Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 189 of 221
Found at i:55700276 original size:22 final size:22
Alignment explanation
Indices: 55700251--55700353 Score: 82
Period size: 22 Copynumber: 4.6 Consensus size: 22
55700241 GGATATAAGG
55700251 TTTAGGGGTTAGGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGA
* **
55700273 TTTAGGTGTTAGGATTTAGGG-
1 TTTAGGGGTTAGGGGTTAGGGA
* ** *
55700294 GTTAGGAATTTAGGGGCTAGGAGA
1 TTTAGG-GGTTAGGGGTTAGG-GA
* *
55700318 TTTAAGGGTCAGGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGA
* *
55700340 TTTAAGGTTTAGGG
1 TTTAGGGGTTAGGG
55700354 TGTCAATTAA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
21 5 0.08
22 41 0.67
23 11 0.18
24 4 0.07
ACGTcount: A:0.22, C:0.02, G:0.43, T:0.33
Consensus pattern (22 bp):
TTTAGGGGTTAGGGGTTAGGGA
Found at i:55700277 original size:15 final size:15
Alignment explanation
Indices: 55700259--55700331 Score: 85
Period size: 15 Copynumber: 4.9 Consensus size: 15
55700249 GGTTTAGGGG
55700259 TTAGGGGTTAGGGAT
1 TTAGGGGTTAGGGAT
*
55700274 TTAGGTGTTA-GGAT
1 TTAGGGGTTAGGGAT
*
55700288 TTAGGGGTTAGGAAT
1 TTAGGGGTTAGGGAT
*
55700303 TTAGGGGCTAGGAGAT
1 TTAGGGGTTAGG-GAT
* *
55700319 TTAAGGGTCAGGG
1 TTAGGGGTTAGGG
55700332 GTTAGGGATT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.27
15 24 0.50
16 11 0.23
ACGTcount: A:0.23, C:0.03, G:0.42, T:0.32
Consensus pattern (15 bp):
TTAGGGGTTAGGGAT
Found at i:55700314 original size:29 final size:29
Alignment explanation
Indices: 55700259--55700315 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
55700249 GGTTTAGGGG
* * *
55700259 TTAGGGGTTAGGGATTTAGGTGTTAGGAT
1 TTAGGGGTTAGGAATTTAGGGGCTAGGAT
55700288 TTAGGGGTTAGGAATTTAGGGGCTAGGA
1 TTAGGGGTTAGGAATTTAGGGGCTAGGA
55700316 GATTTAAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.42, T:0.33
Consensus pattern (29 bp):
TTAGGGGTTAGGAATTTAGGGGCTAGGAT
Found at i:55703599 original size:2 final size:2
Alignment explanation
Indices: 55703592--55703618 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55703582 CTAATTTACT
55703592 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
55703619 TTTTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:55704063 original size:29 final size:30
Alignment explanation
Indices: 55704022--55704081 Score: 68
Period size: 33 Copynumber: 1.9 Consensus size: 30
55704012 GATTAATTTA
*
55704022 TTCGGTTTAATG-TGAATAAATTATCGATT
1 TTCGATTTAATGATGAATAAATTATCGATT
*
55704051 TTCGATTTTATGTCAATGAATAAATTATCGA
1 TTCGATTTAATG---ATGAATAAATTATCGA
55704082 CGTTATATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
33 15 0.60
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
TTCGATTTAATGATGAATAAATTATCGATT
Found at i:55704183 original size:11 final size:11
Alignment explanation
Indices: 55704163--55704195 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
55704153 ATTGATTGAC
*
55704163 TGTCAGTGAAT
1 TGTCAATGAAT
55704174 TGTCAATGAA-
1 TGTCAATGAAT
55704184 TGTCAATGAAT
1 TGTCAATGAAT
55704195 T
1 T
55704196 ATTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.36
Consensus pattern (11 bp):
TGTCAATGAAT
Found at i:55704274 original size:13 final size:13
Alignment explanation
Indices: 55704228--55704319 Score: 91
Period size: 13 Copynumber: 6.9 Consensus size: 13
55704218 TATAACTTAC
55704228 ATTACTTAAATAT
1 ATTACTTAAATAT
* *
55704241 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
55704256 -TTACTTAAATAT
1 ATTACTTAAATAT
*
55704268 ATTACTTAAATAC
1 ATTACTTAAATAT
55704281 ATTACTTACTAGA-AT
1 ATTACTTA--A-ATAT
55704296 -TTACTTAAATAT
1 ATTACTTAAATAT
55704308 ATTACTTAAATA
1 ATTACTTAAATA
55704320 CATGACTTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
11 1 0.02
12 7 0.11
13 37 0.57
14 13 0.20
15 6 0.09
16 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:55704276 original size:40 final size:39
Alignment explanation
Indices: 55704211--55704465 Score: 215
Period size: 40 Copynumber: 6.5 Consensus size: 39
55704201 TATATATTTT
* * * *
55704211 TAAAATTTA-TAACTTACATTACTTAAATATATTAATTAC
1 TAAAATTTATTAA-ATATATTACTTAAATACATTACTTAC
55704250 TAAAATTTACTTAAATATATTACTTAAATACATTACTTAC
1 TAAAATTTA-TTAAATATATTACTTAAATACATTACTTAC
* *
55704290 TAGAATTTACTTAAATATATTACTTAAATACATGACTTAC
1 TAAAATTTA-TTAAATATATTACTTAAATACATTACTTAC
**
55704330 TAAAA-TTA--AAGTATATATTACATTACTTACATTACTTAC
1 TAAAATTTATTAA--ATATATTAC-TTAAATACATTACTTAC
* *
55704369 TAAAA--TA-T-ATTA-ATTACTTAAATATATTACTTAC
1 TAAAATTTATTAAATATATTACTTAAATACATTACTTAC
* * * *
55704403 AAAAATTTA-TAACTTACATTACTTAAATATATTACATTAC
1 TAAAATTTATTAA-ATATATTACTTAAATACATTAC-TTAC
*
55704443 TTAAAATTTATATATATATATTA
1 -TAAAATTTAT-TAAATATATTA
55704466 AAAATTTATA
Statistics
Matches: 182, Mismatches: 19, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
34 18 0.10
35 5 0.03
36 7 0.04
37 1 0.01
38 15 0.08
39 49 0.27
40 68 0.37
41 11 0.06
42 6 0.03
43 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (39 bp):
TAAAATTTATTAAATATATTACTTAAATACATTACTTAC
Found at i:55704327 original size:13 final size:13
Alignment explanation
Indices: 55704225--55704328 Score: 79
Period size: 13 Copynumber: 7.8 Consensus size: 13
55704215 ATTTATAACT
55704225 TACATTACTTAAA
1 TACATTACTTAAA
* *
55704238 TATATTAATTACTAA
1 TACATTACTTA--AA
55704253 -A-ATTTACTTAAA
1 TACA-TTACTTAAA
*
55704265 TATATTACTTAAA
1 TACATTACTTAAA
*
55704278 TACATTACTT-AC
1 TACATTACTTAAA
*
55704290 TAGAATTTACTTAAA
1 TA-CA-TTACTTAAA
*
55704305 TATATTACTTAAA
1 TACATTACTTAAA
*
55704318 TACATGACTTA
1 TACATTACTTA
55704329 CTAAAATTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
12 5 0.07
13 48 0.66
14 15 0.21
15 5 0.07
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (13 bp):
TACATTACTTAAA
Found at i:55704385 original size:17 final size:17
Alignment explanation
Indices: 55704360--55704449 Score: 72
Period size: 17 Copynumber: 4.9 Consensus size: 17
55704350 CATTACTTAC
*
55704360 ATTACTTACTAAAATAT
1 ATTAATTACTAAAATAT
*
55704377 ATTAATTACTTAAATAT
1 ATTAATTACTAAAATAT
* *
55704394 ATTACTTACAAAAATTTAT
1 ATTAATTACTAAAA--TAT
*
55704413 AACTTACATTACTTAAATAT
1 -A-TTA-ATTACTAAAATAT
55704433 ATTACATTACTTAAAAT
1 ATTA-ATTAC-TAAAAT
55704450 TTATATATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
17 26 0.45
18 9 0.16
19 9 0.16
20 4 0.07
21 3 0.05
22 7 0.12
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAATTACTAAAATAT
Found at i:55704385 original size:30 final size:32
Alignment explanation
Indices: 55704342--55704427 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 32
55704332 AAATTAAAGT
55704342 ATATATTACATTACTTACATTACTTAC-TA-AA
1 ATATATTA-ATTACTTACATTACTTACTTACAA
*
55704373 ATATATTAATTACTTAAATATA-TTACTTACAA
1 ATATATTAATTACTTACAT-TACTTACTTACAA
* *
55704405 A-A-ATTTATAACTTACATTACTTA
1 ATATATTAATTACTTACATTACTTA
55704428 AATATATTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
29 2 0.04
30 29 0.62
31 13 0.28
32 3 0.06
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (32 bp):
ATATATTAATTACTTACATTACTTACTTACAA
Found at i:55704571 original size:32 final size:32
Alignment explanation
Indices: 55704512--55704572 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
55704502 TTTCAATTTT
*
55704512 ATTGTAAATTATTTTTTATAATTTTAAAAATA
1 ATTGTAAATTATTTTTTATAATATTAAAAATA
55704544 ATTGTAAATGT-TATTTTTA-AATATTAAAA
1 ATTGTAAAT-TAT-TTTTTATAATATTAAAA
55704573 CATATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (32 bp):
ATTGTAAATTATTTTTTATAATATTAAAAATA
Found at i:55704693 original size:121 final size:121
Alignment explanation
Indices: 55704475--55704794 Score: 543
Period size: 121 Copynumber: 2.6 Consensus size: 121
55704465 AAAAATTTAT
**
55704475 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTAAATTATTTTTTATAATTTTAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTAAA-TAAATTTTATAATTTTAAA
55704540 AATAATTGTAAATGTTATTTTTAAATATTAAAACATATATTTTTAATATATCACCCC
65 AATAATTGTAAATGTTATTTTTAAATATTAAAACATATATTTTTAATATATCACCCC
*
55704597 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAATAAATTTTATAATTTTAAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTAAATAAATTTTATAATTTTAAAA
*
55704662 ATAATTGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCC
66 ATAATTGTAAATGTTATTTTTAAATATTAAAACATATATTTTTAATATATCACCCC
* * *
55704718 ATATATGGTATGGATATATATCCTACATTTCAATTTTATTAG-AAATGAATTTTATAATTTTAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATT-GTAAATAAATTTTATAATTTTAAA
*
55704782 AATAATTATAAAT
65 AATAATTGTAAAT
55704795 AAGATACATA
Statistics
Matches: 188, Mismatches: 9, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
121 143 0.76
122 45 0.24
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.46
Consensus pattern (121 bp):
ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTAAATAAATTTTATAATTTTAAAA
ATAATTGTAAATGTTATTTTTAAATATTAAAACATATATTTTTAATATATCACCCC
Found at i:55704859 original size:9 final size:9
Alignment explanation
Indices: 55704841--55705039 Score: 120
Period size: 9 Copynumber: 23.2 Consensus size: 9
55704831 CTTATATATA
*
55704841 AACTTGCAT
1 AACTTACAT
55704850 AACTTACAT
1 AACTTACAT
*
55704859 AA-TAACATAAT
1 AACTTAC---AT
55704870 AACTTACAT
1 AACTTACAT
55704879 AA--TACAT
1 AACTTACAT
55704886 AGAC-TACAT
1 A-ACTTACAT
55704895 AACTTACAT
1 AACTTACAT
*
55704904 AA--TACAC
1 AACTTACAT
55704911 AACTTACAT
1 AACTTACAT
*
55704920 AACTTAAAT
1 AACTTACAT
55704929 AACTTACAT
1 AACTTACAT
55704938 AA--TACAT
1 AACTTACAT
**
55704945 AACTTTGAT
1 AACTTACAT
*
55704954 AACTAACAT
1 AACTTACAT
* *
55704963 TA--TACAC
1 AACTTACAT
55704970 AACTTACAT
1 AACTTACAT
55704979 AA--TACAT
1 AACTTACAT
* *
55704986 TACTTACTT
1 AACTTACAT
* *
55704995 AACATGCAT
1 AACTTACAT
* *
55705004 AGCCTACAT
1 AACTTACAT
55705013 AACTTACAT
1 AACTTACAT
*
55705022 AA--TACAC
1 AACTTACAT
55705029 AACTTACAT
1 AACTTACAT
55705038 AA
1 AA
55705040 TTGAGTTATG
Statistics
Matches: 143, Mismatches: 30, Indels: 34
0.69 0.14 0.16
Matches are distributed among these distances:
7 35 0.24
8 6 0.04
9 95 0.66
11 4 0.03
12 3 0.02
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:55704898 original size:25 final size:23
Alignment explanation
Indices: 55704847--55704985 Score: 122
Period size: 25 Copynumber: 5.8 Consensus size: 23
55704837 TATAAACTTG
*
55704847 CATAACTTACATAATA-A-CATA
1 CATAACTTACATAATACATAATA
55704868 -ATAACTTACATAATACATAGACTA
1 CATAACTTACATAATACATA-A-TA
*
55704892 CATAACTTACATAATACACAACTTA
1 CATAACTTACATAATACATAA--TA
*
55704917 CATAACTTAAATAACTTACATAATA
1 CATAACTTACATAA--TACATAATA
** *
55704942 CATAACTTTGATAACTAACATTATA
1 CATAACTTACATAA-T-ACATAATA
*
55704967 CACAACTTACATAATACAT
1 CATAACTTACATAATACAT
55704986 TACTTACTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
20 15 0.15
21 1 0.01
23 5 0.05
24 5 0.05
25 65 0.67
27 6 0.06
ACGTcount: A:0.49, C:0.19, G:0.01, T:0.30
Consensus pattern (23 bp):
CATAACTTACATAATACATAATA
Found at i:55704937 original size:59 final size:57
Alignment explanation
Indices: 55704867--55705040 Score: 215
Period size: 59 Copynumber: 3.0 Consensus size: 57
55704857 ATAATAACAT
55704867 AATAACTTACATAATACATAGACTACATAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACATAATACATAGACTACATAACTTACATAATACACAACTTACATAA--TA
** * *
55704926 AATAACTTACATAATACATA-ACTTTGATAACTAACATTATACACAACTTACATAATA
1 AATAACTTACATAATACATAGAC-TACATAACTTACATAATACACAACTTACATAATA
* * * * *
55704983 CATTACTTACTTAACATGCATAGCCTACATAACTTACATAATACACAACTTACATAAT
1 AATAACTTACAT-A-ATACATAGACTACATAACTTACATAATACACAACTTACATAAT
55705041 TGAGTTATGC
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
57 11 0.11
58 3 0.03
59 83 0.85
60 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (57 bp):
AATAACTTACATAATACATAGACTACATAACTTACATAATACACAACTTACATAATA
Found at i:55705032 original size:16 final size:16
Alignment explanation
Indices: 55705008--55705040 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55704998 ATGCATAGCC
*
55705008 TACATAACTTACATAA
1 TACACAACTTACATAA
55705024 TACACAACTTACATAA
1 TACACAACTTACATAA
55705040 T
1 T
55705041 TGAGTTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (16 bp):
TACACAACTTACATAA
Found at i:55707319 original size:66 final size:66
Alignment explanation
Indices: 55707208--55707333 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
55707198 AACTGAGGTG
55707208 AAGCTGAGGTTCAAAAAAGATATGAAGAACTACAGCTACAACTTAAAGCAGATGCAGCAGTGAGA
1 AAGCTGAGGTTCAAAAAAGATATGAAGAACTACAGCTACAACTTAAAGCAGATGCAGCAGTGAGA
55707273 T
66 T
* * * *
55707274 AAGCTGAGGTTCAACGAAAG-TATGAATAACT-CTAGC-AGCAGCTTAAAGCAGATGCGGCAG
1 AAGCTGAGGTTCAA-AAAAGATATGAAGAACTAC-AGCTA-CAACTTAAAGCAGATGCAGCAG
55707334 AAAGAGAAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
65 2 0.04
66 47 0.89
67 4 0.08
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (66 bp):
AAGCTGAGGTTCAAAAAAGATATGAAGAACTACAGCTACAACTTAAAGCAGATGCAGCAGTGAGA
T
Found at i:55707360 original size:21 final size:21
Alignment explanation
Indices: 55707339--55707431 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
55707329 GGCAGAAAGA
* * *
55707339 GAAGCAGAGGCGGTAGCGAGA
1 GAAGTAGAGGCTGTAGCGAGG
* *
55707360 GAAGTACAGGCTGCAGCGAGG
1 GAAGTAGAGGCTGTAGCGAGG
*
55707381 GAAGTAGAGGCTATAGCGAGG
1 GAAGTAGAGGCTGTAGCGAGG
55707402 GAAGTAGAGGCTGTAGCGAGG
1 GAAGTAGAGGCTGTAGCGAGG
*
55707423 GAAGCAGAG
1 GAAGTAGAG
55707432 CAGTGTCAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.32, C:0.13, G:0.45, T:0.10
Consensus pattern (21 bp):
GAAGTAGAGGCTGTAGCGAGG
Found at i:55707804 original size:43 final size:41
Alignment explanation
Indices: 55707737--55707857 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 41
55707727 ATCTGCCAAA
** *
55707737 TTTAGTGGCGTTTGTAGGGAAAGCGCCGCTAAAGATTTGGTTC
1 TTTAGTGGCGTTTGT-GGG-AAGCGCCGCTAAAGATCAGGGTC
*
55707780 TTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTC
1 TTTAGTGGCGTTTGTGG--GAAGCGCCGCTAAAGATCAGGGTC
* * *
55707823 TTTTGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGA
1 TTTAGTGGCGTTTGTGGG--AAGCGCCGCTAAAGA
55707858 CCCTAATCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 2 0.03
43 62 0.94
44 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.34, T:0.31
Consensus pattern (41 bp):
TTTAGTGGCGTTTGTGGGAAGCGCCGCTAAAGATCAGGGTC
Found at i:55708094 original size:22 final size:22
Alignment explanation
Indices: 55708066--55708109 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
55708056 TTGCGGAGCT
* *
55708066 AAAAAGCGCTGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
55708088 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
55708110 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:55710064 original size:21 final size:21
Alignment explanation
Indices: 55710023--55710064 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
55710013 CCACCAACTC
* *
55710023 TTCCTCCTGTTTTCTTTTTCT
1 TTCCTCCTGTTTTCCTCTTCT
55710044 TTCCTCTCT-TTTTCCTCTTCT
1 TTCCTC-CTGTTTTCCTCTTCT
55710065 CATCTACTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTCCTCCTGTTTTCCTCTTCT
Found at i:55718297 original size:28 final size:29
Alignment explanation
Indices: 55718266--55718330 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
55718256 TAGTAAAAAC
*
55718266 ACAAATATATT-AATATATCAAAATTTAT
1 ACAAATATATTAAATATACCAAAATTTAT
*
55718294 AC-AAT-TCATTAAATATACCAAAATTTGT
1 ACAAATAT-ATTAAATATACCAAAATTTAT
*
55718322 ATAAATATA
1 ACAAATATA
55718331 AAGTATCGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.03
27 6 0.20
28 18 0.60
29 4 0.13
30 1 0.03
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (29 bp):
ACAAATATATTAAATATACCAAAATTTAT
Found at i:55722326 original size:2 final size:2
Alignment explanation
Indices: 55722319--55722343 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55722309 CTTTAAATTC
55722319 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
55722344 CTATTCTTTT
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:55734010 original size:27 final size:30
Alignment explanation
Indices: 55733962--55734017 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
55733952 TATATTAATA
*
55733962 TATATACATATGCATACTAAAAAA-TATAT
1 TATATACATATGCATACAAAAAAAGTATAT
*
55733991 TATATATATATG-A-ACAAAAAAAGTATA
1 TATATACATATGCATACAAAAAAAGTATA
55734018 AATTATGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 5 0.21
29 11 0.46
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.32
Consensus pattern (30 bp):
TATATACATATGCATACAAAAAAAGTATAT
Found at i:55734112 original size:15 final size:18
Alignment explanation
Indices: 55734080--55734131 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
55734070 TAATGAATAC
55734080 ATAAAATAATATTATATA
1 ATAAAATAATATTATATA
*
55734098 ATAAAAAAAT-TTATAGTAA
1 ATAAAATAATATTATA-T-A
*
55734117 ATATATATAATATTA
1 ATA-AAATAATATTA
55734132 ACTATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 4 0.15
20 5 0.19
21 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAAAATAATATTATATA
Found at i:55734140 original size:18 final size:18
Alignment explanation
Indices: 55734117--55734155 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
55734107 TTTATAGTAA
*
55734117 ATATATATAATATTAACT
1 ATATATATAATATTAAAT
55734135 ATATATATAATATTAAAT
1 ATATATATAATATTAAAT
55734153 ATA
1 ATA
55734156 ATAACAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATATAATATTAAAT
Found at i:55738999 original size:21 final size:23
Alignment explanation
Indices: 55738974--55739027 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
55738964 TTAATAATTT
*
55738974 TATAAAAGAAAT-AAATTTAA-G
1 TATAAAAGAAATCAAAATTAATG
55738995 TATAATAA-AAATCAAAATTAATG
1 TATAA-AAGAAATCAAAATTAATG
55739018 TA-AAAAGAAA
1 TATAAAAGAAA
55739028 AGAAAAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 11 0.39
22 14 0.50
23 3 0.11
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (23 bp):
TATAAAAGAAATCAAAATTAATG
Found at i:55743717 original size:53 final size:53
Alignment explanation
Indices: 55743641--55743768 Score: 159
Period size: 53 Copynumber: 2.4 Consensus size: 53
55743631 AAAAAAACCA
* ** * *
55743641 GATAGTCCGA-CGGGATAAGAAACACGGGATAGTCTGTTGATATAGGAAATACAT
1 GATAGTCC-ATCGAGATAA-AAACACGGGATAGTCTGTCAAGATAGGAAATACAG
*
55743695 GATAGTCCATCGAGATAAAAACACGGGATAGTCTGTCAAGATAGGAAATACGG
1 GATAGTCCATCGAGATAAAAACACGGGATAGTCTGTCAAGATAGGAAATACAG
* *
55743748 GATAGTCCGTCGAAATAAAAA
1 GATAGTCCATCGAGATAAAAA
55743769 ATACGAGATA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
53 50 0.77
54 15 0.23
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (53 bp):
GATAGTCCATCGAGATAAAAACACGGGATAGTCTGTCAAGATAGGAAATACAG
Found at i:55743770 original size:27 final size:27
Alignment explanation
Indices: 55743641--55743778 Score: 100
Period size: 27 Copynumber: 5.1 Consensus size: 27
55743631 AAAAAAACCA
* ** *
55743641 GATAGTCCGACGGGATAAGAAACACGG
1 GATAGTCCGTCGAAATAAGAAATACGG
* * * * **
55743668 GATAGTCTGTTGATATAGGAAATACAT
1 GATAGTCCGTCGAAATAAGAAATACGG
* * *
55743695 GATAGTCCATCGAGATAA-AAACACGG
1 GATAGTCCGTCGAAATAAGAAATACGG
* *
55743721 GATAGTCTGTC-AAGATAGGAAATACGG
1 GATAGTCCGTCGAA-ATAAGAAATACGG
* *
55743748 GATAGTCCGTCGAAATAAAAAATACGA
1 GATAGTCCGTCGAAATAAGAAATACGG
55743775 GATA
1 GATA
55743779 ATTCGCTGAG
Statistics
Matches: 82, Mismatches: 26, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
25 1 0.01
26 17 0.21
27 62 0.76
28 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (27 bp):
GATAGTCCGTCGAAATAAGAAATACGG
Found at i:55743805 original size:27 final size:27
Alignment explanation
Indices: 55743775--55743836 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
55743765 AAAAATACGA
55743775 GATAATTCGCTGAGACAAAAAACATGG
1 GATAATTCGCTGAGACAAAAAACATGG
* * *** *
55743802 GATAGTTCGTTGAGACAGGTAATATGG
1 GATAATTCGCTGAGACAAAAAACATGG
55743829 GATAATTC
1 GATAATTC
55743837 TTCGAGACAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (27 bp):
GATAATTCGCTGAGACAAAAAACATGG
Found at i:55743886 original size:27 final size:27
Alignment explanation
Indices: 55743856--55743917 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
55743846 GAAAACACAC
* *
55743856 GATAGTCTACTGGGAT-AGAAAACATGG
1 GATAGTCTACTAGGATAAG-AAACACGG
**
55743883 GATAGTCTGTTAGGATAAGAAACACGG
1 GATAGTCTACTAGGATAAGAAACACGG
55743910 GATAGTCT
1 GATAGTCT
55743918 GTTAGGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.24
Consensus pattern (27 bp):
GATAGTCTACTAGGATAAGAAACACGG
Found at i:55743931 original size:27 final size:27
Alignment explanation
Indices: 55743875--55743941 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
55743865 CTGGGATAGA
* *
55743875 AAACATGGGATAGTCTGTTAGGATAAG
1 AAACACGGGATAGTCTGTTAGGACAAG
*
55743902 AAACACGGGATAGTCTGTTAGGACATG
1 AAACACGGGATAGTCTGTTAGGACAAG
* *
55743929 AAATACAGGATAG
1 AAACACGGGATAG
55743942 CCTACTGGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.22
Consensus pattern (27 bp):
AAACACGGGATAGTCTGTTAGGACAAG
Found at i:55759352 original size:20 final size:21
Alignment explanation
Indices: 55759327--55759378 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
55759317 AGTTAAGTAC
*
55759327 AAAAAAAATTTAATT-GAATT
1 AAAAAAAATTTAATTCAAATT
*
55759347 -AAAAAAATTTATTTCAAATT
1 AAAAAAAATTTAATTCAAATT
55759367 AAACAAAAATTT
1 AAA-AAAAATTT
55759379 TGAAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 13 0.48
20 4 0.15
21 2 0.07
22 8 0.30
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAAAAATTTAATTCAAATT
Found at i:55780931 original size:6 final size:6
Alignment explanation
Indices: 55780916--55780949 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
55780906 AATTAGATGT
* *
55780916 TCATAG TCATAT TCATAG TCATAG TCATAC TCAT
1 TCATAG TCATAG TCATAG TCATAG TCATAG TCAT
55780950 GCTCATACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (6 bp):
TCATAG
Found at i:55785867 original size:21 final size:22
Alignment explanation
Indices: 55785822--55785867 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
55785812 CTTTAGGAGT
*
55785822 TGCATGTCTAGAGACATTGGCC
1 TGCATGTCTAGAGACATTAGCC
* *
55785844 TGCATGTTTTGAGACA-TAGCC
1 TGCATGTCTAGAGACATTAGCC
55785865 TGC
1 TGC
55785868 CAATGACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (22 bp):
TGCATGTCTAGAGACATTAGCC
Found at i:55789613 original size:9 final size:9
Alignment explanation
Indices: 55789598--55789633 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
55789588 AATTGTGCGG
55789598 ACTTTCATA
1 ACTTTCATA
*
55789607 TCTTTCATA
1 ACTTTCATA
55789616 ACTTTCATA
1 ACTTTCATA
55789625 ACTTTCATA
1 ACTTTCATA
55789634 TACCATGACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (9 bp):
ACTTTCATA
Found at i:55793718 original size:38 final size:38
Alignment explanation
Indices: 55793660--55793737 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
55793650 TTTTGATTAG
55793660 ATTTGGATATATTCTAATTATCAATTTAATCATGCATT
1 ATTTGGATATATTCTAATTATCAATTTAATCATGCATT
* *
55793698 ATTTGGATATATTTTGATTATCAATTTAATCATGCATT
1 ATTTGGATATATTCTAATTATCAATTTAATCATGCATT
55793736 AT
1 AT
55793738 AACGATGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (38 bp):
ATTTGGATATATTCTAATTATCAATTTAATCATGCATT
Found at i:55793755 original size:38 final size:38
Alignment explanation
Indices: 55793676--55793756 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
55793666 ATATATTCTA
*** * **
55793676 ATTATCAATTTAATCATGCATTATTTGGATATATTTTG
1 ATTATCAATTTAATCATGCATTATAACGATAGATTAGG
*
55793714 ATTATCAATTTAATCATGCATTATAACGATGGATTAGG
1 ATTATCAATTTAATCATGCATTATAACGATAGATTAGG
55793752 ATTAT
1 ATTAT
55793757 AGTTATTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (38 bp):
ATTATCAATTTAATCATGCATTATAACGATAGATTAGG
Found at i:55800172 original size:5 final size:5
Alignment explanation
Indices: 55800162--55800186 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
55800152 TAATTAGTAA
55800162 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
55800187 GAAGCGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:55809168 original size:26 final size:26
Alignment explanation
Indices: 55809138--55809188 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
55809128 TCAGATTATC
55809138 TATAACTGTAAATAATCAAACAGATA
1 TATAACTGTAAATAATCAAACAGATA
*
55809164 TATAACTGTAAATAATCGAACAGAT
1 TATAACTGTAAATAATCAAACAGAT
55809189 TATGGCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (26 bp):
TATAACTGTAAATAATCAAACAGATA
Found at i:55813740 original size:15 final size:15
Alignment explanation
Indices: 55813720--55813752 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
55813710 GCCAATAAAC
55813720 TTATATT-TATTAAGT
1 TTATATTGT-TTAAGT
55813735 TTATATTGTTTAAGT
1 TTATATTGTTTAAGT
55813750 TTA
1 TTA
55813753 AAGTAAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (15 bp):
TTATATTGTTTAAGT
Found at i:55825269 original size:57 final size:57
Alignment explanation
Indices: 55825159--55825301 Score: 198
Period size: 57 Copynumber: 2.4 Consensus size: 57
55825149 AATTGACGGT
55825159 AAAAAGGATCTAGCCCGGACGGGTGATCTTATCTTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTG----TATCTTGATATAGCCCTCCCGAAGAATATGTG-G
55825222 AAAAAGATCTAGCCCGGACGGGTG-ATCTTGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGTATCTTGATATAGCCCTCCCGAAGAATATGTGG
* *
55825278 AAAATGGATTTAGCCCGGACGGGT
1 AAAA-AGATCTAGCCCGGACGGGT
55825302 AATCCGAATT
Statistics
Matches: 77, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
56 5 0.06
57 48 0.62
62 19 0.25
63 5 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGTATCTTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:55826766 original size:30 final size:31
Alignment explanation
Indices: 55826732--55826793 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
55826722 AAACCTTTTT
* * *
55826732 ACTTTTCCCTCAAAACTTTTAC-CCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
55826762 ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
55826793 A
1 A
55826794 ACCCCCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.21, C:0.47, G:0.00, T:0.32
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCCCTCCC
Found at i:55829619 original size:50 final size:50
Alignment explanation
Indices: 55829477--55829773 Score: 301
Period size: 50 Copynumber: 5.8 Consensus size: 50
55829467 GATAATAACA
* ** * * *
55829477 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
55829526 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * * *
55829576 TGCCCATGCCATGTCATAGACATGATCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
55829626 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
55829676 TGCGAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
55829732 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55829774 TTACCCAAAT
Statistics
Matches: 205, Mismatches: 35, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 125 0.61
53 2 0.01
56 38 0.19
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:55844402 original size:5 final size:5
Alignment explanation
Indices: 55844392--55844427 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
55844382 TAGCACTAAC
*
55844392 ATGTA ATGTA ATGTA GTGTA ATGTA ATGTA ATGTA A
1 ATGTA ATGTA ATGTA ATGTA ATGTA ATGTA ATGTA A
55844428 GGTTTCGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (5 bp):
ATGTA
Found at i:55854554 original size:21 final size:21
Alignment explanation
Indices: 55854518--55854577 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
55854508 TTTAAAAATA
55854518 TAAAAACATAT-A-AATATTTT
1 TAAAAA-ATATAATAATATTTT
**
55854538 TAAAAAATATAATAATAAATT
1 TAAAAAATATAATAATATTTT
** *
55854559 TAAAATTTATATTAATATT
1 TAAAAAATATAATAATATT
55854578 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 20 0.65
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAAATATAATAATATTTT
Found at i:55854645 original size:13 final size:12
Alignment explanation
Indices: 55854626--55854660 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
55854616 TCCAATAAAT
55854626 TTTATATTAATA
1 TTTATATTAATA
*
55854638 TTTAATATTTATA
1 TTT-ATATTAATA
55854651 TTTATATTAA
1 TTTATATTAA
55854661 ATAATCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATATTAATA
Found at i:55854650 original size:19 final size:19
Alignment explanation
Indices: 55854621--55854663 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
55854611 TCCCATCCAA
55854621 TAAAT-TTTATATTAATAT
1 TAAATATTTATATTAATAT
* *
55854639 TTAATATTTATATTTATAT
1 TAAATATTTATATTAATAT
55854658 TAAATA
1 TAAATA
55854664 ATCAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAATATTTATATTAATAT
Found at i:55854831 original size:10 final size:9
Alignment explanation
Indices: 55854814--55854880 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 9
55854804 AAAAAAAAGA
55854814 TATAAATAT
1 TATAAATAT
55854823 TATTAAATAT
1 TA-TAAATAT
55854833 TA-AAATAT
1 TATAAATAT
55854841 TA-AAAT-T
1 TATAAATAT
55854848 GATATAAAT-T
1 --TATAAATAT
*
55854858 TGA-AAATTT
1 T-ATAAATAT
55854867 TATAAATAT
1 TATAAATAT
55854876 TATAA
1 TATAA
55854881 TAAACCTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
7 1 0.02
8 18 0.36
9 17 0.34
10 14 0.28
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (9 bp):
TATAAATAT
Found at i:55854846 original size:26 final size:28
Alignment explanation
Indices: 55854814--55854884 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 28
55854804 AAAAAAAAGA
55854814 TATAAATATTAT-TAAATATT-AAAATAT
1 TATAAATATTATATAAAT-TTGAAAATAT
* *
55854841 TA-AAAT-TGATATAAATTTGAAAATTT
1 TATAAATATTATATAAATTTGAAAATAT
55854867 TATAAATATTATAATAAA
1 TATAAATATTAT-ATAAA
55854885 CCTAATAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 5 0.14
26 17 0.47
27 6 0.17
28 3 0.08
29 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
TATAAATATTATATAAATTTGAAAATAT
Found at i:55854864 original size:75 final size:76
Alignment explanation
Indices: 55854785--55854951 Score: 187
Period size: 75 Copynumber: 2.2 Consensus size: 76
55854775 ATTTTTCATA
* * * *
55854785 AAAATATTATAAAAATTATAAAAAAAAGATATAAATATTATTAAAT-ATTAAAATATTAAAATTG
1 AAAATTTTATAAAAATTATAAAAAAAAGA-ATAAATATTAATAAATCATAAAAATA-TAAAATTA
*
55854849 ATATAA-AT-TTG
64 ATAAAACATATTG
* * *** *
55854860 AAAATTTTATAAATATTATAATAAACCTAATAAATTTTAATAAATCATAAAAATATAAAATTAAT
1 AAAATTTTATAAAAATTATAAAAAAAAGAATAAATATTAATAAATCATAAAAATATAAAATTAAT
*
55854925 AAAACATATTT
66 AAAACATATTG
55854936 AAAATTTTATAAAAAT
1 AAAATTTTATAAAAAT
55854952 GTATTTGTAA
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
74 26 0.34
75 33 0.43
76 17 0.22
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (76 bp):
AAAATTTTATAAAAATTATAAAAAAAAGAATAAATATTAATAAATCATAAAAATATAAAATTAAT
AAAACATATTG
Found at i:55854882 original size:8 final size:9
Alignment explanation
Indices: 55854786--55854880 Score: 57
Period size: 9 Copynumber: 11.2 Consensus size: 9
55854776 TTTTTCATAA
55854786 AAATATTAT
1 AAATATTAT
*
55854795 AAAAATTAT
1 AAATATTAT
55854804 AAA-A--A-
1 AAATATTAT
*
55854809 AAAGA-TAT
1 AAATATTAT
55854817 AAATATTATT
1 AAATATTA-T
55854827 AAATATTA-
1 AAATATTAT
55854835 AAATATTA-
1 AAATATTAT
55854843 AAAT-TGATAT
1 AAATAT--TAT
55854853 AAAT-TTGA-
1 AAATATT-AT
*
55854861 AAATTTTAT
1 AAATATTAT
55854870 AAATATTAT
1 AAATATTAT
55854879 AA
1 AA
55854881 TAAACCTAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
5 3 0.04
6 2 0.03
7 2 0.03
8 23 0.32
9 28 0.39
10 14 0.19
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (9 bp):
AAATATTAT
Found at i:55855708 original size:46 final size:45
Alignment explanation
Indices: 55855558--55855718 Score: 281
Period size: 45 Copynumber: 3.6 Consensus size: 45
55855548 TACGTATGAT
*
55855558 CACTTATCAC-TTGTCAC-TAATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
55855601 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
55855646 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
55855692 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
55855719 AGTACTCAAA
Statistics
Matches: 113, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
43 10 0.09
44 7 0.06
45 63 0.56
46 33 0.29
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:55858082 original size:18 final size:17
Alignment explanation
Indices: 55858055--55858090 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
55858045 AATGTTTTAT
*
55858055 TTAATTGAACTGGACAAA
1 TTAATCGAACTGGA-AAA
55858073 TTAATCGAACTGGAAAA
1 TTAATCGAACTGGAAAA
55858090 T
1 T
55858091 CAATGGCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (17 bp):
TTAATCGAACTGGAAAA
Found at i:55858376 original size:11 final size:9
Alignment explanation
Indices: 55858354--55858393 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
55858344 TTTATATCAA
55858354 TTTTAATAT
1 TTTTAATAT
55858363 TTTTAATACT
1 TTTTAATA-T
55858373 TTTTAA-AT
1 TTTTAATAT
*
55858381 ATTTAATAT
1 TTTTAATAT
55858390 TTTT
1 TTTT
55858394 CTGATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 14 0.52
10 7 0.26
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:55865505 original size:31 final size:31
Alignment explanation
Indices: 55865469--55865529 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
55865459 CCACCAGGCA
*
55865469 AACACTTCATTCTATATCTTAGCATGCAGTG
1 AACACTTCAATCTATATCTTAGCATGCAGTG
55865500 AACACTTCAATCTATATCTTAGCATGCAGT
1 AACACTTCAATCTATATCTTAGCATGCAGT
55865530 TATGGTGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (31 bp):
AACACTTCAATCTATATCTTAGCATGCAGTG
Found at i:55869593 original size:109 final size:109
Alignment explanation
Indices: 55869400--55869597 Score: 317
Period size: 109 Copynumber: 1.8 Consensus size: 109
55869390 TATATATATA
*
55869400 TTTTTAACATATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
1 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
*
55869465 CACCACAGTTACTCGATTTGACATTTTTTTTTCTCTTTTTTCAT
66 CACCACAGTTACTCAATTTGACATTTTTTTTTCTCTTTTTTCAT
* *
55869509 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGTGAAATGAGATGACAACCCAAGCCCCT
1 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
* * *
55869574 TACC-CTTGTTACTTAATTTGACAT
66 CACCAC-AGTTACTCAATTTGACAT
55869598 ATCCCTAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 1 0.01
109 80 0.99
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (109 bp):
TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
CACCACAGTTACTCAATTTGACATTTTTTTTTCTCTTTTTTCAT
Found at i:55871833 original size:25 final size:24
Alignment explanation
Indices: 55871795--55871892 Score: 108
Period size: 25 Copynumber: 4.0 Consensus size: 24
55871785 AAACTCACCA
*
55871795 CAGCTTGTATGAGCTTACCGATTT
1 CAGCTCGTATGAGCTTACCGATTT
55871819 GCAGCTCGTGA-GAGCTTACCGATTCT
1 -CAGCTCGT-ATGAGCTTACCGATT-T
*
55871845 CAGCTCGTATGAGCTTACCATATTT
1 CAGCTCGTATGAGCTTACC-GATTT
* * *
55871870 CAGCTCGAAGGAGTTTACCGATT
1 CAGCTCGTATGAGCTTACCGATT
55871893 ATGGCTCGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 4 0.06
25 54 0.86
26 5 0.08
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACCGATTT
Found at i:55871888 original size:50 final size:50
Alignment explanation
Indices: 55871795--55871892 Score: 128
Period size: 50 Copynumber: 2.0 Consensus size: 50
55871785 AAACTCACCA
* *
55871795 CAGCTTGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATTTGCAGCTCGAGAGAGCTTACCGATTCT
* *
55871845 CAGCTCGTATGAGCTTACC-ATATTTCAGCTCGA-AGGAGTTTACCGATT
1 CAGCTCGTATGAGCTTACCGAT-TTGCAGCTCGAGA-GAGCTTACCGATT
55871893 ATGGCTCGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 3 0.07
50 39 0.93
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTTGCAGCTCGAGAGAGCTTACCGATTCT
Found at i:55876068 original size:19 final size:20
Alignment explanation
Indices: 55876012--55876075 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
55876002 TCCTTCATTC
*
55876012 CTTCATTTCCTCGGTTCCCT
1 CTTCATTTCCTCGGTTTCCT
* *
55876032 CTTCAATTAT-CTCAGTTTTCT
1 CTTC-ATT-TCCTCGGTTTCCT
55876053 -TTCATTTCCTCGGTTTCCT
1 CTTCATTTCCTCGGTTTCCT
55876072 CTTC
1 CTTC
55876076 TCCATATCCG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.03
19 12 0.34
20 10 0.29
21 11 0.31
22 1 0.03
ACGTcount: A:0.09, C:0.33, G:0.08, T:0.50
Consensus pattern (20 bp):
CTTCATTTCCTCGGTTTCCT
Found at i:55876697 original size:13 final size:13
Alignment explanation
Indices: 55876672--55876836 Score: 111
Period size: 13 Copynumber: 12.7 Consensus size: 13
55876662 ATTGTAATTA
*
55876672 AATA-ACTAGTTT
1 AATATACTATTTT
*
55876684 ATTATACTATTTT
1 AATATACTATTTT
* *
55876697 AATATATTGTTTT
1 AATATACTATTTT
*
55876710 AATATACTGTTTT
1 AATATACTATTTT
*
55876723 AGTATACT-TTTAT
1 AATATACTATTT-T
*
55876736 AAATATACTGTTTT
1 -AATATACTATTTT
* *
55876750 AATATAATGTTTT
1 AATATACTATTTT
* * *
55876763 AATATATTGTTATA
1 AATATACTATT-TT
*
55876777 AATATACTGTTTT
1 AATATACTATTTT
*
55876790 AATATACTGTTTT
1 AATATACTATTTT
* *
55876803 AATATAATGTTTT
1 AATATACTATTTT
* * *
55876816 AGTATACTGTTAT
1 AATATACTATTTT
55876829 AA-ATACTA
1 AATATACTA
55876837 CACCTTAATT
Statistics
Matches: 129, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
12 11 0.09
13 96 0.74
14 19 0.15
15 3 0.02
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (13 bp):
AATATACTATTTT
Found at i:55876741 original size:40 final size:40
Alignment explanation
Indices: 55876681--55876808 Score: 181
Period size: 40 Copynumber: 3.2 Consensus size: 40
55876671 AAATAACTAG
* *
55876681 TTTATTATACTATTT-T-AATATATTGTTTTAATATACTGT
1 TTTAATATACT-TTTATAAATATACTGTTTTAATATACTGT
* *
55876720 TTTAGTATACTTTTATAAATATACTGTTTTAATATAATGT
1 TTTAATATACTTTTATAAATATACTGTTTTAATATACTGT
55876760 TTTAATATA-TTGTTATAAATATACTGTTTTAATATACTGT
1 TTTAATATACTT-TTATAAATATACTGTTTTAATATACTGT
55876800 TTTAATATA
1 TTTAATATA
55876809 ATGTTTTAGT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
38 3 0.04
39 13 0.16
40 65 0.80
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (40 bp):
TTTAATATACTTTTATAAATATACTGTTTTAATATACTGT
Found at i:55876744 original size:53 final size:53
Alignment explanation
Indices: 55876681--55876833 Score: 211
Period size: 53 Copynumber: 2.9 Consensus size: 53
55876671 AAATAACTAG
* * * * *
55876681 TTTATTATACTATTTTAATATATTGTTTTAATATACTGTT-TTAGTATACT-T
1 TTTAATATACTGTTTTAATATAATGTTTTAATATACTGTTATAAATATACTGT
*
55876732 TTATAAATATACTGTTTTAATATAATGTTTTAATATATTGTTATAAATATACTGT
1 TT-T-AATATACTGTTTTAATATAATGTTTTAATATACTGTTATAAATATACTGT
*
55876787 TTTAATATACTGTTTTAATATAATGTTTTAGTATACTGTTATAAATA
1 TTTAATATACTGTTTTAATATAATGTTTTAATATACTGTTATAAATA
55876834 CTACACCTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
51 2 0.02
52 1 0.01
53 75 0.83
54 9 0.10
55 3 0.03
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.54
Consensus pattern (53 bp):
TTTAATATACTGTTTTAATATAATGTTTTAATATACTGTTATAAATATACTGT
Found at i:55876745 original size:27 final size:26
Alignment explanation
Indices: 55876681--55876835 Score: 179
Period size: 26 Copynumber: 5.9 Consensus size: 26
55876671 AAATAACTAG
* * *
55876681 TTTATTATACTATTTTAATATATTGT
1 TTTAATATACTGTTTTAATATACTGT
*
55876707 TTTAATATACTGTTTTAGTATACT-T
1 TTTAATATACTGTTTTAATATACTGT
*
55876732 TTATAAATATACTGTTTTAATATAATGT
1 TT-T-AATATACTGTTTTAATATACTGT
* *
55876760 TTTAATATATTGTTATAAATATACTGT
1 TTTAATATACTGTT-TTAATATACTGT
*
55876787 TTTAATATACTGTTTTAATATAATGT
1 TTTAATATACTGTTTTAATATACTGT
* *
55876813 TTTAGTATACTGTTATAA-ATACT
1 TTTAATATACTGTTTTAATATACT
55876836 ACACCTTAAT
Statistics
Matches: 110, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.06
26 57 0.52
27 43 0.39
28 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (26 bp):
TTTAATATACTGTTTTAATATACTGT
Found at i:55876845 original size:53 final size:53
Alignment explanation
Indices: 55876686--55876883 Score: 188
Period size: 53 Copynumber: 3.8 Consensus size: 53
55876676 ACTAGTTTAT
* * * * **
55876686 TATACTATTTTAATATATTGTTTTAATATACTGTT-TTAGTATACT-TTTATAAA
1 TATACTGTTTTAATATAATGTTTTAATATACTGTTATAAATATACTACCT-T-AA
* ***
55876739 TATACTGTTTTAATATAATGTTTTAATATATTGTTATAAATATACTGTTTTAA
1 TATACTGTTTTAATATAATGTTTTAATATACTGTTATAAATATACTACCTTAA
*
55876792 TATACTGTTTTAATATAATGTTTTAGTATACTGTTATAAATACTAC-ACCTTAA
1 TATACTGTTTTAATATAATGTTTTAATATACTGTTATAAATA-TACTACCTTAA
* ** * * *
55876845 T-TATTAATGTAATATACTGGTTTAATATACTGTTATAAA
1 TATACTGTTTTAATATAATGTTTTAATATACTGTTATAAA
55876884 ATTGTAATAT
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 31 0.25
53 79 0.63
54 12 0.10
55 3 0.02
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.50
Consensus pattern (53 bp):
TATACTGTTTTAATATAATGTTTTAATATACTGTTATAAATATACTACCTTAA
Found at i:55876895 original size:34 final size:34
Alignment explanation
Indices: 55876852--55876920 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
55876842 TAATTATTAA
*
55876852 TGTAATATACTGGTTTAATATACTGTTATAAAAT
1 TGTAATATACTAGTTTAATATACTGTTATAAAAT
*
55876886 TGTAATATACTATTTTAATATACTGTTATAAAAT
1 TGTAATATACTAGTTTAATATACTGTTATAAAAT
55876920 T
1 T
55876921 AGTCAATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (34 bp):
TGTAATATACTAGTTTAATATACTGTTATAAAAT
Found at i:55889872 original size:24 final size:21
Alignment explanation
Indices: 55889845--55889897 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
55889835 CATATCACTA
55889845 TTTAAAAGTAATAAAATATATTAT
1 TTTAAAA-TAAT-AAATATA-TAT
* **
55889869 TTTATAATAATATTTATATAT
1 TTTAAAATAATAAATATATAT
55889890 TTTAAAAT
1 TTTAAAAT
55889898 CTTAGCCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 10 0.40
22 5 0.20
23 4 0.16
24 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAAATAATAAATATATAT
Found at i:55889876 original size:20 final size:21
Alignment explanation
Indices: 55889853--55889893 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
55889843 TATTTAAAAG
55889853 TAATAAAATATAT-TATTTTA
1 TAATAAAATATATATATTTTA
* *
55889873 TAATAATATTTATATATTTTA
1 TAATAAAATATATATATTTTA
55889894 AAATCTTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATAAAATATATATATTTTA
Found at i:55891186 original size:28 final size:29
Alignment explanation
Indices: 55891155--55891210 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
55891145 TTTAGGGACT
55891155 AAATTGATAAGTTGT-A-AAATTCATGGAA
1 AAATTG-TAAGTTGTGAGAAATTCATGGAA
* *
55891183 AAATTGTAATTTTTGAGAAATTCATGGA
1 AAATTGTAAGTTGTGAGAAATTCATGGA
55891211 CTGTTATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 7 0.29
29 11 0.46
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.36
Consensus pattern (29 bp):
AAATTGTAAGTTGTGAGAAATTCATGGAA
Found at i:55891971 original size:24 final size:24
Alignment explanation
Indices: 55891942--55892005 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
55891932 TTTGGTGCTT
55891942 CCCGTTAAGTGCTCTTCG-GAGCTA
1 CCCGTTAAGTGCTCTTCGTG-GCTA
*
55891966 CCCGTTAATTGCTCTTCGTGGCTA
1 CCCGTTAAGTGCTCTTCGTGGCTA
55891990 CCCGTTACAG-GCTCTT
1 CCCGTTA-AGTGCTCTT
55892006 TGTAAGCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 34 0.94
25 2 0.06
ACGTcount: A:0.14, C:0.31, G:0.22, T:0.33
Consensus pattern (24 bp):
CCCGTTAAGTGCTCTTCGTGGCTA
Found at i:55892500 original size:16 final size:16
Alignment explanation
Indices: 55892476--55892524 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
55892466 TTCGCTGTAT
55892476 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
55892492 TGGATTAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
55892508 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
55892524 T
1 T
55892525 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:55892608 original size:39 final size:43
Alignment explanation
Indices: 55892504--55892612 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
55892494 GATTAGAGGC
55892504 GTAATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTT--AT
* * *
55892549 GTAATGGAATAGAGGCGTAATAG-TAATC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTAT
55892589 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGTGTAATAGCA
55892613 TAATGAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 2 0.04
44 11 0.19
45 22 0.39
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGCAAATCAATTGTTTGGTTAT
Found at i:55892837 original size:61 final size:61
Alignment explanation
Indices: 55892772--55893079 Score: 280
Period size: 61 Copynumber: 5.1 Consensus size: 61
55892762 TTATAAGTAA
*
55892772 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
55892833 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTATAAAT-AA
1 AATATATAAT-TTAATAAAATTATTAA-TAATCAAT-ATTCTTATATGAATTTACT-CAAATCAT
55892892 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
55892953 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTATTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
55893012 AATATATAATTTAATAAAATTATTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
55893073 AATATAT
1 AATATAT
55893080 GATACTATAA
Statistics
Matches: 189, Mismatches: 38, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
58 4 0.02
59 58 0.31
60 58 0.31
61 65 0.34
62 4 0.02
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTATTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:55892896 original size:16 final size:17
Alignment explanation
Indices: 55892875--55892916 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
55892865 AATTATTATT
55892875 AAATATATTA-TAAATA
1 AAATATATTATTAAATA
* *
55892891 AAATATATAATTTAATA
1 AAATATATTATTAAATA
55892908 AAAT-TATTA
1 AAATATATTA
55892917 ATAATCAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATATTATTAAATA
Found at i:55892909 original size:59 final size:58
Alignment explanation
Indices: 55892740--55893156 Score: 244
Period size: 60 Copynumber: 7.0 Consensus size: 58
55892730 ATCATATTTA
* * * *
55892740 AACATAATTATTATTAAATATATTATAAGTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAAATAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * *
55892799 AATCA-ATATTCTTATATGAATTTACT-CAAATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATATTATAAAT-AAAATATATGAT-TTAATAAAATATAAA-T
* *
55892860 AACATAATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAAT
1 AACATAATTATTATTAAATATATTATAAATAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * *
55892919 AATCA-ATATTCTTATATGAATTTACT-CAAATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATATTATAAAT-AAAATATATGAT-TTAATAAAATATAAA-T
* * *
55892980 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAT
1 AACATAATTATTATTAAATATATTATAAATAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * *
55893039 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T-AAAT-AAAATATATGAT-TTAATAAAATATAA-AT
* * * *
55893100 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAAATAAAATATATGATTTAATAAAATATAAA
55893157 ATAATTACAA
Statistics
Matches: 267, Mismatches: 60, Indels: 63
0.68 0.15 0.16
Matches are distributed among these distances:
57 10 0.04
58 10 0.04
59 77 0.29
60 78 0.29
61 72 0.27
62 11 0.04
63 9 0.03
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAAATAAAATATATGATTTAATAAAATATAAAT
Found at i:55893018 original size:18 final size:18
Alignment explanation
Indices: 55892997--55893044 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
55892987 TTATTATTAA
55892997 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
55893015 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
55893032 -TAT-TAATAATTAA
1 ATATATTATAATTAA
55893045 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:55893025 original size:14 final size:15
Alignment explanation
Indices: 55892976--55893027 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
55892966 ATAAAATATA
55892976 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
55892991 TATTAAATATATTAT
1 AATTAAATATATTAT
55893006 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
55893019 AATTTAATA
1 AATTAAATA
55893028 AAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:55893163 original size:120 final size:120
Alignment explanation
Indices: 55892740--55893152 Score: 729
Period size: 120 Copynumber: 3.4 Consensus size: 120
55892730 ATCATATTTA
* *
55892740 AACATAATTATTATTAAATATATTATAAGTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
55892805 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
55892860 AACATAATTATTATTAAATATATTATAAATAAAATATATAATTTAATAAAATTATTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
55892925 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
55892980 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
* *
55893045 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
55893100 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
55893153 TAAAATAATT
Statistics
Matches: 283, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 281 0.99
121 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:55893199 original size:101 final size:93
Alignment explanation
Indices: 55893093--55893376 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
55893083 ACTATAAAAG
* * * *
55893093 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
*
55893157 ATAATTACAACTAATAAATTATCTTATATGAATTTGT
62 -T-ATT--AA-TAATAAATTATCTTATATGAATTTAT
* * *
55893194 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
* *
55893257 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* * *
55893285 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
* *
55893348 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
55893376 A
1 A
55893377 CAATAGATAT
Statistics
Matches: 168, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
91 112 0.67
92 1 0.01
94 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTATT
AATAATAAATTATCTTATATGAATTTAT
Found at i:55893222 original size:26 final size:28
Alignment explanation
Indices: 55893193--55893253 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
55893183 TATGAATTTG
*
55893193 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
55893219 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
55893247 TAAAATT
1 TATAATT
55893254 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:55893251 original size:47 final size:46
Alignment explanation
Indices: 55893200--55893343 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
55893190 TTGTATAATT
55893200 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
55893247 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
55893291 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
55893338 TAAAAT
1 TAAAAT
55893344 TCTTGATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:55893263 original size:91 final size:91
Alignment explanation
Indices: 55893168--55893380 Score: 372
Period size: 91 Copynumber: 2.3 Consensus size: 91
55893158 TAATTACAAC
* * * * *
55893168 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
55893233 AATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
55893259 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
55893324 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCTTGA
55893350 TAATAAATTTTCTTATATGAATTTATACAAT
1 TAATAAATTTTCTTATATGAATTTATACAAT
55893381 AGATATTTAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:55893357 original size:47 final size:47
Alignment explanation
Indices: 55893218--55893357 Score: 139
Period size: 47 Copynumber: 3.0 Consensus size: 47
55893208 TTATTATTAC
*
55893218 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
* * * ** * *
55893265 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTGATAATAA
55893309 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
55893356 AT
1 AT
55893358 TTTCTTATAT
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAATAA
Found at i:55902870 original size:12 final size:12
Alignment explanation
Indices: 55902849--55902878 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
55902839 TAATAAAAAT
55902849 ATAA-TTATATA
1 ATAATTTATATA
55902860 ATAATTTATATA
1 ATAATTTATATA
55902872 ATAATTT
1 ATAATTT
55902879 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAATTTATATA
Found at i:55906485 original size:6 final size:6
Alignment explanation
Indices: 55906474--55906502 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
55906464 GTTCTCCCCA
55906474 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
55906503 CCAACATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:55910151 original size:120 final size:120
Alignment explanation
Indices: 55910013--55910305 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
55910003 AATTATTTTA
* * * *
55910013 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
55910076 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
55910133 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
55910198 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
55910253 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
55910306 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 4 0.02
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:55910173 original size:15 final size:15
Alignment explanation
Indices: 55910138--55910179 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55910128 TTAAGAATTT
*
55910138 TATTAAATTAT-ATA
1 TATTTAATTATAATA
55910152 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
55910166 TATTTAATAATAAT
1 TATTTAATTATAAT
55910180 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:55910288 original size:16 final size:16
Alignment explanation
Indices: 55910267--55910308 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
55910257 TTATTAAATT
*
55910267 ATATATTTTAATTATA
1 ATATATTTTAATAATA
55910283 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
55910298 AT-TATGTTTAA
1 ATATAT-TTTAA
55910309 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:55910293 original size:15 final size:15
Alignment explanation
Indices: 55910258--55910299 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55910248 TTAAGAATTT
*
55910258 TATTAAATTAT-ATA
1 TATTTAATTATAATA
55910272 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
55910286 TATTTAATAATAAT
1 TATTTAATTATAAT
55910300 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:55910449 original size:157 final size:157
Alignment explanation
Indices: 55910242--55910558 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
55910232 ATAAGAATAT
*
55910242 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
55910307 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
55910372 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
55910399 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
55910463 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
55910528 ATAATCATTTACCAAAACAATTTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
55910556 TAA
1 TAA
55910559 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 25 0.16
157 127 0.84
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:55910675 original size:44 final size:45
Alignment explanation
Indices: 55910610--55910700 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
55910600 ACCTCTATTC
* * *
55910610 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
55910654 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
55910699 CA
1 CA
55910701 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:55910702 original size:16 final size:16
Alignment explanation
Indices: 55910681--55910749 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
55910671 GATTAGCTAT
55910681 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55910697 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
55910714 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55910730 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55910746 TACA
1 TACA
55910750 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:55910723 original size:33 final size:32
Alignment explanation
Indices: 55910681--55910749 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
55910671 GATTAGCTAT
55910681 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
55910714 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
55910746 TACA
1 TACA
55910750 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:55912140 original size:21 final size:22
Alignment explanation
Indices: 55912099--55912155 Score: 89
Period size: 21 Copynumber: 2.5 Consensus size: 22
55912089 TTAAAAAATA
55912099 TTATAAAATTATAACACATTTTCT
1 TTATAAAATTAT-A-ACATTTTCT
55912123 TTATAAAATTAT-ACATTTTCT
1 TTATAAAATTATAACATTTTCT
55912144 TTATAAAATTAT
1 TTATAAAATTAT
55912156 GTTATCTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.64
24 12 0.36
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAAAATTATAACATTTTCT
Found at i:55912789 original size:38 final size:36
Alignment explanation
Indices: 55912728--55912806 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 36
55912718 TTAATGACTT
* *
55912728 TTTTAATAATTTTTACAAGTTTATATCAATTTTATTAC
1 TTTTAATAATTTATACAAGTTTATA--AATTTTATGAC
* *
55912766 TTTTAATAATTTATATATA-TTTATAATTTTTATGAC
1 TTTTAATAATTTATACA-AGTTTATAAATTTTATGAC
55912802 TTTTA
1 TTTTA
55912807 TAGAATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 14 0.39
38 21 0.58
39 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (36 bp):
TTTTAATAATTTATACAAGTTTATAAATTTTATGAC
Found at i:55912847 original size:20 final size:21
Alignment explanation
Indices: 55912803--55912847 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
55912793 TTTTATGACT
* *
55912803 TTTATAGAATTTTAATATGTG
1 TTTATAAAATTTTAATATCTG
55912824 TTTATAAAATTTTAA-ATCTG
1 TTTATAAAATTTTAATATCTG
55912844 TTTA
1 TTTA
55912848 ATTAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTATAAAATTTTAATATCTG
Found at i:55912921 original size:18 final size:17
Alignment explanation
Indices: 55912886--55912926 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
55912876 CAATTGTCAT
55912886 ATTTTTAATATTTAATA
1 ATTTTTAATATTTAATA
* *
55912903 ATTTTTACATTTTTGATA
1 ATTTTTA-ATATTTAATA
55912921 ATTTTT
1 ATTTTT
55912927 TTCCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTTTTAATATTTAATA
Found at i:55914677 original size:30 final size:29
Alignment explanation
Indices: 55914614--55914681 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
55914604 AACACTTTAA
* * *
55914614 TTTTATAATTAATTTGTTTTTCACCTCAT
1 TTTTATAATTAATTAGTTTTTAACATCAT
* *
55914643 TTTTATAATTAATTAGTTTTCTAATATTAT
1 TTTTATAATTAATTAGTTTT-TAACATCAT
55914673 TTTTATAAT
1 TTTTATAAT
55914682 AAAACCGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 19 0.58
30 14 0.42
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (29 bp):
TTTTATAATTAATTAGTTTTTAACATCAT
Found at i:55915797 original size:29 final size:32
Alignment explanation
Indices: 55915744--55915805 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 32
55915734 TGCATGATAA
*
55915744 ATTTAATGTAAATATAAAATTTTTAATAATTT
1 ATTTAAGGTAAATATAAAATTTTTAATAATTT
*
55915776 ATTTAAGGTAAA-AT-AAA-TTTTAATCATTT
1 ATTTAAGGTAAATATAAAATTTTTAATAATTT
55915805 A
1 A
55915806 ATAATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 12 0.43
30 3 0.11
31 2 0.07
32 11 0.39
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (32 bp):
ATTTAAGGTAAATATAAAATTTTTAATAATTT
Found at i:55916290 original size:57 final size:57
Alignment explanation
Indices: 55916221--55916377 Score: 296
Period size: 57 Copynumber: 2.8 Consensus size: 57
55916211 GAAGAAGAGA
* *
55916221 AGCACAAGGGAGAAGCTCATCACGAAGGCGGCCATGGCCATGGTTATGGCGCCGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
55916278 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
55916335 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
1 AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
55916378 CGCCGCTGCG
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 98 1.00
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (57 bp):
AGCACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTG
Found at i:55919942 original size:8 final size:8
Alignment explanation
Indices: 55919929--55919998 Score: 86
Period size: 8 Copynumber: 8.4 Consensus size: 8
55919919 TTGGTTAAAA
55919929 ATTAACCG
1 ATTAACCG
*
55919937 ATTAACAG
1 ATTAACCG
55919945 ATTTAACCG
1 A-TTAACCG
55919954 ATTTAACCG
1 A-TTAACCG
*
55919963 ATTAACCA
1 ATTAACCG
*
55919971 ATTAACCA
1 ATTAACCG
55919979 ATTAACCG
1 ATTAACCG
55919987 ATTTAACCG
1 A-TTAACCG
55919996 ATT
1 ATT
55919999 TTAAATCACT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
8 32 0.57
9 24 0.43
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (8 bp):
ATTAACCG
Found at i:55919956 original size:9 final size:9
Alignment explanation
Indices: 55919930--55919999 Score: 85
Period size: 9 Copynumber: 8.2 Consensus size: 9
55919920 TGGTTAAAAA
55919930 TTAACCGA-
1 TTAACCGAT
*
55919938 TTAACAGAT
1 TTAACCGAT
55919947 TTAACCGAT
1 TTAACCGAT
55919956 TTAACCGA-
1 TTAACCGAT
*
55919964 TTAACC-AA
1 TTAACCGAT
*
55919972 TTAACC-AA
1 TTAACCGAT
55919980 TTAACCGAT
1 TTAACCGAT
55919989 TTAACCGAT
1 TTAACCGAT
55919998 TT
1 TT
55920000 TAAATCACTA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
7 1 0.02
8 27 0.48
9 28 0.50
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (9 bp):
TTAACCGAT
Found at i:55920067 original size:17 final size:17
Alignment explanation
Indices: 55920045--55920142 Score: 61
Period size: 17 Copynumber: 5.4 Consensus size: 17
55920035 TTTGAATCAC
55920045 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
55920062 TACATAATTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
55920082 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
55920099 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
55920119 TAGATAATTAAAAACAT
1 TACATAATTAAAAACAT
55920136 TACATAA
1 TACATAA
55920143 GTCTTAAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 32 0.56
20 25 0.44
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:55920151 original size:20 final size:19
Alignment explanation
Indices: 55920015--55920151 Score: 70
Period size: 20 Copynumber: 7.3 Consensus size: 19
55920005 CACTACATAG
*
55920015 TTAAAAAAATTACATAAGTC
1 TTAAAAACATTACATAA-TC
** * *
55920035 TTTGAATCACTACATAA--
1 TTAAAAACATTACATAATC
55920052 TTAAAAACATTACATAATTC
1 TTAAAAACATTACATAA-TC
** * *
55920072 TTTGAATCACTACATAA--
1 TTAAAAACATTACATAATC
55920089 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAA-TC
** * * *
55920109 TTTGAATCACTAGATAA--
1 TTAAAAACATTACATAATC
55920126 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAA-TC
55920146 TTAAAA
1 TTAAAA
55920152 TTAACACATA
Statistics
Matches: 81, Mismatches: 27, Indels: 18
0.64 0.21 0.14
Matches are distributed among these distances:
17 38 0.47
20 43 0.53
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (19 bp):
TTAAAAACATTACATAATC
Found at i:55920161 original size:74 final size:74
Alignment explanation
Indices: 55920001--55920164 Score: 240
Period size: 74 Copynumber: 2.2 Consensus size: 74
55919991 AACCGATTTT
* *
55920001 AAATCACTACATAGTTAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTACA
1 AAATAACTACATAATTAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTACA
* *
55920066 TAATTCTTT
66 TAAGTCTTA
* * * *
55920075 GAATCACTACATAATTAAAAACATTACATAAGTCTTTGAATCACTAGATAATTAAAAACATTACA
1 AAATAACTACATAATTAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTACA
55920140 TAAGTCTTA
66 TAAGTCTTA
55920149 AAATTAAC-ACATAATT
1 AAA-TAACTACATAATT
55920165 GAAATATAAG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 78 0.96
75 3 0.04
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (74 bp):
AAATAACTACATAATTAAAAAAATTACATAAGTCTTTGAATCACTACATAATTAAAAACATTACA
TAAGTCTTA
Found at i:55920164 original size:37 final size:37
Alignment explanation
Indices: 55920002--55920147 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
55919992 ACCGATTTTA
* *
55920002 AATCACTACATAGTTAAAAAAATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
55920039 AATCACTACATAATTAAAAACATTACATAATTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
55920076 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
55920113 AATCACTAGATAATTAAAAACATTACATAAGTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
55920148 AAAATTAACA
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:55922748 original size:23 final size:23
Alignment explanation
Indices: 55922718--55922793 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
55922708 AATTACTGCT
55922718 TTCATAAACTAGAAAGCCATAAA
1 TTCATAAACTAGAAAGCCATAAA
* * *** ***
55922741 TTCATAAAGTGGAATTAC-TGCT
1 TTCATAAACTAGAAAGCCATAAA
55922763 TTCATAAACTAGAAAGCCATAAA
1 TTCATAAACTAGAAAGCCATAAA
55922786 TTCATAAA
1 TTCATAAA
55922794 ATGGAATTAC
Statistics
Matches: 36, Mismatches: 16, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (23 bp):
TTCATAAACTAGAAAGCCATAAA
Found at i:55922762 original size:45 final size:45
Alignment explanation
Indices: 55922708--55922815 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
55922698 TAGCCATAAT
*
55922708 AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCATAAAGTGG
1 AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCATAAAATGG
55922753 AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCATAAAATGG
1 AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCATAAAATGG
55922798 AATTACTGCTTTCATAAA
1 AATTACTGCTTTCATAAA
55922816 TTCATAAATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.31
Consensus pattern (45 bp):
AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCATAAAATGG
Found at i:55922814 original size:22 final size:22
Alignment explanation
Indices: 55922741--55922815 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
55922731 AAGCCATAAA
*
55922741 TTCATAAAGTGGAATTACTGCT
1 TTCATAAAATGGAATTACTGCT
* * *** ***
55922763 TTCATAAACTAGAAAGCCATAAA
1 TTCATAAAATGGAATTAC-TGCT
55922786 TTCATAAAATGGAATTACTGCT
1 TTCATAAAATGGAATTACTGCT
55922808 TTCATAAA
1 TTCATAAA
55922816 TTCATAAATT
Statistics
Matches: 36, Mismatches: 16, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
22 22 0.61
23 14 0.39
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (22 bp):
TTCATAAAATGGAATTACTGCT
Found at i:55923434 original size:25 final size:25
Alignment explanation
Indices: 55923405--55923470 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 25
55923395 AATGGTAATC
55923405 GGGTTTGGGTAGACTTTAGTTTATT
1 GGGTTTGGGTAGACTTTAGTTTATT
*
55923430 GGG-TT-GGTAGA---T-GTTAATT
1 GGGTTTGGGTAGACTTTAGTTTATT
55923449 GGGTTTGGGTAGACTTTAGTTT
1 GGGTTTGGGTAGACTTTAGTTT
55923471 GTTGTGTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
19 9 0.27
20 3 0.09
21 6 0.18
23 6 0.18
24 3 0.09
25 6 0.18
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.45
Consensus pattern (25 bp):
GGGTTTGGGTAGACTTTAGTTTATT
Found at i:55923439 original size:23 final size:23
Alignment explanation
Indices: 55923412--55923482 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
55923402 ATCGGGTTTG
55923412 GGTAGACTTTAGTTTATTGGGTT
1 GGTAGACTTTAGTTTATTGGGTT
*
55923435 GGTAGA---T-GTTAATTGGGTTT
1 GGTAGACTTTAGTTTATTGGG-TT
* *
55923455 GGGTAGACTTTAGTTTGTTGTGTT
1 -GGTAGACTTTAGTTTATTGGGTT
55923479 GGTA
1 GGTA
55923483 AATGGTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 9 0.24
20 3 0.08
21 6 0.16
23 10 0.26
24 3 0.08
25 7 0.18
ACGTcount: A:0.17, C:0.03, G:0.34, T:0.46
Consensus pattern (23 bp):
GGTAGACTTTAGTTTATTGGGTT
Found at i:55923468 original size:44 final size:44
Alignment explanation
Indices: 55923392--55923502 Score: 170
Period size: 44 Copynumber: 2.5 Consensus size: 44
55923382 TTAGTAATTA
*
55923392 GTAAATGGTAATCGGGTTTGGGTAGACTTTAGTTTATTGGGTTG
1 GTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGGTTG
* * * *
55923436 GTAGATGTTAATTGGGTTTGGGTAGACTTTAGTTTGTTGTGTTG
1 GTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGGTTG
55923480 GTAAATGGTAATTGGG-TTGGGTA
1 GTAAATGGTAATTGGGTTTGGGTA
55923503 ATTGGGTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
43 7 0.12
44 53 0.88
ACGTcount: A:0.20, C:0.03, G:0.35, T:0.42
Consensus pattern (44 bp):
GTAAATGGTAATTGGGTTTGGGTAGACTTTAGTTTATTGGGTTG
Found at i:55923504 original size:13 final size:13
Alignment explanation
Indices: 55923486--55923510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55923476 GTTGGTAAAT
55923486 GGTAATTGGGTTG
1 GGTAATTGGGTTG
55923499 GGTAATTGGGTT
1 GGTAATTGGGTT
55923511 TATTAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:55924530 original size:14 final size:15
Alignment explanation
Indices: 55924503--55924535 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
55924493 GTTTCTTAGA
55924503 ATATGCATCAATAAAT
1 ATATGCAT-AATAAAT
55924519 ATATGCAT-ATAAAT
1 ATATGCATAATAAAT
55924533 ATA
1 ATA
55924536 AAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (15 bp):
ATATGCATAATAAAT
Found at i:55925295 original size:25 final size:24
Alignment explanation
Indices: 55925257--55925339 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
55925247 TATATATATA
55925257 TTTATATTACTTTATTTTCATAATT
1 TTTATA-TACTTTATTTTCATAATT
* *
55925282 TTTATATACATTTATATACAT-ATT
1 TTTATATAC-TTTATTTTCATAATT
*
55925306 TTTATAT-TTTTCATATTTCATAATT
1 TTTATATACTTT-AT-TTTCATAATT
55925331 TTTATATAC
1 TTTATATAC
55925340 CTACATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
22 3 0.06
23 2 0.04
24 17 0.36
25 25 0.53
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTATATACTTTATTTTCATAATT
Found at i:55925298 original size:49 final size:49
Alignment explanation
Indices: 55925242--55925339 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 49
55925232 ATATACACAT
*
55925242 ATTTATATATATATATTTATATTACTTT-AT-TTTCATAATTTTTATATAC
1 ATTTATATACATATATTTATATT--TTTCATATTTCATAATTTTTATATAC
*
55925291 ATTTATATACATATTTTTATATTTTTCATATTTCATAATTTTTATATAC
1 ATTTATATACATATATTTATATTTTTCATATTTCATAATTTTTATATAC
55925340 CTACATATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 3 0.07
48 2 0.04
49 40 0.89
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (49 bp):
ATTTATATACATATATTTATATTTTTCATATTTCATAATTTTTATATAC
Found at i:55925306 original size:33 final size:34
Alignment explanation
Indices: 55925239--55925321 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
55925229 TATATATACA
* *
55925239 CATATTTATATATATATATTTATATTACTTTATTTT
1 CATATTT-T-TATATACATTTATATTACTATATTTT
55925275 CATAATTTTTATATACATTTATA-TAC-ATATTTT
1 CAT-ATTTTTATATACATTTATATTACTATATTTT
*
55925308 TATATTTTTCATAT
1 CATATTTTT-ATAT
55925322 TTCATAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 6 0.14
33 12 0.29
34 3 0.07
35 13 0.31
36 4 0.10
37 4 0.10
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (34 bp):
CATATTTTTATATACATTTATATTACTATATTTT
Found at i:55925412 original size:19 final size:18
Alignment explanation
Indices: 55925390--55925430 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
55925380 ATATATTCTT
*
55925390 TATATTTTAAAATATTATA
1 TATATTTTAAAAT-TTACA
*
55925409 TATATTTTATAATTTACA
1 TATATTTTAAAATTTACA
55925427 TATA
1 TATA
55925431 CATACATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATTTTAAAATTTACA
Found at i:55925460 original size:25 final size:26
Alignment explanation
Indices: 55925288--55925462 Score: 90
Period size: 26 Copynumber: 6.6 Consensus size: 26
55925278 AATTTTTATA
* *
55925288 TACATTTATATACATATTTTTATATTT
1 TACATATATATACATA-TTTTATAATT
* * **
55925315 TTCATATTTCATA-AT-TTTTATATACC
1 TACATATAT-ATACATATTTTATA-ATT
**
55925341 TACATATATATACATATTTTACTTCTT
1 TACATATATATACATATTTTA-TAATT
* * *
55925368 ATACATACT-TGTATATATTCTTTATATTT
1 -TACATA-TATATACATA-T-TTTATAATT
* *
55925397 TA-AAATATTATATATATTTTATAATT
1 TACATATA-TATACATATTTTATAATT
*
55925423 TACATATACATACATATTTT-TAATT
1 TACATATATATACATATTTTATAATT
* *
55925448 TATATCTATATACAT
1 TACATATATATACAT
55925463 GGGCATTTTA
Statistics
Matches: 111, Mismatches: 25, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
25 27 0.24
26 30 0.27
27 20 0.18
28 25 0.23
29 5 0.05
30 4 0.04
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (26 bp):
TACATATATATACATATTTTATAATT
Done.