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 141 of 147
Found at i:26016281 original size:111 final size:112
Alignment explanation
Indices: 26016141--26016345 Score: 340
Period size: 111 Copynumber: 1.8 Consensus size: 112
26016131 ACCCATGGGA
* *
26016141 TCCAATTTCCCATATAAGTTTATTTAGAAATGAATTGACAAGCAGACAAATAACAGCC-AAATTG
1 TCCAATTTCCCATATAAGTTTATTTAGAAATGAACTGACAAGCAGACAAATAACAGCCAAAATTC
* * *
26016205 TCTGATATCGATCCATTTTCCCATATTGCAGTATAACCATGGGATGC
66 TCTGATATCCATCCACTTTCACATATTGCAGTATAACCATGGGATGC
* *
26016252 TCCAATTTCCCATATAAGTTTATTTAGAAATGAACTGACAATCAGACAAATGACAGCCAAAATTC
1 TCCAATTTCCCATATAAGTTTATTTAGAAATGAACTGACAAGCAGACAAATAACAGCCAAAATTC
26016317 TCTGATATCCATCCACTTTCACATATTGC
66 TCTGATATCCATCCACTTTCACATATTGC
26016346 CATATATACT
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
111 55 0.64
112 31 0.36
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (112 bp):
TCCAATTTCCCATATAAGTTTATTTAGAAATGAACTGACAAGCAGACAAATAACAGCCAAAATTC
TCTGATATCCATCCACTTTCACATATTGCAGTATAACCATGGGATGC
Found at i:26017525 original size:3 final size:3
Alignment explanation
Indices: 26017517--26017541 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26017507 ACAACGAGAG
26017517 AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC A
26017542 TAGAGCCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:26018108 original size:19 final size:20
Alignment explanation
Indices: 26018070--26018108 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
26018060 TATGTATTAA
* *
26018070 TATATGTATTTAATTATATT
1 TATATGTATATAACTATATT
26018090 TATAT-TATATAACTATATT
1 TATATGTATATAACTATATT
26018109 GATTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
TATATGTATATAACTATATT
Found at i:26018200 original size:11 final size:11
Alignment explanation
Indices: 26018180--26018209 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
26018170 TATAGGACTA
26018180 ATATTAATATTT
1 ATATT-ATATTT
26018192 ATATTATATTT
1 ATATTATATTT
26018203 ATATTAT
1 ATATTAT
26018210 TAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTATATTT
Found at i:26018844 original size:27 final size:27
Alignment explanation
Indices: 26018806--26018859 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
26018796 TTGTTTTATA
26018806 CAAAAAACCTATGCTCCTAACGCTTGT
1 CAAAAAACCTATGCTCCTAACGCTTGT
26018833 CAAAAAACCTATGCTCCTAACGCTTGT
1 CAAAAAACCTATGCTCCTAACGCTTGT
26018860 TTCGATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.26
Consensus pattern (27 bp):
CAAAAAACCTATGCTCCTAACGCTTGT
Found at i:26022386 original size:12 final size:12
Alignment explanation
Indices: 26022369--26022423 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
26022359 CCTTAAATTA
26022369 TAATATAATATT
1 TAATATAATATT
26022381 TAATATAATATT
1 TAATATAATATT
* *
26022393 TAAATTTAAAAAATTT
1 T-AA--TATAATA-TT
26022409 TAATATAATATT
1 TAATATAATATT
26022421 TAA
1 TAA
26022424 ATTATGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 18 0.51
13 7 0.20
15 7 0.20
16 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATATAATATT
Found at i:26023100 original size:34 final size:34
Alignment explanation
Indices: 26023057--26023130 Score: 148
Period size: 34 Copynumber: 2.2 Consensus size: 34
26023047 AACGTTAAAG
26023057 AATAAAAGTAACAGTAATTTTATAATTTTAGCTC
1 AATAAAAGTAACAGTAATTTTATAATTTTAGCTC
26023091 AATAAAAGTAACAGTAATTTTATAATTTTAGCTC
1 AATAAAAGTAACAGTAATTTTATAATTTTAGCTC
26023125 AATAAA
1 AATAAA
26023131 GTCAAGATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (34 bp):
AATAAAAGTAACAGTAATTTTATAATTTTAGCTC
Found at i:26023420 original size:17 final size:17
Alignment explanation
Indices: 26023392--26023424 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
26023382 TAAAATTTTT
26023392 AATTTTTAAATTTATATA
1 AATTTTTAAA-TTATATA
26023410 AATTTTT-AATTATAT
1 AATTTTTAAATTATAT
26023425 TTTTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTTTTAAATTATATA
Found at i:26028439 original size:3 final size:3
Alignment explanation
Indices: 26028431--26028461 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26028421 GCATCTTCTC
26028431 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
26028462 AACTTTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:26031084 original size:50 final size:50
Alignment explanation
Indices: 26031009--26031108 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
26030999 CAGTATATAA
*
26031009 CTAAAATTAATGGGTGTCAATTAACTTTCTAAATAACATTAAGAAATTAT
1 CTAAAATTAATGGGTGTCAATTAACTTTCTAAAAAACATTAAGAAATTAT
26031059 CTAAAATTAATGGGTGTCAATTAACTTTCTAAAAAACATTAAGAAATTAT
1 CTAAAATTAATGGGTGTCAATTAACTTTCTAAAAAACATTAAGAAATTAT
26031109 TATCCAATGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (50 bp):
CTAAAATTAATGGGTGTCAATTAACTTTCTAAAAAACATTAAGAAATTAT
Found at i:26033291 original size:4 final size:4
Alignment explanation
Indices: 26033282--26033308 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
26033272 TTACAAGGAG
26033282 GTTT GTTT GTTT GTTT GTTT GTTT GTT
1 GTTT GTTT GTTT GTTT GTTT GTTT GTT
26033309 GGTAAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (4 bp):
GTTT
Found at i:26033503 original size:39 final size:37
Alignment explanation
Indices: 26033435--26033546 Score: 102
Period size: 39 Copynumber: 3.0 Consensus size: 37
26033425 TTGATAATTT
* *
26033435 AAAAAATAATATAATAAT-ATAATATTAAAATATTATA
1 AAAAAATAA-ATAAAAATAATAAAATTAAAATATTATA
* * *
26033472 AATAAAATACATAAAAATGATAAAATTTAAAATTTTAATA
1 AA-AAAATAAATAAAAATAATAAAA-TTAAAATATT-ATA
* **
26033512 AAAATATAAATAAATTTAATAAAATTAAAA-ATTAT
1 AAAAAATAAATAAAAATAATAAAATTAAAATATTAT
26033547 TTTTTATATT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
36 2 0.03
37 11 0.18
38 17 0.28
39 26 0.43
40 5 0.08
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (37 bp):
AAAAAATAAATAAAAATAATAAAATTAAAATATTATA
Found at i:26036279 original size:71 final size:71
Alignment explanation
Indices: 26036159--26036315 Score: 167
Period size: 71 Copynumber: 2.2 Consensus size: 71
26036149 ATATTACGTT
* * *
26036159 TTTTTATCTTAAAAATAATATAATTGTTAAAATTTTAGAATATTGAAAATAAATTTTCAATA-TC
1 TTTTTATCTTAAAAATAATATAATTGTTAAAATTTCAGAATATTGAAAATAAAGTTTCAACATTC
*
26036223 TACTATG
66 T-CTATA
* ** * * *
26036230 TTTTTATCTTAAAAAT-GTGATCGTTGTTAAAATTTCATAATGTCT-AAAATATAGTTTCAACAT
1 TTTTTATCTTAAAAATAAT-ATAATTGTTAAAATTTCAGAATAT-TGAAAATAAAGTTTCAACAT
26036293 TCTCTATA
64 TCTCTATA
*
26036301 TTTTTATATTAAAAA
1 TTTTTATCTTAAAAA
26036316 CATAATCTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
70 1 0.01
71 67 0.93
72 4 0.06
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (71 bp):
TTTTTATCTTAAAAATAATATAATTGTTAAAATTTCAGAATATTGAAAATAAAGTTTCAACATTC
TCTATA
Found at i:26038352 original size:6 final size:7
Alignment explanation
Indices: 26038335--26038360 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
26038325 TAAAAAGTTT
26038335 AAAAAGG
1 AAAAAGG
26038342 AAAAAGG
1 AAAAAGG
26038349 AAAAAGG
1 AAAAAGG
26038356 AAAAA
1 AAAAA
26038361 ACAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:26039777 original size:35 final size:34
Alignment explanation
Indices: 26039678--26039781 Score: 102
Period size: 35 Copynumber: 3.1 Consensus size: 34
26039668 GAAACATAAA
* * *
26039678 TTTTAAAATTTTTGAAAATAAAAATTT-GAAAAC
1 TTTTAAAATTTTTGAATATAAAAATTTAAAAAAT
* ** **
26039711 TTTAAAAATTTTTGAATATGTAAATCCAAAAAAT
1 TTTTAAAATTTTTGAATATAAAAATTTAAAAAAT
* *
26039745 TTTTAAAAGTTTTTGGATATACAAATTTAAAAAAT
1 TTTTAAAA-TTTTTGAATATAAAAATTTAAAAAAT
26039780 TT
1 TT
26039782 AAAAATCTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 21 0.38
34 11 0.20
35 23 0.42
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (34 bp):
TTTTAAAATTTTTGAATATAAAAATTTAAAAAAT
Found at i:26039810 original size:34 final size:33
Alignment explanation
Indices: 26039675--26039810 Score: 119
Period size: 33 Copynumber: 4.0 Consensus size: 33
26039665 AATGAAACAT
* * * * *
26039675 AAATTTTAAAATTTTTGAAAATAAAAATTTGAA
1 AAATTTAAAAATTTTTGAATATATAAATCTAAA
* * *
26039708 AACTTTAAAAATTTTTGAATATGTAAATCCAAA
1 AAATTTAAAAATTTTTGAATATATAAATCTAAA
* * * *
26039741 AAATTTTTAAAAGTTTTTGGATATACAAATTTAAA
1 AAA--TTTAAAAATTTTTGAATATATAAATCTAAA
* *
26039776 AAATTTAAAAATCTTTCGAATTTATAAATCTAAA
1 AAATTTAAAAAT-TTTTGAATATATAAATCTAAA
26039810 A
1 A
26039811 GCTTAAATGT
Statistics
Matches: 79, Mismatches: 21, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
33 35 0.44
34 17 0.22
35 27 0.34
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (33 bp):
AAATTTAAAAATTTTTGAATATATAAATCTAAA
Found at i:26040133 original size:24 final size:23
Alignment explanation
Indices: 26040085--26040140 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
26040075 TAAATTTTTT
* *
26040085 ATTAAAAT-ATTTTTTAATTACA
1 ATTATAATAATTTTTTAATCACA
*
26040107 ATTATAATAATTTTTTAAATCATA
1 ATTATAATAATTTTTT-AATCACA
26040131 ATTATAATAA
1 ATTATAATAA
26040141 ATTTATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 7 0.24
23 7 0.24
24 15 0.52
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTATAATAATTTTTTAATCACA
Found at i:26066991 original size:7 final size:7
Alignment explanation
Indices: 26066979--26067009 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
26066969 TACGAAGTTC
26066979 ATTTCAG
1 ATTTCAG
26066986 ATTTCAG
1 ATTTCAG
26066993 ATTTCAG
1 ATTTCAG
26067000 ATTTCAG
1 ATTTCAG
26067007 ATT
1 ATT
26067010 AAAAGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (7 bp):
ATTTCAG
Found at i:26067091 original size:21 final size:19
Alignment explanation
Indices: 26067051--26067094 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
26067041 TTAAATCAAA
* *
26067051 TTATATATTTTTTTAGTTT
1 TTATATATATTTTAAGTTT
26067070 TTATATATATTTTAAGTTT
1 TTATATATATTTTAAGTTT
26067089 TT-TATA
1 TTATATA
26067095 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTATATATATTTTAAGTTT
Found at i:26067102 original size:5 final size:5
Alignment explanation
Indices: 26067092--26067142 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
26067082 TAAGTTTTTT
* *
26067092 ATAAA ATAAAA ATAAAA ATAAA ATAAA ATAAT A-AAA ATAAT ATAAA A-AAA
1 ATAAA AT-AAA AT-AAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
26067142 A
1 A
26067143 AACCTAATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
4 7 0.17
5 22 0.55
6 11 0.28
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:26067105 original size:6 final size:6
Alignment explanation
Indices: 26067094--26067144 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
26067084 AGTTTTTTAT
*
26067094 AAAATA AAAATA AAAAT- AAAATAA AATAATA AAAAT- AATATA AAAA-A
1 AAAATA AAAATA AAAATA AAAAT-A AA-AATA AAAATA AAAATA AAAATA
26067141 AAAA
1 AAAA
26067145 CCTAATTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 14 0.36
6 17 0.44
7 5 0.13
8 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:26067126 original size:19 final size:18
Alignment explanation
Indices: 26067092--26067144 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 18
26067082 TAAGTTTTTT
26067092 ATAAAAT-AAAAATAAAA
1 ATAAAATAAAAAATAAAA
26067109 ATAAAATAAAATAATAAAA
1 ATAAAATAAAA-AATAAAA
*
26067128 ATAATATAAAAAA-AAAA
1 ATAAAATAAAAAATAAAA
26067145 CCTAATTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 11 0.33
18 5 0.15
19 17 0.52
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAAAATAAAAAATAAAA
Found at i:26067139 original size:25 final size:25
Alignment explanation
Indices: 26067096--26067143 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
26067086 TTTTTTATAA
*
26067096 AATAAAAATAAAAATAAAATAAAAT
1 AATAAAAATAAAAATAAAAAAAAAT
*
26067121 AATAAAAAT-AATATAAAAAAAAA
1 AATAAAAATAAAAATAAAAAAAAA
26067144 ACCTAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (25 bp):
AATAAAAATAAAAATAAAAAAAAAT
Found at i:26067635 original size:2 final size:2
Alignment explanation
Indices: 26067628--26067667 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
26067618 CTGCCTTTCA
26067628 AT AT 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 AT AT
26067668 GCATATTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26067981 original size:3 final size:3
Alignment explanation
Indices: 26067960--26068022 Score: 60
Period size: 3 Copynumber: 22.0 Consensus size: 3
26067950 CATTTCAGTT
* ** **
26067960 TAA TAT TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26068007 -AA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
26068023 AAAAAGAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
2 6 0.12
3 42 0.88
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:26068356 original size:14 final size:14
Alignment explanation
Indices: 26068333--26068373 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
26068323 ACTCATACCC
*
26068333 AAACAGAAACACAA
1 AAACAAAAACACAA
26068347 AAACAAAAACA-AA
1 AAACAAAAACACAA
*
26068360 AAA-AAAAAGACAA
1 AAACAAAAACACAA
26068373 A
1 A
26068374 CAGTCCTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.25
13 8 0.33
14 10 0.42
ACGTcount: A:0.80, C:0.15, G:0.05, T:0.00
Consensus pattern (14 bp):
AAACAAAAACACAA
Found at i:26068973 original size:12 final size:12
Alignment explanation
Indices: 26068956--26068987 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
26068946 CAGACTAACA
26068956 TTGACCGGATCG
1 TTGACCGGATCG
26068968 TTGACCGGATCG
1 TTGACCGGATCG
26068980 TTGACCGG
1 TTGACCGG
26068988 TTCAGTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.16, C:0.25, G:0.34, T:0.25
Consensus pattern (12 bp):
TTGACCGGATCG
Found at i:26069551 original size:16 final size:15
Alignment explanation
Indices: 26069516--26069617 Score: 68
Period size: 15 Copynumber: 6.8 Consensus size: 15
26069506 TAAAACCTTT
*
26069516 AAACCCTTAAATTCA
1 AAACCCTAAAATTCA
*
26069531 AACCCCTAAAATTCA
1 AAACCCTAAAATTCA
26069546 AAACCCTAAAATCTCA
1 AAACCCTAAAAT-TCA
* * * *
26069562 ATA--TTTAAA-TCC
1 AAACCCTAAAATTCA
* *
26069574 AGACCCCAAAATTCA
1 AAACCCTAAAATTCA
26069589 AAACCCCCTAAAA-TCTA
1 AAA--CCCTAAAATTC-A
26069606 AAACCCTAAAAT
1 AAACCCTAAAAT
26069618 CTAAATTTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
12 4 0.06
14 7 0.11
15 36 0.55
16 7 0.11
17 11 0.17
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (15 bp):
AAACCCTAAAATTCA
Found at i:26069618 original size:15 final size:15
Alignment explanation
Indices: 26069594--26069645 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
26069584 ATTCAAAACC
26069594 CCCTAAAATCTAAAA
1 CCCTAAAATCTAAAA
*
26069609 CCCTAAAATCTAAAT
1 CCCTAAAATCTAAAA
***
26069624 TTTTAAAATCGTAAAA
1 CCCTAAAATC-TAAAA
26069640 CCCTAA
1 CCCTAA
26069646 CCTTTAAAAC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
15 21 0.75
16 7 0.25
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (15 bp):
CCCTAAAATCTAAAA
Found at i:26070226 original size:23 final size:21
Alignment explanation
Indices: 26070184--26070227 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
26070174 TTATCTTCAA
**
26070184 TAAAGATTATTATTTTATTTT
1 TAAAGATTATTATTAAATTTT
26070205 TAAAGATTATCGTATTAAATTTT
1 TAAAGATTAT--TATTAAATTTT
26070228 AACCGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (21 bp):
TAAAGATTATTATTAAATTTT
Found at i:26071282 original size:21 final size:22
Alignment explanation
Indices: 26071246--26071298 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
26071236 ATAATAATTT
*
26071246 TATATCAAAATTTATTTAAAT-A
1 TATAT-AAAATTTATTAAAATAA
26071268 TA-ATAAAATTTTATTAAAATAA
1 TATATAAAA-TTTATTAAAATAA
26071290 TATATAAAA
1 TATATAAAA
26071299 AAATTTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.15
21 12 0.44
22 5 0.19
23 6 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATAAAATTTATTAAAATAA
Found at i:26073277 original size:2 final size:2
Alignment explanation
Indices: 26073270--26073295 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26073260 ATTAAAGATC
26073270 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
26073296 TGCCAGTTTG
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):
AT
Found at i:26073787 original size:6 final size:6
Alignment explanation
Indices: 26073776--26073801 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
26073766 CAAGATCGGT
26073776 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
26073802 TAAATAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:26074238 original size:16 final size:16
Alignment explanation
Indices: 26074209--26074263 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
26074199 TTCATCATAT
*
26074209 ATTATTATTTAAAATAA
1 ATTA-TATTAAAAATAA
26074226 ATTATATTAAAAATAAA
1 ATTATATTAAAAAT-AA
*
26074243 TATTATATTAATTAATAA
1 -ATTATATTAA-AAATAA
26074261 ATT
1 ATT
26074264 TATAATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 9 0.27
17 9 0.27
18 12 0.36
19 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTATATTAAAAATAA
Found at i:26074282 original size:37 final size:31
Alignment explanation
Indices: 26074205--26074284 Score: 79
Period size: 37 Copynumber: 2.4 Consensus size: 31
26074195 TTTGTTCATC
*
26074205 ATATATTATTATTTAAAATAAATTATATTAA
1 ATATAATATTATTTAAAATAAATTATATTAA
*
26074236 AAATAAATATTATATTAATTAATAAATTTATAATTTAA
1 ATAT-AATATTAT-TTAA--AATAAA-TTAT-A-TTAA
26074274 ATATAATATTA
1 ATATAATATTA
26074285 AAATTTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
31 3 0.08
32 7 0.18
33 4 0.10
35 6 0.15
36 4 0.10
37 8 0.21
38 7 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
ATATAATATTATTTAAAATAAATTATATTAA
Found at i:26074293 original size:28 final size:30
Alignment explanation
Indices: 26074262--26074332 Score: 110
Period size: 28 Copynumber: 2.4 Consensus size: 30
26074252 AATTAATAAA
26074262 TTTATAATTTAAATATAATATTAAA-A-TT
1 TTTATAATTTAAATATAATATTAAATATTT
*
26074290 TTTAAAATTTAAATATAATATTAAATATTT
1 TTTATAATTTAAATATAATATTAAATATTT
26074320 TATTATAATTTAA
1 T-TTATAATTTAA
26074333 GAATCCTGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 24 0.63
29 1 0.03
30 3 0.08
31 10 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTATAATTTAAATATAATATTAAATATTT
Found at i:26074411 original size:18 final size:18
Alignment explanation
Indices: 26074388--26074461 Score: 112
Period size: 18 Copynumber: 4.0 Consensus size: 18
26074378 AGCGGCCATC
26074388 GCCCCACCAGCTTTTCTG
1 GCCCCACCAGCTTTTCTG
*
26074406 GCCCCACCTGCTTTTTTCTG
1 GCCCCACCAGC--TTTTCTG
26074426 GCCCCACCAGCTTTTCTG
1 GCCCCACCAGCTTTTCTG
*
26074444 GCCCCACCTGCTTTTCTG
1 GCCCCACCAGCTTTTCTG
26074462 TATTCAATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 34 0.67
20 17 0.33
ACGTcount: A:0.08, C:0.43, G:0.16, T:0.32
Consensus pattern (18 bp):
GCCCCACCAGCTTTTCTG
Found at i:26074424 original size:20 final size:20
Alignment explanation
Indices: 26074399--26074458 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
26074389 CCCCACCAGC
26074399 TTTTCTGGCCCCACCTGCTT
1 TTTTCTGGCCCCACCTGCTT
*
26074419 TTTTCTGGCCCCACCAGC--
1 TTTTCTGGCCCCACCTGCTT
26074437 TTTTCTGGCCCCACCTGCTT
1 TTTTCTGGCCCCACCTGCTT
26074457 TT
1 TT
26074459 CTGTATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.47
20 19 0.53
ACGTcount: A:0.07, C:0.40, G:0.15, T:0.38
Consensus pattern (20 bp):
TTTTCTGGCCCCACCTGCTT
Found at i:26078023 original size:2 final size:2
Alignment explanation
Indices: 26078016--26078052 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26078006 CTTAACCGGA
26078016 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26078053 GTAGCCTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26087657 original size:2 final size:2
Alignment explanation
Indices: 26087650--26087684 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
26087640 TTACCGATAA
26087650 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26087685 ATTGTATGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26088440 original size:28 final size:28
Alignment explanation
Indices: 26088408--26088474 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
26088398 TTTGGGATAT
* *
26088408 CAAGAAATTGTTTAACTTTTGTTGCTTA
1 CAAGAAACTGTATAACTTTTGTTGCTTA
*
26088436 CAAGAAACTGTATAGCTTTTGTTGCTTA
1 CAAGAAACTGTATAACTTTTGTTGCTTA
*
26088464 CAAGATACTGT
1 CAAGAAACTGT
26088475 GCAATTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.40
Consensus pattern (28 bp):
CAAGAAACTGTATAACTTTTGTTGCTTA
Found at i:26100744 original size:28 final size:28
Alignment explanation
Indices: 26100713--26100778 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
26100703 TGGGATTTCT
*
26100713 AAGAAATTGTTTAACTTTTGTTGCTTAC
1 AAGAAATTGTTTAACTTTGGTTGCTTAC
*
26100741 AAGAAATTGTTTAGCTTTGGTTGCTTAC
1 AAGAAATTGTTTAACTTTGGTTGCTTAC
*
26100769 AAGATATTGT
1 AAGAAATTGT
26100779 GCAATTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (28 bp):
AAGAAATTGTTTAACTTTGGTTGCTTAC
Found at i:26101122 original size:8 final size:8
Alignment explanation
Indices: 26101109--26101142 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
26101099 ATTTGTTTAA
26101109 TTTTATAT
1 TTTTATAT
26101117 TTTTATAT
1 TTTTATAT
* *
26101125 TTATATAA
1 TTTTATAT
26101133 TTTTATAT
1 TTTTATAT
26101141 TT
1 TT
26101143 ACATTAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTATAT
Found at i:26101131 original size:16 final size:16
Alignment explanation
Indices: 26101104--26101143 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
26101094 AAATTATTTG
*
26101104 TTTA-ATTT-TATATT
1 TTTATATTTATATAAT
26101118 TTTATATTTATATAAT
1 TTTATATTTATATAAT
26101134 TTTATATTTA
1 TTTATATTTA
26101144 CATTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.17
15 4 0.17
16 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATATTTATATAAT
Found at i:26101160 original size:18 final size:19
Alignment explanation
Indices: 26101137--26101180 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
26101127 ATATAATTTT
26101137 ATATTTACATT-AAAAATA
1 ATATTTACATTCAAAAATA
* *
26101155 ATATTTTATATTCAAAAATT
1 ATA-TTTACATTCAAAAATA
26101175 ATATTT
1 ATATTT
26101181 TATTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 3 0.14
19 10 0.45
20 9 0.41
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATTTACATTCAAAAATA
Found at i:26107331 original size:15 final size:15
Alignment explanation
Indices: 26107297--26107325 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26107287 TTTTGATATG
26107297 ATATTATATAAAATA
1 ATATTATATAAAATA
26107312 ATATTATATAAAAT
1 ATATTATATAAAAT
26107326 CGTATTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATTATATAAAATA
Found at i:26107344 original size:6 final size:6
Alignment explanation
Indices: 26107333--26107358 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
26107323 AATCGTATTC
26107333 AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AA
26107359 CTTTTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:26107408 original size:2 final size:2
Alignment explanation
Indices: 26107401--26107427 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26107391 CAAAACCTAC
26107401 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 A
26107428 ATAACTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26107883 original size:29 final size:29
Alignment explanation
Indices: 26107831--26107886 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
26107821 AATATACACG
* *
26107831 AATAAACATAACTAATATAGATATATATA
1 AATAAACATAACTAATAAAAATATATATA
*
26107860 AATAAACATGACTAATAAAAATATATA
1 AATAAACATAACTAATAAAAATATATA
26107887 CAAAAACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.29
Consensus pattern (29 bp):
AATAAACATAACTAATAAAAATATATATA
Found at i:26107893 original size:27 final size:29
Alignment explanation
Indices: 26107831--26107897 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 29
26107821 AATATACACG
* *
26107831 AATAAACATAACTAATATAGATATATATA
1 AATAAACATGACTAATATAGAAATATATA
26107860 AATAAACATGACTAATA-A-AAATATATA
1 AATAAACATGACTAATATAGAAATATATA
26107887 CAA-AAACATGA
1 -AATAAACATGA
26107898 TTAAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.46
28 3 0.09
29 16 0.46
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.25
Consensus pattern (29 bp):
AATAAACATGACTAATATAGAAATATATA
Found at i:26107905 original size:29 final size:28
Alignment explanation
Indices: 26107831--26107912 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
26107821 AATATACACG
*
26107831 AATAAACATAACTAAT-ATAGATATATATA
1 AATAAACATGACTAATAATA-A-ATATATA
26107860 AATAAACATGACTAATAA-AAATATATA
1 AATAAACATGACTAATAATAAATATATA
*
26107887 CAA-AAACATGATTAAAATAATAAATA
1 -AATAAACATGACT--AATAATAAATA
26107913 ATTATAAACA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
27 16 0.35
28 3 0.07
29 21 0.46
30 6 0.13
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (28 bp):
AATAAACATGACTAATAATAAATATATA
Found at i:26109058 original size:16 final size:17
Alignment explanation
Indices: 26109037--26109068 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
26109027 TAATGTTCAA
26109037 TAATT-ATTTAAAATTT
1 TAATTAATTTAAAATTT
26109053 TAATTAATTTAAAATT
1 TAATTAATTTAAAATT
26109069 AAATCAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTAATTTAAAATTT
Found at i:26115037 original size:30 final size:31
Alignment explanation
Indices: 26115002--26115071 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
26114992 CGTAAATGAC
26115002 TATAAATCATATTTAATGATATCAAATAAA-
1 TATAAATCATATTTAATGATATCAAATAAAT
* * *
26115032 TATAAATTATATTTAATGATCTCATATAAAT
1 TATAAATCATATTTAATGATATCAAATAAAT
*
26115063 TAGAAATCA
1 TATAAATCA
26115072 AGTTAGAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 27 0.79
31 7 0.21
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (31 bp):
TATAAATCATATTTAATGATATCAAATAAAT
Found at i:26120585 original size:2 final size:2
Alignment explanation
Indices: 26120578--26120613 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26120568 CAAGCATTGT
26120578 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
26120614 ATCTTAAATA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:26123412 original size:15 final size:15
Alignment explanation
Indices: 26123392--26123423 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
26123382 ACGACCAGAA
26123392 GTCAAATTTGTCCAT
1 GTCAAATTTGTCCAT
*
26123407 GTCAAATTTGTTCAT
1 GTCAAATTTGTCCAT
26123422 GT
1 GT
26123424 TTTCAACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (15 bp):
GTCAAATTTGTCCAT
Found at i:26123443 original size:2 final size:2
Alignment explanation
Indices: 26123436--26123473 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
26123426 TCAACACTTT
26123436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26123474 CTTTAAAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26131120 original size:36 final size:33
Alignment explanation
Indices: 26131080--26131153 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 33
26131070 TATAACACGT
26131080 AATATTATATAAAATATGATATAAATATATATTATC
1 AATATTATATAAAATATGA-ATAAATA-A-ATTATC
* *
26131116 AATATTTTATATAATATGAATAAATAAATTATC
1 AATATTATATAAAATATGAATAAATAAATTATC
26131149 -ATATT
1 AATATT
26131154 TAATTTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 5 0.14
33 6 0.17
34 1 0.03
35 7 0.19
36 17 0.47
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (33 bp):
AATATTATATAAAATATGAATAAATAAATTATC
Found at i:26131844 original size:16 final size:16
Alignment explanation
Indices: 26131823--26131856 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
26131813 TGATACAGTG
26131823 GTTTCTGTATGAAAAT
1 GTTTCTGTATGAAAAT
26131839 GTTTCTGTATGAAAAT
1 GTTTCTGTATGAAAAT
26131855 GT
1 GT
26131857 AAGTAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (16 bp):
GTTTCTGTATGAAAAT
Found at i:26133383 original size:2 final size:2
Alignment explanation
Indices: 26133370--26133407 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
26133360 CCAACAACAA
*
26133370 AT AT AT AG 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 AT
26133408 GGTTTAAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26134116 original size:13 final size:13
Alignment explanation
Indices: 26134098--26134132 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
26134088 TCGGATAAGA
*
26134098 TTTTTTGAAAATT
1 TTTTTTAAAAATT
26134111 TTTTTTAAAAATT
1 TTTTTTAAAAATT
*
26134124 TGTTTTAAA
1 TTTTTTAAA
26134133 TTAACATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (13 bp):
TTTTTTAAAAATT
Found at i:26145468 original size:16 final size:17
Alignment explanation
Indices: 26145433--26145497 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
26145423 TTATTTATAT
* *
26145433 TTTAATATTATTTAACA
1 TTTAATATTATTAAAAA
26145450 TTTAAT-TTATTAAAAA
1 TTTAATATTATTAAAAA
* *
26145466 TTT-AT-TTAATCAAAA
1 TTTAATATTATTAAAAA
26145481 TATTAATATATATTAAA
1 T-TTAATAT-TATTAAA
26145498 TTATATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 11 0.29
16 13 0.34
17 8 0.21
18 1 0.03
19 5 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAATATTATTAAAAA
Found at i:26149121 original size:6 final size:6
Alignment explanation
Indices: 26149110--26149158 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
26149100 TTTGGTATCT
*
26149110 TTTTTA TTTTTA TTTTTA TTTTTCA GTTTTA CTTTATT- TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA -TTT-TTA TTTTTA TTTTT
26149159 TTTGTTATCC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 2 0.05
6 26 0.70
7 7 0.19
8 2 0.05
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:26149161 original size:12 final size:12
Alignment explanation
Indices: 26149109--26149166 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
26149099 CTTTGGTATC
26149109 TTTTTTATTTTT
1 TTTTTTATTTTT
*
26149121 ATTTTTATTTTT
1 TTTTTTATTTTT
** *
26149133 CAGTTTTACTTTAT
1 -TTTTTTA-TTTTT
26149147 TTTTTTATTTTT
1 TTTTTTATTTTT
*
26149159 TTTGTTAT
1 TTTTTTAT
26149167 CCTCCTTCTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 22 0.59
13 11 0.30
14 4 0.11
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:26157223 original size:52 final size:50
Alignment explanation
Indices: 26157133--26157257 Score: 144
Period size: 52 Copynumber: 2.5 Consensus size: 50
26157123 TGGACAATAA
* * *
26157133 GACTTGCAA-AGAAAAATTCTAAAAGAAAATATTCTTAATAGATAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGAAAAGATTCTTAATAGACAAGTTT
** *
26157182 GACTTGCAAGAGAAGAATTCTAAGGGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAA-AAGAAA-AGATTCTTAATAGACAAGTTT
* * *
26157234 CACTTACAGGAGAAGAATTCTAAA
1 GACTTGCAAGAGAAGAATTCTAAA
26157258 GATGTAAGAG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 9 0.14
50 12 0.19
51 4 0.06
52 38 0.60
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.26
Consensus pattern (50 bp):
GACTTGCAAGAGAAGAATTCTAAAAGAAAAGATTCTTAATAGACAAGTTT
Found at i:26158198 original size:22 final size:21
Alignment explanation
Indices: 26158164--26158205 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
26158154 TAAAATATAT
*
26158164 TTTTTAAAATTTTATTAAAAC
1 TTTTTAAAATTTTACTAAAAC
*
26158185 TTTTTATAATTTTTACTAAAA
1 TTTTTA-AAATTTTACTAAAA
26158206 TTTAAAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTACTAAAAC
Found at i:26161942 original size:2 final size:2
Alignment explanation
Indices: 26161924--26161964 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
26161914 CCCTTTCCCC
* *
26161924 AT AT CT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26161965 ATCTTTATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26162495 original size:20 final size:21
Alignment explanation
Indices: 26162465--26162516 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
26162455 ATATATATTT
26162465 ATTTATTTATTTAATAA-ATAA
1 ATTT-TTTATTTAATAATATAA
26162486 ATTTTTTATTTAATAATATAA
1 ATTTTTTATTTAATAATATAA
*
26162507 A-ATTTTATTT
1 ATTTTTTATTT
26162517 TTGGATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTTTATTTAATAATATAA
Found at i:26167488 original size:10 final size:10
Alignment explanation
Indices: 26167473--26167498 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
26167463 TTCAAATAAT
26167473 AAATTTTCGA
1 AAATTTTCGA
26167483 AAATTTTCGA
1 AAATTTTCGA
26167493 AAATTT
1 AAATTT
26167499 CAAACTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (10 bp):
AAATTTTCGA
Found at i:26168747 original size:11 final size:12
Alignment explanation
Indices: 26168700--26168766 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 12
26168690 AATCGAGATT
*
26168700 TAAAATATGATA
1 TAAAATATAATA
*
26168712 TAATAATTTAATA
1 TAA-AATATAATA
*
26168725 TAAATATGATATAAA
1 TAAA-AT-ATA-ATA
26168740 TAAAATATATATA
1 TAAAATATA-ATA
26168753 TAAAA-ATAATA
1 TAAAATATAATA
26168764 TAA
1 TAA
26168767 TTTAAAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.13
12 7 0.15
13 23 0.50
14 4 0.09
15 6 0.13
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:26168749 original size:24 final size:24
Alignment explanation
Indices: 26168702--26168752 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
26168692 TCGAGATTTA
**
26168702 AAATATGATATAATAATTTAATAT
1 AAATATGATATAATAAAATAATAT
26168726 AAATATGATATAAATAAAATATATAT
1 AAATATGATAT-AATAAAATA-ATAT
26168752 A
1 A
26168753 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 7 0.30
26 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATGATATAATAAAATAATAT
Found at i:26168978 original size:20 final size:20
Alignment explanation
Indices: 26168955--26169000 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
26168945 TTAATATGTT
*
26168955 ATTAAAATTAAAATTTTAAA
1 ATTAAAAGTAAAATTTTAAA
**
26168975 ATTACGAGTAAAATTTTAAA
1 ATTAAAAGTAAAATTTTAAA
26168995 A-TAAAA
1 ATTAAAA
26169001 AATCACGAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTAAAAGTAAAATTTTAAA
Found at i:26176138 original size:21 final size:20
Alignment explanation
Indices: 26176114--26176152 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26176104 CATGAAAATG
*
26176114 CCACAGTTAAACATTGGCACC
1 CCAC-GTTAAACAGTGGCACC
*
26176135 CCACGTTGAACAGTGGCA
1 CCACGTTAAACAGTGGCA
26176153 ACAATCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.18
Consensus pattern (20 bp):
CCACGTTAAACAGTGGCACC
Found at i:26177234 original size:87 final size:87
Alignment explanation
Indices: 26177132--26177306 Score: 323
Period size: 87 Copynumber: 2.0 Consensus size: 87
26177122 CGGGCACATT
* *
26177132 ATGGGATTTAAGTTTACAGTTTTCCAAACGCTGCAACCTCTAGACAAGCAGAGGTTCAAGCATGT
1 ATGGGATTTAAGTTTACAGTTTTCCAAACGCTGCAACCTCTAGACAAGCAGAAGTTCAAGCATAT
26177197 TCAGGACACATTATGGGATTTA
66 TCAGGACACATTATGGGATTTA
26177219 ATGGGATTTAAGTTTACAGTTTTCCAAACGCTGCAACCTCTAGACAAGCAGAAGTTCAAGCATAT
1 ATGGGATTTAAGTTTACAGTTTTCCAAACGCTGCAACCTCTAGACAAGCAGAAGTTCAAGCATAT
*
26177284 TCAGGGCACATTATGGGATTTA
66 TCAGGACACATTATGGGATTTA
26177306 A
1 A
26177307 GTTTACAGTT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (87 bp):
ATGGGATTTAAGTTTACAGTTTTCCAAACGCTGCAACCTCTAGACAAGCAGAAGTTCAAGCATAT
TCAGGACACATTATGGGATTTA
Found at i:26178231 original size:117 final size:117
Alignment explanation
Indices: 26178023--26178241 Score: 309
Period size: 117 Copynumber: 1.9 Consensus size: 117
26178013 GGGAGCCTTG
* * *
26178023 AGATTGGGTTGATCGGATTTAGGGGCGTCGGGGCAGTCACGTGCCCAGTGGCCTGGTCGTCCGCA
1 AGATTGGGTTGATCGGATTTAGGGGCATCGGGGCAGTCACGTGACCAGTGACCTGGTCGTCCGCA
* *
26178088 CTTGTAGCAACCTGTCGCGGCCGAATTTGTATTCTCCGATGCGACTCTTCTC
66 CTTGTAGCAACCTGTCGCGGCCGAATTCGCATTCTCCGATGCGACTCTTCTC
* *
26178140 AGATTGGGATTG-TCGGATTT-GGGGTCATCGGGGCAGTCATGTGACCAGTGACCTGTTCGTCCG
1 AGATTGGG-TTGATCGGATTTAGGGG-CATCGGGGCAGTCACGTGACCAGTGACCTGGTCGTCCG
* *
26178203 CATTTGTAGCAACCTGTCG-GAGCTGAATTCGCATTCTCC
64 CACTTGTAGCAACCTGTCGCG-GCCGAATTCGCATTCTCC
26178242 ATTTCCTTCT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
116 5 0.06
117 82 0.91
118 3 0.03
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (117 bp):
AGATTGGGTTGATCGGATTTAGGGGCATCGGGGCAGTCACGTGACCAGTGACCTGGTCGTCCGCA
CTTGTAGCAACCTGTCGCGGCCGAATTCGCATTCTCCGATGCGACTCTTCTC
Found at i:26180239 original size:31 final size:33
Alignment explanation
Indices: 26180203--26180274 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 33
26180193 AATAGATTTT
*
26180203 TATTAAATAAT-ATAAATTATTATTTCAAAT-TA
1 TATTAAA-AATGATAAATTATTATTTAAAATATA
* *
26180235 -ATTAAAAATGATATATTTTTATTTAAAATATA
1 TATTAAAAATGATAAATTATTATTTAAAATATA
26180267 TATTAAAA
1 TATTAAAA
26180275 TATTAACTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 3 0.09
31 22 0.65
32 2 0.06
33 7 0.21
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (33 bp):
TATTAAAAATGATAAATTATTATTTAAAATATA
Found at i:26186810 original size:28 final size:28
Alignment explanation
Indices: 26186759--26186815 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
26186749 AAATATAGAT
26186759 AAATTTTAATAAAATTTATATAAT-ATA
1 AAATTTTAATAAAATTTATATAATCATA
* * *
26186786 AAATTTTCATTAAAATTTTTTTAATCATA
1 AAATTTT-AATAAAATTTATATAATCATA
26186815 A
1 A
26186816 TTATAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.28
28 14 0.56
29 4 0.16
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATTTTAATAAAATTTATATAATCATA
Found at i:26188078 original size:17 final size:17
Alignment explanation
Indices: 26188030--26188087 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
26188020 GATATGAATA
*
26188030 AAAAAATAAAAATT-AT
1 AAAAATTAAAAATTAAT
* *
26188046 ATAATTTAAAATATTAAT
1 AAAAATTAAAA-ATTAAT
26188064 AAAAATTAAAAATTAATT
1 AAAAATTAAAAATTAA-T
26188082 AAAAAT
1 AAAAAT
26188088 ATTTTTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.24
17 8 0.24
18 18 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATTAAAAATTAAT
Found at i:26188117 original size:18 final size:17
Alignment explanation
Indices: 26188028--26188117 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 17
26188018 ATGATATGAA
26188028 TAAAAAAA-TAAAA-AT
1 TAAAAAAATTAAAATAT
* * *
26188043 TATATAATTTAAAATAT
1 TAAAAAAATTAAAATAT
26188060 TAATAAAAATTAAAAATTAAT
1 TAA-AAAAATT-AAAA-T-AT
* ***
26188081 TAAAAATATTTTTATAT
1 TAAAAAAATTAAAATAT
26188098 TAAAATAAATTAAAATAT
1 TAAAA-AAATTAAAATAT
26188116 TA
1 TA
26188118 TTTTTATATA
Statistics
Matches: 54, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
15 5 0.09
16 5 0.09
17 11 0.20
18 16 0.30
19 5 0.09
20 7 0.13
21 5 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAAAATTAAAATAT
Found at i:26188137 original size:29 final size:30
Alignment explanation
Indices: 26188072--26188144 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
26188062 ATAAAAATTA
26188072 AAAAT-TAATTAAAA-A-TATTTTTATATT
1 AAAATATAATTAAAATATTATTTTTATATT
26188099 AAAATA-AATTAAAATATTATTTTTATA-T
1 AAAATATAATTAAAATATTATTTTTATATT
*
26188127 AAAATATAATTAGAATAT
1 AAAATATAATTAAAATAT
26188145 ATAAATTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
27 13 0.32
28 8 0.20
29 20 0.49
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (30 bp):
AAAATATAATTAAAATATTATTTTTATATT
Found at i:26201560 original size:20 final size:19
Alignment explanation
Indices: 26201535--26201576 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
26201525 AGAGGAGAGG
*
26201535 AAAGAAAGAAAAGTAAAATA
1 AAAGAAAGAAAAG-AAAACA
*
26201555 AAAGAAAGTAAAGAAAACA
1 AAAGAAAGAAAAGAAAACA
26201574 AAA
1 AAA
26201577 CCACATTCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.07
Consensus pattern (19 bp):
AAAGAAAGAAAAGAAAACA
Found at i:26204326 original size:2 final size:2
Alignment explanation
Indices: 26204319--26204357 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
26204309 AAAACATAAA
26204319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26204358 GAAATCCACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26208368 original size:13 final size:13
Alignment explanation
Indices: 26208340--26208379 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
26208330 GCTTTTATTG
26208340 TTAAATATTTAAT
1 TTAAATATTTAAT
26208353 TTAAA-ATTTAACT
1 TTAAATATTTAA-T
*
26208366 TTAAATTTTTAAT
1 TTAAATATTTAAT
26208379 T
1 T
26208380 ACAAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 6 0.25
13 13 0.54
14 5 0.21
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAAATATTTAAT
Found at i:26208595 original size:15 final size:15
Alignment explanation
Indices: 26208577--26208618 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
26208567 TACGTCTTTC
26208577 TAATTTTTAAAAAAT
1 TAATTTTTAAAAAAT
* * *
26208592 TAATCTTTATAATAT
1 TAATTTTTAAAAAAT
26208607 T-ATTTTTAAAAA
1 TAATTTTTAAAAA
26208619 TTTTAATCCT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTTTTAAAAAAT
Found at i:26208649 original size:31 final size:29
Alignment explanation
Indices: 26208579--26208657 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 29
26208569 CGTCTTTCTA
* *
26208579 ATTTTTAAAAAATTAATCTTTATAATATT
1 ATTTTTAAAAATTTAATCCTTATAATATT
*
26208608 ATTTTTAAAAATTTTAATCCTTATCATATT
1 ATTTTTAAAAA-TTTAATCCTTATAATATT
26208638 ATTCTTTAAAAAATTTAATC
1 ATT-TTT-AAAAATTTAATC
26208658 TCTGTACATA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 11 0.25
30 18 0.41
31 10 0.23
32 5 0.11
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTTTAAAAATTTAATCCTTATAATATT
Found at i:26209527 original size:19 final size:18
Alignment explanation
Indices: 26209503--26209543 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
26209493 ATTTTGAATC
26209503 AAATTATTTTAATTAAATT
1 AAATTATTTTAATT-AATT
*
26209522 AAATTATTTTTATTAATT
1 AAATTATTTTAATTAATT
26209540 AAAT
1 AAAT
26209544 CAAATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTATTTTAATTAATT
Found at i:26209560 original size:23 final size:22
Alignment explanation
Indices: 26209505--26209560 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
26209495 TTTGAATCAA
*
26209505 ATTATTTTAATTAAATTAAATT
1 ATTATTTTAATTAAATCAAATT
*
26209527 ATTTTTATTAATTAAATCAAATT
1 ATTATT-TTAATTAAATCAAATT
26209550 ATTAATTTTAA
1 ATT-ATTTTAA
26209561 AAATTAATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.17
23 22 0.76
24 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATTTTAATTAAATCAAATT
Found at i:26209765 original size:22 final size:23
Alignment explanation
Indices: 26209738--26209803 Score: 82
Period size: 22 Copynumber: 2.9 Consensus size: 23
26209728 TAAAATAAAA
26209738 TAATTAATTTTATATTTAAATTT
1 TAATTAATTTTATATTTAAATTT
*
26209761 T-ATTATATTTTA-ATTAAAATTT
1 TAATTA-ATTTTATATTTAAATTT
* *
26209783 TAATTAATTTAATTTTTAAAT
1 TAATTAATTTTATATTTAAAT
26209804 AAAATTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TAATTAATTTTATATTTAAATTT
Found at i:26209784 original size:12 final size:12
Alignment explanation
Indices: 26209743--26209789 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
26209733 TAAAATAATT
*
26209743 AATTTTATATTTA
1 AATTTTA-ATTAA
26209756 AATTTT-ATT-A
1 AATTTTAATTAA
*
26209766 TATTTTAATTAA
1 AATTTTAATTAA
26209778 AATTTTAATTAA
1 AATTTTAATTAA
26209790 TTTAATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 6 0.20
11 6 0.20
12 12 0.40
13 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTTTAATTAA
Found at i:26209909 original size:27 final size:27
Alignment explanation
Indices: 26209850--26209911 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
26209840 CTAAATTAAT
*
26209850 TTGAT-AATTAATCAAATTAAATCGAT
1 TTGATAAATTAATCAAATTAAATCGAA
* *
26209876 TTGATAAATTAATTAAATTAAAATTGAA
1 TTGATAAATTAATCAAATT-AAATCGAA
26209904 TT-ATAAAT
1 TTGATAAAT
26209912 ATCTCTACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.16
27 18 0.58
28 8 0.26
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.40
Consensus pattern (27 bp):
TTGATAAATTAATCAAATTAAATCGAA
Found at i:26210288 original size:5 final size:5
Alignment explanation
Indices: 26210278--26210346 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
26210268 CGATTAAAAA
* * * *
26210278 AAATT AAATT AAA-T AAATT GATTT AAATT GATTT AACCGATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AA---ATT AAATT
*
26210325 AAATT AAATT AAAAT AAATT AA
1 AAATT AAATT AAATT AAATT AA
26210347 TATAATTAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
4 4 0.08
5 42 0.84
8 4 0.08
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:26210321 original size:47 final size:48
Alignment explanation
Indices: 26210252--26210344 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 48
26210242 TTTCAGTGCC
26210252 TTTAAATTGATTTAACCGATTAAAAAAAATTAAATT-AAATAAATTGA
1 TTTAAATTGATTTAACCGATTAAAAAAAATTAAATTAAAATAAATTGA
**
26210299 TTTAAATTGATTTAACCGATTAAATTAAATTAAATTAAAATAAATT
1 TTTAAATTGATTTAACCGATTAAAAAAAATTAAATTAAAATAAATT
26210345 AATATAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 34 0.79
48 9 0.21
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (48 bp):
TTTAAATTGATTTAACCGATTAAAAAAAATTAAATTAAAATAAATTGA
Found at i:26214504 original size:159 final size:159
Alignment explanation
Indices: 26214262--26214574 Score: 482
Period size: 159 Copynumber: 2.0 Consensus size: 159
26214252 GTTATATGAA
* * *
26214262 TAGAATTCTTCATATGCATGTATATCTTCACTTCCATTCACCATATTCAGTAGTGCTCTTTTTTT
1 TAGAATCCTTCATATGCATGCATATCTTCACTTCCATTCACCATATTCAGTACTGCTCTTTTTTT
* * * * *
26214327 GTCAGGCAAAACTAATCCATATGTTGTTCTAATCCTGGGGGATCAGGATATATGCAGTAAAATGA
66 GTCAGGCAAAACTAATCCATATGTTGTTCTAAGCCTGGGAGATCAAGATATAAGCAGTAAAAAGA
*
26214392 ATAGTCAAACTACTGTTATTGGGCTATCT
131 ATAGTCAAACTACTATTATTGGGCTATCT
* * *
26214421 TAGAATCCTTCATATGCATGCATATCTTCACTTCCATTTACCGTATTCATTACTGCTCTTTTTTT
1 TAGAATCCTTCATATGCATGCATATCTTCACTTCCATTCACCATATTCAGTACTGCTCTTTTTTT
* * * *
26214486 GTCAGGCAAAGCTGATCCATATGTTGTTCTTAGCCTGGGAGATCAAGTTATAAGCAGTAAAAAGA
66 GTCAGGCAAAACTAATCCATATGTTGTTCTAAGCCTGGGAGATCAAGATATAAGCAGTAAAAAGA
26214551 ATAGTCAAACTACTATTATTGGGC
131 ATAGTCAAACTACTATTATTGGGC
26214575 CTCCTGGCGA
Statistics
Matches: 138, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
159 138 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (159 bp):
TAGAATCCTTCATATGCATGCATATCTTCACTTCCATTCACCATATTCAGTACTGCTCTTTTTTT
GTCAGGCAAAACTAATCCATATGTTGTTCTAAGCCTGGGAGATCAAGATATAAGCAGTAAAAAGA
ATAGTCAAACTACTATTATTGGGCTATCT
Found at i:26220857 original size:13 final size:13
Alignment explanation
Indices: 26220841--26220877 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
26220831 ATGAATAAAA
26220841 AAAATTAAAATCG
1 AAAATTAAAATCG
*
26220854 AAAATCAAAATCG
1 AAAATTAAAATCG
26220867 ATAAATTAAAA
1 A-AAATTAAAA
26220878 ATTTTTATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (13 bp):
AAAATTAAAATCG
Found at i:26221846 original size:105 final size:105
Alignment explanation
Indices: 26221659--26221868 Score: 375
Period size: 105 Copynumber: 2.0 Consensus size: 105
26221649 ATTATTCCAA
* *
26221659 GGCTCGCCCTTGTATACATGCTACATTAATCTTCCAAATTCCTTTCTTCATTATGTACTTCAAAG
1 GGCTCGCCCTTGTATACATGCTACATTAATCTTCCAAATTCCTTTCTCCATTATGCACTTCAAAG
*
26221724 ATCCATCGCATAATAAGGTTGCAAATGAAGCAAAGGATTT
66 ATCCATCGCATAATAAGGTTGCAAACGAAGCAAAGGATTT
*
26221764 GGCTCGCCCTTGTATACATGCTACATTAATCTTCCATATTCCTTTCTCCATTATGCACTTCAAAG
1 GGCTCGCCCTTGTATACATGCTACATTAATCTTCCAAATTCCTTTCTCCATTATGCACTTCAAAG
*
26221829 ATCCATCGCATAGTAAGGTTGCAAACGAAGCAAAGGATTT
66 ATCCATCGCATAATAAGGTTGCAAACGAAGCAAAGGATTT
26221869 TTTGTGGCCT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (105 bp):
GGCTCGCCCTTGTATACATGCTACATTAATCTTCCAAATTCCTTTCTCCATTATGCACTTCAAAG
ATCCATCGCATAATAAGGTTGCAAACGAAGCAAAGGATTT
Found at i:26227928 original size:2 final size:2
Alignment explanation
Indices: 26227919--26227951 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
26227909 TGTGTCTACT
*
26227919 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26227952 AATCATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:26229802 original size:2 final size:2
Alignment explanation
Indices: 26229795--26229829 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
26229785 GCACCAGAAA
*
26229795 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
26229830 AGTTGGCTAG
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:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26232376 original size:24 final size:22
Alignment explanation
Indices: 26232324--26232368 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
26232314 AAAAATAATT
*
26232324 TAAAATTGATAAAAATTATATA
1 TAAATTTGATAAAAATTATATA
26232346 TAAATTTGATGAAAAATT-TATA
1 TAAATTTGAT-AAAAATTATATA
26232368 T
1 T
26232369 TTATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
TAAATTTGATAAAAATTATATA
Found at i:26242747 original size:39 final size:39
Alignment explanation
Indices: 26242650--26242747 Score: 99
Period size: 42 Copynumber: 2.4 Consensus size: 39
26242640 AAAATATTCA
* *
26242650 TATTAAAAAAATAATATTATTATATTATTTAACCTTAAT
1 TATTAAAATAATAATATTATTATATTATTTAACATTAAT
* ** *
26242689 TATTAAAATAGTAAAAATATTATTATA-TATGTTATTATTTAT
1 TATT-AAA-A-TAATAATATTATTATATTAT-TTAACATTAAT
26242731 TATTAAAATAATAATAT
1 TATTAAAATAATAATAT
26242748 GACATTATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
39 12 0.25
40 4 0.08
41 7 0.15
42 25 0.52
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (39 bp):
TATTAAAATAATAATATTATTATATTATTTAACATTAAT
Found at i:26249832 original size:20 final size:19
Alignment explanation
Indices: 26249809--26249853 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
26249799 AACTATTTTA
* *
26249809 AAATAAAGATTTATATTATT
1 AAATAAAAATTTAT-TTACT
26249829 AAATAAAAAATTTATTTACT
1 AAAT-AAAAATTTATTTACT
26249849 AAATA
1 AAATA
26249854 TATACATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AAATAAAAATTTATTTACT
Found at i:26251465 original size:18 final size:17
Alignment explanation
Indices: 26251427--26251465 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
26251417 AATCTTTTAT
*
26251427 AATTTTTTATTTAAATT
1 AATTTTTTATTTAAATC
26251444 AATTTTTTATTTAATATC
1 AATTTTTTATTTAA-ATC
26251462 AATT
1 AATT
26251466 AATTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTTTTTATTTAAATC
Found at i:26251481 original size:22 final size:22
Alignment explanation
Indices: 26251440--26251482 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26251430 TTTTTATTTA
** *
26251440 AATTAATTTTTTATTTAATATC
1 AATTAATTTTAAATTAAATATC
26251462 AATTAATTTTAAATTAAATAT
1 AATTAATTTTAAATTAAATAT
26251483 TTAATATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTAATTTTAAATTAAATATC
Found at i:26252371 original size:11 final size:13
Alignment explanation
Indices: 26252350--26252409 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
26252340 AAATAATAAA
26252350 ATTTATATA-TTT
1 ATTTATATATTTT
26252362 ATTT-TATATTTT
1 ATTTATATATTTT
* * *
26252374 ATTTAAAAATTAT
1 ATTTATATATTTT
26252387 ATATTAT-TATTTGT
1 AT-TTATATATTT-T
26252401 ATTTATATA
1 ATTTATATA
26252410 AAAATAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
11 4 0.11
12 11 0.30
13 14 0.38
14 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
ATTTATATATTTT
Found at i:26252406 original size:31 final size:31
Alignment explanation
Indices: 26252345--26252457 Score: 81
Period size: 31 Copynumber: 3.6 Consensus size: 31
26252335 ATATAAAATA
*
26252345 ATAAAATTTATATATTTATTTTATATTTTAT
1 ATAAAAATTATATATTTATTTTATATTTTAT
* *
26252376 TTAAAAATTATATA-TTATTATT-TGTATTTAT
1 ATAAAAATTATATATTTATT-TTATAT-TTTAT
* * * *
26252407 ATAAAAATAAAAAATATATATTT-TATTTTAT
1 ATAAAAATTATATATTTAT-TTTATATTTTAT
* *
26252438 -TAAACATATATATAATTATT
1 ATAAAAAT-TATATATTTATT
26252458 ATTAAAATTT
Statistics
Matches: 62, Mismatches: 15, Indels: 11
0.70 0.17 0.12
Matches are distributed among these distances:
30 14 0.23
31 40 0.65
32 7 0.11
33 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (31 bp):
ATAAAAATTATATATTTATTTTATATTTTAT
Found at i:26252498 original size:29 final size:28
Alignment explanation
Indices: 26252464--26252532 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
26252454 TATTATTAAA
* *
26252464 ATTTTAAATTATATT-ATTTATATATTAT
1 ATTTTAAATTATATTCGTAT-TATATTAT
* *
26252492 TTATTTATATTATATTCGTATTATATTAT
1 AT-TTTAAATTATATTCGTATTATATTAT
26252521 ATTTTAAATTAT
1 ATTTTAAATTAT
26252533 TAAATTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 10 0.30
29 21 0.64
30 2 0.06
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (28 bp):
ATTTTAAATTATATTCGTATTATATTAT
Found at i:26252506 original size:5 final size:5
Alignment explanation
Indices: 26252471--26252523 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
26252461 AAAATTTTAA
* *
26252471 ATTAT ATTAT TTATAT ATTAT -TTAT -TTAT ATTAT ATTCGT ATTAT ATTAT
1 ATTAT ATTAT AT-TAT ATTAT ATTAT ATTAT ATTAT ATT-AT ATTAT ATTAT
26252521 ATT
1 ATT
26252524 TTAAATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 8 0.20
5 25 0.61
6 8 0.20
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (5 bp):
ATTAT
Found at i:26253656 original size:12 final size:12
Alignment explanation
Indices: 26253639--26253669 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26253629 TTGCCTCTTT
26253639 CAAAACAAAAAA
1 CAAAACAAAAAA
26253651 CAAAACAAAAAA
1 CAAAACAAAAAA
*
26253663 AAAAACA
1 CAAAACA
26253670 GACGTCAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
CAAAACAAAAAA
Found at i:26254860 original size:16 final size:17
Alignment explanation
Indices: 26254818--26254867 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
26254808 AAAATACAAT
26254818 AATATTAAATTA-TTTA
1 AATATTAAATTATTTTA
26254834 AA-ATTAAAATTATTTTA
1 AATATT-AAATTATTTTA
*
26254851 AATATT-AATTATATTA
1 AATATTAAATTATTTTA
26254867 A
1 A
26254868 GATTTGAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 3 0.10
16 18 0.60
17 6 0.20
18 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATTAAATTATTTTA
Found at i:26256050 original size:25 final size:26
Alignment explanation
Indices: 26256013--26256097 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 26
26256003 AATAATAATT
*
26256013 ATATATAA-ATTTAATAAAAAATATA
1 ATATATAATTTTTAATAAAAAATATA
*
26256038 TTATAT-ATTTTTATATTAATATAAATTATA
1 ATATATAATTTTTA-A-TAA-A-AAA-TATA
*
26256068 ATATATAATTTTT-ATATAAAATATA
1 ATATATAATTTTTAATAAAAAATATA
26256093 ATATA
1 ATATA
26256098 AATATATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
24 1 0.02
25 18 0.37
26 4 0.08
27 4 0.08
28 3 0.06
29 4 0.08
30 9 0.18
31 6 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATATAATTTTTAATAAAAAATATA
Found at i:26256073 original size:30 final size:29
Alignment explanation
Indices: 26256031--26256104 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
26256021 ATTTAATAAA
*
26256031 AAATATATTATATATTTTTATATTAATAT
1 AAATATAATATATATTTTTATATTAATAT
*
26256060 AAATTATAATATATAATTTTTATA-TAAAAT
1 AAA-TATAATATAT-ATTTTTATATTAATAT
26256090 ATAATATAA-ATATAT
1 A-AATATAATATATAT
26256105 GAATTTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 2 0.05
29 7 0.17
30 20 0.50
31 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
AAATATAATATATATTTTTATATTAATAT
Found at i:26256091 original size:32 final size:30
Alignment explanation
Indices: 26256031--26256111 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 30
26256021 ATTTAATAAA
* *
26256031 AAATATATTATAT-ATTTTTATATTAATAT
1 AAATATAATATATAATTTTTATATAAATAT
26256060 AAATTATAATATATAATTTTTATATAAA-AT
1 AAA-TATAATATATAATTTTTATATAAATAT
26256090 ATAATATAAATATATGAATTTT
1 A-AATAT-AATATAT-AATTTT
26256112 GAATATTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 3 0.07
30 15 0.33
31 21 0.47
32 6 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (30 bp):
AAATATAATATATAATTTTTATATAAATAT
Found at i:26257540 original size:5 final size:5
Alignment explanation
Indices: 26257530--26257558 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
26257520 GTCCCACATC
26257530 ATATT ATATT ATATT ATATT ATA-T ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
26257559 CACATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:26258317 original size:21 final size:20
Alignment explanation
Indices: 26258292--26258341 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
26258282 GTGAAATATT
26258292 ATAAATTAACAAAATAATTAG
1 ATAAATTAACAAAA-AATTAG
* *
26258313 ATAAATTTAATATAAAATTAG
1 ATAAA-TTAACAAAAAATTAG
26258334 ATCAAATT
1 AT-AAATT
26258342 CACACGATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (20 bp):
ATAAATTAACAAAAAATTAG
Found at i:26271954 original size:3 final size:3
Alignment explanation
Indices: 26271946--26271976 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26271936 ACAATAGTTT
26271946 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
26271977 CAAATGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:26274794 original size:80 final size:79
Alignment explanation
Indices: 26274674--26274824 Score: 248
Period size: 80 Copynumber: 1.9 Consensus size: 79
26274664 ACATTGCATA
* * * *
26274674 CAATGTTTGTCTTTTACCATCCAACAATGCAAATGAAATGAAATGCTCTGATCTATCTGAGTCAA
1 CAATGCTTGTCTTTTACCATCCAACAATGCAAATGAAATGAAATAC-ATGATCTATCTGACTCAA
26274739 TGACAGTCTTCGACT
65 TGACAGTCTTCGACT
26274754 CAATGCTTGTCTTTTACCATCCAACAATGCAAATGAAATGAAATACATGATCTATCTGACTCAAT
1 CAATGCTTGTCTTTTACCATCCAACAATGCAAATGAAATGAAATACATGATCTATCTGACTCAAT
*
26274819 GCCAGT
66 GACAGT
26274825 ATTCCAGACC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 22 0.33
80 44 0.67
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (79 bp):
CAATGCTTGTCTTTTACCATCCAACAATGCAAATGAAATGAAATACATGATCTATCTGACTCAAT
GACAGTCTTCGACT
Found at i:26279409 original size:4 final size:4
Alignment explanation
Indices: 26279400--26279439 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
26279390 TATTATATAG
*
26279400 GTAT GTAT GTAT GTAT GTTT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
26279440 TACAAAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (4 bp):
GTAT
Found at i:26285732 original size:20 final size:20
Alignment explanation
Indices: 26285707--26285758 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
26285697 CAAAATTAAC
*
26285707 AAAATATTAAATTTTTATAT
1 AAAATATTAAATTTTTAAAT
26285727 AAAATATT--ATTTTTAAAT
1 AAAATATTAAATTTTTAAAT
*
26285745 ATAAATATAAAATT
1 A-AAATATTAAATT
26285759 ATATAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 8 0.30
21 3 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAATATTAAATTTTTAAAT
Found at i:26285764 original size:16 final size:16
Alignment explanation
Indices: 26285743--26285789 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
26285733 TTATTTTTAA
26285743 ATATAAATATAAAATT
1 ATATAAATATAAAATT
*
26285759 ATATAAATATATAATT
1 ATATAAATATAAAATT
*
26285775 AAATAAATAATAAAA
1 ATATAAAT-ATAAAA
26285790 AAATAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATATAAAATT
Found at i:26285769 original size:8 final size:8
Alignment explanation
Indices: 26285743--26285803 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
26285733 TTATTTTTAA
26285743 ATATAAAT
1 ATATAAAT
26285751 ATA-AAATT
1 ATATAAA-T
26285759 ATATAAAT
1 ATATAAAT
*
26285767 ATATAATT
1 ATATAAAT
*
26285775 AAATAAAT
1 ATATAAAT
*
26285783 A-ATAAAA
1 ATATAAAT
*
26285790 AAATAATAT
1 ATATAA-AT
26285799 ATATA
1 ATATA
26285804 GAGTCAAGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
7 9 0.21
8 26 0.60
9 8 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
ATATAAAT
Found at i:26295189 original size:2 final size:2
Alignment explanation
Indices: 26295182--26295212 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26295172 TACATCACAG
*
26295182 GA GA GA GA GA GA GA GA GA GA GA GA GT GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
26295213 CTTTGTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.52, T:0.03
Consensus pattern (2 bp):
GA
Found at i:26296665 original size:17 final size:16
Alignment explanation
Indices: 26296625--26296657 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26296615 AAAAATTAAA
26296625 AATTTAAAATATAATTT
1 AATTT-AAATATAATTT
26296642 AATTTAAATAT-ATTT
1 AATTTAAATATAATTT
26296657 A
1 A
26296658 TTATTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTAAATATAATTT
Done.