Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 172 of 204
Found at i:51211136 original size:41 final size:41
Alignment explanation
Indices: 51211091--51211185 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
51211081 TTTGGTCTTC
*
51211091 TAGCGGCGTTTTTAT-ATAAGCGAC-GCTAAAGTTAAGATTTT
1 TAGCGGCGTTTTTATGATAAGCG-CTGCTAAAGTT-AGAGTTT
* * * *
51211132 TAGCGGCGATTCTATGATAAGCGCTGCTAATGTTAGGGTTT
1 TAGCGGCGTTTTTATGATAAGCGCTGCTAAAGTTAGAGTTT
51211173 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
51211186 GTTGAAGCGC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
41 30 0.67
42 15 0.33
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (41 bp):
TAGCGGCGTTTTTATGATAAGCGCTGCTAAAGTTAGAGTTT
Found at i:51212037 original size:29 final size:29
Alignment explanation
Indices: 51211999--51212096 Score: 74
Period size: 29 Copynumber: 3.3 Consensus size: 29
51211989 ATGATTATTA
*
51211999 GGGTTTGGGATATAAGGT-TTACGG-GTTAG
1 GGGTTAGGGAT-TAAGGTGTTA-GGAGTTAG
* *
51212028 GGGTTAGGGATTTAGGTGTTAGGATTTAG
1 GGGTTAGGGATTAAGGTGTTAGGAGTTAG
* * * * *
51212057 GGGTTAGGAATTTAGGGGCTAAGAGATTTAG
1 GGGTTAGGGATTAAGGTG-TTAG-GAGTTAG
51212088 GGGTTAGGG
1 GGGTTAGGG
51212097 GTTAGGGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 7 0.12
29 33 0.57
30 3 0.05
31 15 0.26
ACGTcount: A:0.22, C:0.02, G:0.43, T:0.33
Consensus pattern (29 bp):
GGGTTAGGGATTAAGGTGTTAGGAGTTAG
Found at i:51212042 original size:15 final size:15
Alignment explanation
Indices: 51212024--51212118 Score: 97
Period size: 15 Copynumber: 6.4 Consensus size: 15
51212014 GGTTTACGGG
51212024 TTAGGGGTTAGGGAT
1 TTAGGGGTTAGGGAT
*
51212039 TTAGGTGTTA-GGAT
1 TTAGGGGTTAGGGAT
*
51212053 TTAGGGGTTAGGAAT
1 TTAGGGGTTAGGGAT
* *
51212068 TTAGGGGCTAAGAGAT
1 TTAGGGG-TTAGGGAT
*
51212084 TTAGGGGTTAGGG-G
1 TTAGGGGTTAGGGAT
*
51212098 TTAGGGATTTAGGG-T
1 TTAGGG-GTTAGGGAT
51212113 TTAGGG
1 TTAGGG
51212119 TGTCAATTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
14 19 0.29
15 35 0.53
16 12 0.18
ACGTcount: A:0.22, C:0.01, G:0.43, T:0.34
Consensus pattern (15 bp):
TTAGGGGTTAGGGAT
Found at i:51212119 original size:7 final size:7
Alignment explanation
Indices: 51211996--51212119 Score: 56
Period size: 7 Copynumber: 17.0 Consensus size: 7
51211986 TATATGATTA
51211996 TTAGGGT
1 TTAGGGT
51212003 TT-GGGAT
1 TTAGGG-T
* *
51212010 ATAAGGT
1 TTAGGGT
51212017 TTACGGG-
1 TTA-GGGT
*
51212024 TTAGGGG
1 TTAGGGT
51212031 TTAGGGAT
1 TTAGGG-T
51212039 TTA-GGT
1 TTAGGGT
*
51212045 GTTAGGAT
1 -TTAGGGT
*
51212053 TTAGGGG
1 TTAGGGT
*
51212060 TTAGGAAT
1 TTAGG-GT
*
51212068 TTAGGGGC
1 TTA-GGGT
* *
51212076 TAAGAGAT
1 TTAG-GGT
*
51212084 TTAGGGG
1 TTAGGGT
*
51212091 TTAGGGG
1 TTAGGGT
51212098 TTAGGGAT
1 TTAGGG-T
51212106 TTAGGGT
1 TTAGGGT
51212113 TTAGGGT
1 TTAGGGT
51212120 GTCAATTAAG
Statistics
Matches: 87, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
6 7 0.08
7 54 0.62
8 24 0.28
9 2 0.02
ACGTcount: A:0.22, C:0.02, G:0.42, T:0.35
Consensus pattern (7 bp):
TTAGGGT
Found at i:51212575 original size:2 final size:2
Alignment explanation
Indices: 51212525--51212560 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
51212515 TTAATTAGAG
*
51212525 AT AT AT A- AT AT AT AT AT AT AT AT GT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51212561 GATCACTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:51215951 original size:11 final size:11
Alignment explanation
Indices: 51215931--51215963 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
51215921 ATTGATTGAC
*
51215931 TGTCAGTGAAT
1 TGTCAATGAAT
51215942 TGTCAATGAA-
1 TGTCAATGAAT
51215952 TGTCAATGAAT
1 TGTCAATGAAT
51215963 T
1 T
51215964 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:51216042 original size:13 final size:13
Alignment explanation
Indices: 51215996--51216087 Score: 91
Period size: 13 Copynumber: 6.9 Consensus size: 13
51215986 TATAACTTAC
51215996 ATTACTTAAATAT
1 ATTACTTAAATAT
* *
51216009 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
51216024 -TTACTTAAATAT
1 ATTACTTAAATAT
*
51216036 ATTACTTAAATAC
1 ATTACTTAAATAT
51216049 ATTACTTACTAGA-AT
1 ATTACTTA--A-ATAT
51216064 -TTACTTAAATAT
1 ATTACTTAAATAT
51216076 ATTACTTAAATA
1 ATTACTTAAATA
51216088 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:51216044 original size:40 final size:38
Alignment explanation
Indices: 51215979--51216231 Score: 230
Period size: 40 Copynumber: 6.5 Consensus size: 38
51215969 TATATATTTT
* * * *
51215979 TAAAATTTATAACTTACATTACTTAAATATATTAATTAC
1 TAAAATTTATAA-ATATATTACTTAAATACATTACTTAC
51216018 TAAAATTTACTTAAATATATTACTTAAATACATTACTTAC
1 TAAAATTTA--TAAATATATTACTTAAATACATTACTTAC
* *
51216058 TAGAATTTACTTAAATATATTACTTAAATACATGACTTAC
1 TAAAATTTA--TAAATATATTACTTAAATACATTACTTAC
**
51216098 TAAAA-TTA-AAGTATATATTACATTACTTACATTACTTAC
1 TAAAATTTATAA--ATATATTAC-TTAAATACATTACTTAC
* *
51216137 TAAAA--TAT-ATTA-ATTACTTAAATATATTACTTAC
1 TAAAATTTATAAATATATTACTTAAATACATTACTTAC
* * * *
51216171 AAAAATTTATAACTTACATTACTTAAATATATTACATTAC
1 TAAAATTTATAA-ATATATTACTTAAATACATTAC-TTAC
*
51216211 TTAAAATTTATATATATATTA
1 -TAAAATTTATAAATATATTA
51216232 AAAATTTATA
Statistics
Matches: 182, Mismatches: 19, Indels: 25
0.81 0.08 0.11
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 74 0.41
41 13 0.07
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (38 bp):
TAAAATTTATAAATATATTACTTAAATACATTACTTAC
Found at i:51216095 original size:13 final size:13
Alignment explanation
Indices: 51215993--51216096 Score: 79
Period size: 13 Copynumber: 7.8 Consensus size: 13
51215983 ATTTATAACT
51215993 TACATTACTTAAA
1 TACATTACTTAAA
* *
51216006 TATATTAATTACTAA
1 TACATTACTTA--AA
51216021 -A-ATTTACTTAAA
1 TACA-TTACTTAAA
*
51216033 TATATTACTTAAA
1 TACATTACTTAAA
*
51216046 TACATTACTT-AC
1 TACATTACTTAAA
*
51216058 TAGAATTTACTTAAA
1 TA-CA-TTACTTAAA
*
51216073 TATATTACTTAAA
1 TACATTACTTAAA
*
51216086 TACATGACTTA
1 TACATTACTTA
51216097 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:51216153 original size:17 final size:17
Alignment explanation
Indices: 51216128--51216217 Score: 72
Period size: 17 Copynumber: 4.9 Consensus size: 17
51216118 CATTACTTAC
*
51216128 ATTACTTACTAAAATAT
1 ATTAATTACTAAAATAT
*
51216145 ATTAATTACTTAAATAT
1 ATTAATTACTAAAATAT
* *
51216162 ATTACTTACAAAAATTTAT
1 ATTAATTACTAAAA--TAT
*
51216181 AACTTACATTACTTAAATAT
1 -A-TTA-ATTACTAAAATAT
51216201 ATTACATTACTTAAAAT
1 ATTA-ATTAC-TAAAAT
51216218 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:51216153 original size:30 final size:32
Alignment explanation
Indices: 51216110--51216195 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 32
51216100 AAATTAAAGT
51216110 ATATATTACATTACTTACATTACTTAC-TA-AA
1 ATATATTA-ATTACTTACATTACTTACTTACAA
*
51216141 ATATATTAATTACTTAAATATA-TTACTTACAA
1 ATATATTAATTACTTACAT-TACTTACTTACAA
* *
51216173 A-A-ATTTATAACTTACATTACTTA
1 ATATATTAATTACTTACATTACTTA
51216196 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:51216243 original size:17 final size:18
Alignment explanation
Indices: 51216211--51216246 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
51216201 ATTACATTAC
*
51216211 TTAAAATTTATATATATA
1 TTAAAAATTATATATATA
51216229 TTAAAAATT-TATATATA
1 TTAAAAATTATATATATA
51216246 T
1 T
51216247 GGTATGGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAAATTATATATATA
Found at i:51216337 original size:32 final size:32
Alignment explanation
Indices: 51216278--51216338 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
51216268 TTTCAATTTT
*
51216278 ATTGTAAATTATTTTTTATAATTTTAAAAATA
1 ATTGTAAATTATTTTTTATAATATTAAAAATA
51216310 ATTGTAAATGT-TATTTTTA-AATATTAAAA
1 ATTGTAAAT-TAT-TTTTTATAATATTAAAA
51216339 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:51216460 original size:121 final size:121
Alignment explanation
Indices: 51216241--51216560 Score: 534
Period size: 121 Copynumber: 2.6 Consensus size: 121
51216231 AAAAATTTAT
* **
51216241 ATATATGGTATGGACATATAACCTATATTTCAATTTTATTGTAAATTATTTTTTATAATTTTAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTAAA-TAAATTTTATAATTTTAAA
51216306 AATAATTGTAAATGTTATTTTTAAATATTAAAACATATATTTTTAATATATCACCCC
65 AATAATTGTAAATGTTATTTTTAAATATTAAAACATATATTTTTAATATATCACCCC
*
51216363 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTCAATAAATTTTATAATTTTAAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTAAATAAATTTTATAATTTTAAAA
*
51216428 ATAATTGTAAATGTTATTTTTAAATATTAAAACCTATATTTTTAATATATCACCCC
66 ATAATTGTAAATGTTATTTTTAAATATTAAAACATATATTTTTAATATATCACCCC
* * *
51216484 ATATATGGTATGGATATATATCCTACATTTCAATTTTATTAG-AAATGAATTTTATAATTTTAAA
1 ATATATGGTATGGATATATAACCTATATTTCAATTTTATT-GTAAATAAATTTTATAATTTTAAA
*
51216548 AATAATTATAAAT
65 AATAATTGTAAAT
51216561 AAGATACATA
Statistics
Matches: 187, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
121 143 0.76
122 44 0.24
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (121 bp):
ATATATGGTATGGATATATAACCTATATTTCAATTTTATTGTAAATAAATTTTATAATTTTAAAA
ATAATTGTAAATGTTATTTTTAAATATTAAAACATATATTTTTAATATATCACCCC
Found at i:51216625 original size:9 final size:9
Alignment explanation
Indices: 51216607--51216805 Score: 129
Period size: 9 Copynumber: 23.2 Consensus size: 9
51216597 CTTATATATA
*
51216607 AACTTGCAT
1 AACTTACAT
51216616 AACTTACAT
1 AACTTACAT
*
51216625 AA-TAACATAAT
1 AACTTAC---AT
51216636 AACTTACAT
1 AACTTACAT
51216645 AA--TACAT
1 AACTTACAT
51216652 AGAC-TACAT
1 A-ACTTACAT
51216661 AACTTACAT
1 AACTTACAT
*
51216670 AA--TACAC
1 AACTTACAT
51216677 AACTTACAT
1 AACTTACAT
*
51216686 AACTTAAAT
1 AACTTACAT
51216695 AACTTACAT
1 AACTTACAT
51216704 AA--TACAT
1 AACTTACAT
**
51216711 AACTTTGAT
1 AACTTACAT
*
51216720 AACTAACAT
1 AACTTACAT
* *
51216729 TA--TACAC
1 AACTTACAT
51216736 AACTTACAT
1 AACTTACAT
51216745 AA--TACAT
1 AACTTACAT
* *
51216752 TACTTACTT
1 AACTTACAT
*
51216761 AACATACAT
1 AACTTACAT
* *
51216770 AGCCTACAT
1 AACTTACAT
51216779 AACTTACAT
1 AACTTACAT
*
51216788 AA--TACAC
1 AACTTACAT
51216795 AACTTACAT
1 AACTTACAT
51216804 AA
1 AA
51216806 TTGAGTTATG
Statistics
Matches: 145, Mismatches: 28, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
7 35 0.24
8 6 0.04
9 97 0.67
11 4 0.03
12 3 0.02
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:51216664 original size:25 final size:23
Alignment explanation
Indices: 51216613--51216793 Score: 126
Period size: 25 Copynumber: 7.8 Consensus size: 23
51216603 TATAAACTTG
*
51216613 CATAACTTACATAATA-A-CATA
1 CATAACTTACATAATACATAATA
51216634 -ATAACTTACATAATACATAGACTA
1 CATAACTTACATAATACATA-A-TA
*
51216658 CATAACTTACATAATACACAACTTA
1 CATAACTTACATAATACATAA--TA
*
51216683 CATAACTTAAATAACTTACATAATA
1 CATAACTTACATAA--TACATAATA
** *
51216708 CATAACTTTGATAACTAACATTATA
1 CATAACTTACATAA-T-ACATAATA
*
51216733 CACAACTTACATAATACAT--TA
1 CATAACTTACATAATACATAATA
* * *
51216754 C-TTACTTA-A-CATACATAGCCTA
1 CATAACTTACATAATACATA--ATA
51216776 CATAACTTACATAATACA
1 CATAACTTACATAATACA
51216794 CAACTTACAT
Statistics
Matches: 127, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
18 6 0.05
19 1 0.01
20 20 0.16
21 4 0.03
22 3 0.02
23 11 0.09
24 6 0.05
25 70 0.55
27 6 0.05
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (23 bp):
CATAACTTACATAATACATAATA
Found at i:51216703 original size:59 final size:57
Alignment explanation
Indices: 51216633--51216806 Score: 224
Period size: 59 Copynumber: 3.0 Consensus size: 57
51216623 ATAATAACAT
51216633 AATAACTTACATAATACATAGACTACATAACTTACATAATACACAACTTACATAACTTA
1 AATAACTTACATAATACATAGACTACATAACTTACATAATACACAACTTACATAA--TA
** * *
51216692 AATAACTTACATAATACATA-ACTTTGATAACTAACATTATACACAACTTACATAATA
1 AATAACTTACATAATACATAGAC-TACATAACTTACATAATACACAACTTACATAATA
* * * *
51216749 CATTACTTACTTAACATACATAGCCTACATAACTTACATAATACACAACTTACATAAT
1 AATAACTTACAT-A-ATACATAGACTACATAACTTACATAATACACAACTTACATAAT
51216807 TGAGTTATGC
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 11 0.11
58 3 0.03
59 84 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:51219096 original size:65 final size:66
Alignment explanation
Indices: 51218949--51219117 Score: 175
Period size: 65 Copynumber: 2.6 Consensus size: 66
51218939 AGTAAATTAC
* * *
51218949 ACAACTTAAAGCGGAGGCAACA-TCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGT-GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAG
51219013 CT
65 CT
* * * *
51219015 ACAACTTAAAGTAGATGCAGCAGTGAGATAAGCTGAGGTTCAACGAAAG-TAT-AATAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGTGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
51219078 C-
65 CT
* * ** *
51219079 AGCAGCTTAAAGCAGATGCGGCAGAAAGAGAAGCAGAGG
1 A-CAACTTAAAGCAGATGCAGCAGTGAGAGAAGCTGAGG
51219118 CGGTAGCGAG
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
64 1 0.01
65 41 0.48
66 39 0.45
67 5 0.06
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.15
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGTGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
T
Found at i:51219129 original size:21 final size:21
Alignment explanation
Indices: 51219108--51219200 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
51219098 GGCAGAAAGA
* *
51219108 GAAGCAGAGGCGGTAGCGAGA
1 GAAGCAGAGGCTGTAGCGAGG
* *
51219129 GAAGTACAGGCTGTAGCGAGG
1 GAAGCAGAGGCTGTAGCGAGG
* *
51219150 GAAGCAGAGGCTATATCGAGG
1 GAAGCAGAGGCTGTAGCGAGG
*
51219171 GAAGTAGAGGCTGTAGCGAGG
1 GAAGCAGAGGCTGTAGCGAGG
51219192 GAAGCAGAG
1 GAAGCAGAG
51219201 CAGTGTCAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.32, C:0.13, G:0.44, T:0.11
Consensus pattern (21 bp):
GAAGCAGAGGCTGTAGCGAGG
Found at i:51219175 original size:42 final size:42
Alignment explanation
Indices: 51219108--51219200 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
51219098 GGCAGAAAGA
*
51219108 GAAGCAGAGGCGGTAGCGAGAGAAGTACAGGCTGTAGCGAGG
1 GAAGCAGAGGCGATAGCGAGAGAAGTACAGGCTGTAGCGAGG
* * * *
51219150 GAAGCAGAGGCTATATCGAGGGAAGTAGAGGCTGTAGCGAGG
1 GAAGCAGAGGCGATAGCGAGAGAAGTACAGGCTGTAGCGAGG
51219192 GAAGCAGAG
1 GAAGCAGAG
51219201 CAGTGTCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.44, T:0.11
Consensus pattern (42 bp):
GAAGCAGAGGCGATAGCGAGAGAAGTACAGGCTGTAGCGAGG
Found at i:51219595 original size:43 final size:43
Alignment explanation
Indices: 51219507--51219627 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
51219497 ATCTGCCAAA
** *
51219507 TTTAGTGGCGTTTGTAGGGAAAGCGCCGCTAAAGATTTGGTTC
1 TTTAGTGGCGTTTGTAGGGAAAGCGCCGCTAAAGATCAGGGTC
*
51219550 TTTAGTGGCGTTTGT-GGTCG-AAGCGCCGCTATAGATCAGGGTC
1 TTTAGTGGCGTTTGTAGG--GAAAGCGCCGCTAAAGATCAGGGTC
* * * *
51219593 TTTTGCGGCGTTTAT-GGGAAAAGCGCTGCTAAAGA
1 TTTAGTGGCGTTTGTAGGG-AAAGCGCCGCTAAAGA
51219628 CCCTAATCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.02
42 2 0.03
43 61 0.94
44 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.31
Consensus pattern (43 bp):
TTTAGTGGCGTTTGTAGGGAAAGCGCCGCTAAAGATCAGGGTC
Found at i:51219864 original size:22 final size:22
Alignment explanation
Indices: 51219836--51219879 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
51219826 TTGCGGCGCT
*
51219836 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
51219858 AAAAAGCGCCGCTAAAAGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
51219880 TTTTGGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.27, G:0.20, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:51221870 original size:21 final size:21
Alignment explanation
Indices: 51221829--51221870 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51221819 CCACCAACTC
* *
51221829 TTCCTCCTGTTTTCTTTTTCT
1 TTCCTCCTGTTTTCCTCTTCT
51221850 TTCCTCTCT-TTTTCCTCTTCT
1 TTCCTC-CTGTTTTCCTCTTCT
51221871 CATATACTCC
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:51245749 original size:27 final size:29
Alignment explanation
Indices: 51245701--51245755 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
51245691 TATATTAATA
*
51245701 TATATACATATGCATACTAAAAAATATAT
1 TATATACATATGCATACAAAAAAATATAT
* *
51245730 TATATATATATG-A-ACAAAAAAGTATA
1 TATATACATATGCATACAAAAAAATATA
51245756 AATTATGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 11 0.48
28 1 0.04
29 11 0.48
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (29 bp):
TATATACATATGCATACAAAAAAATATAT
Found at i:51250743 original size:21 final size:23
Alignment explanation
Indices: 51250718--51250771 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
51250708 TTAATAATTT
*
51250718 TATAAAAGAAAT-AAATTTAA-G
1 TATAAAAGAAATCAAAATTAATG
51250739 TATAATAA-AAATCAAAATTAATG
1 TATAA-AAGAAATCAAAATTAATG
51250762 TA-AAAAGAAA
1 TATAAAAGAAA
51250772 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:51255477 original size:53 final size:53
Alignment explanation
Indices: 51255393--51255520 Score: 150
Period size: 53 Copynumber: 2.4 Consensus size: 53
51255383 AAAAACACCA
* ** * *
51255393 GATAGTCCGA-CGGGATAAGAAACACGGGATAGTCTGTTGATATAGGAAATACAT
1 GATAGTCC-ATCGAGATAA-AAACACGGGATAGTCTGTCAAGATAGGAAATACAG
* *
51255447 GATAGTCCATCGAGATAAAAACACGGGATAGTTTGTCAAGATAGGAAATACGG
1 GATAGTCCATCGAGATAAAAACACGGGATAGTCTGTCAAGATAGGAAATACAG
* *
51255500 GATAGTCCGTCGAAATAAAAA
1 GATAGTCCATCGAGATAAAAA
51255521 ATACGAGATA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 49 0.77
54 15 0.23
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (53 bp):
GATAGTCCATCGAGATAAAAACACGGGATAGTCTGTCAAGATAGGAAATACAG
Found at i:51255522 original size:27 final size:27
Alignment explanation
Indices: 51255393--51255530 Score: 91
Period size: 27 Copynumber: 5.1 Consensus size: 27
51255383 AAAAACACCA
* ** *
51255393 GATAGTCCGACGGGATAAGAAACACGG
1 GATAGTCCGTCGAAATAAGAAATACGG
* * * * **
51255420 GATAGTCTGTTGATATAGGAAATACAT
1 GATAGTCCGTCGAAATAAGAAATACGG
* * *
51255447 GATAGTCCATCGAGATAA-AAACACGG
1 GATAGTCCGTCGAAATAAGAAATACGG
** *
51255473 GATAGTTTGTC-AAGATAGGAAATACGG
1 GATAGTCCGTCGAA-ATAAGAAATACGG
* *
51255500 GATAGTCCGTCGAAATAAAAAATACGA
1 GATAGTCCGTCGAAATAAGAAATACGG
51255527 GATA
1 GATA
51255531 ATTCGCTGAG
Statistics
Matches: 80, Mismatches: 28, Indels: 6
0.70 0.25 0.05
Matches are distributed among these distances:
25 1 0.01
26 16 0.20
27 61 0.76
28 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (27 bp):
GATAGTCCGTCGAAATAAGAAATACGG
Found at i:51255557 original size:27 final size:27
Alignment explanation
Indices: 51255527--51255604 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
51255517 AAAAATACGA
* *
51255527 GATAATTCGCTGAGACAAAAAACATGG
1 GATAATTCGTTGAGACAGAAAACATGG
* * ** *
51255554 GATAGTCCGTTGAGACAGGTAATATGG
1 GATAATTCGTTGAGACAGAAAACATGG
*
51255581 GATAATTCTTTGAGACAGAAAACA
1 GATAATTCGTTGAGACAGAAAACA
51255605 CACGATAGTC
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (27 bp):
GATAATTCGTTGAGACAGAAAACATGG
Found at i:51255683 original size:27 final size:27
Alignment explanation
Indices: 51255627--51255693 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
51255617 CTGAGATAGA
* *
51255627 AAACATGGGATAGTCTGTTAGGATAAG
1 AAACACGGGATAGTCTGTTAGGACAAG
*
51255654 AAACACGGGATAGTCTGTTAGGACATG
1 AAACACGGGATAGTCTGTTAGGACAAG
* *
51255681 AAATACAGGATAG
1 AAACACGGGATAG
51255694 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:51292713 original size:6 final size:6
Alignment explanation
Indices: 51292698--51292737 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
51292688 AATTAGATGT
* *
51292698 TCATAG TCATAT TCATAG TCATAG TCATAG TCATAC TCAT
1 TCATAG TCATAG TCATAG TCATAG TCATAG TCATAG TCAT
51292738 GCTCATACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (6 bp):
TCATAG
Found at i:51297655 original size:21 final size:22
Alignment explanation
Indices: 51297610--51297655 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
51297600 CTTTAGGAGT
*
51297610 TGCATGTCTAGAGACATTGGCC
1 TGCATGTCTAGAGACATTAGCC
* *
51297632 TGCATGTTTTGAGACA-TAGCC
1 TGCATGTCTAGAGACATTAGCC
51297653 TGC
1 TGC
51297656 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:51301401 original size:9 final size:9
Alignment explanation
Indices: 51301386--51301421 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
51301376 AATTGTGCGG
51301386 ACTTTCATA
1 ACTTTCATA
*
51301395 TCTTTCATA
1 ACTTTCATA
51301404 ACTTTCATA
1 ACTTTCATA
51301413 ACTTTCATA
1 ACTTTCATA
51301422 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:51305505 original size:38 final size:38
Alignment explanation
Indices: 51305449--51305526 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
51305439 TTTTGATTAG
51305449 ATTTGGATATATTCTGATTATCAATTTAATCATGCATT
1 ATTTGGATATATTCTGATTATCAATTTAATCATGCATT
*
51305487 ATTTGGATATATTTTGATTATCAATTTAATCATGCATT
1 ATTTGGATATATTCTGATTATCAATTTAATCATGCATT
51305525 AT
1 AT
51305527 AACGATGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (38 bp):
ATTTGGATATATTCTGATTATCAATTTAATCATGCATT
Found at i:51305544 original size:38 final size:38
Alignment explanation
Indices: 51305464--51305545 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
51305454 GATATATTCT
*** * **
51305464 GATTATCAATTTAATCATGCATTATTTGGATATATTTT
1 GATTATCAATTTAATCATGCATTATAACGATAGATTAG
*
51305502 GATTATCAATTTAATCATGCATTATAACGATGGATTAG
1 GATTATCAATTTAATCATGCATTATAACGATAGATTAG
51305540 GATTAT
1 GATTAT
51305546 AGTTATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (38 bp):
GATTATCAATTTAATCATGCATTATAACGATAGATTAG
Found at i:51311945 original size:20 final size:20
Alignment explanation
Indices: 51311909--51311946 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51311899 AAAGATTGAA
*
51311909 AAAAATTAAAGATAATTAGT
1 AAAAATTAAAGAAAATTAGT
*
51311929 AAAAATTAAATAAAATTA
1 AAAAATTAAAGAAAATTA
51311947 AATTGAAGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAATTAAAGAAAATTAGT
Found at i:51325446 original size:15 final size:15
Alignment explanation
Indices: 51325426--51325458 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
51325416 GCCAATAAAC
51325426 TTATATT-TATTAAGT
1 TTATATTGT-TTAAGT
51325441 TTATATTGTTTAAGT
1 TTATATTGTTTAAGT
51325456 TTA
1 TTA
51325459 AACTAAAGAT
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:51336948 original size:100 final size:100
Alignment explanation
Indices: 51336820--51337067 Score: 282
Period size: 100 Copynumber: 2.4 Consensus size: 100
51336810 TTTCCTGTAC
* ** * *
51336820 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATCGGTGCCCATGCCATGTC
1 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTC
*
51336885 ATAGACATGATCTTACAGGGGACCTCTCATCTCGG
66 ACAGACATGATCTTACAGGGGACCTCTCATCTCGG
* * * *
51336920 TGCCAATGCCATGTCCCCA-ATATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCTATGT
1 TGCCAATGCCATAT-CCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGT
* * *
51336984 CCCAGACATGATCTTACATGGGACCTCTCATAATCTCAATGA
65 CACAGACATGATCTTACAGGGGACCTCTC---ATCTC---GG
* * *
51337026 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGACCTCT
51337068 TTACCCAAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
100 76 0.61
101 4 0.03
103 5 0.04
105 4 0.03
106 36 0.29
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (100 bp):
TGCCAATGCCATATCCCAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTC
ACAGACATGATCTTACAGGGGACCTCTCATCTCGG
Found at i:51337047 original size:56 final size:50
Alignment explanation
Indices: 51336770--51337067 Score: 253
Period size: 50 Copynumber: 5.9 Consensus size: 50
51336760 TGATAATAAC
* * * * *
51336770 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGA--TGT-TTCCTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * ** * *
51336817 TACTGCCAATGCCATATCCCAGATATGGTCTTACGTGGGAGTTCTCATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * ** * * *
51336869 GTGCCCATGCCATGTCATAGACATGATCTTACAGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* *
51336919 GTGCCAATGCCATGTCCCCA-ATATGGTCTTACATGGGACCTCTCATCTTG
1 ATGCCAATGCCATGT-CCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * *
51336969 GTGCCAACGCTATGTCCCAGACATGATCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---TG
*
51337025 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
51337068 TTACCCAAAT
Statistics
Matches: 200, Mismatches: 38, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.00
49 36 0.18
50 113 0.56
51 4 0.02
52 2 0.01
53 4 0.02
56 40 0.20
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:51343651 original size:29 final size:29
Alignment explanation
Indices: 51343592--51343652 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
51343582 TAAAGATAAA
* * *
51343592 AAAAATGTATATGGGTATATTTACAAAAT
1 AAAAATGTATAAGGATATATATACAAAAT
* * *
51343621 AAAAATGTATAAGTATATATATAGAATAT
1 AAAAATGTATAAGGATATATATACAAAAT
51343650 AAA
1 AAA
51343653 GTATATAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (29 bp):
AAAAATGTATAAGGATATATATACAAAAT
Found at i:51343685 original size:12 final size:12
Alignment explanation
Indices: 51343670--51343697 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
51343660 AAAGTTTTTT
51343670 AAAAAATATAAA
1 AAAAAATATAAA
51343682 AAAAAATATAAA
1 AAAAAATATAAA
51343694 AAAA
1 AAAA
51343698 CGTATGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAATATAAA
Found at i:51343783 original size:25 final size:25
Alignment explanation
Indices: 51343741--51343831 Score: 83
Period size: 25 Copynumber: 3.5 Consensus size: 25
51343731 AGCTTAAAAA
51343741 TATATATTAAAAAAATGCATATATAT
1 TATATA-TAAAAAAATGCATATATAT
* * * *
51343767 TATATATAAAAATATGCGTATGTAC
1 TATATATAAAAAAATGCATATATAT
* *
51343792 TATATGAAAAAAAAATGCATACATAT
1 TATAT-ATAAAAAAATGCATATATAT
*
51343818 ATATTATGTAAAAA
1 -TA-TATATAAAAA
51343832 CCATGCGTGT
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
25 20 0.40
26 20 0.40
27 7 0.14
28 3 0.06
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (25 bp):
TATATATAAAAAAATGCATATATAT
Found at i:51343887 original size:15 final size:15
Alignment explanation
Indices: 51343869--51343899 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51343859 GATAATAACC
*
51343869 ATAATAATAAATAAT
1 ATAATAATAAAAAAT
51343884 ATAATAATAAAAAAT
1 ATAATAATAAAAAAT
51343899 A
1 A
51343900 AAAAAATAGC
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATAATAAAAAAT
Found at i:51343907 original size:18 final size:18
Alignment explanation
Indices: 51343869--51343907 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
51343859 GATAATAACC
* * *
51343869 ATAATAATAAATAATATA
1 ATAATAAAAAATAAAAAA
51343887 ATAATAAAAAATAAAAAA
1 ATAATAAAAAATAAAAAA
51343905 ATA
1 ATA
51343908 GCTAAAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAATAAAAAATAAAAAA
Found at i:51347491 original size:25 final size:26
Alignment explanation
Indices: 51347447--51347498 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
51347437 TAACCCATAA
51347447 ATCATATGGAAACTATCTTAAACGGC
1 ATCATATGGAAACTATCTTAAACGGC
*
51347473 ATCATATGG-AACTGTCTTAAACGGC
1 ATCATATGGAAACTATCTTAAACGGC
51347498 A
1 A
51347499 AGGGAATAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (26 bp):
ATCATATGGAAACTATCTTAAACGGC
Found at i:51354039 original size:5 final size:5
Alignment explanation
Indices: 51354029--51354054 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
51354019 TAGCACTAAC
51354029 ATGTA ATGTA ATGTA ATGTA ATGTA A
1 ATGTA ATGTA ATGTA ATGTA ATGTA A
51354055 GGTTTCGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
ATGTA
Found at i:51354831 original size:27 final size:26
Alignment explanation
Indices: 51354791--51354868 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 26
51354781 TCCCTGGGTG
51354791 AAGGGAACACTGTTGGCGGCACCAAAC
1 AAGGGAAC-CTGTTGGCGGCACCAAAC
51354818 AAGGGAACCTTGTTGGCGGCACCAAAC
1 AAGGGAACC-TGTTGGCGGCACCAAAC
*
51354845 AA-GGATTCCCTGTTGGCGGCACCA
1 AAGGGA--ACCTGTTGGCGGCACCA
51354869 CTCGTGTTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
26 4 0.09
27 41 0.87
28 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.29, T:0.15
Consensus pattern (26 bp):
AAGGGAACCTGTTGGCGGCACCAAAC
Found at i:51359382 original size:3 final size:3
Alignment explanation
Indices: 51359374--51359432 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
51359364 AGTAACATCT
51359374 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
51359422 TAA TAA TAA TA
1 TAA TAA TAA TA
51359433 CTATAAAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:51359759 original size:27 final size:27
Alignment explanation
Indices: 51359721--51359798 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
51359711 ATAACACGAG
51359721 TGGTGCCGCCAACAGGGAAT-CCTTGTT
1 TGGTGCCGCCAACAGGG-ATCCCTTGTT
* *
51359748 TGGTGCCGCCAACAAGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGATCCCTTGTT
* *
51359775 TGGTGCCGCCAACAGTGTTCCCTT
1 TGGTGCCGCCAACAGGGATCCCTT
51359799 CACCCAGGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGATCCCTTGTT
Found at i:51359883 original size:28 final size:29
Alignment explanation
Indices: 51359846--51359916 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 29
51359836 TCTGTTTTTT
51359846 TATATATTTTGGTAAATAAAAAAAAT-TA
1 TATATATTTTGGTAAATAAAAAAAATGTA
51359874 TATATATTTTGGTAAATAAAAAAAATGTA
1 TATATATTTTGGTAAATAAAAAAAATGTA
*
51359903 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
51359917 TTTTTTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 37 0.90
29 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAATGTA
Found at i:51362750 original size:43 final size:43
Alignment explanation
Indices: 51362689--51362822 Score: 142
Period size: 43 Copynumber: 3.1 Consensus size: 43
51362679 GGCGCTCTCG
* * *
51362689 GCTAAAGACCATGACCTTTGGCGGCACTTTTCCCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCACTTCTACCACAAACGCC
*
51362732 GCTAAAGACCATGACCTTTAGCGGCGCTTCTACCACAAACGCC
1 GCTAAAGACCATGACCTTTAGCGGCACTTCTACCACAAACGCC
* * * * * * * **
51362775 ACTATAGGCCATAACTTTTTAGCGGCGCTTATATTACAAACGCC
1 GCTAAAGACCATGAC-CTTTAGCGGCACTTCTACCACAAACGCC
51362819 GCTA
1 GCTA
51362823 TAAAAATGAC
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
43 50 0.65
44 27 0.35
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
GCTAAAGACCATGACCTTTAGCGGCACTTCTACCACAAACGCC
Found at i:51362876 original size:41 final size:43
Alignment explanation
Indices: 51362723--51362876 Score: 120
Period size: 44 Copynumber: 3.6 Consensus size: 43
51362713 CACTTTTCCC
* * * * * **
51362723 ACAAACGCCGCTA-AAGACCATGACCTTTAGCGGCGCTTCTACC
1 ACAAACGCCGCTATAA-AACATAACTTTTAGCGACGCTTATATT
* *** *
51362766 ACAAACGCCACTATAGGCCATAACTTTTTAGCGGCGCTTATATT
1 ACAAACGCCGCTATAAAACATAAC-TTTTAGCGACGCTTATATT
*
51362810 ACAAACGCCGCTATAAAA-ATGACTTTTAGCGACGCTT-T-TT
1 ACAAACGCCGCTATAAAACATAACTTTTAGCGACGCTTATATT
*
51362850 CGCAAACGCCGCTA-AAAACATAACTTT
1 -ACAAACGCCGCTATAAAACATAACTTT
51362877 AAAAAAAATT
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
40 6 0.07
41 20 0.22
42 13 0.14
43 22 0.24
44 30 0.33
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ACAAACGCCGCTATAAAACATAACTTTTAGCGACGCTTATATT
Found at i:51365992 original size:23 final size:23
Alignment explanation
Indices: 51365966--51366040 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
51365956 AAACACCACC
51365966 AAAGTTTCATAAACTAGATACCT
1 AAAGTTTCATAAACTAGATACCT
** * * * *
51365989 AAAGTAACATCAAC-AAACACCACC
1 AAAGTTTCATAAACTAGATA-C-CT
51366013 AAAGTTTCATAAACTAGATACCT
1 AAAGTTTCATAAACTAGATACCT
51366036 AAAGT
1 AAAGT
51366041 AACATCAACA
Statistics
Matches: 37, Mismatches: 12, Indels: 6
0.67 0.22 0.11
Matches are distributed among these distances:
22 3 0.08
23 18 0.49
24 13 0.35
25 3 0.08
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (23 bp):
AAAGTTTCATAAACTAGATACCT
Found at i:51366019 original size:47 final size:47
Alignment explanation
Indices: 51365955--51366052 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
51365945 GAATTTTAAT
51365955 CAAACACCACCAAAGTTTCATAAACTAGATACCTAAAGTAACATCAA
1 CAAACACCACCAAAGTTTCATAAACTAGATACCTAAAGTAACATCAA
51366002 CAAACACCACCAAAGTTTCATAAACTAGATACCTAAAGTAACATCAA
1 CAAACACCACCAAAGTTTCATAAACTAGATACCTAAAGTAACATCAA
51366049 CAAA
1 CAAA
51366053 TCAATTCAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.50, C:0.26, G:0.06, T:0.18
Consensus pattern (47 bp):
CAAACACCACCAAAGTTTCATAAACTAGATACCTAAAGTAACATCAA
Found at i:51367953 original size:6 final size:6
Alignment explanation
Indices: 51367942--51367966 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
51367932 GTTTGAACAT
51367942 TTTAAA TTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
51367967 ATAATTTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:51368627 original size:13 final size:13
Alignment explanation
Indices: 51368609--51368633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51368599 ATCAAATTTG
51368609 TATGTACTCTTTA
1 TATGTACTCTTTA
51368622 TATGTACTCTTT
1 TATGTACTCTTT
51368634 CACTAATAAG
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:51369165 original size:29 final size:29
Alignment explanation
Indices: 51369132--51369199 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
51369122 AACAAATGCA
51369132 ACAATTTCCAG-TTCGGA-TGAAAACAGCAG
1 ACAATTTCCAGTTTC--ATTGAAAACAGCAG
*
51369161 ACAATTTCCAGTTTCATTGAAAACTGCAG
1 ACAATTTCCAGTTTCATTGAAAACAGCAG
*
51369190 ACGATTTCCA
1 ACAATTTCCA
51369200 TTGCAACAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 1 0.03
29 31 0.89
30 3 0.09
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (29 bp):
ACAATTTCCAGTTTCATTGAAAACAGCAG
Found at i:51370559 original size:17 final size:18
Alignment explanation
Indices: 51370526--51370559 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51370516 AAGATGCGAA
51370526 GAAATATGCGAAAGATGC
1 GAAATATGCGAAAGATGC
51370544 GAAATATGCG-AAGATG
1 GAAATATGCGAAAGATG
51370560 GAAGTCTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.09, G:0.29, T:0.18
Consensus pattern (18 bp):
GAAATATGCGAAAGATGC
Found at i:51371007 original size:14 final size:14
Alignment explanation
Indices: 51370990--51371027 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
51370980 GTCTAACTCT
51370990 TAACCCCTAATGTC
1 TAACCCCTAATGTC
51371004 TAACCCCTAATGTC
1 TAACCCCTAATGTC
51371018 TAACCCCTAA
1 TAACCCCTAA
51371028 CCCCTAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (14 bp):
TAACCCCTAATGTC
Found at i:51371791 original size:114 final size:114
Alignment explanation
Indices: 51371588--51372134 Score: 856
Period size: 114 Copynumber: 4.8 Consensus size: 114
51371578 GATACTATAT
* * * * *
51371588 CTTTCTTAAAAACGCCGCTAAATACCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGATTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
*
51371653 TTGCGGCGCTTTCTCAAAAGCGCCGCTAAAGCCTTGAGCATTAGCGGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCG
*
51371702 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
51371767 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCG
*
51371816 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACAGCGTCGTTGGGCTTAGG-TTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
* * * **
51371880 TTGCGGCGCTTTCTCAAAAATGCCACTAATG-CTT-A-TTTTCAGCGGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATT-AGCGGCG
51371927 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
* * * *
51371992 TTGCAGCTCTTTCTCAACAAA-GCCACTAAAGCCCTGAGCATTAGCGGCG
66 TTGCGGCGCTTTCTCAA-AAACGCCGCTAAAGCCTTGAGCATTAGCGGCG
51372041 -TTT-TTAAGAAAGCGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
1 CTTTCTTAA-AAA-CGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
51372104 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
64 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
51372135 TGCTTATTTT
Statistics
Matches: 400, Mismatches: 24, Indels: 18
0.90 0.05 0.04
Matches are distributed among these distances:
110 2 0.00
111 67 0.17
112 35 0.09
113 46 0.12
114 248 0.62
115 2 0.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (114 bp):
CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCG
Found at i:51371982 original size:225 final size:226
Alignment explanation
Indices: 51371588--51372176 Score: 891
Period size: 225 Copynumber: 2.6 Consensus size: 226
51371578 GATACTATAT
* * * *
51371588 CTTTCTTAAAAACGCCGCTAAATACCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGATTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGATTTT
* * **
51371653 TTGCGGCGCTTTCTCAAAAGCGCCGCTAAAGCCTTGAGCATT-AGCGGCGCTTTCTTAAAAACGC
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAATG-CTT-A-TTTTCAGCGGCGCTTTCTTAAAAACGC
*
51371717 CGCTAAATCCCCCAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTC
128 CGCTAAATCCCCCAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCAGCGCTTTCTC
* *
51371782 AA-AAACGCCGCTAAAGCCTTGAGCATTAGCGGCG
193 AACAAA-GCCACTAAAGCCCTGAGCATTAGCGGCG
*
51371816 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACAGCGTCGTTGGGCTTAGG-TTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGATTTT
* *
51371880 TTGCGGCGCTTTCTCAAAAATGCCACTAATGCTTATTTTCAGCGGCGCTTTCTTAAAAACGCCGC
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCGCTTTCTTAAAAACGCCGC
* *
51371945 TAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCAGCTCTTTCTCAAC
131 TAAATCCCCCAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCAGCGCTTTCTCAAC
51372010 AAAGCCACTAAAGCCCTGAGCATTAGCGGCG
196 AAAGCCACTAAAGCCCTGAGCATTAGCGGCG
*
51372041 -TTT-TTAAGAAAGCGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
1 CTTTCTTAA-AAA-CGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGATT
* * *
51372104 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCGTTTTTTTATCCAAACG
64 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCGCTTTCTTA--AAAACG
51372169 CCGCTAAA
127 CCGCTAAA
51372177 AGCCTATTTT
Statistics
Matches: 332, Mismatches: 22, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
223 4 0.01
224 8 0.02
225 160 0.48
226 61 0.18
227 31 0.09
228 68 0.20
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (226 bp):
CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGATTTT
TTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCGCTTTCTTAAAAACGCCGC
TAAATCCCCCAATGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCAGCGCTTTCTCAAC
AAAGCCACTAAAGCCCTGAGCATTAGCGGCG
Found at i:51372842 original size:16 final size:16
Alignment explanation
Indices: 51372809--51372843 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51372799 AAAAAATACT
* *
51372809 AAATATATATTTTTTC
1 AAATATATATATTATC
51372825 AAATATATATATTATC
1 AAATATATATATTATC
51372841 AAA
1 AAA
51372844 AACATTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATATATATATTATC
Found at i:51376568 original size:13 final size:12
Alignment explanation
Indices: 51376549--51376583 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
51376539 TCCAATAAAT
51376549 TTTATATTAATA
1 TTTATATTAATA
*
51376561 TTTAATATTTATA
1 TTT-ATATTAATA
51376574 TTTATATTAA
1 TTTATATTAA
51376584 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:51376573 original size:19 final size:19
Alignment explanation
Indices: 51376544--51376586 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
51376534 TCCCATCCAA
51376544 TAAAT-TTTATATTAATAT
1 TAAATATTTATATTAATAT
* *
51376562 TTAATATTTATATTTATAT
1 TAAATATTTATATTAATAT
51376581 TAAATA
1 TAAATA
51376587 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:51376764 original size:26 final size:28
Alignment explanation
Indices: 51376732--51376803 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 28
51376722 TCATAAAAGA
51376732 TATAAATATTAT-TAAATATT-AAAATAT
1 TATAAATATTATATAAAT-TTGAAAATAT
* *
51376759 TA-AAAT-TGATATAAATTTGAAAATTT
1 TATAAATATTATATAAATTTGAAAATAT
51376785 TATAAATATTATAATAAAT
1 TATAAATATTAT-ATAAAT
51376804 CTAATAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
25 5 0.14
26 17 0.46
27 6 0.16
28 3 0.08
29 6 0.16
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
TATAAATATTATATAAATTTGAAAATAT
Found at i:51376774 original size:18 final size:17
Alignment explanation
Indices: 51376731--51376795 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 17
51376721 ATCATAAAAG
51376731 ATATAAATATTATTAAA-T
1 ATATAAATATTA--AAATT
51376749 AT-TAAAATATTAAAATT
1 ATAT-AAATATTAAAATT
51376766 GATATAAAT-TTGAAAATT
1 -ATATAAATATT-AAAATT
*
51376784 TTATAAATATTA
1 ATATAAATATTA
51376796 TAATAAATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
16 3 0.08
17 12 0.30
18 24 0.60
19 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATATAAATATTAAAATT
Found at i:51376800 original size:8 final size:9
Alignment explanation
Indices: 51376732--51376798 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 9
51376722 TCATAAAAGA
51376732 TATAAATAT
1 TATAAATAT
51376741 TATTAAATAT
1 TA-TAAATAT
51376751 TA-AAATAT
1 TATAAATAT
51376759 TA-AAAT-T
1 TATAAATAT
51376766 GATATAAAT-T
1 --TATAAATAT
*
51376776 TGA-AAATTT
1 T-ATAAATAT
51376785 TATAAATAT
1 TATAAATAT
51376794 TATAA
1 TATAA
51376799 TAAATCTAAT
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:51376859 original size:20 final size:19
Alignment explanation
Indices: 51376752--51376901 Score: 71
Period size: 21 Copynumber: 7.8 Consensus size: 19
51376742 ATTAAATATT
*
51376752 AAAATA-TTAAAATTGATA
1 AAAATATTTAAAATTTATA
* *
51376770 TAAAT-TTGAAAATTT-TA
1 AAAATATTTAAAATTTATA
* *
51376787 TAAATATTATAATAAATCTA-A
1 AAAATATT-T-A-AAATTTATA
* * *
51376808 TAAAT-TTTAATAAATCATA
1 AAAATATTTAA-AATTTATA
* *
51376827 AAAA-ATATAAAATTAATA
1 AAAATATTTAAAATTTATA
51376845 AAACATATTTAAAATTTTATA
1 AAA-ATATTTAAAA-TTTATA
*
51376866 AAAATGTATTAAAATTCTATA
1 AAAATAT-TTAAAATT-TATA
51376887 AAAA-ATATTAAAATT
1 AAAATAT-TTAAAATT
51376902 GATATGAACT
Statistics
Matches: 102, Mismatches: 16, Indels: 26
0.71 0.11 0.18
Matches are distributed among these distances:
17 8 0.08
18 26 0.25
19 10 0.10
20 25 0.25
21 33 0.32
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATATTTAAAATTTATA
Found at i:51376868 original size:21 final size:20
Alignment explanation
Indices: 51376824--51376901 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 20
51376814 TTAATAAATC
* *
51376824 ATAAAAA-ATATAAAA-TTA
1 ATAAAAATATTTAAAATTTT
51376842 ATAAAACATATTTAAAATTTT
1 ATAAAA-ATATTTAAAATTTT
* *
51376863 ATAAAAATGTATTAAAATTCT
1 ATAAAAATAT-TTAAAATTTT
51376884 ATAAAAA-ATATTAAAATT
1 ATAAAAATAT-TTAAAATT
51376902 GATATGAACT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
18 6 0.12
19 1 0.02
20 20 0.39
21 24 0.47
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAAAAATATTTAAAATTTT
Found at i:51377097 original size:18 final size:17
Alignment explanation
Indices: 51377070--51377105 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
51377060 AATGTTTTAT
*
51377070 TTAATTGAACTGGACAAA
1 TTAATCGAACTGGA-AAA
51377088 TTAATCGAACTGGAAAA
1 TTAATCGAACTGGAAAA
51377105 T
1 T
51377106 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:51377389 original size:11 final size:9
Alignment explanation
Indices: 51377367--51377406 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
51377357 TTTATATCAA
51377367 TTTTAATAT
1 TTTTAATAT
51377376 TTTTAATACT
1 TTTTAATA-T
51377386 TTTTAA-AT
1 TTTTAATAT
*
51377394 ATTTAATAT
1 TTTTAATAT
51377403 TTTT
1 TTTT
51377407 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:51384546 original size:31 final size:31
Alignment explanation
Indices: 51384510--51384571 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
51384500 GCCACCAGGC
*
51384510 AAACACTTCATTCTATATCTTAGCATGCAGT
1 AAACACTTCAATCTATATCTTAGCATGCAGT
51384541 AAACACTTCAATCTATATCTTAGCATGCAGT
1 AAACACTTCAATCTATATCTTAGCATGCAGT
51384572 TACAGTGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (31 bp):
AAACACTTCAATCTATATCTTAGCATGCAGT
Found at i:51388638 original size:108 final size:108
Alignment explanation
Indices: 51388446--51388642 Score: 297
Period size: 108 Copynumber: 1.8 Consensus size: 108
51388436 AATATATATA
* * *
51388446 TTTTTAACATATTTGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGTACCT
1 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
*
51388511 CACCACGGTTACTCGATTTGACATTTTTTTTCTCTTTTTTCAT
66 CACCACGGTTACTCAATTTGACATTTTTTTTCTCTTTTTTCAT
* *
51388554 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGTGAAATGAGATGACAACCCAAGCCCCT
1 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
* * *
51388619 TACC-CTTGTTACTTAATTTGACAT
66 CACCAC-GGTTACTCAATTTGACAT
51388643 ATCCCTAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 78 0.99
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (108 bp):
TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
CACCACGGTTACTCAATTTGACATTTTTTTTCTCTTTTTTCAT
Found at i:51390878 original size:25 final size:25
Alignment explanation
Indices: 51390840--51390937 Score: 94
Period size: 25 Copynumber: 3.9 Consensus size: 25
51390830 AAAGTCACCA
*
51390840 CAGCTTGTATGAGCTTACCGATT-T
1 CAGCTCGTATGAGCTTACCGATTCT
*
51390864 GTAGCTCGTGA-GAGCTTACCGATTCT
1 -CAGCTCGT-ATGAGCTTACCGATTCT
*
51390890 CAGCTCGTATGAGCTTACC-ATATTT
1 CAGCTCGTATGAGCTTACCGAT-TCT
* * *
51390915 CAGCTCGAAGGAGTTTACCGATT
1 CAGCTCGTATGAGCTTACCGATT
51390938 ATGGCTCGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.05
25 54 0.89
26 4 0.07
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTCT
Found at i:51390933 original size:50 final size:50
Alignment explanation
Indices: 51390840--51390937 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
51390830 AAAGTCACCA
* *
51390840 CAGCTTGTATGAGCTTACCGATTTGTAGCTCGTGAGAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATTTGTAGCTCGAGAGAGCTTACCGATTCT
*
51390890 CAGCTCGTATGAGCTTACC-ATATT-TCAGCTCGA-AGGAGTTTACCGATT
1 CAGCTCGTATGAGCTTACCGAT-TTGT-AGCTCGAGA-GAGCTTACCGATT
51390938 ATGGCTCGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 4 0.10
50 38 0.90
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTTGTAGCTCGAGAGAGCTTACCGATTCT
Found at i:51391235 original size:24 final size:24
Alignment explanation
Indices: 51391203--51391276 Score: 148
Period size: 24 Copynumber: 3.1 Consensus size: 24
51391193 GATTTTTATG
51391203 TGTATACATGGCTAACTTGGTGAA
1 TGTATACATGGCTAACTTGGTGAA
51391227 TGTATACATGGCTAACTTGGTGAA
1 TGTATACATGGCTAACTTGGTGAA
51391251 TGTATACATGGCTAACTTGGTGAA
1 TGTATACATGGCTAACTTGGTGAA
51391275 TG
1 TG
51391277 GTTATGTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (24 bp):
TGTATACATGGCTAACTTGGTGAA
Found at i:51393855 original size:25 final size:26
Alignment explanation
Indices: 51393827--51393880 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
51393817 TAGGAGGATC
51393827 AAATA-AATTATTATGTAATTTTTAA
1 AAATATAATTATTATGTAATTTTTAA
* *
51393852 AAATATATTTTTTATGTAATTTTTAA
1 AAATATAATTATTATGTAATTTTTAA
51393878 AAA
1 AAA
51393881 GATGTAGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
AAATATAATTATTATGTAATTTTTAA
Found at i:51395328 original size:23 final size:24
Alignment explanation
Indices: 51395289--51395333 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
51395279 CCGCCCCGAT
*
51395289 TTTTAATAAATACAAAA-AAAATA
1 TTTTAATAAATAAAAAATAAAATA
51395312 TTTTAA-AAATAAAAAAATAAAA
1 TTTTAATAAAT-AAAAAATAAAA
51395334 AAAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 11 0.58
24 4 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
TTTTAATAAATAAAAAATAAAATA
Found at i:51395379 original size:14 final size:14
Alignment explanation
Indices: 51395357--51395388 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
51395347 AAAGTGTTTT
*
51395357 AAAATTAAAAATAA
1 AAAAATAAAAATAA
51395371 AAAAATAAAAATAA
1 AAAAATAAAAATAA
51395385 AAAA
1 AAAA
51395389 TATATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:51402643 original size:125 final size:126
Alignment explanation
Indices: 51402420--51402774 Score: 570
Period size: 125 Copynumber: 2.8 Consensus size: 126
51402410 ATTATTTCGA
*
51402420 GTTGACGTTTCTG-GTCAAATTGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
1 GTTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
51402484 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
** * * *
51402546 -TTGACGTTTCTGAGCAAATAGTATAAAATTACTTCTACGAGGATGTTATTTGAGAAGAAATTAT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
51402610 GAAATCGCGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
* * *
51402671 GTTAACGTTTCTGAGTAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAAAAAATTG
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAG-AAGAAATTG
*
51402736 TGAAATCGCACCCTCGTGGACGCGATTTTGCTACAGTAG
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
51402775 CAAGTTTGGG
Statistics
Matches: 208, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
125 115 0.55
126 49 0.24
127 44 0.21
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (126 bp):
GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
Found at i:51405982 original size:55 final size:55
Alignment explanation
Indices: 51405885--51406046 Score: 272
Period size: 55 Copynumber: 2.9 Consensus size: 55
51405875 CAAATCTAAC
*
51405885 ATTATGTAAAATTATTAAG-CCAGAAAAATTTTGTTAATGGTTAGTAAAATTATCAA
1 ATTATGTAAAATTATTAAGTCC--AAAAATTGTGTTAATGGTTAGTAAAATTATCAA
* *
51405941 ATTATGTAAAATTATTAAGTCTAAAAATTGTGTTAATGGTTAGTGAAATTATCAA
1 ATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
51405996 ATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
1 ATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
51406047 AGTTAGGTTA
Statistics
Matches: 100, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
55 80 0.80
56 19 0.19
57 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (55 bp):
ATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAA
Found at i:51406075 original size:29 final size:29
Alignment explanation
Indices: 51406042--51406277 Score: 411
Period size: 29 Copynumber: 8.2 Consensus size: 29
51406032 TGGTTAGTAA
51406042 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
51406071 AATTAAGTTAGTTTAGGGTTA-GGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
51406099 AATTAAATTAGTTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
51406128 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
*
51406157 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
51406186 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
* *
51406215 AATTAAATTAGTTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
51406244 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
1 AATTAAGTTAGGTTAGGGTTAGGGTTTTT
51406273 AATTA
1 AATTA
51406278 CCTCAAAAAA
Statistics
Matches: 196, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
28 27 0.14
29 169 0.86
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (29 bp):
AATTAAGTTAGGTTAGGGTTAGGGTTTTT
Found at i:51406088 original size:23 final size:23
Alignment explanation
Indices: 51406060--51406118 Score: 64
Period size: 28 Copynumber: 2.3 Consensus size: 23
51406050 TAGGTTAGGG
*
51406060 TTAGGGTTTTTAATTAAGTTAGT
1 TTAGGGTTTTTAATTAAATTAGT
51406083 TTAGGGTTAGGTTTTTAATTAAATTAGT
1 TTA--G---GGTTTTTAATTAAATTAGT
51406111 TTAGGGTT
1 TTAGGGTT
51406119 AGGGTTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
23 7 0.23
25 1 0.03
26 1 0.03
28 21 0.70
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGT
Found at i:51406333 original size:25 final size:25
Alignment explanation
Indices: 51406299--51406480 Score: 75
Period size: 25 Copynumber: 7.6 Consensus size: 25
51406289 ATTCTATGCC
*
51406299 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
*
51406324 TATTACATCAAAT-AA----TATTA
1 TATTACATCAAATAAACTTCTATTT
* * * **
51406344 AAATA-ACTCGAAA-AAATTTCTATGCC
1 TATTACA-TC-AAATAAACTTCTAT-TT
* *
51406370 TATTATAACAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
*
51406395 TATTACATCAAAT-AA----TATTA
1 TATTACATCAAATAAACTTCTATTT
* * * * **
51406415 AAATA-ACTCAAAAAAATTTCTATGCC
1 TATTACA-TCAAATAAACTTCTAT-TT
*
51406441 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
51406466 TATTACATCAAATAA
1 TATTACATCAAATAA
51406481 TAAATTTAAA
Statistics
Matches: 112, Mismatches: 27, Indels: 36
0.64 0.15 0.21
Matches are distributed among these distances:
19 2 0.02
20 21 0.19
21 7 0.06
24 4 0.04
25 46 0.41
26 30 0.27
27 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTT
Found at i:51406399 original size:71 final size:71
Alignment explanation
Indices: 51406279--51406482 Score: 381
Period size: 71 Copynumber: 2.9 Consensus size: 71
51406269 TTTTAATTAC
*
51406279 CTCAAAAAAAATTCTATGCCTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATTA
1 CTCAAAAAAATTTCTATGCCTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATTA
51406344 AAATAA
66 AAATAA
* *
51406350 CTCGAAAAAATTTCTATGCCTATTATAACAAATAAACTTCTATTTTATTACATCAAATAATATTA
1 CTCAAAAAAATTTCTATGCCTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATTA
51406415 AAATAA
66 AAATAA
51406421 CTCAAAAAAATTTCTATGCCTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 CTCAAAAAAATTTCTATGCCTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATA
51406483 AATTTAAATA
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 128 1.00
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (71 bp):
CTCAAAAAAATTTCTATGCCTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATTA
AAATAA
Found at i:51407007 original size:131 final size:132
Alignment explanation
Indices: 51406770--51407011 Score: 387
Period size: 131 Copynumber: 1.8 Consensus size: 132
51406760 CGAAGGTATG
* *
51406770 TGCGATCCCTCCTGCGCCGCTGGCCTAGATATCGACGATCCGCTCGGCATAACAGGAAATAGAGC
1 TGCGATCCCTCCTGCGCCGCTGGCCTAGATATCGACGATCCACTCGACATAACAGGAAATAGAGC
* **
51406835 TGAACCGGGTATTTGGCTCCAACCTGCCATAGTATTCGGAAAAGGAGAGCTCTCCGACGGCCCCC
66 TAAACCGGACATTTGGCTCCAACCTGCCATAGTATTCGGAAAAGGAGAGCTCTCCGACGGCCCCC
51406900 CT
131 CT
* * * *
51406902 TGCGATCCCTCCTGCGCCGCTGGCCTAGATATTGACGGT-CATTCGACATAACAGGAAATGGAGC
1 TGCGATCCCTCCTGCGCCGCTGGCCTAGATATCGACGATCCACTCGACATAACAGGAAATAGAGC
*
51406966 TAAACCGGACATTTGGCTCCAACCTGCCATAGTATTTGGAAAAGGA
66 TAAACCGGACATTTGGCTCCAACCTGCCATAGTATTCGGAAAAGGA
51407012 TATATGTAAG
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
131 63 0.63
132 37 0.37
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (132 bp):
TGCGATCCCTCCTGCGCCGCTGGCCTAGATATCGACGATCCACTCGACATAACAGGAAATAGAGC
TAAACCGGACATTTGGCTCCAACCTGCCATAGTATTCGGAAAAGGAGAGCTCTCCGACGGCCCCC
CT
Found at i:51407707 original size:7 final size:7
Alignment explanation
Indices: 51407697--51407721 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51407687 TTATATACAT
51407697 AATACTA
1 AATACTA
51407704 AATACTA
1 AATACTA
51407711 AATACTA
1 AATACTA
51407718 AATA
1 AATA
51407722 TCAATTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:51408836 original size:30 final size:30
Alignment explanation
Indices: 51408802--51408864 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
51408792 GCCATTGATG
*
51408802 AAAATATAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAATATAAAATTATTTTAAA
51408832 AAAATATAAAAAATATAAAATTATTTTAAA
1 AAAATATAAAAAATATAAAATTATTTTAAA
51408862 AAA
1 AAA
51408865 TGAAATTGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAATATAAAATTATTTTAAA
Found at i:51408922 original size:51 final size:51
Alignment explanation
Indices: 51408866--51408978 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 51
51408856 TTTAAAAAAT
* * *
51408866 GAAATTGAGGGGAAATTGAATTTAAATATGGATTTGAGAGAATTTTCGG-AG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTT-GGAAG
*
51408917 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTCAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGGAAG
51408968 GAAATTGAGAG
1 GAAATTGAGAG
51408979 AATTTTGGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
50 2 0.04
51 55 0.96
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGGAAG
Found at i:51408978 original size:22 final size:22
Alignment explanation
Indices: 51408953--51409022 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
51408943 TATGGGTTTC
51408953 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
*
51408975 AGAGAATTTTGGAAGAAAATTG
1 AGAGAATTTTGGAAGGAAATTG
51408997 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
51409019 AGAG
1 AGAG
51409023 GATTAGAGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:51419670 original size:14 final size:14
Alignment explanation
Indices: 51419651--51419688 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
51419641 CAATTCAACC
51419651 AACCTATATGTTCT
1 AACCTATATGTTCT
51419665 AACCTATATGTTCT
1 AACCTATATGTTCT
*
51419679 AACCAATATG
1 AACCTATATG
51419689 CCATTCAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (14 bp):
AACCTATATGTTCT
Found at i:51424171 original size:6 final size:6
Alignment explanation
Indices: 51424160--51424186 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51424150 GCCCGTTTTT
51424160 AATTAA AATTAA AATTAA AATTAA AAT
1 AATTAA AATTAA AATTAA AATTAA AAT
51424187 ATTGAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:51431143 original size:20 final size:21
Alignment explanation
Indices: 51431101--51431143 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
51431091 TTATGACTTC
* *
51431101 TATAGAATTTTAATATGTGTT
1 TATAAAATTTTAATATCTGTT
51431122 TATAAAATTTTAA-ATCTGTT
1 TATAAAATTTTAATATCTGTT
51431142 TA
1 TA
51431144 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (21 bp):
TATAAAATTTTAATATCTGTT
Found at i:51431219 original size:18 final size:17
Alignment explanation
Indices: 51431185--51431224 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
51431175 TTGTCATATT
51431185 TTTTTAATATTTAATAA
1 TTTTTAATATTTAATAA
* *
51431202 TTTTTACATTTTTGATAA
1 TTTTTA-ATATTTAATAA
51431220 TTTTT
1 TTTTT
51431225 TTCCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTAATATTTAATAA
Found at i:51432958 original size:29 final size:30
Alignment explanation
Indices: 51432926--51432993 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
51432916 AACACTCTAA
* * *
51432926 TTTTATAATTAATTTG-TTTCTCACCTTAT
1 TTTTATAATTAATTAGTTTTCTAACATTAT
*
51432955 TTTTATAATTAATTAGTTTTCTAATATTAT
1 TTTTATAATTAATTAGTTTTCTAACATTAT
51432985 TTTTATAAT
1 TTTTATAAT
51432994 AAAACCGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTTATAATTAATTAGTTTTCTAACATTAT
Found at i:51432988 original size:14 final size:14
Alignment explanation
Indices: 51432951--51432994 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
51432941 GTTTCTCACC
51432951 TTATTTTTATAATTAA
1 TTATTTTTATAA-T-A
* *
51432967 TTAGTTTTCTAATA
1 TTATTTTTATAATA
51432981 TTATTTTTATAATA
1 TTATTTTTATAATA
51432995 AAACCGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 1 0.04
16 10 0.42
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (14 bp):
TTATTTTTATAATA
Found at i:51434511 original size:57 final size:57
Alignment explanation
Indices: 51434442--51434596 Score: 292
Period size: 57 Copynumber: 2.7 Consensus size: 57
51434432 AGAAGAGAAA
* *
51434442 CACAAGGGAGAAGCTCATCACGAAGGCGGCCATGGCCATGGTTATGGCGCCGCTGAG
1 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTGAG
51434499 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTGAG
1 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTGAG
51434556 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
1 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
51434597 GGCCGCTGCG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 96 1.00
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (57 bp):
CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTGAG
Found at i:51448066 original size:4 final size:4
Alignment explanation
Indices: 51448052--51448123 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
51448042 TAATTTCAAG
**
51448052 TTTA TTTTA TTTA TTTA TTCC TTT- TTGT- TCTTA TTTA TTTA TTTA TTCT-
1 TTTA -TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA TTTA TTTA TTTA TT-TA
**
51448101 TACA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
51448124 TTCTTGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
3 2 0.04
4 46 0.84
5 7 0.13
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:51450652 original size:30 final size:29
Alignment explanation
Indices: 51450617--51450762 Score: 145
Period size: 30 Copynumber: 4.9 Consensus size: 29
51450607 AAAAATTTTG
51450617 CATTTTGACCCATAAATTTT-TCTAAAATTA
1 CATTTTGACCC-TAAATTTTCTC-AAAATTA
51450647 CATTTTGACCCCTAAATTTTCTCAAAATTA
1 CATTTTGA-CCCTAAATTTTCTCAAAATTA
* * *
51450677 CGTTTTAACCCTAAACTTTTCT--AAATTG
1 CATTTTGACCCTAAA-TTTTCTCAAAATTA
* * *
51450705 CATTTTAACCTCGAAACTTTCTCAAAATTA
1 CATTTTGACC-CTAAATTTTCTCAAAATTA
* *
51450735 CATTTTGACCCCTAAACTTCCTCAAAAT
1 CATTTTGA-CCCTAAATTTTCTCAAAAT
51450763 CACGTTTCGA
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
28 19 0.19
29 11 0.11
30 62 0.63
31 7 0.07
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (29 bp):
CATTTTGACCCTAAATTTTCTCAAAATTA
Found at i:51450726 original size:58 final size:59
Alignment explanation
Indices: 51450617--51450753 Score: 168
Period size: 58 Copynumber: 2.3 Consensus size: 59
51450607 AAAAATTTTG
* * * * *
51450617 CATTTTGACCCATAAATTTTTCTAAAATTACATTTTGACCCCTAAATTTTCTCAAAATTA
1 CATTTTAACCC-TAAACTTTTCTAAAATTACATTTTAACCCCGAAACTTTCTCAAAATTA
* * *
51450677 CGTTTTAACCCTAAACTTTTCT-AAATTGCATTTTAACCTCGAAACTTTCTCAAAATTA
1 CATTTTAACCCTAAACTTTTCTAAAATTACATTTTAACCCCGAAACTTTCTCAAAATTA
*
51450735 CATTTTGACCCCTAAACTT
1 CATTTT-AACCCTAAACTT
51450754 CCTCAAAATC
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
58 36 0.55
59 21 0.32
60 9 0.14
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (59 bp):
CATTTTAACCCTAAACTTTTCTAAAATTACATTTTAACCCCGAAACTTTCTCAAAATTA
Found at i:51450775 original size:30 final size:30
Alignment explanation
Indices: 51450718--51450783 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
51450708 TTTAACCTCG
* * * *
51450718 AAACTTTCTCAAAATTACATTTTGACCCCT
1 AAACTTCCTCAAAATCACATTTCGACCCCA
*
51450748 AAACTTCCTCAAAATCACGTTTCGACCCCA
1 AAACTTCCTCAAAATCACATTTCGACCCCA
51450778 AAACTT
1 AAACTT
51450784 TTGCTGCATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (30 bp):
AAACTTCCTCAAAATCACATTTCGACCCCA
Found at i:51451114 original size:3 final size:3
Alignment explanation
Indices: 51451106--51451157 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
51451096 CCTAGGGCTT
*
51451106 GAA GAA GAA GAC GAA GAA GAA GAA GAA GGAA -AA GAA GAA GAAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA G-AA GAA
51451152 GAA GAA
1 GAA GAA
51451158 AAAAAACCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:51451172 original size:11 final size:10
Alignment explanation
Indices: 51451156--51451183 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
51451146 AAAGAAGAAG
51451156 AAAAAAAACC
1 AAAAAAAACC
51451166 AAAAAAAACC
1 AAAAAAAACC
51451176 AAAAAAAA
1 AAAAAAAA
51451184 TCTGAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACC
Found at i:51451418 original size:24 final size:25
Alignment explanation
Indices: 51451361--51451420 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
51451351 AAGCTGACCC
*
51451361 ACCAGCAG-CCA-CAGCAGCCCAAC
1 ACCAGCAGCCCAGCAGCAGCCCAAA
*
51451384 AGCA-CAGGCCCAGC-GCAGCCCAAA
1 ACCAGCA-GCCCAGCAGCAGCCCAAA
51451408 ACCAGCAGCCCAG
1 ACCAGCAGCCCAG
51451421 GCCCGCGCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.07
23 4 0.13
24 21 0.70
25 3 0.10
ACGTcount: A:0.33, C:0.45, G:0.22, T:0.00
Consensus pattern (25 bp):
ACCAGCAGCCCAGCAGCAGCCCAAA
Found at i:51451461 original size:10 final size:10
Alignment explanation
Indices: 51451446--51451525 Score: 61
Period size: 11 Copynumber: 7.3 Consensus size: 10
51451436 CCCAGCAGAG
51451446 AGAAAAAAAA
1 AGAAAAAAAA
*
51451456 AGAAAAAAGAG
1 AGAAAAAA-AA
51451467 AGAAAAAAAGA
1 AGAAAAAAA-A
*
51451478 ATAAGAAAAAA
1 AGAA-AAAAAA
*
51451489 AGAGGAAAAAAG
1 AGA--AAAAAAA
51451501 AGAAAAAATAA
1 AGAAAAAA-AA
*
51451512 AAAATAAAAAA
1 AGAA-AAAAAA
51451523 AGA
1 AGA
51451526 GGGTTCAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
10 14 0.25
11 23 0.42
12 17 0.31
13 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:51451503 original size:34 final size:35
Alignment explanation
Indices: 51451446--51451527 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 35
51451436 CCCAGCAGAG
* * *
51451446 AGAAAAAAAAAGAAAAAAGAGAGAAAAAA-AGAATA
1 AGAAAAAAAGAGGAAAAAGAGAGAAAAAATA-AAAA
51451481 AGAAAAAAAGAGGAAAAA-AGAGAAAAAATAAAAA
1 AGAAAAAAAGAGGAAAAAGAGAGAAAAAATAAAAA
*
51451515 ATAAAAAAAGAGG
1 AGAAAAAAAGAGG
51451528 GTTCAATTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 25 0.60
35 17 0.40
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (35 bp):
AGAAAAAAAGAGGAAAAAGAGAGAAAAAATAAAAA
Found at i:51451513 original size:24 final size:26
Alignment explanation
Indices: 51451442--51451504 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
51451432 CCAGCCCAGC
*
51451442 AGAGAGAAAAA-AA-AAG-AAAAAAG
1 AGAGAAAAAAAGAATAAGAAAAAAAG
51451465 AGAGAAAAAAAGAATAAGAAAAAAAG
1 AGAGAAAAAAAGAATAAGAAAAAAAG
51451491 AG-GAAAAAAGAGAA
1 AGAGAAAAAA-AGAA
51451505 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
23 10 0.29
24 2 0.06
25 10 0.29
26 13 0.37
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (26 bp):
AGAGAAAAAAAGAATAAGAAAAAAAG
Found at i:51451513 original size:26 final size:25
Alignment explanation
Indices: 51451451--51451515 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 25
51451441 CAGAGAGAAA
51451451 AAAAAAGAAAAAAGAGAGAAAAAAAG
1 AAAAAA-AAAAAAGAGAGAAAAAAAG
*
51451477 AATAAGAAAAAAAGAG-GAAAAAAGAG
1 AA-AAAAAAAAAAGAGAGAAAAAA-AG
51451503 AAAAAATAAAAAA
1 AAAAAA-AAAAAA
51451516 TAAAAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 10 0.29
26 21 0.62
27 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (25 bp):
AAAAAAAAAAAAGAGAGAAAAAAAG
Found at i:51451880 original size:19 final size:18
Alignment explanation
Indices: 51451852--51451917 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
51451842 AAATTATATT
51451852 TTTC-AAAATTTTTCGTG
1 TTTCAAAAATTTTTCGTG
51451869 TCTTCAAAAATTTTTCTCGTG
1 T-TTCAAAAA-TTTT-TCGTG
* * *
51451890 TTTCAAAAAATATTCGCG
1 TTTCAAAAATTTTTCGTG
51451908 TTTTCAAAAA
1 -TTTCAAAAA
51451918 AATAAGGCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.02
18 7 0.17
19 15 0.37
20 12 0.29
21 6 0.15
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (18 bp):
TTTCAAAAATTTTTCGTG
Found at i:51451894 original size:20 final size:19
Alignment explanation
Indices: 51451852--51451917 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
51451842 AAATTATATT
51451852 TTTC-AAAATTTT-TCGTG
1 TTTCAAAAATTTTCTCGTG
51451869 TCTTCAAAAATTTTTCTCGTG
1 T-TTCAAAAA-TTTTCTCGTG
* *
51451890 TTTCAAAAAATATTCGCGT-
1 TTTC-AAAAATTTTCTCGTG
51451909 TTTCAAAAA
1 TTTCAAAAA
51451918 AATAAGGCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
17 1 0.02
18 8 0.19
19 8 0.19
20 14 0.33
21 11 0.26
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (19 bp):
TTTCAAAAATTTTCTCGTG
Found at i:51452152 original size:35 final size:34
Alignment explanation
Indices: 51452103--51452170 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
51452093 AAAGATTTCG
51452103 TTTTTCAAAATTTTCATGTTTAAAAAAAATTCTA
1 TTTTTCAAAATTTTCATGTTTAAAAAAAATTCTA
* **
51452137 TTTTTCAAAATTTTTCGTGTTTTCAAAAAATTCT
1 TTTTTCAAAA-TTTTCATGTTTAAAAAAAATTCT
51452171 CGTGTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.50
Consensus pattern (34 bp):
TTTTTCAAAATTTTCATGTTTAAAAAAAATTCTA
Found at i:51452159 original size:19 final size:18
Alignment explanation
Indices: 51452138--51452660 Score: 227
Period size: 18 Copynumber: 28.6 Consensus size: 18
51452128 AAAATTCTAT
*
51452138 TTTTCAAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
51452156 TTTTCAAAAAATTCTCGTG
1 TTTTC-AAAAATTTTCGTG
*
51452175 -TTTCAAAAAATCTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
51452193 TTTTCAAAAATCTTCGTG
1 TTTTCAAAAATTTTCGTG
*
51452211 TTTTC-AAGA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
*
51452226 TGTTTCAAAAATTTTCATG
1 T-TTTCAAAAATTTTCGTG
**
51452245 TTTTCAAAAAAAAAAAATTCGTG
1 TTTTC-----AAAAATTTTCGTG
* *
51452268 -TTTCAAAAATTTTTGCG
1 TTTTCAAAAATTTTCGTG
* **
51452285 TTTTAAAAAAAAAATTCGTG
1 TTTT--CAAAAATTTTCGTG
** *
51452305 TTTTCAAAAATCCTCATG
1 TTTTCAAAAATTTTCGTG
*
51452323 TTTTC-AAAATTTTCATGTT
1 TTTTCAAAAATTTTC--GTG
* **
51452342 TTTTAAAAAAATTCCCGTG
1 TTTT-CAAAAATTTTCGTG
51452361 TTTT-AAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* ** *
51452378 -TTTCGAAAATACTAGTG
1 TTTTCAAAAATTTTCGTG
** *
51452395 TTTTTTAAAACTTTCGTG
1 TTTTCAAAAATTTTCGTG
51452413 -TTTCAAAAAATTTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
51452431 TTTTCAAAAA-TTCCGATG
1 TTTTCAAAAATTTTCG-TG
*
51452449 --ATCAAAGAAATTTTTCGTG
1 TTTTC-AA-AAA-TTTTCGTG
*
51452468 TTTTCTAAAAACTGCTT--TG
1 TTTTC-AAAAA-T-TTTCGTG
*
51452487 -TTTCAAAAAATTTCGTG
1 TTTTCAAAAATTTTCGTG
* ** * *
51452504 TTTTTTTAAAAAAAATCCAGTT
1 ---TTTTCAAAAATTTTC-GTG
* *
51452526 TTTTAAAAAAAATTTCGTG
1 TTTT-CAAAAATTTTCGTG
*
51452545 TTTTCAAAAAATTTTCCTG
1 TTTTC-AAAAATTTTCGTG
*
51452564 -TTTC-AAAATTGTCGTG
1 TTTTCAAAAATTTTCGTG
* *
51452580 TTTTCAAAAAATTTCATG
1 TTTTCAAAAATTTTCGTG
* *
51452598 TTTTTAAGAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* * *
51452616 -TCTCTAAAATTCTCGTG
1 TTTTCAAAAATTTTCGTG
* *
51452633 TTTTAAAAAATTTTAGTG
1 TTTTCAAAAATTTTCGTG
*
51452651 TGTTCAAAAA
1 TTTTCAAAAA
51452661 AAATGTTTCA
Statistics
Matches: 375, Mismatches: 88, Indels: 84
0.69 0.16 0.15
Matches are distributed among these distances:
15 4 0.01
16 23 0.06
17 74 0.20
18 147 0.39
19 57 0.15
20 30 0.08
21 24 0.06
22 6 0.02
23 10 0.03
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:51452270 original size:40 final size:40
Alignment explanation
Indices: 51452225--51452331 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
51452215 CAAGATTTCG
51452225 GTGTTTCAAAAATTTTCATGTTTTCAAAAAAAAAAAATTC
1 GTGTTTCAAAAATTTTCATGTTTTCAAAAAAAAAAAATTC
***
51452265 GTGTTTCAAAAATTTTTGCGTTTT---AAAAAAAAAATTC
1 GTGTTTCAAAAATTTTCATGTTTTCAAAAAAAAAAAATTC
**
51452302 GTGTTTTCAAAAATCCTCATGTTTTCAAAA
1 GTG-TTTCAAAAATTTTCATGTTTTCAAAA
51452332 TTTTCATGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
37 16 0.29
38 16 0.29
40 21 0.38
41 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.39
Consensus pattern (40 bp):
GTGTTTCAAAAATTTTCATGTTTTCAAAAAAAAAAAATTC
Found at i:51452432 original size:36 final size:36
Alignment explanation
Indices: 51452347--51452660 Score: 137
Period size: 35 Copynumber: 8.7 Consensus size: 36
51452337 ATGTTTTTTA
** *
51452347 AAAAAATTCCCGTG-TTTTAAAAATTTTCGTGTTTC
1 AAAAAATTTTCGTGTTTTTAAAAACTTTCGTGTTTC
* ** * *
51452382 -GAAAATACTAGTGTTTTTTAAAACTTTCGTGTTTC
1 AAAAAATTTTCGTGTTTTTAAAAACTTTCGTGTTTC
* * *
51452417 AAAAAATTTTCGTGTTTTCAAAAA-TTCCGATG-ATC
1 AAAAAATTTTCGTGTTTTTAAAAACTTTCG-TGTTTC
51452452 AAAGAAATTTTTCGTGTTTTCTAAAAACTGCTT--TGTTTC
1 AAA-AAA-TTTTCGTGTTTT-TAAAAACT--TTCGTGTTTC
** * * *
51452491 AAAAAA-TTTCGTGTTTTTTTAAAAAAAATCCAGTTTTTTA
1 AAAAAATTTTCGTG--TTTTT-AAAAACTTTC-G-TGTTTC
* * * *
51452531 AAAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTTTC
1 AAAAAATTTTCGTGTTTT-TAAAAACTTTCGTGTTTC
* * * * *
51452568 --AAAATTGTCGTGTTTTCAAAAAATTTCATGTTTT
1 AAAAAATTTTCGTGTTTTTAAAAACTTTCGTGTTTC
* * * * *
51452602 TAAGAATTTTCGTGTCTCT-AAAA-TTCTCGTGTTTT
1 AAAAAATTTTCGTGTTTTTAAAAACTT-TCGTGTTTC
* * *
51452637 AAAAAATTTTAGTGTGTTCAAAAA
1 AAAAAATTTTCGTGTTTTTAAAAA
51452661 AAATGTTTCA
Statistics
Matches: 209, Mismatches: 47, Indels: 45
0.69 0.16 0.15
Matches are distributed among these distances:
34 25 0.12
35 67 0.32
36 46 0.22
37 17 0.08
38 19 0.09
39 17 0.08
40 10 0.05
41 8 0.04
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (36 bp):
AAAAAATTTTCGTGTTTTTAAAAACTTTCGTGTTTC
Found at i:51452594 original size:53 final size:53
Alignment explanation
Indices: 51452532--51452661 Score: 156
Period size: 53 Copynumber: 2.5 Consensus size: 53
51452522 AGTTTTTTAA
* *
51452532 AAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTTTC-AAAATTGTCGTGTTTT
1 AAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTCTCTAAAATTCTCGTGTTTT
* * * *
51452584 CAAAAAATTTCATGTTTT-TAAGAATTTTCGTGTCTCTAAAATTCTCGTGTTTT
1 -AAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTCTCTAAAATTCTCGTGTTTT
* *
51452637 AAAAAATTTTAGTGTGTTCAAAAAA
1 AAAAAA-TTTCGTGTTTTCAAAAAA
51452662 AATGTTTCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
52 20 0.32
53 39 0.62
54 4 0.06
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.44
Consensus pattern (53 bp):
AAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTCTCTAAAATTCTCGTGTTTT
Found at i:51462533 original size:75 final size:74
Alignment explanation
Indices: 51462276--51462625 Score: 547
Period size: 74 Copynumber: 4.6 Consensus size: 74
51462266 ATTTCTGTCT
*
51462276 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
51462341 CAATTTTTG
66 CAATTTCTG
51462350 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
51462415 CAATTTTTG
66 CAATTTCTG
51462424 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
* *
51462489 TAAGTTTCTA
66 CAA-TTTCTG
* * *
51462499 TTTTTCAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATCT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTAT-T
51462564 TTTCAATTTCTG
63 TTTCAATTTCTG
* *
51462576 TTTTTCAAAAAAAATCAACTCATAATGCTAGAGGTGAGTTGAGCCTCGGG
1 TTTTTC---AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
51462626 CCATACGCCG
Statistics
Matches: 256, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
74 140 0.55
75 53 0.21
77 20 0.08
78 6 0.02
80 37 0.14
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (74 bp):
TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
CAATTTCTG
Found at i:51462841 original size:32 final size:32
Alignment explanation
Indices: 51462800--51462874 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
51462790 GTTTAAAATT
* *
51462800 TTTTTTAAAATTTTGCA-TTTTGACCCCTGAA
1 TTTTTTAAAATTTTACATTTTTGACCCCTAAA
51462831 TTTTTCTAAAA--TTACATTTTTGACCCCTAAA
1 TTTTT-TAAAATTTTACATTTTTGACCCCTAAA
51462862 TTTTTTCAAAATT
1 TTTTTT-AAAATT
51462875 ACATTTCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
30 5 0.14
31 27 0.73
32 5 0.14
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.49
Consensus pattern (32 bp):
TTTTTTAAAATTTTACATTTTTGACCCCTAAA
Found at i:51462852 original size:31 final size:30
Alignment explanation
Indices: 51462815--51462987 Score: 149
Period size: 30 Copynumber: 5.8 Consensus size: 30
51462805 TAAAATTTTG
*
51462815 CATTTTGACCCCTGAATTTTTCTAAAATTA
1 CATTTTGACCCCTAAATTTTTCTAAAATTA
51462845 CATTTTTGACCCCTAAATTTTT-TCAAAATTA
1 CA-TTTTGACCCCTAAATTTTTCT-AAAATTA
** * *
51462876 CATTTCAAGCCCTAAACTTTTCT-AAATTA
1 CATTTTGACCCCTAAATTTTTCTAAAATTA
* * *
51462905 TATTTTGA-CCTTGAAAATTTATC-AAAATTA
1 CATTTTGACCCCT--AAATTTTTCTAAAATTA
* *
51462935 CATTTTAACCCCTAAA-ATTTCTCAAAATTA
1 CATTTTGACCCCTAAATTTTTCT-AAAATTA
* * *
51462965 CATTTTGGCCCCAAAACTTTTCT
1 CATTTTGACCCCTAAATTTTTCT
51462988 GCATTTAGAA
Statistics
Matches: 113, Mismatches: 20, Indels: 19
0.74 0.13 0.12
Matches are distributed among these distances:
28 6 0.05
29 14 0.12
30 57 0.50
31 36 0.32
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.41
Consensus pattern (30 bp):
CATTTTGACCCCTAAATTTTTCTAAAATTA
Found at i:51462934 original size:59 final size:59
Alignment explanation
Indices: 51462822--51462980 Score: 169
Period size: 59 Copynumber: 2.7 Consensus size: 59
51462812 TTGCATTTTG
* * * *
51462822 ACCCCTGAATTTTTCTAAAATTACATTTTTGACCCCTAAATTTTTTCAAAATTACATTTCA
1 ACCCCTAAAATTTTCT-AAATTACA-TTTTGACCCCTAAAATTTATCAAAATTACATTTCA
* * * * *
51462883 AGCCCTAAACTTTTCTAAATTATATTTTGA-CCTTGAAAATTTATCAAAATTACATTTTA
1 ACCCCTAAAATTTTCTAAATTACATTTTGACCCCT-AAAATTTATCAAAATTACATTTCA
* *
51462942 ACCCCTAAAATTTCTCAAAATTACATTTTGGCCCC-AAAA
1 ACCCCTAAAATTT-TCTAAATTACATTTTGACCCCTAAAA
51462981 CTTTTCTGCA
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
58 3 0.04
59 42 0.52
60 21 0.26
61 15 0.19
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (59 bp):
ACCCCTAAAATTTTCTAAATTACATTTTGACCCCTAAAATTTATCAAAATTACATTTCA
Found at i:51463420 original size:19 final size:18
Alignment explanation
Indices: 51463382--51463429 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
51463372 CGGGTCAGAC
*
51463382 CGACCCGACCC-GACCCG
1 CGACCCGACCCGGAACCG
51463399 CGACCCGACCCGGATACCG
1 CGACCCGACCCGGA-ACCG
*
51463418 CGACCTGACCCG
1 CGACCCGACCCG
51463430 CACTGCAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 11 0.41
18 2 0.07
19 14 0.52
ACGTcount: A:0.19, C:0.52, G:0.25, T:0.04
Consensus pattern (18 bp):
CGACCCGACCCGGAACCG
Found at i:51463656 original size:24 final size:22
Alignment explanation
Indices: 51463614--51463677 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
51463604 CCAGCCCAGC
*
51463614 AGAGAGAAAAAAAAGAAAAAAG
1 AGAGAAAAAAAAAAGAAAAAAG
51463636 AGAGAAAAAGAAAAAGAAAAAA-
1 AGAGAAAAA-AAAAAGAAAAAAG
* *
51463658 AGAG-GAAAAAAGAGAAAAAA
1 AGAGAAAAAAAAAAGAAAAAA
51463678 ATAAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 11 0.29
21 3 0.08
22 12 0.32
23 12 0.32
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AGAGAAAAAAAAAAGAAAAAAG
Done.