
25721 TGTAAACTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 29 0.51
44 28 0.49
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (44 bp):
CACAAGTTGGCAACTTGCCAACCAAGGATGAATTATCCCATGTA
Found at i:29558 original size:16 final size:16
Alignment explanation
Indices: 29533--29565 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29523 GCCAAACGAT
29533 TGATTATTCCCCATTC
1 TGATTATTCCCCATTC
*
29549 TGATTGTTCCCCATTC
1 TGATTATTCCCCATTC
29565 T
1 T
29566 TTCTCCTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.30, G:0.09, T:0.45
Consensus pattern (16 bp):
TGATTATTCCCCATTC
Found at i:30404 original size:43 final size:44
Alignment explanation
Indices: 30317--30415 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 44
30307 CATAACTTGT
* * *
30317 CAACTTACCAACCAAGGATAAATTATCTCATGTGCTCAAGTTGG
1 CAACTTGCCAACCAAGGATAAATTATCCCATGTGCACAAGTTGG
* *
30361 CAACTTGCTAACCAAGGATGAA-TATCCCATGTGCACAAGTTGG
1 CAACTTGCCAACCAAGGATAAATTATCCCATGTGCACAAGTTGG
*
30404 CTACTTGCCAAC
1 CAACTTGCCAAC
30416 TTGTCAACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 29 0.60
44 19 0.40
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
CAACTTGCCAACCAAGGATAAATTATCCCATGTGCACAAGTTGG
Found at i:32288 original size:2 final size:2
Alignment explanation
Indices: 32281--32345 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
32271 TTCGTAAATT
32281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32323 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
32346 GTAGATTGAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:44888 original size:21 final size:21
Alignment explanation
Indices: 44858--44897 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44848 TGTCCTACCG
44858 AAACAAAATTTGTAACTTGCT
1 AAACAAAATTTGTAACTTGCT
*
44879 AAACATAATTTGTAACTTG
1 AAACAAAATTTGTAACTTG
44898 TTATCCTCTT
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:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (21 bp):
AAACAAAATTTGTAACTTGCT
Found at i:45990 original size:21 final size:21
Alignment explanation
Indices: 45964--46011 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
45954 CAAATTAAAG
*
45964 AATTAAAAGGTCAATTTGAAA
1 AATTAAAAGGCCAATTTGAAA
* *
45985 ATTTAAATGGCCAATTTGAAA
1 AATTAAAAGGCCAATTTGAAA
46006 AATTAA
1 AATTAA
46012 TGAGCATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (21 bp):
AATTAAAAGGCCAATTTGAAA
Found at i:47151 original size:22 final size:22
Alignment explanation
Indices: 47107--47152 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
47097 TTATAGGTAT
*
47107 TTTTAAAATAAATTAAATCATA
1 TTTTAAAATAAATTAAATAATA
*
47129 TTTTAATATAAAATTAAA-AATA
1 TTTTAAAAT-AAATTAAATAATA
47151 TT
1 TT
47153 ATATTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAAATTAAATAATA
Found at i:48368 original size:31 final size:31
Alignment explanation
Indices: 48332--48390 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
48322 AACTTAAAAG
* *
48332 AGTTTTGTAATACTA-AGATTTAAATAATTTT
1 AGTTTTATAATAC-AGAAATTTAAATAATTTT
48363 AGTTTTATAATACAGAAATTTAAATAAT
1 AGTTTTATAATACAGAAATTTAAATAAT
48391 CCATACAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTATAATACAGAAATTTAAATAATTTT
Found at i:48441 original size:22 final size:22
Alignment explanation
Indices: 48415--48457 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
48405 TAATAAATTA
48415 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
48437 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
48458 CTAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:48553 original size:80 final size:79
Alignment explanation
Indices: 48420--49133 Score: 480
Period size: 80 Copynumber: 8.9 Consensus size: 79
48410 AATTATTTAA
*
48420 AATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATTAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATCAA
48484 TCCATACACCTACAAT
65 TCCATACA-CTACAAT
48500 AATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATCAA
48564 TCCATACAACTACAAT
65 TCCATAC-ACTACAAT
* *
48580 AATAAATTAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
* * *
48645 CTATACTAATAAATTATTT
66 CCATAC-ACTACA--A--T
48664 AAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCA
*** *
48729 ATCCATATTTTAAAAT
64 ATCCATACACTACAAT
* * * * *
48745 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AAT
1 -AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAAT
*** *
48803 AAATCAATCCATATTTTAAAAT
58 AAATCAATCCATACACTACAAT
* * * * * *
48825 AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT-CCAACTACA--A--T--AAT
1 -AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAAT
*** *
48883 AAATCAATCCATATTTTAAAAT
58 AAATCAATCCATACACTACAAT
* * * *
48905 AAATCAATCTATACAAATAAATTCTTTAAAATAAATCAATATATACTAATAAATTATTTAAAATA
1 -AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATA
* **
48970 AATCAATCCAT--ATTTTAA-
59 AATCAATCCATACACTACAAT
*
48988 AATAAATCAATTCATATTTTAAAATAAATCAATC----C--AT--A-T-TTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
* *
49043 CCATACTAATAAATTATTT
66 CCATAC-ACTACA--A--T
*
49062 AAAATAAATCAATCCATATTTTAAAATAAATCAATAC-ATACTAATAAATTATTTAAAATAAACC
1 --AATAAATCAATCCATATTTTAAAATAAATCAAT-CTATACTAATAAATTATTTAAAATAAATC
49126 AATCCATA
63 AATCCATA
49134 TTTTAAAATA
Statistics
Matches: 553, Mismatches: 38, Indels: 80
0.82 0.06 0.12
Matches are distributed among these distances:
66 20 0.04
67 1 0.00
68 1 0.00
69 3 0.01
70 2 0.00
71 1 0.00
72 1 0.00
76 48 0.09
77 2 0.00
78 1 0.00
79 1 0.00
80 305 0.55
81 7 0.01
82 16 0.03
83 1 0.00
84 9 0.02
85 8 0.01
86 126 0.23
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (79 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
CCATACACTACAAT
Found at i:48636 original size:14 final size:14
Alignment explanation
Indices: 48619--48672 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
48609 CAATCTATAC
48619 AAATAAATTATTTA
1 AAATAAATTATTTA
*
48633 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
48650 CTAATAAATTATTTA
1 -AAATAAATTATTTA
48665 AAATAAAT
1 AAATAAAT
48673 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:48636 original size:32 final size:32
Alignment explanation
Indices: 48597--48792 Score: 153
Period size: 32 Copynumber: 5.8 Consensus size: 32
48587 TAATCCATAT
48597 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
*
48629 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
*
48661 TTTAAAATAAATCAATCCATATTTTA-AAATAAATCAA
1 TTTAAAATAAATCAAT-C-TA---TACAAATAAAT-TA
* * * * * *
48698 TCTATACTAATAAAT-TATTTAAAATAAATCAATCCATA
1 T-T-TA-AAATAAATCAATCT-ATACAAATAAAT---TA
* *
48736 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCTATACAAATAAATTA
*
48769 TTTAAAATAAATCAATCCATACAA
1 TTTAAAATAAATCAATCTATACAA
48793 CTACAATAAT
Statistics
Matches: 130, Mismatches: 19, Indels: 30
0.73 0.11 0.17
Matches are distributed among these distances:
32 70 0.54
33 3 0.02
34 2 0.02
35 1 0.01
36 29 0.22
37 9 0.07
38 4 0.03
39 5 0.04
40 7 0.05
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCTATACAAATAAATTA
Found at i:48712 original size:22 final size:22
Alignment explanation
Indices: 48663--48711 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
48653 ATAAATTATT
**
48663 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
48685 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
48708 TAAA
1 TAAA
48712 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:48741 original size:22 final size:22
Alignment explanation
Indices: 48715--48757 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48705 TAATAAATTA
48715 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
48737 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
48758 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:48759 original size:54 final size:54
Alignment explanation
Indices: 48500--49312 Score: 420
Period size: 54 Copynumber: 15.1 Consensus size: 54
48490 CACCTACAAT
*
48500 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** * * * *
48554 AATAAATCAATCCATACAACTACAATAATAAATTAATCCATATTTTAAAATAAATCAATCT-A
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * * *
48616 TACAAATAAAT---TA-TTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
48666 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
48720 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
48774 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** ** * *
48830 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCAT-CCAACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
* * *
48880 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTCTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** * ** * ** **
48934 AATAAATCAATATATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
* ** * ** *
48988 AATAAATCAATTCATATTTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** ** * ** *
49040 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** * * * * *
49094 AATACATACTAATAAAT-TATTTAAAATAAACCAATCCATATTTTAAAATAAATCAATTCAT
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * * *
49155 AGT-AATAAAT---TA-TTTAAAATAAATCAATTCATAC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
49198 AATAAATCAATCCATATTTTAAAACAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
49252 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
49306 AATAAAT
1 AATAAAT
49313 TATTTTAAAA
Statistics
Matches: 589, Mismatches: 109, Indels: 122
0.72 0.13 0.15
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
47 3 0.01
48 50 0.08
49 12 0.02
50 25 0.04
51 1 0.00
52 13 0.02
53 17 0.03
54 344 0.58
55 19 0.03
56 11 0.02
57 18 0.03
58 38 0.06
59 5 0.01
60 4 0.01
61 2 0.00
62 16 0.03
63 3 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:48766 original size:22 final size:22
Alignment explanation
Indices: 48717--48765 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
48707 ATAAATTATT
**
48717 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
48739 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
48762 TAAA
1 TAAA
48766 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:48846 original size:22 final size:23
Alignment explanation
Indices: 48771--48845 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
48761 ATAAATTATT
48771 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
48793 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
48819 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
48842 TAAA
1 TAAA
48846 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:48856 original size:32 final size:32
Alignment explanation
Indices: 48817--48981 Score: 139
Period size: 32 Copynumber: 5.7 Consensus size: 32
48807 CAATCCATAT
48817 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
48849 TTTAAAATAAATCAATCCAT-CCAACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
48879 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
48897 TTTAAAATAAATCAATCTATACAAATAAATTC
1 TTTAAAATAAATCAATCCATACTAATAAATTA
**
48929 TTTAAAATAAATCAATATATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
48961 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
48982 TTTTAAAATA
Statistics
Matches: 107, Mismatches: 10, Indels: 32
0.72 0.07 0.21
Matches are distributed among these distances:
20 1 0.01
22 13 0.12
23 1 0.01
24 1 0.01
26 15 0.14
28 1 0.01
30 1 0.01
31 3 0.03
32 71 0.66
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:48922 original size:18 final size:17
Alignment explanation
Indices: 48899--49075 Score: 66
Period size: 22 Copynumber: 9.9 Consensus size: 17
48889 ATCCATATTT
48899 TAAAATAAATCAATCTA
1 TAAAATAAATCAATCTA
*
48916 TACAAATAAAT---TCTT
1 TA-AAATAAATCAATCTA
*
48931 TAAAATAAATCAATATA
1 TAAAATAAATCAATCTA
* *
48948 TACTAATAAAT-TAT-T-
1 TA-AAATAAATCAATCTA
48963 TAAAATAAATCAATCCATA
1 TAAAATAAATCAAT-C-TA
48982 TTTTAAAATAAATCAATTCATA
1 ---TAAAATAAATCAA-TC-TA
49004 TTTTAAAATAAATCAATCCATA
1 ---TAAAATAAATCAAT-C-TA
*
49026 TTTTAAAATAAATCAATCCA
1 ---TAAAATAAATCAATCTA
* *
49046 TACTAATAAAT-TAT-T-
1 TA-AAATAAATCAATCTA
49061 TAAAATAAATCAATC
1 TAAAATAAATCAATC
49076 CATATTTTAA
Statistics
Matches: 129, Mismatches: 13, Indels: 37
0.72 0.07 0.21
Matches are distributed among these distances:
14 22 0.17
15 13 0.10
16 1 0.01
17 12 0.09
18 23 0.18
20 1 0.01
21 2 0.02
22 54 0.42
23 1 0.01
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATAAATCAATCTA
Found at i:48952 original size:300 final size:296
Alignment explanation
Indices: 48405--49079 Score: 1200
Period size: 300 Copynumber: 2.3 Consensus size: 296
48395 ACAACTACAA
* *
48405 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATTAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
48470 TTAAAATAAATCAATCCATACACCTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
*
48535 ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATTAATCCATATTTT
131 ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT
*
48600 AAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTA
196 AAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATATATACTAATAAATTATTTA
48665 AAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
261 AAATAAATCAATCCATATTTTAAAATAAATCAA--T-T-C
48705 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
48770 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
*
48835 ATACTAATAAATTATTTAAAATAAATCAATCCATCCAACTACAATAATAAATCAATCCATATTTT
131 ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT
*
48900 AAAATAAATCAATCTATACAAATAAATTCTTTAAAATAAATCAATATATACTAATAAATTATTTA
196 AAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATATATACTAATAAATTATTTA
48965 AAATAAATCAATCCATATTTTAAAATAAATCAATTC
261 AAATAAATCAATCCATATTTTAAAATAAATCAATTC
49001 --AT--A-T-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
49060 TTAAAATAAATCAATCCATA
66 TTAAAATAAATCAATCCATA
49080 TTTTAAAATA
Statistics
Matches: 367, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
290 75 0.20
291 1 0.00
292 1 0.00
294 2 0.01
296 1 0.00
297 1 0.00
298 1 0.00
300 285 0.78
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (296 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATTC
ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTT
AAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATATATACTAATAAATTATTTA
AAATAAATCAATCCATATTTTAAAATAAATCAATTC
Found at i:49056 original size:22 final size:22
Alignment explanation
Indices: 48961--49047 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
48951 TAATAAATTA
48961 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
48983 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
49005 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
49027 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
49048 CTAATAAATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:49085 original size:22 final size:22
Alignment explanation
Indices: 49059--49101 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
49049 TAATAAATTA
*
49059 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
49081 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
49102 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:49139 original size:22 final size:22
Alignment explanation
Indices: 49113--49155 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49103 TAATAAATTA
49113 TTTAAAATAAACCAATCCATAT
1 TTTAAAATAAACCAATCCATAT
* *
49135 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAACCAATCCATA
49156 GTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAACCAATCCATAT
Found at i:49251 original size:80 final size:80
Alignment explanation
Indices: 48720--49267 Score: 567
Period size: 80 Copynumber: 6.9 Consensus size: 80
48710 AATTATTTAA
48720 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
48785 CCATACAACTACAAT
66 CCATACAACTACAAT
48800 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
48865 CCATCCAACTACAAT
66 CCATACAACTACAAT
* * *
48880 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTCTTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
** *
48945 ATATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
48964 AAAATAAATCAATCCATATTTTAAAATAAATCAAT---T-C--AT--A-T-TTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
* **
49019 ATCCAT---ATTTTAA-
64 ATCCATACAACTACAAT
** * ** * ** **
49032 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATC
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATC
* *
49094 AATACATACTAA-TAAATTATTT
63 AATCCATAC-AACTACA--A--T
* * *
49116 AAAATAAACCAATCCATATTTTAAAATAAATCAATTCATAGTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
49181 ATTCATACAACTACAAT
64 ATCCATACAACTACAAT
*
49198 AATAAATCAATCCATATTTTAAAACAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
49263 CCATA
66 CCATA
49268 TTTTAAAATA
Statistics
Matches: 395, Mismatches: 40, Indels: 66
0.79 0.08 0.13
Matches are distributed among these distances:
66 16 0.04
67 8 0.02
68 3 0.01
71 3 0.01
72 3 0.01
73 2 0.01
74 2 0.01
76 37 0.09
77 1 0.00
78 1 0.00
79 2 0.01
80 215 0.54
81 3 0.01
82 3 0.01
83 1 0.00
84 7 0.02
85 10 0.03
86 76 0.19
87 2 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:49264 original size:188 final size:181
Alignment explanation
Indices: 48880--49311 Score: 591
Period size: 188 Copynumber: 2.3 Consensus size: 181
48870 CAACTACAAT
* * *
48880 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTCTTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATC-ATACTAATAAATTATTTAAAATAAACCAAT
* * * * **
48945 ATATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATATTTTAA
65 ATATACTAATAAATAATTCAAAATAAATAAAT-C-TATTTTAAAATAAATCAATTCATACTACAA
*
49010 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
128 AATAAATCAATCCATATTTTAAAACAAATCAATCCATACTAATAAATTATTTAA
49064 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAACCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAAT-CATACTAATAAATTATTTAAAATAAACCAAT
** * *
49129 CCATATTTTAAAATAAATCAATTCATAGT-AATAAAT-TA-TTTAAAATAAATCAATTCATACAA
65 --ATATACT--AATAAAT-AATTCAAAATAAATAAATCTATTTTAAAATAAATCAATTCAT---A
49191 CTACAATAATAAATCAATCCATATTTTAAAACAAATCAATCCATACTAATAAATTATTTAA
122 CTACAA-AATAAATCAATCCATATTTTAAAACAAATCAATCCATACTAATAAATTATTTAA
49252 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAA
1 AATAAATCAATCCATATTTTAAAATAAATCAA-TCATACTAATAAATTATTTAAAATAAA
49312 TTATTTTAAA
Statistics
Matches: 223, Mismatches: 14, Indels: 18
0.87 0.05 0.07
Matches are distributed among these distances:
184 80 0.36
185 3 0.01
186 5 0.02
187 4 0.02
188 124 0.56
189 7 0.03
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (181 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAACCAATA
TATACTAATAAATAATTCAAAATAAATAAATCTATTTTAAAATAAATCAATTCATACTACAAAAT
AAATCAATCCATATTTTAAAACAAATCAATCCATACTAATAAATTATTTAA
Found at i:49273 original size:22 final size:22
Alignment explanation
Indices: 49247--49347 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
49237 TAATAAATTA
49247 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
49269 TTTAAAATAAATCAATTCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
49292 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
49316 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
49338 TTTATAATAA
1 TTTAAAATAA
49348 TTTATTTTAA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 32 0.55
23 12 0.21
24 12 0.21
25 2 0.03
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:49321 original size:15 final size:15
Alignment explanation
Indices: 49292--49409 Score: 121
Period size: 15 Copynumber: 7.5 Consensus size: 15
49282 AATTCATACT
49292 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
49306 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
49321 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
49343 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
49358 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
*
49373 AATAAATTATTTTAT
1 AATAAATTATTTTAA
49388 AATAAATTATTTTAA
1 AATAAATTATTTTAA
49403 AATAAAT
1 AATAAAT
49410 AACCTTATTA
Statistics
Matches: 88, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.10
15 62 0.70
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.11
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:49351 original size:47 final size:49
Alignment explanation
Indices: 49002--49379 Score: 161
Period size: 54 Copynumber: 7.3 Consensus size: 49
48992 AATCAATTCA
* **
49002 TATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAAT
1 TATTTTAAAATAAATCAATCCATA--CT--AATAAAT-AATTTATA--AAGTAAAT
* **
49057 TA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAA-TAAAT
1 TATTTTAAAATAAATCAATCCATA--CT--AATAAAT-AATTTATA--AAGTAAAT
* * *
49111 TA-TTTAAAATAAACCAATCCATATTTTAAAATAAATCAATTCATAGTAA-TAAAT
1 TATTTTAAAATAAATCAATCCATA--CT--AATAAAT-AATTTATA--AAGTAAAT
* ** * **
49165 TA-TTTAAAATAAATCAATTCATAC-AACTACAATAATAAATCAA-TCCA-
1 TATTTTAAAATAAATCAATCCATACTAA-TA-AATAATTTATAAAGTAAAT
* * *
49212 TATTTTAAAACAAATCAATCCATACTAATAAATTATTTAAAATAAA-TCAAT
1 TATTTTAAAATAAATCAATCCATACTAATAAATAATTT---ATAAAGTAAAT
* *
49263 CCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTA-AAA-TAAAT
1 ---TATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAGTAAAT
**
49313 TATTTTAAAATAAATCAATCCATA-TTTTATAATAATTTATTTTAAAGTAAAT
1 TATTTTAAAATAAATCAATCCATACTAATA-AATAATTTA---TAAAGTAAAT
*
49365 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
49380 TATTTTATAA
Statistics
Matches: 279, Mismatches: 27, Indels: 37
0.81 0.08 0.11
Matches are distributed among these distances:
46 3 0.01
47 38 0.14
48 26 0.09
49 4 0.01
50 21 0.08
51 7 0.03
52 19 0.07
54 159 0.57
55 2 0.01
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (49 bp):
TATTTTAAAATAAATCAATCCATACTAATAAATAATTTATAAAGTAAAT
Found at i:49448 original size:18 final size:16
Alignment explanation
Indices: 49429--49462 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
49419 AAATTATTTA
49429 AAATTATTTTAATAAAT
1 AAATTATTTT-ATAAAT
49446 AAATATATTTTATAAAT
1 AAAT-TATTTTATAAAT
49463 GTTCTTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTATTTTATAAAT
Found at i:56278 original size:2 final size:2
Alignment explanation
Indices: 56271--56302 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
56261 TAGGTGACAC
56271 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56303 GAAAGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:56291 original size:15 final size:15
Alignment explanation
Indices: 56271--56300 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56261 TAGGTGACAC
56271 TATATATATATATAT
1 TATATATATATATAT
56286 TATATATATATATAT
1 TATATATATATATAT
56301 ATGAAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:56684 original size:17 final size:17
Alignment explanation
Indices: 56662--56694 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56652 GCTTGAATAG
*
56662 GAATTTATTGAAAACAA
1 GAATTTATTAAAAACAA
56679 GAATTTATTAAAAACA
1 GAATTTATTAAAAACA
56695 GGCTTTGGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (17 bp):
GAATTTATTAAAAACAA
Found at i:64553 original size:20 final size:20
Alignment explanation
Indices: 64528--64565 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
64518 ATTGATAAGG
64528 GATGCACCGATGCACTCATT
1 GATGCACCGATGCACTCATT
*
64548 GATGCATCGATGCACTCA
1 GATGCACCGATGCACTCA
64566 CCATATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:64646 original size:63 final size:63
Alignment explanation
Indices: 64570--64726 Score: 219
Period size: 64 Copynumber: 2.5 Consensus size: 63
64560 CACTCACCAT
*
64570 ATCGAATGCATTTTATGCATCGATGCACTACCAAGCATCGATACACTCA-GGTT-TTATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACTACCAAGCATCGATACACTCATGCTTGTT-TG-AAAC
* ** *
64633 ATCGAATGCATTTTATGCATCGATGCACAGACCGTGCATCGATGCACTCATGCTTGTTTGAAAC
1 ATCGAATGCATTTTATGCATCGATGCAC-TACCAAGCATCGATACACTCATGCTTGTTTGAAAC
*
64697 ATCGAATGCATTTAATGCATCGATGCACTA
1 ATCGAATGCATTTTATGCATCGATGCACTA
64727 AGGGTCCAAC
Statistics
Matches: 84, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 29 0.35
64 48 0.57
65 5 0.06
66 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACTACCAAGCATCGATACACTCATGCTTGTTTGAAAC
Found at i:72507 original size:19 final size:17
Alignment explanation
Indices: 72485--72530 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
72475 TGAAACAAAT
72485 ATAAAAAAAATAAAATTGA
1 ATAAAAAAAAT-AAA-TGA
72504 ATAAAATAAAATAAATGA
1 ATAAAA-AAAATAAATGA
*
72522 AGAAAAAAA
1 ATAAAAAAA
72531 TATATATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 3 0.12
18 8 0.32
19 9 0.36
20 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
ATAAAAAAAATAAATGA
Found at i:72622 original size:17 final size:17
Alignment explanation
Indices: 72597--72643 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
72587 TAAGAGCAAA
*
72597 GAAACTAAAAAAATAAT
1 GAAAATAAAAAAATAAT
* *
72614 GAAAATAAATAAATAGT
1 GAAAATAAAAAAATAAT
72631 -ATAAATAAAAAAA
1 GA-AAATAAAAAAA
72644 AATATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (17 bp):
GAAAATAAAAAAATAAT
Found at i:72662 original size:18 final size:18
Alignment explanation
Indices: 72641--72676 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
72631 ATAAATAAAA
72641 AAAAATATAAAAATATAT
1 AAAAATATAAAAATATAT
72659 AAAAATATAAAAATATAT
1 AAAAATATAAAAATATAT
72677 GTATAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATATAAAAATATAT
Found at i:72690 original size:8 final size:8
Alignment explanation
Indices: 72641--72675 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
72631 ATAAATAAAA
72641 AAAAATAT
1 AAAAATAT
72649 AAAAATATAT
1 -AAAA-ATAT
72659 AAAAATAT
1 AAAAATAT
72667 AAAAATAT
1 AAAAATAT
72675 A
1 A
72676 TGTATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 13 0.52
9 8 0.32
10 4 0.16
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:72873 original size:2 final size:2
Alignment explanation
Indices: 72868--72904 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
72858 AAAAATAATA
72868 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
72905 ATAGAAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:72965 original size:24 final size:24
Alignment explanation
Indices: 72936--72984 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
72926 ACGTAAAGAA
72936 AAATAAAAAAAAATTATAA-TAAAT
1 AAATAAAAAAAAA-TATAATTAAAT
*
72960 AAATAAAAAAACATATAATTAAAT
1 AAATAAAAAAAAATATAATTAAAT
72984 A
1 A
72985 TATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (24 bp):
AAATAAAAAAAAATATAATTAAAT
Found at i:72977 original size:20 final size:21
Alignment explanation
Indices: 72936--72984 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
72926 ACGTAAAGAA
**
72936 AAATAAA-AAAAAATTATAAT
1 AAATAAATAAAAAAACATAAT
72956 AAATAAATAAAAAAACAT-AT
1 AAATAAATAAAAAAACATAAT
*
72976 AATTAAATA
1 AAATAAATA
72985 TATATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAATAAAAAAACATAAT
Found at i:73494 original size:37 final size:37
Alignment explanation
Indices: 73401--73502 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
73391 ATGCTTGTGG
* ** * *
73401 ATCCTATTTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* * * *
73438 ATCATATTTTTAAGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
73475 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
73503 TAGGACGAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:74430 original size:106 final size:106
Alignment explanation
Indices: 74240--75515 Score: 2045
Period size: 106 Copynumber: 12.0 Consensus size: 106
74230 GCATTGTTCC
* * *
74240 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
74304 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGAGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
74346 GAGTACAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
74411 CCAGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
74452 GAGTCCAATATCATTGGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
74517 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
74558 GAGTCTAATATCCTTCACTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
74623 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
74664 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
74729 CCACCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
74770 GAGTACAATATTTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
74835 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
74876 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTATGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
74941 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
74982 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
75047 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
75088 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* *
75153 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
75194 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
*
75259 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
75300 GAGTCCAATATCCTTCG-TCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
75364 ACCAGCAGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
75406 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTTTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
* * *
75471 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
75512 GAGT
1 GAGT
75516 GGCACGATAT
Statistics
Matches: 1090, Mismatches: 76, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
105 1 0.00
106 1086 1.00
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:76056 original size:18 final size:19
Alignment explanation
Indices: 76027--76063 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
76017 TGTTGAATCC
76027 CCAAATAATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
76046 CCAAA-AATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
76064 TTGATGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.19
Consensus pattern (19 bp):
CCAAATAATGCCCCAATAT
Found at i:77142 original size:25 final size:25
Alignment explanation
Indices: 77114--77179 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
77104 TTTTGTCCCT
77114 TTTTCTTTTTGATTTTTATTC-TTTC
1 TTTT-TTTTTGATTTTTATTCTTTTC
*
77139 TTTTTTCTTT-ATTTTTTCTTCTTTTC
1 TTTTTT-TTTGA-TTTTTATTCTTTTC
77165 TTTTTTTTTG-TTTTT
1 TTTTTTTTTGATTTTT
77180 GCCCTTTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 8 0.22
25 18 0.50
26 10 0.28
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.82
Consensus pattern (25 bp):
TTTTTTTTTGATTTTTATTCTTTTC
Found at i:77171 original size:18 final size:18
Alignment explanation
Indices: 77113--77179 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
77103 TTTTTGTCCC
*
77113 TTTTTCTTTTTGATTTTTAT
1 TTTTTCTTTTT--TCTTTAT
*
77133 TCTTTCTTTTTTCTTTAT
1 TTTTTCTTTTTTCTTTAT
77151 TTTTTCTTCTTTTCTTT-T
1 TTTTTCTT-TTTTCTTTAT
*
77169 TTTTTGTTTTT
1 TTTTTCTTTTT
77180 GCCCTTTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 3 0.07
18 21 0.50
19 8 0.19
20 10 0.24
ACGTcount: A:0.04, C:0.10, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTTCTTTAT
Found at i:81770 original size:34 final size:34
Alignment explanation
Indices: 81692--81770 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
81682 TAAACCAAGG
* * *
81692 AAATAAATAAAACAAATAATAATAAACATAAAAT
1 AAATAAATGAAACAAATAATAAAAAAAATAAAAT
* **
81726 AATTGGATGAAACAAAT-ATAAAAAAAATAAAAT
1 AAATAAATGAAACAAATAATAAAAAAAATAAAAT
81759 AAAATAAATGAA
1 -AAATAAATGAA
81771 GAAAAAAATA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
33 14 0.40
34 21 0.60
ACGTcount: A:0.71, C:0.04, G:0.05, T:0.20
Consensus pattern (34 bp):
AAATAAATGAAACAAATAATAAAAAAAATAAAAT
Found at i:81899 original size:13 final size:14
Alignment explanation
Indices: 81868--81914 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
81858 CATAATGAAA
*
81868 ATAAAT-AAATAGT
1 ATAAATAAAATAAT
81881 ATAAATAAAATAAT
1 ATAAATAAAATAAT
81895 A-AAATACAAATATAT
1 ATAAATA-AAATA-AT
81910 ATAAA
1 ATAAA
81915 AATATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.38
14 12 0.41
15 3 0.10
16 3 0.10
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (14 bp):
ATAAATAAAATAAT
Found at i:81899 original size:26 final size:26
Alignment explanation
Indices: 81870--81975 Score: 64
Period size: 25 Copynumber: 4.1 Consensus size: 26
81860 TAATGAAAAT
81870 AAATAAATAGTATAAATAAAATAATA
1 AAATAAATAGTATAAATAAAATAATA
*
81896 AAATACAA-A-TATATATAAAA-ATATA
1 AAATA-AATAGTATAAATAAAATA-ATA
* *
81921 AAA-ATATATGTAT-AATATAATAA-A
1 AAATAAATA-GTATAAATAAAATAATA
*
81945 ATACTAAATAGTA-ACAATAATAATAAATA
1 A-AATAAATAGTATA-AATAA-AAT-AATA
81974 AA
1 AA
81976 TGAAAAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
23 1 0.02
24 5 0.08
25 26 0.43
26 18 0.30
27 5 0.08
28 3 0.05
29 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (26 bp):
AAATAAATAGTATAAATAAAATAATA
Found at i:81918 original size:18 final size:18
Alignment explanation
Indices: 81887--81929 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
81877 TAGTATAAAT
81887 AAAATA-AT-AAAATACA
1 AAAATATATAAAAATACA
* *
81903 AATATATATAAAAATATA
1 AAAATATATAAAAATACA
81921 AAAATATAT
1 AAAATATAT
81930 GTATAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 5 0.23
17 2 0.09
18 15 0.68
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATATATAAAAATACA
Found at i:81929 original size:10 final size:11
Alignment explanation
Indices: 81902--81947 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
81892 AATAAAATAC
81902 AAATATATATA
1 AAATATATATA
81913 AAA-ATATA-A
1 AAATATATATA
*
81922 AAATATATGTA
1 AAATATATATA
*
81933 TAATATA-ATA
1 AAATATATATA
81943 AAATA
1 AAATA
81948 CTAAATAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
9 4 0.14
10 15 0.52
11 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AAATATATATA
Found at i:81973 original size:47 final size:47
Alignment explanation
Indices: 81865--81973 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 47
81855 AAACATAATG
*
81865 AAAATAAATAAATAGTATAAATAAAATAATAAAATACAAATATATATA
1 AAAAT-AATAAATAGTATAAATAAAATAATAAAATACAAATATATACA
* ** *
81913 AAAATATAAAAATA-TATGTATAATATAATAAAATACTAAATAGTA-ACA
1 AAAATA-ATAAATAGTATAAATAAAATAATAAAATAC-AAATA-TATACA
*
81961 ATAATAATAAATA
1 AAAATAATAAATA
81974 AATGAAAAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
47 26 0.51
48 23 0.45
49 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (47 bp):
AAAATAATAAATAGTATAAATAAAATAATAAAATACAAATATATACA
Found at i:82224 original size:24 final size:24
Alignment explanation
Indices: 82176--82220 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
82166 TAACGCAAAG
*
82176 AAAAATGAAAAAATATTATAATAA
1 AAAAATAAAAAAATATTATAATAA
82200 AAAAATAAAAAAATA-TATAAT
1 AAAAATAAAAAAATATTATAAT
82221 TAAATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATAAAAAAATATTATAATAA
Found at i:88166 original size:18 final size:20
Alignment explanation
Indices: 88130--88175 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
88120 ACTTTACCAA
* *
88130 ATTTATAAATAGTATTATTT
1 ATTTATAAATAATAGTATTT
88150 -TTTA-AAATAATAGTATTT
1 ATTTATAAATAATAGTATTT
88168 ATTTATAA
1 ATTTATAA
88176 TTTTCTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 12 0.55
19 8 0.36
20 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTTATAAATAATAGTATTT
Found at i:90766 original size:120 final size:114
Alignment explanation
Indices: 90532--90775 Score: 274
Period size: 120 Copynumber: 2.1 Consensus size: 114
90522 AAAAAAGAAA
* * ***
90532 AAAAAATATGGTTAAATTTAATTCAAAATTGAATGAATAAGAGAAATGGCAAAAGAGGGTCAAAA
1 AAAAAAT-TAGTTAAATTTAATTCAAAATTGAATGAATAAAAGAAATGGCAAAAGAAAATCAAAA
* ***
90597 ACTAAACATTTTATGAAAGTATAAAAATTAGGGGCCCTAATCATAAATAT
65 ACTAAACAATTTATGAAAGTATAAAAATTAAAAGCCCTAATCATAAATAT
* *
90647 AACAAATTAGTTAAATTTAATTCAAAATTGGATGAATTAATAAGATAATTGG-AAAAGGAAAATC
1 AAAAAATTAGTTAAATTTAATTCAAAATTGAATGAA-TAA-AAGA-AA-TGGCAAAA-GAAAATC
* * **
90711 AAAAACTAAAACTAATTTATGAAATTATAAAAATTAAAAGCCTTAATTGTAAATAT
61 AAAAACT-AAAC-AATTTATGAAAGTATAAAAATTAAAAGCCCTAATCATAAATAT
90767 AAAAAATTA
1 AAAAAATTA
90776 AGGGCCCTAA
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
114 27 0.25
115 9 0.08
116 3 0.03
117 6 0.06
118 14 0.13
119 4 0.04
120 43 0.41
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (114 bp):
AAAAAATTAGTTAAATTTAATTCAAAATTGAATGAATAAAAGAAATGGCAAAAGAAAATCAAAAA
CTAAACAATTTATGAAAGTATAAAAATTAAAAGCCCTAATCATAAATAT
Found at i:90767 original size:28 final size:28
Alignment explanation
Indices: 90722--90802 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
90712 AAAACTAAAA
90722 CTAATTTATGAAATTATAAAAATTAAAAGCC
1 CTAA-TTAT-AAA-TATAAAAATTAAAAGCC
* * **
90753 TTAATTGTAAATATAAAAAATTAAGGGCC
1 CTAATTATAAATAT-AAAAATTAAAAGCC
90782 CTAATTATAAATA-AAAAATTA
1 CTAATTATAAATATAAAAATTA
90803 GGGGCTTGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 8 0.19
28 3 0.07
29 26 0.60
30 3 0.07
31 3 0.07
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.32
Consensus pattern (28 bp):
CTAATTATAAATATAAAAATTAAAAGCC
Found at i:116634 original size:27 final size:26
Alignment explanation
Indices: 116603--116671 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
116593 TCTATTTACA
116603 AAATCATATCTCTATAAGAATAATAAC
1 AAATCA-ATCTCTATAAGAATAATAAC
* *
116630 AAATCACATCTCTATAGGAATGATAAC
1 AAATCA-ATCTCTATAAGAATAATAAC
116657 AAATC-ATCTCTATAA
1 AAATCAATCTCTATAA
116672 TTCCTACAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 9 0.24
27 29 0.76
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.29
Consensus pattern (26 bp):
AAATCAATCTCTATAAGAATAATAAC
Found at i:125579 original size:21 final size:22
Alignment explanation
Indices: 125553--125593 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
125543 TCGGTTGCTT
*
125553 TTAATGTATTT-TTTTAATCAC
1 TTAATGTATTTGCTTTAATCAC
125574 TTAATGTATTTGCTTTAATC
1 TTAATGTATTTGCTTTAATC
125594 TGTAACTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (22 bp):
TTAATGTATTTGCTTTAATCAC
Found at i:126415 original size:13 final size:13
Alignment explanation
Indices: 126376--126416 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
126366 TCACATCATA
126376 AAAAAATATTAAT
1 AAAAAATATTAAT
* *
126389 --AAAATAATACT
1 AAAAAATATTAAT
126400 AAAAAATATTAAT
1 AAAAAATATTAAT
126413 AAAA
1 AAAA
126417 TAAAATTCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 9 0.41
13 13 0.59
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAAATATTAAT
Found at i:127018 original size:30 final size:30
Alignment explanation
Indices: 126982--127054 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
126972 AAAAATCAAT
126982 TAAAAATAAAATAAATAATATTTTAATAAC
1 TAAAAATAAAATAAATAATATTTTAATAAC
*
127012 TAAAAATAAAATAAATAATATTTTAATAAT
1 TAAAAATAAAATAAATAATATTTTAATAAC
127042 TAAAAATTAAAAT
1 TAAAAA-TAAAAT
127055 GAAAATTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 35 0.85
31 6 0.15
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (30 bp):
TAAAAATAAAATAAATAATATTTTAATAAC
Found at i:127024 original size:15 final size:15
Alignment explanation
Indices: 126982--127029 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
126972 AAAAATCAAT
126982 TAAAAATAAAATAAA
1 TAAAAATAAAATAAA
* * ** *
126997 TAATATTTTAATAAC
1 TAAAAATAAAATAAA
127012 TAAAAATAAAATAAA
1 TAAAAATAAAATAAA
127027 TAA
1 TAA
127030 TATTTTAATA
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATAAAATAAA
Found at i:127039 original size:15 final size:15
Alignment explanation
Indices: 126991--127040 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
126981 TTAAAAATAA
126991 AATAAATAATATTTT
1 AATAAATAATATTTT
* * * **
127006 AATAACTAAAAATAA
1 AATAAATAATATTTT
127021 AATAAATAATATTTT
1 AATAAATAATATTTT
127036 AATAA
1 AATAA
127041 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAAATAATATTTT
Found at i:127536 original size:122 final size:123
Alignment explanation
Indices: 127330--127570 Score: 369
Period size: 122 Copynumber: 2.0 Consensus size: 123
127320 GTTTTTTGAC
*
127330 TTGGCATTTTAGTTGGAGGAAAATTGATAGGAATTTAAATCAGGGATTTTGTTTGTTCGTGGAAT
1 TTGGCATTTTAGTTAGAGGAAAATTGATAGGAATTTAAATCAGGGATTTTGTTTGTTCGTGGAAT
* * * * *
127395 TAAAATTCTGGGTTTGATTTGAATTTCATAGCTTGAAAATTCTGGGTTTGATTTCTAT
66 TAAAATTATGGGTATGATTTGAATTCCATAGCTTGAAAATTCTAGGTTTAATTTCTAT
* * * *
127453 TTGGCGTTTTAGTTAGAGGAAAATTGATAGTAGTTTAAAAT-AGGG-TTTTGTTTGTTTGTGGAA
1 TTGGCATTTTAGTTAGAGGAAAATTGATAGGAATTT-AAATCAGGGATTTTGTTTGTTCGTGGAA
127516 TTAAAATTATGGGTATGATTTGAATTCCATAGCTTGAAAATTCTAGGTTTAATTT
65 TTAAAATTATGGGTATGATTTGAATTCCATAGCTTGAAAATTCTAGGTTTAATTT
127571 GAAGTGGTTT
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
122 67 0.63
123 36 0.34
124 4 0.04
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.43
Consensus pattern (123 bp):
TTGGCATTTTAGTTAGAGGAAAATTGATAGGAATTTAAATCAGGGATTTTGTTTGTTCGTGGAAT
TAAAATTATGGGTATGATTTGAATTCCATAGCTTGAAAATTCTAGGTTTAATTTCTAT
Found at i:129125 original size:12 final size:13
Alignment explanation
Indices: 129097--129134 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
129087 AATTTTTGAA
*
129097 ATTTATGATTATTT
1 ATTTATAATT-TTT
129111 ATTTAT-ATTTTT
1 ATTTATAATTTTT
129123 ATTTATAATTTT
1 ATTTATAATTTT
129135 GAAAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 9 0.39
13 8 0.35
14 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
ATTTATAATTTTT
Found at i:131052 original size:20 final size:20
Alignment explanation
Indices: 131027--131064 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
131017 CAAATGTTAA
131027 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
*
131047 AGAATGTATCGATGCACT
1 AGAATGCATCGATGCACT
131065 TCAAGGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:131905 original size:27 final size:27
Alignment explanation
Indices: 131863--131932 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
131853 CTTAAGGAGT
131863 GGTACTTCGGGACAAATACAGTACATA
1 GGTACTTCGGGACAAATACAGTACATA
* * *
131890 GGTCCTTCGGGACAAATATAGTATATA
1 GGTACTTCGGGACAAATACAGTACATA
*
131917 GGTATTTCGGGACAAA
1 GGTACTTCGGGACAAA
131933 ATTTCATAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (27 bp):
GGTACTTCGGGACAAATACAGTACATA
Found at i:132138 original size:32 final size:34
Alignment explanation
Indices: 132069--132143 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 34
132059 ATGTATGTGA
*
132069 TATAT-ATATATGTTTTGTGATATGAATTATATG
1 TATATGATATATGTTGTGTGATATGAATTATATG
*
132102 -ATATGATATATG-TGTGTGTTAATG-ATTAT-TG
1 TATATGATATATGTTGTGTGAT-ATGAATTATATG
*
132133 TATATGTTATA
1 TATATGATATA
132144 AGATATATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
31 2 0.06
32 24 0.67
33 10 0.28
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (34 bp):
TATATGATATATGTTGTGTGATATGAATTATATG
Found at i:133458 original size:36 final size:37
Alignment explanation
Indices: 133409--133511 Score: 147
Period size: 36 Copynumber: 2.8 Consensus size: 37
133399 ATTTTTTTTG
* *
133409 TGTTTCAAGAGAAACTGTCTCAAGAGGGACAAAA-TT
1 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
133445 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
* *
133482 AG-TTCTAAAAGAAACTGTCTCAAGGGAGAC
1 TGTTTC-AAAAGAAACTGTCTCAAGAGAGAC
133512 GAATTTATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
36 35 0.57
37 26 0.43
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (37 bp):
TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:133501 original size:37 final size:36
Alignment explanation
Indices: 133410--133524 Score: 144
Period size: 36 Copynumber: 3.2 Consensus size: 36
133400 TTTTTTTTGT
* * *
133410 GTTTCAAGAGAAACTGTCTCAAGAGGGACAAAATTT
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTA
133446 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTA
1 GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTA
* * *
133483 G-TTCTAAAAGAAACTGTCTCAAGGGAGACGAATTTA
1 GTTTC-AAAAGAAACTGTCTCAAGAGAGACAAAATTA
133519 -TTTCAA
1 GTTTCAA
133525 GAAAAAGATA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
35 2 0.03
36 40 0.57
37 28 0.40
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (36 bp):
GTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTA
Found at i:133685 original size:37 final size:37
Alignment explanation
Indices: 133635--133705 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
133625 AAGGTTTATA
*
133635 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTG
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTG
*
133672 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
133706 AATTTCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.25
Consensus pattern (37 bp):
TTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTTG
Found at i:133712 original size:102 final size:102
Alignment explanation
Indices: 133606--133845 Score: 354
Period size: 102 Copynumber: 2.4 Consensus size: 102
133596 ATATTTTTTG
* * *
133606 TTTCAAGGGAAACGTTTTCAAGGTTTATATTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
* *
133671 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
* * * *
133708 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGAGATAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
* * *
133773 GTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
* *
133810 TTTTAGGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
133846 GGAGACAAAA
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 123 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
Found at i:133719 original size:36 final size:37
Alignment explanation
Indices: 133629--133719 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
133619 GTTTTCAAGG
*
133629 TTTATATTTC-AAGAGAAACTATCTCAAGGGAGACAAAA
1 TTTA-ATTTCAAAG-GAAACTATCTCAAGAGAGACAAAA
** *
133667 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTAATTTCAAAGGAAACTATCTCAAGAGAGACAAAA
133704 -TTAATTTCAAAGGAAA
1 TTTAATTTCAAAGGAAA
133720 TGTTTTCAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
36 13 0.29
37 27 0.60
38 5 0.11
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (37 bp):
TTTAATTTCAAAGGAAACTATCTCAAGAGAGACAAAA
Found at i:133850 original size:87 final size:87
Alignment explanation
Indices: 133756--133932 Score: 282
Period size: 87 Copynumber: 2.0 Consensus size: 87
133746 AAACTGTCTT
* * * *
133756 AAGGGAGATAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTTAGGGGAA
1 AAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGAA
133821 ATGTTTTCAATGTTTATGTTTC
66 ATGTTTTCAATGTTTATGTTTC
* * * *
133843 AAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCGATCGAGATAAAATTCATTTCAAGGGAA
1 AAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGAA
133908 ATGTTTTCAATGTTTATGTTTC
66 ATGTTTTCAATGTTTATGTTTC
133930 AAG
1 AAG
133933 AGAAACTGTC
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (87 bp):
AAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGAA
ATGTTTTCAATGTTTATGTTTC
Found at i:134032 original size:189 final size:189
Alignment explanation
Indices: 133652--134037 Score: 490
Period size: 189 Copynumber: 2.0 Consensus size: 189
133642 AGAAACTATC
133652 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
1 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
* * * * **
133717 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGAGATAAAATTTTGTTTCAAGG
66 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
* * * * * * * *
133782 GAAACTACCCCAAGCGAGATAAAATTTATTTTAGGGGAAATGTTTTCAATGTTTATGTT
131 GAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAAAGTATTCAATATTTATGTT
* ** * * *
133841 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCGATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
133906 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
66 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
** * * * *
133971 GAAAATGTCTCAAGGGAGACGAAA-TTAGTTTCAATGAAAACAG-ATTCAAATATTT-TGTT
131 GAAAATACCCCAAGCGAGACAAAATTTA-TTTCAAGGAAAA-AGTATTC-AATATTTATGTT
134030 TCAAGGGA
1 TCAAGGGA
134038 AACTTGGAAA
Statistics
Matches: 168, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
188 3 0.02
189 158 0.94
190 7 0.04
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (189 bp):
TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTAATTTCAAAGG
AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCCAAAA
GAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAAAGTATTCAATATTTATGTT
Found at i:134381 original size:106 final size:106
Alignment explanation
Indices: 134238--134511 Score: 399
Period size: 106 Copynumber: 2.6 Consensus size: 106
134228 TAGAACTAAT
* * * * * *
134238 AAATTGTTTGTTGACAGCCAGCTG-CTTCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCC
1 AAATTGTTTGTTGACAACCAGCCGTC-CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
*
134302 AATATCTTTC-GTTGTGAAGTTGAAATTGGCTCCGAAATTGGG
65 AATATCCTTCAG-TGTGAAGTTGAAATTGGCTCCGAAATTGGG
*
134344 AAATTGTTTGTTGACAACCAGCCGTCCCTTCTTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
*
134409 ATATCCTTCAGTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCAGTGTGAAGTTGAAATTGGCTCCGAAATTGGG
* * * *
134450 AAATTATTTGTTGACAACCAGTCGTCCTTTCGTTGTGGAGTTGAACTTGTGTTGTCTCGAGT
1 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
134512 GGCACGATAT
Statistics
Matches: 152, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
106 150 0.99
107 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (106 bp):
AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
ATATCCTTCAGTGTGAAGTTGAAATTGGCTCCGAAATTGGG
Found at i:135176 original size:33 final size:32
Alignment explanation
Indices: 135104--135194 Score: 137
Period size: 33 Copynumber: 2.8 Consensus size: 32
135094 ATTCCCAAAG
* *
135104 ATGCCCCAATATTCGATGTTGAATCTAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTAAAAAA
* *
135136 ATACCCCAACATTTGATGTTAAATCTAAAAAAA
1 ATGCCCCAACATTTGATGTTGAATCT-AAAAAA
135169 ATGCCCCAACATTTGATGTTGAATCT
1 ATGCCCCAACATTTGATGTTGAATCT
135195 TCAAAGATGC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 22 0.42
33 30 0.58
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTAAAAAA
Found at i:135886 original size:19 final size:19
Alignment explanation
Indices: 135858--135894 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
135848 CGGCCTGTGG
135858 CACTTCGACTTCCTTTGAA
1 CACTTCGACTTCCTTTGAA
*
135877 CACTTTGACTTCCTTTGA
1 CACTTCGACTTCCTTTGA
135895 GCAAGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.41
Consensus pattern (19 bp):
CACTTCGACTTCCTTTGAA
Found at i:137987 original size:232 final size:232
Alignment explanation
Indices: 137581--138044 Score: 874
Period size: 232 Copynumber: 2.0 Consensus size: 232
137571 TAATAAAGTT
*
137581 GATAGTTGAGGATCATAAAGTAAACTTGAAGAAGAGAATAAGAAGATAAAATAGAGAAGAAGAAG
1 GATAGTTGAGGATCATAAAGTAAACTTGAAGAAGAGAATAAGAAGATAAAATAGAGAAGAAGAAA
137646 AAGAAAAAGAAGAAGAAATATGAAAACTTGTCAATCTAGCATAGCGAACGAATTCGAGAGAGGAA
66 AAGAAAAAGAAGAAGAAATATGAAAACTTGTCAATCTAGCATAGCGAACGAATTCGAGAGAGGAA
*
137711 TAAAAAAATTACAATTGTGTACTTTAAGATTGTAGTAAAAAAAGAAAAATAACATATGAAAAATA
131 TAAAAAAATTACAATTGTGTAATTTAAGATTGTAGTAAAAAAAGAAAAATAACATATGAAAAATA
137776 TAGAGTTTTTATGTTTTAAATATATGATCGAGTTGAA
196 TAGAGTTTTTATGTTTTAAATATATGATCGAGTTGAA
* *
137813 GATAGTTGAGGATCATAAAGTAAACTTGAAGAAGAGAATAAGAAGATGAAATGGAGAAGAAGAAA
1 GATAGTTGAGGATCATAAAGTAAACTTGAAGAAGAGAATAAGAAGATAAAATAGAGAAGAAGAAA
*
137878 AAGAAAAAGAAGAAGAAATATGAAAACTTGTCAATCTAGCTTAGCGAACGAATTCGAGAGAGGAA
66 AAGAAAAAGAAGAAGAAATATGAAAACTTGTCAATCTAGCATAGCGAACGAATTCGAGAGAGGAA
*
137943 TAAAAAAATTACAATTGTGTAATTTACGATTGTAGTAAAAAAAGAAAAATAACATATGAAAAATA
131 TAAAAAAATTACAATTGTGTAATTTAAGATTGTAGTAAAAAAAGAAAAATAACATATGAAAAATA
138008 TAGAGTTTTTATGTTTTAAATATATGATCGAGTTGAA
196 TAGAGTTTTTATGTTTTAAATATATGATCGAGTTGAA
138045 TCGAATATAA
Statistics
Matches: 226, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
232 226 1.00
ACGTcount: A:0.50, C:0.06, G:0.20, T:0.24
Consensus pattern (232 bp):
GATAGTTGAGGATCATAAAGTAAACTTGAAGAAGAGAATAAGAAGATAAAATAGAGAAGAAGAAA
AAGAAAAAGAAGAAGAAATATGAAAACTTGTCAATCTAGCATAGCGAACGAATTCGAGAGAGGAA
TAAAAAAATTACAATTGTGTAATTTAAGATTGTAGTAAAAAAAGAAAAATAACATATGAAAAATA
TAGAGTTTTTATGTTTTAAATATATGATCGAGTTGAA
Found at i:142053 original size:21 final size:20
Alignment explanation
Indices: 142029--142068 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
142019 AAAAAATACA
*
142029 ATACATATGCAAAATGCAAAG
1 ATACAAATGC-AAATGCAAAG
*
142050 ATACAAATGCATATGCAAA
1 ATACAAATGCAAATGCAAA
142069 AATGTTGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (20 bp):
ATACAAATGCAAATGCAAAG
Found at i:142065 original size:27 final size:27
Alignment explanation
Indices: 142002--142069 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
141992 TTTATGAATG
*
142002 ATGCATGTG-AAAATGCTAAAAAATACA
1 ATGCATATGCAAAATGC-AAAAAATACA
* *
142029 ATACATATGCAAAATGC-AAAGATACAA
1 ATGCATATGCAAAATGCAAAAAATAC-A
142056 ATGCATATGCAAAA
1 ATGCATATGCAAAA
142070 ATGTTGATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.20
27 21 0.60
28 7 0.20
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (27 bp):
ATGCATATGCAAAATGCAAAAAATACA
Found at i:144573 original size:61 final size:60
Alignment explanation
Indices: 144491--144604 Score: 140
Period size: 61 Copynumber: 1.9 Consensus size: 60
144481 AAATAGAAAA
*
144491 TTAGGGACTAAAACAACAAAAATAGAAACATAAAAGACTAAAATGGCAAAAAAACATAATC
1 TTAGGGACTAAAACAACAAAAATAGAAACATAAAAGACTAAAATAG-AAAAAAACATAATC
** * * * *
144552 TTAGGGACTAAATAGTA-AAAAATAGAAGCCTAAAGGAGTAAAATAGAAAAAAA
1 TTAGGGACTAAA-ACAACAAAAATAGAAACATAAAAGACTAAAATAGAAAAAAA
144605 TAAATTTAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
60 7 0.16
61 36 0.80
62 2 0.04
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.16
Consensus pattern (60 bp):
TTAGGGACTAAAACAACAAAAATAGAAACATAAAAGACTAAAATAGAAAAAAACATAATC
Found at i:144614 original size:29 final size:28
Alignment explanation
Indices: 144556--144685 Score: 95
Period size: 29 Copynumber: 4.5 Consensus size: 28
144546 ATAATCTTAG
* *
144556 GGACT-AAATAGTAAAAAATAGAAGCCTAAA
1 GGACTAAAATAGAAAAAAATA-AA--TTAAA
*
144586 GGAGTAAAATAGAAAAAAATAAATTTAAA
1 GGACTAAAATAGAAAAAAATAAA-TTAAA
* * * * *
144615 -GACCAAAATACAAATACAGTAACTTAAA
1 GGACTAAAATAGAAA-AAAATAAATTAAA
* *
144643 GGGCTAAAATAGAATAAACATAAATTAAA
1 GGACTAAAATAGAA-AAAAATAAATTAAA
144672 GGACTAAAAT-GAAA
1 GGACTAAAATAGAAA
144686 TTACACAGAA
Statistics
Matches: 78, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
27 1 0.01
28 19 0.24
29 37 0.47
30 7 0.09
31 14 0.18
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.18
Consensus pattern (28 bp):
GGACTAAAATAGAAAAAAATAAATTAAA
Found at i:146989 original size:15 final size:15
Alignment explanation
Indices: 146971--147053 Score: 105
Period size: 15 Copynumber: 5.5 Consensus size: 15
146961 TTCCGGAAAA
146971 TGAATTACTGGAATT
1 TGAATTACTGGAATT
146986 TGAATTACTGGAATT
1 TGAATTACTGGAATT
* **
147001 TGAATTTCTGGAAAAA
1 TGAATTACTGG-AATT
147017 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
147032 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
147046 TGAATTAC
1 TGAATTAC
147054 ATTTCTGGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.21
15 34 0.59
16 12 0.21
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.36
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:147022 original size:16 final size:15
Alignment explanation
Indices: 146960--147051 Score: 78
Period size: 15 Copynumber: 6.1 Consensus size: 15
146950 TGTAATTGGT
*
146960 TTTCCGGAAAATGAA
1 TTTCTGGAAAATGAA
* **
146975 TTACTGGAATTTGAA
1 TTTCTGGAAAATGAA
* **
146990 TTACTGGAATTTGAA
1 TTTCTGGAAAATGAA
147005 TTTCTGGAAAAATGAA
1 TTTCTGG-AAAATGAA
* **
147021 TTACTGGAATTTGAA
1 TTTCTGGAAAATGAA
147036 -TTCTGGAAAATGAA
1 TTTCTGGAAAATGAA
147050 TT
1 TT
147052 ACATTTCTGG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.18
15 39 0.63
16 12 0.19
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.36
Consensus pattern (15 bp):
TTTCTGGAAAATGAA
Found at i:147024 original size:31 final size:29
Alignment explanation
Indices: 146971--147053 Score: 121
Period size: 31 Copynumber: 2.8 Consensus size: 29
146961 TTCCGGAAAA
**
146971 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATT-CTGGAAAATGAATTACTGGAATT
147001 TGAATTTCTGGAAAAATGAATTACTGGAATT
1 TGAA-TTCTGG-AAAATGAATTACTGGAATT
147032 TGAATTCTGGAAAATGAATTAC
1 TGAATTCTGGAAAATGAATTAC
147054 ATTTCTGGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
29 12 0.24
30 14 0.29
31 23 0.47
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.36
Consensus pattern (29 bp):
TGAATTCTGGAAAATGAATTACTGGAATT
Found at i:147059 original size:20 final size:20
Alignment explanation
Indices: 147036--147085 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
147026 GGAATTTGAA
147036 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
147056 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
147076 TTCTGGAAAA
1 TTCTGGAAAA
147086 CATCTGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:147469 original size:30 final size:28
Alignment explanation
Indices: 147412--147577 Score: 98
Period size: 30 Copynumber: 5.9 Consensus size: 28
147402 CTTTACTAAA
*
147412 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAAAAATATTAT
147441 -TCATTATTAAATATATAAAAAATTTATTAT
1 AT-ATTATTAAATATATAAAAAA--TATTAT
*
147471 ATATTATTAAA-ATAAAAATATAATATCT-T
1 ATATTATTAAATATATAAA-A-AATAT-TAT
* ** *
147500 ATATTATTATAATATAATTAATTATTTTAT
1 ATATTATTA-AATAT-ATAAAAAATATTAT
* *
147530 ATAATATTAAA-A-AT--ATAATATTAT
1 ATATTATTAAATATATAAAAAATATTAT
*
147554 ATTATTA-TAAATAT-TAATAAATAT
1 A-TATTATTAAATATATAAAAAATAT
147578 ATTTTAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
24 13 0.12
25 6 0.06
26 2 0.02
27 5 0.05
28 15 0.14
29 28 0.26
30 31 0.29
31 5 0.05
32 3 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTATTAAATATATAAAAAATATTAT
Found at i:147484 original size:59 final size:59
Alignment explanation
Indices: 147412--147561 Score: 157
Period size: 59 Copynumber: 2.6 Consensus size: 59
147402 CTTTACTAAA
*
147412 ATATTATTGAAATATATAA-ATAATATTATTCATTATTAAATATATAAAAAATT-TATTAT
1 ATATTATTAAAATATATAATATAATATTATT-ATTATTAAA-ATATAAAAAATTATATTAT
* * ** *
147471 ATATTATTAAAATA-AAAATATAATATCT-TATATTATTATAATATAATTAATTATTTTAT
1 ATATTATTAAAATATATAATATAATAT-TAT-TATTATTAAAATATAAAAAATTATATTAT
* *
147530 ATAATATTAAAA-ATATAATATTATATTATTAT
1 ATATTATTAAAATATATAATATAATATTATTAT
147562 AAATATTAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
58 18 0.24
59 56 0.74
60 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (59 bp):
ATATTATTAAAATATATAATATAATATTATTATTATTAAAATATAAAAAATTATATTAT
Found at i:147523 original size:18 final size:19
Alignment explanation
Indices: 147489--147534 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
147479 AAAATAAAAA
*
147489 TATAATAT-CTTATATTAT
1 TATAATATAATTATATTAT
147507 TATAATATAATTA-ATTAT
1 TATAATATAATTATATTAT
*
147525 T-TTATATAAT
1 TATAATATAAT
147535 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 14 0.56
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAATATAATTATATTAT
Found at i:147546 original size:31 final size:32
Alignment explanation
Indices: 147500--147597 Score: 96
Period size: 31 Copynumber: 3.1 Consensus size: 32
147490 ATAATATCTT
*
147500 ATATTATTATAATATAATTAATTATTTTATATA
1 ATATTAATA-AATATAATTAATTATTTTATATA
*
147533 ATATTAA-AAATATAA-T-ATTATATTATTATAA
1 ATATTAATAAATATAATTAATTATTTTA-TAT-A
* *
147564 ATATTAATAAATATATTTTAAATATTTTA-ATA
1 ATATTAATAAATATA-ATTAATTATTTTATATA
147596 AT
1 AT
147598 TAATATTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
29 8 0.15
30 4 0.07
31 15 0.28
32 11 0.20
33 8 0.15
34 1 0.02
35 7 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATTAATAAATATAATTAATTATTTTATATA
Found at i:147554 original size:22 final size:23
Alignment explanation
Indices: 147529--147572 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
147519 AATTATTTTA
147529 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
147551 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
147573 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:147577 original size:22 final size:22
Alignment explanation
Indices: 147500--147589 Score: 64
Period size: 21 Copynumber: 4.2 Consensus size: 22
147490 ATAATATCTT
* *
147500 ATATTATTATAATATAAT-TAA
1 ATATTAATATAATATATTATAA
* * *
147521 TTATT-TTAT-ATAATATTAAAA
1 ATATTAATATAAT-ATATTATAA
*
147542 ATA-TAATATTATATTATTATAA
1 ATATTAATATAATA-TATTATAA
*
147564 ATATTAATA-AATATATTTTAA
1 ATATTAATATAATATATTATAA
147585 ATATT
1 ATATT
147590 TTAATAATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
19 2 0.04
20 9 0.16
21 24 0.44
22 15 0.27
23 5 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAATATAATATATTATAA
Found at i:147588 original size:52 final size:51
Alignment explanation
Indices: 147469--147589 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 51
147459 AAAATTTATT
*
147469 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTA
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
147520 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
147574 ATATATTTTAAATATT
1 ATATATTTTAAATATT
147590 TTAATAATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.11
54 23 0.38
55 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:147837 original size:42 final size:42
Alignment explanation
Indices: 147778--147893 Score: 214
Period size: 42 Copynumber: 2.8 Consensus size: 42
147768 ATGAATTACA
*
147778 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
147820 TTCCGGAAAACAAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
147862 TTCCGGAAAACGAATTACGTGAAACAAACACG
1 TTCCGGAAAACGAATTACGTGAAACAAACACG
147894 AGAATTCAGG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:148852 original size:13 final size:13
Alignment explanation
Indices: 148836--148877 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
148826 ATAAATTAAA
*
148836 AAAATTATATTTT
1 AAAATTATAATTT
*
148849 AAAATTAAAATTT
1 AAAATTATAATTT
148862 -AAA-TATAATTT
1 AAAATTATAATTT
148873 AAAAT
1 AAAAT
148878 AATTATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 7 0.29
12 6 0.25
13 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAATTATAATTT
Found at i:148896 original size:12 final size:13
Alignment explanation
Indices: 148873--148905 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
148863 AATATAATTT
*
148873 AAAATAATTAT-A
1 AAAATAAATATAA
148885 AAAATAAATATAA
1 AAAATAAATATAA
148898 AAAATAAA
1 AAAATAAA
148906 ATTTAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAATATAA
Found at i:149030 original size:28 final size:28
Alignment explanation
Indices: 148998--149053 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
148988 ATTATAAAAT
148998 AAATATAAAAATA-TTAAATTTAGTTTTA
1 AAATATAAAAA-ACTTAAATTTAGTTTTA
*
149026 AAATATAAAAAACTTAAATTTATTTTTA
1 AAATATAAAAAACTTAAATTTAGTTTTA
149054 TCGTAAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
AAATATAAAAAACTTAAATTTAGTTTTA
Found at i:149144 original size:54 final size:52
Alignment explanation
Indices: 149086--149189 Score: 154
Period size: 54 Copynumber: 2.0 Consensus size: 52
149076 AATTTAAAAA
149086 ATATATAATATATTTAAATATAAATAAAATAAAATATTATATTTGTTTAATATT
1 ATATATAATATATTTAAATATAAAT-AAATAAAATATTATATTT-TTTAATATT
** **
149140 ATATATAATATATTTAAATATTTATATTTAAAATATTATATTTTTTAATA
1 ATATATAATATATTTAAATATAAATAAATAAAATATTATATTTTTTAATA
149190 AATATGTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 7 0.15
53 16 0.35
54 23 0.50
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (52 bp):
ATATATAATATATTTAAATATAAATAAATAAAATATTATATTTTTTAATATT
Found at i:149165 original size:14 final size:14
Alignment explanation
Indices: 149148--149182 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
149138 TTATATATAA
149148 TATATTT-AAATATT
1 TATATTTAAAATA-T
149162 TATATTTAAAATAT
1 TATATTTAAAATAT
149176 TATATTT
1 TATATTT
149183 TTTAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATTTAAAATAT
Found at i:149175 original size:23 final size:22
Alignment explanation
Indices: 149134--149176 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
149124 ATATTTGTTT
*
149134 AATATTATATATAATATATTTA
1 AATATTATATATAAAATATTTA
*
149156 AATATTTATATTTAAAATATT
1 AATA-TTATATATAAAATATT
149177 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATTATATATAAAATATTTA
Found at i:156497 original size:18 final size:18
Alignment explanation
Indices: 156474--156511 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
156464 GAGAGTGTTG
156474 GACATGCTGGAGTCCGTA
1 GACATGCTGGAGTCCGTA
156492 GACATGCTGGAGTCCGTA
1 GACATGCTGGAGTCCGTA
156510 GA
1 GA
156512 AATATCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (18 bp):
GACATGCTGGAGTCCGTA
Found at i:157824 original size:23 final size:22
Alignment explanation
Indices: 157797--157871 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
157787 TGATATATGA
157797 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
** * *
157820 ATATGATATGAAATGATATATG-A
1 ATATGA-AT-ACGTGATACATGTG
157843 ATATGTAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
157866 ATATGA
1 ATATGA
157872 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
22 11 0.28
23 19 0.47
24 10 0.25
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:157836 original size:46 final size:46
Alignment explanation
Indices: 157771--157879 Score: 195
Period size: 46 Copynumber: 2.4 Consensus size: 46
157761 GAGATAAGCT
157771 ATGTGA-AT-ATATGAAATGATATATGAATATGCAATACGTGATAC
1 ATGTGATATGATATGAAATGATATATGAATATGCAATACGTGATAC
*
157815 ATGTGATATGATATGAAATGATATATGAATATGTAATACGTGATAC
1 ATGTGATATGATATGAAATGATATATGAATATGCAATACGTGATAC
157861 ATGTGATATGATATGAAAT
1 ATGTGATATGATATGAAAT
157880 ACATGGTTAC
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
44 6 0.10
45 2 0.03
46 54 0.87
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (46 bp):
ATGTGATATGATATGAAATGATATATGAATATGCAATACGTGATAC
Found at i:158088 original size:38 final size:38
Alignment explanation
Indices: 158032--158127 Score: 149
Period size: 38 Copynumber: 2.5 Consensus size: 38
158022 TATAAGACAT
*
158032 ATGATAGGTCCTAT-GGGACACAGATTACATCATTCAGG
1 ATGATAGGTCCT-TCGGGACACAGATGACATCATTCAGG
* *
158070 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCATTCAGG
158108 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
158128 TTTGTACGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 1 0.02
38 53 0.98
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCATTCAGG
Found at i:158317 original size:20 final size:21
Alignment explanation
Indices: 158281--158322 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
158271 TGACATGATT
*
158281 TATATATATGTCATATTGAAA
1 TATATACATGTCATATTGAAA
158302 TATATACATG-CATATTGAAA
1 TATATACATGTCATATTGAAA
158322 T
1 T
158323 GTTATGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
TATATACATGTCATATTGAAA
Found at i:164715 original size:22 final size:21
Alignment explanation
Indices: 164690--164762 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
164680 ATATATTAAA
164690 TGATATATGAATATGCAATACG
1 TGATATATGAATATG-AATACG
* * **
164712 TGATACATGTGATATGATATGAAA
1 TGATATATG-AATATGA-AT-ACG
*
164736 TGACATATGAATATGTAATACG
1 TGATATATGAATATG-AATACG
164758 TGATA
1 TGATA
164763 CATGTGATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
22 14 0.38
23 14 0.38
24 9 0.24
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (21 bp):
TGATATATGAATATGAATACG
Found at i:164727 original size:23 final size:22
Alignment explanation
Indices: 164700--164774 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
164690 TGATATATGA
164700 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
164723 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
164745 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
164769 ATATGA
1 ATATGA
164775 TATAAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:164744 original size:46 final size:46
Alignment explanation
Indices: 164674--164786 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
164664 GAGATAAACT
* *
164674 ATGTGA-AT-ATATTAAATGATATATGAATATGCAATACGTGATAC
1 ATGTGATATGATATAAAATGACATATGAATATGCAATACGTGATAC
* *
164718 ATGTGATATGATATGAAATGACATATGAATATGTAATACGTGATAC
1 ATGTGATATGATATAAAATGACATATGAATATGCAATACGTGATAC
164764 ATGTGATATGATATAAAAT-ACAT
1 ATGTGATATGATATAAAATGACAT
164787 GGTTACACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
44 6 0.10
45 6 0.10
46 51 0.81
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (46 bp):
ATGTGATATGATATAAAATGACATATGAATATGCAATACGTGATAC
Found at i:164994 original size:38 final size:38
Alignment explanation
Indices: 164952--165026 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
164942 GTCGTACGGG
*
164952 ACACAGATTACATCCTTCAGGATGACAGGTCCTTCGGC
1 ACACAGATCACATCCTTCAGGATGACAGGTCCTTCGGC
* * *
164990 ACACAGATCACATCCTTCGGGATGATAGGTTCTTCGG
1 ACACAGATCACATCCTTCAGGATGACAGGTCCTTCGG
165027 GACATTTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (38 bp):
ACACAGATCACATCCTTCAGGATGACAGGTCCTTCGGC
Found at i:165220 original size:20 final size:21
Alignment explanation
Indices: 165184--165225 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
165174 TGACATGATT
*
165184 TATATATATGTCATATTGAAA
1 TATATACATGTCATATTGAAA
165205 TATATACATG-CATATTGAAA
1 TATATACATGTCATATTGAAA
165225 T
1 T
165226 GTTATGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
TATATACATGTCATATTGAAA
Found at i:170679 original size:31 final size:31
Alignment explanation
Indices: 170638--170733 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
170628 GAATCTCGGC
* *
170638 AACTGTCCATAGGTCTCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCAAAGAACATAGGTA
* * **
170669 AACTATCCATATGTCCCGTAGAACATAGGTA
1 AACTGTCCATAGGTCCCAAAGAACATAGGTA
**
170700 AACTGTCCATATATCCCAAA-AGACATAGGTA
1 AACTGTCCATAGGTCCCAAAGA-ACATAGGTA
170731 AAC
1 AAC
170734 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 1 0.02
31 53 0.98
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCAAAGAACATAGGTA
Found at i:171744 original size:21 final size:21
Alignment explanation
Indices: 171703--171744 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
171693 GTTTATTTGT
*
171703 TTGAAAGTGCATCGGTACACA
1 TTGAAAGTGCATCGATACACA
* *
171724 TTGAATGTGCATCGATGCACA
1 TTGAAAGTGCATCGATACACA
171745 CAACCCAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (21 bp):
TTGAAAGTGCATCGATACACA
Found at i:176013 original size:31 final size:31
Alignment explanation
Indices: 175978--176054 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
175968 TATGTTTCGA
*
175978 AGAACCTAGGTAAACTATCCATATGTCCCGT
1 AGAACATAGGTAAACTATCCATATGTCCCGT
*
176009 AGAACATAGGTAAACTATCCATATGTCCC-A
1 AGAACATAGGTAAACTATCCATATGTCCCGT
*
176039 AAAGACATAGGTAAAC
1 AGA-ACATAGGTAAAC
176055 CCTCGACTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
30 2 0.05
31 40 0.95
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (31 bp):
AGAACATAGGTAAACTATCCATATGTCCCGT
Found at i:182835 original size:22 final size:22
Alignment explanation
Indices: 182802--182854 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
182792 CCGAAATAAT
*
182802 AATAAAAA-ATTATTTTTATTC
1 AATAAAAATATTATTTTTACTC
182823 AATAAAAATATTATTTTTACTC
1 AATAAAAATATTATTTTTACTC
*
182845 AAAAAAAATA
1 AATAAAAATA
182855 GTGATTTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAAAAATATTATTTTTACTC
Found at i:182861 original size:23 final size:22
Alignment explanation
Indices: 182805--182861 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
182795 AAATAATAAT
*
182805 AAAAAAT-T-ATTTTTATTCAA
1 AAAAAATATGATTTTTACTCAA
* *
182825 TAAAAATATTATTTTTACTCAA
1 AAAAAATATGATTTTTACTCAA
182847 AAAAAATAGTGATTT
1 AAAAAATA-TGATTT
182862 AGTTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.20
21 1 0.03
22 18 0.60
23 5 0.17
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (22 bp):
AAAAAATATGATTTTTACTCAA
Done.