Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 52 of 129
Found at i:10294007 original size:22 final size:23
Alignment explanation
Indices: 10293982--10294025 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10293972 TTTTAAACAA
10293982 AATT-AAAATATTTAAAAAAATT
1 AATTCAAAATATTTAAAAAAATT
** *
10294004 AATTCAATGTTTTTAAAAAAAT
1 AATTCAAAATATTTAAAAAAAT
10294026 ATGAAAAAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AATTCAAAATATTTAAAAAAATT
Found at i:10294679 original size:111 final size:111
Alignment explanation
Indices: 10294444--10294667 Score: 439
Period size: 111 Copynumber: 2.0 Consensus size: 111
10294434 ATTAAGATTA
10294444 TTAAATCAAACTAATAGGAGAATTATATTTTTATGAATTATAGTAAAATGACTAAATTATCTTTC
1 TTAAATCAAACTAATAGGAGAATTATATTTTTATGAATTATAGTAAAATGACTAAATTATCTTTC
*
10294509 ATTAGAGTACATGAACCATTATCATATTTTGACCTTTTTTTCTTTT
66 ACTAGAGTACATGAACCATTATCATATTTTGACCTTTTTTTCTTTT
10294555 TTAAATCAAACTAATAGGAGAATTATATTTTTATGAATTATAGTAAAATGACTAAATTATCTTTC
1 TTAAATCAAACTAATAGGAGAATTATATTTTTATGAATTATAGTAAAATGACTAAATTATCTTTC
10294620 ACTAGAGTACATGAACCATTATCATATTTTGACCTTTTTTTCTTTT
66 ACTAGAGTACATGAACCATTATCATATTTTGACCTTTTTTTCTTTT
10294666 TT
1 TT
10294668 GCCATAAACT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 112 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (111 bp):
TTAAATCAAACTAATAGGAGAATTATATTTTTATGAATTATAGTAAAATGACTAAATTATCTTTC
ACTAGAGTACATGAACCATTATCATATTTTGACCTTTTTTTCTTTT
Found at i:10296668 original size:43 final size:43
Alignment explanation
Indices: 10296620--10296701 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
10296610 GTCTAATAAA
* * *
10296620 TATGTCATGTTCATGTTTAAG-TTATTTGTGTCATTTATGTATT
1 TATGTCATGTTCAT-CTCAAGATTATTTGTGTCATGTATGTATT
*
10296663 TATGTCGTGTTCATCTCAAGATTATTTGTGTCATGTATG
1 TATGTCATGTTCATCTCAAGATTATTTGTGTCATGTATG
10296702 AAATTGTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 4 0.12
43 30 0.88
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (43 bp):
TATGTCATGTTCATCTCAAGATTATTTGTGTCATGTATGTATT
Found at i:10297948 original size:19 final size:18
Alignment explanation
Indices: 10297916--10297972 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
10297906 AAATAATTAC
10297916 AAAAATGAATAATAAAAACAA
1 AAAAATG-A-AATAAAAA-AA
10297937 AAAAATGAAATAAAATAAA
1 AAAAATGAAATAAAA-AAA
*
10297956 TAAAATGAAATCAAAAA
1 AAAAATGAAAT-AAAAA
10297973 TGAAAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 20 0.61
20 6 0.18
21 7 0.21
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAATGAAATAAAAAAA
Found at i:10298910 original size:3 final size:3
Alignment explanation
Indices: 10298904--10298933 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10298894 AATAATAATA
10298904 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
10298934 CAAAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:10299472 original size:32 final size:33
Alignment explanation
Indices: 10299425--10299493 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
10299415 CCTGATTTTA
* * * *
10299425 AAAATTTCCTCTAACTAGAGGTAATTA-ACTTT
1 AAAAGTTCATCTAACTAAAGGTAATAATACTTT
*
10299457 AAAAGTTCATCTAACTAAAGGTTATAATACTTT
1 AAAAGTTCATCTAACTAAAGGTAATAATACTTT
10299490 AAAA
1 AAAA
10299494 ACTCCTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 22 0.71
33 9 0.29
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (33 bp):
AAAAGTTCATCTAACTAAAGGTAATAATACTTT
Found at i:10299630 original size:33 final size:33
Alignment explanation
Indices: 10299584--10299660 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
10299574 AGAGGATGCA
** *
10299584 ATACTTT-AAAACTCCTCTAACTTAAGGTTATG
1 ATACTTTAAAAACTCCTCTAACCAAAAGTTATG
* *
10299616 ATAGTTTAAAAACTCTTCTAACCAAAAGTTATG
1 ATACTTTAAAAACTCCTCTAACCAAAAGTTATG
10299649 ATACTTTAAAAA
1 ATACTTTAAAAA
10299661 AAATTTCTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
32 6 0.16
33 32 0.84
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.35
Consensus pattern (33 bp):
ATACTTTAAAAACTCCTCTAACCAAAAGTTATG
Found at i:10306558 original size:229 final size:229
Alignment explanation
Indices: 10306155--10306609 Score: 820
Period size: 229 Copynumber: 2.0 Consensus size: 229
10306145 GGTGTATGAG
10306155 ATAGTATAGTAAGTGGTCAAACCTAATTTTTTTTTACCTTGCAGATTTTACGCATAAATTCAACA
1 ATAGTATAGTAAGTGGTCAAACCTAATTTTTTTTTACCTTGCAGATTTTACGCATAAATTCAACA
* *
10306220 AAAAGCCATAAAATTTTTTGGTTAATCATTGGAGATACAAATATTCATAAAGCTTCATTAACATG
66 AAAAGCCACAAAATTTTTTGGTTAATCATTGGAGATACAAATATTCATAAAGCTCCATTAACATG
10306285 TCTAGTAAGGTTACATGTTTTGTTGCCTTTACTCATTAATGTGTTTGTTGGAATATATAGAATCT
131 TCTAGTAAGGTTACATGTTTTGTTGCCTTTACTCATTAATGTGTTTGTTGGAATATATAGAATCT
10306350 TTTAAGTTGATACCCTTCTATTTAAATGTATAAA
196 TTTAAGTTGATACCCTTCTATTTAAATGTATAAA
* *
10306384 ATAGTATAGTAAGTGGTCAAACCTATTTTTTTTTTACCTTGCAGATTTTGCGCATAAATTCAACA
1 ATAGTATAGTAAGTGGTCAAACCTAATTTTTTTTTACCTTGCAGATTTTACGCATAAATTCAACA
* * *
10306449 AAAGGCCACAAAATTTTTTGGTTAATCATTGGAGATACTAATATTCATAAGGCTCCATTAACATG
66 AAAAGCCACAAAATTTTTTGGTTAATCATTGGAGATACAAATATTCATAAAGCTCCATTAACATG
* *
10306514 TCTAGTAGGGTTACATGTTTTGTTGCCTTTACTCATTGATGTGTTTGTTGGAATATATAGAATCT
131 TCTAGTAAGGTTACATGTTTTGTTGCCTTTACTCATTAATGTGTTTGTTGGAATATATAGAATCT
*
10306579 TTTAAGTTGATACCTTTCTATTTAAATGTAT
196 TTTAAGTTGATACCCTTCTATTTAAATGTAT
10306610 GACCATACAT
Statistics
Matches: 216, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
229 216 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.41
Consensus pattern (229 bp):
ATAGTATAGTAAGTGGTCAAACCTAATTTTTTTTTACCTTGCAGATTTTACGCATAAATTCAACA
AAAAGCCACAAAATTTTTTGGTTAATCATTGGAGATACAAATATTCATAAAGCTCCATTAACATG
TCTAGTAAGGTTACATGTTTTGTTGCCTTTACTCATTAATGTGTTTGTTGGAATATATAGAATCT
TTTAAGTTGATACCCTTCTATTTAAATGTATAAA
Found at i:10309169 original size:19 final size:20
Alignment explanation
Indices: 10309145--10309187 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
10309135 TTGCCCTTTA
*
10309145 GTTTCCCT-ATTTTTTCCCT
1 GTTTCCCTAATTTTTGCCCT
*
10309164 GTTT-CCTAATTTTTGCCTT
1 GTTTCCCTAATTTTTGCCCT
10309183 GTTTC
1 GTTTC
10309188 TGATATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.07, C:0.26, G:0.09, T:0.58
Consensus pattern (20 bp):
GTTTCCCTAATTTTTGCCCT
Found at i:10312014 original size:26 final size:25
Alignment explanation
Indices: 10311978--10312076 Score: 90
Period size: 26 Copynumber: 3.8 Consensus size: 25
10311968 GTGTTTATGA
10311978 TTTAAGGTTAGGTTGTAGGGTTAGGG
1 TTTAAGGTTAGGTT-TAGGGTTAGGG
* * *
10312004 TTTAAGATTAGGGTTTAGGTTTAGGA
1 TTTAAGGTTA-GGTTTAGGGTTAGGG
* * *
10312030 TTTAAGGTTAGGATTAGCGTTTGGG
1 TTTAAGGTTAGGTTTAGGGTTAGGG
* * *
10312055 TTTACGTTTAAGGTTTAAGGTT
1 TTTAAGGTT-AGGTTTAGGGTT
10312077 TAAGGATTGG
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
25 17 0.30
26 36 0.63
27 4 0.07
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.42
Consensus pattern (25 bp):
TTTAAGGTTAGGTTTAGGGTTAGGG
Found at i:10312015 original size:19 final size:20
Alignment explanation
Indices: 10311993--10312041 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
10311983 GGTTAGGTTG
10311993 TAGGGTTAGGGTTTAAGA-T
1 TAGGGTTAGGGTTTAAGATT
*
10312012 TAGGGTTTA-GGTTTAGGATT
1 TAGGG-TTAGGGTTTAAGATT
*
10312032 TAAGGTTAGG
1 TAGGGTTAGG
10312042 ATTAGCGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (20 bp):
TAGGGTTAGGGTTTAAGATT
Found at i:10312071 original size:13 final size:13
Alignment explanation
Indices: 10311978--10312129 Score: 72
Period size: 13 Copynumber: 11.8 Consensus size: 13
10311968 GTGTTTATGA
10311978 TTTAAGG-TTAGG
1 TTTAAGGTTTAGG
*
10311990 TTGT-AGGGTTAGGG
1 TT-TAAGGTTTA-GG
*
10312004 TTTAA-GATTAGGG
1 TTTAAGGTTTA-GG
10312017 TTT-AGGTTTAGG
1 TTTAAGGTTTAGG
10312029 ATTTAAGG-TTAGG
1 -TTTAAGGTTTAGG
* *
10312042 ATT-AGCGTTTGGG
1 TTTAAG-GTTTAGG
*
10312055 TTT-ACGTTTAAGG
1 TTTAAGGTTT-AGG
10312068 TTTAAGGTTTAAGG
1 TTTAAGGTTT-AGG
* *
10312082 ATT-GGGTTTAGG
1 TTTAAGGTTTAGG
10312094 TTT-AGGTTTAGAG
1 TTTAAGGTTTAG-G
* *
10312107 TTT-AGATTTGGG
1 TTTAAGGTTTAGG
10312119 CTTTAAGGTTT
1 -TTTAAGGTTT
10312130 GGATTTAGAG
Statistics
Matches: 111, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.02
12 28 0.25
13 57 0.51
14 24 0.22
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.43
Consensus pattern (13 bp):
TTTAAGGTTTAGG
Found at i:10312109 original size:19 final size:19
Alignment explanation
Indices: 10312002--10312111 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 19
10311992 GTAGGGTTAG
*
10312002 GGTTTA-AGATTAGGGTTTA
1 GGTTTAGAGTTTA-GGTTTA
10312021 GGTTTAG-GATTTAAGG-TTA
1 GGTTTAGAG-TTT-AGGTTTA
* * *
10312040 GGATTAGCGTTTGGGTTTA
1 GGTTTAGAGTTTAGGTTTA
*
10312059 CGTTTA-AGGTTTAAGGTTTAA
1 GGTTTAGA-GTTT-AGGTTT-A
* *
10312080 GGATT-GGGTTTAGGTTTA
1 GGTTTAGAGTTTAGGTTTA
10312098 GGTTTAGAGTTTAG
1 GGTTTAGAGTTTAG
10312112 ATTTGGGCTT
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
18 7 0.10
19 43 0.62
20 14 0.20
21 5 0.07
ACGTcount: A:0.23, C:0.02, G:0.33, T:0.43
Consensus pattern (19 bp):
GGTTTAGAGTTTAGGTTTA
Found at i:10312111 original size:7 final size:6
Alignment explanation
Indices: 10311985--10312149 Score: 91
Period size: 7 Copynumber: 25.3 Consensus size: 6
10311975 TGATTTAAGG
* * *
10311985 TTAGGT TGTAGGG TTAGGGT TTAAGA TTAGGGT TTAGGT TTAGGAT TTAAGG-
1 TTAGGT T-TAGGT TTA-GGT TTAGGT TTA-GGT TTAGGT TTAGG-T TT-AGGT
* * * * *
10312037 TTAGGA TTAGCGT TTGGGT TTACGT TTAAGGT TTAAGGT TTAAGGA TTGGGT
1 TTAGGT TTAG-GT TTAGGT TTAGGT TT-AGGT TT-AGGT TT-AGGT TTAGGT
* *
10312089 TTAGGT TTAGGT TTAGAGT TTAGAT TTGGGCT TTAAGGT TT-GGAT TTAGAGT
1 TTAGGT TTAGGT TTAG-GT TTAGGT TTAGG-T TT-AGGT TTAGG-T TTAG-GT
10312141 TTAAGGT TT
1 TT-AGGT TT
10312150 GCATTTGGGA
Statistics
Matches: 125, Mismatches: 19, Indels: 29
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.04
6 53 0.42
7 59 0.47
8 8 0.06
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.44
Consensus pattern (6 bp):
TTAGGT
Found at i:10312128 original size:33 final size:31
Alignment explanation
Indices: 10312083--10312143 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
10312073 GGTTTAAGGA
10312083 TTGGGTTTAGGTTTAGG-TTTAGAGTTTAGAT
1 TTGGGTTTAGGTTT-GGATTTAGAGTTTAGAT
10312114 TTGGGCTTTAAGGTTTGGATTTAGAGTTTA
1 TTGGG-TTT-AGGTTTGGATTTAGAGTTTA
10312144 AGGTTTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 5 0.19
32 5 0.19
33 17 0.63
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (31 bp):
TTGGGTTTAGGTTTGGATTTAGAGTTTAGAT
Found at i:10312129 original size:20 final size:18
Alignment explanation
Indices: 10312106--10312158 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
10312096 TAGGTTTAGA
10312106 GTTTAGATTTGGGCTTTAAG
1 GTTT-GATTTGGG-TTTAAG
*
10312126 GTTTGGATTTAGAGTTTAAG
1 GTTT-GATTT-GGGTTTAAG
10312146 GTTTGCATTTGGG
1 GTTTG-ATTTGGG
10312159 ATTTGGGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.11
20 23 0.82
21 2 0.07
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.45
Consensus pattern (18 bp):
GTTTGATTTGGGTTTAAG
Found at i:10313177 original size:13 final size:13
Alignment explanation
Indices: 10313159--10313205 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
10313149 ACAACTAAAA
10313159 TTTTTCTCTCCTT
1 TTTTTCTCTCCTT
* *
10313172 TTTTTCTTTCACAT
1 TTTTTCTCTC-CTT
*
10313186 TTTTTCT-TCTTT
1 TTTTTCTCTCCTT
10313198 TTTTTCTC
1 TTTTTCTC
10313206 CTCTATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 8 0.29
13 11 0.39
14 9 0.32
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTCTCTCCTT
Found at i:10314278 original size:19 final size:20
Alignment explanation
Indices: 10314242--10314279 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10314232 CAACTTTTAC
* *
10314242 TTTGTTTGACTAATTTTGAA
1 TTTGTTTGACCAAATTTGAA
10314262 TTTG-TTGACCAAATTTGA
1 TTTGTTTGACCAAATTTGA
10314280 CTATAATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (20 bp):
TTTGTTTGACCAAATTTGAA
Found at i:10316657 original size:18 final size:18
Alignment explanation
Indices: 10316616--10316659 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10316606 TTTTATTTGT
*
10316616 ATGA-TTAATATGTTTGC
1 ATGATTTAATATGCTTGC
*
10316633 ATGGATTTAATTTGCTTGC
1 AT-GATTTAATATGCTTGC
10316652 ATGATTTA
1 ATGATTTA
10316660 TTTAATTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 13 0.57
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (18 bp):
ATGATTTAATATGCTTGC
Found at i:10316711 original size:25 final size:24
Alignment explanation
Indices: 10316658--10316713 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
10316648 TTGCATGATT
* *
10316658 TATTTAATTGCAAGATTATTAATA
1 TATTTATTTGCAAGATTACTAATA
*
10316682 TATTTATTTGCATGATTACCTAATA
1 TATTTATTTGCAAGATTA-CTAATA
10316707 TATTTAT
1 TATTTAT
10316714 GTGTGTGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (24 bp):
TATTTATTTGCAAGATTACTAATA
Found at i:10316733 original size:56 final size:56
Alignment explanation
Indices: 10316673--10316780 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
10316663 AATTGCAAGA
*
10316673 TTATTAATATATTTATTTGCATGA-TTACCTAATATATTTATGTGTGTGATTACATG
1 TTATTAATATATTTATTTGCATGATTTA-CTAATATATTTATGTGTATGATTACATG
** * *
10316729 TTATTAATATATTTATTTGTGTGATTTATTAATATATTTATTTGTATGATTA
1 TTATTAATATATTTATTTGCATGATTTACTAATATATTTATGTGTATGATTA
10316781 TATTTAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 43 0.93
57 3 0.07
ACGTcount: A:0.31, C:0.04, G:0.11, T:0.55
Consensus pattern (56 bp):
TTATTAATATATTTATTTGCATGATTTACTAATATATTTATGTGTATGATTACATG
Found at i:10316763 original size:25 final size:25
Alignment explanation
Indices: 10316673--10316831 Score: 116
Period size: 25 Copynumber: 6.2 Consensus size: 25
10316663 AATTGCAAGA
**
10316673 TTATTAATATATTTATTTGCATGA-
1 TTATTAATATATTTATTTGTGTGAT
* *
10316697 TTACCTAATATATTTATGTGTGTGATTACAT
1 TTA-TTAATATATTTAT-T-TGTG--T-GAT
10316728 GTTATTAATATATTTATTTGTGTGAT
1 -TTATTAATATATTTATTTGTGTGAT
*
10316754 TTATTAATATATTTATTTGTATGAT
1 TTATTAATATATTTATTTGTGTGAT
10316779 TATATT--TA-ATTTGA-TTGCT-TGA-
1 T-TATTAATATATTT-ATTTG-TGTGAT
*
10316801 TTATTAATATATTTATTTATGTGAT
1 TTATTAATATATTTATTTGTGTGAT
10316826 TATATT
1 T-TATT
10316832 TGATTGCATG
Statistics
Matches: 109, Mismatches: 8, Indels: 34
0.72 0.05 0.23
Matches are distributed among these distances:
21 4 0.04
22 1 0.01
23 14 0.13
24 16 0.15
25 38 0.35
26 11 0.10
27 3 0.03
29 5 0.05
30 2 0.02
31 12 0.11
32 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (25 bp):
TTATTAATATATTTATTTGTGTGAT
Found at i:10316914 original size:18 final size:18
Alignment explanation
Indices: 10316893--10316950 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
10316883 ATTACAAGTT
10316893 ATGATTTTATAATATTGC
1 ATGATTTTATAATATTGC
* * * *
10316911 ATGA-TTTATTACATGGT
1 ATGATTTTATAATATTGC
*
10316928 ATGATTTTATATTATTGC
1 ATGATTTTATAATATTGC
10316946 ATGAT
1 ATGAT
10316951 ATGATTTTAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (18 bp):
ATGATTTTATAATATTGC
Found at i:10316923 original size:35 final size:35
Alignment explanation
Indices: 10316881--10316950 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
10316871 TGGTATTATA
*
10316881 TTATTACAAGTTATGATTTTATAATATTGCATGAT
1 TTATTACAAGGTATGATTTTATAATATTGCATGAT
* *
10316916 TTATTACATGGTATGATTTTATATTATTGCATGAT
1 TTATTACAAGGTATGATTTTATAATATTGCATGAT
10316951 ATGATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (35 bp):
TTATTACAAGGTATGATTTTATAATATTGCATGAT
Found at i:10316943 original size:23 final size:23
Alignment explanation
Indices: 10316916--10316985 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
10316906 ATTGCATGAT
*
10316916 TTATTACATGGTATGATTTTATA
1 TTATTACATGATATGATTTTATA
*
10316939 TTATTGCATGATATGATTTTAT-
1 TTATTACATGATATGATTTTATA
10316961 TTATTACATGATATGATTTTATA
1 TTATTACATGATATGATTTTATA
10316984 TT
1 TT
10316986 TATTGCAAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 21 0.49
23 22 0.51
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
TTATTACATGATATGATTTTATA
Found at i:10316970 original size:22 final size:22
Alignment explanation
Indices: 10316914--10316982 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
10316904 ATATTGCATG
*
10316914 ATTTATTACATGGTATGATTTT
1 ATTTATTACATGATATGATTTT
*
10316936 ATATTATTGCATGATATGATTTT
1 AT-TTATTACATGATATGATTTT
10316959 ATTTATTACATGATATGATTTT
1 ATTTATTACATGATATGATTTT
10316981 AT
1 AT
10316983 ATTTATTGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 23 0.53
23 20 0.47
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (22 bp):
ATTTATTACATGATATGATTTT
Found at i:10320527 original size:30 final size:30
Alignment explanation
Indices: 10320488--10320544 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
10320478 TTCACACCAC
10320488 AAGGTTCTTTAAAA-ATTTGAGATTCATAA
1 AAGGTTCTTTAAAAGATTTGAGATTCATAA
*
10320517 AAGGTTTCTTTAAAAGGTTTGAGATTCA
1 AAGG-TTCTTTAAAAGATTTGAGATTCA
10320545 AATTGAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 4 0.16
30 10 0.40
31 11 0.44
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.39
Consensus pattern (30 bp):
AAGGTTCTTTAAAAGATTTGAGATTCATAA
Found at i:10320541 original size:31 final size:33
Alignment explanation
Indices: 10320488--10320569 Score: 100
Period size: 34 Copynumber: 2.6 Consensus size: 33
10320478 TTCACACCAC
*
10320488 AAGG-TTCTTTAAAA-ATTTGAGATTC-A-TAA
1 AAGGTTTCTTTAAAAGGTTTGAGATTCAATTAA
*
10320517 AAGGTTTCTTTAAAAGGTTTGAGATTCAAATTGA
1 AAGGTTTCTTTAAAAGGTTTGAGATTC-AATTAA
*
10320551 AAGGTTTCTTCAAAAGGTT
1 AAGGTTTCTTTAAAAGGTT
10320570 CAGAATTCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
29 4 0.09
30 10 0.22
31 10 0.22
33 1 0.02
34 20 0.44
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (33 bp):
AAGGTTTCTTTAAAAGGTTTGAGATTCAATTAA
Found at i:10320618 original size:50 final size:51
Alignment explanation
Indices: 10320559--10320794 Score: 207
Period size: 50 Copynumber: 4.6 Consensus size: 51
10320549 GAAAGGTTTC
*
10320559 TTCAAAAGGTTC-AGAATTCACATCGAAAAGCTAGGATTCATACCAAGATTT
1 TTCAAAAGGTTCGAG-ATTCACATCAAAAAGCTAGGATTCATACCAAGATTT
* * *
10320610 TTC-AAAGGTTCGAGATTCACATAAAAAAGGATAGG-TTCACACCAAGATTT
1 TTCAAAAGGTTCGAGATTCACATCAAAAA-GCTAGGATTCATACCAAGATTT
* * * * * *
10320660 TTCAAAAGTTTTTGAGATTCACA-CTAAAAAGGTTAGGGTTCATACTAGGATTT
1 TTCAAAAG-GTTCGAGATTCACATC-AAAAA-GCTAGGATTCATACCAAGATTT
* * * * *
10320713 TTCAAAAGGTTCGAGATTCATACCGAAAGGCT-GAGATTCTTACCAAGATTT
1 TTCAAAAGGTTCGAGATTCACATCAAAAAGCTAG-GATTCATACCAAGATTT
* *
10320764 TTC-AAAGGTTC-AGGATTTATATCAAAAAGCT
1 TTCAAAAGGTTCGA-GATTCACATCAAAAAGCT
10320795 TTTTCAAAAG
Statistics
Matches: 151, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
49 1 0.01
50 60 0.40
51 32 0.21
52 37 0.25
53 21 0.14
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (51 bp):
TTCAAAAGGTTCGAGATTCACATCAAAAAGCTAGGATTCATACCAAGATTT
Found at i:10321102 original size:33 final size:34
Alignment explanation
Indices: 10321063--10321128 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
10321053 TCATACAATC
* * *
10321063 ATTCTTC-AAAGCTTTAGGATTCACACTAAAAGG
1 ATTCTTCAAAAGATTCAGGATTCACACCAAAAGG
10321096 ATTCTTCAAAAGATTCAGGATTCACACCAAAAG
1 ATTCTTCAAAAGATTCAGGATTCACACCAAAAG
10321129 TAAAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (34 bp):
ATTCTTCAAAAGATTCAGGATTCACACCAAAAGG
Found at i:10322161 original size:14 final size:13
Alignment explanation
Indices: 10322124--10322197 Score: 51
Period size: 15 Copynumber: 5.4 Consensus size: 13
10322114 TACATTTATC
10322124 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
** *
10322137 TTCCTCATTTTTGTT
1 TT--TTTTTTTTCTT
10322152 TTTATTTTTTTC-T
1 TTT-TTTTTTTCTT
*
10322165 TTTTTTTTCTCTT
1 TTTTTTTTTTCTT
*
10322178 TATCTTTCTTTTCTT
1 T-T-TTTTTTTTCTT
10322193 TTTTT
1 TTTTT
10322198 ATTATTACGT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
12 7 0.15
13 12 0.26
14 7 0.15
15 20 0.43
ACGTcount: A:0.04, C:0.14, G:0.01, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:10322629 original size:30 final size:29
Alignment explanation
Indices: 10322572--10322652 Score: 81
Period size: 32 Copynumber: 2.6 Consensus size: 29
10322562 TTTCGTCTTC
*
10322572 TTTTTCTTTTTTCTTTCCTATTATTTCCCCTT
1 TTTTTGTTTTTTCTTT-C-ATTATTT-CCCTT
* *
10322604 TTTTTGTTATTTCTTTCATTTTTTCCCTT
1 TTTTTGTTTTTTCTTTCATTATTTCCCTT
*
10322633 TTCTTAGTTTTTTTCTTTCA
1 TT-TTTG-TTTTTTCTTTCA
10322653 CCTTCTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
29 7 0.17
30 9 0.21
31 12 0.29
32 14 0.33
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.70
Consensus pattern (29 bp):
TTTTTGTTTTTTCTTTCATTATTTCCCTT
Found at i:10325963 original size:25 final size:25
Alignment explanation
Indices: 10325929--10325980 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
10325919 ATTTCTAATC
*
10325929 ATGATAAAAAGTATGAAAGAATGAA
1 ATGATAAAAAGTATAAAAGAATGAA
*
10325954 ATGATAAAAATTATAAAAGAATGAA
1 ATGATAAAAAGTATAAAAGAATGAA
10325979 AT
1 AT
10325981 CCAAAACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (25 bp):
ATGATAAAAAGTATAAAAGAATGAA
Found at i:10326133 original size:15 final size:14
Alignment explanation
Indices: 10326115--10326154 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
10326105 CATTTTGTTC
10326115 TTTTTGTTTCTTTTG
1 TTTTTGTTT-TTTTG
10326130 TTTTTGGTTTTTTTG
1 TTTTT-GTTTTTTTG
10326145 TTTTT-TTTTT
1 TTTTTGTTTTT
10326155 ATTTTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
15 15 0.62
16 4 0.17
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.85
Consensus pattern (14 bp):
TTTTTGTTTTTTTG
Found at i:10326164 original size:9 final size:8
Alignment explanation
Indices: 10326107--10326163 Score: 64
Period size: 8 Copynumber: 7.0 Consensus size: 8
10326097 TTTTTTTCCA
10326107 TTTTGTTCT
1 TTTTGTT-T
10326116 TTTTGTTT
1 TTTTGTTT
10326124 CTTTTG-TT
1 -TTTTGTTT
*
10326132 TTTGGTTT
1 TTTTGTTT
10326140 TTTTGTTT
1 TTTTGTTT
10326148 TTTT-TTT
1 TTTTGTTT
10326155 ATTTTGTTT
1 -TTTTGTTT
10326164 AGAGCAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 7 0.17
8 20 0.48
9 15 0.36
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (8 bp):
TTTTGTTT
Found at i:10326960 original size:25 final size:25
Alignment explanation
Indices: 10326932--10327077 Score: 121
Period size: 25 Copynumber: 5.8 Consensus size: 25
10326922 AATATATAAT
10326932 AAATGACATAATTAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
* **
10326957 AAATCACATAACAAAAATATGCATG
1 AAATGACATAATTAAAATATGCATG
* * *
10326982 AAATGATATATTTACAATATGCATG
1 AAATGACATAATTAAAATATGCATG
** * * **
10327007 AAATGATGTAACTAAAAAATATATG
1 AAATGACATAATTAAAATATGCATG
* * * *
10327032 AAATGGCATATTTATAATATGCGTG
1 AAATGACATAATTAAAATATGCATG
* * *
10327057 AAACGTCATAATTACAATATG
1 AAATGACATAATTAAAATATG
10327078 GACAAAATAA
Statistics
Matches: 91, Mismatches: 30, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 91 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (25 bp):
AAATGACATAATTAAAATATGCATG
Found at i:10326976 original size:50 final size:50
Alignment explanation
Indices: 10326916--10327059 Score: 148
Period size: 50 Copynumber: 2.9 Consensus size: 50
10326906 CAAAATAGAG
* *
10326916 AACAACAATATATAAT-AAATGACATAATTAAAATATGCATGAAATCACAT
1 AACAAAAATATAT-ATGAAATGACATATTTAAAATATGCATGAAATCACAT
** * * * **
10326966 AACAAAAATATGCATGAAATGATATATTTACAATATGCATGAAATGATGT
1 AACAAAAATATATATGAAATGACATATTTAAAATATGCATGAAATCACAT
* * *
10327016 AACTAAAAA-ATATATGAAATGGCATATTTATAATATGCGTGAAA
1 AAC-AAAAATATATATGAAATGACATATTTAAAATATGCATGAAA
10327060 CGTCATAATT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.03
50 70 0.91
51 5 0.06
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.28
Consensus pattern (50 bp):
AACAAAAATATATATGAAATGACATATTTAAAATATGCATGAAATCACAT
Found at i:10327168 original size:19 final size:20
Alignment explanation
Indices: 10327128--10327174 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
10327118 ACATACAAAC
10327128 TTTTTTTTTCATTTCTCATCA
1 TTTTTTTTTCATTTCT-ATCA
10327149 TTTTTTTTTACATTT-T-TCA
1 TTTTTTTTT-CATTTCTATCA
10327168 TTTTTTT
1 TTTTTTT
10327175 GGATAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.40
21 10 0.40
22 5 0.20
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTTTTTCATTTCTATCA
Found at i:10327382 original size:25 final size:25
Alignment explanation
Indices: 10327362--10327504 Score: 186
Period size: 25 Copynumber: 5.9 Consensus size: 25
10327352 ATAAATCGCG
10327362 TAATTAAAATATGCATGAAATG--A
1 TAATTAAAATATGCATGAAATGACA
** **
10327385 TGGTTAAAATATATATGAAATGACA
1 TAATTAAAATATGCATGAAATGACA
*
10327410 TAATTAAAATATGCATGAAATGATA
1 TAATTAAAATATGCATGAAATGACA
10327435 TAATTAAAATATGCATGAAATGAC-
1 TAATTAAAATATGCATGAAATGACA
* * *
10327459 -GATTAAAATATGTATGAAATAACA
1 TAATTAAAATATGCATGAAATGACA
10327483 TAATTAAAATATGCATGAAATG
1 TAATTAAAATATGCATGAAATG
10327505 TAAAATACGT
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
23 38 0.38
25 62 0.62
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (25 bp):
TAATTAAAATATGCATGAAATGACA
Found at i:10327464 original size:48 final size:48
Alignment explanation
Indices: 10327363--10327504 Score: 180
Period size: 48 Copynumber: 2.9 Consensus size: 48
10327353 TAAATCGCGT
** **
10327363 AATTAAAATATGCATGAAATG-ATGGTTAAAATATATATGAAATGACA
1 AATTAAAATATGCATGAAATGAATAATTAAAATATGCATGAAATGACA
10327410 TAATTAAAATATGCATGAAATGATATAATTAAAATATGCATGAAATGAC-
1 -AATTAAAATATGCATGAAATGA-ATAATTAAAATATGCATGAAATGACA
* * *
10327459 GATTAAAATATGTATGAAATAACATAATTAAAATATGCATGAAATG
1 AATTAAAATATGCATGAAATGA-ATAATTAAAATATGCATGAAATG
10327505 TAAAATACGT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
48 63 0.75
50 21 0.25
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.30
Consensus pattern (48 bp):
AATTAAAATATGCATGAAATGAATAATTAAAATATGCATGAAATGACA
Found at i:10327465 original size:73 final size:73
Alignment explanation
Indices: 10327362--10327504 Score: 250
Period size: 73 Copynumber: 2.0 Consensus size: 73
10327352 ATAAATCGCG
* * *
10327362 TAATTAAAATATGCATGAAATGATGGTTAAAATATATATGAAATGACATAATTAAAATATGCATG
1 TAATTAAAATATGCATGAAATGACGATTAAAATATATATGAAATAACATAATTAAAATATGCATG
10327427 AAATGATA
66 AAATGATA
*
10327435 TAATTAAAATATGCATGAAATGACGATTAAAATATGTATGAAATAACATAATTAAAATATGCATG
1 TAATTAAAATATGCATGAAATGACGATTAAAATATATATGAAATAACATAATTAAAATATGCATG
10327500 AAATG
66 AAATG
10327505 TAAAATACGT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (73 bp):
TAATTAAAATATGCATGAAATGACGATTAAAATATATATGAAATAACATAATTAAAATATGCATG
AAATGATA
Found at i:10328148 original size:12 final size:11
Alignment explanation
Indices: 10328113--10328158 Score: 53
Period size: 10 Copynumber: 4.4 Consensus size: 11
10328103 CCTTTCCTTC
10328113 TTTTCTTT-TT
1 TTTTCTTTCTT
*
10328123 TTTT-TTTCTC
1 TTTTCTTTCTT
10328133 TTTTCTTTGCTT
1 TTTTCTTT-CTT
10328145 TTTTCTTT-TT
1 TTTTCTTTCTT
10328155 TTTT
1 TTTT
10328159 TAAAACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 3 0.10
10 15 0.48
11 3 0.10
12 10 0.32
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:10328662 original size:20 final size:19
Alignment explanation
Indices: 10328638--10328687 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
10328628 TTAGGGTCAG
*
10328638 GGTTTAGGATTAGGTTTTA
1 GGTTTAGGATTAGGATTTA
*
10328657 GAGTTTAGCATTAGGATTTA
1 G-GTTTAGGATTAGGATTTA
10328677 GGTTTAGGATT
1 GGTTTAGGATT
10328688 TATGGTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.44
Consensus pattern (19 bp):
GGTTTAGGATTAGGATTTA
Found at i:10328688 original size:13 final size:13
Alignment explanation
Indices: 10328638--10328721 Score: 59
Period size: 13 Copynumber: 6.5 Consensus size: 13
10328628 TTAGGGTCAG
10328638 GGTTTAGGA-TTA
1 GGTTTAGGATTTA
10328650 GGTTTTA-GAGTTTA
1 GG-TTTAGGA-TTTA
**
10328664 GCATTAGGATTTA
1 GGTTTAGGATTTA
10328677 GGTTTAGGATTTA
1 GGTTTAGGATTTA
*
10328690 TGGTTAAGG-TTTA
1 -GGTTTAGGATTTA
**
10328703 CATTTAGG-TTTA
1 GGTTTAGGATTTA
10328715 GGGTTTA
1 -GGTTTA
10328722 CATTTTAGGG
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
12 13 0.23
13 30 0.54
14 13 0.23
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (13 bp):
GGTTTAGGATTTA
Found at i:10328702 original size:39 final size:39
Alignment explanation
Indices: 10328627--10328721 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 39
10328617 AAGGTTAGGG
* * *
10328627 TTTAGGGTCAGGGTTTAGGATTAGGTTTTAGAGTTTAGCA
1 TTTAGGTTTAGGGTTTAGGATTAGGTTTAAGAGTTTA-CA
10328667 -TTAGGATTTA-GGTTTAGGATTTATGG-TTAAG-GTTTACA
1 TTTAGG-TTTAGGGTTTAGGA-TTA-GGTTTAAGAGTTTACA
10328705 TTTAGGTTTAGGGTTTA
1 TTTAGGTTTAGGGTTTA
10328722 CATTTTAGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
38 6 0.13
39 30 0.64
40 9 0.19
41 2 0.04
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.44
Consensus pattern (39 bp):
TTTAGGTTTAGGGTTTAGGATTAGGTTTAAGAGTTTACA
Found at i:10328714 original size:6 final size:6
Alignment explanation
Indices: 10328638--10328721 Score: 60
Period size: 6 Copynumber: 13.0 Consensus size: 6
10328628 TTAGGGTCAG
* **
10328638 GGTTTA GGATTA GGTTTTA GAGTTTA GCATTA GGATTTA GGTTTA GGATTTA
1 GGTTTA GGTTTA GG-TTTA G-GTTTA GGTTTA GG-TTTA GGTTTA GG-TTTA
* **
10328690 TGGTTAA GGTTTA CATTTA GGTTTA GGGTTTA
1 -GGTTTA GGTTTA GGTTTA GGTTTA -GGTTTA
10328722 CATTTTAGGG
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
6 30 0.50
7 27 0.45
8 3 0.05
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.45
Consensus pattern (6 bp):
GGTTTA
Found at i:10328726 original size:19 final size:21
Alignment explanation
Indices: 10328636--10328726 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 21
10328626 GTTTAGGGTC
* *
10328636 AGGGTTTAGGA-TTAGGTTTT
1 AGGGTTTAGCATTTAGGATTT
*
10328656 AGAGTTTAGCA-TTAGGATTT
1 AGGGTTTAGCATTTAGGATTT
*
10328676 A-GGTTTAGGATTTATGG--TT
1 AGGGTTTAGCATTTA-GGATTT
*
10328695 AAGGTTTA-CATTTAGG-TTT
1 AGGGTTTAGCATTTAGGATTT
10328714 AGGGTTTA-CATTT
1 AGGGTTTAGCATTT
10328727 TAGGGTTTGG
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.03
19 29 0.48
20 27 0.45
21 2 0.03
ACGTcount: A:0.24, C:0.03, G:0.27, T:0.45
Consensus pattern (21 bp):
AGGGTTTAGCATTTAGGATTT
Found at i:10329647 original size:21 final size:21
Alignment explanation
Indices: 10329623--10329662 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10329613 TTAAGGACAT
10329623 CAATAAAGAATG-AATGAAACA
1 CAATAAA-AATGCAATGAAACA
*
10329644 CAATGAAAATGCAATGAAA
1 CAATAAAAATGCAATGAAA
10329663 AATGTGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.60, C:0.10, G:0.15, T:0.15
Consensus pattern (21 bp):
CAATAAAAATGCAATGAAACA
Found at i:10339323 original size:15 final size:15
Alignment explanation
Indices: 10339280--10339325 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
10339270 AAAACACTTT
*
10339280 TTTATTTTTTG-TTA
1 TTTATTTTTAGATTA
*
10339294 -TTATTTTTATTATTA
1 TTTATTTTTA-GATTA
10339309 TTTATTTTTAGATTA
1 TTTATTTTTAGATTA
10339324 TT
1 TT
10339326 AAATAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 8 0.31
15 9 0.35
16 9 0.35
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTATTTTTAGATTA
Found at i:10340608 original size:4 final size:4
Alignment explanation
Indices: 10340599--10340651 Score: 62
Period size: 4 Copynumber: 14.5 Consensus size: 4
10340589 TAGACTTTGG
*
10340599 GAAA GAAA GAAA GAAA G-AA GAAA G-AA GAAA G-AA GAAA CAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
10340644 -AAA -AAA GA
1 GAAA GAAA GA
10340652 CAAAAGATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 15 0.35
4 28 0.65
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:10340621 original size:7 final size:7
Alignment explanation
Indices: 10340601--10340635 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
10340591 GACTTTGGGA
10340601 AAGAAAG
1 AAGAAAG
10340608 AAAGAAAG
1 -AAGAAAG
10340616 AAGAAAG
1 AAGAAAG
10340623 AAGAAAG
1 AAGAAAG
10340630 AAGAAA
1 AAGAAA
10340636 CAAAGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:10340651 original size:18 final size:18
Alignment explanation
Indices: 10340600--10340651 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
10340590 AGACTTTGGG
*
10340600 AAAGAAAGAAAGAAAG-AAG
1 AAAGAAA-AAA-AAAGAAAC
* *
10340619 AAAGAAGAAAGAAGAAAC
1 AAAGAAAAAAAAAGAAAC
10340637 AAAGAAAAAAAAAGA
1 AAAGAAAAAAAAAGA
10340652 CAAAAGATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 3 0.11
18 18 0.67
19 6 0.22
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAGAAAC
Found at i:10340674 original size:3 final size:3
Alignment explanation
Indices: 10340666--10340696 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
10340656 AGATAAAAGA
10340666 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10340697 ATGAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10340689 original size:14 final size:14
Alignment explanation
Indices: 10340670--10340696 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10340660 AAAAGAAATA
10340670 ATAATAATAATAAT
1 ATAATAATAATAAT
10340684 ATAATAATAATAA
1 ATAATAATAATAA
10340697 ATGAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:10340707 original size:10 final size:9
Alignment explanation
Indices: 10340658--10340713 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
10340648 AAGACAAAAG
*
10340658 ATAAAAGAA
1 ATAAAATAA
10340667 ATAATAAT-A
1 ATAA-AATAA
10340676 ATAATAATATA
1 ATAA-AATA-A
10340687 ATAATAATAA
1 ATAA-AATAA
10340697 ATGAAAATAA
1 AT-AAAATAA
10340707 ATAAAAT
1 ATAAAAT
10340714 TTAAAGATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
9 18 0.43
10 12 0.29
11 12 0.29
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.27
Consensus pattern (9 bp):
ATAAAATAA
Found at i:10340713 original size:9 final size:10
Alignment explanation
Indices: 10340665--10340710 Score: 60
Period size: 11 Copynumber: 4.6 Consensus size: 10
10340655 AAGATAAAAG
10340665 AAATAATAAT
1 AAATAATAAT
10340675 -AATAATAAT
1 AAATAATAAT
10340684 ATAATAATAAT
1 A-AATAATAAT
10340695 AAATGAA-AAT
1 AAAT-AATAAT
10340705 AAATAA
1 AAATAA
10340711 AATTTAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 11 0.33
10 10 0.30
11 12 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
AAATAATAAT
Found at i:10341633 original size:22 final size:21
Alignment explanation
Indices: 10341604--10341657 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
10341594 ATTTTATGTG
10341604 AAAA-TAAAAAACATTATCTT
1 AAAATTAAAAAACATTATCTT
* * *
10341624 ATAAATTAAAATATATTATTTT
1 A-AAATTAAAAAACATTATCTT
10341646 AAAATTAAAAAA
1 AAAATTAAAAAA
10341658 AAAGTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 13 0.46
22 14 0.50
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTAAAAAACATTATCTT
Found at i:10343108 original size:32 final size:32
Alignment explanation
Indices: 10343072--10343138 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
10343062 AATAACTCAT
* * *
10343072 ATCCAAGATGATCCAAATTAAAAATTATCTAA
1 ATCCAAAATGATCCAAATCAAAAATTATCCAA
* * *
10343104 ATCCAAAATTATTCAAATCCAAAATTATCCAA
1 ATCCAAAATGATCCAAATCAAAAATTATCCAA
10343136 ATC
1 ATC
10343139 TTAAAAAGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.28
Consensus pattern (32 bp):
ATCCAAAATGATCCAAATCAAAAATTATCCAA
Found at i:10343111 original size:16 final size:16
Alignment explanation
Indices: 10343092--10343171 Score: 76
Period size: 16 Copynumber: 5.0 Consensus size: 16
10343082 ATCCAAATTA
10343092 AAAATTATCTAAATCC
1 AAAATTATCTAAATCC
10343108 AAAATTAT-TCAAATCC
1 AAAATTATCT-AAATCC
* *
10343124 AAAATTATCCAAATCTT
1 AAAATTATCTAAATC-C
*
10343141 AAAA--AGCATAAATCC
1 AAAATTATC-TAAATCC
*
10343156 AAAAATATCTAAATCC
1 AAAATTATCTAAATCC
10343172 CATACGATCC
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
15 7 0.13
16 39 0.75
17 6 0.12
ACGTcount: A:0.53, C:0.19, G:0.01, T:0.28
Consensus pattern (16 bp):
AAAATTATCTAAATCC
Found at i:10349243 original size:23 final size:23
Alignment explanation
Indices: 10349213--10349261 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
10349203 TTAATGGTCT
10349213 ACATCAGGTTGCAAGATCTAGGC
1 ACATCAGGTTGCAAGATCTAGGC
10349236 ACATCAGGTTGCAAGATCTAGGC
1 ACATCAGGTTGCAAGATCTAGGC
10349259 ACA
1 ACA
10349262 AATAGAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (23 bp):
ACATCAGGTTGCAAGATCTAGGC
Found at i:10349780 original size:173 final size:174
Alignment explanation
Indices: 10349270--10349791 Score: 750
Period size: 173 Copynumber: 3.0 Consensus size: 174
10349260 CAAATAGAAT
* * *
10349270 ACTGATTCTATAGAAAGGTTATAAATTCCACCAGACTGCATGTAAGTTGGTAAAAATAGTTCCT-
1 ACTGATGCTATA-AAAGGTTATAAATTCCCCCAGACTGCATGTAAGTTGAT-AAAATAGTTCCTA
* * *
10349334 A-AAAATTACCATAAATTCTATTTTCGTAGTGTATCTGCCTAAATCACCTAAATCAGCAAAAAGG
64 AGAAAATTACCATAAATTCTATTTTCATAGCGTATCTGCCTAAATCACCTAAATCAGCAAAAAAG
* * * *
10349398 CCGTGTACTTCCATGTTCTAAACAATGATTTTCACAGGTAGTT-AAA
129 CCATGTACTTCCATGTTCTGAACCATGATTTTCACTGGTA-TTGAAA
* * * *
10349444 ACTGATGCTATAAAAGATTAGACATTCCCCCAGAGTGCATGTAAGTTGATAAAATAGTTCCTAAG
1 ACTGATGCTATAAAAGGTTATAAATTCCCCCAGACTGCATGTAAGTTGATAAAATAGTTCCTAAG
* * *
10349509 GAAATTACCATAAATTTTATTTTCATAGCGTATGTGCCTAAATCACCTAAATCAG-AAAAAAGGC
66 AAAATTACCATAAATTCTATTTTCATAGCGTATCTGCCTAAATCACCTAAATCAGCAAAAAA-GC
* * *
10349573 CATGCACTCCCATGTTCTGAACCATGA-TTTCACTGGTTTTGAAA
130 CATGTACTTCCATGTTCTGAACCATGATTTTCACTGGTATTGAAA
* * *
10349617 ATTGATGGTATAAAAGGTTATAAATTCCCCCAGACTGCATATAAGTTGATAAAA-AGTTCCTAAG
1 ACTGATGCTATAAAAGGTTATAAATTCCCCCAGACTGCATGTAAGTTGATAAAATAGTTCCTAAG
*
10349681 AAAATTACCATAAATTCTATTTTCATTGCGTATCTGCCTAAATCACCTAAATCAGCAAAAAAGCC
66 AAAATTACCATAAATTCTATTTTCATAGCGTATCTGCCTAAATCACCTAAATCAGCAAAAAAGCC
10349746 ATGTACTTCCATGTTCTGAACCATGATTTTCACTGGTATTGAAA
131 ATGTACTTCCATGTTCTGAACCATGATTTTCACTGGTATTGAAA
10349790 AC
1 AC
10349792 ATTGGACCAC
Statistics
Matches: 307, Mismatches: 35, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
172 102 0.33
173 120 0.39
174 85 0.28
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (174 bp):
ACTGATGCTATAAAAGGTTATAAATTCCCCCAGACTGCATGTAAGTTGATAAAATAGTTCCTAAG
AAAATTACCATAAATTCTATTTTCATAGCGTATCTGCCTAAATCACCTAAATCAGCAAAAAAGCC
ATGTACTTCCATGTTCTGAACCATGATTTTCACTGGTATTGAAA
Found at i:10358005 original size:13 final size:14
Alignment explanation
Indices: 10357981--10358009 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10357971 TTAAAATTTG
10357981 AAAATTATTATAAA
1 AAAATTATTATAAA
10357995 AAAATTA-TATAAA
1 AAAATTATTATAAA
10358008 AA
1 AA
10358010 TTATAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTATTATAAA
Found at i:10358237 original size:29 final size:32
Alignment explanation
Indices: 10358172--10358237 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 32
10358162 TAATTTTTTT
* *
10358172 ATTTTAATTATACATATTTTCATTTATTATTA
1 ATTTTATTTATACATATTTTCATTTATTATGA
10358204 A--TTATTTAT-CATA-TTTCATTT-TTATGA
1 ATTTTATTTATACATATTTTCATTTATTATGA
10358231 ATTTTAT
1 ATTTTAT
10358238 GACTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
27 6 0.20
28 8 0.27
29 8 0.27
30 7 0.23
32 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (32 bp):
ATTTTATTTATACATATTTTCATTTATTATGA
Found at i:10362277 original size:18 final size:18
Alignment explanation
Indices: 10362240--10362282 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
10362230 TGAAAATAAT
* *
10362240 GTGTTATTCACGTGTTAC
1 GTGTTATTCACATGTCAC
*
10362258 GTGTTATTTACATGTCAC
1 GTGTTATTCACATGTCAC
*
10362276 GTATTAT
1 GTGTTAT
10362283 AAATATCACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.47
Consensus pattern (18 bp):
GTGTTATTCACATGTCAC
Found at i:10363187 original size:102 final size:102
Alignment explanation
Indices: 10362978--10363187 Score: 234
Period size: 102 Copynumber: 2.0 Consensus size: 102
10362968 AAATAAAAGC
* *
10362978 ATTTCATTTGTAAAATTAATTTATTTTCAGAAATATCTTTTAATATGTTGGTAAGATTTCTGTCA
1 ATTT-ATTTGTAAAATCAATTTATTTTCAGAAATATCTTTTAATATGTTGGTAAGATTTCTATCA
* * ****
10363043 AAGATTATCTTTCCATATATTGGTAGGATTGAAATTTT
65 AAGATTATCTTTCCATATATGGGTAGGATTAAAAAAAA
*
10363081 ATTTATTTGTGAAAA-CAATTTATTTTTAGAAA-ATCTTTTAATATGTTGGTAAGATTT-TA-CA
1 ATTTATTTGT-AAAATCAATTTATTTTCAGAAATATCTTTTAATATGTTGGTAAGATTTCTATCA
10363142 TCAAGACTTATCTTT-CA-ATATGGGTAGGATTTAAAAAAAAA
65 --AAGA-TTATCTTTCCATATATGGGTAGGA-TT-AAAAAAAA
10363183 ATTTA
1 ATTTA
10363188 AAGAAAATTC
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
99 2 0.02
100 12 0.13
101 33 0.36
102 37 0.40
103 8 0.09
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (102 bp):
ATTTATTTGTAAAATCAATTTATTTTCAGAAATATCTTTTAATATGTTGGTAAGATTTCTATCAA
AGATTATCTTTCCATATATGGGTAGGATTAAAAAAAA
Found at i:10363399 original size:18 final size:18
Alignment explanation
Indices: 10363378--10363436 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
10363368 CCCATGCAAT
10363378 AATAATAATATATCATGC
1 AATAATAATATATCATGC
*
10363396 AATAATATTAATTATCATGC
1 AATAATAAT-A-TATCATGC
*
10363416 AATTA-AATATAGTCATGC
1 AATAATAATATA-TCATGC
10363434 AAT
1 AAT
10363437 TATGCAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 2 0.06
18 18 0.51
19 3 0.09
20 12 0.34
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (18 bp):
AATAATAATATATCATGC
Found at i:10363413 original size:20 final size:21
Alignment explanation
Indices: 10363361--10363418 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
10363351 AAAAAATAAC
**
10363361 ATAATATCCCATGCAATAATA
1 ATAATATATCATGCAATAATA
10363382 ATAATATATCATGCAATAATA
1 ATAATATATCATGCAATAATA
*
10363403 TTAAT-TATCATGCAAT
1 ATAATATATCATGCAAT
10363419 TAAATATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 11 0.32
21 23 0.68
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (21 bp):
ATAATATATCATGCAATAATA
Found at i:10363537 original size:7 final size:7
Alignment explanation
Indices: 10363527--10363553 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10363517 AAATATTAAA
10363527 ATATAAC
1 ATATAAC
10363534 ATATAAC
1 ATATAAC
10363541 ATATAAC
1 ATATAAC
10363548 ATATAA
1 ATATAA
10363554 ACAAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAC
Found at i:10364728 original size:18 final size:18
Alignment explanation
Indices: 10364690--10364724 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10364680 CTTTTTGAAA
*
10364690 AAAAAATTAACATTAAAT
1 AAAAAATTAACATCAAAT
10364708 AAAAAATTAA-ATCAAAT
1 AAAAAATTAACATCAAAT
10364725 TAAACTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATTAACATCAAAT
Found at i:10365186 original size:37 final size:35
Alignment explanation
Indices: 10365138--10365322 Score: 101
Period size: 34 Copynumber: 5.3 Consensus size: 35
10365128 ATAAAAGGTT
*
10365138 TTCCAGATTCATAAGAATTTCAAGTTTCGT-AAAGA
1 TTCCAAATTCATAAGAATTTCAAGTTTC-TCAAAGA
* *
10365173 TTCCAAAAGTTCATACATG-A-TTCAAGATTCTCAGAGA
1 TTCC-AAA-TTCATA-A-GAATTTCAAGTTTCTCAAAGA
* * * *
10365210 TTCCAAATTCACAAAAATTTCAAGTTTCACAATGA
1 TTCCAAATTCATAAGAATTTCAAGTTTCTCAAAGA
* * *** * *
10365245 TTCTATATTTGCAAG-ATTTCAAGTTTCACAATGA
1 TTCCAAATTCATAAGAATTTCAAGTTTCTCAAAGA
* * * * * *
10365279 TTCTATATTTACAAG-ATTTCAAGTTTCACAGAGA
1 TTCCAAATTCATAAGAATTTCAAGTTTCTCAAAGA
*
10365313 TTCTAAATTC
1 TTCCAAATTC
10365323 GCAAAGTTTG
Statistics
Matches: 124, Mismatches: 19, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
34 60 0.48
35 32 0.26
36 6 0.05
37 23 0.19
38 2 0.02
39 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.36
Consensus pattern (35 bp):
TTCCAAATTCATAAGAATTTCAAGTTTCTCAAAGA
Found at i:10365268 original size:34 final size:34
Alignment explanation
Indices: 10365226--10365326 Score: 159
Period size: 34 Copynumber: 3.0 Consensus size: 34
10365216 ATTCACAAAA
10365226 ATTTCAAGTTTCACAATGATTCTATATTTGCAAG
1 ATTTCAAGTTTCACAATGATTCTATATTTGCAAG
*
10365260 ATTTCAAGTTTCACAATGATTCTATATTTACAAG
1 ATTTCAAGTTTCACAATGATTCTATATTTGCAAG
* *
10365294 ATTTCAAGTTTCACAGA-GATTCTAAATTCGCAA
1 ATTTCAAGTTTCACA-ATGATTCTATATTTGCAA
10365327 AGTTTGCAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
34 61 0.98
35 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (34 bp):
ATTTCAAGTTTCACAATGATTCTATATTTGCAAG
Found at i:10365422 original size:19 final size:19
Alignment explanation
Indices: 10365394--10365510 Score: 81
Period size: 17 Copynumber: 6.6 Consensus size: 19
10365384 ATAAGAGTTT
*
10365394 AGATTCGCAAGAGTTTCAA
1 AGATTCGCAAGAATTTCAA
*
10365413 AGATTTGCAAGAATTTC--
1 AGATTCGCAAGAATTTCAA
* ** *
10365430 ATATTCTTAAGAATTT--T
1 AGATTCGCAAGAATTTCAA
* *
10365447 ATATTCACAAGAA-TTCAA
1 AGATTCGCAAGAATTTCAA
*
10365465 AGATTCGTAAGAATTT---
1 AGATTCGCAAGAATTTCAA
10365481 AGATTCGCAAGAATTT-AA
1 AGATTCGCAAGAATTTCAA
*
10365499 AGATTCACAAGA
1 AGATTCGCAAGA
10365511 GTTTAAGGTT
Statistics
Matches: 78, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
16 17 0.22
17 23 0.29
18 21 0.27
19 17 0.22
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (19 bp):
AGATTCGCAAGAATTTCAA
Found at i:10365492 original size:34 final size:35
Alignment explanation
Indices: 10365432--10365504 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
10365422 AGAATTTCAT
* *
10365432 ATTCTTAAGAATTTTATATTCACAAGAATTCAAAG
1 ATTCGTAAGAATTTTAGATTCACAAGAATTCAAAG
* *
10365467 ATTCGTAAGAA-TTTAGATTCGCAAGAATTTAAAG
1 ATTCGTAAGAATTTTAGATTCACAAGAATTCAAAG
10365501 ATTC
1 ATTC
10365505 ACAAGAGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 24 0.71
35 10 0.29
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (35 bp):
ATTCGTAAGAATTTTAGATTCACAAGAATTCAAAG
Found at i:10365515 original size:18 final size:18
Alignment explanation
Indices: 10365449--10365516 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
10365439 AGAATTTTAT
*
10365449 ATTCACAAGAATTCAAAG
1 ATTCACAAGAATTTAAAG
**
10365467 ATTCGTAAGAATTT--AG
1 ATTCACAAGAATTTAAAG
*
10365483 ATTCGCAAGAATTTAAAG
1 ATTCACAAGAATTTAAAG
*
10365501 ATTCACAAGAGTTTAA
1 ATTCACAAGAATTTAA
10365517 GGTTTGTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
16 15 0.36
18 27 0.64
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
ATTCACAAGAATTTAAAG
Found at i:10365545 original size:52 final size:50
Alignment explanation
Indices: 10365375--10365565 Score: 152
Period size: 52 Copynumber: 3.7 Consensus size: 50
10365365 TTAAAAAATT
* * * *
10365375 TTCAACTTCATAAGAGTTT-AGATTCGCAAGAGTTTCAAAGATTTGCAAGAA
1 TTCAAATTCATAAGAATTTAAGATTCACAAGAGTTT--AAGATTTGTAAGAA
* * * * * * *
10365426 TTTCATATTCTTAAGAATTTTATATTCACAAGAATTCAAAGATTCGTAAGAA
1 -TTCAAATTCATAAGAATTTAAGATTCACAAGAGTT-TAAGATTTGTAAGAA
* * ** *
10365478 TTTAGATTCGCAAGAATTTAAAGATTCACAAGAGTTTAAGGTTTGTAAGAA
1 TTCAAATTCATAAGAATTT-AAGATTCACAAGAGTTTAAGATTTGTAAGAA
*
10365529 CTTCAAATTCATAAGAAATTCAAG-TTCACAAGAGTTT
1 -TTCAAATTCATAAG-AATTTAAGATTCACAAGAGTTT
10365566 CAATTTCACA
Statistics
Matches: 109, Mismatches: 25, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
51 40 0.37
52 53 0.49
53 16 0.15
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (50 bp):
TTCAAATTCATAAGAATTTAAGATTCACAAGAGTTTAAGATTTGTAAGAA
Found at i:10365567 original size:17 final size:17
Alignment explanation
Indices: 10365420--10365635 Score: 86
Period size: 17 Copynumber: 12.6 Consensus size: 17
10365410 CAAAGATTTG
*
10365420 CAAGAATTTCATA-TTCT
1 CAAGAATTTCA-AGTTCA
* *
10365437 TAAGAATTTTATA-TTCA
1 CAAGAATTTCA-AGTTCA
*
10365454 CAAGAA-TTCAAAGATTCG
1 CAAGAATTTC-AAG-TTCA
* *
10365472 TAAGAATTT--AGATTCG
1 CAAGAATTTCAAG-TTCA
*
10365488 CAAGAATTTAAAGATTCA
1 CAAGAATTTCAAG-TTCA
* **
10365506 CAAGAGTTT-AAGGTTTG
1 CAAGAATTTCAA-GTTCA
* * *
10365523 TAAGAACTTCAAATTCA
1 CAAGAATTTCAAGTTCA
* *
10365540 TAAGAAATTCAAGTTCA
1 CAAGAATTTCAAGTTCA
* *
10365557 CAAGAGTTTCAATTTCA
1 CAAGAATTTCAAGTTCA
* *
10365574 CAAGAATTTTAGGTTCA
1 CAAGAATTTCAAGTTCA
* *
10365591 CAAGAACTTTGAA-TTAA
1 CAAGAA-TTTCAAGTTCA
* * *
10365608 TAAAAATTTCAAGTTCG
1 CAAGAATTTCAAGTTCA
*
10365625 CAAGAGTTTCA
1 CAAGAATTTCA
10365636 GTTTCGTAAG
Statistics
Matches: 150, Mismatches: 39, Indels: 20
0.72 0.19 0.10
Matches are distributed among these distances:
16 23 0.15
17 96 0.64
18 29 0.19
19 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (17 bp):
CAAGAATTTCAAGTTCA
Found at i:10365574 original size:68 final size:68
Alignment explanation
Indices: 10365502--10365650 Score: 174
Period size: 68 Copynumber: 2.2 Consensus size: 68
10365492 AATTTAAAGA
* *** *
10365502 TTCACAAGAGTTTAAGGTTTGTAAGAACTTCAAATTCATAAGAAA-TTCAAGTTCACAAGAGTTT
1 TTCACAAGAATTTAAGGTTCACAAGAACTTCAAATTAATAA-AAATTTCAAGTTCACAAGAGTTT
10365566 CAAT
65 CAAT
* ** *
10365570 TTCACAAGAATTTTAGGTTCACAAGAACTTTGAATTAATAAAAATTTCAAGTTCGCAAGAGTTTC
1 TTCACAAGAATTTAAGGTTCACAAGAACTTCAAATTAATAAAAATTTCAAGTTCACAAGAGTTTC
*
10365635 AGT
66 AAT
**
10365638 TTCGTAAGAATTT
1 TTCACAAGAATTT
10365651 TCATCATTGT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
67 3 0.04
68 65 0.96
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (68 bp):
TTCACAAGAATTTAAGGTTCACAAGAACTTCAAATTAATAAAAATTTCAAGTTCACAAGAGTTTC
AAT
Found at i:10365650 original size:34 final size:33
Alignment explanation
Indices: 10365536--10365650 Score: 104
Period size: 34 Copynumber: 3.4 Consensus size: 33
10365526 GAACTTCAAA
*
10365536 TTCATAAGAAATTCAAGTTCACAAGAGTTTCAAT
1 TTCATAAGAATTTCAAGTTCACAAGAGTTTC-AT
* * * * * *
10365570 TTCACAAGAATTTTAGGTTCACAAGAACTTTGAA
1 TTCATAAGAATTTCAAGTTCACAAG-AGTTTCAT
* * *
10365604 TTAATAAAAATTTCAAGTTCGCAAGAGTTTCAGT
1 TTCATAAGAATTTCAAGTTCACAAGAGTTTCA-T
*
10365638 TTCGTAAGAATTT
1 TTCATAAGAATTT
10365651 TCATCATTGT
Statistics
Matches: 60, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
33 5 0.08
34 51 0.85
35 4 0.07
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (33 bp):
TTCATAAGAATTTCAAGTTCACAAGAGTTTCAT
Found at i:10365651 original size:68 final size:68
Alignment explanation
Indices: 10365524--10365651 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 68
10365514 TAAGGTTTGT
*
10365524 AAGAACTTCAAATTCATAAGAAATTCAAGTTCACAAGAGTTTCAATTTCACAAGAATTTTAGGTT
1 AAGAACTTCAAATTAATAAGAAATTCAAGTTCACAAGAGTTTCAATTTCACAAGAATTTTAGGTT
10365589 CAC
66 CAC
** * * **
10365592 AAGAACTTTGAATTAATAA-AAATTTCAAGTTCGCAAGAGTTTCAGTTTCGTAAGAATTTT
1 AAGAACTTCAAATTAATAAGAAA-TTCAAGTTCACAAGAGTTTCAATTTCACAAGAATTTT
10365652 CATCATTGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
67 3 0.06
68 49 0.94
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (68 bp):
AAGAACTTCAAATTAATAAGAAATTCAAGTTCACAAGAGTTTCAATTTCACAAGAATTTTAGGTT
CAC
Found at i:10365845 original size:44 final size:44
Alignment explanation
Indices: 10365782--10365892 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 44
10365772 TCTAAACTTC
10365782 AAAGATTCTTATTTGAAAAAATTAGAGG-TTCACACCCAAAAGTT
1 AAAGATTCTTATTTGAAAAAATTAG-GGATTCACACCCAAAAGTT
* * * *
10365826 AAAGATTTTTATTTGAAAAACTTAGGGATTCACATCCAAAATTT
1 AAAGATTCTTATTTGAAAAAATTAGGGATTCACACCCAAAAGTT
* **
10365870 CAAATATTCACATTT-AAAAAATT
1 -AAAGATTCTTATTTGAAAAAATT
10365893 TTAGAGATTC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 2 0.04
44 44 0.79
45 10 0.18
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (44 bp):
AAAGATTCTTATTTGAAAAAATTAGGGATTCACACCCAAAAGTT
Found at i:10365968 original size:16 final size:16
Alignment explanation
Indices: 10365947--10365978 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10365937 TTCACATCTA
*
10365947 AAATTTTAAAGATTCT
1 AAATTTCAAAGATTCT
10365963 AAATTTCAAAGATTCT
1 AAATTTCAAAGATTCT
10365979 TATTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTTCAAAGATTCT
Found at i:10367067 original size:19 final size:19
Alignment explanation
Indices: 10367039--10367082 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
10367029 CTTTATTCTC
*
10367039 TTTTTCTTTTTTT-TTCAT
1 TTTTTCTTTTTTTGTACAT
10367057 TTTTTCTTTTTTTGTACAT
1 TTTTTCTTTTTTTGTACAT
10367076 TTTTTCT
1 TTTTTCT
10367083 CATATTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTCTTTTTTTGTACAT
Found at i:10370544 original size:21 final size:21
Alignment explanation
Indices: 10370497--10370544 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
10370487 GTTGGTATAC
10370497 ACATAATATATACAAAAAACA
1 ACATAATATATACAAAAAACA
* * * *
10370518 ATATAATATATATAAAGAATA
1 ACATAATATATACAAAAAACA
10370539 ACATAA
1 ACATAA
10370545 AAGATTAGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (21 bp):
ACATAATATATACAAAAAACA
Found at i:10371586 original size:38 final size:38
Alignment explanation
Indices: 10371536--10371614 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
10371526 TGTGAAAATA
*
10371536 ATTTATTTTCAAA-AATAT-CTTCCAATATGTTGGTAAG
1 ATTTATTTTCAAAGAATATCCTT-CAATACGTTGGTAAG
* * *
10371573 ATTTTTTTATCAAAGATTATCCTTCAATACGTTGGTAGG
1 ATTTATTT-TCAAAGAATATCCTTCAATACGTTGGTAAG
10371612 ATT
1 ATT
10371615 GAAAATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 7 0.20
38 5 0.14
39 20 0.57
40 3 0.09
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (38 bp):
ATTTATTTTCAAAGAATATCCTTCAATACGTTGGTAAG
Found at i:10371910 original size:23 final size:23
Alignment explanation
Indices: 10371879--10371950 Score: 82
Period size: 21 Copynumber: 3.3 Consensus size: 23
10371869 CAAATAATTC
*
10371879 CATGAAATAATAATATAATATAT
1 CATGCAATAATAATATAATATAT
10371902 CATGCAATAATAATA-AA-ATAT
1 CATGCAATAATAATATAATATAT
*
10371923 CTTGCAATAAT-AT-TAAT-TAT
1 CATGCAATAATAATATAATATAT
*
10371943 TATGCAAT
1 CATGCAAT
10371951 TATGCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.30
21 14 0.33
22 2 0.05
23 14 0.33
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (23 bp):
CATGCAATAATAATATAATATAT
Found at i:10372751 original size:18 final size:18
Alignment explanation
Indices: 10372730--10372781 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
10372720 CAAAATCCAC
10372730 AATCAAAACCTAGAATCA
1 AATCAAAACCTAGAATCA
* * *
10372748 AATCCAAACCCATAATCA
1 AATCAAAACCTAGAATCA
*
10372766 AATTAAATACCTAGAA
1 AATCAAA-ACCTAGAA
10372782 AATTCCTAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.54, C:0.23, G:0.04, T:0.19
Consensus pattern (18 bp):
AATCAAAACCTAGAATCA
Found at i:10373196 original size:17 final size:18
Alignment explanation
Indices: 10373166--10373199 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10373156 CCTTTTGAAA
10373166 AAAAAGTAACATTAAATC
1 AAAAAGTAACATTAAATC
*
10373184 AAAAATTAA-ATTAAAT
1 AAAAAGTAACATTAAAT
10373200 TAAACTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAAGTAACATTAAATC
Found at i:10375982 original size:236 final size:236
Alignment explanation
Indices: 10375706--10376297 Score: 627
Period size: 238 Copynumber: 2.5 Consensus size: 236
10375696 ATTTATTGGA
** * * **
10375706 TTTTTTTATATATTTACATGAACAACAATTAATTAAAATTTTATGTTACCAATTTAATTATTTAC
1 TTTTTTTATATATTTA-AAAAATAATAATTAATTAAAATTTTATGTTACTTATTTAATTATTTAC
* * * * *
10375771 ATTTTAATAATATTTCCATATGGTTGTTTTTACATTTCAATAAGTTTAGAATTATCATAACTCTT
65 ATTATAATAATATTT-CTTATAGTTGTTTTTACATTTCATTAAGTTTAAAATTATCATAACTCTT
* * * * * * *
10375836 TTTTAA-TGTGTTATGACACTTTTTACCCATTTTATGC-AAATGATACGAATTTTACACTTATTC
129 TCTTAAGTGTGTTATAACACTTTTTACCCATTCTATACTAAATAATACAAATTTTACAATTATTC
* *
10375899 TCACTTATTCACGTTACC-AATT-TGTTTTTTAAATTTTATTT
194 TCAATTATTCACGTTACCTAATTATGTTTTTTAAATTTTAGTT
* * *
10375940 ATTTTTCTTATATATTTTAAAAAATAATAATTAATTAAAATTTAATGTTGCTTACTTAATTATTT
1 -TTTTT-TTATATA-TTTAAAAAATAATAATTAATTAAAATTTTATGTTACTTATTTAATTATTT
* * * * * * * * **
10376005 ACATTATAATAATATTTTCTTACAGTTATTCTTACATTCCATTATGTTTATAATTGTTATAGTTC
63 ACATTATAATAATA-TTTCTTATAGTTGTTTTTACATTTCATTAAGTTTAAAATTATCATAACTC
* * *
10376070 TTTCTTAATGTGTGTTATAACACTTTTTACTCATTCTATACTAAATAATACAAATTTTATAATTT
127 TTTCTTAA-GTGTGTTATAACACTTTTTACCCATTCTATACTAAATAATACAAATTTTACAATTA
* * * * *
10376135 TTCTCAATTGTTTACGTTACCTATTTATTTTTTTTAATTTTTAGTT
191 TTCTCAATTATTCACGTTACCTAATTATGTTTTTTAAATTTTAGTT
* * * *
10376181 TTTTTTTATATATTTAGAAAATAATAATTAAATAAAATTTT-TAGTTAGTTATTTAATTATTTAT
1 TTTTTTTATATATTTAAAAAATAATAATTAATTAAAATTTTAT-GTTACTTATTTAATTATTTAC
* * * *
10376245 GTTACAATAATATATTCTTATAGTTGTTTTTACTTTTTATTAAGTTTAAAATT
65 ATTATAATAATAT-TTCTTATAGTTGTTTTTACATTTCATTAAGTTTAAAATT
10376298 TTTATTACTT
Statistics
Matches: 290, Mismatches: 57, Indels: 17
0.80 0.16 0.05
Matches are distributed among these distances:
235 5 0.02
236 98 0.34
237 9 0.03
238 111 0.38
239 43 0.15
240 8 0.03
241 16 0.06
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (236 bp):
TTTTTTTATATATTTAAAAAATAATAATTAATTAAAATTTTATGTTACTTATTTAATTATTTACA
TTATAATAATATTTCTTATAGTTGTTTTTACATTTCATTAAGTTTAAAATTATCATAACTCTTTC
TTAAGTGTGTTATAACACTTTTTACCCATTCTATACTAAATAATACAAATTTTACAATTATTCTC
AATTATTCACGTTACCTAATTATGTTTTTTAAATTTTAGTT
Found at i:10376196 original size:19 final size:18
Alignment explanation
Indices: 10376162--10376197 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10376152 TACCTATTTA
*
10376162 TTTTTTTTAATTTTTAGT
1 TTTTTTTTAATATTTAGT
10376180 TTTTTTTTATATATTTAG
1 TTTTTTTTA-ATATTTAG
10376198 AAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTTTTTAATATTTAGT
Found at i:10376239 original size:238 final size:234
Alignment explanation
Indices: 10375705--10376269 Score: 596
Period size: 236 Copynumber: 2.4 Consensus size: 234
10375695 TATTTATTGG
** * * ***
10375705 ATTTTTTTATATATTTACATGAACAACAATTAATTAAAATTTTATGTTACCAATTTAATTATTTA
1 ATTTTTTTATATATTTA-AAAAATAATAATTAATTAAAATTTTATGTTAGTTATTTAATTATTTA
* * * * * * *
10375770 CATTTTAATAATATTTCCATATGGTTGTTTTTACATTTCAATAAGTTTAGAATTATCATAACTCT
65 CATTATAATAATATTTTCTTATAGTTATTCTTACATTCCAATAAGTTTAGAATTATCATAACTCT
* * * * * * *
10375835 TTTTTAATGTGTTATGACACTTTTTACCCATTTTATGCAAATGATACGAATTTTACACTTATTCT
130 TTCTTAATGTGTTATAACACTTTTTACCCATTCTATACAAATAATACAAATTTTACAATTATTCT
* *
10375900 CACTTATTCACGTTACCAATTTGTTTTTTAAATTTTATTT
195 CAATTATTCACGTTACCAATTTGTTTTTTAAATTTTAGTT
* *
10375940 ATTTTTCTTATATATTTTAAAAAATAATAATTAATTAAAATTTAATGTT-GCTTACTTAATTATT
1 ATTTTT-TTATATA-TTTAAAAAATAATAATTAATTAAAATTTTATGTTAG-TTATTTAATTATT
* * * * * * **
10376004 TACATTATAATAATATTTTCTTACAGTTATTCTTACATTCCATTATGTTTATAATTGTTATAGTT
63 TACATTATAATAATATTTTCTTATAGTTATTCTTACATTCCAATAAGTTTAGAATTATCATAACT
* *
10376069 CTTTCTTAATGTGTGTTATAACACTTTTTACTCATTCTATACTAAATAATACAAATTTTATAATT
128 CTTTCTTAA--TGTGTTATAACACTTTTTACCCATTCTATAC-AAATAATACAAATTTTACAATT
* * * * * *
10376134 TTTCTCAATTGTTTACGTTACCTATTTATTTTTTTTAATTTTTAGTT
190 ATTCTCAATTATTCACGTTACC-AATT-TGTTTTTTAAATTTTAGTT
* *
10376181 -TTTTTTTATATATTTAGAAAATAATAATTAAATAAAATTTT-TAGTTAGTTATTTAATTATTTA
1 ATTTTTTTATATATTTAAAAAATAATAATTAATTAAAATTTTAT-GTTAGTTATTTAATTATTTA
** * *
10376244 TGTTACAATAATATATTCTTATAGTT
65 CATTATAATAATATTTTCTTATAGTT
10376270 GTTTTTACTT
Statistics
Matches: 270, Mismatches: 50, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
235 6 0.02
236 100 0.37
237 5 0.02
238 91 0.34
239 44 0.16
240 8 0.03
241 16 0.06
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.52
Consensus pattern (234 bp):
ATTTTTTTATATATTTAAAAAATAATAATTAATTAAAATTTTATGTTAGTTATTTAATTATTTAC
ATTATAATAATATTTTCTTATAGTTATTCTTACATTCCAATAAGTTTAGAATTATCATAACTCTT
TCTTAATGTGTTATAACACTTTTTACCCATTCTATACAAATAATACAAATTTTACAATTATTCTC
AATTATTCACGTTACCAATTTGTTTTTTAAATTTTAGTT
Found at i:10381989 original size:125 final size:124
Alignment explanation
Indices: 10381775--10382002 Score: 296
Period size: 125 Copynumber: 1.8 Consensus size: 124
10381765 AAATAAATGG
* * **
10381775 ATTATTTAAGGTATTTTTGAATAAAAAATACCTTAAATAATTCCTGTTAAAAAATATTATGAAAT
1 ATTATTTAAAGTATTTTTGAAGAAAAAATACCTTAAATAATTCCTGTTAAAAAATA-TAAAAAAT
*
10381840 TATTTAAGGCGTTTTGGACAAAAAATACCTTAAATAATGTTGATATATTTGTTAAAGAAA
65 TATTTAAGACGTTTTGGACAAAAAATACCTTAAATAATGTTGATATATTTGTTAAAGAAA
* * ** *
10381900 ATTATTTAAAGTATTTTTTAAGCAAAAATACCTTAAATAATTTTTTTTAAAAAATA-AAAAAATT
1 ATTATTTAAAGTATTTTTGAAGAAAAAATACCTTAAATAATTCCTGTTAAAAAATATAAAAAATT
* ** *
10381964 ATTTAATACGTTTTTTTATCTAAAAATACCTTAAATAAT
66 ATTTAAGACG-TTTTGGA-CAAAAAATACCTTAAATAAT
10382003 CATATTTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
123 14 0.16
124 5 0.06
125 68 0.78
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (124 bp):
ATTATTTAAAGTATTTTTGAAGAAAAAATACCTTAAATAATTCCTGTTAAAAAATATAAAAAATT
ATTTAAGACGTTTTGGACAAAAAATACCTTAAATAATGTTGATATATTTGTTAAAGAAA
Found at i:10382000 original size:62 final size:62
Alignment explanation
Indices: 10381892--10382016 Score: 166
Period size: 62 Copynumber: 2.0 Consensus size: 62
10381882 ATATATTTGT
** *
10381892 TAAAGAAAATTATTTAAAGTATTTTTTAAGCAAAAATACCTTAAATAATTTTTTTTAAAAAA
1 TAAAGAAAATTATTTAAAGTATTTTTTAAGCAAAAATACCTTAAATAATCATATTTAAAAAA
*
10381954 TAAA-AAAATTATTTAATACGT-TTTTTT-ATCTAAAAATACCTTAAATAATCATATTTAAAAAA
1 TAAAGAAAATTATTTAA-A-GTATTTTTTAAGC-AAAAATACCTTAAATAATCATATTTAAAAAA
10382016 T
1 T
10382017 GATGGATTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
61 14 0.25
62 40 0.71
63 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (62 bp):
TAAAGAAAATTATTTAAAGTATTTTTTAAGCAAAAATACCTTAAATAATCATATTTAAAAAA
Found at i:10391804 original size:63 final size:61
Alignment explanation
Indices: 10391705--10391847 Score: 155
Period size: 63 Copynumber: 2.3 Consensus size: 61
10391695 AAATTAGAGT
* *
10391705 GATTATTGAATGCATTTTTGACAGAAAATACCTTGAA-TAGTTCC-CTCATAAAAAATGGATAGG
1 GATTATTGAAGGCA-TTTTGACAGAAAACACCTTGAATTA--TCCTCTCATAAAAAAT-GA-AGG
*
10391768 G
61 C
* * *
10391769 GATTATTGAAGGCATTTTGGCAGATAACGCCTTGAATTATCCTCTCATAAAAAATGAAGGC
1 GATTATTGAAGGCATTTTGACAGAAAACACCTTGAATTATCCTCTCATAAAAAATGAAGGC
* *
10391830 AATTATTGAAGGAATTTT
1 GATTATTGAAGGCATTTT
10391848 CTGCGAAAGG
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
61 19 0.28
62 5 0.07
63 30 0.43
64 15 0.22
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (61 bp):
GATTATTGAAGGCATTTTGACAGAAAACACCTTGAATTATCCTCTCATAAAAAATGAAGGC
Found at i:10391990 original size:19 final size:19
Alignment explanation
Indices: 10391966--10392004 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
10391956 TATTGAAGGG
10391966 ATAGTTGGCCTAAAATAAT
1 ATAGTTGGCCTAAAATAAT
*
10391985 ATAGTTTGCCTAAAATAAT
1 ATAGTTGGCCTAAAATAAT
10392004 A
1 A
10392005 CCATTCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (19 bp):
ATAGTTGGCCTAAAATAAT
Found at i:10396191 original size:22 final size:22
Alignment explanation
Indices: 10396135--10396191 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
10396125 TTAAGATTTG
*
10396135 TAAGACCTCTAGGCATAAGCTT
1 TAAGACCTCTGGGCATAAGCTT
* *
10396157 TAAGACCTGTGGGCATAA-TTT
1 TAAGACCTCTGGGCATAAGCTT
10396178 TCAAGACCTCTGGG
1 T-AAGACCTCTGGG
10396192 TAAAACATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (22 bp):
TAAGACCTCTGGGCATAAGCTT
Found at i:10396287 original size:125 final size:126
Alignment explanation
Indices: 10395946--10396289 Score: 408
Period size: 126 Copynumber: 2.7 Consensus size: 126
10395936 TTCGAGCAAA
* * * *
10395946 ATTTTAAATTTTTAAAGTTTTAATGCCTTTAATTGGAGGAGCATTCAAAGATTTTGAGATTTGTA
1 ATTTTAAATTTTTAAAGTTTCAATGCCTCTGATTGGAGGAGCATTCAAAGATTTTAAGATTTGTA
* * * * * *
10396011 AAACCTCCGCACATAATCTCTAAGACTTCTATGCATAATTTTCAAGACTTTCGGGTAAAAT
66 AAACCTCTGAACATAATCTCTAAGACCTCTAGGCATAATTTTCAAGACTCTCGGGTAAAAC
*
10396072 ATTTTAAATTTTTAAAGTTTTCAAT-CCTCTGATTGGAGGAGCATTCTAAGATTTTAAGATTTGT
1 ATTTTAAATTTTTAAAG-TTTCAATGCCTCTGATTGGAGGAGCATTCAAAGATTTTAAGATTTGT
* * * * * *
10396136 AAGACCTCT-AGGCATAAGCTTTAAGACCTGTGGGCATAATTTTCAAGAC-CTCTGGGTAAAAC
65 AAAACCTCTGA-ACATAATCTCTAAGACCTCTAGGCATAATTTTCAAGACTCTC-GGGTAAAAC
* * * *
10396198 A-TTTAAAATTTTAAAGTTTCAATGCCTCTGATTGAAAGAGCATTCAAAGATTTTAAGTTTTGTA
1 ATTTTAAATTTTTAAAGTTTCAATGCCTCTGATTGGAGGAGCATTCAAAGATTTTAAGATTTGTA
* * * *
10396262 AAACTTTTGAATATAATCTCCAAGACCT
66 AAACCTCTGAACATAATCTCTAAGACCT
10396290 TCAAACATAA
Statistics
Matches: 183, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
124 7 0.04
125 70 0.38
126 100 0.55
127 6 0.03
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (126 bp):
ATTTTAAATTTTTAAAGTTTCAATGCCTCTGATTGGAGGAGCATTCAAAGATTTTAAGATTTGTA
AAACCTCTGAACATAATCTCTAAGACCTCTAGGCATAATTTTCAAGACTCTCGGGTAAAAC
Found at i:10396309 original size:125 final size:127
Alignment explanation
Indices: 10395908--10396300 Score: 403
Period size: 126 Copynumber: 3.1 Consensus size: 127
10395898 AAAGATTTGA
* * * * *
10395908 AAGACCTTTAAGCATAA-TTTCTAAAACCT-TCGAG-CAAA-ATTTTAAATTTTTAAAGTTTTAA
1 AAGACCTTCAAGCATAATTTTC-AAGACCTCTCGGGTAAAACATTTTAAATTTTTAAAGTTTCAA
* * * * *
10395969 TGCCTTTAATTGGAGGAGCATTCAAAGATTTTGAGATTTGTAAAACCTCCGCACATAATCTCT
65 TGCCTCTGATTGGAGGAGCATTCAAAGATTTTAAGATTTGTAAAACCTCTGAACATAATCTCT
* * *
10396032 AAGA-CTTCTATGCATAATTTTCAAGA-CTTTCGGGTAAAATATTTTAAATTTTTAAAGTTTTCA
1 AAGACCTTC-AAGCATAATTTTCAAGACCTCTCGGGTAAAACATTTTAAATTTTTAAAG-TTTCA
* * * * *
10396095 AT-CCTCTGATTGGAGGAGCATTCTAAGATTTTAAGATTTGTAAGACCTCT-AGGCATAAGCTTT
64 ATGCCTCTGATTGGAGGAGCATTCAAAGATTTTAAGATTTGTAAAACCTCTGA-ACATAATCTCT
** *
10396158 AAGACCTGT-GGGCATAATTTTCAAGACCTCT-GGGTAAAACA-TTTAAAATTTTAAAGTTTCAA
1 AAGACCT-TCAAGCATAATTTTCAAGACCTCTCGGGTAAAACATTTTAAATTTTTAAAGTTTCAA
* * * * * * *
10396220 TGCCTCTGATTGAAAGAGCATTCAAAGATTTTAAGTTTTGTAAAACTTTTGAATATAATCTCC
65 TGCCTCTGATTGGAGGAGCATTCAAAGATTTTAAGATTTGTAAAACCTCTGAACATAATCTCT
*
10396283 AAGACCTTCAAACATAAT
1 AAGACCTTCAAGCATAAT
10396301 CTCTAAGACT
Statistics
Matches: 220, Mismatches: 36, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
123 5 0.02
124 26 0.12
125 81 0.37
126 96 0.44
127 11 0.05
128 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (127 bp):
AAGACCTTCAAGCATAATTTTCAAGACCTCTCGGGTAAAACATTTTAAATTTTTAAAGTTTCAAT
GCCTCTGATTGGAGGAGCATTCAAAGATTTTAAGATTTGTAAAACCTCTGAACATAATCTCT
Found at i:10396314 original size:21 final size:22
Alignment explanation
Indices: 10396274--10396314 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10396264 ACTTTTGAAT
10396274 ATAATCTCCAAGACCTTCAAAC
1 ATAATCTCCAAGACCTTCAAAC
*
10396296 ATAATCTCTAAGA-CTTCAA
1 ATAATCTCCAAGACCTTCAA
10396315 GGCAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (22 bp):
ATAATCTCCAAGACCTTCAAAC
Found at i:10396563 original size:20 final size:20
Alignment explanation
Indices: 10396513--10396552 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
10396503 CATTATCCGA
10396513 ATAAAATTATTGTCTATGTC
1 ATAAAATTATTGTCTATGTC
10396533 ATAAAATTATTGTCTATGTC
1 ATAAAATTATTGTCTATGTC
10396553 TTTGCATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (20 bp):
ATAAAATTATTGTCTATGTC
Found at i:10397377 original size:144 final size:146
Alignment explanation
Indices: 10397058--10397389 Score: 411
Period size: 145 Copynumber: 2.3 Consensus size: 146
10397048 GAATTTTTGT
* * *
10397058 AAAATTTTTCATATCTTAATTTCATAATGTTTCATGATTTTT-GTGTATTTGAAATCATAGCAGT
1 AAAA-TTTTCATATCTTAATTTCATAATATTTCATGATTTTTGGTGAATTTGAAATCATAACAGT
* * * *
10397122 ACCTCGAAAAATATAAAATTACCAAAATACCCCCTATAAGGGTATTTTCATAATTTGACTTTTTT
65 ACCTCGAAAAATATAAAACTACCAAAATACCCCCTATAAAGGTATTTTCATAATTTAACTCTTTT
*
10397187 TAACTCAGATTTTCATG
130 GAACTCAGATTTTCATG
10397204 AAAATTTTCATATCTTAATTTCATAATATTTCATGATTTTTGGTGAATTTGAAATCATAACAGTA
1 AAAATTTTCATATCTTAATTTCATAATATTTCATGATTTTTGGTGAATTTGAAATCATAACAGTA
* * * * * **
10397269 CCTC-AAGGAGTGTGAAACTACTAAAATA-CCCCTATAAAGGTATTTTTGTAATTTAAC-CTTTT
66 CCTCGAA-AAATATAAAACTACCAAAATACCCCCTATAAAGGTATTTTCATAATTTAACTCTTTT
* * **
10397331 GGAGTTTGATTTTCATG
130 GAACTCAGATTTTCATG
* * * *
10397348 AAACTTTTCATATCTCAATTTTATAATATTTCATAATTTTTG
1 AAAATTTTCATATCTTAATTTCATAATATTTCATGATTTTTG
10397390 ATGTTTTAAA
Statistics
Matches: 161, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
144 54 0.34
145 63 0.39
146 44 0.27
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (146 bp):
AAAATTTTCATATCTTAATTTCATAATATTTCATGATTTTTGGTGAATTTGAAATCATAACAGTA
CCTCGAAAAATATAAAACTACCAAAATACCCCCTATAAAGGTATTTTCATAATTTAACTCTTTTG
AACTCAGATTTTCATG
Found at i:10399486 original size:21 final size:22
Alignment explanation
Indices: 10399447--10399487 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10399437 TTTAACTTGA
* *
10399447 ATAATTTTTCTTAATAAATAGG
1 ATAATGTTTCTTAAGAAATAGG
10399469 ATAATGTTT-TTAAGAAATA
1 ATAATGTTTCTTAAGAAATA
10399488 AATGTGCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (22 bp):
ATAATGTTTCTTAAGAAATAGG
Found at i:10400958 original size:17 final size:17
Alignment explanation
Indices: 10400936--10400970 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10400926 ACCCATATTT
10400936 TATAACTTTTTTTTAAA
1 TATAACTTTTTTTTAAA
10400953 TATAACTTTTTTTTAAA
1 TATAACTTTTTTTTAAA
10400970 T
1 T
10400971 GAAATTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TATAACTTTTTTTTAAA
Found at i:10402854 original size:4 final size:4
Alignment explanation
Indices: 10402845--10402870 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10402835 AAATAATTGA
10402845 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
10402871 CCCTAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:10404501 original size:45 final size:46
Alignment explanation
Indices: 10404434--10404524 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
10404424 CAACATGATC
*
10404434 AATTAATTTTGCTCTTTGATTT-AACATAACTCAATATTAAATTAA
1 AATTAATTTCGCTCTTTGATTTAAACATAACTCAATATTAAATTAA
*
10404479 AATTAATTTCGCT-TTTATATTTAAACATAACTCAATATTAAATTAA
1 AATTAATTTCGCTCTTT-GATTTAAACATAACTCAATATTAAATTAA
10404525 TGCACTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
44 3 0.07
45 16 0.38
46 23 0.55
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (46 bp):
AATTAATTTCGCTCTTTGATTTAAACATAACTCAATATTAAATTAA
Found at i:10404799 original size:30 final size:29
Alignment explanation
Indices: 10404740--10404799 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
10404730 TTACAGGAAA
* * * *
10404740 TTTAAATTTATTTTTTATTTCTTAAATTT
1 TTTAAATGTAGTTTTCATTTCTAAAATTT
10404769 TTTAAATGTAGTTTTCATTTCTCAAAATTT
1 TTTAAATGTAGTTTTCATTTCT-AAAATTT
10404799 T
1 T
10404800 CAATTAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTAAATGTAGTTTTCATTTCTAAAATTT
Found at i:10408139 original size:37 final size:37
Alignment explanation
Indices: 10408093--10408171 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
10408083 TTTATTTAAT
* * *
10408093 TTTATATTTATATATATTTA-TTAATAAAATTATTATA
1 TTTATATTTA-AGATATTAATTTAATAAAAATATTATA
10408130 CTTTA-ATTTAAGATATTAATTTAATAAAAATATTATA
1 -TTTATATTTAAGATATTAATTTAATAAAAATATTATA
10408167 TTTAT
1 TTTAT
10408172 GTAGAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 11 0.31
37 21 0.58
38 4 0.11
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (37 bp):
TTTATATTTAAGATATTAATTTAATAAAAATATTATA
Found at i:10408169 original size:18 final size:18
Alignment explanation
Indices: 10408113--10408170 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
10408103 TATATATTTA
*
10408113 TTAATAAAATTATTATACT
1 TTAATAAAAATATTATA-T
* *
10408132 TTAATTTAAGATATTA-AT
1 TTAA-TAAAAATATTATAT
10408150 TTAATAAAAATATTATAT
1 TTAATAAAAATATTATAT
10408168 TTA
1 TTA
10408171 TGTAGAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 9 0.28
18 10 0.31
19 5 0.16
20 8 0.25
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TTAATAAAAATATTATAT
Found at i:10409169 original size:2 final size:2
Alignment explanation
Indices: 10409162--10409196 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
10409152 GATCACTTAT
*
10409162 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10409197 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10409201 original size:2 final size:2
Alignment explanation
Indices: 10409196--10409238 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
10409186 TATATATATA
*
10409196 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10409238 T
1 T
10409239 TAAACTGAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:10409738 original size:2 final size:2
Alignment explanation
Indices: 10409733--10409762 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10409723 TCATTGTTTT
10409733 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10409763 TGTATATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10410097 original size:2 final size:2
Alignment explanation
Indices: 10410090--10410125 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10410080 ATAGAAACTA
10410090 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10410126 CTTGGAGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10411200 original size:293 final size:292
Alignment explanation
Indices: 10410647--10411221 Score: 884
Period size: 292 Copynumber: 2.0 Consensus size: 292
10410637 GGGTCACTAT
* * * * *
10410647 ACATATCCATAATGATCATTTTAATCTTTTCTAATCTTATAAGGTGTTTAACCATTTTGAGACTC
1 ACATATCCATAAGGACCATTTCAATCTTTTCTAATCTTATAAGGTGTCTAACCATTTTAAGACTC
*
10410712 CATTATTTATAAACAATAATAACTTGCTTATAAAAAATTTAAAATCTTTCCTTTTAAAATTTTTT
66 CACTATTTATAAACAATAATAACTTGCTTATAAAAAATTTAAAATCTTTCCTTTTAAAATTTTTT
*
10410777 ATATTTTTGCATTCATCCAACAATATTCGATTTATTTCAAAAAAAATCATGAATAAATTTTTTAT
131 ATATTTTTGCATTCATCCAACAATACTCGATTTATTTCAAAAAAAATCATGAATAAATTTTTTAT
* * *
10410842 AGGATTTGAGTTTCTTTTATAAACACATAACACATGTAGTATGTAGCCTAAACATTATGAAATAC
196 AGGATTTGAGTTACTATTATAAACACATAACACATGTAGGATGTAGCCTAAACATTATGAAATAC
10410907 AATTCATATCGAGAATGGTAGGACACTCAAAC
261 AATTCATATCGAGAATGGTAGGACACTCAAAC
* * * * *
10410939 ACATATCTATAAGGACCATTTCAATCTTTTTTAGTCTTATAAGGTGTCTAATCATTTTAAGAGTC
1 ACATATCCATAAGGACCATTTCAATCTTTTCTAATCTTATAAGGTGTCTAACCATTTTAAGACTC
* * * *
10411004 CACTATTTATAAATAATAATAAGTTGCTTATAAAAAATTTTAAATCTTTCCTTTTAAATTTTTTT
66 CACTATTTATAAACAATAATAACTTGCTTATAAAAAATTTAAAATCTTTCCTTTTAAA--ATTTT
* * *
10411069 TTTTTTTTTTGCATTCATCCAGCAATACT-GAGTTTATTTC-AAAAAAATCATGAATAAATTTTT
129 TTATATTTTTGCATTCATCCAACAATACTCGA-TTTATTTCAAAAAAAATCATGAATAAATTTTT
* *
10411132 TTTAGGATTTGAGTTACTATTATATACACATAACACATGTAGGATGTAGCCTAAACATTATGAAA
193 TATAGGATTTGAGTTACTATTATAAACACATAACACATGTAGGATGTAGCCTAAACATTATGAAA
*
10411197 TACAATTCATATTGAGAATGGTAGG
258 TACAATTCATATCGAGAATGGTAGG
10411222 GCAAGTTATA
Statistics
Matches: 255, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
292 109 0.43
293 109 0.43
294 37 0.15
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.41
Consensus pattern (292 bp):
ACATATCCATAAGGACCATTTCAATCTTTTCTAATCTTATAAGGTGTCTAACCATTTTAAGACTC
CACTATTTATAAACAATAATAACTTGCTTATAAAAAATTTAAAATCTTTCCTTTTAAAATTTTTT
ATATTTTTGCATTCATCCAACAATACTCGATTTATTTCAAAAAAAATCATGAATAAATTTTTTAT
AGGATTTGAGTTACTATTATAAACACATAACACATGTAGGATGTAGCCTAAACATTATGAAATAC
AATTCATATCGAGAATGGTAGGACACTCAAAC
Found at i:10414048 original size:16 final size:16
Alignment explanation
Indices: 10414027--10414057 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10414017 ATGGATTGGA
10414027 ATAAATATATATATAG
1 ATAAATATATATATAG
10414043 ATAAATATATATATA
1 ATAAATATATATATA
10414058 AATCTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATAAATATATATATAG
Found at i:10416443 original size:16 final size:14
Alignment explanation
Indices: 10416418--10416459 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 14
10416408 TACTATTATC
10416418 ATTT-ATATTAATCA
1 ATTTAATATTAAT-A
10416432 ATTATAATATTAATA
1 ATT-TAATATTAATA
10416447 ATTTAA-ATTAATA
1 ATTTAATATTAATA
10416460 TATAAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 5 0.19
16 8 0.31
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTAATATTAATA
Found at i:10416471 original size:19 final size:20
Alignment explanation
Indices: 10416436--10416476 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
10416426 TAATCAATTA
*
10416436 TAATATTAATAATTTAA-AT
1 TAATATTAATAAGTTAATAT
10416455 TAATATATAA-AAGTTAATAT
1 TAATAT-TAATAAGTTAATAT
10416475 TA
1 TA
10416477 TTTTAATTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAATATTAATAAGTTAATAT
Found at i:10417076 original size:29 final size:30
Alignment explanation
Indices: 10417044--10417116 Score: 121
Period size: 29 Copynumber: 2.4 Consensus size: 30
10417034 GTATTAAAGG
10417044 GACTAAATTTTAAATTTCATG-AGTACAAA
1 GACTAAATTTTAAATTTCATGAAGTACAAA
*
10417073 GACTAAATTTCAAATTTCATGTAAGTACAAA
1 GACTAAATTTTAAATTTCATG-AAGTACAAA
10417104 GACTAAATTTTAA
1 GACTAAATTTTAA
10417117 GTTTTGTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 20 0.50
31 20 0.50
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (30 bp):
GACTAAATTTTAAATTTCATGAAGTACAAA
Found at i:10417224 original size:19 final size:19
Alignment explanation
Indices: 10417177--10417225 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
10417167 TAATTCTAAT
* * *
10417177 TATCACGTCATCAAGTCGA
1 TATCACATCAGCAAGTCAA
10417196 TATCACATCAGCAAGTCAA
1 TATCACATCAGCAAGTCAA
* *
10417215 TGTCATATCAG
1 TATCACATCAG
10417226 TAAAGTCAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (19 bp):
TATCACATCAGCAAGTCAA
Found at i:10417694 original size:5 final size:5
Alignment explanation
Indices: 10417684--10417712 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10417674 TAATTTTTAT
10417684 ATATA ATATA ATATA ATATA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATAT
10417713 TTTATATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:10427059 original size:32 final size:31
Alignment explanation
Indices: 10427023--10427083 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
10427013 TTTATAACGT
*
10427023 TGTAATTATTTATTATATATAAAAATATTTTG
1 TGTAATTAATTA-TATATATAAAAATATTTTG
* *
10427055 TGTAATTAATTATATGTATAAATATATTT
1 TGTAATTAATTATATATATAAAAATATTT
10427084 ATTTGTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (31 bp):
TGTAATTAATTATATATATAAAAATATTTTG
Found at i:10428878 original size:24 final size:24
Alignment explanation
Indices: 10428829--10428880 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
10428819 AAATTTTAAG
*
10428829 ATTTTTTTTCAAATTTTTGAGCAA
1 ATTTTTTTTCAAATTTTTGAGAAA
* *
10428853 ATTTTTTTTGAGAATTTTTTA-AAA
1 ATTTTTTTTCA-AATTTTTGAGAAA
10428877 ATTT
1 ATTT
10428881 CAGATTCCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.58
Consensus pattern (24 bp):
ATTTTTTTTCAAATTTTTGAGAAA
Done.