Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 29 of 147
Found at i:5952992 original size:11 final size:11
Alignment explanation
Indices: 5952976--5953012 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
5952966 AATATATTTT
5952976 TATTTATAAAA
1 TATTTATAAAA
5952987 TATTTATAAAA
1 TATTTATAAAA
5952998 TATTTATAAAA
1 TATTTATAAAA
5953009 TATT
1 TATT
5953013 ACATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTTATAAAA
Found at i:5953022 original size:22 final size:22
Alignment explanation
Indices: 5952976--5953019 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5952966 AATATATTTT
*
5952976 TATTTATAAAATATTTATAAAA
1 TATTTATAAAATATTCATAAAA
5952998 TATTTATAAAATATTACATAAA
1 TATTTATAAAATATT-CATAAA
5953020 TATGTAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TATTTATAAAATATTCATAAAA
Found at i:5953186 original size:13 final size:13
Alignment explanation
Indices: 5953170--5953202 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
5953160 ATAAATATAT
*
5953170 ATAAAAAATTAAA
1 ATAAAAAACTAAA
5953183 AT-AAAAACTAAA
1 ATAAAAAACTAAA
5953195 ATAAAAAA
1 ATAAAAAA
5953203 AATTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
ATAAAAAACTAAA
Found at i:5953777 original size:35 final size:35
Alignment explanation
Indices: 5953738--5953810 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
5953728 TTTTTTGGTT
5953738 TTCAAGCTTATAATTTGATGGACATTATCACAAAC
1 TTCAAGCTTATAATTTGATGGACATTATCACAAAC
*
5953773 TTCAAGCTTATAATTTGATGTACATTATCACAAAC
1 TTCAAGCTTATAATTTGATGGACATTATCACAAAC
5953808 TTC
1 TTC
5953811 GTCAGCCTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.37
Consensus pattern (35 bp):
TTCAAGCTTATAATTTGATGGACATTATCACAAAC
Found at i:5955000 original size:2 final size:2
Alignment explanation
Indices: 5954993--5955018 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5954983 GTCCCATTAC
5954993 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5955019 ACTGTTGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5957808 original size:22 final size:24
Alignment explanation
Indices: 5957771--5957814 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
5957761 TATTTTTTTT
*
5957771 ATTTTTATATATTATTTTAATAAA
1 ATTTTTATATATTATTTAAATAAA
5957795 ATTTTTA-ATA-TATTTAAATA
1 ATTTTTATATATTATTTAAATA
5957815 TATTTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 3 0.16
24 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTATATATTATTTAAATAAA
Found at i:5957862 original size:9 final size:10
Alignment explanation
Indices: 5957843--5957888 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
5957833 TTATTTTTAT
5957843 TTTATAAAAA
1 TTTATAAAAA
5957853 TTTA-AAAAA
1 TTTATAAAAA
*
5957862 TATATAAAAA
1 TTTATAAAAA
*
5957872 TTAATAAAAA
1 TTTATAAAAA
*
5957882 TATATAA
1 TTTATAA
5957889 TTCGATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:5957871 original size:20 final size:20
Alignment explanation
Indices: 5957845--5957888 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
5957835 ATTTTTATTT
*
5957845 TATAAAAATTTA-AAAAATA
1 TATAAAAATTAATAAAAATA
5957864 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
5957884 TATAA
1 TATAA
5957889 TTCGATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:5957941 original size:2 final size:2
Alignment explanation
Indices: 5957934--5957964 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
5957924 TTCAAATTTA
5957934 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5957965 CTTACATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5972970 original size:19 final size:18
Alignment explanation
Indices: 5972943--5972981 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
5972933 ATCGTAAAGT
*
5972943 TTAAAAATTTAAAAATAAA
1 TTAAAAA-TTAAAAAAAAA
*
5972962 TTAACAATTAAAAAAAAA
1 TTAAAAATTAAAAAAAAA
5972980 TT
1 TT
5972982 CAAATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAATTAAAAAAAAA
Found at i:5973935 original size:20 final size:19
Alignment explanation
Indices: 5973910--5973953 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
5973900 TCGAATCAAA
*
5973910 TTATATATTTTTATTAATTT
1 TTATATATTTTT-TAAATTT
5973930 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
5973949 TTATA
1 TTATA
5973954 AAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:5973957 original size:11 final size:10
Alignment explanation
Indices: 5973910--5973955 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
5973900 TCGAATCAAA
*
5973910 TTATATATTT
1 TTATAAATTT
*
5973920 TTATTAATTT
1 TTATAAATTT
*
5973930 TTATATATTT
1 TTATAAATTT
5973940 TT-TAAATTT
1 TTATAAATTT
5973949 TTATAAA
1 TTATAAA
5973956 ATAAAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATAAATTT
Found at i:5974020 original size:13 final size:13
Alignment explanation
Indices: 5973984--5974029 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
5973974 AACTAAAACT
5973984 AAATAAATATATTA
1 AAAT-AATATATTA
**
5973998 AAATTTTATATTA
1 AAATAATATATTA
*
5974011 AAATAATATATAA
1 AAATAATATATTA
5974024 AAATAA
1 AAATAA
5974030 AAACAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 23 0.85
14 4 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATAATATATTA
Found at i:5974090 original size:19 final size:20
Alignment explanation
Indices: 5974066--5974106 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
5974056 TAAAAACTGG
5974066 TAAAAC-TGAATTGAATC-CA
1 TAAAACTTG-ATTGAATCTCA
5974085 TAAAACTTGATTGAATCTCA
1 TAAAACTTGATTGAATCTCA
5974105 TA
1 TA
5974107 TAAAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (20 bp):
TAAAACTTGATTGAATCTCA
Found at i:5977861 original size:13 final size:15
Alignment explanation
Indices: 5977828--5977864 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
5977818 TTCTTAATCC
5977828 AAATTTAATATATAT
1 AAATTTAATATATAT
*
5977843 ATATTTAATAT-T-T
1 AAATTTAATATATAT
5977856 AAATTTAAT
1 AAATTTAAT
5977865 TCAAATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 9 0.45
14 1 0.05
15 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AAATTTAATATATAT
Found at i:5980684 original size:18 final size:19
Alignment explanation
Indices: 5980660--5980703 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
5980650 GGGTTTCGAA
*
5980660 TTATATATTTTTATTAATTT
1 TTATATATTTTT-TAAATTT
5980680 TTATATATTTTTTAAATTT
1 TTATATATTTTTTAAATTT
5980699 TTATA
1 TTATA
5980704 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTTTAAATTT
Found at i:5980707 original size:11 final size:10
Alignment explanation
Indices: 5980660--5980705 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
5980650 GGGTTTCGAA
*
5980660 TTATATATTT
1 TTATAAATTT
*
5980670 TTATTAATTT
1 TTATAAATTT
*
5980680 TTATATATTT
1 TTATAAATTT
5980690 TT-TAAATTT
1 TTATAAATTT
5980699 TTATAAA
1 TTATAAA
5980706 ATAAAAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTATAAATTT
Found at i:5982244 original size:136 final size:135
Alignment explanation
Indices: 5982001--5982267 Score: 378
Period size: 136 Copynumber: 2.0 Consensus size: 135
5981991 AGTTTGATAA
*
5982001 TGCATTTAGCTATGTTTCAATAATTTGTTTTTCACATTGCTGAAATTTGGAATCTTAAGGGTCAT
1 TGCATTTAGCTATGTTTCAATAATTTGTTTTTCACATTGCTGAAATTTGGAATCCTAAGGGTCAT
* * * ** *
5982066 TGATTTCTTGTTTTTGGTAGTTTCACTCATTACCCTGCTTTCTTTTTCTGACATAAACCTCAAGT
66 TCAATTCGTGTTTTCAGTAGTTTCACACATTACCCTGCTTTCTTTTTCTGACATAAACCTCAAGT
5982131 TATAG
131 TATAG
*
5982136 TGCATTTAGCTATGTTTCAATATTTTGTTTTTTCACATTGCTGAAATTTGGAATCCT-AGTGGTC
1 TGCATTTAGCTATGTTTCAATAATTTG-TTTTTCACATTGCTGAAATTTGGAATCCTAAG-GGTC
** *
5982200 A-TCAATTCGTGTTTGTCAGTAGTTTTGCACATTACCCCT-CTTTCTTTTTGTGACATAAACCTC
64 ATTCAATTCGTGTTT-TCAGTAGTTTCACACATTA-CCCTGCTTTCTTTTTCTGACATAAACCTC
5982263 AAGTT
127 AAGTT
5982268 GTTTCAAGCT
Statistics
Matches: 117, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
135 38 0.32
136 75 0.64
137 4 0.03
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.45
Consensus pattern (135 bp):
TGCATTTAGCTATGTTTCAATAATTTGTTTTTCACATTGCTGAAATTTGGAATCCTAAGGGTCAT
TCAATTCGTGTTTTCAGTAGTTTCACACATTACCCTGCTTTCTTTTTCTGACATAAACCTCAAGT
TATAG
Found at i:5991158 original size:11 final size:12
Alignment explanation
Indices: 5991139--5991204 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 12
5991129 TGATACGGTG
*
5991139 ATATGATAT-AA
1 ATATTATATAAA
5991150 ATATTATATAAA
1 ATATTATATAAA
*
5991162 ATATTA-AAAAA
1 ATATTATATAAA
* *
5991173 ATATAATGTAAA
1 ATATTATATAAA
* *
5991185 ATTTTA-ATAAT
1 ATATTATATAAA
5991196 A-ATTATATA
1 ATATTATATA
5991205 TGGATATAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
10 3 0.07
11 24 0.57
12 15 0.36
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
ATATTATATAAA
Found at i:5991174 original size:23 final size:23
Alignment explanation
Indices: 5991148--5991204 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
5991138 GATATGATAT
5991148 AAATATTATATAAAATATTAAAA
1 AAATATTATATAAAATATTAAAA
* * * *
5991171 AAATATAATGTAAAATTTTAATA
1 AAATATTATATAAAATATTAAAA
*
5991194 ATA-ATTATATA
1 AAATATTATATA
5991205 TGGATATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATATTATATAAAATATTAAAA
Found at i:5992177 original size:20 final size:23
Alignment explanation
Indices: 5992135--5992183 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
5992125 GGTAAATTCG
*
5992135 ATAAATGTTATATATATTATAAA
1 ATAAATGTTAAATATATTATAAA
*
5992158 ATAAAT-TTAAATATATTAAAAA
1 ATAAATGTTAAATATATTATAAA
5992180 ATAA
1 ATAA
5992184 TAAATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
ATAAATGTTAAATATATTATAAA
Found at i:5992218 original size:21 final size:21
Alignment explanation
Indices: 5992192--5992250 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
5992182 AATAAATTAA
5992192 TAAATTAATTTTTAAAAAAAT
1 TAAATTAATTTTTAAAAAAAT
* ***
5992213 TAAATTGA-TTTTAGTTAAAT
1 TAAATTAATTTTTAAAAAAAT
*
5992233 TCAGATTAATTTTTAAAA
1 T-AAATTAATTTTTAAAA
5992251 TTAAAATAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 3
0.69 0.23 0.08
Matches are distributed among these distances:
20 10 0.37
21 12 0.44
22 5 0.19
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
TAAATTAATTTTTAAAAAAAT
Found at i:5992731 original size:27 final size:27
Alignment explanation
Indices: 5992636--5992731 Score: 74
Period size: 27 Copynumber: 3.5 Consensus size: 27
5992626 TAAATTGAAT
5992636 TTAATTC--ATTTTCTATATTATTTAATA
1 TTAATTCAAATTTT-TATATTATTTAA-A
* * *
5992663 TT-A-TAAAATTTTAAAATTTAATTTAAA
1 TTAATTCAAATTTTTATA-TT-ATTTAAA
* *
5992690 TTTAAATCAATTTTTTATATTATTTAAA
1 -TTAATTCAAATTTTTATATTATTTAAA
5992718 TTAATTCAAATTTT
1 TTAATTCAAATTTT
5992732 GGATACATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 22 0.42
28 15 0.28
29 3 0.06
30 9 0.17
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
TTAATTCAAATTTTTATATTATTTAAA
Found at i:6001358 original size:41 final size:41
Alignment explanation
Indices: 6001297--6001629 Score: 416
Period size: 41 Copynumber: 8.1 Consensus size: 41
6001287 GATTGTGGAT
* * * *
6001297 GAGC-TTTTATTTTTTAAAGTTATGGTGCCTCTGTTTAGAG
1 GAGCATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* *
6001337 GAGCATTTTACTTTTTAAAGTTATGGTGCCTCTATTTAGAG
1 GAGCATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* * *
6001378 GAGTATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAAAT
1 GAGCATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* * * * * *
6001419 GAGTAATTTACTTTTCAAATTTGTGATGCCTCTGTATAGAG
1 GAGCATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* *
6001460 GAGCAATTTTATTTTTCAAAGTTGTGGTACCTCTATTTAGAG
1 GAGC-ATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* * *
6001502 GAGCAATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAA
1 GAGC-ATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
** *
6001544 GAGCATTTTACTTTTCAAAGTTGTGGTGCCTCCGTTTAAAG
1 GAGCATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
* *
6001585 GAGCATTTTACTTTTCAAAGTTGTGGTACCTCTATTTAGAA
1 GAGCATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
6001626 GAGC
1 GAGC
6001630 TTTGTTTACT
Statistics
Matches: 257, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
40 4 0.02
41 180 0.70
42 73 0.28
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (41 bp):
GAGCATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAGAG
Found at i:6001574 original size:166 final size:165
Alignment explanation
Indices: 6001301--6001609 Score: 467
Period size: 166 Copynumber: 1.9 Consensus size: 165
6001291 GTGGATGAGC
* * *
6001301 TTTTATTTTTTAAAGTTATGGTGCCTCTGTTTAGAGGAGCATTTTACTTTTTAAAGTTATGGTGC
1 TTTTATTTTTCAAAGTTATGGTACCTCTATTTAGAGGAGCATTTTACTTTTTAAAGTTATGGTGC
* * * * *
6001366 CTCTATTTAGAGGAGTATTTTACTTTTCAAAGTTGTGGTGCCTCTATTTAAATGAGTAATTTACT
66 CTCTATTTAGAAGAGCATTTTACTTTTCAAAGTTGTGGTGCCTCCATTTAAAGGAGCAATTTACT
*
6001431 TTTCAAATTTGTGATGCCTCTGTATAGAGGAGCAA
131 TTTCAAAGTTGTGATGCCTCTGTATAGAGGAGCAA
* *
6001466 TTTTATTTTTCAAAGTTGTGGTACCTCTATTTAGAGGAGCAATTTTA-TTTTTCAAAGTTGTGGT
1 TTTTATTTTTCAAAGTTATGGTACCTCTATTTAGAGGAGC-ATTTTACTTTTT-AAAGTTATGGT
* * *
6001530 GCCTCTGTTTAGAAGAGCATTTTACTTTTCAAAGTTGTGGTGCCTCCGTTTAAAGGAGCATTTTA
64 GCCTCTATTTAGAAGAGCATTTTACTTTTCAAAGTTGTGGTGCCTCCATTTAAAGGAGCAATTTA
6001595 CTTTTCAAAGTTGTG
129 CTTTTCAAAGTTGTG
6001610 GTACCTCTAT
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 41 0.32
166 87 0.68
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (165 bp):
TTTTATTTTTCAAAGTTATGGTACCTCTATTTAGAGGAGCATTTTACTTTTTAAAGTTATGGTGC
CTCTATTTAGAAGAGCATTTTACTTTTCAAAGTTGTGGTGCCTCCATTTAAAGGAGCAATTTACT
TTTCAAAGTTGTGATGCCTCTGTATAGAGGAGCAA
Found at i:6001666 original size:10 final size:11
Alignment explanation
Indices: 6001642--6001680 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6001632 TGTTTACTTT
*
6001642 AAAAAAACCAA
1 AAAAAAACTAA
*
6001653 AAAAAATAATAA
1 AAAAAA-ACTAA
6001665 AAAAAAACTAA
1 AAAAAAACTAA
6001676 AAAAA
1 AAAAA
6001681 GGTGAATGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAACTAA
Found at i:6003000 original size:109 final size:110
Alignment explanation
Indices: 6002871--6003142 Score: 286
Period size: 109 Copynumber: 2.5 Consensus size: 110
6002861 CAAAAGATAA
6002871 AAAAATAAATAAAGAGAAAATATTTCTAAATTGACCCAAACGGTGAAAAATTTTA-AAA-CTC-T
1 AAAAATAAA-AAAGAGAAAATATTTCTAAATTGACCCAAACGGTGAAAAATTTTAGAAATC-CAT
* * * *
6002933 AACAAAAAAAGAGAGAATTTCTAATTATGCTCAAATGGTGAAAA-TTTT
64 AACAAAAAAA-AG-GAATTTCTAAATAGGCCCAAATGATGAAAATTTTT
* * * *
6002981 AAAAATAAAAAAAATAAAATATTTTTAAATTGACCC-AACTGGTGGAAAA-TTTAGAAATCCAAT
1 AAAAATAAAAAAGAGAAAATATTTCTAAATTGACCCAAAC-GGTGAAAAATTTTAGAAATCC-AT
* * *
6003044 AATAAAAAAAAGGAATTTTTAAATGGGCCCAAATGATGAAAATTTTT
64 AACAAAAAAAAGGAATTTCTAAATAGGCCCAAATGATGAAAATTTTT
* * * * * *
6003091 GAAATTCAAAAAGAGAAAGTATTTCTAATTTGACCCAAATGGTGAAATAATT
1 AAAAATAAAAAAGAGAAAATATTTCTAAATTGACCCAAACGGTGAAA-AATT
6003143 ATATATATTT
Statistics
Matches: 132, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
108 7 0.05
109 60 0.45
110 50 0.38
111 14 0.11
112 1 0.01
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (110 bp):
AAAAATAAAAAAGAGAAAATATTTCTAAATTGACCCAAACGGTGAAAAATTTTAGAAATCCATAA
CAAAAAAAAGGAATTTCTAAATAGGCCCAAATGATGAAAATTTTT
Found at i:6004601 original size:31 final size:30
Alignment explanation
Indices: 6004557--6004617 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
6004547 AATTTGATAC
6004557 TAAAAATTAATATAGT-TATATA-ATATAAAT
1 TAAAAATTAATATA-TATATATATAT-TAAAT
*
6004587 TAAAATTTAAATATATATATATATATTAAAT
1 TAAAAATT-AATATATATATATATATTAAAT
6004618 ACATATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 8 0.30
31 17 0.63
32 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (30 bp):
TAAAAATTAATATATATATATATATTAAAT
Found at i:6006106 original size:36 final size:36
Alignment explanation
Indices: 6006059--6006127 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
6006049 GAGCTACAAT
* *
6006059 TTTTATGTGTAATAATATTAAATAAATATATTTAAA
1 TTTTATATGTAATAATATTAAATAAAGATATTTAAA
6006095 TTTTATATGTAATAATATTAAATAAAGATATTT
1 TTTTATATGTAATAATATTAAATAAAGATATTT
6006128 TACGTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (36 bp):
TTTTATATGTAATAATATTAAATAAAGATATTTAAA
Found at i:6006311 original size:112 final size:112
Alignment explanation
Indices: 6006165--6006366 Score: 255
Period size: 112 Copynumber: 1.8 Consensus size: 112
6006155 AAATTTTCAT
* * ** * *
6006165 TTTTTATCTTAGAAAAGTGGTATTTTTAACAAAAATTACGTTTTTATTTTAGAAACATCAACTTT
1 TTTTTATCTTAGAAAAGTGGTATTTTCAACAAAAACTACGTTCGTAGTTTAGAAACACCAACTTT
6006230 ATTAAATT-TAAAAACATATATATTTCATGTTTTTAATAAAAATTGTA
66 ATTAAATTATAAAAAC-TATATATTTCATGTTTTTAATAAAAATTGTA
* * * * **
6006277 TTTTTATCTTA-AAAATGTTGTCTTTTCAATAAAAACTATGTTCGTAGTTTAGAAACACCATTTT
1 TTTTTATCTTAGAAAA-GTGGTATTTTCAACAAAAACTACGTTCGTAGTTTAGAAACACCAACTT
*
6006341 TATTAAATTATGAAAACTATATATTT
65 TATTAAATTATAAAAACTATATATTT
6006367 TTTTCATATT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
111 4 0.05
112 65 0.87
113 6 0.08
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (112 bp):
TTTTTATCTTAGAAAAGTGGTATTTTCAACAAAAACTACGTTCGTAGTTTAGAAACACCAACTTT
ATTAAATTATAAAAACTATATATTTCATGTTTTTAATAAAAATTGTA
Found at i:6012414 original size:18 final size:18
Alignment explanation
Indices: 6012391--6012428 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6012381 TTTTATTAAA
6012391 ATTTTAAATTATTTTTAT
1 ATTTTAAATTATTTTTAT
*
6012409 ATTTTATATTATTTTTAT
1 ATTTTAAATTATTTTTAT
6012427 AT
1 AT
6012429 CATGTCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTAAATTATTTTTAT
Found at i:6013705 original size:25 final size:27
Alignment explanation
Indices: 6013661--6013714 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
6013651 ATAATTATTT
* *
6013661 AAAATATAATATAATGATATGATATAA
1 AAAATATAATATAATAATATAATATAA
*
6013688 AAAATATAA-A-AATAATATAATTTAA
1 AAAATATAATATAATAATATAATATAA
6013713 AA
1 AA
6013715 TTTTTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.58
26 1 0.04
27 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (27 bp):
AAAATATAATATAATAATATAATATAA
Found at i:6013743 original size:16 final size:16
Alignment explanation
Indices: 6013724--6013809 Score: 50
Period size: 16 Copynumber: 5.1 Consensus size: 16
6013714 ATTTTTATAA
*
6013724 TAATTAAATATAAATT
1 TAATTAAATATAAAAT
* *
6013740 TAATAAAATAAAAAAT
1 TAATTAAATATAAAAT
*
6013756 TAATATAAATTATAACA-
1 TAAT-TAAA-TATAAAAT
6013773 TAATTTTAAA-ATAAAAT
1 TAA--TTAAATATAAAAT
*
6013790 AAAATATAAATATATAAAT
1 -TAAT-TAAATATA-AAAT
6013809 T
1 T
6013810 TTAATATTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
16 23 0.44
17 10 0.19
18 14 0.27
19 5 0.10
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (16 bp):
TAATTAAATATAAAAT
Found at i:6027435 original size:20 final size:20
Alignment explanation
Indices: 6027412--6027450 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6027402 TTTAAATAAA
6027412 TTTA-TATATAAAATAATTAT
1 TTTATTATATAAAA-AATTAT
*
6027432 TTTATTTTATAAAAAATTA
1 TTTATTATATAAAAAATTA
6027451 GAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATTATATAAAAAATTAT
Found at i:6029735 original size:37 final size:37
Alignment explanation
Indices: 6029694--6029773 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
6029684 TAATTACAAT
* *
6029694 TTTTATGTGTAATAATATTAAATAAATGTATTTTA-G
1 TTTTATATGTAATAATATTAAATAAATATATTTTATG
6029730 ATTTTATATGTAATAATATTAAATAAATATATTTTATG
1 -TTTTATATGTAATAATATTAAATAAATATATTTTATG
6029768 TTTTAT
1 TTTTAT
6029774 TTTTTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 39 0.98
38 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (37 bp):
TTTTATATGTAATAATATTAAATAAATATATTTTATG
Found at i:6029771 original size:7 final size:7
Alignment explanation
Indices: 6029757--6029792 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
6029747 ATTAAATAAA
6029757 TATATTT
1 TATATTT
*
6029764 TATGTTT
1 TATATTT
*
6029771 TATTTTT
1 TATATTT
6029778 TATATTT
1 TATATTT
6029785 TATATTT
1 TATATTT
6029792 T
1 T
6029793 CAAAAAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (7 bp):
TATATTT
Found at i:6035718 original size:29 final size:30
Alignment explanation
Indices: 6035645--6035738 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
6035635 TTTAAAATAT
*
6035645 AAAATTATAATATGATGTAAAAATATATAAA
1 AAAATTATAATATGAT-TTAAAATATATAAA
** *
6035676 AAAAAAATAATATGATTTAAAAT-TTTAACA
1 AAAATTATAATATGATTTAAAATATATAA-A
*
6035706 AAAATTAT-ATATGAATTTAACAACA-ATAAA
1 AAAATTATAATATG-ATTTAA-AATATATAAA
6035736 AAA
1 AAA
6035739 TATATTTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
29 9 0.18
30 23 0.45
31 19 0.37
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (30 bp):
AAAATTATAATATGATTTAAAATATATAAA
Found at i:6036379 original size:23 final size:25
Alignment explanation
Indices: 6036339--6036387 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
6036329 TTTAATTTTT
*
6036339 AATTTTTTATATATTATTTTAATAA
1 AATTTTTTATATATTATTTAAATAA
6036364 AATTTTTTA-ATA-TATTTAAATAA
1 AATTTTTTATATATTATTTAAATAA
6036387 A
1 A
6036388 TTGATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.48
24 3 0.13
25 9 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AATTTTTTATATATTATTTAAATAA
Found at i:6036441 original size:11 final size:11
Alignment explanation
Indices: 6036417--6036463 Score: 55
Period size: 10 Copynumber: 4.4 Consensus size: 11
6036407 TTTTTATTTA
6036417 ATAAAAAA-AT
1 ATAAAAAATAT
6036427 -TAAAAAATAT
1 ATAAAAAATAT
6036437 AT-AAAAATAT
1 ATAAAAAATAT
6036447 ATTAAAAAAATAT
1 A-T-AAAAAATAT
6036460 ATAA
1 ATAA
6036464 TTCTATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
9 7 0.22
10 11 0.34
11 4 0.12
12 1 0.03
13 9 0.28
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:6037235 original size:18 final size:18
Alignment explanation
Indices: 6037160--6037237 Score: 65
Period size: 18 Copynumber: 4.4 Consensus size: 18
6037150 TATAATAATT
*
6037160 ATATATAAATTTAATA-AA
1 ATATAT-AATATAATATAA
* *
6037178 ATAAAAAAT-TAATATAA
1 ATATATAATATAATATAA
* *
6037195 AT-TATAACATAATTTTAA
1 ATATATAATATAA-TATAA
6037213 A-ATATAATATAATATAA
1 ATATATAATATAATATAA
6037230 ATATATAA
1 ATATATAA
6037238 ATTTTAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
16 8 0.17
17 15 0.32
18 24 0.51
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATATAATATAATATAA
Found at i:6037255 original size:32 final size:34
Alignment explanation
Indices: 6037187--6037264 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 34
6037177 AATAAAAAAT
6037187 TAATATAAATTATAACATAATTTTAAAATATAATA
1 TAATATAAA-TATAACATAATTTTAAAATATAATA
* * * *
6037222 TAATATAAATAT-ATA-AATTTTAATATTTTATA
1 TAATATAAATATAACATAATTTTAAAATATAATA
*
6037254 TAAAATAAATA
1 TAATATAAATA
6037265 CACTAATCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 24 0.63
33 2 0.05
34 3 0.08
35 9 0.24
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (34 bp):
TAATATAAATATAACATAATTTTAAAATATAATA
Found at i:6040091 original size:19 final size:18
Alignment explanation
Indices: 6040054--6040092 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6040044 TACCACCACA
*
6040054 TTCCAAAATATTTGGAGT
1 TTCCAAAATATTTAGAGT
*
6040072 TTCCAATAATATTTATAGT
1 TTCCAA-AATATTTAGAGT
6040091 TT
1 TT
6040093 TGTATGTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (18 bp):
TTCCAAAATATTTAGAGT
Found at i:6041766 original size:19 final size:20
Alignment explanation
Indices: 6041720--6041766 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
6041710 TATAATTATA
6041720 TATATTTAATAAATAAAATT
1 TATATTTAATAAATAAAATT
*
6041740 TTTATTTAAT-AATATAAATT
1 TATATTTAATAAATA-AAATT
6041760 TAT-TTTA
1 TATATTTA
6041767 GATTAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTTAATAAATAAAATT
Found at i:6042644 original size:13 final size:13
Alignment explanation
Indices: 6042626--6042651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6042616 CTTATAATTT
6042626 GATGTACATTATC
1 GATGTACATTATC
6042639 GATGTACATTATC
1 GATGTACATTATC
6042652 ACAAACTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GATGTACATTATC
Found at i:6042667 original size:48 final size:48
Alignment explanation
Indices: 6042591--6042686 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
6042581 CTTATAATTA
*
6042591 GATGTACATTATCACAAACTTCATGCTTATAATTTGATGTACATTATC
1 GATGTACATTATCACAAACTTCAAGCTTATAATTTGATGTACATTATC
6042639 GATGTACATTATCACAAACTTCAAGCTTATAATTTGATGTACATTATC
1 GATGTACATTATCACAAACTTCAAGCTTATAATTTGATGTACATTATC
6042687 ACAAACTTCG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (48 bp):
GATGTACATTATCACAAACTTCAAGCTTATAATTTGATGTACATTATC
Found at i:6045082 original size:24 final size:24
Alignment explanation
Indices: 6045055--6045101 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6045045 AAGTTCAAGC
*
6045055 AAATCTTTTAAATTATGAGCCAAT
1 AAATCTATTAAATTATGAGCCAAT
6045079 AAATCTATTAAATTATGAGCCAA
1 AAATCTATTAAATTATGAGCCAA
6045102 GTTTAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.34
Consensus pattern (24 bp):
AAATCTATTAAATTATGAGCCAAT
Found at i:6046643 original size:19 final size:19
Alignment explanation
Indices: 6046619--6046657 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6046609 GGTTAATCAG
* *
6046619 TTTTTAAATTTTTTTTTAA
1 TTTTTAAATATTATTTTAA
*
6046638 TTTTTATATATTATTTTAA
1 TTTTTAAATATTATTTTAA
6046657 T
1 T
6046658 AAAAATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTAAATATTATTTTAA
Found at i:6046728 original size:9 final size:10
Alignment explanation
Indices: 6046709--6046754 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
6046699 TTATTTTTAT
6046709 TTTATAAAAA
1 TTTATAAAAA
6046719 TTTA-AAAAA
1 TTTATAAAAA
*
6046728 TATATAAAAA
1 TTTATAAAAA
*
6046738 TTAATAAAAA
1 TTTATAAAAA
*
6046748 TATATAA
1 TTTATAA
6046755 TTCGATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:6046737 original size:20 final size:20
Alignment explanation
Indices: 6046711--6046754 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6046701 ATTTTTATTT
*
6046711 TATAAAAATTTA-AAAAATA
1 TATAAAAATTAATAAAAATA
6046730 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
6046750 TATAA
1 TATAA
6046755 TTCGATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:6048385 original size:22 final size:23
Alignment explanation
Indices: 6048342--6048386 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
6048332 TATGTTAAAA
*
6048342 ACCAAATATATTTTTTAATTTTT
1 ACCAAATATATTTTATAATTTTT
*
6048365 ACCAAATTTA-TTTATAATTTTT
1 ACCAAATATATTTTATAATTTTT
6048387 GTTAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (23 bp):
ACCAAATATATTTTATAATTTTT
Found at i:6063581 original size:19 final size:17
Alignment explanation
Indices: 6063551--6063593 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
6063541 GTAAAATTTA
* *
6063551 AAAATTTAAAAATAGATT
1 AAAATTAAAAAAAAG-TT
6063569 AACAATTAAAAAAAAGTT
1 AA-AATTAAAAAAAAGTT
6063587 AAAATTA
1 AAAATTA
6063594 TTGAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 6 0.27
19 11 0.50
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAATTAAAAAAAAGTT
Found at i:6063650 original size:2 final size:2
Alignment explanation
Indices: 6063643--6063671 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6063633 GTTTCTATTA
6063643 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6063672 AAAACAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6064565 original size:19 final size:20
Alignment explanation
Indices: 6064528--6064571 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
6064518 TCGAATCAAA
6064528 TTATATAATTTTATTAATTT
1 TTATATAATTTTATTAATTT
6064548 TTATAT-ATTTT-TTAAATTT
1 TTATATAATTTTATT-AATTT
6064567 TTATA
1 TTATA
6064572 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.09
19 15 0.65
20 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATAATTTTATTAATTT
Found at i:6064575 original size:11 final size:10
Alignment explanation
Indices: 6064536--6064573 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
6064526 AATTATATAA
*
6064536 TTTTATTAAT
1 TTTTATAAAT
*
6064546 TTTTATATAT
1 TTTTATAAAT
6064556 TTTT-TAAAT
1 TTTTATAAAT
6064565 TTTTATAAA
1 TTTTATAAA
6064574 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:6064606 original size:21 final size:22
Alignment explanation
Indices: 6064560--6064612 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
6064550 ATATATTTTT
6064560 TAAAT-TTTTATAAAATAAAAA
1 TAAATATTTTATAAAATAAAAA
*
6064581 TAAATATTTTATAACTAAAACAAAA
1 TAAATATTTTATAA--AATA-AAAA
6064606 TAAATAT
1 TAAATAT
6064613 ATTAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 5 0.19
22 8 0.30
24 3 0.11
25 11 0.41
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATATTTTATAAAATAAAAA
Found at i:6064639 original size:13 final size:13
Alignment explanation
Indices: 6064602--6064647 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
6064592 TAACTAAAAC
6064602 AAAATAAATATATT
1 AAAAT-AATATATT
**
6064616 AAAATTTTATATT
1 AAAATAATATATT
6064629 AAAATAATATA-T
1 AAAATAATATATT
6064641 AAAATAA
1 AAAATAA
6064648 AAACAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 8 0.29
13 15 0.54
14 5 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAATAATATATT
Found at i:6064670 original size:20 final size:18
Alignment explanation
Indices: 6064626--6064662 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6064616 AAAATTTTAT
*
6064626 ATTAAAATAATATATAAA
1 ATTAAAACAATATATAAA
*
6064644 ATAAAAACAATATATAAA
1 ATTAAAACAATATATAAA
6064662 A
1 A
6064663 ATTTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
ATTAAAACAATATATAAA
Found at i:6064707 original size:19 final size:20
Alignment explanation
Indices: 6064683--6064724 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
6064673 TTAAAAACTG
6064683 ATAAAAC-TGAATTGAAT-TC
1 ATAAAACTTG-ATTGAATCTC
6064702 ATAAAACTTGATTGAATCTC
1 ATAAAACTTGATTGAATCTC
6064722 ATA
1 ATA
6064725 TAAAAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
ATAAAACTTGATTGAATCTC
Found at i:6068340 original size:13 final size:13
Alignment explanation
Indices: 6068324--6068363 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6068314 ATTTAATTTT
6068324 TTATTTTTATATA
1 TTATTTTTATATA
6068337 TTATTTTTA-ATA
1 TTATTTTTATATA
* *
6068349 TAATTTTAATATA
1 TTATTTTTATATA
6068362 TT
1 TT
6068364 TAAATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTTTTATATA
Found at i:6071334 original size:18 final size:18
Alignment explanation
Indices: 6071313--6071347 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6071303 GGGTTTCGAA
6071313 TTATATAT-TTTTATTAAT
1 TTATATATATTTT-TTAAT
6071331 TTATATATATTTTTTAA
1 TTATATATATTTTTTAA
6071348 ATTTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATATATATTTTTTAAT
Found at i:6072188 original size:13 final size:13
Alignment explanation
Indices: 6072170--6072194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6072160 ATACCACACG
6072170 AAAAAGATACGAT
1 AAAAAGATACGAT
6072183 AAAAAGATACGA
1 AAAAAGATACGA
6072195 AAATGATACG
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:0.64, C:0.08, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAAAGATACGAT
Found at i:6078400 original size:18 final size:18
Alignment explanation
Indices: 6078377--6078423 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
6078367 ATACCATTAC
6078377 GGGAACGGACACGGGCAG
1 GGGAACGGACACGGGCAG
6078395 GGGAACGGACACGGGCAG
1 GGGAACGGACACGGGCAG
**
6078413 AAGAACGGACA
1 GGGAACGGACA
6078424 GTTTTCCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.45, T:0.00
Consensus pattern (18 bp):
GGGAACGGACACGGGCAG
Found at i:6082570 original size:19 final size:20
Alignment explanation
Indices: 6082530--6082571 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
6082520 TAAATGTTAT
*
6082530 ATATATTATAAAATAATTTAA
1 ATATATTAAAAAATAA-TTAA
6082551 ATATATTAAAAAATAA-TAA
1 ATATATTAAAAAATAATTAA
6082570 AT
1 AT
6082572 TAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
21 15 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATATTAAAAAATAATTAA
Found at i:6083096 original size:28 final size:28
Alignment explanation
Indices: 6083015--6083101 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
6083005 AATTAAATTG
*
6083015 AATTTAATTC-ATTTTTTATATTATTT-
1 AATTTAAATCAATTTTTTATATTATTTA
* *
6083041 AATATTATAA--AA-TTTTAAAATTTAATTTA
1 AAT-TTA-AATCAATTTTTTATA-TT-ATTTA
6083070 AATTTAAATCAATTTTTTATATTATTTA
1 AATTTAAATCAATTTTTTATATTATTTA
6083098 AATT
1 AATT
6083102 AATTCAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
26 9 0.19
27 8 0.17
28 17 0.36
29 7 0.15
30 6 0.13
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTTAAATCAATTTTTTATATTATTTA
Found at i:6083111 original size:28 final size:27
Alignment explanation
Indices: 6083018--6083113 Score: 81
Period size: 27 Copynumber: 3.5 Consensus size: 27
6083008 TAAATTGAAT
6083018 TTAATTC-ATTTTTTATATTATTTAATA
1 TTAATTCAATTTTTTATATTATTTAA-A
* * * *
6083045 TT-A-TAAAATTTTAAAATTTAATTTAAA
1 TTAATTCAATTTTTTATA-TT-ATTTAAA
*
6083072 TTTAAATCAATTTTTTATATTATTTAAA
1 -TTAATTCAATTTTTTATATTATTTAAA
*
6083100 TTAATTCAAATTTT
1 TTAATTCAATTTTT
6083114 GGATACATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
25 1 0.02
26 8 0.15
27 17 0.32
28 15 0.28
29 3 0.06
30 9 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (27 bp):
TTAATTCAATTTTTTATATTATTTAAA
Found at i:6092110 original size:23 final size:23
Alignment explanation
Indices: 6092084--6092132 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
6092074 TCAATTTATT
*
6092084 AAATATTATTTATTTTAATTCA-A
1 AAATATTA-TGATTTTAATTCATA
* *
6092107 AAATTTTATGATTTTATTTCATA
1 AAATATTATGATTTTAATTCATA
6092130 AAA
1 AAA
6092133 AATATCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
AAATATTATGATTTTAATTCATA
Found at i:6103660 original size:2 final size:2
Alignment explanation
Indices: 6103655--6103679 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6103645 ATTTTACCCT
6103655 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6103680 CAATTCGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6107793 original size:21 final size:21
Alignment explanation
Indices: 6107767--6107809 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6107757 TTTTAATTAA
*
6107767 TAAAATATATCGAATTCGAAT
1 TAAAATATATCAAATTCGAAT
6107788 TAAAATATATCAAATTCGAAT
1 TAAAATATATCAAATTCGAAT
6107809 T
1 T
6107810 TAAGCTCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (21 bp):
TAAAATATATCAAATTCGAAT
Found at i:6108875 original size:26 final size:26
Alignment explanation
Indices: 6108839--6108890 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
6108829 ATCAACGACC
6108839 CATTTGATTTCTTGAATTTAAATCTG
1 CATTTGATTTCTTGAATTTAAATCTG
6108865 CATTTGATTTCTTGAATTTAAATCTG
1 CATTTGATTTCTTGAATTTAAATCTG
6108891 GTTTTTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (26 bp):
CATTTGATTTCTTGAATTTAAATCTG
Found at i:6109231 original size:14 final size:14
Alignment explanation
Indices: 6109194--6109224 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6109184 ATTATTATTT
*
6109194 TATATTTTTATATA
1 TATATATTTATATA
6109208 TATATATTTATATA
1 TATATATTTATATA
6109222 TAT
1 TAT
6109225 GAATTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATATATTTATATA
Found at i:6120929 original size:22 final size:22
Alignment explanation
Indices: 6120903--6120946 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6120893 CAATGTATTT
*
6120903 ATATTTGTATCTCGAGAATTAA
1 ATATTTGTATCCCGAGAATTAA
*
6120925 ATATTTGTATCCCTAGAATTAA
1 ATATTTGTATCCCGAGAATTAA
6120947 GGATTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (22 bp):
ATATTTGTATCCCGAGAATTAA
Found at i:6121235 original size:25 final size:25
Alignment explanation
Indices: 6121201--6121268 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
6121191 TGACTTCTAT
* *
6121201 TTTAGGCCTTCATTGCCGAACCCGG
1 TTTAGGCCTTCATTGCCAAACCCCG
* *
6121226 TTTAGACCTTCATTGTCAAACCCCG
1 TTTAGGCCTTCATTGCCAAACCCCG
* *
6121251 TTAAGGCCTTCATAGCCA
1 TTTAGGCCTTCATTGCCA
6121269 TTCTATTTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (25 bp):
TTTAGGCCTTCATTGCCAAACCCCG
Found at i:6125007 original size:22 final size:22
Alignment explanation
Indices: 6124982--6125025 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6124972 TATGTATTTA
*
6124982 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
*
6125004 TATTTGTCTCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
6125026 GACAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:6126121 original size:110 final size:110
Alignment explanation
Indices: 6125942--6126148 Score: 369
Period size: 110 Copynumber: 1.9 Consensus size: 110
6125932 ACACTGGTTG
* *
6125942 GTCCTTGATGGACATATGAATGACTGAAACCTAATGGCATATAATCAACTAAAATTTTAAACTTA
1 GTCCTTGATGGACATATGAATGACTGAAACCTAATGGCATATAATCAACTAAAAGTTTAAACATA
6126007 AGAAACAAGTACCACTATAATCAGAGATTTGGAATAGACCAGATA
66 AGAAACAAGTACCACTATAATCAGAGATTTGGAATAGACCAGATA
* *
6126052 GTCCTTGATGGACATATGAATGACTGAAACTTTATGGCATATAATCAACTAAAAGTTTAAACATA
1 GTCCTTGATGGACATATGAATGACTGAAACCTAATGGCATATAATCAACTAAAAGTTTAAACATA
*
6126117 AGAAACAAGTACCTCTATAATCAGAGATTTGG
66 AGAAACAAGTACCACTATAATCAGAGATTTGG
6126149 GATCTATTTC
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 92 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.28
Consensus pattern (110 bp):
GTCCTTGATGGACATATGAATGACTGAAACCTAATGGCATATAATCAACTAAAAGTTTAAACATA
AGAAACAAGTACCACTATAATCAGAGATTTGGAATAGACCAGATA
Found at i:6129191 original size:22 final size:22
Alignment explanation
Indices: 6129165--6129208 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6129155 TGTATATTTA
*
6129165 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCCAGAATTAAG
6129187 TATTTGTATCCCCAGAATTAAG
1 TATTTGTATCCCCAGAATTAAG
6129209 GACAAAAAAT
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:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (22 bp):
TATTTGTATCCCCAGAATTAAG
Found at i:6134816 original size:2 final size:2
Alignment explanation
Indices: 6134809--6134850 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6134799 ATAGATAGAT
6134809 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6134851 GAGGAGGAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6139162 original size:14 final size:14
Alignment explanation
Indices: 6139143--6139173 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6139133 GTGCTGCTGT
6139143 TGGCTTGGGATTTC
1 TGGCTTGGGATTTC
6139157 TGGCTTGGGATTTC
1 TGGCTTGGGATTTC
6139171 TGG
1 TGG
6139174 TTCTGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.13, G:0.39, T:0.42
Consensus pattern (14 bp):
TGGCTTGGGATTTC
Found at i:6141363 original size:126 final size:126
Alignment explanation
Indices: 6141153--6141398 Score: 411
Period size: 126 Copynumber: 2.0 Consensus size: 126
6141143 ATCACCAACA
* * * * * * *
6141153 ATACTTGAAATCAATACCTTAATCTTAATTCAAGTTTTAATATATTTTTATATGGTACCAAAAAA
1 ATACTCGAAACCAAGACCCTAATCTTAATTCAAGCTTTAATATACTTTTATATGGTACAAAAAAA
*
6141218 AAAAGGCAAAAATCCAAAAAAATTAAAATGGCAAAAAAATCTAATGATCCAAAATTTTAAT
66 AAAAGGCAAAAATCCAAAAAAATTAAAATGACAAAAAAATCTAATGATCCAAAATTTTAAT
6141279 ATACTCGAAACCAAGACCCTAATCTTAATTCAAGCTTTAATATACTTTTATATGGTACAAAAAAA
1 ATACTCGAAACCAAGACCCTAATCTTAATTCAAGCTTTAATATACTTTTATATGGTACAAAAAAA
*
6141344 AAAAGGTAAAAATCCAAAAAAATTAAAATGACAAAAAAATCTAATGATCCAAAAT
66 AAAAGGCAAAAATCCAAAAAAATTAAAATGACAAAAAAATCTAATGATCCAAAAT
6141399 CAGGTAGTGT
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.28
Consensus pattern (126 bp):
ATACTCGAAACCAAGACCCTAATCTTAATTCAAGCTTTAATATACTTTTATATGGTACAAAAAAA
AAAAGGCAAAAATCCAAAAAAATTAAAATGACAAAAAAATCTAATGATCCAAAATTTTAAT
Found at i:6149790 original size:12 final size:11
Alignment explanation
Indices: 6149760--6149812 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
6149750 AAAATTTAAA
6149760 TTATA-TATTT
1 TTATATTATTT
6149770 TTATA-T-TTT
1 TTATATTATTT
6149779 TTATATTATTT
1 TTATATTATTT
* *
6149790 TCATATTATAT
1 TTATATTATTT
6149801 TTATAGTTATTT
1 TTATA-TTATTT
6149813 CCATTAAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 8 0.22
10 7 0.19
11 16 0.44
12 5 0.14
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (11 bp):
TTATATTATTT
Found at i:6150002 original size:19 final size:17
Alignment explanation
Indices: 6149968--6150001 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6149958 TAAATAAAAA
*
6149968 ATATATTTTATATTTTC
1 ATATATTTCATATTTTC
6149985 ATATATATTCATATTTT
1 ATATAT-TTCATATTTT
6150002 TTATGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTTCATATTTTC
Found at i:6158686 original size:14 final size:15
Alignment explanation
Indices: 6158667--6158732 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 15
6158657 ATATTTATGA
6158667 ATAAT-AAATAAATT
1 ATAATAAAATAAATT
6158681 ATAATAAAATAAATT
1 ATAATAAAATAAATT
6158696 -T--TAAAATAAAATT
1 ATAATAAAAT-AAATT
*
6158709 A-AGATAAAAATATAATA
1 ATA-AT-AAAATA-AATT
6158726 ATAATAA
1 ATAATAA
6158733 TAATGTTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 16
0.71 0.02 0.27
Matches are distributed among these distances:
12 6 0.14
13 5 0.12
14 6 0.14
15 9 0.21
16 4 0.10
17 11 0.26
18 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
ATAATAAAATAAATT
Found at i:6162834 original size:16 final size:18
Alignment explanation
Indices: 6162813--6162855 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
6162803 GATTTATCGA
6162813 TTTTTAATTTTTA-AT-T
1 TTTTTAATTTTTAGATAT
6162829 TTTTTAATTTTTAGATAT
1 TTTTTAATTTTTAGATAT
6162847 TATTTTAAT
1 T-TTTTAAT
6162856 ATAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.54
17 2 0.08
18 2 0.08
19 7 0.29
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTAATTTTTAGATAT
Found at i:6163435 original size:13 final size:13
Alignment explanation
Indices: 6163413--6163451 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
6163403 TCGATTTTTA
*
6163413 ATTTTTATATATT
1 ATTTTAATATATT
**
6163426 ATTTTAATATAAA
1 ATTTTAATATATT
6163439 ATTTTAATATATT
1 ATTTTAATATATT
6163452 TAAGTAGATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:6164071 original size:20 final size:19
Alignment explanation
Indices: 6164030--6164072 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6164020 TATTTTTTTA
* * *
6164030 ATAAAAATTAAAAATATGT
1 ATAAAAACTAAAAAAATAT
6164049 ATAAAAACTAAGAAAAATAT
1 ATAAAAACTAA-AAAAATAT
6164069 ATAA
1 ATAA
6164073 TTTCGTTCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAAAAACTAAAAAAATAT
Found at i:6164833 original size:28 final size:28
Alignment explanation
Indices: 6164801--6164857 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
6164791 TTGAGCCTCA
* *
6164801 AGTTGGGAGTCGAGCTCGAGCTGTATCG
1 AGTTGGGAGCCGAGCTCGAGCTATATCG
*
6164829 AGTTGGGTGCCGAGCTCGAGCTATATCG
1 AGTTGGGAGCCGAGCTCGAGCTATATCG
6164857 A
1 A
6164858 CTCAACTCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.37, T:0.25
Consensus pattern (28 bp):
AGTTGGGAGCCGAGCTCGAGCTATATCG
Found at i:6165087 original size:31 final size:30
Alignment explanation
Indices: 6165035--6165119 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
6165025 TAGATCAAAT
*
6165035 AATTTAAAAAA-TATATAATAATACAATAAA
1 AATTAAAAAAATTATAT-ATAATACAATAAA
**
6165065 AA-TAATACAAAATTATATATAATTTTAATAAA
1 AATTAA-A-AAAATTATATATAA-TACAATAAA
*
6165097 AATTAAAAAAATTATATTTAATA
1 AATTAAAAAAATTATATATAATA
6165120 TATTAATACA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
29 2 0.04
30 4 0.09
31 21 0.47
32 15 0.33
33 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
AATTAAAAAAATTATATATAATACAATAAA
Found at i:6165133 original size:33 final size:31
Alignment explanation
Indices: 6165059--6165134 Score: 91
Period size: 33 Copynumber: 2.4 Consensus size: 31
6165049 ATAATAATAC
6165059 AATAAAAA-TAATACAAAATTATATATAATTTT
1 AATAAAAATTAA-A-AAAATTATATATAATTTT
*
6165091 AATAAAAATTAAAAAAATTATATTTAATATATT
1 AATAAAAATTAAAAAAATTATATATAAT-T-TT
*
6165124 AATACAAATTA
1 AATAAAAATTA
6165135 TAATACAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 14 0.36
32 10 0.26
33 15 0.38
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
AATAAAAATTAAAAAAATTATATATAATTTT
Found at i:6172374 original size:15 final size:16
Alignment explanation
Indices: 6172346--6172385 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
6172336 CATTTTGATT
6172346 TAAATTTGTGTTCTTG
1 TAAATTTGTGTTCTTG
*
6172362 TAATTTTGT-TTCTTG
1 TAAATTTGTGTTCTTG
6172377 TAAATTTGT
1 TAAATTTGT
6172386 CCTAGGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (16 bp):
TAAATTTGTGTTCTTG
Found at i:6172382 original size:16 final size:17
Alignment explanation
Indices: 6172346--6172383 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6172336 CATTTTGATT
6172346 TAAA-TTTGTGTTCTTG
1 TAAATTTTGTGTTCTTG
6172362 T-AATTTTGT-TTCTTG
1 TAAATTTTGTGTTCTTG
6172377 TAAATTT
1 TAAATTT
6172384 GTCCTAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.61
Consensus pattern (17 bp):
TAAATTTTGTGTTCTTG
Found at i:6172472 original size:12 final size:12
Alignment explanation
Indices: 6172457--6172523 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
6172447 CCATGGCCTG
6172457 TATATATACATA
1 TATATATACATA
**
6172469 TATACGTACATA
1 TATATATACATA
* * *
6172481 CAAACATACATA
1 TATATATACATA
* *
6172493 CATATATATATA
1 TATATATACATA
* *
6172505 TATATTTATATA
1 TATATATACATA
6172517 TATATAT
1 TATATAT
6172524 TGCTCCATCC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.40
Consensus pattern (12 bp):
TATATATACATA
Found at i:6172501 original size:2 final size:2
Alignment explanation
Indices: 6172494--6172523 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6172484 ACATACATAC
*
6172494 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6172524 TGCTCCATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6177335 original size:26 final size:25
Alignment explanation
Indices: 6177295--6177344 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
6177285 TTTCACTTTT
6177295 AATTTTTCAAATTTATAAATTATATAG
1 AATTTTTCAAATTTAT--ATTATATAG
*
6177322 AATTTTT-AATTTTATATTATATA
1 AATTTTTCAAATTTATATTATATA
6177345 AGTTAATCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
26 7 0.32
27 7 0.32
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
AATTTTTCAAATTTATATTATATAG
Found at i:6177882 original size:21 final size:22
Alignment explanation
Indices: 6177853--6177904 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
6177843 AATAATAACG
* *
6177853 ATAAAATTAAT-TATTATAATT
1 ATAAGATTAATATATTATAATA
*
6177874 ATGAGATT-ATATATTATAATA
1 ATAAGATTAATATATTATAATA
6177895 ATAAGATTAA
1 ATAAGATTAA
6177905 AATTAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 2 0.08
21 22 0.88
22 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (22 bp):
ATAAGATTAATATATTATAATA
Found at i:6177913 original size:21 final size:21
Alignment explanation
Indices: 6177840--6177914 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 21
6177830 TTAAATTAAA
6177840 AATAATAATAACGA-TAAAATT
1 AATAATAATAA-GATTAAAATT
*
6177861 AATTATTATAATTATGAGATTATATATT
1 AA-TA--ATAA-TA--AGATTA-AAATT
6177889 -ATAATAATAAGATTAAAATT
1 AATAATAATAAGATTAAAATT
6177909 AATAAT
1 AATAAT
6177915 GAGATATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
20 4 0.09
21 13 0.30
22 2 0.05
23 2 0.05
24 8 0.19
25 2 0.05
26 4 0.09
27 4 0.09
28 4 0.09
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (21 bp):
AATAATAATAAGATTAAAATT
Found at i:6178114 original size:23 final size:23
Alignment explanation
Indices: 6178056--6178121 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
6178046 AGTTAACAAA
*
6178056 TAATTGAAAATTAATATTATTATTTT
1 TAATTCAAAA-TAATA--ATTATTTT
6178082 T-ATATCAAAATAATAATTATTTT
1 TAAT-TCAAAATAATAATTATTTT
*
6178105 TAATTTAAAATAA-AATT
1 TAATTCAAAATAATAATT
6178122 TTAAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 4 0.11
23 17 0.47
24 2 0.06
25 7 0.19
26 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATTCAAAATAATAATTATTTT
Found at i:6178312 original size:29 final size:29
Alignment explanation
Indices: 6178280--6178338 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
6178270 TTTTTTATTT
6178280 AAATCATA-TTATATAATTATATTATTAAA
1 AAATCATATTTATATAATTAT-TTATTAAA
** * *
6178309 AAATTTTATTTATTTATTTATTTATTAAA
1 AAATCATATTTATATAATTATTTATTAAA
6178338 A
1 A
6178339 TTAATAGTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
AAATCATATTTATATAATTATTTATTAAA
Found at i:6179925 original size:21 final size:23
Alignment explanation
Indices: 6179890--6179937 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
6179880 TATATATTAA
6179890 TTATAATTAATTTAA-AAAATAAT
1 TTATAATTAATTTAATAAAA-AAT
6179913 TTAT-ATT-ATTTAATAAAAAAT
1 TTATAATTAATTTAATAAAAAAT
6179934 TTAT
1 TTAT
6179938 TTACTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.54
22 7 0.29
23 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTATAATTAATTTAATAAAAAAT
Found at i:6180610 original size:2 final size:2
Alignment explanation
Indices: 6180603--6180627 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6180593 TTCTCATTGA
6180603 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6180628 CATACACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6180720 original size:18 final size:20
Alignment explanation
Indices: 6180684--6180723 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
6180674 TCATACTTTT
*
6180684 TTAAGTTTTTATTATATAAA
1 TTAAGTTTTAATTATATAAA
6180704 TTAAG-TTTAATTA-ATAAA
1 TTAAGTTTTAATTATATAAA
6180722 TT
1 TT
6180724 TAAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 7 0.37
20 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAAGTTTTAATTATATAAA
Found at i:6180726 original size:19 final size:21
Alignment explanation
Indices: 6180683--6180726 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
6180673 ATCATACTTT
*
6180683 TTTAAGTTTTTATTATATAAA
1 TTTAAGTTTTAATTATATAAA
6180704 -TTAAG-TTTAATTA-ATAAA
1 TTTAAGTTTTAATTATATAAA
6180722 TTTAA
1 TTTAA
6180727 AATTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
TTTAAGTTTTAATTATATAAA
Found at i:6182116 original size:291 final size:292
Alignment explanation
Indices: 6181592--6182143 Score: 892
Period size: 291 Copynumber: 1.9 Consensus size: 292
6181582 TATTATTACA
* *
6181592 GGGTTTCTGGTAGGAGAAATTCTCAAACCATTCTTTAGGAGCATCTGGATGAATTCGATAAAGAC
1 GGGTTTCTGGTAGGAGAAATACTCAAACCATTCTTTAGGAGCATCTGGATGAATTAGATAAAGAC
* * * * *
6181657 AAGTTACTAATCTCTTTTAACCAGCTGCAACTATGCTTGCAATAGAGTAGTTTTTAGTGCCCAAA
66 AAGCTACAAAACTCGTTTAACCAGCTGCAACTATGCTTGCAATAGAGTAGTTTTTAGTGCACAAA
*
6181722 CCTTTCTCCGCAAGCCATTTGTGGAATCGGTACCAGGGCTTAATCCGGTTCTCTAAGTTGAAACA
131 CCTTTCTCCGCAAGCCATTTATGGAATCGGTACCAGGGCTTAATCCGGTTCTCTAAGTTGAAACA
* *
6181787 CACAAAGGCTGGGAATATATCAAGGTAGTCCAAAGAAACAACCATTTCATGGC-AAGGAAATTCA
196 CACAAAGGCTGGGAAAAAATCAAGGTAGTCCAAAGAAACAACCATTTCATGGCAAAGGAAATTCA
6181851 CCTTCTGCTTGATGGTTTCTGATACTATTTCT
261 CCTTCTGCTTGATGGTTTCTGATACTATTTCT
* *
6181883 GGGTTTCTGGTAGGAGAAATACTCAAACCA-TCGTTTTGGAGCATCTGGGTGAATTAGATAAAGA
1 GGGTTTCTGGTAGGAGAAATACTCAAACCATTC-TTTAGGAGCATCTGGATGAATTAGATAAAGA
** * * *
6181947 CGTGCTACAAAACTCGTTTCACCAGTTGCAACTATGCTTGCAATGGAGTAGTTTTTAGTGCACAA
65 CAAGCTACAAAACTCGTTTAACCAGCTGCAACTATGCTTGCAATAGAGTAGTTTTTAGTGCACAA
* *
6182012 ACCTTTCTCTGCAAGCCATTTATGGAATCTGTACCAGGGCTTAATCCGGTTCTCTAAGTTGAAAC
130 ACCTTTCTCCGCAAGCCATTTATGGAATCGGTACCAGGGCTTAATCCGGTTCTCTAAGTTGAAAC
* *
6182077 ACAGAAAGGCTGGGAAAAAATCAAGGTAGTCCAAAGAAACACCCATTTCATGGCAAAGGAAATTC
195 ACACAAAGGCTGGGAAAAAATCAAGGTAGTCCAAAGAAACAACCATTTCATGGCAAAGGAAATTC
6182142 AC
260 AC
6182144 TTTCGGCTCA
Statistics
Matches: 238, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
290 2 0.01
291 224 0.94
292 12 0.05
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (292 bp):
GGGTTTCTGGTAGGAGAAATACTCAAACCATTCTTTAGGAGCATCTGGATGAATTAGATAAAGAC
AAGCTACAAAACTCGTTTAACCAGCTGCAACTATGCTTGCAATAGAGTAGTTTTTAGTGCACAAA
CCTTTCTCCGCAAGCCATTTATGGAATCGGTACCAGGGCTTAATCCGGTTCTCTAAGTTGAAACA
CACAAAGGCTGGGAAAAAATCAAGGTAGTCCAAAGAAACAACCATTTCATGGCAAAGGAAATTCA
CCTTCTGCTTGATGGTTTCTGATACTATTTCT
Found at i:6183825 original size:14 final size:14
Alignment explanation
Indices: 6183808--6183836 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6183798 ATTGAGTTAT
6183808 TTAAATTTATTTAA
1 TTAAATTTATTTAA
6183822 TTAAATTTATTTAA
1 TTAAATTTATTTAA
6183836 T
1 T
6183837 AAAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAAATTTATTTAA
Found at i:6183888 original size:18 final size:17
Alignment explanation
Indices: 6183865--6183910 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
6183855 TGTATTTAAT
6183865 TTTAAATTTAATTATATG-
1 TTTAAATTTAATT-TA-GA
6183883 TTTAAATTTGAATTTAGA
1 TTTAAATTT-AATTTAGA
6183901 TTTAAATTTA
1 TTTAAATTTA
6183911 TATAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.08
18 20 0.77
19 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAATTTAGA
Found at i:6183890 original size:25 final size:25
Alignment explanation
Indices: 6183844--6183904 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
6183834 AATAAAAAAT
* *
6183844 AATTTAATTTTTGTATTTAATTTTA
1 AATTTAATTTATGTATTAAATTTTA
*
6183869 AATTTAATTATATGT-TTAAA-TTTG
1 AATTTAATT-TATGTATTAAATTTTA
6183893 AATTTAGATTTA
1 AATTTA-ATTTA
6183905 AATTTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 11 0.35
25 16 0.52
26 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTTAATTTATGTATTAAATTTTA
Found at i:6184034 original size:14 final size:15
Alignment explanation
Indices: 6184010--6184038 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6184000 TATTAAAATA
6184010 TTTAAATTTAAATTT
1 TTTAAATTTAAATTT
6184025 TTTAAA-TTAAATTT
1 TTTAAATTTAAATTT
6184039 GATAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAAATTTAAATTT
Found at i:6192491 original size:19 final size:19
Alignment explanation
Indices: 6192467--6192513 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
6192457 AATTCAAAAA
6192467 ACCATTCTTCACAATAATT
1 ACCATTCTTCACAATAATT
6192486 ACCATTCTTCACAATAATT
1 ACCATTCTTCACAATAATT
6192505 ACCATTCTT
1 ACCATTCTT
6192514 TATCGTTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (19 bp):
ACCATTCTTCACAATAATT
Found at i:6195684 original size:25 final size:25
Alignment explanation
Indices: 6195643--6195702 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
6195633 TTATGTGTAT
*
6195643 TTTATTTATTTATGCAATATAAGTAA
1 TTTATTT-TTTAAGCAATATAAGTAA
6195669 TTTATTTTTTAAGCAATATAAGTAA
1 TTTATTTTTTAAGCAATATAAGTAA
6195694 TTTATTTTT
1 TTTATTTTT
6195703 AATATATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 26 0.79
26 7 0.21
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (25 bp):
TTTATTTTTTAAGCAATATAAGTAA
Found at i:6195916 original size:14 final size:14
Alignment explanation
Indices: 6195897--6195943 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
6195887 TAATTATGAT
6195897 TAAAAAAATTTTAA
1 TAAAAAAATTTTAA
*
6195911 T-AAAAAATTTATAC
1 TAAAAAAATTT-TAA
*
6195925 TAAATAAATTTTAA
1 TAAAAAAATTTTAA
6195939 TAAAA
1 TAAAA
6195944 TTAATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 9 0.33
14 10 0.37
15 8 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAAAAATTTTAA
Found at i:6196182 original size:32 final size:31
Alignment explanation
Indices: 6196146--6196211 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
6196136 TTTAAAATTT
* *
6196146 TTAATATTATACTTAAATTATAAATTTATTAA
1 TTAATATGATACTTAAAATAT-AATTTATTAA
* * *
6196178 TTAATATGATATTTAAAATATTATTTATTTA
1 TTAATATGATACTTAAAATATAATTTATTAA
6196209 TTA
1 TTA
6196212 CTTACATTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
TTAATATGATACTTAAAATATAATTTATTAA
Found at i:6199458 original size:22 final size:23
Alignment explanation
Indices: 6199407--6199458 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
6199397 ATATAGATTA
* * *
6199407 AAATTTTAATATAAATTATAAAT
1 AAATTTTAACATAAATAAAAAAT
*
6199430 GAA-TTTAACAT-AATAAAAAAT
1 AAATTTTAACATAAATAAAAAAT
6199451 AAATTTTA
1 AAATTTTA
6199459 TGTTTTGATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 10 0.43
22 11 0.48
23 2 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AAATTTTAACATAAATAAAAAAT
Found at i:6199667 original size:152 final size:153
Alignment explanation
Indices: 6199404--6199814 Score: 547
Period size: 152 Copynumber: 2.7 Consensus size: 153
6199394 AGGATATAGA
* * ** * *
6199404 TTAAAATTTTAATATAAATTATAAATGAATTTAACATAAT-AAAAAATAAATTTTATGTTTTGAT
1 TTAAAATTTTAATAAAAATTATAAATGGATTTAACATAATAAAAAAATATTTTTTACGTTTTAAT
* * * * *
6199468 ATTTATATAAATTATGACACAAAATTTTTATGTAAAATATATTATAAATACATAAATTATTAATA
66 GTTAATATAAATTATGACACATAATTTTTATGTAAAATATAATATAAATACACAAATTATTAATA
*
6199533 CAAAAAATA-AAAATAATATAAT
131 CAAAAAATAGAAAATAATACAAT
6199555 TTAAAATTTTAATAAAAATTATAAATGGATTTAACATAATAAAAAAATATTTTTTACGTTTTAAT
1 TTAAAATTTTAATAAAAATTATAAATGGATTTAACATAATAAAAAAATATTTTTTACGTTTTAAT
* * * * *
6199620 GTTGACATAAATTATAACATATAATTTTTATGTAAAATATAATATAAATACACGAATTATTAATA
66 GTTAATATAAATTATGACACATAATTTTTATGTAAAATATAATATAAATACACAAATTATTAATA
* * *
6199685 TAAAAAATATGAAAATGATACAGT
131 CAAAAAATA-GAAAATAATACAAT
* * * * *
6199709 TTAAAATTTTAATAAAAATCATAAATGGATTTAATATAACCAAAAAAATATTTTTTACATTTTTA
1 TTAAAATTTTAATAAAAATTATAAATGGATTTAACATAA-TAAAAAAATATTTTTTACGTTTTAA
* *
6199774 TGTTAATATAAATTATGACACGTAATTTTTATATAAAATAT
65 TGTTAATATAAATTATGACACATAATTTTTATGTAAAATAT
6199815 GACACAAATA
Statistics
Matches: 226, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
151 38 0.17
152 84 0.37
154 47 0.21
155 57 0.25
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (153 bp):
TTAAAATTTTAATAAAAATTATAAATGGATTTAACATAATAAAAAAATATTTTTTACGTTTTAAT
GTTAATATAAATTATGACACATAATTTTTATGTAAAATATAATATAAATACACAAATTATTAATA
CAAAAAATAGAAAATAATACAAT
Found at i:6200582 original size:88 final size:88
Alignment explanation
Indices: 6200429--6200604 Score: 262
Period size: 88 Copynumber: 2.0 Consensus size: 88
6200419 AGGATATCAG
* * * *
6200429 CTTCAGACAGGCCAACCCCTAATGTACTTTACTTCTTTTTGTTCAGACAAAACAATGGCACTTGG
1 CTTCAGACAGGCCAACCCCTAATGTACTTTACTTCATCTTATTCAGACAAAACAATGGCAATTGG
*
6200494 TTTAGAACCTGGTATGCAACAAA
66 TTTAGAACATGGTATGCAACAAA
* * * * *
6200517 CTTCAGACAGGGCAACCCCTACTGTATTTTTCTTCATCTTATTCAGACAAGACAATGGCAATTGG
1 CTTCAGACAGGCCAACCCCTAATGTACTTTACTTCATCTTATTCAGACAAAACAATGGCAATTGG
6200582 TTTAGAACATGGTATGCAACAAA
66 TTTAGAACATGGTATGCAACAAA
6200605 GATTGATCCT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (88 bp):
CTTCAGACAGGCCAACCCCTAATGTACTTTACTTCATCTTATTCAGACAAAACAATGGCAATTGG
TTTAGAACATGGTATGCAACAAA
Found at i:6201022 original size:2 final size:2
Alignment explanation
Indices: 6201011--6201053 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
6201001 AGTGTCTACT
* *
6201011 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6201052 TA
1 TA
6201054 ATTTTCCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6204026 original size:3 final size:3
Alignment explanation
Indices: 6204012--6204043 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6204002 CCAATAGAAT
*
6204012 AAC AAC ACC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
6204044 ACTAAGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:6205575 original size:21 final size:22
Alignment explanation
Indices: 6205551--6205605 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
6205541 TAGAGAGATA
*
6205551 ATTTACAAAATA-GAGT-GATTT
1 ATTTACAAAATAGGA-TCGATCT
*
6205572 ATTTTTCAAAA-AGGATCGATCT
1 A-TTTACAAAATAGGATCGATCT
6205594 ATTTACAAAATA
1 ATTTACAAAATA
6205606 CACATCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
ATTTACAAAATAGGATCGATCT
Found at i:6206002 original size:63 final size:63
Alignment explanation
Indices: 6205934--6206055 Score: 228
Period size: 63 Copynumber: 1.9 Consensus size: 63
6205924 TTGTATTATT
6205934 ATAATTTGTTTTGATATAACAAACAC-AAACTATATTTTTTATATAAAATAAAAAATATCGTAA
1 ATAATTTGTTTTGATATAACAAACACGAAA-TATATTTTTTATATAAAATAAAAAATATCGTAA
6205997 ATAATTTGTTTTGATATAACAAACACGAAATATATTTTTTATATAAAATAAAAAATATC
1 ATAATTTGTTTTGATATAACAAACACGAAATATATTTTTTATATAAAATAAAAAATATC
6206056 ATAATTTAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 55 0.95
64 3 0.05
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (63 bp):
ATAATTTGTTTTGATATAACAAACACGAAATATATTTTTTATATAAAATAAAAAATATCGTAA
Found at i:6206680 original size:12 final size:13
Alignment explanation
Indices: 6206651--6206738 Score: 51
Period size: 13 Copynumber: 6.8 Consensus size: 13
6206641 ATATATATAA
*
6206651 TATATTTTATTAT
1 TATATTTAATTAT
6206664 T-TATTTAATT-T
1 TATATTTAATTAT
6206675 TATATTTATATATAT
1 TATATTTA-AT-TAT
* *
6206690 TATATTAAAAT-T
1 TATATTTAATTAT
6206702 TATTATTTAA-TAT
1 TA-TATTTAATTAT
* *
6206715 TTTAATTTAAGATAT
1 TAT-ATTTAA-TTAT
6206730 TA-ATTTAAT
1 TATATTTAAT
6206739 AAAAATATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 19
0.69 0.08 0.22
Matches are distributed among these distances:
11 2 0.03
12 19 0.32
13 24 0.41
14 2 0.03
15 12 0.20
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (13 bp):
TATATTTAATTAT
Found at i:6206721 original size:20 final size:20
Alignment explanation
Indices: 6206656--6206723 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
6206646 TATAATATAT
*
6206656 TTTATTATTTATTTAATTTTATA
1 TTTATTATTTA-AT-ATTTTA-A
**
6206679 TTTATATATATT-ATATTAAAA
1 TTTAT-TAT-TTAATATTTTAA
6206700 TTTATTATTTAATATTTTAA
1 TTTATTATTTAATATTTTAA
6206720 TTTA
1 TTTA
6206724 AGATATTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
19 2 0.05
20 14 0.38
21 6 0.16
22 4 0.11
23 6 0.16
24 3 0.08
25 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATTATTTAATATTTTAA
Found at i:6206722 original size:13 final size:13
Alignment explanation
Indices: 6206661--6206739 Score: 56
Period size: 13 Copynumber: 6.0 Consensus size: 13
6206651 TATATTTTAT
*
6206661 TATTTATTTAAT-
1 TATTAATTTAATA
6206673 T-TTATATTTATATA
1 TATTA-ATTTA-ATA
* *
6206687 TATTATATTAAAATT
1 TATTA-ATT-TAATA
6206702 TATT-ATTTAATA
1 TATTAATTTAATA
* *
6206714 TTTTAATTTAAGA
1 TATTAATTTAATA
6206727 TATTAATTTAATA
1 TATTAATTTAATA
6206740 AAAATATTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
11 2 0.04
12 12 0.23
13 23 0.44
14 1 0.02
15 13 0.25
16 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:6206724 original size:27 final size:27
Alignment explanation
Indices: 6206651--6206714 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
6206641 ATATATATAA
* *
6206651 TATATTT-TAT-TATT-TATTTAATTT
1 TATATTTATATATATTATATTAAAATT
6206675 TATATTTATATATATTATATTAAAATT
1 TATATTTATATATATTATATTAAAATT
6206702 TATTATTTA-ATAT
1 TA-TATTTATATAT
6206715 TTTAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 7 0.21
25 3 0.09
26 4 0.12
27 14 0.41
28 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATTTATATATATTATATTAAAATT
Done.