Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 123 of 126
Found at i:24589447 original size:16 final size:16
Alignment explanation
Indices: 24589426--24589461 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24589416 AAAAGAGATC
*
24589426 TAAAATTTTCAATAAT
1 TAAAATTATCAATAAT
*
24589442 TAAAATTATCAATATT
1 TAAAATTATCAATAAT
24589458 TAAA
1 TAAA
24589462 CTATGATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATTATCAATAAT
Found at i:24589681 original size:7 final size:7
Alignment explanation
Indices: 24589669--24589699 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
24589659 AAAGGCAGGG
24589669 GCAATCC
1 GCAATCC
24589676 GCAATCC
1 GCAATCC
24589683 GCAATCC
1 GCAATCC
24589690 GCAA-CC
1 GCAATCC
24589696 GCAA
1 GCAA
24589700 GAGTGTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.32, C:0.42, G:0.16, T:0.10
Consensus pattern (7 bp):
GCAATCC
Found at i:24590728 original size:1 final size:1
Alignment explanation
Indices: 24590722--24590765 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
24590712 TCTCATTTCC
* * **
24590722 TTTTTTTTTTTGTTTTTTTTTTTTGTGGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24590766 ACCTTTTGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:24598422 original size:30 final size:30
Alignment explanation
Indices: 24598388--24598445 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
24598378 AAATCAATAA
24598388 TGAAAATAACTGTTGGGGCTACAAAGGGGT
1 TGAAAATAACTGTTGGGGCTACAAAGGGGT
*
24598418 TGAAAATAACTGTTGGGGCTGCAAAGGG
1 TGAAAATAACTGTTGGGGCTACAAAGGG
24598446 TTTGGGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.34, T:0.22
Consensus pattern (30 bp):
TGAAAATAACTGTTGGGGCTACAAAGGGGT
Found at i:24606786 original size:24 final size:24
Alignment explanation
Indices: 24606730--24606780 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
24606720 TGTTTTCCTT
* *
24606730 CTCAAAAGCAGTCTCTTCTTCTGC
1 CTCAATAGCAGCCTCTTCTTCTGC
24606754 CTCAATAGCAGCCTCTTCATT-TGC
1 CTCAATAGCAGCCTCTTC-TTCTGC
24606778 CTC
1 CTC
24606781 TGTAGCTGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (24 bp):
CTCAATAGCAGCCTCTTCTTCTGC
Found at i:24608611 original size:16 final size:17
Alignment explanation
Indices: 24608565--24608611 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
24608555 ATTTTTATTT
* * *
24608565 TATAAAAATTTTAAATA
1 TATATAAATTTAAAAAA
24608582 TATATAAATGTTAAAAAA
1 TATATAAAT-TTAAAAAA
24608600 TATAT-AATTTAA
1 TATATAAATTTAA
24608612 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TATATAAATTTAAAAAA
Found at i:24608659 original size:11 final size:11
Alignment explanation
Indices: 24608638--24608717 Score: 61
Period size: 11 Copynumber: 6.8 Consensus size: 11
24608628 TTATCTCTCG
24608638 ATTTAAAATTTA
1 ATTT-AAATTTA
24608650 ATTTAAATTTA
1 ATTTAAATTTA
*
24608661 ATATATACATTTAA
1 AT-T-TAAATTT-A
24608675 TATTTAAATTTA
1 -ATTTAAATTTA
**
24608687 ATTTAAATAAA
1 ATTTAAATTTA
** *
24608698 AAATAAAATTA
1 ATTTAAATTTA
24608709 ATTTAAATT
1 ATTTAAATT
24608718 AAATCGAACA
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
11 30 0.58
12 6 0.12
13 12 0.23
14 2 0.04
15 2 0.04
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:24608674 original size:13 final size:13
Alignment explanation
Indices: 24608643--24608688 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
24608633 TCTCGATTTA
24608643 AAATTTAAT-T-T
1 AAATTTAATATAT
24608654 AAATTTAATATAT
1 AAATTTAATATAT
* *
24608667 ACATTTAATATTT
1 AAATTTAATATAT
24608680 AAATTTAAT
1 AAATTTAAT
24608689 TTAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 20 0.67
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
AAATTTAATATAT
Found at i:24608811 original size:17 final size:17
Alignment explanation
Indices: 24608791--24608824 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24608781 AATATTCTTC
24608791 ACAT-TTAAATATTAAAA
1 ACATCTTAAAT-TTAAAA
24608808 ACATCTTAAATTTAAAA
1 ACATCTTAAATTTAAAA
24608825 TAAAAATCAA
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:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (17 bp):
ACATCTTAAATTTAAAA
Found at i:24609675 original size:30 final size:30
Alignment explanation
Indices: 24609639--24609695 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
24609629 CGAAATTAAT
* * *
24609639 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
24609669 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
24609696 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:24610842 original size:25 final size:26
Alignment explanation
Indices: 24610808--24610860 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
24610798 GGATTATTAA
*
24610808 ATTGTATTTTTAAATACAT-TTTATT
1 ATTGAATTTTTAAATACATATTTATT
*
24610833 ATTGAATTTTTAAATACATATTTTTT
1 ATTGAATTTTTAAATACATATTTATT
24610859 AT
1 AT
24610861 ATGATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTGAATTTTTAAATACATATTTATT
Found at i:24618459 original size:22 final size:21
Alignment explanation
Indices: 24618424--24618473 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
24618414 TTTTATATCT
*
24618424 AAATTTATTTAAAT-ATATTAA
1 AAATTTATTAAAATAATA-TAA
24618445 AAATTATATTAAAATAATATAA
1 AAATT-TATTAAAATAATATAA
24618467 AAATTTA
1 AAATTTA
24618474 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 16 0.62
23 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTATTAAAATAATATAA
Found at i:24624990 original size:28 final size:29
Alignment explanation
Indices: 24624959--24625013 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
24624949 AATAATATTT
24624959 ATTAA-AAGATAACA-AAATTAAAATTTGA
1 ATTAATAAGAT-ACATAAATTAAAATTTGA
* *
24624987 ATTAATATGATACATAATTTAAAATTT
1 ATTAATAAGATACATAAATTAAAATTT
24625014 CAAAACGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (29 bp):
ATTAATAAGATACATAAATTAAAATTTGA
Found at i:24625851 original size:20 final size:20
Alignment explanation
Indices: 24625826--24625866 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24625816 TAGTTTAGCT
24625826 AGTTATTTGTGGTCCAAACC
1 AGTTATTTGTGGTCCAAACC
24625846 AGTTATTTGTGGTCCAAACC
1 AGTTATTTGTGGTCCAAACC
24625866 A
1 A
24625867 TCGCCCTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (20 bp):
AGTTATTTGTGGTCCAAACC
Found at i:24632103 original size:20 final size:20
Alignment explanation
Indices: 24632066--24632118 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 20
24632056 ATCTGAAATT
24632066 AATAAAATATTATTTTTTATA
1 AATAAAATATTATTTTTTA-A
24632087 ATATAAAATATTA-TTTTTAA
1 A-ATAAAATATTATTTTTTAA
24632107 AATATAAATATT
1 AATA-AAATATT
24632119 TAAAAATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.10
20 9 0.30
21 7 0.23
22 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAAAATATTATTTTTTAA
Found at i:24632105 original size:21 final size:22
Alignment explanation
Indices: 24632067--24632118 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
24632057 TCTGAAATTA
*
24632067 ATAAAATATTATTTTTTATAAT
1 ATAAAATATTATTTTTTAAAAT
24632089 ATAAAATATTA-TTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
24632110 AT-AAATATT
1 ATAAAATATT
24632119 TAAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:24633906 original size:34 final size:33
Alignment explanation
Indices: 24633868--24633932 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
24633858 AAATTTTATA
**
24633868 AAATAAAATAATTATTTTATGTAAAAATATATTT
1 AAATAAAATAAAAATTTTAT-TAAAAATATATTT
* *
24633902 AAATATAATAAAAATTTTATTAAAATTATAT
1 AAATAAAATAAAAATTTTATTAAAAATATAT
24633933 ACAAGAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 10 0.37
34 17 0.63
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (33 bp):
AAATAAAATAAAAATTTTATTAAAAATATATTT
Found at i:24640891 original size:18 final size:18
Alignment explanation
Indices: 24640868--24640916 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
24640858 TTTAGATAAT
24640868 TTTTTATTAATATATATA
1 TTTTTATTAATATATATA
* *
24640886 TTTTTAATAAAATATATTTA
1 TTTTT-AT-TAATATATATA
*
24640906 TTTTAATTAAT
1 TTTTTATTAAT
24640917 CTAAAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.32
19 4 0.16
20 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTATTAATATATATA
Found at i:24640942 original size:27 final size:24
Alignment explanation
Indices: 24640877--24640957 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 24
24640867 TTTTTTATTA
*
24640877 ATATATATATT-TTTAA-TAAAAT
1 ATATTTATATTATTTAATTAAAAT
* *
24640899 ATATTTATTTTAATTAATCTAAAAT
1 ATATTTATATTATTTAAT-TAAAAT
*
24640924 AATGATTTATATTATTTAA-TAAAAA
1 -AT-ATTTATATTATTTAATTAAAAT
24640949 ATTATTTAT
1 A-TATTTAT
24640958 TAAATTTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
22 9 0.19
23 4 0.09
24 7 0.15
25 12 0.26
26 2 0.04
27 13 0.28
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
ATATTTATATTATTTAATTAAAAT
Found at i:24641554 original size:21 final size:22
Alignment explanation
Indices: 24641528--24641575 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
24641518 TAATTGTCTG
24641528 AATTTAAATT-CATT-ATAAATA
1 AATTTAAATTGCATTGATAAA-A
*
24641549 AATTT-ACTTGCATTGATAAAA
1 AATTTAAATTGCATTGATAAAA
24641570 AATTTA
1 AATTTA
24641576 TAAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 15 0.65
22 5 0.22
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (22 bp):
AATTTAAATTGCATTGATAAAA
Found at i:24645355 original size:3 final size:3
Alignment explanation
Indices: 24645347--24645379 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
24645337 AAGGCTTAGT
24645347 TTG TTG TTG TTG TTG TTG TTG TTG TTG TATG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T-TG TT
24645380 ATCACTCTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:24659950 original size:18 final size:19
Alignment explanation
Indices: 24659924--24659967 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24659914 CTAAATTGAA
* *
24659924 TTATATATATTTTTTATTTT
1 TTATATATA-TTTTAAATTT
24659944 TTATATATATTTTAAATTT
1 TTATATATATTTTAAATTT
24659963 TTATA
1 TTATA
24659968 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:24659962 original size:20 final size:20
Alignment explanation
Indices: 24659924--24659964 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24659914 CTAAATTGAA
**
24659924 TTATATATATTTTTTATTTT
1 TTATATATATTTTAAATTTT
24659944 TTATATATATTTTAAATTTT
1 TTATATATATTTTAAATTTT
24659964 T
1 T
24659965 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATATATATTTTAAATTTT
Found at i:24660828 original size:16 final size:17
Alignment explanation
Indices: 24660807--24660849 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
24660797 AATGTATGAG
24660807 AATTTAATTGATTA-TA
1 AATTTAATTGATTATTA
*
24660823 AATTTAAATGATTATTA
1 AATTTAATTGATTATTA
24660840 AATTTTAATT
1 AA-TTTAATT
24660850 CAAACAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 13 0.57
17 4 0.17
18 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
AATTTAATTGATTATTA
Found at i:24676969 original size:14 final size:16
Alignment explanation
Indices: 24676941--24676978 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
24676931 TCACGCATTA
*
24676941 ATTTTATTATTTAA-T
1 ATTTTATTATGTAATT
24676956 ATTTT-TTATGTAATT
1 ATTTTATTATGTAATT
24676971 ATTTTATT
1 ATTTTATT
24676979 TGGACTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 11 0.55
16 2 0.10
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTTATTATGTAATT
Found at i:24678056 original size:20 final size:21
Alignment explanation
Indices: 24678018--24678057 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24678008 TAATAATTAT
**
24678018 TTTTTTTTTATTTTCATTTCC
1 TTTTTTTTTATTTAAATTTCC
24678039 TTTTTTTTT-TTTAAATTTC
1 TTTTTTTTTATTTAAATTTC
24678058 ATTATGTTCT
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:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTTATTTAAATTTCC
Found at i:24683113 original size:253 final size:253
Alignment explanation
Indices: 24682660--24683172 Score: 1017
Period size: 253 Copynumber: 2.0 Consensus size: 253
24682650 GAAGATGGCC
24682660 TTCAAGAATGGTAAGCTTTCATTTGTGTACTGATGATACGCATAGTCATCCATTCCTGTTTCTGC
1 TTCAAGAATGGTAAGCTTTCATTTGTGTACTGATGATACGCATAGTCATCCATTCCTGTTTCTGC
24682725 AAACCAATTAGCAAGGGCAGGGAATAGCCTCTCCTCTGCTCTCTATCCAATGTATTTGATTCCAA
66 AAACCAATTAGCAAGGGCAGGGAATAGCCTCTCCTCTGCTCTCTATCCAATGTATTTGATTCCAA
*
24682790 GTCTCAACACAAGATCAATTCATAAACTCCTTGTTTTAATGTTCTAAATAGTTAATTCTAGTTGC
131 GTCTCAACACAAGATCAATTCATAAACTCCTTGTTTTAATGTTCTAAATAGTTAATTCTAGTTAC
24682855 AGAGTTACTCAATATAATTGTATCTTTTAATTTAATGTAGCTCAAAGAAAGCGAATGA
196 AGAGTTACTCAATATAATTGTATCTTTTAATTTAATGTAGCTCAAAGAAAGCGAATGA
24682913 TTCAAGAATGGTAAGCTTTCATTTGTGTACTGATGATACGCATAGTCATCCATTCCTGTTTCTGC
1 TTCAAGAATGGTAAGCTTTCATTTGTGTACTGATGATACGCATAGTCATCCATTCCTGTTTCTGC
24682978 AAACCAATTAGCAAGGGCAGGGAATAGCCTCTCCTCTGCTCTCTATCCAATGTATTTGATTCCAA
66 AAACCAATTAGCAAGGGCAGGGAATAGCCTCTCCTCTGCTCTCTATCCAATGTATTTGATTCCAA
24683043 GTCTCAACACAAGATCAATTCATAAACTCCTTGTTTTAATGTTCTAAATAGTTAATTCTAGTTAC
131 GTCTCAACACAAGATCAATTCATAAACTCCTTGTTTTAATGTTCTAAATAGTTAATTCTAGTTAC
24683108 AGAGTTACTCAATATAATTGTATCTTTTAATTTAATGTAGCTCAAAGAAAGCGAATGA
196 AGAGTTACTCAATATAATTGTATCTTTTAATTTAATGTAGCTCAAAGAAAGCGAATGA
24683166 TTCAAGA
1 TTCAAGA
24683173 CAGCAGTGGG
Statistics
Matches: 259, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 259 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (253 bp):
TTCAAGAATGGTAAGCTTTCATTTGTGTACTGATGATACGCATAGTCATCCATTCCTGTTTCTGC
AAACCAATTAGCAAGGGCAGGGAATAGCCTCTCCTCTGCTCTCTATCCAATGTATTTGATTCCAA
GTCTCAACACAAGATCAATTCATAAACTCCTTGTTTTAATGTTCTAAATAGTTAATTCTAGTTAC
AGAGTTACTCAATATAATTGTATCTTTTAATTTAATGTAGCTCAAAGAAAGCGAATGA
Found at i:24686900 original size:12 final size:11
Alignment explanation
Indices: 24686873--24686932 Score: 61
Period size: 12 Copynumber: 5.3 Consensus size: 11
24686863 CTTTTTGTTA
24686873 TTTTATTTTAT
1 TTTTATTTTAT
*
24686884 TTTTATTCTTGT
1 TTTTATT-TTAT
24686896 TTTTATTTTTAT
1 TTTTA-TTTTAT
24686908 CTTTTA--TTAT
1 -TTTTATTTTAT
24686918 TATTTATTTTAT
1 T-TTTATTTTAT
24686930 TTT
1 TTT
24686933 AAGATAATAG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
9 1 0.02
10 8 0.20
11 9 0.22
12 16 0.39
13 7 0.17
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:24686925 original size:7 final size:6
Alignment explanation
Indices: 24686873--24686922 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
24686863 CTTTTTGTTA
* * *
24686873 TTTTA- TTTTAT TTTTAT TCTTGT TTTTAT TTTTAT CTTTTAT TATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT
24686921 TT
1 TT
24686923 ATTTTATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 5 0.14
6 26 0.70
7 6 0.16
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:24687861 original size:24 final size:21
Alignment explanation
Indices: 24687821--24687875 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
24687811 GAGTCATTTC
*
24687821 TATTTTTTGATATTTTTTATTTAA
1 TATTTTTT-TTATTTTTT-TTT-A
*
24687845 TATTTTTTTTATGTTTTTTTTT
1 TATTTTTTTTAT-TTTTTTTTA
24687867 TATTTTTTT
1 TATTTTTTT
24687876 GCATGATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.32
23 6 0.21
24 13 0.46
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (21 bp):
TATTTTTTTTATTTTTTTTTA
Found at i:24687861 original size:25 final size:22
Alignment explanation
Indices: 24687823--24687876 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
24687813 GTCATTTCTA
24687823 TTTTTTGATATTTTTTATTTAATAT
1 TTTTTTGATATTTTTT-TTT--TAT
* *
24687848 TTTTTTTATGTTTTTTTTTTAT
1 TTTTTTGATATTTTTTTTTTAT
24687870 TTTTTTG
1 TTTTTTG
24687877 CATGATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
24 3 0.12
25 14 0.54
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTTTGATATTTTTTTTTTAT
Found at i:24687863 original size:11 final size:11
Alignment explanation
Indices: 24687823--24687875 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
24687813 GTCATTTCTA
*
24687823 TTTTTTGATATT
1 TTTTTTTATA-T
24687835 TTTTATTTAATAT
1 TTTT-TTT-ATAT
*
24687848 TTTTTTTATGT
1 TTTTTTTATAT
*
24687859 TTTTTTTTTAT
1 TTTTTTTATAT
24687870 TTTTTT
1 TTTTTT
24687876 GCATGATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 18 0.51
12 7 0.20
13 7 0.20
14 3 0.09
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTTTATAT
Found at i:24687863 original size:13 final size:12
Alignment explanation
Indices: 24687823--24687875 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
24687813 GTCATTTCTA
*
24687823 TTTTTTGATATTT
1 TTTTTTTAT-TTT
* * *
24687836 TTTATTTAATAT
1 TTTTTTTATTTT
24687848 TTTTTTTATGTTT
1 TTTTTTTAT-TTT
24687861 TTTTTTTATTTT
1 TTTTTTTATTTT
24687873 TTT
1 TTT
24687876 GCATGATTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
12 15 0.47
13 17 0.53
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (12 bp):
TTTTTTTATTTT
Found at i:24687972 original size:24 final size:26
Alignment explanation
Indices: 24687936--24687983 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
24687926 TTAATTATCG
24687936 AATGATGAAATTTATA-AAAATTTCA
1 AATGATGAAATTTATATAAAATTTCA
24687961 AATGAT-AAATTTATATAAAATTT
1 AATGATGAAATTTATATAAAATTT
24687984 TTAGGTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (26 bp):
AATGATGAAATTTATATAAAATTTCA
Found at i:24689575 original size:17 final size:18
Alignment explanation
Indices: 24689529--24689580 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
24689519 ATCTACATTC
24689529 TATGCATCATTTTCATAT
1 TATGCATCATTTTCATAT
*
24689547 TAT-CATATCATTTT-ATTT
1 TATGC--ATCATTTTCATAT
24689565 TATGCATCATTTTCAT
1 TATGCATCATTTTCAT
24689581 GATCATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 9 0.31
18 11 0.38
19 9 0.31
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.54
Consensus pattern (18 bp):
TATGCATCATTTTCATAT
Found at i:24693442 original size:23 final size:23
Alignment explanation
Indices: 24693416--24693459 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24693406 GAAGCCTATG
24693416 AATGGTAATCAAG-TGATGAAAAT
1 AATGGTAATC-AGTTGATGAAAAT
*
24693439 AATGGTGATCAGTTGATGAAA
1 AATGGTAATCAGTTGATGAAA
24693460 CTTGTTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (23 bp):
AATGGTAATCAGTTGATGAAAAT
Found at i:24693907 original size:28 final size:29
Alignment explanation
Indices: 24693866--24693921 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
24693856 AACGAGAATC
24693866 TTTGAGGTTTCAAAT-AAGAATATTTGAGT
1 TTTGAGGTTTCAAATGAA-AATATTTGAGT
*
24693895 TTTGA-GTTTCAAATGAAAATCTTTGAG
1 TTTGAGGTTTCAAATGAAAATATTTGAG
24693922 GTGTGAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (29 bp):
TTTGAGGTTTCAAATGAAAATATTTGAGT
Found at i:24694355 original size:41 final size:41
Alignment explanation
Indices: 24694245--24694537 Score: 336
Period size: 41 Copynumber: 7.1 Consensus size: 41
24694235 GATTGTCGAT
* * * *
24694245 GAGCAATTTATTTTTTAAAATTGTGATGCCTCTATTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* *
24694286 GAGCAATTTATTTTTTCAAAGTTTTGGTGCCGCTGTTTAGAG
1 GAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
*
24694328 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTCTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* * * *
24694369 GAGCAATTTATTTTTTCAAACTTGCGGTGCCTCTGTCTAAAG
1 GAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* * * * * *
24694411 GAGCAATTTATTTTTCAAAGTTGCGGTGCTTATATTTAAAT
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* *
24694452 GAGCAATTTATTTTTTAAAGTTGTGTTGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* * * * *
24694493 GAGC-ATTTATTTTTTCAAAGTCGTTGAGCATCTATTTAGAG
1 GAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
24694534 GAGC
1 GAGC
24694538 TTTGTTTACT
Statistics
Matches: 214, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
40 5 0.02
41 138 0.64
42 71 0.33
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (41 bp):
GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
Found at i:24694384 original size:83 final size:83
Alignment explanation
Indices: 24694245--24694537 Score: 383
Period size: 83 Copynumber: 3.5 Consensus size: 83
24694235 GATTGTCGAT
* * * *
24694245 GAGCAATTTATTTTTTAAAATTGTGATGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTT
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTG
*
24694310 TGGTGCCGCTGTTTAGAG
66 TGGTGCCTCTGTTTAGAG
* *
24694328 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTCTTTAGAGGAGCAATTTATTTTTTCAAACTTG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTG
* * *
24694393 CGGTGCCTCTGTCTAAAG
66 TGGTGCCTCTGTTTAGAG
* * * * *
24694411 GAGCAATTTATTTTTCAAAGTTGCGGTGCTTATATTTAAATGAGCAATTTATTTTTT-AAAGTTG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTG
*
24694475 TGTTGCCTCTGTTTAGAG
66 TGGTGCCTCTGTTTAGAG
* * * *
24694493 GAGC-ATTTATTTTTTCAAAGTCGTTGAGCATCTATTTAGAGGAGC
1 GAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGC
24694538 TTTGTTTACT
Statistics
Matches: 180, Mismatches: 29, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
81 5 0.03
82 51 0.28
83 124 0.69
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (83 bp):
GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTTG
TGGTGCCTCTGTTTAGAG
Found at i:24694465 original size:124 final size:125
Alignment explanation
Indices: 24694245--24694511 Score: 360
Period size: 124 Copynumber: 2.2 Consensus size: 125
24694235 GATTGTCGAT
* * *
24694245 GAGCAATTTATTTTTT-AAAATTGTGATGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAGTT
1 GAGCAATTTATTTTTTCAAAATTGCGATGCCTCTATCTAAAGGAGCAATTTATTTTTTCAAAGTT
** * * *
24694309 TTGGTGCCGCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTCTTTAGAG
66 GCGGTGCCGATATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTCTTTAGAG
* * *
24694369 GAGCAATTTATTTTTTCAAACTTGCGGTGCCTCTGTCTAAAGGAGCAATTTA-TTTTTCAAAGTT
1 GAGCAATTTATTTTTTCAAAATTGCGATGCCTCTATCTAAAGGAGCAATTTATTTTTTCAAAGTT
** * * * *
24694433 GCGGTGCTTATATTTAAATGAGCAATTTATTTTTTAAAGTTGTGTTGCCTCTGTTTAGAG
66 GCGGTGCCGATATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTCTTTAGAG
24694493 GAGC-ATTTATTTTTTCAAA
1 GAGCAATTTATTTTTTCAAA
24694512 GTCGTTGAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
123 15 0.12
124 81 0.65
125 29 0.23
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (125 bp):
GAGCAATTTATTTTTTCAAAATTGCGATGCCTCTATCTAAAGGAGCAATTTATTTTTTCAAAGTT
GCGGTGCCGATATTTAAAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTCTTTAGAG
Found at i:24694797 original size:12 final size:11
Alignment explanation
Indices: 24694770--24694834 Score: 64
Period size: 10 Copynumber: 5.9 Consensus size: 11
24694760 CTTTTTGTTA
24694770 TTTTATTTTAT
1 TTTTATTTTAT
*
24694781 TTTTATTCTTGT
1 TTTTATT-TTAT
24694793 TTTTA-TTT-T
1 TTTTATTTTAT
*
24694802 CTTTATTATTAT
1 TTTTATT-TTAT
24694814 TATTTATTTTA-
1 T-TTTATTTTAT
24694825 TTTTATTTTA
1 TTTTATTTTA
24694835 AGATAATAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
9 5 0.11
10 12 0.26
11 11 0.24
12 12 0.26
13 6 0.13
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:24694813 original size:27 final size:28
Alignment explanation
Indices: 24694767--24694834 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
24694757 CAACTTTTTG
* * *
24694767 TTATTTTATTTTATTTTTATTCTTGT-TT
1 TTATTTTACTTTATTATTATTATT-TATT
24694795 TTATTTT-CTTTATTATTATTATTTATT
1 TTATTTTACTTTATTATTATTATTTATT
*
24694822 TTATTTTATTTTA
1 TTATTTTACTTTA
24694835 AGATAATAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 22 0.65
28 11 0.32
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (28 bp):
TTATTTTACTTTATTATTATTATTTATT
Found at i:24694816 original size:18 final size:17
Alignment explanation
Indices: 24694767--24694831 Score: 66
Period size: 16 Copynumber: 3.9 Consensus size: 17
24694757 CAACTTTTTG
24694767 TTATTTTATTTTATT-T
1 TTATTTTATTTTATTAT
*
24694783 TTATTCTT-GTTT-TTAT
1 TTATT-TTATTTTATTAT
24694799 TT-TCTTTATTATTATTAT
1 TTAT-TTTATT-TTATTAT
24694817 TTATTTTATTTTATT
1 TTATTTTATTTTATT
24694832 TTAAGATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
15 5 0.12
16 13 0.32
17 9 0.22
18 12 0.30
19 1 0.03
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (17 bp):
TTATTTTATTTTATTAT
Found at i:24694822 original size:4 final size:5
Alignment explanation
Indices: 24694767--24694834 Score: 57
Period size: 5 Copynumber: 12.6 Consensus size: 5
24694757 CAACTTTTTG
* *
24694767 TTATT TTATT TTATTT TTATT CTTGTTT TTATT TT-CT TTATT ATTATTAT
1 TTATT TTATT TTA-TT TTATT -TT-ATT TTATT TTATT TTATT -TTA-T-T
24694817 TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTA
24694835 AGATAATAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
4 3 0.06
5 29 0.56
6 13 0.25
7 6 0.12
8 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:24695763 original size:13 final size:13
Alignment explanation
Indices: 24695709--24695765 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
24695699 ACTATTTCTA
24695709 TTTTTTT-GATTTT
1 TTTTTTTAG-TTTT
* *
24695722 TTTATTTAG-TAT
1 TTTTTTTAGTTTT
*
24695734 TTTATTTATGTTTT
1 TTTTTTTA-GTTTT
24695748 TTTTTTTAGTTTT
1 TTTTTTTAGTTTT
24695761 TTTTT
1 TTTTT
24695766 GCATGATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
12 10 0.27
13 17 0.46
14 10 0.27
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (13 bp):
TTTTTTTAGTTTT
Found at i:24695984 original size:8 final size:9
Alignment explanation
Indices: 24695963--24695987 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24695953 ATTTTCAAAC
24695963 AAAAAATAT
1 AAAAAATAT
24695972 AAAAAATAT
1 AAAAAATAT
24695981 AAAAAAT
1 AAAAAAT
24695988 TTGGAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATAT
Found at i:24696338 original size:10 final size:10
Alignment explanation
Indices: 24696323--24696347 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24696313 TTTTCTTTCT
24696323 AAAAAAATAA
1 AAAAAAATAA
24696333 AAAAAAATAA
1 AAAAAAATAA
24696343 AAAAA
1 AAAAA
24696348 GAATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:24700367 original size:26 final size:27
Alignment explanation
Indices: 24700320--24700381 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
24700310 TCATTGAAAA
*
24700320 TTTTTTTTCAATCATAGCTATAAT-AG
1 TTTTTTTTCAACCATAGCTATAATAAG
* * *
24700346 TTTTTTTTCAACCGTAGTTATAGTAAG
1 TTTTTTTTCAACCATAGCTATAATAAG
24700373 TTTTATTTT
1 TTTT-TTTT
24700382 TATTTTCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.67
27 6 0.20
28 4 0.13
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (27 bp):
TTTTTTTTCAACCATAGCTATAATAAG
Found at i:24702133 original size:155 final size:156
Alignment explanation
Indices: 24701737--24702212 Score: 749
Period size: 156 Copynumber: 3.0 Consensus size: 156
24701727 TTAGTGCATG
* * * *
24701737 TCGATTCTTGTATTTATTTTATACAAAATATTAAAATTTATATATTTATATAATATTTTACATAA
1 TCGATTCATATATTTATATTATATAAAATATTAAAATTTATATATTTATATAATATTTTACATAA
24701802 AAATTATATATCATACTTTATAACAATACGAAAATATCAAATATATTTTTTAATTTTATTATACA
66 AAATTATATATCATACTTTATAACAATACGAAAATATCAAATATATTTTTTAATTTTATTATACA
24701867 TATATAATTATTATTAAAATTTTAAA
131 TATATAATTATTATTAAAATTTTAAA
24701893 TCGATTCATATATTTATATTATATAAAATATTAAAATTTATATATTTATATAATATTTTACATAA
1 TCGATTCATATATTTATATTATATAAAATATTAAAATTTATATATTTATATAATATTTTACATAA
*
24701958 AAATTATATATCATACTTTATAACAATACGAAAATATCAAATATATTTTTTAATTTTATTATACC
66 AAATTATATATCATACTTTATAACAATACGAAAATATCAAATATATTTTTTAATTTTATTATACA
24702023 TATATAATTATTATTAAAATTTTAAA
131 TATATAATTATTATTAAAATTTTAAA
24702049 TCGATTCATATA-TTATATTATATAAAATATTAAAATTTATATATTTATATAATATTTTACATAA
1 TCGATTCATATATTTATATTATATAAAATATTAAAATTTATATATTTATATAATATTTTACATAA
* * * * * * *
24702113 AAATTACATATCATAATTTATATCAATA-TATCAATATGAAAATATATATTTTTTTTTAATTTTG
66 AAATTATATATCATACTTTATAACAATACGA-AAATAT--CAA-ATATA---TTTTTTAATTTTA
24702177 TTATACATATATATAATTATTATTAAAATTTTAAA
124 TTATAC--ATATATAATTATTATTAAAATTTTAAA
24702212 T
1 T
24702213 TATATTACTT
Statistics
Matches: 298, Mismatches: 13, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
154 1 0.00
155 82 0.28
156 163 0.55
157 2 0.01
158 5 0.02
161 18 0.06
163 27 0.09
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.48
Consensus pattern (156 bp):
TCGATTCATATATTTATATTATATAAAATATTAAAATTTATATATTTATATAATATTTTACATAA
AAATTATATATCATACTTTATAACAATACGAAAATATCAAATATATTTTTTAATTTTATTATACA
TATATAATTATTATTAAAATTTTAAA
Found at i:24705241 original size:2 final size:2
Alignment explanation
Indices: 24705234--24705282 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
24705224 TCAAATTAAG
* * **
24705234 AT AT AT AT AT AT AT AT AT AC AT AC AT GC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24705276 AT AT AT A
1 AT AT AT A
24705283 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:24706240 original size:25 final size:25
Alignment explanation
Indices: 24706212--24706260 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
24706202 GTTTAGATCA
24706212 TATATATATATATATATAATTTAAT
1 TATATATATATATATATAATTTAAT
* * *
24706237 TATATATTTATATTTATATTTTAA
1 TATATATATATATATATAATTTAA
24706261 AAATAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATATATATATATATATAATTTAAT
Found at i:24706288 original size:17 final size:18
Alignment explanation
Indices: 24706266--24706303 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 18
24706256 TTTAAAAATA
24706266 ATATTAAAAA-ATATTTT
1 ATATTAAAAAGATATTTT
24706283 ATATTAAAAATGATATTTT
1 ATATTAAAAA-GATATTTT
24706302 AT
1 AT
24706304 TAATTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
19 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATATTAAAAAGATATTTT
Found at i:24707062 original size:30 final size:31
Alignment explanation
Indices: 24706993--24707062 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
24706983 TATTTAAATA
* * * *
24706993 TAAATTAATAATTAATAATTTATTTGAATCC
1 TAAATTAAAAATTAAAAACTTAATTGAATCC
*
24707024 -AAACTAAAAATTAAAAACTTAATTGAA-CC
1 TAAATTAAAAATTAAAAACTTAATTGAATCC
24707053 TAAATTAAAA
1 TAAATTAAAA
24707063 TTCAATTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (31 bp):
TAAATTAAAAATTAAAAACTTAATTGAATCC
Found at i:24707371 original size:30 final size:30
Alignment explanation
Indices: 24707335--24707424 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
24707325 TTTAACATGC
* **
24707335 TCATCATATTCCACTAACTACGTAGATTAT
1 TCATCATATTCCATTAACTATATAGATTAT
* *
24707365 TCATCATATTCCATTAACTTTATAGATTAC
1 TCATCATATTCCATTAACTATATAGATTAT
24707395 TCATCATATTCCATTAACTATATAGATTAT
1 TCATCATATTCCATTAACTATATAGATTAT
24707425 ATAGTTAAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.41
Consensus pattern (30 bp):
TCATCATATTCCATTAACTATATAGATTAT
Found at i:24707768 original size:17 final size:16
Alignment explanation
Indices: 24707744--24707792 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
24707734 TTTTATTTGG
24707744 ATTTAAATAAATTTAA
1 ATTTAAATAAATTTAA
*
24707760 ATATTAAATATATATTAA
1 AT-TTAAATAAAT-TTAA
*
24707778 ATTATAATTAAATTT
1 ATT-TAAATAAATTT
24707793 TAACTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.07
17 12 0.44
18 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTAAATAAATTTAA
Found at i:24709583 original size:2 final size:2
Alignment explanation
Indices: 24709576--24709608 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24709566 TCCGACCTAC
24709576 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 A
24709609 AAACTACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24709746 original size:42 final size:41
Alignment explanation
Indices: 24709714--24709804 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 41
24709704 ATACATAAAT
*
24709714 ATAATATTTTTATTAAGTA-AATATTTTAAATTAAAATATTAA
1 ATAATAATTTTATTAA-TATAATATTTTAAATTAAAATA-TAA
* *
24709756 ATAATAATTTTATTAATATAATA-TATGAATATAAAAT-TAA
1 ATAATAATTTTATTAATATAATATTTTAAAT-TAAAATATAA
24709796 ATAAATAAT
1 AT-AATAAT
24709805 AAAAATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
40 5 0.12
41 13 0.30
42 25 0.58
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (41 bp):
ATAATAATTTTATTAATATAATATTTTAAATTAAAATATAA
Found at i:24712712 original size:3 final size:3
Alignment explanation
Indices: 24712698--24712727 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
24712688 TGGTCCCCCA
*
24712698 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
24712728 CCTTTCCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.03
Consensus pattern (3 bp):
AAC
Found at i:24715048 original size:33 final size:33
Alignment explanation
Indices: 24715006--24715070 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
24714996 GAAACTTTTT
*
24715006 TATTATGTTCGATATGGGATTCAAGACTCTTCC
1 TATTATGTTCGATATGAGATTCAAGACTCTTCC
* *
24715039 TATTATGTTCTATGTGAGATTCAAGACTCTTC
1 TATTATGTTCGATATGAGATTCAAGACTCTTC
24715071 TTTAGGTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (33 bp):
TATTATGTTCGATATGAGATTCAAGACTCTTCC
Found at i:24715533 original size:18 final size:18
Alignment explanation
Indices: 24715490--24715526 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24715480 AGATTCAGAC
24715490 GGCCGTGAGATTGGTTTT
1 GGCCGTGAGATTGGTTTT
24715508 GGCCGTGAGATTGGTTTT
1 GGCCGTGAGATTGGTTTT
24715526 G
1 G
24715527 CAGGTGAATT
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:0.11, C:0.11, G:0.41, T:0.38
Consensus pattern (18 bp):
GGCCGTGAGATTGGTTTT
Found at i:24723914 original size:12 final size:12
Alignment explanation
Indices: 24723897--24723941 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 12
24723887 TTTTTTATAA
24723897 ATAAAAAAATTT
1 ATAAAAAAATTT
24723909 ATAAAAAATATTTTT
1 ATAAAAAA-A--TTT
24723924 GATAAAAAAATTT
1 -ATAAAAAAATTT
24723937 ATAAA
1 ATAAA
24723942 CGAATTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 13 0.45
13 4 0.14
15 4 0.14
16 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATAAAAAAATTT
Found at i:24733902 original size:63 final size:63
Alignment explanation
Indices: 24733826--24734009 Score: 280
Period size: 63 Copynumber: 2.8 Consensus size: 63
24733816 AATTATAATA
* *
24733826 ATAATAATTATTATTTTTAATCTTAATGTAATTAATTTTA-CTGTCTATCTAATTTTTTAAATTA
1 ATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATC-GTCTATCTAA--TTTT---TTA
24733890 TAATT
60 -AATT
24733895 ATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAATTTTTTAAATT
1 ATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAATTTTTTAAATT
24733958 ATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAA
1 ATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAA
24734010 ATGAAGTTTA
Statistics
Matches: 112, Mismatches: 2, Indels: 8
0.92 0.02 0.07
Matches are distributed among these distances:
63 56 0.50
64 3 0.03
67 4 0.04
69 48 0.43
70 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (63 bp):
ATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAATTTTTTAAATT
Found at i:24733911 original size:69 final size:66
Alignment explanation
Indices: 24733816--24734009 Score: 297
Period size: 69 Copynumber: 2.9 Consensus size: 66
24733806 TTAAAATTAC
* * *
24733816 AATTATAATAATAATAATTATTATTTTTAATCTTAATGTAATTAATTTTA-CTGTCTATCTAATT
1 AATTATAATTATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATC-GTCTATCTAA--
24733880 TTTT
63 TTTT
24733884 AAATTATAATTATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAATT
1 -AATTATAATTATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAATT
24733949 TT
65 TT
24733951 --TTA-AATTATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAA
1 AATTATAATTATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAA
24734010 ATGAAGTTTA
Statistics
Matches: 121, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
63 56 0.46
64 3 0.02
67 4 0.03
69 57 0.47
70 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (66 bp):
AATTATAATTATAATTATTATTATTTTTAATCTTAATATAATTAATTTTATCGTCTATCTAATTT
T
Found at i:24733933 original size:21 final size:22
Alignment explanation
Indices: 24733885--24733997 Score: 71
Period size: 21 Copynumber: 5.3 Consensus size: 22
24733875 TAATTTTTTA
* *
24733885 AATTATAAT-TATAATTATTATT
1 AATTTTAATCTATAA-TATAATT
*
24733907 ATTTTTAATCT-TAATATAATT
1 AATTTTAATCTATAATATAATT
* *
24733928 AATTTT-ATCGTCT-ATCTAATT
1 AATTTTAATC-TATAATATAATT
*
24733949 --TTTTAAAT-TATAATTATTATT
1 AATTTT-AATCTATAA-TATAATT
*
24733970 ATTTTTAATCT-TAATATAATT
1 AATTTTAATCTATAATATAATT
24733991 AATTTTA
1 AATTTTA
24733998 TCGTCTATCT
Statistics
Matches: 71, Mismatches: 10, Indels: 21
0.70 0.10 0.21
Matches are distributed among these distances:
19 6 0.08
20 4 0.06
21 38 0.54
22 17 0.24
23 6 0.08
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (22 bp):
AATTTTAATCTATAATATAATT
Found at i:24738235 original size:14 final size:14
Alignment explanation
Indices: 24738204--24738252 Score: 71
Period size: 15 Copynumber: 3.4 Consensus size: 14
24738194 GGTTTATTTA
24738204 TATTTGTTTAAGATT
1 TATTTGTTTAA-ATT
24738219 TATTTGTTTAAATT
1 TATTTGTTTAAATT
*
24738233 TATTTGATTATAATT
1 TATTTGTTTA-AATT
24738248 TATTT
1 TATTT
24738253 ATTATTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (14 bp):
TATTTGTTTAAATT
Found at i:24738256 original size:14 final size:15
Alignment explanation
Indices: 24738216--24738257 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
24738206 TTTGTTTAAG
*
24738216 ATTTATTTGTT-TAA
1 ATTTATTTATTATAA
24738230 ATTTATTTGATTAT-A
1 ATTTATTT-ATTATAA
24738245 ATTTATTTATTAT
1 ATTTATTTATTAT
24738258 TTATAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 13 0.52
15 11 0.44
16 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
ATTTATTTATTATAA
Found at i:24738286 original size:12 final size:12
Alignment explanation
Indices: 24738271--24738311 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
24738261 TAAATATATT
24738271 TTTATGTAAATA
1 TTTATGTAAATA
24738283 TTTATG-AACATA
1 TTTATGTAA-ATA
*
24738295 TTTAT-TTAATA
1 TTTATGTAAATA
24738306 TTTATG
1 TTTATG
24738312 AATAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (12 bp):
TTTATGTAAATA
Found at i:24738309 original size:23 final size:23
Alignment explanation
Indices: 24738219--24738327 Score: 94
Period size: 23 Copynumber: 4.5 Consensus size: 23
24738209 GTTTAAGATT
* *
24738219 TATTTGTTTAA-ATTTATTTGATTA
1 TATTTATTTAATATTTA--TGAATA
* *
24738243 TAATTTATTTATTATTTATAAATA
1 T-ATTTATTTAATATTTATGAATA
* *
24738267 TATTTTTATGTAAATATTTATGAACA
1 TA--TTTAT-TTAATATTTATGAATA
24738293 TATTTATTTAATATTTATGAATA
1 TATTTATTTAATATTTATGAATA
*
24738316 AATTTATTTAAT
1 TATTTATTTAAT
24738328 TTAATTGAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
23 26 0.38
24 11 0.16
25 13 0.19
26 19 0.28
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (23 bp):
TATTTATTTAATATTTATGAATA
Found at i:24738336 original size:23 final size:23
Alignment explanation
Indices: 24738279--24738337 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
24738269 TTTTTATGTA
* * *
24738279 AATATTTATGAACATATTTATTT
1 AATATTAATGAATAAATTTATTT
*
24738302 AATATTTATGAATAAATTTATTT
1 AATATTAATGAATAAATTTATTT
24738325 AAT-TTAATTGAAT
1 AATATTAA-TGAAT
24738338 TGAATATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (23 bp):
AATATTAATGAATAAATTTATTT
Found at i:24741072 original size:18 final size:18
Alignment explanation
Indices: 24741051--24741107 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
24741041 AGATAATTTT
24741051 AATATAAAATATAATATA
1 AATATAAAATATAATATA
*
24741069 AATATAAAAATTTTAATAT-
1 AATAT-AAAA-TATAATATA
**
24741088 TTTATAAAATATAA-ATA
1 AATATAAAATATAATATA
24741105 AAT
1 AAT
24741108 GAATCGTTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
16 2 0.07
17 5 0.17
18 9 0.30
19 7 0.23
20 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATAAAATATAATATA
Found at i:24744586 original size:20 final size:19
Alignment explanation
Indices: 24744558--24744598 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
24744548 GATTACCATA
*
24744558 TTAATTATTATATTTATAAT
1 TTAAATATTATA-TTATAAT
*
24744578 TTAAATATTTTATTATAAT
1 TTAAATATTATATTATAAT
24744597 TT
1 TT
24744599 TAGAATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAAATATTATATTATAAT
Found at i:24745313 original size:20 final size:21
Alignment explanation
Indices: 24745288--24745331 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
24745278 AGTTTGTTTG
*
24745288 AATTTATATGAA-AAATTAAA
1 AATTTATATGAATAAAATAAA
*
24745308 AATTTATTTGAATAAAATAAA
1 AATTTATATGAATAAAATAAA
24745329 AAT
1 AAT
24745332 ATAATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTTATATGAATAAAATAAA
Found at i:24745330 original size:22 final size:22
Alignment explanation
Indices: 24745299--24745362 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 22
24745289 ATTTATATGA
* *
24745299 AAAATTAAAAATTTATTTGAAT
1 AAAATAAAAAATTTATTTAAAT
24745321 AAAATAAAAATATAATTTATTTAAAT
1 AAAAT--AAA-A-AATTTATTTAAAT
24745347 AAAATAATAAAATTTA
1 AAAATAA-AAAATTTA
24745363 AGTTTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 5 0.14
23 6 0.17
24 5 0.14
25 2 0.06
26 17 0.49
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATAAAAAATTTATTTAAAT
Found at i:24746961 original size:94 final size:94
Alignment explanation
Indices: 24746854--24747041 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
24746844 CAAATGCAAT
24746854 AAATTCACCACCAGTTGATCAGAACCTGGAAAGCGTTTTCCTTTCCCAGCAGGCAGTTGCCCATG
1 AAATTCACCACCAGTTGATCAGAACCTGGAAAGCGTTTTCCTTTCCCAGCAGGCAGTTGCCCATG
24746919 TATGAGCTGTTATTTCTTATATATATATA
66 TATGAGCTGTTATTTCTTATATATATATA
*
24746948 AAATTCACCACCAGTTGATCAGAACCTGGAAAGCGTTTTCCTTTCCCAGCAGGCAGTTGGCCATG
1 AAATTCACCACCAGTTGATCAGAACCTGGAAAGCGTTTTCCTTTCCCAGCAGGCAGTTGCCCATG
24747013 TATGAGCTGTTATTTCTTATATATATATA
66 TATGAGCTGTTATTTCTTATATATATATA
24747042 TATATATATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (94 bp):
AAATTCACCACCAGTTGATCAGAACCTGGAAAGCGTTTTCCTTTCCCAGCAGGCAGTTGCCCATG
TATGAGCTGTTATTTCTTATATATATATA
Found at i:24748991 original size:16 final size:15
Alignment explanation
Indices: 24748970--24749009 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
24748960 GTTTTTTATT
*
24748970 ATTAAAATTATGAGAG
1 ATTAAAATTATGA-AA
*
24748986 ATTAAAATTATTAAA
1 ATTAAAATTATGAAA
24749001 ATTAAAATT
1 ATTAAAATT
24749010 TTAATTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
ATTAAAATTATGAAA
Found at i:24753287 original size:123 final size:124
Alignment explanation
Indices: 24753096--24753326 Score: 392
Period size: 123 Copynumber: 1.9 Consensus size: 124
24753086 TAGGTTGTAT
* *
24753096 AACAATTCCATGGAAGATGTATGAAGTACTAATGATAACCTTTGGGATAATTCTATTTCATAACT
1 AACAATTCCATGGAAGATGTATGAAGTACTAATGAGAACCTTTGGGATAATTCTATTTCATAAAT
24753161 AATGCAGATAAATTTGAA-ATTTTCAATCATTAATCAATTTGCAATATGTGGGTTATAA
66 AATGCAGATAAATTTGAATATTTTCAATCATTAATCAATTTGCAATATGTGGGTTATAA
* * * *
24753219 AACAGTTCCATGGTAGATGTATGAAGTACTAATTAGAACCTTTGGGATAATTCTGTTTCATAAAT
1 AACAATTCCATGGAAGATGTATGAAGTACTAATGAGAACCTTTGGGATAATTCTATTTCATAAAT
*
24753284 AATGCAGATAAATTTGAATTTTTTCAATCATTAATCAATTTGC
66 AATGCAGATAAATTTGAATATTTTCAATCATTAATCAATTTGC
24753327 TATCTGTTTG
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
123 77 0.77
124 23 0.23
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (124 bp):
AACAATTCCATGGAAGATGTATGAAGTACTAATGAGAACCTTTGGGATAATTCTATTTCATAAAT
AATGCAGATAAATTTGAATATTTTCAATCATTAATCAATTTGCAATATGTGGGTTATAA
Found at i:24760439 original size:80 final size:81
Alignment explanation
Indices: 24760303--24760452 Score: 266
Period size: 80 Copynumber: 1.9 Consensus size: 81
24760293 TCAATCATTT
*
24760303 TTTGAATTTCAAATTTAAACTCAAACTTAAACGAGAACGTGATTGATTAGACTCTGCCGACAACG
1 TTTGAATTTCAAATTTAAACTCAAAATTAAACGAGAACGTGATTGATTAGACTCTGCCGACAACG
24760368 AGGTCGTCAGTCATCC
66 AGGTCGTCAGTCATCC
* *
24760384 TTTGAATTTCAAATTTGAACTCAAAATT-AACTAGAACGTGATTGATTAGACTCTGCCGACAACG
1 TTTGAATTTCAAATTTAAACTCAAAATTAAACGAGAACGTGATTGATTAGACTCTGCCGACAACG
24760448 AGGTC
66 AGGTC
24760453 ATCAAAAGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
80 40 0.61
81 26 0.39
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (81 bp):
TTTGAATTTCAAATTTAAACTCAAAATTAAACGAGAACGTGATTGATTAGACTCTGCCGACAACG
AGGTCGTCAGTCATCC
Found at i:24762033 original size:28 final size:29
Alignment explanation
Indices: 24761970--24762033 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
24761960 CAAATTATTC
*
24761970 AAAATT-AAATTAAATTATTTTATTTTTA
1 AAAATTCAAATTAAATTATTTTAATTTTA
** *
24761998 TTAA-TCAAATT-AATTTTTTTAATTTTA
1 AAAATTCAAATTAAATTATTTTAATTTTA
24762025 AAAATTCAA
1 AAAATTCAA
24762034 TAACTAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
AAAATTCAAATTAAATTATTTTAATTTTA
Found at i:24770088 original size:23 final size:23
Alignment explanation
Indices: 24770057--24770101 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
24770047 TGTAAAAATA
*
24770057 ATTATTTAATTATATT-ATAATTT
1 ATTAATTAATTAT-TTGATAATTT
24770080 ATTAATTAATTATTTGATAATT
1 ATTAATTAATTATTTGATAATT
24770102 ATAACTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTAATTAATTATTTGATAATTT
Found at i:24782416 original size:19 final size:19
Alignment explanation
Indices: 24782392--24782460 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 19
24782382 TTTATTCGTT
24782392 AAATTTTAAAGTTTTGTTC
1 AAATTTTAAAGTTTTGTTC
24782411 AAATTTT-AAGATAATTTAG-TC
1 AAATTTTAAAG-T--TTT-GTTC
*
24782432 AAAATTTAAAGTTTTGTTC
1 AAATTTTAAAGTTTTGTTC
24782451 AAATTTTAAA
1 AAATTTTAAA
24782461 AGAGTTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
18 4 0.10
19 22 0.52
21 12 0.29
22 4 0.10
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (19 bp):
AAATTTTAAAGTTTTGTTC
Found at i:24784468 original size:62 final size:58
Alignment explanation
Indices: 24784351--24784587 Score: 186
Period size: 59 Copynumber: 4.0 Consensus size: 58
24784341 AATGATCTCT
* * ** *
24784351 TTAAAATGAAAATGTGAAA-AAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTTC
1 TTAAAAT-AAAAT-TTAAAGAAAAACATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC
* * *
24784410 TTGAAAATAAAGTTTTCAAA-AAAAACATTTCTTGAAGAAAAATTTGGAAGTA-CTAATTTTTC
1 TT-AAAATAAA-ATTT-AAAGAAAAACATTT-TT-AAGAAAAAGTTGAAAGTATC-AATTTTTC
* *
24784472 TTAAAAATAAAATTTAAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
1 TT-AAAATAAAATTTAAAGAAAAACATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC
* **
24784531 TTAACAATAAAAACCTT--A-AAATGC---TTTAAGAAAAAGTTGAAAGTATCAATTTTTC
1 TTAA-AAT-AAAA-TTTAAAGAAAAACATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC
24784586 TT
1 TT
24784588 GTACAAAAGC
Statistics
Matches: 148, Mismatches: 19, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
55 32 0.22
58 5 0.03
59 35 0.24
60 28 0.19
61 16 0.11
62 32 0.22
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (58 bp):
TTAAAATAAAATTTAAAGAAAAACATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC
Found at i:24784540 original size:59 final size:58
Alignment explanation
Indices: 24784351--24784542 Score: 208
Period size: 59 Copynumber: 3.2 Consensus size: 58
24784341 AATGATCTCT
* * **
24784351 TTAAAATGAAAATGTGAAAAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTTC
1 TTAAAAT-AAAATTTCAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
* * * * *
24784410 TTGAAAATAAAGTTTTCAAAAAAAACATTTCTTGAAGAAAAATTTGGAAGTA-CTAATTTTTC
1 TT-AAAATAAA-ATTTCAAAAAAAATATTT-TT-AAGGAAAAGTTGAAAGTATC-AATTTTTC
24784472 TTAAAAATAAAATTT-AAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
1 TT-AAAATAAAATTTCAAA-AAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
24784531 TTAACAATAAAA
1 TTAA-AATAAAA
24784543 ACCTTAAAAT
Statistics
Matches: 110, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
58 2 0.02
59 37 0.34
60 25 0.23
61 14 0.13
62 32 0.29
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (58 bp):
TTAAAATAAAATTTCAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC
Found at i:24788576 original size:12 final size:12
Alignment explanation
Indices: 24788559--24788597 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
24788549 GTAAATGAAT
24788559 GAAAAAAAAAAA
1 GAAAAAAAAAAA
*
24788571 G-AAAAAAAAGA
1 GAAAAAAAAAAA
*
24788582 GAAAAAAAAATA
1 GAAAAAAAAAAA
24788594 GAAA
1 GAAA
24788598 TGAGAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:24788577 original size:11 final size:11
Alignment explanation
Indices: 24788561--24788597 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
24788551 AAATGAATGA
24788561 AAAAAAAAAAG
1 AAAAAAAAAAG
*
24788572 AAAAAAAAGAG
1 AAAAAAAAAAG
24788583 AAAAAAAAATAG
1 AAAAAAAAA-AG
24788595 AAA
1 AAA
24788598 TGAGAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:24789739 original size:21 final size:21
Alignment explanation
Indices: 24789692--24789740 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
24789682 TTTATGAGAG
* *
24789692 TCTTTGAATTTCAAATAAGAA
1 TCTTTGAATTTCAAAAAAAAA
*
24789713 TATTTGAATTTCAAAAAAAAA
1 TCTTTGAATTTCAAAAAAAAA
24789734 TCTTTGA
1 TCTTTGA
24789741 GTTTTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (21 bp):
TCTTTGAATTTCAAAAAAAAA
Found at i:24790142 original size:86 final size:84
Alignment explanation
Indices: 24790019--24790456 Score: 489
Period size: 86 Copynumber: 5.2 Consensus size: 84
24790009 TATTGTCAAA
* * * *
24790019 GAGCATTTTATTTTTCAAAGTTGTGGTTGCATTTATTTAAAAGAGTA-TTTATTTTTCAAAGTTG
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCATTTTATTTTTCAAAGTTG
*
24790083 TGGTTGCCTCTATTTATAT
66 TGGTTGCCTCTATTTAAAT
** * * *
24790102 GAGCATTTTATTTTATTTTTAAGTTATGGTTGCCTCTATTTAGAGGAGCATTTTATTTTTTTAAA
1 GAGCATTTTA--TT-TTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCATTTTA-TTTTTCAAA
* * *
24790167 GTTGTGTTTGCCTCTATTTAGAG
62 GTTGTGGTTGCCTCTATTTAAAT
24790190 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCATTTTATTTTTTCTAAAGT
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCATTTTA-TTTTTC-AAAGT
*
24790255 TATGGTTGCCTCTATTTAAAT
64 TGTGGTTGCCTCTATTTAAAT
* * * * *
24790276 GAGCATTTTATTTTTCAAAGTTATAGTTACCTCTATTTAGAGGAGCATTTTATTTTCCACAA---
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCATTTTATTTTTCA-AAGTT
*
24790338 ----TTGCCTCTATTTAAAG
65 GTGGTTGCCTCTATTTAAAT
* * * *
24790354 GAGCATTTTATTTTTCAAAGTTGTGGTTACCT-TCATTTAAAAGAGGATTTTATTTTTTAAAGTT
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCT-ATTTAGAAGAGCATTTTATTTTTCAAAGTT
* *
24790418 GTGGTTACCTCTATTTAGAT
65 GTGGTTGCCTCTATTTAAAT
* *
24790438 GAGCAATTTACTTTTCAAA
1 GAGCATTTTATTTTTCAAA
24790457 ATCATTAAGC
Statistics
Matches: 301, Mismatches: 39, Indels: 29
0.82 0.11 0.08
Matches are distributed among these distances:
77 3 0.01
78 65 0.22
83 10 0.03
84 31 0.10
85 51 0.17
86 99 0.33
87 4 0.01
88 38 0.13
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (84 bp):
GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCATTTTATTTTTCAAAGTTG
TGGTTGCCTCTATTTAAAT
Found at i:24790204 original size:42 final size:42
Alignment explanation
Indices: 24790019--24790456 Score: 471
Period size: 42 Copynumber: 10.5 Consensus size: 42
24790009 TATTGTCAAA
* * * *
24790019 GAGCATTTTATTTTTCAAAGTTGTGGTTGCATTTATTTAAAA
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAG
* * *
24790061 GAGTA-TTTATTTTTCAAAGTTGTGGTTGCCTCTATTTATAT
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAG
** *
24790102 GAGCATTTTATTTTATTTTTAAGTTATGGTTGCCTCTATTTAGAG
1 GAGCATTTTA--TT-TTTCAAAGTTGTGGTTGCCTCTATTTAGAG
* *
24790147 GAGCATTTTATTTTTTTAAAGTTGTGTTTGCCTCTATTTAGAG
1 GAGCATTTTA-TTTTTCAAAGTTGTGGTTGCCTCTATTTAGAG
*
24790190 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAA
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAG
* * *
24790232 GAGCATTTTATTTTTTCTAAAGTTATGGTTGCCTCTATTTAAAT
1 GAGCATTTTA-TTTTTC-AAAGTTGTGGTTGCCTCTATTTAGAG
* * *
24790276 GAGCATTTTATTTTTCAAAGTTATAGTTACCTCTATTTAGAG
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAG
* *
24790318 GAGCATTTTATTTTCCACAA-------TTGCCTCTATTTAAAG
1 GAGCATTTTATTTTTCA-AAGTTGTGGTTGCCTCTATTTAGAG
* * *
24790354 GAGCATTTTATTTTTCAAAGTTGTGGTTACCT-TCATTTAAAA
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCT-ATTTAGAG
* * * *
24790396 GAGGATTTTATTTTTTAAAGTTGTGGTTACCTCTATTTAGAT
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAG
* *
24790438 GAGCAATTTACTTTTCAAA
1 GAGCATTTTATTTTTCAAA
24790457 ATCATTAAGC
Statistics
Matches: 342, Mismatches: 38, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
35 2 0.01
36 30 0.09
41 37 0.11
42 148 0.43
43 52 0.15
44 38 0.11
45 35 0.10
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (42 bp):
GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAG
Found at i:24790311 original size:171 final size:162
Alignment explanation
Indices: 24790019--24790456 Score: 551
Period size: 171 Copynumber: 2.6 Consensus size: 162
24790009 TATTGTCAAA
* *
24790019 GAGCATTTTATTTTTCAAAGTTGTGGTTGCATTTATTTAAAAGAGTA-TTTATTTTTC-AAAGTT
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGC-CTTATTTAAAAGAGCATTTTATTTTTCTAAAGTT
* ** * *
24790082 GTGGTTGCCTCTATTTATATGAGCATTTTATTTTATTTTTAAGTTATGGTTGCCTCTATTTAGAG
65 GTGGTTGCCTCTATTTAAATGAGCATTTTA--TT-TTTCAAAGTTATAGTTACCTCTATTTAGAG
** *
24790147 GAGCATTTTATTTTTTTA-AAGTTGTGTTTGCCTCTATTTAGAG
127 GAGCATTTTA-TTTTCCACAA-------TTGCCTCTATTTAAAG
*
24790190 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCATTTTATTTTTTCTAAAGT
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCT-TATTTAAAAGAGCATTTTA-TTTTTCTAAAGT
*
24790255 TATGGTTGCCTCTATTTAAATGAGCATTTTATTTTTCAAAGTTATAGTTACCTCTATTTAGAGGA
64 TGTGGTTGCCTCTATTTAAATGAGCATTTTATTTTTCAAAGTTATAGTTACCTCTATTTAGAGGA
24790320 GCATTTTATTTTCCACAATTGCCTCTATTTAAAG
129 GCATTTTATTTTCCACAATTGCCTCTATTTAAAG
* *
24790354 GAGCATTTTATTTTTCAAAGTTGTGGTTACCTTCATTTAAAAGAGGATTTTATTTTT-TAAAGTT
1 GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTT-ATTTAAAAGAGCATTTTATTTTTCTAAAGTT
* * * *
24790418 GTGGTTACCTCTATTTAGATGAGCAATTTACTTTTCAAA
65 GTGGTTGCCTCTATTTAAATGAGCATTTTATTTTTCAAA
24790457 ATCATTAAGC
Statistics
Matches: 241, Mismatches: 20, Indels: 21
0.85 0.07 0.07
Matches are distributed among these distances:
162 41 0.17
163 6 0.02
164 62 0.26
170 6 0.02
171 80 0.33
172 6 0.02
173 6 0.02
174 34 0.14
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (162 bp):
GAGCATTTTATTTTTCAAAGTTGTGGTTGCCTTATTTAAAAGAGCATTTTATTTTTCTAAAGTTG
TGGTTGCCTCTATTTAAATGAGCATTTTATTTTTCAAAGTTATAGTTACCTCTATTTAGAGGAGC
ATTTTATTTTCCACAATTGCCTCTATTTAAAG
Found at i:24791614 original size:59 final size:59
Alignment explanation
Indices: 24791551--24791662 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
24791541 TGATCTATTC
24791551 AAAATAAAAATGTGAAAAAAATA-TTTTTGAGAAAAAATTAAAAGTATCAATTTCCCTTG
1 AAAATAAAAATGTGAAAAAAATATTTTTTGA-AAAAAATTAAAAGTATCAATTTCCCTTG
* * ** *
24791610 AAAATAAAGATTTTCAAAAAATATTTTTTTAAAAAAATTAAAAGTATCAATTT
1 AAAATAAAAATGTGAAAAAAATATTTTTTGAAAAAAATTAAAAGTATCAATTT
24791663 TTCTTGTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 41 0.87
60 6 0.13
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (59 bp):
AAAATAAAAATGTGAAAAAAATATTTTTTGAAAAAAATTAAAAGTATCAATTTCCCTTG
Found at i:24792571 original size:23 final size:25
Alignment explanation
Indices: 24792541--24792593 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
24792531 TAAAAATTTT
24792541 TTAAAATT-ATTT-TTAATAATCGA
1 TTAAAATTAATTTATTAATAATCGA
*
24792564 TTAAAATTAATTTAATTATTAATCGA
1 TTAAAATTAATTT-ATTAATAATCGA
24792590 TTAA
1 TTAA
24792594 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 8 0.31
24 4 0.15
26 14 0.54
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
TTAAAATTAATTTATTAATAATCGA
Found at i:24799517 original size:29 final size:30
Alignment explanation
Indices: 24799482--24799550 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
24799472 TAATAAATTC
24799482 ATAATTTAAATATCACATTAAAAATTT-TT
1 ATAATTTAAATATCACATTAAAAATTTATT
* * * * *
24799511 ATCATTTAAATATTAGATTTAATATTTATT
1 ATAATTTAAATATCACATTAAAAATTTATT
24799541 ATAATTTAAA
1 ATAATTTAAA
24799551 GATTATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (30 bp):
ATAATTTAAATATCACATTAAAAATTTATT
Found at i:24804554 original size:22 final size:22
Alignment explanation
Indices: 24804506--24804546 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24804496 AATTTAGTTC
24804506 AATTTAATTTAAATTGTAAAAA
1 AATTTAATTTAAATTGTAAAAA
*
24804528 AATTTAATTTGAATT-TAAA
1 AATTTAATTTAAATTGTAAA
24804547 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (22 bp):
AATTTAATTTAAATTGTAAAAA
Found at i:24805119 original size:15 final size:15
Alignment explanation
Indices: 24805101--24805131 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24805091 ATATATTACC
24805101 ATATAGTATAAATAA
1 ATATAGTATAAATAA
*
24805116 ATATAGTATATATAA
1 ATATAGTATAAATAA
24805131 A
1 A
24805132 GCACCCTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
ATATAGTATAAATAA
Found at i:24808912 original size:10 final size:11
Alignment explanation
Indices: 24808849--24808918 Score: 52
Period size: 13 Copynumber: 5.9 Consensus size: 11
24808839 CTCTAAATAT
*
24808849 AATAATTTAAA
1 AATAATATAAA
*
24808860 ATATGATATAATA
1 A-ATAATATAA-A
24808873 ATATAATATAAA
1 A-ATAATATAAA
*
24808885 ATTAATATGAATA
1 AATAATAT-AA-A
24808898 AA-ATATATAAA
1 AATA-ATATAAA
24808909 AATAATATAA
1 AATAATATAA
24808919 TTTAAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 16 0.33
12 15 0.31
13 17 0.35
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
AATAATATAAA
Found at i:24808947 original size:35 final size:39
Alignment explanation
Indices: 24808856--24808956 Score: 95
Period size: 40 Copynumber: 2.6 Consensus size: 39
24808846 TATAATAATT
*
24808856 TAAAATATGATAT-AATAATATAATATAAAATTAATATGAA
1 TAAAATA-AATATAAATAATATAATATAAAATT-ATATGAA
* * *
24808896 TAAAATATATAAAAATAATATAATTTAAAATT-T-T-AA
1 TAAAATAAATATAAATAATATAATATAAAATTATATGAA
*
24808932 TAAAA-AAATATAAATATATTTAATA
1 TAAAATAAATATAAATA-ATATAATA
24808957 AAATAAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
35 9 0.17
36 13 0.25
37 1 0.02
38 1 0.02
39 3 0.06
40 25 0.48
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (39 bp):
TAAAATAAATATAAATAATATAATATAAAATTATATGAA
Found at i:24809766 original size:22 final size:22
Alignment explanation
Indices: 24809739--24809780 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
24809729 CATATAATCA
24809739 TATTATTAAAA-AATTAATTATT
1 TATTA-TAAAATAATTAATTATT
*
24809761 TATTATAAAATAATTGATTA
1 TATTATAAAATAATTAATTA
24809781 ATCTATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTATAAAATAATTAATTATT
Found at i:24810005 original size:2 final size:2
Alignment explanation
Indices: 24810000--24810025 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24809990 AAATAGTGTG
24810000 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
24810026 GAGAGAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24810030 original size:2 final size:2
Alignment explanation
Indices: 24810025--24810050 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24810015 ATATATATAT
24810025 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
24810051 TAGACTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24832704 original size:3 final size:3
Alignment explanation
Indices: 24832691--24832725 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
24832681 TTGAGAACTG
* *
24832691 ATC ACC ATC ATC ATC ATC CTC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
24832726 TTTGATCACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.37, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:24839240 original size:8 final size:8
Alignment explanation
Indices: 24839215--24839265 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
24839205 CGATTTAATA
*
24839215 TATATAAT
1 TATATATT
24839223 TAT-T-TT
1 TATATATT
24839229 TATATATT
1 TATATATT
24839237 TATATATT
1 TATATATT
*
24839245 TATTTAATT
1 TATAT-ATT
24839254 T-TATATT
1 TATATATT
24839261 TATAT
1 TATAT
24839266 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
6 4 0.11
7 6 0.17
8 22 0.61
9 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATATATT
Found at i:24839247 original size:22 final size:23
Alignment explanation
Indices: 24839215--24839265 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
24839205 CGATTTAATA
24839215 TATATAATTATTT-TTATATATT
1 TATATAATTATTTATTATATATT
* *
24839237 TATATATTTATTTAATTTTATATT
1 TATATAATTATTT-ATTATATATT
24839261 TATAT
1 TATAT
24839266 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 12 0.48
24 13 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATATAATTATTTATTATATATT
Found at i:24839255 original size:26 final size:27
Alignment explanation
Indices: 24839207--24839259 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
24839197 ACTTGATTCG
*
24839207 ATTTAATATATATAATTATTTTTATAT
1 ATTTAATATATATAATTAATTTTATAT
* *
24839234 ATTT-ATATATTTATTTAATTTTATAT
1 ATTTAATATATATAATTAATTTTATAT
24839260 TTATATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTAATATATATAATTAATTTTATAT
Found at i:24839266 original size:18 final size:17
Alignment explanation
Indices: 24839235--24839290 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
24839225 TTTTTATATA
24839235 TTTATATATTTATTTAAT
1 TTTATAT-TTTATTTAAT
*
24839253 TTTATATTTATATTTAAA
1 TTTATATTT-TATTTAAT
* *
24839271 ATAATATTTTA-TTAAT
1 TTTATATTTTATTTAAT
24839287 TTTA
1 TTTA
24839291 AATTAAATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 6 0.19
17 4 0.13
18 21 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATATTTTATTTAAT
Found at i:24839283 original size:23 final size:22
Alignment explanation
Indices: 24839249--24839292 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
24839239 TATATTTATT
*
24839249 TAATTTTATATTTATATTTAAAA
1 TAATTTTATATTAAT-TTTAAAA
24839272 TAATATTT-TATTAATTTTAAA
1 TAAT-TTTATATTAATTTTAAA
24839293 TTAAATCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.32
23 10 0.53
24 3 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATTTTATATTAATTTTAAAA
Found at i:24839655 original size:20 final size:21
Alignment explanation
Indices: 24839632--24839682 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
24839622 ATAATTATTT
*
24839632 TATATATAAATT-TATTTAAA
1 TATATATAAATTCTATTAAAA
*
24839652 TATATTTAAAATTCTATTAAAA
1 TATATAT-AAATTCTATTAAAA
24839674 TA-ATATAAA
1 TATATATAAA
24839683 AAATTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.35
21 8 0.31
22 9 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATATAAATTCTATTAAAA
Found at i:24839682 original size:21 final size:21
Alignment explanation
Indices: 24839632--24839683 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
24839622 ATAATTATTT
*
24839632 TATATAT-AAATTTATTTAAA
1 TATATATAAAATTTATTAAAA
*
24839652 TATATTTAAAATTCTATTAAAA
1 TATATATAAAATT-TATTAAAA
24839674 TA-ATATAAAA
1 TATATATAAAA
24839684 AATTAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 12 0.44
22 9 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATATAAAATTTATTAAAA
Found at i:24839684 original size:22 final size:20
Alignment explanation
Indices: 24839632--24839684 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
24839622 ATAATTATTT
* *
24839632 TATATATAAATTTATTTAAA
1 TATATAAAAATTTATTAAAA
*
24839652 TATATTTAAAATTCTATTAAAA
1 TATA-TAAAAATT-TATTAAAA
24839674 TAATATAAAAA
1 T-ATATAAAAA
24839685 ATTAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.15
21 6 0.23
22 13 0.50
23 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TATATAAAAATTTATTAAAA
Found at i:24846057 original size:44 final size:40
Alignment explanation
Indices: 24845993--24846075 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 40
24845983 AATGAATTAA
*
24845993 ATAAATATATTTTTATATTTAATTTA-TTTAATAAATAAAT
1 ATAAATATATTTTTATATTT-ATTAAGTTTAATAAATAAAT
24846033 ATAAATATATTATTTAAATTATTTATTAAGTTTAATAAATAAA
1 ATAAATATATT-TTT--A-TATTTATTAAGTTTAATAAATAAA
24846076 AGAAAATCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
40 11 0.30
41 3 0.08
43 5 0.14
44 18 0.49
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (40 bp):
ATAAATATATTTTTATATTTATTAAGTTTAATAAATAAAT
Found at i:24847462 original size:6 final size:6
Alignment explanation
Indices: 24847451--24847478 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24847441 ACTCTGCTGA
24847451 TTTTGC TTTTGC TTTTGC TTTTGC TTTT
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTT
24847479 ACACCCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.71
Consensus pattern (6 bp):
TTTTGC
Found at i:24853504 original size:30 final size:30
Alignment explanation
Indices: 24853426--24853506 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
24853416 GAGCTTTTTC
* *
24853426 AGGTAC-AATTAAAAGTTTAAGGGCTTATTT
1 AGGTACAAATTAAAAG-TTAAGGACATATTT
24853456 -GGATACAAATTAAAAGTTAAGGACATATTT
1 AGG-TACAAATTAAAAGTTAAGGACATATTT
24853486 AGGTACAAATTAAAAGTTAAG
1 AGGTACAAATTAAAAGTTAAG
24853507 TAAAGTTGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 2 0.04
30 33 0.72
31 11 0.24
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (30 bp):
AGGTACAAATTAAAAGTTAAGGACATATTT
Found at i:24862083 original size:301 final size:300
Alignment explanation
Indices: 24861526--24862526 Score: 1741
Period size: 301 Copynumber: 3.3 Consensus size: 300
24861516 TGCTATTTAC
* * * *
24861526 TTATGAGTGACATTGTCCACTATATTCACCAGTAAACAGCATGTACTATGTTACCCATTTTCGAG
1 TTATGAGTGACATTGTCCATTATATTCACCAGTAAACAGCATGTACTAAGTTACCCATATTCAAG
* *
24861591 CAAACAGATCTCTAGTAACCTATCGATTTATATTTTACACATACAATCTTGCTTTTTGCTATTTA
66 CACACAGATCTCTAGTAACCTATGGATTTATATTTTACACATACAATCTTGCTTTTTGC----TA
* *
24861656 CTTTTACTTTATAGCAAATTTTGATAAAGTAAATTGTAGGCACAAAAACCAAGTAGCAAAGGTGG
127 --TTTACTTTATAGCAAATTTTGATAAAGTAAAATGTAGGCACAAAAACCAAGTAGCAAAAGTGG
*
24861721 CAACCTAGTGAAGCTTTAAATTTCCTAATAAATCGGTGCACCCATTACTTAAATATTCCATTCAA
190 CAACCTAGTGAAGC-TTAAATTTCCTAATAAATTGGTGCACCCATTACTTAAATATTCCATTCAA
24861786 GTGGACAATGCAAGAAAGCCTGGACCAAACTAGCAAAAGGTATTCCA
254 GTGGACAATGCAAGAAAGCCTGGACCAAACTAGCAAAAGGTATTCCA
*
24861833 TTATGAGTGACATTGTCCATTATATTCACCAGTAGACAGCATGTACTAAGTTACCCATATTCAAG
1 TTATGAGTGACATTGTCCATTATATTCACCAGTAAACAGCATGTACTAAGTTACCCATATTCAAG
24861898 CACACAGATCTCTAGTAACCTATGGATTTATATTTTACACATACAATCTTGCTTTTTGCTATTTA
66 CACACAGATCTCTAGTAACCTATGGATTTATATTTTACACATACAATCTTGCTTTTTGCTATTTA
*
24861963 CTTTATAGCAAATTTTGATAAAGTAAAATGTAGGCATAAAAACCAAGTAGCAAAAGTGGCAACCT
131 CTTTATAGCAAATTTTGATAAAGTAAAATGTAGGCACAAAAACCAAGTAGCAAAAGTGGCAACCT
24862028 AGTGAAGCTTCAAATTTCCTAATAAATTGGTGCACCCATTACTTAAATATTCCATTCAAGTGGAC
196 AGTGAAGCTT-AAATTTCCTAATAAATTGGTGCACCCATTACTTAAATATTCCATTCAAGTGGAC
24862093 AATGCAAGAAAGCCTGGACCAAACTAGCAAAAGGTATTCCA
260 AATGCAAGAAAGCCTGGACCAAACTAGCAAAAGGTATTCCA
*
24862134 TTATGAGTGACATTGTCCATTATATTCACCAGTAGACAGCATGTACTAAGTTACCCATATTCAAG
1 TTATGAGTGACATTGTCCATTATATTCACCAGTAAACAGCATGTACTAAGTTACCCATATTCAAG
24862199 CACACAGATCTCTAGTAACCTATGGATTTATATTTTACACATACAATCTTGCTTTTTGCTATTTA
66 CACACAGATCTCTAGTAACCTATGGATTTATATTTTACACATACAATCTTGCTTTTTGCTATTTA
*
24862264 TTTTATAGCAAATTTTGATAAAGTAAAATGTAGGCACAAAAACCAAGTAGCAAAAGGTGGCAACC
131 CTTTATAGCAAATTTTGATAAAGTAAAATGTAGGCACAAAAACCAAGTAGCAAAA-GTGGCAACC
* * *
24862329 TAGTGAAGCCTTAAATTTCCTAATAAATTGGTGCACCCGTTACTTAAAGATTCCATTCAAATGGA
195 TAGTGAAG-CTTAAATTTCCTAATAAATTGGTGCACCCATTACTTAAATATTCCATTCAAGTGGA
*
24862394 CAATGCAAGAAAGCCTGGACCAAACTAGCAAAAGTTATTCCA
259 CAATGCAAGAAAGCCTGGACCAAACTAGCAAAAGGTATTCCA
* *
24862436 TTATGAGTAACATTGTCCATTATATTCACCAGTAAACAGCATGTACTATGTTACCCATATTCAAG
1 TTATGAGTGACATTGTCCATTATATTCACCAGTAAACAGCATGTACTAAGTTACCCATATTCAAG
24862501 CACACAGATCTCTAGTAACCTATGGA
66 CACACAGATCTCTAGTAACCTATGGA
24862527 ATCAGTAAAA
Statistics
Matches: 671, Mismatches: 20, Indels: 11
0.96 0.03 0.02
Matches are distributed among these distances:
300 2 0.00
301 351 0.52
302 196 0.29
303 5 0.01
307 117 0.17
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (300 bp):
TTATGAGTGACATTGTCCATTATATTCACCAGTAAACAGCATGTACTAAGTTACCCATATTCAAG
CACACAGATCTCTAGTAACCTATGGATTTATATTTTACACATACAATCTTGCTTTTTGCTATTTA
CTTTATAGCAAATTTTGATAAAGTAAAATGTAGGCACAAAAACCAAGTAGCAAAAGTGGCAACCT
AGTGAAGCTTAAATTTCCTAATAAATTGGTGCACCCATTACTTAAATATTCCATTCAAGTGGACA
ATGCAAGAAAGCCTGGACCAAACTAGCAAAAGGTATTCCA
Found at i:24870394 original size:153 final size:151
Alignment explanation
Indices: 24870117--24870416 Score: 469
Period size: 153 Copynumber: 2.0 Consensus size: 151
24870107 GAGTTCTAAC
*
24870117 AGTCTATGTTGTATGGCCACACTCACACAATGGAACCTCGCAATTCTTACAACTTTTATTCTCCT
1 AGTCTATGTTGTATGGCCACACTCACACAATAGAACCTCGCAATTCTTACAACTTTTATTCTCCT
* * *
24870182 TCCTTGTAAAAAAGAAATCAATTTGATTAACATTTGATCAACTCCTAAATGTCACCAAGTGTGAT
66 TCCTCGTAAAAAAAAAATCAAATTGATTAACATTTGATCAACTCCTAAATGTCACCAAGTGTGAT
24870247 TC-CTTTTCTTAAAACACGTT
131 TCTCTTTTCTTAAAACACGTT
* *
24870267 AGTCTATGTTGTGTGGCCACACTCACACAATAGAACCTTGCAATTCTTACAACTACTTCTAGTT-
1 AGTCTATGTTGTATGGCCACACTCACACAATAGAACCTCGCAATTCTTACAACT--TT-TA-TTC
* * *
24870331 TCTTTCCTCGTAAAAAAAAAATCAAATTGATTAACATTTGATCCACTCCTAAATGTCATCAAGTG
62 TCCTTCCTCGTAAAAAAAAAATCAAATTGATTAACATTTGATCAACTCCTAAATGTCACCAAGTG
24870396 TGATTCTCTTTTCTTAAAACA
127 TGATTCTCTTTTCTTAAAACA
24870417 TTGTTTAATA
Statistics
Matches: 136, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
150 51 0.38
152 2 0.01
153 67 0.49
154 16 0.12
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (151 bp):
AGTCTATGTTGTATGGCCACACTCACACAATAGAACCTCGCAATTCTTACAACTTTTATTCTCCT
TCCTCGTAAAAAAAAAATCAAATTGATTAACATTTGATCAACTCCTAAATGTCACCAAGTGTGAT
TCTCTTTTCTTAAAACACGTT
Found at i:24870479 original size:25 final size:25
Alignment explanation
Indices: 24870445--24870493 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
24870435 TCAAATGCAG
24870445 TAGCAAACTCTAAGATAGTCTCTCC
1 TAGCAAACTCTAAGATAGTCTCTCC
24870470 TAGCAAACTCTAAGATAGTCTCTC
1 TAGCAAACTCTAAGATAGTCTCTC
24870494 TGATTTCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (25 bp):
TAGCAAACTCTAAGATAGTCTCTCC
Found at i:24875188 original size:24 final size:22
Alignment explanation
Indices: 24875161--24875213 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 22
24875151 GAGATTAAAA
24875161 ATAATAATAAAATTTATTATAATT
1 ATAATAA-AAAA-TTATTATAATT
*
24875185 ATAATTTAAAAAATTATTATAGTT
1 ATAA--TAAAAAATTATTATAATT
24875209 ATAAT
1 ATAAT
24875214 TTAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.04
24 18 0.69
25 4 0.15
26 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAATAAAAAATTATTATAATT
Found at i:24875223 original size:25 final size:24
Alignment explanation
Indices: 24875169--24875221 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
24875159 AAATAATAAT
*
24875169 AAAATTTATTATAATTATAATTTA
1 AAAAATTATTATAATTATAATTTA
*
24875193 AAAAATTATTATAGTTATAATTTA
1 AAAAATTATTATAATTATAATTTA
24875217 AAAAA
1 AAAAA
24875222 ATTAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAAATTATTATAATTATAATTTA
Found at i:24875819 original size:17 final size:19
Alignment explanation
Indices: 24875783--24875821 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
24875773 ATTATTAGTT
*
24875783 TTTTAATATTTAAATATTA
1 TTTTAATATTAAAATATTA
24875802 TTTTAATA-TAAAAT-TTA
1 TTTTAATATTAAAATATTA
24875819 TTT
1 TTT
24875822 AAGTAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAATATTAAAATATTA
Found at i:24875822 original size:28 final size:26
Alignment explanation
Indices: 24875789--24875846 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
24875779 AGTTTTTTAA
*
24875789 TATTTAAATATTATTTTAATATAAAATT
1 TATTTAAATA-GATTTT-ATATAAAATT
* *
24875817 TATTTAAGTAGATTTTTTATAAAATT
1 TATTTAAATAGATTTTATATAAAATT
24875843 TATT
1 TATT
24875847 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 13 0.48
27 5 0.19
28 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (26 bp):
TATTTAAATAGATTTTATATAAAATT
Found at i:24875895 original size:20 final size:19
Alignment explanation
Indices: 24875861--24875898 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24875851 TTATTTTATA
*
24875861 AAAATTTAAAATATATATG
1 AAAATTAAAAATATATATG
24875880 AAAATTAAAAATTATATAT
1 AAAATTAAAAA-TATATAT
24875899 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAATTAAAAATATATATG
Found at i:24875959 original size:13 final size:13
Alignment explanation
Indices: 24875941--24875982 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
24875931 CTAAAATTTA
24875941 ATATATATTTAAT
1 ATATATATTTAAT
24875954 ATATATATTTAAT
1 ATATATATTTAAT
* *
24875967 ATTTAAATTTAAT
1 ATATATATTTAAT
24875980 ATA
1 ATA
24875983 AAAAAAATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATTTAAT
Found at i:24875976 original size:6 final size:7
Alignment explanation
Indices: 24875945--24875981 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
24875935 AATTTAATAT
24875945 ATATTTA
1 ATATTTA
*
24875952 ATATAT-
1 ATATTTA
24875958 ATATTTA
1 ATATTTA
24875965 ATATTTA
1 ATATTTA
24875972 A-ATTTA
1 ATATTTA
24875978 ATAT
1 ATAT
24875982 AAAAAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
ATATTTA
Done.