Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008240.1 Hibiscus syriacus cultivar Beakdansim tig00110888_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: 893855
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:5293 original size:2 final size:2
Alignment explanation
Indices: 5286--5310 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5276 GAAAGTGAAC
5286 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
5311 GAATATGAGA
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:5453 original size:21 final size:22
Alignment explanation
Indices: 5429--5476 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
5419 AATATGAGAT
5429 ATATGTTTACACATACAT-TTG
1 ATATGTTTACACATACATGTTG
5450 ATATGTTTACACATACATGTTG
1 ATATGTTTACACATACATGTTG
5472 -TATGT
1 ATATGT
5477 GACAGAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (22 bp):
ATATGTTTACACATACATGTTG
Found at i:5658 original size:31 final size:30
Alignment explanation
Indices: 5604--5818 Score: 157
Period size: 31 Copynumber: 6.9 Consensus size: 30
5594 GTCAAGGAAT
5604 TACCTATGTCTTTCGG-ACATATGGACAATA
1 TACCTATGT-TTTCGGAACATATGGACAATA
5634 TACCTATGTTTTACGGAACATATGGAC-ATAA
1 TACCTATGTTTT-CGGAACATATGGACAAT-A
* *
5665 TTACCTATGTCTTTCGGGACATATGGACAGTA
1 -TACCTATGT-TTTCGGAACATATGGACAATA
* * *
5697 TACCTATGTTCTACGGAACATATAGACAAAA
1 TACCTATGTT-TTCGGAACATATGGACAATA
* * * *
5728 TTAGCTATGTCTTT-TGAGACTTATGGACAGTA
1 -TACCTATGT-TTTCGGA-ACATATGGACAATA
* ** * *
5760 TACATATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTT-TTCGGAACATATGGACAATA
* * *
5791 TACCTAGGTTCTTCGGGACTTATGGACA
1 TACCTATGTT-TTCGGAACATATGGACA
5819 GTTGCCGAGG
Statistics
Matches: 147, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
29 3 0.02
30 16 0.11
31 79 0.54
32 44 0.30
33 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (30 bp):
TACCTATGTTTTCGGAACATATGGACAATA
Found at i:5687 original size:32 final size:32
Alignment explanation
Indices: 5601--5756 Score: 146
Period size: 32 Copynumber: 5.0 Consensus size: 32
5591 AGAGTCAAGG
5601 AATTACCTATGTCTTTC-GGACATATGGAC--
1 AATTACCTATGTCTTTCGGGACATATGGACAT
*
5630 AATATACCTATGT-TTTACGGAACATATGGACAT
1 AAT-TACCTATGTCTTT-CGGGACATATGGACAT
5663 AATTACCTATGTCTTTCGGGACATATGGACAGT
1 AATTACCTATGTCTTTCGGGACATATGGACA-T
* * * *
5696 -A-TACCTATGT-TCTACGGAACATATAGACAA
1 AATTACCTATGTCT-TTCGGGACATATGGACAT
* * * *
5726 AATTAGCTATGTCTTTTGAGACTTATGGACA
1 AATTACCTATGTCTTTCGGGACATATGGACA
5757 GTATACATAT
Statistics
Matches: 103, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
29 6 0.06
30 11 0.11
31 35 0.34
32 43 0.42
33 8 0.08
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (32 bp):
AATTACCTATGTCTTTCGGGACATATGGACAT
Found at i:5700 original size:63 final size:63
Alignment explanation
Indices: 5601--5820 Score: 286
Period size: 63 Copynumber: 3.5 Consensus size: 63
5591 AGAGTCAAGG
* *
5601 AATTACCTATGTCTTTC-GGACATATGGACAATATACCTATGTTTTACGGAACATATGGACAT
1 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTACGGAACATATGGACAT
* *
5663 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTACGGAACATATAGACAA
1 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTACGGAACATATGGACAT
* * * * * *
5726 AATTAGCTATGTCTTTTGAGACTTATGGACAGTATACATATGTTCTAAGGAACATATGGACAGT
1 AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTACGGAACATATGGACA-T
* *
5790 --TTACCTAGGT-TCTTCGGGACTTATGGACAGT
1 AATTACCTATGTCT-TTCGGGACATATGGACAGT
5821 TGCCGAGGTT
Statistics
Matches: 139, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
61 1 0.01
62 42 0.30
63 96 0.69
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (63 bp):
AATTACCTATGTCTTTCGGGACATATGGACAGTATACCTATGTTCTACGGAACATATGGACAT
Found at i:6560 original size:12 final size:12
Alignment explanation
Indices: 6541--6583 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
6531 CGTAATTTTC
6541 ACTGTTCATGGT
1 ACTGTTCATGGT
*
6553 ATTGTTCATGGT
1 ACTGTTCATGGT
6565 ACTGTTCAT--T
1 ACTGTTCATGGT
6575 ACTGTTCAT
1 ACTGTTCAT
6584 ACGGTATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 10 0.34
12 19 0.66
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (12 bp):
ACTGTTCATGGT
Found at i:6611 original size:21 final size:19
Alignment explanation
Indices: 6573--6624 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
6563 GTACTGTTCA
6573 TTACTGTTCATACGGTATT
1 TTACTGTTCATACGGTATT
6592 GTTCACTGTTCATATC-GTATT
1 -TT-ACTGTTCATA-CGGTATT
*
6613 TTATTGTTCATA
1 TTACTGTTCATA
6625 AACATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.31
20 4 0.14
21 15 0.52
22 1 0.03
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.50
Consensus pattern (19 bp):
TTACTGTTCATACGGTATT
Found at i:11090 original size:17 final size:17
Alignment explanation
Indices: 11060--11102 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
11050 AAACAAATGG
*
11060 AAATGCAAAAGCAAATA
1 AAATGTAAAAGCAAATA
*
11077 AAATGTAAAGGCAAATA
1 AAATGTAAAAGCAAATA
11094 AAATGTAAA
1 AAATGTAAA
11103 TAGGATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (17 bp):
AAATGTAAAAGCAAATA
Found at i:13088 original size:65 final size:65
Alignment explanation
Indices: 12984--13114 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
12974 TAAACAAAAG
12984 GCATAATGCAAACAAATACCCCTAACATTTGACCATATATACAATTTTACCCAAATTATTTTTTT
1 GCATAATGCAAACAAATACCCCTAACATTTGACCATATATACAATTTTACCCAAATTATTTTTTT
* *
13049 GCATAATGCAAACAAATACCCCTAACATTTGACCATATATGCAATTTTGCCCAAATTATTTTTTT
1 GCATAATGCAAACAAATACCCCTAACATTTGACCATATATACAATTTTACCCAAATTATTTTTTT
13114 G
1 G
13115 GAACATTTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (65 bp):
GCATAATGCAAACAAATACCCCTAACATTTGACCATATATACAATTTTACCCAAATTATTTTTTT
Found at i:13341 original size:30 final size:30
Alignment explanation
Indices: 13268--13343 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
13258 TAGTAAAGGA
* * * * *
13268 TGACGTGGCATATCCACCTAGATTAAATGC
1 TGACGTGGAATGTACACGTAGACTAAATGC
*
13298 TGACGTGGTATGTACACGTAGACTAAATGC
1 TGACGTGGAATGTACACGTAGACTAAATGC
*
13328 TGATGTGGAATGTACA
1 TGACGTGGAATGTACA
13344 TGTGTACTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (30 bp):
TGACGTGGAATGTACACGTAGACTAAATGC
Found at i:13728 original size:17 final size:18
Alignment explanation
Indices: 13703--13740 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13693 TTAAATTCAT
*
13703 ATTTAAAATTT-TAATTA
1 ATTTAAAATTTATAACTA
*
13720 ATTTTAAATTTATAACTA
1 ATTTAAAATTTATAACTA
13738 ATT
1 ATT
13741 AATATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTAAAATTTATAACTA
Found at i:13824 original size:17 final size:16
Alignment explanation
Indices: 13776--13923 Score: 69
Period size: 17 Copynumber: 8.9 Consensus size: 16
13766 TTTTATTCAA
*
13776 AATTTATAA-CTAATT
1 AATTTATAATATAATT
* *
13791 AATATA-AATTTAA--
1 AATTTATAATATAATT
13804 AATTTATAACTATAATT
1 AATTTATAA-TATAATT
13821 AATTACTAATTAATATAATTT
1 AATT--T-A-TAATATAA-TT
13842 AAAATTTATAACTATAATT
1 --AATTTATAA-TATAATT
*
13861 AATTAATAATACTAATT
1 AATTTATAATA-TAATT
*
13878 AATAT-TAAT-T--TT
1 AATTTATAATATAATT
13890 AAATTTATAATTATAATT
1 -AATTTATAA-TATAATT
*
13908 AATTAATAATACTAAT
1 AATTTATAATA-TAAT
13924 AATACTATAA
Statistics
Matches: 103, Mismatches: 9, Indels: 40
0.68 0.06 0.26
Matches are distributed among these distances:
12 2 0.02
13 9 0.09
14 8 0.08
15 13 0.13
16 9 0.09
17 32 0.31
18 2 0.02
19 6 0.06
20 12 0.12
21 6 0.06
23 4 0.04
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTATAATATAATT
Found at i:13850 original size:40 final size:40
Alignment explanation
Indices: 13784--13917 Score: 169
Period size: 41 Copynumber: 3.1 Consensus size: 40
13774 AAAATTTATA
13784 ACTAATTAATATAAATTTAAAATTTATAACTATAATTAATT
1 ACTAATTAATAT-AATTTAAAATTTATAACTATAATTAATT
13825 ACTAATTAATATAATTTAAAATTTATAACTATAATTAATTAATAAT
1 ACTAATTAATATAATTTAAAATTTATAAC--T-A-TAATTAAT--T
* *
13871 ACTAATTAATATTAATTTTAAATTTATAATTATAATTAATT
1 ACTAATTAATA-TAATTTAAAATTTATAACTATAATTAATT
*
13912 AATAAT
1 ACTAAT
13918 ACTAATAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
40 17 0.20
41 18 0.22
42 1 0.01
43 9 0.11
44 9 0.11
45 1 0.01
46 12 0.14
47 16 0.19
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (40 bp):
ACTAATTAATATAATTTAAAATTTATAACTATAATTAATT
Found at i:13857 original size:20 final size:20
Alignment explanation
Indices: 13797--13860 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
13787 AATTAATATA
13797 AATTTAAAATTTATAACTAT
1 AATTTAAAATTTATAACTAT
* * *
13817 AA-TTAATTACTAATTAA-TAT
1 AATTTAA-AATTTA-TAACTAT
13837 AATTTAAAATTTATAACTAT
1 AATTTAAAATTTATAACTAT
13857 AATT
1 AATT
13861 AATTAATAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
19 7 0.21
20 20 0.59
21 7 0.21
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAAAATTTATAACTAT
Found at i:13888 original size:47 final size:47
Alignment explanation
Indices: 13784--13927 Score: 205
Period size: 47 Copynumber: 3.2 Consensus size: 47
13774 AAAATTTATA
*
13784 ACTAATTAATATAAATTTAAAATTTATAAC--T-A-TAATTAAT--T
1 ACTAATTAATATTAATTTAAAATTTATAACTATAATTAATTAATAAT
13825 ACTAATTAATA-TAATTTAAAATTTATAACTATAATTAATTAATAAT
1 ACTAATTAATATTAATTTAAAATTTATAACTATAATTAATTAATAAT
* *
13871 ACTAATTAATATTAATTTTAAATTTATAATTATAATTAATTAATAAT
1 ACTAATTAATATTAATTTAAAATTTATAACTATAATTAATTAATAAT
13918 ACTAA-TAATA
1 ACTAATTAATA
13928 CTATAATTAA
Statistics
Matches: 93, Mismatches: 3, Indels: 9
0.89 0.03 0.09
Matches are distributed among these distances:
40 17 0.18
41 11 0.12
42 1 0.01
43 1 0.01
44 8 0.09
46 17 0.18
47 38 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (47 bp):
ACTAATTAATATTAATTTAAAATTTATAACTATAATTAATTAATAAT
Found at i:13942 original size:17 final size:16
Alignment explanation
Indices: 13827--13957 Score: 54
Period size: 17 Copynumber: 8.6 Consensus size: 16
13817 AATTAATTAC
*
13827 TAATTAATATAATTTA
1 TAATTAATATAATATA
* *
13843 AAATT--TATAA-CTA
1 TAATTAATATAATATA
13856 TAATTAAT-TAATAATA
1 TAATTAATATAAT-ATA
*
13872 CTAATTAATATTAAT-TT
1 -TAATTAATA-TAATATA
13889 TAAATT--TATAAT-TA
1 T-AATTAATATAATATA
13903 TAATTAAT-TAATA-A
1 TAATTAATATAATATA
*
13917 T-ACT-A-ATAATACTA
1 TAATTAATATAATA-TA
*
13931 TAATTAATATAAATTTA
1 TAATTAATAT-AATATA
*
13948 AAATTAATAT
1 TAATTAATAT
13958 TAATTATTTA
Statistics
Matches: 87, Mismatches: 10, Indels: 35
0.66 0.08 0.27
Matches are distributed among these distances:
12 6 0.07
13 12 0.14
14 22 0.25
15 6 0.07
16 8 0.09
17 26 0.30
18 3 0.03
19 4 0.05
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAATATAATATA
Found at i:13960 original size:47 final size:45
Alignment explanation
Indices: 13784--14093 Score: 170
Period size: 47 Copynumber: 6.8 Consensus size: 45
13774 AAAATTTATA
* *
13784 ACTAATTAATATA-AATTTA-AAATTTATAACT-ATAATTAAT--T
1 ACTAA-TAATATATAATTTATAAATTTAAAATTAATAATTAATAAT
* *
13825 ACTAATTA-ATATAATTTA-AAATTTATAACTATAATTAATTAATAAT
1 ACTAATAATATATAATTTATAAATTTA-AAAT-TAA-TAATTAATAAT
*
13871 ACTAATTAATAT-TAATTT-TAAATTTATAATTATAATTAATTAATAAT
1 ACTAA-TAATATATAATTTATAAATTTA-AAAT-TAA-TAATTAATAAT
13918 ACTAATAATACTATAATTAATATAAATTTAAAATTAAT-ATTAATTATTTATT
1 ACTAATAATA-TATAATT--TATAAATTTAAAATTAATAATTAA-TA---A-T
* * *
13970 ATTAATTAAT-TAT-AGTTATAAATTTAAAATTAAT-ATTAATTAGT
1 ACTAA-TAATATATAATTTATAAATTTAAAATTAATAATTAA-TAAT
* * *
14014 ATTATTAAT-TAT-AGTTATAAATTTAAAATTAAT-ATTAATTAGTATT
1 ACTAATAATATATAATTTATAAATTTAAAATTAATAATTAA-TA--A-T
* *
14060 ATTAATGAAT-TAT-AGTTATAAATTTAAAATTAAT
1 ACTAAT-AATATATAATTTATAAATTTAAAATTAAT
14094 TAGTTAAATT
Statistics
Matches: 231, Mismatches: 13, Indels: 44
0.80 0.05 0.15
Matches are distributed among these distances:
39 3 0.01
40 15 0.06
41 6 0.03
42 1 0.00
43 37 0.16
44 13 0.06
46 17 0.07
47 73 0.32
48 36 0.16
49 3 0.01
50 6 0.03
51 12 0.05
52 5 0.02
53 4 0.02
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (45 bp):
ACTAATAATATATAATTTATAAATTTAAAATTAATAATTAATAAT
Found at i:13978 original size:24 final size:24
Alignment explanation
Indices: 13858--14065 Score: 77
Period size: 24 Copynumber: 8.8 Consensus size: 24
13848 TATAACTATA
* *
13858 ATTAATTA-ATAATACTAATTAAT
1 ATTAATTATATATTATTAATTAAT
* *
13881 ATTAATTTTAAATT-TATAATT-AT
1 ATTAATTATATATTAT-TAATTAAT
* *
13904 AATTAATTA-ATAATACTAA-TAAT
1 -ATTAATTATATATTATTAATTAAT
*
13927 ACTATAATTAATATAAATT-TAAAATTAAT
1 A-T-TAATT-ATAT--ATTAT-TAATTAAT
*
13956 ATTAATTATTTATTATTAATTAAT
1 ATTAATTATATATTATTAATTAAT
* * *
13980 -TATAGTTATAAATT-TAAAATTAAT
1 AT-TAATTATATATTAT-TAATTAAT
*
14004 ATTAATTA-GTATTATTAATT-AT
1 ATTAATTATATATTATTAATTAAT
* *
14026 AGTT-A-TAAAT-TTA-AAATTAAT
1 A-TTAATTATATATTATTAATTAAT
*
14047 ATTAATTA-GTATTATTAAT
1 ATTAATTATATATTATTAAT
14066 GAATTATAGT
Statistics
Matches: 135, Mismatches: 25, Indels: 50
0.64 0.12 0.24
Matches are distributed among these distances:
20 6 0.04
21 10 0.07
22 12 0.09
23 32 0.24
24 52 0.39
25 3 0.02
26 5 0.04
27 5 0.04
28 5 0.04
29 5 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTAATTATATATTATTAATTAAT
Found at i:14028 original size:43 final size:43
Alignment explanation
Indices: 13938--14093 Score: 222
Period size: 43 Copynumber: 3.4 Consensus size: 43
13928 CTATAATTAA
*
13938 TATAAATTTAAAATTAATATTAATTATTTATTATTAATTAATTATAGT
1 TATAAATTTAAAATTAATATT-A--A-TTAGTATT-ATTAATTATAGT
13986 TATAAATTTAAAATTAATATTAATTAGTATTATTAATTATAGT
1 TATAAATTTAAAATTAATATTAATTAGTATTATTAATTATAGT
14029 TATAAATTTAAAATTAATATTAATTAGTATTATTAATGAATTATAGT
1 TATAAATTTAAAATTAATATTAATTAGTATTA-T--T-AATTATAGT
14076 TATAAATTTAAAATTAAT
1 TATAAATTTAAAATTAAT
14094 TAGTTAAATT
Statistics
Matches: 103, Mismatches: 1, Indels: 9
0.91 0.01 0.08
Matches are distributed among these distances:
43 44 0.43
44 8 0.08
45 1 0.01
46 1 0.01
47 28 0.27
48 21 0.20
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (43 bp):
TATAAATTTAAAATTAATATTAATTAGTATTATTAATTATAGT
Found at i:14563 original size:30 final size:30
Alignment explanation
Indices: 14527--14586 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
14517 AGCACACATA
*
14527 TACATGCCACTTCAACATTTAGTCTACGTG
1 TACATGCCACGTCAACATTTAGTCTACGTG
14557 TACATGCCACGTCAACATTTAGTCTACGTG
1 TACATGCCACGTCAACATTTAGTCTACGTG
14587 GATCTGACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (30 bp):
TACATGCCACGTCAACATTTAGTCTACGTG
Found at i:14598 original size:30 final size:30
Alignment explanation
Indices: 14528--14600 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
14518 GCACACATAT
* * *
14528 ACATGCCACTTCAACATTTAGTCTACGTGT
1 ACATGACACGTCAACATTTAGTCTACGTGG
*
14558 ACATGCCACGTCAACATTTAGTCTACGTGG
1 ACATGACACGTCAACATTTAGTCTACGTGG
14588 ATC-TGACACGTCA
1 A-CATGACACGTCA
14601 TCCTTTACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
ACATGACACGTCAACATTTAGTCTACGTGG
Found at i:17179 original size:14 final size:14
Alignment explanation
Indices: 17160--17212 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
17150 CAACTACAAT
17160 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
17174 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
17192 AATAAATTATTTAA
1 AATAAATTATTTAA
17206 AATAAAT
1 AATAAAT
17213 CAATACATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:17200 original size:32 final size:32
Alignment explanation
Indices: 17159--17337 Score: 195
Period size: 32 Copynumber: 6.0 Consensus size: 32
17149 ACAACTACAA
*
17159 TAATAAATTATTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC
*
17191 TAATAAATTATTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC
*
17223 -AACTACA--A--T--AATAAATCAATCCATA-
1 TAA-TAAATTATTTAAAATAAATCAATCCATAC
** *
17248 TTTTAAA--A--T-AAATCAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC
*
17275 AAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC
17307 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
17338 TTTTAAAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 18
0.81 0.08 0.12
Matches are distributed among these distances:
25 5 0.04
26 30 0.24
27 4 0.03
28 1 0.01
29 1 0.01
30 1 0.01
31 3 0.02
32 81 0.64
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (32 bp):
TAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:17282 original size:26 final size:26
Alignment explanation
Indices: 17205--17314 Score: 71
Period size: 26 Copynumber: 4.0 Consensus size: 26
17195 AAATTATTTA
* *
17205 AAATAAATCAATACATACAACTACAAT
1 AAATAAATCAATCCATACAAATA-AAT
***
17232 -AATAAATCAATCCATA-TTTTAAAAT
1 AAATAAATCAATCCATACAAAT-AAAT
*
17257 AAATCAATCAATCCATACAAATAAATTATTT
1 AAATAAATCAATCCATACAAAT-AA--A--T
*
17288 AAAATAAATCAATCCATACTAATAAAT
1 -AAATAAATCAATCCATACAAATAAAT
17315 TATTTAAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
25 4 0.06
26 31 0.48
27 5 0.08
29 2 0.03
31 3 0.05
32 20 0.31
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATAAATCAATCCATACAAATAAAT
Found at i:17368 original size:22 final size:22
Alignment explanation
Indices: 17319--17367 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17309 ATAAATTATT
**
17319 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
17341 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
17364 TAAA
1 TAAA
17368 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:17377 original size:32 final size:32
Alignment explanation
Indices: 17339--17485 Score: 260
Period size: 32 Copynumber: 4.6 Consensus size: 32
17329 CAATCCATAT
*
17339 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
17371 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
17403 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
17435 TTTAAAATAAATCAATTCATACTAAT-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
17466 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
17486 TTTAAAATAA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
31 24 0.22
32 86 0.78
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:17387 original size:86 final size:85
Alignment explanation
Indices: 17169--17485 Score: 389
Period size: 86 Copynumber: 3.6 Consensus size: 85
17159 TAATAAATTA
* *
17169 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATACATACAACTACA--A-
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAA-TAAATTAT
17231 -T--AATAAATCAATCCATAT
65 TTAAAATAAATCAATCCATAT
*
17249 TTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAA
1 TTTAAAATAAATCAAT---T-CATACTAATAAATTATTTAAAATAAATCAATCCATAC-AATAAA
17314 TTATTTAAAATAAATCAATCCATAT
61 TTATTTAAAATAAATCAATCCATAT
17339 TTTAAAATAAATCAA-TCTATACTAATAAATTATTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATAC-AATAAATTA
17403 TTTAAAATAAATCAATCCATACTAATAAATT
64 TTTAAAATAAATCAAT-C---C--AT--A-T
17434 ATTTAAAATAAATCAATTCATACTAAT-AATTATTTAAAATAAATCAATCCAT
1 -TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCAT
17486 TTTAAAATAA
Statistics
Matches: 209, Mismatches: 5, Indels: 31
0.85 0.02 0.13
Matches are distributed among these distances:
80 16 0.08
83 1 0.00
84 38 0.18
85 3 0.01
86 62 0.30
87 1 0.00
88 1 0.00
90 33 0.16
92 2 0.01
94 1 0.00
95 26 0.12
96 23 0.11
97 2 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (85 bp):
TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAATAAATTATT
TAAAATAAATCAATCCATAT
Found at i:17537 original size:15 final size:15
Alignment explanation
Indices: 17508--17662 Score: 141
Period size: 15 Copynumber: 9.5 Consensus size: 15
17498 AAACTATACT
17508 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
17522 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
17537 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
17559 AATAATTTATTTTAAA
1 AATAAATTATTTT-AA
*
17575 GTAATAAATAAATTATTTTAT
1 --AAT----AAATTATTTTAA
17596 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
17611 AATAAATTATTTTAT
1 AATAAATTATTTTAA
17626 AATAAATTATTTTAA
1 AATAAATTATTTTAA
17641 AATAAATTATTTTAA
1 AATAAATTATTTTAA
17656 AATAAAT
1 AATAAAT
17663 AACCTTATTA
Statistics
Matches: 118, Mismatches: 8, Indels: 29
0.76 0.05 0.19
Matches are distributed among these distances:
14 9 0.08
15 75 0.64
16 1 0.01
17 1 0.01
18 5 0.04
19 6 0.05
20 1 0.01
21 1 0.01
22 19 0.16
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:17616 original size:30 final size:30
Alignment explanation
Indices: 17580--17662 Score: 157
Period size: 30 Copynumber: 2.8 Consensus size: 30
17570 TTAAAGTAAT
17580 AAATAAATTATTTTATAATAAATTATTTTA
1 AAATAAATTATTTTATAATAAATTATTTTA
17610 AAATAAATTATTTTATAATAAATTATTTTA
1 AAATAAATTATTTTATAATAAATTATTTTA
*
17640 AAATAAATTATTTTAAAATAAAT
1 AAATAAATTATTTTATAATAAAT
17663 AACCTTATTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AAATAAATTATTTTATAATAAATTATTTTA
Found at i:28966 original size:23 final size:21
Alignment explanation
Indices: 28914--28975 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
28904 TTTTGGTGCA
*
28914 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
28934 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
28955 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
28976 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:28983 original size:21 final size:21
Alignment explanation
Indices: 28957--28996 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
28947 CCCCCTTTGA
*
28957 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
28978 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
28997 TGGGGTTCTG
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:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:33069 original size:15 final size:15
Alignment explanation
Indices: 33049--33080 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33039 AAAATCTTTC
*
33049 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
33064 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
33079 TT
1 TT
33081 CGATCTGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:34317 original size:37 final size:36
Alignment explanation
Indices: 34275--34377 Score: 181
Period size: 35 Copynumber: 2.9 Consensus size: 36
34265 ATATTTCAAC
*
34275 AAACATCTACCAAACTTTGAAAAACCATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCATTTTTCAAAG
34312 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
34347 AAACATTTACCAAACTTTGAAAACCATTTTT
1 AAACATTTACCAAACTTTGAAAACCATTTTT
34378 TTCAAAGTTG
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 35 0.55
36 11 0.17
37 18 0.28
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:34339 original size:21 final size:21
Alignment explanation
Indices: 34315--34375 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
34305 TTCAAAGAAA
34315 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
34336 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
34350 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
34371 CATTT
1 CATTT
34376 TTTTCAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:46291 original size:25 final size:25
Alignment explanation
Indices: 46263--46312 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
46253 TTACTGGCTT
46263 GTGTAGCTGCTACATATTCTGCCTC
1 GTGTAGCTGCTACATATTCTGCCTC
*
46288 GTGTAGCTGTTACATATTCTGCCTC
1 GTGTAGCTGCTACATATTCTGCCTC
46313 TGTTGTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (25 bp):
GTGTAGCTGCTACATATTCTGCCTC
Found at i:56479 original size:20 final size:21
Alignment explanation
Indices: 56438--56480 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
56428 AATTAGTCCC
*
56438 TCAACTCTAAAATATCTTATA
1 TCAACTCTAAAATATCTAATA
56459 TCAA-TCTAAAACTAT-TAATA
1 TCAACTCTAAAA-TATCTAATA
56479 TC
1 TC
56481 GTATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (21 bp):
TCAACTCTAAAATATCTAATA
Found at i:61744 original size:25 final size:25
Alignment explanation
Indices: 61684--61746 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
61674 AGGGTTATAG
* * *
61684 GGTTTATATGAGTTGAGGGGTTTAA
1 GGTTTAGACGAGTTGAGAGGTTTAA
**
61709 TCTTT-GTACGAGTTGAGAGGTTTAA
1 GGTTTAG-ACGAGTTGAGAGGTTTAA
61734 GGTTTAGACGAGT
1 GGTTTAGACGAGT
61747 GGTTTGTGAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.05, G:0.33, T:0.38
Consensus pattern (25 bp):
GGTTTAGACGAGTTGAGAGGTTTAA
Found at i:65746 original size:18 final size:17
Alignment explanation
Indices: 65723--65771 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
65713 ATATATGTGG
*
65723 TGGATATTACATGTTTGT
1 TGGATATTA-ATGTTGGT
*
65741 TGGATATTATGTGTTGGT
1 TGGATATTA-ATGTTGGT
65759 TGGATATTAATGT
1 TGGATATTAATGT
65772 ATTGATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.49
Consensus pattern (17 bp):
TGGATATTAATGTTGGT
Found at i:68732 original size:45 final size:45
Alignment explanation
Indices: 68667--68972 Score: 370
Period size: 45 Copynumber: 6.8 Consensus size: 45
68657 GTAACCTCCA
* * * *
68667 TTTCTGTTTAATAATACA-CCATTATGCACTTT-AACTATGGCATACT
1 TTTCTG-TTGATAATGCACCCA-TATGCA-TTTCAACTATAGTATACT
*
68713 TTTCTGTTGATAATGCA-CCATATGCATTTCAACTATAGTATGCT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
* * * * * * *
68757 TTTATGTTAATAATGTACACATATACATTTCAGCTATAATATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
* *
68802 TTTCT-TTGATAATGCACCCATATACATTTCAACTATAGTATATT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
*
68846 TTTCTATTGATAATGCACCCATATGCATTTCAACTATAGTATACT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
*
68891 TTT-TCGTTGATAATGCACCCATATGCATTTCAACTATAGTATATT
1 TTTCT-GTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
* * *
68936 TTTCTGTTGATAATGTACCCCTATACATTTCAACTAT
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTAT
68973 GAGATCATTT
Statistics
Matches: 228, Mismatches: 27, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
43 3 0.01
44 70 0.31
45 148 0.65
46 7 0.03
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (45 bp):
TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACT
Found at i:68801 original size:89 final size:90
Alignment explanation
Indices: 68708--68972 Score: 392
Period size: 89 Copynumber: 3.0 Consensus size: 90
68698 TAACTATGGC
** * *
68708 ATACTTTTCTGTTGATAATGCA-CCATATGCATTTCAACTATAGTATGCTTTTATGTTAATAATG
1 ATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCTGTTGATAATG
* *
68772 TACACATATACATTTCAGCTATAAT
66 TACCCATATACATTTCAACTATAAT
* *
68797 ATACTTTTCT-TTGATAATGCACCCATATACATTTCAACTATAGTATATTTTTCTATTGATAATG
1 ATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCTGTTGATAATG
* * *
68861 CACCCATATGCATTTCAACTATAGT
66 TACCCATATACATTTCAACTATAAT
68886 ATACTTTT-TCGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCTGTTGATAAT
1 ATACTTTTCT-GTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCTGTTGATAAT
*
68950 GTACCCCTATACATTTCAACTAT
65 GTACCCATATACATTTCAACTAT
68973 GAGATCATTT
Statistics
Matches: 157, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
88 12 0.08
89 74 0.47
90 71 0.45
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (90 bp):
ATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCTGTTGATAATG
TACCCATATACATTTCAACTATAAT
Found at i:68920 original size:134 final size:134
Alignment explanation
Indices: 68712--68972 Score: 391
Period size: 134 Copynumber: 1.9 Consensus size: 134
68702 TATGGCATAC
* * *
68712 TTTTCTGTTGATAATGCACCATATGCATTTCAACTATAGTATGCTTTTATGTTAATAATGTACAC
1 TTTTCTATTGATAATGCACCATATGCATTTCAACTATAGTATACTTTTATGTTAATAATGCACAC
*
68777 ATATACATTTCAGCTATAATATACTTTTCT-TTGATAATGCACCCATATACATTTCAACTATAGT
66 ATATACATTTCAACTATAATATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGT
68841 ATAT
131 ATAT
*
68845 TTTTCTATTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTT-TCGTTGATAATGCAC
1 TTTTCTATTGATAATGCA-CCATATGCATTTCAACTATAGTATACTTTTAT-GTTAATAATGCAC
* * * * * *
68909 CCATATGCATTTCAACTATAGTATATTTTTCTGTTGATAATGTACCCCTATACATTTCAACTAT
64 ACATATACATTTCAACTATAATATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTAT
68973 GAGATCATTT
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
133 18 0.16
134 67 0.59
135 29 0.25
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (134 bp):
TTTTCTATTGATAATGCACCATATGCATTTCAACTATAGTATACTTTTATGTTAATAATGCACAC
ATATACATTTCAACTATAATATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGT
ATAT
Found at i:68983 original size:17 final size:17
Alignment explanation
Indices: 68961--69001 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
68951 TACCCCTATA
68961 CATTTCAACTATGAGAT
1 CATTTCAACTATGAGAT
68978 CATTTCAACTATGAGAT
1 CATTTCAACTATGAGAT
*
68995 CCTTTCA
1 CATTTCA
69002 TGCCGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (17 bp):
CATTTCAACTATGAGAT
Found at i:69470 original size:20 final size:20
Alignment explanation
Indices: 69434--69475 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
69424 CTGGTTCCAA
*
69434 AGTATCGATATTACTACCCT
1 AGTATCGATATTACTACACT
69454 AGTATCGATACTT-CTACACT
1 AGTATCGATA-TTACTACACT
69474 AG
1 AG
69476 GGTACTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTATCGATATTACTACACT
Found at i:72212 original size:45 final size:45
Alignment explanation
Indices: 72182--72402 Score: 300
Period size: 45 Copynumber: 4.9 Consensus size: 45
72172 TAACTATGAC
72182 ATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTATAGT
1 ATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTATAGT
* * *
72227 ATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGT
1 ATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTATAGT
* * * *
72272 ATACTTTTCTGTTGATAATGCACTCATATGGATTTCAGCTATAGT
1 ATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTATAGT
* ** *
72317 ATACATTT-TGTTTATAATGCAGTCATATGCATTTCAACTATAAT
1 ATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTATAGT
* * * *
72361 ATACTTTTCTGTTAATAATGTACACATATACATTTCAACTAT
1 ATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTAT
72403 GGCATCCTTT
Statistics
Matches: 155, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 38 0.25
45 117 0.75
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.43
Consensus pattern (45 bp):
ATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTATAGT
Found at i:72396 original size:89 final size:90
Alignment explanation
Indices: 72163--72402 Score: 304
Period size: 89 Copynumber: 2.7 Consensus size: 90
72153 AATACACCAT
* * * *
72163 TATGCACTTT-AACTATGACATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTATAGT
1 TATGCA-TTTCAACTATAATATACTTTTCTGTTAATAATGCACACATATGCATTTCAACTATAGT
* *
72227 ATACTTTTCTGTTGATAATGTACCCA
65 ATACATTTCTGTTGATAATGCACCCA
* * * * * *
72253 TATACATTTCAACTATAGTATACTTTTCTGTTGATAATGCACTCATATGGATTTCAGCTATAGTA
1 TATGCATTTCAACTATAATATACTTTTCTGTTAATAATGCACACATATGCATTTCAACTATAGTA
* **
72318 TACATTT-TGTTTATAATGCAGTCA
66 TACATTTCTGTTGATAATGCACCCA
* *
72342 TATGCATTTCAACTATAATATACTTTTCTGTTAATAATGTACACATATACATTTCAACTAT
1 TATGCATTTCAACTATAATATACTTTTCTGTTAATAATGCACACATATGCATTTCAACTAT
72403 GGCATCCTTT
Statistics
Matches: 128, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
89 69 0.54
90 59 0.46
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (90 bp):
TATGCATTTCAACTATAATATACTTTTCTGTTAATAATGCACACATATGCATTTCAACTATAGTA
TACATTTCTGTTGATAATGCACCCA
Found at i:72434 original size:134 final size:135
Alignment explanation
Indices: 72182--72435 Score: 359
Period size: 134 Copynumber: 1.9 Consensus size: 135
72172 TAACTATGAC
* * *
72182 ATACTTTTCTGTTTATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTGTTGATAATG
1 ATACATTTCTGTTTATAATGCACCCATATGCATTTCAACTATAATATACTTTTCTGTTAATAATG
* * * *** * *
72247 TACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATAATGCACTCATATGGATTTCAGCT
66 TACACATATACATTTCAACTATAGCATACCTTTCTGCCAATAATGAACCCATATGGATTTCAGCT
72312 ATAGT
131 ATAGT
**
72317 ATACATTT-TGTTTATAATGCAGTCATATGCATTTCAACTATAATATACTTTTCTGTTAATAATG
1 ATACATTTCTGTTTATAATGCACCCATATGCATTTCAACTATAATATACTTTTCTGTTAATAATG
*
72381 TACACATATACATTTCAACTATGGCAT-CCTTTCATGCCAATAATGAACCCATATG
66 TACACATATACATTTCAACTATAGCATACCTTTC-TGCCAATAATGAACCCATATG
72436 CATTAGTATT
Statistics
Matches: 104, Mismatches: 14, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
133 5 0.05
134 92 0.88
135 7 0.07
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (135 bp):
ATACATTTCTGTTTATAATGCACCCATATGCATTTCAACTATAATATACTTTTCTGTTAATAATG
TACACATATACATTTCAACTATAGCATACCTTTCTGCCAATAATGAACCCATATGGATTTCAGCT
ATAGT
Found at i:77039 original size:85 final size:83
Alignment explanation
Indices: 76747--77038 Score: 280
Period size: 85 Copynumber: 3.4 Consensus size: 83
76737 TTAAGAACAA
* * * *
76747 AAACACCACAAAAAGTCAAGATCTATCACGACGTTTTTGGAACAAA-ACCCACAAAAGGTCAAGA
1 AAACGCCACAAAAAGTC-AGATCTATAACGGCGTTTTTGGAACAAACA-CCACAAAA-GTC-ATA
* * ** *
76811 TATATAACGGCGTTTTCAGAAT
62 TCTATAGCGGCGTTTTTGGAAC
* * * * * * * **
76833 AAACGTCACAAAAGGTCAGATCGATAGCGTCATTTTTGGAACAAACGCTGCAAAATGTCATATCT
1 AAACGCCACAAAAAGTCAGATCTATAACGGCGTTTTTGGAACAAACACCACAAAA-GTCATATCT
76898 ATAGCGGCGTTTTTGGATAC
65 ATAGCGGCGTTTTTGGA-AC
* * * * *
76918 AAACGCCGCAAAAAGCCAGATCTATAGCTGTGTTTTTGGAACAAACACCACAAAAGATCATATCT
1 AAACGCCACAAAAAGTCAGATCTATAACGGCGTTTTTGGAACAAACACCACAAAAG-TCATATCT
*
76983 ATAGCGACGTTTTTGGAAC
65 ATAGCGGCGTTTTTGGAAC
* *
77002 AAACGCCACAAAAGGTCATATCTATAACGGCGTTTTT
1 AAACGCCACAAAAAGTCAGATCTATAACGGCGTTTTT
77039 TATACAAACG
Statistics
Matches: 165, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
84 51 0.31
85 100 0.61
86 14 0.08
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (83 bp):
AAACGCCACAAAAAGTCAGATCTATAACGGCGTTTTTGGAACAAACACCACAAAAGTCATATCTA
TAGCGGCGTTTTTGGAAC
Found at i:77049 original size:42 final size:42
Alignment explanation
Indices: 76747--77038 Score: 282
Period size: 42 Copynumber: 6.9 Consensus size: 42
76737 TTAAGAACAA
* * *
76747 AAACACCACAAAAAGTCAAGATCTATCA-CGACGTTTTTGGAAC
1 AAACGCCACAAAAGGTC-AGATCTAT-AGCGGCGTTTTTGGAAC
* * ** *
76790 AAAAC-CCACAAAAGGTCAAGATATATAACGGCGTTTTCAGAAT
1 -AAACGCCACAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* * * *
76833 AAACGTCACAAAAGGTCAGATCGATAGCGTCATTTTTGGAAC
1 AAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
** * *
76875 AAACGCTGCAAAATGTCATATCTATAGCGGCGTTTTTGGATAC
1 AAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
* * * * *
76918 AAACGCCGCAAAAAGCCAGATCTATAGCTGTGTTTTTGGAAC
1 AAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
* * * *
76960 AAACACCACAAAAGATCATATCTATAGCGACGTTTTTGGAAC
1 AAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
* *
77002 AAACGCCACAAAAGGTCATATCTATAACGGCGTTTTT
1 AAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTT
77039 TATACAAACG
Statistics
Matches: 203, Mismatches: 42, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
42 122 0.60
43 77 0.38
44 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (42 bp):
AAACGCCACAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
Found at i:77161 original size:21 final size:21
Alignment explanation
Indices: 77135--77196 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
77125 ATTATTCAAT
* * *
77135 AAACTTGACATCCATAACATC
1 AAACTTGAAATTCATAACAAC
*
77156 AAACTTGAAATTCATAACAAG
1 AAACTTGAAATTCATAACAAC
77177 AAACTTGAAATTCATAACAA
1 AAACTTGAAATTCATAACAA
77197 TAAATCAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.24
Consensus pattern (21 bp):
AAACTTGAAATTCATAACAAC
Found at i:81616 original size:81 final size:81
Alignment explanation
Indices: 81437--81667 Score: 230
Period size: 82 Copynumber: 2.8 Consensus size: 81
81427 GGTGTTTGTG
* * * * *
81437 TAAAAACGCCGCTAAAGTTCTAATATATT-CGGCGTTTATTAAAAAAACGCCACTATAGGTTAAC
1 TAAAAACGCCGCTAAAGTACTAATCTATTGCGGCGTTTATT-AAAAAACGCCACTAAAGATGAA-
*
81501 CCTATTACGACGTTTATA
64 CCTACTACGACGTTTATA
* * * * * *
81519 TAAAAACGCTGTTAAAGTACCAATCTATTGCGGCGTTTATTTAAAAACGCCACTACAGATGGACC
1 TAAAAACGCCGCTAAAGTACTAATCTATTGCGGCGTTTATTAAAAAACGCCACTAAAGATGAACC
** * *
81584 TACTGTGGCGTTTCTA
66 TACTACGACGTTTATA
* * * * * *
81600 TAAAAACGCCACTAAAGTACTACTCTATTGCGGCATTTGTCGAAAAAACGCCACTAAAGATGCAC
1 TAAAAACGCCGCTAAAGTACTAATCTATTGCGGCGTTTAT-TAAAAAACGCCACTAAAGATGAAC
81665 CTA
65 CTA
81668 TTGCGGCATT
Statistics
Matches: 121, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
81 46 0.38
82 64 0.53
83 11 0.09
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (81 bp):
TAAAAACGCCGCTAAAGTACTAATCTATTGCGGCGTTTATTAAAAAACGCCACTAAAGATGAACC
TACTACGACGTTTATA
Found at i:81669 original size:41 final size:41
Alignment explanation
Indices: 81561--81697 Score: 136
Period size: 41 Copynumber: 3.3 Consensus size: 41
81551 GCGTTTATTT
* * * * * *
81561 AAAAACGCCACTACAGATGGACCTACTGTGGC-GTT-TCTA
1 AAAAACGCCACTAAAGATGCACCTATTGCGGCATTTGTCGA
*
81600 TAAAAACGCCACTAAAG-TACTACTCTATTGCGGCATTTGTCGA
1 -AAAAACGCCACTAAAGATGC-AC-CTATTGCGGCATTTGTCGA
*
81643 AAAAACGCCACTAAAGATGCACCTATTGCGGCATTTGTTGA
1 AAAAACGCCACTAAAGATGCACCTATTGCGGCATTTGTCGA
* *
81684 AGAAACGCCGCTAA
1 AAAAACGCCACTAA
81698 CATTACCATT
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 17 0.21
41 38 0.47
42 20 0.25
43 5 0.06
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (41 bp):
AAAAACGCCACTAAAGATGCACCTATTGCGGCATTTGTCGA
Found at i:82710 original size:46 final size:46
Alignment explanation
Indices: 82641--82908 Score: 470
Period size: 46 Copynumber: 5.9 Consensus size: 46
82631 GATAAAATCT
82641 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
82686 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
82732 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
82778 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
82824 CTTACCATTTAACCCCATAAGCTCGTAAGCTTATTTTACCAATGTA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
82870 CTTGCCA-TT-ATTCCATAAGCTCGTAAGCTTATTTTACCA
1 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCA
82909 GTTTATCATT
Statistics
Matches: 215, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
44 28 0.13
45 12 0.06
46 175 0.81
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (46 bp):
CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:87486 original size:45 final size:45
Alignment explanation
Indices: 87427--87749 Score: 380
Period size: 45 Copynumber: 7.2 Consensus size: 45
87417 AATACACCAT
* *
87427 TATGCACTTT-AACTATGGCATACTTTTATGTTGATAATGCACCCA
1 TATGCA-TTTCAACTATAGTATACTTTTATGTTGATAATGCACCCA
* ** *
87472 TATGCATTTCAACTATAGTATATTTTTCCGTTGATAATGTACCCA
1 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCA
* * * *
87517 TATACATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCA
1 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCA
* * *
87562 TATACATTTCAACTATAGTATACTTTTCTGTTGATAATGCACTCA
1 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCA
*
87607 TATAG-ATTTCAACTATAGTATACTTTTTTGTTGATAATGCACCCA
1 TAT-GCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCA
* * * *
87652 TAAGCATTTCAACTATAGTATACTTTTATGTTAATGATGTACCCA
1 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCA
* * * * *** *
87697 TATACATTTCAACTATGGCATCCTTTTATGCCAATAATGAACCCA
1 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCA
87742 TATGCATT
1 TATGCATT
87750 AGTATTTTCA
Statistics
Matches: 244, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
44 4 0.02
45 240 0.98
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (45 bp):
TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCACCCA
Found at i:87551 original size:90 final size:90
Alignment explanation
Indices: 87437--87749 Score: 419
Period size: 90 Copynumber: 3.5 Consensus size: 90
87427 TATGCACTTT
* * * *
87437 AACTATGGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCCG
1 AACTATAGTATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTG
87502 TTGATAATGTACCCATATACATTTC
66 TTGATAATGTACCCATATACATTTC
* * * *
87527 AACTATAGTATACTTTTCTATTGATAATGTACCCATATACATTTCAACTATAGTATACTTTTCTG
1 AACTATAGTATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTG
* * *
87592 TTGATAATGCACTCATATAGATTTC
66 TTGATAATGTACCCATATACATTTC
* * *
87617 AACTATAGTATACTTTTTTGTTGATAATGCACCCATAAGCATTTCAACTATAGTATACTTTTATG
1 AACTATAGTATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTG
* *
87682 TTAATGATGTACCCATATACATTTC
66 TTGATAATGTACCCATATACATTTC
* * * *** *
87707 AACTATGGCATCCTTTTATGCCAATAATGAACCCATATGCATT
1 AACTATAGTATACTTTTATGTTGATAATGCACCCATATGCATT
87750 AGTATTTTCA
Statistics
Matches: 192, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 192 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (90 bp):
AACTATAGTATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTG
TTGATAATGTACCCATATACATTTC
Found at i:87640 original size:135 final size:135
Alignment explanation
Indices: 87437--87749 Score: 434
Period size: 135 Copynumber: 2.3 Consensus size: 135
87427 TATGCACTTT
*
87437 AACTATGGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCCG
1 AACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCCG
* * *
87502 TTGATAATGTACCCATATA-CATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATA
66 TTGATAATGCACCCATA-AGCATTTCAACTATAGTATACTTTTATATTAATAATGTACCCATATA
87566 CATTTC
130 CATTTC
* * *
87572 AACTATAGTATACTTTTCTGTTGATAATGCACTCATATAG-ATTTCAACTATAGTATACTTTTT-
1 AACTATAGCATACTTTTATGTTGATAATGCACCCATAT-GCATTTCAACTATAGTATA-TTTTTC
* * *
87635 TGTTGATAATGCACCCATAAGCATTTCAACTATAGTATACTTTTATGTTAATGATGTACCCATAT
64 CGTTGATAATGCACCCATAAGCATTTCAACTATAGTATACTTTTATATTAATAATGTACCCATAT
87700 ACATTTC
129 ACATTTC
* * *** *
87707 AACTATGGCATCCTTTTATGCCAATAATGAACCCATATGCATT
1 AACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATT
87750 AGTATTTTCA
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
134 2 0.01
135 147 0.95
136 6 0.04
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (135 bp):
AACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAGTATATTTTTCCG
TTGATAATGCACCCATAAGCATTTCAACTATAGTATACTTTTATATTAATAATGTACCCATATAC
ATTTC
Found at i:88365 original size:20 final size:20
Alignment explanation
Indices: 88342--88387 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
88332 CCCTTACAAT
88342 GGTATCTATATTGCCTCAAC
1 GGTATCTATATTGCCTCAAC
*
88362 GGTATCTATATTTCCTCAAC
1 GGTATCTATATTGCCTCAAC
88382 GGTATC
1 GGTATC
88388 GATACTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (20 bp):
GGTATCTATATTGCCTCAAC
Found at i:89027 original size:173 final size:172
Alignment explanation
Indices: 88734--89082 Score: 666
Period size: 173 Copynumber: 2.0 Consensus size: 172
88724 AAATCTACCA
88734 TAAAACATCCTTAAACACTCCTAGATTAACATATCCTTTCAAAACCCATTTTATAAAATCCCTAT
1 TAAAACATCCTTAAACACTCCTAGATTAACATATCCTTTCAAAACCCATTTTATAAAATCCCTAT
88799 TATTTGCCTTATCTCTTCATTTTAATCTCATATAATCCTTTCTTATGCACATATATTACTCCATG
66 TATTTGCCTTATCTCTTCATTTTAATCTCATATAATCCTTTCTTATGCACATATATTACTCCATG
88864 TTACCAAATTAACCCCATAATTTAAAGAAAAC-CTAACTAATG
131 TTACCAAATTAA-CCCATAATTTAAAGAAAACACTAACTAATG
88906 TAAACACATCCTTAAACACTCCTAGATTAACATATCCTTTCAAAACCCATTTTATAAAATCCCTA
1 TAAA-ACATCCTTAAACACTCCTAGATTAACATATCCTTTCAAAACCCATTTTATAAAATCCCTA
88971 TTATTTGCCTTATCTCTTCATTTTAATCTCATATAATCCTTTCTTATGCACATATATTACTCCAT
65 TTATTTGCCTTATCTCTTCATTTTAATCTCATATAATCCTTTCTTATGCACATATATTACTCCAT
89036 GTTACCAAATTAACCCATAATTTAAAGAAAACACTAACTAATG
130 GTTACCAAATTAACCCATAATTTAAAGAAAACACTAACTAATG
89079 -AAAA
1 TAAAA
89083 TTTACCTTGT
Statistics
Matches: 175, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
171 1 0.01
172 26 0.15
173 148 0.85
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.36
Consensus pattern (172 bp):
TAAAACATCCTTAAACACTCCTAGATTAACATATCCTTTCAAAACCCATTTTATAAAATCCCTAT
TATTTGCCTTATCTCTTCATTTTAATCTCATATAATCCTTTCTTATGCACATATATTACTCCATG
TTACCAAATTAACCCATAATTTAAAGAAAACACTAACTAATG
Found at i:96055 original size:20 final size:20
Alignment explanation
Indices: 96032--96081 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
96022 AAGTAGGGGC
**
96032 ATCGATACTCCTGAGTCAGT
1 ATCGATACTAATGAGTCAGT
*
96052 ATCGATACTAATGTGTCAGT
1 ATCGATACTAATGAGTCAGT
96072 ATCGATACTA
1 ATCGATACTA
96082 CCTCTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (20 bp):
ATCGATACTAATGAGTCAGT
Found at i:107713 original size:16 final size:16
Alignment explanation
Indices: 107694--107744 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
107684 AAAATAAAAA
107694 AATTTAAAGTTAGAGT
1 AATTTAAAGTTAGAGT
* *
107710 AA-TTAAACTAAGAGT
1 AATTTAAAGTTAGAGT
107725 AATTTGAAAGTTA-AGT
1 AATTT-AAAGTTAGAGT
107741 AATT
1 AATT
107745 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 13 0.45
16 11 0.38
17 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (16 bp):
AATTTAAAGTTAGAGT
Found at i:109093 original size:74 final size:74
Alignment explanation
Indices: 108984--109142 Score: 311
Period size: 74 Copynumber: 2.2 Consensus size: 74
108974 TACTAATTAA
108984 TTTG-TTGGTTGTCTTAATTGAGAAAATTTAAATTTAAATTGAAATTTAAAACGTTCGATTCAAA
1 TTTGATTGGTTGTCTTAATTGAGAAAATTTAAATTTAAATTGAAATTTAAAACGTTCGATTCAAA
109048 TTACTTACC
66 TTACTTACC
109057 TTTGATTGGTTGTCTTAATTGAGAAAATTTAAATTTAAATTGAAATTTAAAACGTTCGATTCAAA
1 TTTGATTGGTTGTCTTAATTGAGAAAATTTAAATTTAAATTGAAATTTAAAACGTTCGATTCAAA
109122 TTACTTACC
66 TTACTTACC
109131 TTTGATTGGTTG
1 TTTGATTGGTTG
109143 AAAAATATCC
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 4 0.05
74 81 0.95
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (74 bp):
TTTGATTGGTTGTCTTAATTGAGAAAATTTAAATTTAAATTGAAATTTAAAACGTTCGATTCAAA
TTACTTACC
Found at i:109212 original size:3 final size:3
Alignment explanation
Indices: 109195--109239 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
109185 GAAAAAGAAA
*
109195 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AA- AAT AA- AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
109238 AA
1 AA
109240 CAAAGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
2 6 0.17
3 27 0.75
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:109223 original size:20 final size:19
Alignment explanation
Indices: 109195--109276 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 19
109185 GAAAAAGAAA
* *
109195 AATATTAATATAATAATAAT
1 AATAATAATAAAATAA-AAT
109215 AATAATAATAAAATAAAAT
1 AATAATAATAAAATAAAAT
* *
109234 AGATAACAAAGAAAATAAAA-
1 A-ATAA-TAATAAAATAAAAT
* * *
109254 ATTAGTAA-AAAATAAAAA
1 AATAATAATAAAATAAAAT
109272 AATAA
1 AATAA
109277 AAAATTCTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
17 9 0.18
18 5 0.10
19 6 0.12
20 19 0.38
21 11 0.22
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (19 bp):
AATAATAATAAAATAAAAT
Found at i:109270 original size:22 final size:21
Alignment explanation
Indices: 109173--109270 Score: 60
Period size: 22 Copynumber: 4.5 Consensus size: 21
109163 ATTGTAAAAT
109173 AAAAATAAATATGAAAA-AGA-A
1 AAAAATAAA-AT-AAAATAGATA
* *
109194 AAATATTAATATAATAATA-ATA
1 AAA-AATAAAATAA-AATAGATA
109216 ATAATAATAAAATAAAATAGATA
1 A-AA-AATAAAATAAAATAGATA
* *
109239 ACAAAGAAAATAAAAATTAG-TA
1 AAAAATAAAAT-AAAA-TAGATA
109261 AAAAATAAAA
1 AAAAATAAAA
109271 AAATAAAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
20 2 0.03
21 15 0.25
22 26 0.43
23 18 0.30
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAAATAAAATAAAATAGATA
Found at i:116243 original size:9 final size:9
Alignment explanation
Indices: 116229--116267 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
116219 AAGAGGCCTA
*
116229 AAAAATATT
1 AAAAATAAT
116238 AAAAATAAT
1 AAAAATAAT
*
116247 AATAATAAT
1 AAAAATAAT
*
116256 AATAATAAT
1 AAAAATAAT
116265 AAA
1 AAA
116268 TAAATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATAAT
Found at i:116249 original size:3 final size:3
Alignment explanation
Indices: 116241--116266 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
116231 AAATATTAAA
116241 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
116267 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:117233 original size:15 final size:15
Alignment explanation
Indices: 117213--117241 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
117203 ATTAGGGTTT
117213 TTGCTCTCTCGATTA
1 TTGCTCTCTCGATTA
117228 TTGCTCTCTCGATT
1 TTGCTCTCTCGATT
117242 GTATGGAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.28, G:0.14, T:0.48
Consensus pattern (15 bp):
TTGCTCTCTCGATTA
Found at i:121192 original size:173 final size:173
Alignment explanation
Indices: 120903--121219 Score: 598
Period size: 173 Copynumber: 1.8 Consensus size: 173
120893 GGCGCTTGGT
120903 TTCAAATAGAGATGTCGATCTATGGCAGCCCAAGTCATCTTCCAACAGTCTAAGGCCTTTGGAGA
1 TTCAAATAGAGATGTCGATCTATGGCAGCCCAAGTCATCTTCCAACAGTCTAAGGCCTTTGGAGA
* *
120968 GTCCGAGTACAGAGTTGTTATCTTTCAGAACAGTGGAAGAGGGGTTTTTGTCAAAGTCTCCTGTA
66 GTCCGAGTACAGAGTTGTTATCTTTCAAAACAGTGAAAGAGGGGTTTTTGTCAAAGTCTCCTGTA
*
121033 ATGGATATTTCTGTTCATTCTAGTGAAAATATATTTCTGTTCA
131 ATAGATATTTCTGTTCATTCTAGTGAAAATATATTTCTGTTCA
121076 TTCAAATAGAGATGTCGATCTATGGCAGCCCAAGTCATCTTCCAACAGTCTAAGGCCTTTGGAGA
1 TTCAAATAGAGATGTCGATCTATGGCAGCCCAAGTCATCTTCCAACAGTCTAAGGCCTTTGGAGA
*
121141 GTCCGAGTACAGAGTTGTTATCTTTCAAAACAGTGAAAGAGGGTTTTTTGTCAAAGTCTCCTGTA
66 GTCCGAGTACAGAGTTGTTATCTTTCAAAACAGTGAAAGAGGGGTTTTTGTCAAAGTCTCCTGTA
121206 ATAGATATTTCTGT
131 ATAGATATTTCTGT
121220 AGGGATATTT
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 140 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (173 bp):
TTCAAATAGAGATGTCGATCTATGGCAGCCCAAGTCATCTTCCAACAGTCTAAGGCCTTTGGAGA
GTCCGAGTACAGAGTTGTTATCTTTCAAAACAGTGAAAGAGGGGTTTTTGTCAAAGTCTCCTGTA
ATAGATATTTCTGTTCATTCTAGTGAAAATATATTTCTGTTCA
Found at i:127676 original size:22 final size:23
Alignment explanation
Indices: 127651--127696 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
127641 TATACCTCGT
*
127651 TTTAAATTCT-AAATTTTAAAAA
1 TTTAAATTATAAAATTTTAAAAA
127673 TTTAAATTATAAAATTTTAAAAA
1 TTTAAATTATAAAATTTTAAAAA
127696 T
1 T
127697 AATATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTAAATTATAAAATTTTAAAAA
Found at i:127680 original size:15 final size:15
Alignment explanation
Indices: 127654--127693 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
127644 ACCTCGTTTT
*
127654 AAATTCTAAATTTTAA
1 AAATT-TAAATTATAA
127670 AAATTTAAATTATAA
1 AAATTTAAATTATAA
*
127685 AATTTTAAA
1 AAATTTAAA
127694 AATAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATTTAAATTATAA
Found at i:131535 original size:18 final size:18
Alignment explanation
Indices: 131507--131578 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
131497 TCGAGGGATT
*
131507 ATAAGTGGTCCTTCGGGAC
1 ATAA-TGGTCATTCGGGAC
* * **
131526 ATAATGGTCCTCCAAGAC
1 ATAATGGTCATTCGGGAC
*
131544 ATAGTGGTCATTCGGGA-
1 ATAATGGTCATTCGGGAC
*
131561 A-AGTGGTCATTCGGGAC
1 ATAATGGTCATTCGGGAC
131578 A
1 A
131579 GATTTTCAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
16 15 0.34
17 2 0.05
18 23 0.52
19 4 0.09
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (18 bp):
ATAATGGTCATTCGGGAC
Found at i:131567 original size:16 final size:16
Alignment explanation
Indices: 131546--131576 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
131536 TCCAAGACAT
131546 AGTGGTCATTCGGGAA
1 AGTGGTCATTCGGGAA
131562 AGTGGTCATTCGGGA
1 AGTGGTCATTCGGGA
131577 CAGATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.39, T:0.26
Consensus pattern (16 bp):
AGTGGTCATTCGGGAA
Found at i:135692 original size:18 final size:18
Alignment explanation
Indices: 135643--135711 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
135633 AGGGATTATA
* *
135643 AGTGGTCCTTTGGGACAT
1 AGTGGTCATTCGGGACAT
* * *
135661 AGTGGTCCTCCGGGGCAT
1 AGTGGTCATTCGGGACAT
* *
135679 AGTGGTCATTCGGGATAA
1 AGTGGTCATTCGGGACAT
135697 AGTGGTCATTCGGGA
1 AGTGGTCATTCGGGA
135712 TAAATTTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:135712 original size:18 final size:18
Alignment explanation
Indices: 135679--135715 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
135669 TCCGGGGCAT
135679 AGTGGTCATTCGGGATAA
1 AGTGGTCATTCGGGATAA
135697 AGTGGTCATTCGGGATAA
1 AGTGGTCATTCGGGATAA
135715 A
1 A
135716 TTTTCAGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.27
Consensus pattern (18 bp):
AGTGGTCATTCGGGATAA
Found at i:142691 original size:32 final size:33
Alignment explanation
Indices: 142650--142727 Score: 115
Period size: 32 Copynumber: 2.4 Consensus size: 33
142640 ACCGTGAGCT
*
142650 AATAAAATTCAAAGT-CATCTTTTCGGGATAGA
1 AATAAAATTCAAAGTACATCATTTCGGGATAGA
* *
142682 AATAAAATTCAAA-TATATCATTTGGGGATAGA
1 AATAAAATTCAAAGTACATCATTTCGGGATAGA
142714 AATAAAATTCAAAG
1 AATAAAATTCAAAG
142728 CTTTGATTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.02
32 40 0.98
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.29
Consensus pattern (33 bp):
AATAAAATTCAAAGTACATCATTTCGGGATAGA
Found at i:143442 original size:20 final size:20
Alignment explanation
Indices: 143384--143443 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
143374 GATATAGAAA
* *
143384 AACATGCCACAAAGGCAGAG
1 AACATGTCACAAAGACAGAG
* *
143404 ATAAATGTACCATAAAGACAGAG
1 A-ACATGT--CACAAAGACAGAG
143427 AACATGTCACAAAGACA
1 AACATGTCACAAAGACA
143444 TAATTATTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
20 10 0.32
21 4 0.13
22 5 0.16
23 12 0.39
ACGTcount: A:0.50, C:0.20, G:0.18, T:0.12
Consensus pattern (20 bp):
AACATGTCACAAAGACAGAG
Found at i:145958 original size:25 final size:26
Alignment explanation
Indices: 145925--145975 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
145915 TACATAATTG
*
145925 AAAGAAAAT-TTATTAAAATTTAAAAT
1 AAAGAAAATATAATT-AAATTTAAAAT
*
145951 AAAG-AAATATAATTAAATTTCAAAT
1 AAAGAAAATATAATTAAATTTAAAAT
145976 GTTTTGAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAGAAAATATAATTAAATTTAAAAT
Found at i:146113 original size:39 final size:39
Alignment explanation
Indices: 146008--146113 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
145998 TTTAAAAAAT
* ** *
146008 AATTTAGAACATTAATGTGAACTAATTTAAGAAATTAAG
1 AATTTAGAACGTTAGGGTGAAATAATTTAAGAAATTAAG
* *
146047 AATTTAGAACGTTATGGTGTAAA-AATTTAAGAAATTAGG
1 AATTTAGAACGTTAGGGTG-AAATAATTTAAGAAATTAAG
* *
146086 ATTTTAGAATGTTAGGGTGAAATAATTT
1 AATTTAGAACGTTAGGGTGAAATAATTT
146114 GAGGATTATG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
38 3 0.05
39 52 0.91
40 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (39 bp):
AATTTAGAACGTTAGGGTGAAATAATTTAAGAAATTAAG
Found at i:147596 original size:207 final size:206
Alignment explanation
Indices: 147139--147748 Score: 864
Period size: 207 Copynumber: 2.9 Consensus size: 206
147129 TAATCATTGT
* * * *
147139 TCAATTTTATGA-A-AAATACAAATTT-AAGAATTAAATCGAACAAATATTAAACTACAAATTAA
1 TCAATTTTA-GATACAAATA-AAATTTGGAGAATTAAATTGAACAAATATGAAATTACAAA-TAA
** * *
147201 AATAAAAATAAATTAAACAACACACATTGATGAGGGATTAAGTCGAAATAATTTTAAATTGTGAG
63 AATTTAAATAAATTAAAC-A-ACACA---A--AGGGATCAAATCGAAATAATTTTAAATTGTGAG
*
147266 GTTGAAATTAATACAAAAAAATACTAAATTATACCCATTTAAAAAGTTATGGGCCAATT----AA
121 GTTGAAATTAATAC-AAAAAATACTAAATTATACCTATTTAAAAAGTTATGGGCCAATTAAAAAA
147327 -AAAAT-AGTAATAAGTATGGG
185 TAAAATAAGTAATAAGTATGGG
* *
147347 TCAATTTCAGATACAAATAAAATTTGGAGGATTAAATTGAACAAATATGAAATTACAAATAAAAA
1 TCAATTTTAGATACAAATAAAATTTGGAGAATTAAATTGAACAAATATGAAATTACAAAT-AAAA
*
147412 TTTAAATAAATTAAACAACACAAAGGGATCAAATCGAAATAATTTTAAATTGTGAGATTGAAATT
65 TTTAAATAAATTAAACAACACAAAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATT
*
147477 AATAC-AAAAGTACTAAATTATACCTATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAG
130 AATACAAAAAATACTAAATTATACCTATTTAAAAAGTTATGGGCCAATTAAAAAATA-AAATAAG
147541 TAATAAGTATGGG
194 TAATAAGTATGGG
*
147554 TCAATTTTAGATACAAATAAAATTTGGAGAACTAAATTGAACAAATATGAAATTACAAATAAAAT
1 TCAATTTTAGATACAAATAAAATTTGGAGAATTAAATTGAACAAATATGAAATTACAAATAAAAT
*
147619 ATTAAATAAATTAAACAACACAAAGGGATCAAATCGAAATAATTTTAAATTATGAGGTTGAAATT
66 -TTAAATAAATTAAACAACACAAAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATT
147684 AATACAAAAAATACTAAATTATA-CTCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAA
130 AATACAAAAAATACTAAATTATACCT-ATTTAAAAAGTTATGGGCCAATTAAAAAATA-AAATAA
147748 G
193 G
147749 CCTCTCTTTT
Statistics
Matches: 368, Mismatches: 20, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
200 41 0.11
202 44 0.12
204 3 0.01
205 1 0.00
206 9 0.02
207 148 0.40
208 71 0.19
209 51 0.14
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (206 bp):
TCAATTTTAGATACAAATAAAATTTGGAGAATTAAATTGAACAAATATGAAATTACAAATAAAAT
TTAAATAAATTAAACAACACAAAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTA
ATACAAAAAATACTAAATTATACCTATTTAAAAAGTTATGGGCCAATTAAAAAATAAAATAAGTA
ATAAGTATGGG
Found at i:147820 original size:7 final size:7
Alignment explanation
Indices: 147797--147854 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
147787 TTCATTTATA
147797 TTAGGGT
1 TTAGGGT
* *
147804 TTATGCT
1 TTAGGGT
147811 TTAGGGT
1 TTAGGGT
**
147818 TTAGTTT
1 TTAGGGT
*
147825 TTAAGGT
1 TTAGGGT
*
147832 TTAGAGT
1 TTAGGGT
147839 TTAGGGT
1 TTAGGGT
*
147846 TTAGAGT
1 TTAGGGT
147853 TT
1 TT
147855 CTATAAACTA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (7 bp):
TTAGGGT
Found at i:147850 original size:14 final size:14
Alignment explanation
Indices: 147797--147854 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
147787 TTCATTTATA
*
147797 TTAGGGTTTATG-CT
1 TTAGGGTTTA-GAGT
**
147811 TTAGGGTTTAGTTT
1 TTAGGGTTTAGAGT
*
147825 TTAAGGTTTAGAGT
1 TTAGGGTTTAGAGT
147839 TTAGGGTTTAGAGT
1 TTAGGGTTTAGAGT
147853 TT
1 TT
147855 CTATAAACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
13 1 0.03
14 37 0.97
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTAGAGT
Found at i:147947 original size:13 final size:13
Alignment explanation
Indices: 147929--147971 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
147919 TAATTTACTT
147929 TATATAGTTTATA
1 TATATAGTTTATA
*
147942 TATATAGGTTATA
1 TATATAGTTTATA
147955 TATATAGTTTATA
1 TATATAGTTTATA
147968 TATA
1 TATA
147972 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:147976 original size:20 final size:21
Alignment explanation
Indices: 147952--148002 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
147942 TATATAGGTT
147952 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATATATAC
* *
147973 -TATACATGGTTTATATATAC
1 ATATATATAGTTTATATATAC
147993 ATATTATATA
1 ATA-TATATA
148003 AAATTATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 18 0.75
21 2 0.08
22 4 0.17
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (21 bp):
ATATATATAGTTTATATATAC
Found at i:148369 original size:21 final size:21
Alignment explanation
Indices: 148344--148390 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
148334 TCTATTTATA
148344 TTAGGGCTTATGATTT-AAGAT
1 TTAGGGCTTATGATTTAAAG-T
*
148365 TTAGGGTTTATGATTTAAAGT
1 TTAGGGCTTATGATTTAAAGT
148386 TTAGG
1 TTAGG
148391 ATTTAGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.45
Consensus pattern (21 bp):
TTAGGGCTTATGATTTAAAGT
Found at i:148379 original size:14 final size:12
Alignment explanation
Indices: 148361--148425 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 12
148351 TTATGATTTA
148361 AGATTTAGGGTTT
1 AGATTTA-GGTTT
*
148374 ATGATTTAAAGTTT
1 A-GATTT-AGGTTT
148388 AGGATTTAGGTTT
1 A-GATTTAGGTTT
*
148401 AGGTTTAGGTTT
1 AGATTTAGGTTT
*
148413 AGGTTTAAGGTTT
1 AGATTT-AGGTTT
148426 CTATAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
12 16 0.36
13 13 0.29
14 15 0.33
15 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
AGATTTAGGTTT
Found at i:148395 original size:21 final size:21
Alignment explanation
Indices: 148351--148395 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
148341 ATATTAGGGC
*
148351 TTATGATTTAAGATTTAGGGT
1 TTATGATTTAAGATTTAGGAT
148372 TTATGATTTAA-AGTTTAGGAT
1 TTATGATTTAAGA-TTTAGGAT
148393 TTA
1 TTA
148396 GGTTTAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (21 bp):
TTATGATTTAAGATTTAGGAT
Found at i:148396 original size:7 final size:7
Alignment explanation
Indices: 148355--148419 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
148345 TAGGGCTTAT
*
148355 GATTTAA
1 GATTTAG
148362 GATTTAG
1 GATTTAG
* *
148369 GGTTTAT
1 GATTTAG
148376 GATTTA-
1 GATTTAG
*
148382 AAGTTTAG
1 GA-TTTAG
148390 GATTTAG
1 GATTTAG
148397 G-TTTAG
1 GATTTAG
148403 G-TTTAG
1 GATTTAG
148409 G-TTTAG
1 GATTTAG
148415 G-TTTA
1 GATTTA
148420 AGGTTTCTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
6 23 0.46
7 26 0.52
8 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (7 bp):
GATTTAG
Found at i:148425 original size:7 final size:6
Alignment explanation
Indices: 148384--148425 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
148374 ATGATTTAAA
148384 GTTTAG GATTTAG GTTTAG GTTTAG GTTTAG GTTTAAG GTTT
1 GTTTAG G-TTTAG GTTTAG GTTTAG GTTTAG GTTT-AG GTTT
148426 CTATAAACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 22 0.65
7 12 0.35
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (6 bp):
GTTTAG
Found at i:148512 original size:9 final size:9
Alignment explanation
Indices: 148498--148542 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
148488 AGTAATTTAT
148498 TTTATATAG
1 TTTATATAG
148507 TTTATATAG
1 TTTATATAG
148516 TTTATATA-
1 TTTATATAG
*
148524 TATAAATATAG
1 T-T-TATATAG
148535 TTTATATA
1 TTTATATA
148543 TACTATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
8 1 0.03
9 23 0.74
10 6 0.19
11 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (9 bp):
TTTATATAG
Found at i:148559 original size:20 final size:20
Alignment explanation
Indices: 148512--148565 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
148502 TATAGTTTAT
*
148512 ATAGTTTATATATA-TAAAT
1 ATAGTTTATATATACTAAAC
*
148531 ATAGTTTATATATACTATAC
1 ATAGTTTATATATACTAAAC
* *
148551 ATGGTTTATACATAC
1 ATAGTTTATATATAC
148566 ATATTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAGTTTATATATACTAAAC
Found at i:148769 original size:11 final size:11
Alignment explanation
Indices: 148753--148778 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
148743 GGTTAATTTA
148753 CATTAATAGCC
1 CATTAATAGCC
148764 CATTAATAGCC
1 CATTAATAGCC
148775 CATT
1 CATT
148779 TATTTTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (11 bp):
CATTAATAGCC
Found at i:148938 original size:7 final size:7
Alignment explanation
Indices: 148928--148962 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
148918 AAGGTTTATT
148928 GTTTAGG
1 GTTTAGG
*
148935 GTTTAGA
1 GTTTAGG
*
148942 GTTTAGA
1 GTTTAGG
148949 GTTTAGG
1 GTTTAGG
148956 GTTTAGG
1 GTTTAGG
148963 ATTTCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:149011 original size:13 final size:13
Alignment explanation
Indices: 148993--149035 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
148983 TAATTTACTT
148993 TATATAGTTTATA
1 TATATAGTTTATA
*
149006 TATATAGGTTATA
1 TATATAGTTTATA
149019 TATATAGTTTATA
1 TATATAGTTTATA
149032 TATA
1 TATA
149036 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:149040 original size:20 final size:21
Alignment explanation
Indices: 149016--149066 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
149006 TATATAGGTT
*
149016 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATACATAC
* *
149037 -TATACATGGTTTATACATAC
1 ATATATATAGTTTATACATAC
149057 ATATTATATA
1 ATA-TATATA
149067 AAATTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 2 0.09
22 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTATACATAC
Found at i:149063 original size:491 final size:484
Alignment explanation
Indices: 148475--150386 Score: 1485
Period size: 491 Copynumber: 3.8 Consensus size: 484
148465 ATAGTGTTTG
* *
148475 TATAAACTATATAAGTAATTTATTTTATATAGTTTATATAGTT-TATATATATAAATATAGTTTA
1 TATAAACTATATAAGTAATTTACTTTATATAGTTTATATA-TTATATATATATATATATAGTTTA
*
148539 TATATACTATACATGGTTTATACATACATATTATATAAAATAATTTAATAAAATTAATAAAATTA
65 TATATACTATACATGGTTTATACATACATATTATATAAAATAATTTAATAAAATTAATAAAATAA
148604 TTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCAT
130 TTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCAT
148669 ATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGT
195 ATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGT
*
148734 TGCATGTTAGGTTAATTTACATTAATAGCCCATTAATAGCCCATTTATTTTGTTGTTATGAATAA
260 TGCATGTTAGGTTAA-TTAC-----TA-CCCATTAATAACCCATTTATTTTGTTGTTATGAATAA
* * *
148799 GTAATAATAGAACCAAAAAATAAGTCTATTTGCATTAGTGTTAGTCCATTCACATTAGTTTACAT
318 GTAATAATAAAACCAAAAAATAAGTCCATTTGCATTAGTGTTAGTCCATTTACATTAGTTTACAT
*
148864 AGGCCCATTATTTTATTACAAATATATATGCATTAGTGTTGGTCCATTTATATTAAGGTTTATTG
383 AGGCCCATTATTTTATTACAAATATATATGCATTAGTGTTAGTCCATTTATATTAAGGTTTATTG
148929 TTTAGGGTTTAGAGTTTAGAGTTTAGGGTTTAGGATTTC
448 TTTAGGGTTTA-AGTTTAGAGTTTAGGGTTTA-GATTTC
**
148968 TATAAACTATATAAGTAATTTACTTTATATAGTTTATATA-TATAGGT-TATATATATAGTTTAT
1 TATAAACTATATAAGTAATTTACTTTATATAGTTTATATATTATATATATATATATATAGTTTAT
* * *
149031 ATATACTATACATGGTTTATACATACATATTATATAAAATTATTTAATAAATTTAAAAAAATAAT
66 ATATACTATACATGGTTTATACATACATATTATATAAAATAATTTAATAAAATTAATAAAATAAT
149096 TTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATA
131 TTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATA
149161 TTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTT
196 TTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTT
* *
149226 GCATGTTAGGTT-A--ACT-CACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAAT
261 GCATGTTAGGTTAATTACTACCCATTAATAACCCATTTATTTTGTTGTTATGAATAAGTAATAAT
*
149287 AAAACCAAAAAATAAGTCCATTTGCATTAGTGTTAATCCATTTACATTAGTTTACATAGGTCCAA
326 AAAACCAAAAAATAAGTCCATTTGCATTAGTGTTAGTCCATTTACATTAGTTTACATAGG-CC--
* * * *
149352 TACATAAGCCCACTCTTTTACTACAAATATATATGCATTAGTGCTAGTCCATTTATATTAGGGTT
388 --CAT--------TATTTTATTACAAATATATATGCATTAGTGTTAGTCCATTTATATTAAGG-T
*
149417 TGTGATTTAGTTTTTATGGTTTAAAGTTTAGGGTTTAGGTTTAGGGTTTAAGATTTC
442 T-T-A-TT-G--TTTAGGGTTT-AAGTTTA--G---A-GTTTAGGGTTT-AGATTTC
** * *
149474 TATAAACTATATATTTTA-TTACTTTATATAGTTTATGCATGCTATTTCTATAAACTATATAAGT
1 TATAAACTATATAAGTAATTTACTTTATATAGTTTAT--A---TA--T-TATATA-TATAT-A-T
* * * * * * *
149538 AATTTACTTTATATAGTTTATATATATATAGGTTATATATATA-GT-TTATATATACTATACATG
55 -ATATAGTTTATATA---TA-CTATACAT-GGTT-TATACATACATATTATATA-A-AATA-AT-
* * * * ** * * ***
149601 GTATACATACATATTATATAAAATTATTT-AAT-AAAATTAT-TTAAATGTAAATTATATAAAAA
109 -T-TA-ATA-AAATTA-ATAAAATAATTTAAATGTAAATTATATAAAACAT-GATTA-ATTAGGT
* * * * * * * * * *
149663 CTTGATTAATTAG-GTGTTA-AAT--A-ATTAGTATGTCACATTGCATATTATA-TGGTTCATAA
167 GTTAAATAATTAGTATGTCACATTGCATATTA-TATG----GTT-CATA-AATAGTAGTACAT--
* * * * * *
149722 AT-AGTAGTACATGTCATATT-AATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTA
223 GTCA-TATTA-ATTTCAT-TTGCA--TAATTAG--T-A-T-----TTTAGTTGCATGTTAGGTTA
** ** *
149785 ATTCACATTA-ATAGCCCATTAATAACCCATTTATTTTGTTGTTGTGAATAAGTAATAATAAAAC
274 ATT-AC--TACCCA--TTA---ATAACCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAAC
* * * * * **
149849 CCACAAATAACTCCATTTGCATTAGTGCTAGTCCATTTATATTAGGTTT---TAGG--GTTTAGG
331 CAAAAAATAAGTCCATTTGCATTAGTGTTAGTCCATTTACATTA-GTTTACATAGGCCCATTA--
* * ** * ** * * * **
149909 GTTTAGAGTTTAGAGTTTCTATAAACTATATA-TTTTATTAC-TTTATA-T-A-GTTTA-TGCAT
393 -TTT-TA--TTACA-AATATATATGC-AT-TAGTGTTAGTCCATTTATATTAAGGTTTATTGTTT
* * * * * *
149968 AGTGTTT--CTATAAACTATATA-AG--TA-ATTTAC
451 AGGGTTTAAGTTTAGAGT-T-TAGGGTTTAGATTT-C
** * * *
149999 TTTATTTACTTTATATAGT--TTATA-TATATATA-TATATATATATATATATATATATATATAG
1 --TATAAACTATATA-AGTAATT-TACTTTATATAGTTTATATAT-TATATATATATATATATA-
* *
150060 GTTATATATATATACTATACATGGTTTATACATACATATTATAT-AAATTATTTAATAAATTTAA
60 G-T-T-TATATATACTATACATGGTTTATACATACATATTATATAAAATAATTTAATAAAATTAA
*
150124 -AAAATAATTTAAATGTAAATTATATAAAATATGATTAATTAGGTG-TAAATAATTAGTATGTCA
122 TAAAATAATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCA
150187 CATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGT
187 CATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGT
150252 ATTTTAGTTGCATGTTAGGTTAATT-C-A--CATTAATAACCCATTTATTTTGTTGTTATGAATA
252 ATTTTAGTTGCATGTTAGGTTAATTACTACCCATTAATAACCCATTTATTTTGTTGTTATGAATA
* * *
150313 AGTAATAATAAAACAAAAAAAATAAGTCCATTTACATTAGTGTTAGTCAATTTACATTAGTTTAC
317 AGTAATAATAAAAC-CAAAAAATAAGTCCATTTGCATTAGTGTTAGTCCATTTACATTAGTTTAC
150378 ATAGGCCCA
381 ATAGGCCCA
150387 ATATATAAGC
Statistics
Matches: 1128, Mismatches: 155, Indels: 282
0.72 0.10 0.18
Matches are distributed among these distances:
478 46 0.04
479 36 0.03
480 100 0.09
481 7 0.01
482 1 0.00
483 1 0.00
484 1 0.00
485 3 0.00
487 3 0.00
489 23 0.02
490 1 0.00
491 219 0.19
492 3 0.00
493 84 0.07
494 3 0.00
495 2 0.00
496 2 0.00
497 2 0.00
498 6 0.01
499 2 0.00
500 22 0.02
501 6 0.01
502 5 0.00
503 10 0.01
504 20 0.02
505 30 0.03
506 49 0.04
507 11 0.01
508 7 0.01
509 5 0.00
510 2 0.00
511 2 0.00
512 2 0.00
513 8 0.01
514 9 0.01
515 17 0.02
516 6 0.01
517 3 0.00
518 7 0.01
519 24 0.02
521 2 0.00
522 2 0.00
523 13 0.01
524 11 0.01
525 11 0.01
526 11 0.01
527 24 0.02
528 7 0.01
529 11 0.01
530 18 0.02
531 22 0.02
532 20 0.02
533 7 0.01
534 5 0.00
535 7 0.01
536 8 0.01
537 5 0.00
538 1 0.00
539 2 0.00
540 2 0.00
541 2 0.00
542 1 0.00
543 5 0.00
544 2 0.00
546 23 0.02
547 13 0.01
548 8 0.01
549 2 0.00
550 2 0.00
552 3 0.00
554 1 0.00
555 4 0.00
557 79 0.07
558 4 0.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.43
Consensus pattern (484 bp):
TATAAACTATATAAGTAATTTACTTTATATAGTTTATATATTATATATATATATATATAGTTTAT
ATATACTATACATGGTTTATACATACATATTATATAAAATAATTTAATAAAATTAATAAAATAAT
TTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATA
TTATATGGTTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTT
GCATGTTAGGTTAATTACTACCCATTAATAACCCATTTATTTTGTTGTTATGAATAAGTAATAAT
AAAACCAAAAAATAAGTCCATTTGCATTAGTGTTAGTCCATTTACATTAGTTTACATAGGCCCAT
TATTTTATTACAAATATATATGCATTAGTGTTAGTCCATTTATATTAAGGTTTATTGTTTAGGGT
TTAAGTTTAGAGTTTAGGGTTTAGATTTC
Found at i:149446 original size:14 final size:14
Alignment explanation
Indices: 149429--149467 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
149419 TGATTTAGTT
*
149429 TTTATGGTTTAAAG
1 TTTAGGGTTTAAAG
*
149443 TTTAGGGTTT-AGG
1 TTTAGGGTTTAAAG
149456 TTTAGGGTTTAA
1 TTTAGGGTTTAA
149468 GATTTCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAAG
Found at i:149565 original size:13 final size:13
Alignment explanation
Indices: 149547--149591 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
149537 TAATTTACTT
149547 TATATAGTTTATATA
1 TATATAG-TT-TATA
*
149562 TATATAGGTTATA
1 TATATAGTTTATA
149575 TATATAGTTTATA
1 TATATAGTTTATA
149588 TATA
1 TATA
149592 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 20 0.71
14 1 0.04
15 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:149567 original size:15 final size:15
Alignment explanation
Indices: 149547--149596 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
149537 TAATTTACTT
149547 TATATAGTTTATATA
1 TATATAGTTTATATA
*
149562 TATATAG-GT-TATA
1 TATATAGTTTATATA
149575 TATATAGTTTATATA
1 TATATAGTTTATATA
149590 TACTATA
1 TA-TATA
149597 CATGGTATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 11 0.37
14 2 0.07
15 13 0.43
16 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:149628 original size:13 final size:13
Alignment explanation
Indices: 149618--149644 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
149608 TACATATTAT
149618 ATAAAATTATTTA
1 ATAAAATTATTTA
149631 ATAAAATTATTTA
1 ATAAAATTATTTA
149644 A
1 A
149645 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:149654 original size:15 final size:14
Alignment explanation
Indices: 149618--149660 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
149608 TACATATTAT
149618 ATAAAATTATTT-A
1 ATAAAATTATTTAA
149631 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
149645 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
149660 A
1 A
149661 AACTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:150024 original size:2 final size:2
Alignment explanation
Indices: 150019--150078 Score: 86
Period size: 2 Copynumber: 30.0 Consensus size: 2
150009 TTATATAGTT
**
150019 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
150061 T- TA TA TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA -TA TA
150079 CATGGTTTAT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
1 1 0.02
2 50 0.94
3 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:150442 original size:76 final size:76
Alignment explanation
Indices: 150347--150524 Score: 286
Period size: 76 Copynumber: 2.3 Consensus size: 76
150337 AGTCCATTTA
** * * *
150347 CATTAGTGTTAGTCAATTTACATTAGTTTACATAGGCCCAATATATAAGCCTACTATTTTATTAC
1 CATTAGTACTAGTCAATTTACATTAGTCTACATAGGCCCAATACATAAGCCCACTATTTTATTAC
150412 AAATATATATG
66 AAATATATATG
*
150423 CATTAGTACTAGTGC-ATTTACATTAGTCTACATAGGCCCAATACATAAGCCCACTCTTTTATTA
1 CATTAGTACTAGT-CAATTTACATTAGTCTACATAGGCCCAATACATAAGCCCACTATTTTATTA
150487 CAAATATATATG
65 CAAATATATATG
150499 CATTAGTACTAGTCAATTTACATTAG
1 CATTAGTACTAGTCAATTTACATTAG
150525 GGTTTATGGT
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
75 1 0.01
76 92 0.98
77 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (76 bp):
CATTAGTACTAGTCAATTTACATTAGTCTACATAGGCCCAATACATAAGCCCACTATTTTATTAC
AAATATATATG
Found at i:150670 original size:13 final size:13
Alignment explanation
Indices: 150652--150694 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
150642 TAATTTACTT
150652 TATATAGTTTATA
1 TATATAGTTTATA
*
150665 TATATAGGTTATA
1 TATATAGTTTATA
150678 TATATAGTTTATA
1 TATATAGTTTATA
150691 TATA
1 TATA
150695 CTATACATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:150699 original size:20 final size:21
Alignment explanation
Indices: 150675--150725 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
150665 TATATAGGTT
*
150675 ATATATATAGTTTATATATAC
1 ATATATATAGTTTATACATAC
* *
150696 -TATACATGGTTTATACATAC
1 ATATATATAGTTTATACATAC
150716 ATATTATATA
1 ATA-TATATA
150726 AAATTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 2 0.09
22 4 0.17
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATATAGTTTATACATAC
Found at i:151113 original size:14 final size:14
Alignment explanation
Indices: 151096--151140 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
151086 GCGTTTACGG
151096 TTTAAAGTTTAGGA
1 TTTAAAGTTTAGGA
*
151110 TTTATAA-TTTATGA
1 TTTA-AAGTTTAGGA
*
151124 TTTATAGTTTAGGA
1 TTTAAAGTTTAGGA
151138 TTT
1 TTT
151141 CTATAAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 23 0.88
15 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (14 bp):
TTTAAAGTTTAGGA
Found at i:151974 original size:32 final size:32
Alignment explanation
Indices: 151925--151998 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
151915 CGGGTGCAGG
*
151925 TCGGGTTCAGTTTCACAATTTTCAGGTCAAAC
1 TCGGGTTCAGTTCCACAATTTTCAGGTCAAAC
* *
151957 TCGGGTTTAGTTCCACAATTTTCAGGTCCAAC
1 TCGGGTTCAGTTCCACAATTTTCAGGTCAAAC
*
151989 TCAGGTTCAG
1 TCGGGTTCAG
151999 GTCAACACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (32 bp):
TCGGGTTCAGTTCCACAATTTTCAGGTCAAAC
Found at i:155118 original size:31 final size:32
Alignment explanation
Indices: 155080--155144 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 32
155070 TAAGGTCATG
* *
155080 ACATTATCGGTCCGTTCGATTTTAGT-CCTTA
1 ACATTATCGGTCCGTTCAATTTTAATCCCTTA
155111 ACATTATCGGTCCGTTCAATTTTAATCCCTTA
1 ACATTATCGGTCCGTTCAATTTTAATCCCTTA
155143 AC
1 AC
155145 CGTTAACTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (32 bp):
ACATTATCGGTCCGTTCAATTTTAATCCCTTA
Found at i:155803 original size:28 final size:28
Alignment explanation
Indices: 155754--155809 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
155744 TTTAATTTTG
* * * *
155754 TAAAAAATTTATATAAATTATATGAATT
1 TAAAAAATTTAAAGAAAATATATAAATT
*
155782 TAAAAATTTTAAAGAAAATATATAAATT
1 TAAAAAATTTAAAGAAAATATATAAATT
155810 AAGTATAGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (28 bp):
TAAAAAATTTAAAGAAAATATATAAATT
Found at i:156084 original size:22 final size:22
Alignment explanation
Indices: 156059--156100 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
156049 AATACCGAAA
*
156059 AAGTTTTCTCTGGGCGCACGAT
1 AAGTTTTCTCTAGGCGCACGAT
156081 AAGTTTTCTCTAGGCGCACG
1 AAGTTTTCTCTAGGCGCACG
156101 TTAGTAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (22 bp):
AAGTTTTCTCTAGGCGCACGAT
Found at i:161816 original size:21 final size:21
Alignment explanation
Indices: 161792--161835 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
161782 GATAATATTA
* * *
161792 AAAAATATTGATATTTTAGGT
1 AAAAATAATAATATTTTAAGT
161813 AAAAATAATAATATTTTAAGT
1 AAAAATAATAATATTTTAAGT
161834 AA
1 AA
161836 TTTTTTTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (21 bp):
AAAAATAATAATATTTTAAGT
Found at i:170036 original size:30 final size:30
Alignment explanation
Indices: 169990--170107 Score: 132
Period size: 30 Copynumber: 3.9 Consensus size: 30
169980 GAATGGCCAA
* * * *
169990 TCCATAGGTCCCGAAGAACCTAGGTAGCTG
1 TCCATATGTTCCGAAGAACATAGGTAACTG
* *
170020 TCCATATGTTCTGAAGAACATAAGTATA-TG
1 TCCATATGTTCCGAAGAACATAGGTA-ACTG
*
170050 TCCATATGTTCCGAAGAACATATGTAACTG
1 TCCATATGTTCCGAAGAACATAGGTAACTG
*
170080 TCCATA-GATTCCGAAGAACCTAGGTAAC
1 TCCATATG-TTCCGAAGAACATAGGTAAC
170108 CCTCGACACT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.03
30 73 0.97
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (30 bp):
TCCATATGTTCCGAAGAACATAGGTAACTG
Found at i:170729 original size:63 final size:63
Alignment explanation
Indices: 170651--170787 Score: 170
Period size: 63 Copynumber: 2.2 Consensus size: 63
170641 CTTAACTGGT
* * *
170651 GTATCGATACACTGCCTATATATTGATACACAAATT-ACATTCGA-AGTTTTTCATTTCAAGGGG
1 GTATCGATACACTGCCTATATATCGATACACAAATTGA-ATTCGAGAGTTTTTC-GTTCAAGAGG
* ** *
170714 GTATCGATACACTGCCTATGTATCGATACACTTATTGAATTCGATGATTTTTTCGTTCAAGAGG
1 GTATCGATACACTGCCTATATATCGATACACAAATTGAATTCGA-GAGTTTTTCGTTCAAGAGG
170778 GTATCGATAC
1 GTATCGATAC
170788 CTGTTGAATG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
63 38 0.59
64 19 0.30
65 7 0.11
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (63 bp):
GTATCGATACACTGCCTATATATCGATACACAAATTGAATTCGAGAGTTTTTCGTTCAAGAGG
Found at i:174755 original size:18 final size:18
Alignment explanation
Indices: 174732--174788 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 18
174722 TATATTTTCC
174732 AACAATTTGTATCTTTTT
1 AACAATTTGTATCTTTTT
174750 AACAA-TTGATATCATTTTGTT
1 AACAATTTG-TATC--TTT-TT
*
174771 AACAATTGGTATCTTTTT
1 AACAATTTGTATCTTTTT
174789 CATTAAACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
17 3 0.09
18 11 0.33
19 3 0.09
20 3 0.09
21 11 0.33
22 2 0.06
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (18 bp):
AACAATTTGTATCTTTTT
Found at i:174774 original size:21 final size:21
Alignment explanation
Indices: 174748--174788 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
174738 TTGTATCTTT
174748 TTAACAATTGATATCATTTTG
1 TTAACAATTGATATCATTTTG
* *
174769 TTAACAATTGGTATCTTTTT
1 TTAACAATTGATATCATTTT
174789 CATTAAACAT
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:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (21 bp):
TTAACAATTGATATCATTTTG
Found at i:175023 original size:19 final size:19
Alignment explanation
Indices: 174999--175035 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
174989 CAAAAATGTT
*
174999 CAGAGGTATCGATACCCTC
1 CAGAGGTATCCATACCCTC
175018 CAGAGGTATCCATACCCT
1 CAGAGGTATCCATACCCT
175036 TATGAAGGCT
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:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (19 bp):
CAGAGGTATCCATACCCTC
Found at i:177077 original size:31 final size:31
Alignment explanation
Indices: 176979--177069 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
176969 CAATTTAAGG
176979 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
177010 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
177041 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
177070 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 12 0.20
31 37 0.62
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:177161 original size:19 final size:19
Alignment explanation
Indices: 177134--177200 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
177124 AATGTTTTTA
* *
177134 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
177153 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
177172 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
177191 TGAACAGTAA
1 TGAACAGTAA
177201 CCCGAGGCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:177332 original size:21 final size:21
Alignment explanation
Indices: 177306--177347 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
177296 ATTTGAATAT
*
177306 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
177327 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
177348 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:177409 original size:21 final size:21
Alignment explanation
Indices: 177376--177415 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
177366 TTTGAGTAGA
*
177376 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
177398 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
177416 AGATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:177669 original size:34 final size:32
Alignment explanation
Indices: 177630--177699 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
177620 TTTTGTAAAG
* *
177630 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
177664 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
177696 GGGA
1 GGGA
177700 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:180821 original size:21 final size:21
Alignment explanation
Indices: 180795--180834 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
180785 TTCTACAACT
180795 ATTTACA-AAACTATCACCCGA
1 ATTTACATAAA-TATCACCCGA
180816 ATTTACATAAATATCACCC
1 ATTTACATAAATATCACCC
180835 TAACAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.42, C:0.28, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTTACATAAATATCACCCGA
Done.