Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, 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: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 37
Found at i:7078221 original size:28 final size:30
Alignment explanation
Indices: 7078188--7078250 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
7078178 TAGTATAAAT
*
7078188 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
7078216 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
7078246 TATTA
1 TATTA
7078251 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:7078800 original size:20 final size:21
Alignment explanation
Indices: 7078756--7078800 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7078746 AAATATTGTG
**
7078756 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
7078777 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
7078797 TTTA
1 TTTA
7078801 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:7079090 original size:26 final size:25
Alignment explanation
Indices: 7079061--7079119 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
7079051 AAATCATATT
*
7079061 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
7079087 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
7079113 ATTATTA
1 ATTATTA
7079120 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:7082017 original size:26 final size:26
Alignment explanation
Indices: 7081988--7082166 Score: 162
Period size: 26 Copynumber: 7.2 Consensus size: 26
7081978 TTTGATGATT
7081988 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
7082014 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
7082040 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
7082066 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
7082088 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
7082112 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
7082138 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
7082163 TAGT
1 TAGT
7082167 TATTATTTAG
Statistics
Matches: 130, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.01
20 5 0.04
22 3 0.02
23 11 0.08
24 9 0.07
25 12 0.09
26 83 0.64
27 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:7082086 original size:11 final size:12
Alignment explanation
Indices: 7081982--7082231 Score: 111
Period size: 14 Copynumber: 20.2 Consensus size: 12
7081972 TAATGATTTG
*
7081982 ATGATT-TAGTA
1 ATGATTATAATA
7081993 ATGATTTGATAATA
1 ATGA-TT-ATAATA
* *
7082007 ATCATTATAGTA
1 ATGATTATAATA
7082019 ATGATTTGATAATA
1 ATGA-TT-ATAATA
*
7082033 ATCATTATAATA
1 ATGATTATAATA
7082045 ATGATTTAGTAATA
1 ATGA-TTA-TAATA
* *
7082059 ATCATTATAAAA
1 ATGATTATAATA
7082071 ATGATT-TAATA
1 ATGATTATAATA
7082082 ATGATT-TAAATA
1 ATGATTAT-AATA
* * * * *
7082094 TTTAATGAT-TTG
1 -ATGATTATAATA
*
7082106 ATGATT-TAGTA
1 ATGATTATAATA
7082117 ATGATTTGATAATA
1 ATGA-TT-ATAATA
*
7082131 ATCATTATAATA
1 ATGATTATAATA
7082143 ATGATTTTATAATA
1 ATGA--TTATAATA
* * *
7082157 ATTATT-TAGTT
1 ATGATTATAATA
* *
7082168 ATTATT-TAGTA
1 ATGATTATAATA
*
7082179 ATTATTTATAATA
1 ATGA-TTATAATA
*
7082192 ATGATTTAATACTA
1 ATGA-TT-ATAATA
7082206 ATGATT-TAATA
1 ATGATTATAATA
*
7082217 ATTATTACTAATA
1 ATGATTA-TAATA
7082230 AT
1 AT
7082232 TATAGAATAC
Statistics
Matches: 185, Mismatches: 33, Indels: 40
0.72 0.13 0.16
Matches are distributed among these distances:
10 1 0.01
11 49 0.26
12 48 0.26
13 36 0.19
14 51 0.28
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (12 bp):
ATGATTATAATA
Found at i:7082214 original size:124 final size:123
Alignment explanation
Indices: 7081934--7082202 Score: 409
Period size: 124 Copynumber: 2.2 Consensus size: 123
7081924 ATGTATTTAT
* *
7081934 TAATCATTAT-AAAATAATTTAAAAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAAT-ATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
7081998 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
65 TTGATAATAATCATTATAATAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
7082057 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAAT-ATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* * * * *
7082122 TTGATAATAATCATTATAATAATGATTTTATAATAATTATT-TAGTTATTATTTAGTAA
65 TTGATAATAATCATTATAATAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
7082180 TTAT-TTATAATAATGATTTAATA
1 TAATATTATAAAAATGATTTAATA
7082203 CTAATGATTT
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
121 18 0.13
123 27 0.20
124 90 0.67
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (123 bp):
TAATATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATT
TGATAATAATCATTATAATAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:7082241 original size:38 final size:38
Alignment explanation
Indices: 7082171--7082244 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
7082161 TTTAGTTATT
* **
7082171 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
7082209 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
7082245 CAAATAAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:7082451 original size:17 final size:17
Alignment explanation
Indices: 7082426--7082458 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7082416 ACTAAATATT
*
7082426 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
7082443 TAATGATTTGATACTA
1 TAATGATTTGATACTA
7082459 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:7082451 original size:25 final size:23
Alignment explanation
Indices: 7082372--7082451 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
7082362 GATTTATTGT
7082372 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
7082393 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
7082420 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
7082442 GTAATGATTT
1 -TAAT-ATTT
7082452 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:7084631 original size:15 final size:14
Alignment explanation
Indices: 7084608--7084638 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7084598 TACAACACTA
7084608 AACTTTAATATAAT
1 AACTTTAATATAAT
7084622 AACTTATAATATAAT
1 AACTT-TAATATAAT
7084637 AA
1 AA
7084639 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:7084646 original size:16 final size:16
Alignment explanation
Indices: 7084613--7084659 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7084603 CACTAAACTT
*
7084613 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
7084628 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
7084644 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
7084660 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:7084780 original size:32 final size:34
Alignment explanation
Indices: 7084700--7084781 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
7084690 CTAAACCCTT
*
7084700 AAAC-AACTAATAAAATATTCTTTTATATAACTA
1 AAACTAACTAATAAACTATTCTTTTATATAACTA
7084733 AAACTAACTAATAAACTATT-TTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTCTTTT-A-TATAACTA
*
7084766 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
7084782 TACTAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 11 0.25
33 12 0.27
34 16 0.36
35 5 0.11
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTCTTTTATATAACTA
Found at i:7084899 original size:46 final size:48
Alignment explanation
Indices: 7084822--7084913 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 48
7084812 CAACAAACAA
*
7084822 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATT-AATAATTTTTTTT
*
7084871 ATATAAC-TAACTA-TTAAC-AAAACAAACTAATTAATTATTTTTT
1 ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTT
7084914 AACTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 10 0.24
46 13 0.32
47 5 0.12
48 6 0.15
49 7 0.17
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAACTTAACTATTTAACTAAAACAAACTAATTAATAATTTTTTTT
Found at i:7084924 original size:47 final size:48
Alignment explanation
Indices: 7084822--7084926 Score: 135
Period size: 47 Copynumber: 2.2 Consensus size: 48
7084812 CAACAAACAA
* *
7084822 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
*
7084871 ATATAACTAACTA-TTAAC-AAAACAAACTAATT-AATTATTTTTTAACT
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTT--CT
7084918 ATATAACTA
1 ATATAACTA
7084927 TCAAACATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
45 10 0.20
46 13 0.25
47 15 0.29
48 6 0.12
49 7 0.14
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (48 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATAATTTTTTCT
Found at i:7084982 original size:41 final size:40
Alignment explanation
Indices: 7084894--7084982 Score: 90
Period size: 41 Copynumber: 2.2 Consensus size: 40
7084884 TTAACAAAAC
* *
7084894 AAACTAATTAATTATTTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
7084935 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATTAAATAATTTTTAA-CTATATA-ACTATAAACAT
7084976 AAACTAA
1 AAACTAA
7084983 CAATCATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 29 0.74
42 5 0.13
43 5 0.13
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (40 bp):
AAACTAATTAAATAATTTTTAACTATATAACTATAAACAT
Found at i:7085511 original size:29 final size:29
Alignment explanation
Indices: 7085469--7085602 Score: 207
Period size: 29 Copynumber: 4.6 Consensus size: 29
7085459 AGGACTACAT
**
7085469 GGGACTACATGGCGACCTACTTGGTCGCC
1 GGGACTACATGGCGACCTACAAGGTCGCC
7085498 GGGACTACATGGCGACCTACAAGGTCGCC
1 GGGACTACATGGCGACCTACAAGGTCGCC
*
7085527 GGGACTACATGGCGACCTACAAGGTCGCT
1 GGGACTACATGGCGACCTACAAGGTCGCC
7085556 GGGACTACATGGCGACCTACAAGGTCGCCC
1 GGGACTACATGGCGACCTACAAGGTCG-CC
* *
7085586 AGG-CTGCATGGCGACCT
1 GGGACTACATGGCGACCT
7085603 CTCCATTGGC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 95 0.97
30 3 0.03
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (29 bp):
GGGACTACATGGCGACCTACAAGGTCGCC
Found at i:7085632 original size:34 final size:34
Alignment explanation
Indices: 7085589--7085680 Score: 133
Period size: 28 Copynumber: 2.9 Consensus size: 34
7085579 GTCGCCCAGG
*
7085589 CTGCATGGCGACCTCTCCATTGGCTCGTCTAAGA
1 CTGCATGGCGACCTCTCCATTGGCTCGTATAAGA
7085623 CTGCATGGCGACCTCT-C-----CTCGTATAAGA
1 CTGCATGGCGACCTCTCCATTGGCTCGTATAAGA
7085651 CTGCATGGCGACCTCTCCATTGGCTCGTAT
1 CTGCATGGCGACCTCTCCATTGGCTCGTAT
7085681 GGCTCGTATA
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
28 26 0.51
29 1 0.02
33 1 0.02
34 23 0.45
ACGTcount: A:0.17, C:0.33, G:0.23, T:0.27
Consensus pattern (34 bp):
CTGCATGGCGACCTCTCCATTGGCTCGTATAAGA
Found at i:7085700 original size:20 final size:20
Alignment explanation
Indices: 7085671--7085709 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7085661 ACCTCTCCAT
7085671 TGGCTCGTATGGCTCGTATA
1 TGGCTCGTATGGCTCGTATA
*
7085691 TGGCTTGTATGGCTCGTAT
1 TGGCTCGTATGGCTCGTAT
7085710 GTCACCCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (20 bp):
TGGCTCGTATGGCTCGTATA
Found at i:7085723 original size:21 final size:21
Alignment explanation
Indices: 7085697--7085743 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
7085687 TATATGGCTT
7085697 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
7085718 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
7085739 GTATG
1 GTATG
7085744 TCGCCTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATGGCTCGTATGTCACCCC
Found at i:7085729 original size:9 final size:9
Alignment explanation
Indices: 7085671--7085710 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
7085661 ACCTCTCCAT
7085671 TGGCTCGTA
1 TGGCTCGTA
7085680 TGGCTCGTATA
1 TGGCTCG--TA
*
7085691 TGGCTTGTA
1 TGGCTCGTA
7085700 TGGCTCGTA
1 TGGCTCGTA
7085709 TG
1 TG
7085711 TCACCCCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.12, C:0.17, G:0.33, T:0.38
Consensus pattern (9 bp):
TGGCTCGTA
Found at i:7086130 original size:21 final size:21
Alignment explanation
Indices: 7086104--7086150 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
7086094 ATCCAGGCGA
7086104 CATACGGGGTGACATACGAGC
1 CATACGGGGTGACATACGAGC
7086125 CATACGGGGTGACATACGAGC
1 CATACGGGGTGACATACGAGC
7086146 CATAC
1 CATAC
7086151 AAGCCATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.30, T:0.15
Consensus pattern (21 bp):
CATACGGGGTGACATACGAGC
Found at i:7086149 original size:9 final size:9
Alignment explanation
Indices: 7086137--7086176 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
7086127 TACGGGGTGA
7086137 CATACGAGC
1 CATACGAGC
*
7086146 CATACAAGC
1 CATACGAGC
7086155 CATATACGAGC
1 C--ATACGAGC
7086166 CATACGAGC
1 CATACGAGC
7086175 CA
1 CA
7086177 ATGGAGAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (9 bp):
CATACGAGC
Found at i:7086163 original size:20 final size:20
Alignment explanation
Indices: 7086138--7086176 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7086128 ACGGGGTGAC
7086138 ATACGAGCCATACAAGCCAT
1 ATACGAGCCATACAAGCCAT
*
7086158 ATACGAGCCATACGAGCCA
1 ATACGAGCCATACAAGCCA
7086177 ATGGAGAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (20 bp):
ATACGAGCCATACAAGCCAT
Found at i:7086306 original size:29 final size:29
Alignment explanation
Indices: 7086256--7086360 Score: 158
Period size: 29 Copynumber: 3.6 Consensus size: 29
7086246 GCCAATGGAG
* *
7086256 AGGTCGCCATGCAG-CCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
7086285 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
**
7086314 AGGTCGCCATGTAGTCCCGGCGACCAAGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
7086343 AGGTCGCCATGTAGTCCC
1 AGGTCGCCATGTAGTCCC
7086361 ATGTAGTCCT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 69 0.97
30 2 0.03
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.21
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:7086691 original size:25 final size:26
Alignment explanation
Indices: 7086641--7086691 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7086631 CTTGGTCGCC
**
7086641 GAGATTGCAGCCGAAGAAAGGGAGAA
1 GAGATTGCAGCCGAAGAAAGAAAGAA
7086667 GAGATTGCAGCCG-AGAAAGAAAGAA
1 GAGATTGCAGCCGAAGAAAGAAAGAA
7086692 AGGGAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.45, C:0.12, G:0.35, T:0.08
Consensus pattern (26 bp):
GAGATTGCAGCCGAAGAAAGAAAGAA
Found at i:7086978 original size:45 final size:45
Alignment explanation
Indices: 7086876--7087007 Score: 125
Period size: 45 Copynumber: 3.0 Consensus size: 45
7086866 TACATAAATT
*
7086876 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTT-G-TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATA-TAA
*
7086918 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
* *
7086962 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAATTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATAT
7087008 TTGTTTGTTG
Statistics
Matches: 75, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.15
42 5 0.07
43 6 0.08
44 8 0.11
45 19 0.25
46 5 0.07
47 6 0.08
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
Found at i:7087203 original size:16 final size:16
Alignment explanation
Indices: 7087171--7087217 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7087161 TTTAAAAAGT
*
7087171 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
7087187 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
7087203 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
7087218 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:7087212 original size:15 final size:14
Alignment explanation
Indices: 7087192--7087222 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7087182 GTTTATTAGT
7087192 TTATTATATTATAAG
1 TTATTATATTA-AAG
7087207 TTATTATATTAAAG
1 TTATTATATTAAAG
7087221 TT
1 TT
7087223 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:7089396 original size:17 final size:17
Alignment explanation
Indices: 7089374--7089406 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7089364 CAATGATTTT
*
7089374 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
7089391 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
7089407 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:7089423 original size:24 final size:22
Alignment explanation
Indices: 7089395--7089459 Score: 60
Period size: 25 Copynumber: 2.8 Consensus size: 22
7089385 CATTACTAGT
7089395 ATCAAATAATTAAATATTTAGTAA
1 ATCAAATAATTAAATATTTAG--A
* * *
7089419 ATCAACTATTTTAAATCA-TTAGC
1 ATCAAATA-ATTAAAT-ATTTAGA
7089442 ATCAAATAATTAAATATT
1 ATCAAATAATTAAATATT
7089460 AACAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 1 0.03
22 7 0.21
23 7 0.21
24 7 0.21
25 10 0.30
26 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.38
Consensus pattern (22 bp):
ATCAAATAATTAAATATTTAGA
Found at i:7089644 original size:11 final size:11
Alignment explanation
Indices: 7089614--7089850 Score: 66
Period size: 11 Copynumber: 19.2 Consensus size: 11
7089604 ATTAGTAATA
7089614 ATTATTAAATC
1 ATTATTAAATC
7089625 ATTAGTATTAAATC
1 A-T--TATTAAATC
*
7089639 ATTATTATAAATA
1 ATTA-T-TAAATC
* *
7089652 ATTACTAAATA
1 ATTATTAAATC
* * *
7089663 ATAACTAAATA
1 ATTATTAAATC
7089674 ATTATTATAAAATC
1 ATTA-T-T-AAATC
*
7089688 ATTATTATAATG
1 ATTATTA-AATC
7089700 ATTATTATCAAATC
1 ATTA-T-T-AAATC
*
7089714 ATTACTAAATC
1 ATTATTAAATC
7089725 ATCAAATCATTAAAT-
1 AT----T-ATTAAATC
7089740 A-T-TTAAATC
1 ATTATTAAATC
7089749 ATTATTAAATC
1 ATTATTAAATC
* *
7089760 ATTTTTATAATG
1 ATTATTA-AATC
7089772 ATTATTACTATATC
1 ATTATTA--A-ATC
*
7089786 ATTATTATAATG
1 ATTATTA-AATC
7089798 ATTATTATCAAATC
1 ATTA-T-T-AAATC
*
7089812 ATTACTATAATGATT
1 ATTA-T-TAA--ATC
*
7089827 ATTATCAAATC
1 ATTATTAAATC
*
7089838 ATTACTAAATC
1 ATTATTAAATC
7089849 AT
1 AT
7089851 CAAATCATTA
Statistics
Matches: 176, Mismatches: 22, Indels: 56
0.69 0.09 0.22
Matches are distributed among these distances:
8 6 0.03
9 1 0.01
10 2 0.01
11 56 0.32
12 26 0.15
13 22 0.12
14 47 0.27
15 10 0.06
16 6 0.03
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:7089679 original size:35 final size:37
Alignment explanation
Indices: 7089598--7089684 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 37
7089588 TTAGTATTCT
* * *
7089598 ATAATTATTAGT-AATAATTATTAAATCATTAGTATTAA
1 ATAATTATTA-TAAATAATTACTAAATCAATAG-ACTAA
*
7089636 ATCATTATTATAAATAATTACTAAAT-AATA-ACTAA
1 ATAATTATTATAAATAATTACTAAATCAATAGACTAA
7089671 ATAATTATTATAAA
1 ATAATTATTATAAA
7089685 ATCATTATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 17 0.40
37 4 0.09
38 22 0.51
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (37 bp):
ATAATTATTATAAATAATTACTAAATCAATAGACTAA
Found at i:7089705 original size:12 final size:13
Alignment explanation
Indices: 7089614--7089841 Score: 111
Period size: 14 Copynumber: 17.1 Consensus size: 13
7089604 ATTAGTAATA
7089614 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
7089628 AGTATTAAATCATT
1 ATTA-TAAATCATT
7089642 ATTATAAAT-A--
1 ATTATAAATCATT
7089652 ATTACTAAAT-A--
1 ATTA-TAAATCATT
* *
7089663 ATAACTAAATAATT
1 ATTA-TAAATCATT
7089677 ATTATAAAATCATT
1 ATTAT-AAATCATT
*
7089691 ATTAT-AATGATT
1 ATTATAAATCATT
7089703 ATTATCAAATCATT
1 ATTAT-AAATCATT
7089717 ACTAAATCATCAAATCATT
1 A-T---T-AT-AAATCATT
*
7089736 AAATATTTAAATCATT
1 --AT-TATAAATCATT
7089752 A-T-TAAATCATT
1 ATTATAAATCATT
* *
7089763 TTTAT-AATGATT
1 ATTATAAATCATT
*
7089775 ATTACTATATCATT
1 ATTA-TAAATCATT
*
7089789 ATTAT-AATGATT
1 ATTATAAATCATT
7089801 ATTATCAAATCATT
1 ATTAT-AAATCATT
* *
7089815 ACTAT-AATGATT
1 ATTATAAATCATT
7089827 ATTATCAAATCATT
1 ATTAT-AAATCATT
7089841 A
1 A
7089842 CTAAATCATC
Statistics
Matches: 172, Mismatches: 20, Indels: 44
0.73 0.08 0.19
Matches are distributed among these distances:
10 4 0.02
11 24 0.14
12 44 0.26
13 9 0.05
14 65 0.38
15 1 0.01
16 8 0.05
17 1 0.01
18 3 0.02
19 11 0.06
20 1 0.01
21 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:7089712 original size:26 final size:26
Alignment explanation
Indices: 7089614--7089841 Score: 165
Period size: 26 Copynumber: 9.2 Consensus size: 26
7089604 ATTAGTAATA
* * *
7089614 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
7089639 ATTATTATAA--ATAATTA-CTAAATA
1 ATTATTATAATGATTATTATC-AAATC
* * * *
7089663 ATAACTA-AATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
7089688 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
7089714 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
7089737 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
* *
7089760 ATTTTTATAATGATTATTA-CTATATC
1 ATTATTATAATGATTATTATC-AAATC
7089786 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
7089812 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
7089838 ATTA
1 ATTA
7089842 CTAAATCATC
Statistics
Matches: 156, Mismatches: 33, Indels: 27
0.72 0.15 0.12
Matches are distributed among these distances:
21 4 0.03
22 2 0.01
23 16 0.10
24 20 0.13
25 28 0.18
26 85 0.54
27 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:7089838 original size:124 final size:123
Alignment explanation
Indices: 7089630--7089898 Score: 418
Period size: 124 Copynumber: 2.2 Consensus size: 123
7089620 AAATCATTAG
* * *
7089630 TATTAAATCATTATTATAA--ATAATTACTAAATAATAACTAAATAATTATTATAAAATCATTAT
1 TATTAAATCATTTTTATAATGATTATTACTAAATAATAACTAAATAATTATTATAAAATCATTAC
7089693 TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
66 TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
* * * * * *
7089751 TATTAAATCATTTTTATAATGATTATTACTATATCATTATTATAATGATTATTATCAAATCATTA
1 TATTAAATCATTTTTATAATGATTATTACTAAATAATAACTA-AATAATTATTATAAAATCATTA
7089816 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
65 CTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
*
7089875 TATTAAATTA-TTTTATAATGATTA
1 TATTAAATCATTTTTATAATGATTA
7089899 ATAAATACAT
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
121 18 0.13
123 30 0.22
124 87 0.64
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (123 bp):
TATTAAATCATTTTTATAATGATTATTACTAAATAATAACTAAATAATTATTATAAAATCATTAC
TATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTAAATCAT
Found at i:7092785 original size:26 final size:24
Alignment explanation
Indices: 7092727--7092785 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
7092717 CTATTAAACC
*
7092727 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
7092751 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
7092779 TAATAAT
1 TAATAAT
7092786 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:7093580 original size:42 final size:47
Alignment explanation
Indices: 7093524--7093636 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 47
7093514 GTTTAAAGAC
*
7093524 ACTAACAAATTAATTAATATTTTTT-TAT-AT-T-TA-ATAACTTAA
1 ACTAACAAACTAATTAATATTTTTTATATAATATATATATAACTTAA
*
7093566 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATATAACTTAA
1 ACTAACAAACTAATTAA-T-ATTTTTTATATAATAT-ATATATAACTTAA
*
7093616 ACTAATAAACTAATATAATAT
1 ACTAACAAACTAAT-TAATAT
7093637 AACTTAAACT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
42 15 0.25
43 1 0.02
44 7 0.12
45 3 0.05
46 2 0.03
47 1 0.02
49 4 0.07
50 23 0.39
51 3 0.05
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.42
Consensus pattern (47 bp):
ACTAACAAACTAATTAATATTTTTTATATAATATATATATAACTTAA
Found at i:7093636 original size:28 final size:30
Alignment explanation
Indices: 7093596--7093658 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
7093586 ATTTTTTATA
*
7093596 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
7093626 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
7093654 TAATA
1 TAATA
7093659 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:7093665 original size:28 final size:28
Alignment explanation
Indices: 7093600--7093665 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
7093590 TTTATATAAT
*
7093600 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
7093628 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
7093656 ATAATTTATA
1 ATAATATATA
7093666 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:7093668 original size:21 final size:21
Alignment explanation
Indices: 7093635--7093683 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7093625 CTAATATAAT
7093635 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
7093656 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
7093677 ATTAACT
1 A-TAACT
7093684 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:7094347 original size:29 final size:29
Alignment explanation
Indices: 7094312--7094373 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
7094302 ACCTCCACAC
*
7094312 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGACGACCTCCA
7094341 AGGTCGCCCGGATGCCATGACGACCTCCA
1 AGGTCGCCCGGATGCCATGACGACCTCCA
7094370 AGGT
1 AGGT
7094374 TGCTGTAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGACGACCTCCA
Found at i:7099672 original size:16 final size:16
Alignment explanation
Indices: 7099634--7099689 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
7099624 TTTACTTCAA
*
7099634 AATGATT-AAGCGCTG
1 AATGATTCAAGTGCTG
* *
7099649 AATAATTCAAGTGTTG
1 AATGATTCAAGTGCTG
7099665 AATGATTCAAGTGCTG
1 AATGATTCAAGTGCTG
7099681 AATGATTCA
1 AATGATTCA
7099690 GAGGCTCTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
15 6 0.17
16 29 0.83
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (16 bp):
AATGATTCAAGTGCTG
Found at i:7102817 original size:21 final size:21
Alignment explanation
Indices: 7102793--7102832 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7102783 TTTATTTTAT
7102793 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
7102814 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
7102833 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:7102881 original size:33 final size:32
Alignment explanation
Indices: 7102821--7102892 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 32
7102811 GTAAACTTTG
* *
7102821 TTTCAA-TTATCGAACTTGAAGTTTTTAAGTA
1 TTTCAATTTATCAAACTTGAAGTATTTAAGTA
*
7102852 TTTGAATTTATCAAACTTGGAAGTATTTAAGTA
1 TTTCAATTTATCAAACTT-GAAGTATTTAAGTA
7102885 TTTCAATT
1 TTTCAATT
7102893 ATGTTGAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 5 0.14
32 10 0.29
33 20 0.57
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.46
Consensus pattern (32 bp):
TTTCAATTTATCAAACTTGAAGTATTTAAGTA
Found at i:7102921 original size:13 final size:13
Alignment explanation
Indices: 7102878--7102932 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
7102868 TTGGAAGTAT
7102878 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
7102891 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
7102905 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
7102918 TTAAGTATTTGAA
1 TTAAGTATTTCAA
7102931 TT
1 TT
7102933 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:7103154 original size:21 final size:21
Alignment explanation
Indices: 7103128--7103184 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
7103118 TGGAGCGTGG
*
7103128 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
7103149 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
7103170 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
7103185 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:7103401 original size:16 final size:16
Alignment explanation
Indices: 7103351--7103401 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
7103341 CTGGAATATT
7103351 AAAATCGGTTTTTTT-
1 AAAATCGGTTTTTTTA
* * **
7103366 ATAACCGGGTTTTTAAA
1 AAAATC-GGTTTTTTTA
7103383 AAAATCGGTTTTTTTA
1 AAAATCGGTTTTTTTA
7103399 AAA
1 AAA
7103402 CCGAAACCGG
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
15 4 0.15
16 18 0.69
17 4 0.15
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (16 bp):
AAAATCGGTTTTTTTA
Found at i:7103521 original size:15 final size:17
Alignment explanation
Indices: 7103495--7103526 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7103485 TTCTATGGGA
7103495 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
7103511 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
7103527 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:7126288 original size:24 final size:24
Alignment explanation
Indices: 7126261--7126312 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
7126251 GGGTTTTGAA
*
7126261 CTTGCTCAGTAGAGGAAGACTGTT
1 CTTGCTCAGCAGAGGAAGACTGTT
*
7126285 CTTGCTCAGCAGAGGCAGACTGTT
1 CTTGCTCAGCAGAGGAAGACTGTT
7126309 CTTG
1 CTTG
7126313 TTGAGAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (24 bp):
CTTGCTCAGCAGAGGAAGACTGTT
Found at i:7126322 original size:24 final size:24
Alignment explanation
Indices: 7126261--7126322 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
7126251 GGGTTTTGAA
*
7126261 CTTGCTCAGTAGAGGAAGACTGTT
1 CTTGCTCAGAAGAGGAAGACTGTT
* *
7126285 CTTGCTCAGCAGAGGCAGACTGTT
1 CTTGCTCAGAAGAGGAAGACTGTT
* *
7126309 CTTGTTGAGAAGAG
1 CTTGCTCAGAAGAG
7126323 ACATCAACAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (24 bp):
CTTGCTCAGAAGAGGAAGACTGTT
Found at i:7127193 original size:21 final size:23
Alignment explanation
Indices: 7127153--7127197 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
7127143 AGATTGTCAG
*
7127153 AGGGAAACCGATTCCCCTGCTAC
1 AGGGAAACCGATTACCCTGCTAC
7127176 AGGG-AACCGA-TACCCTGCTAC
1 AGGGAAACCGATTACCCTGCTAC
7127197 A
1 A
7127198 TTATTGCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 6 0.29
23 4 0.19
ACGTcount: A:0.29, C:0.33, G:0.22, T:0.16
Consensus pattern (23 bp):
AGGGAAACCGATTACCCTGCTAC
Found at i:7127831 original size:23 final size:23
Alignment explanation
Indices: 7127805--7127892 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
7127795 AGCTCATATA
*
7127805 AATTGCACCGAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACGTAG
* *
7127828 AATTTGTC-TCGAAG-GACCGCGTAG
1 AA-TTG-CACCGAAGTG-CCACGTAG
*
7127852 AATTACACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
7127875 AAATGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
7127893 TATAAGATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
22 1 0.02
23 32 0.63
24 17 0.33
25 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:7133307 original size:21 final size:23
Alignment explanation
Indices: 7133267--7133311 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
7133257 AGATTGTCAG
*
7133267 AGGGAAACCGATTCCCCTGCTAC
1 AGGGAAACCGATTACCCTGCTAC
7133290 AGGG-AACCGA-TACCCTGCTAC
1 AGGGAAACCGATTACCCTGCTAC
7133311 A
1 A
7133312 TTACTGCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 6 0.29
23 4 0.19
ACGTcount: A:0.29, C:0.33, G:0.22, T:0.16
Consensus pattern (23 bp):
AGGGAAACCGATTACCCTGCTAC
Found at i:7133960 original size:23 final size:23
Alignment explanation
Indices: 7133934--7134021 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
7133924 AGCTCATATA
7133934 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
7133957 AATTTGTC-CCGAAAG-ACCGCGTAG
1 AA-TTG-CACCG-AAGTGCCACGTAG
* *
7133981 AATTACACTGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
7134004 AAATGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
7134022 TTTAAGATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
22 4 0.08
23 27 0.54
24 15 0.30
25 4 0.08
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:7138927 original size:28 final size:28
Alignment explanation
Indices: 7138887--7138942 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
7138877 GATATCCAGC
7138887 CTTAATTTGTCAAATGTACAATAGAGCA
1 CTTAATTTGTCAAATGTACAATAGAGCA
7138915 CTTAATTTGTCAAATGTACAATAGAGCA
1 CTTAATTTGTCAAATGTACAATAGAGCA
7138943 TATAAGCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (28 bp):
CTTAATTTGTCAAATGTACAATAGAGCA
Found at i:7143451 original size:31 final size:30
Alignment explanation
Indices: 7143416--7143501 Score: 106
Period size: 29 Copynumber: 2.9 Consensus size: 30
7143406 CGTCCCCAAC
*
7143416 AGGTCGCCATGCATTCCCCAAC-ACCCTTACA
1 AGGTCGCCATGCACTCCCCAACGA-CC-TACA
* *
7143447 AGGTCGCCAAGCACT-CCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCCAACGACCTACA
7143476 AGGTCGCCATGCACT-CCCAACGACCT
1 AGGTCGCCATGCACTCCCCAACGACCT
7143502 TGTAGGTCGC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 28 0.57
30 7 0.14
31 14 0.29
ACGTcount: A:0.26, C:0.42, G:0.17, T:0.15
Consensus pattern (30 bp):
AGGTCGCCATGCACTCCCCAACGACCTACA
Found at i:7143480 original size:29 final size:29
Alignment explanation
Indices: 7143443--7143530 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
7143433 CCAACACCCT
7143443 TACAAGGTCGCCAAGCACTCCCAGCGACC
1 TACAAGGTCGCCAAGCACTCCCAGCGACC
* *
7143472 TACAAGGTCGCCATGCACTCCCAACGACC
1 TACAAGGTCGCCAAGCACTCCCAGCGACC
*** * * *
7143501 TTGTAGGTCGCCAAACAATCCCGGCGACC
1 TACAAGGTCGCCAAGCACTCCCAGCGACC
7143530 T
1 T
7143531 TGTAGGTCAC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.26, C:0.39, G:0.20, T:0.15
Consensus pattern (29 bp):
TACAAGGTCGCCAAGCACTCCCAGCGACC
Found at i:7143531 original size:29 final size:29
Alignment explanation
Indices: 7143496--7143558 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
7143486 GCACTCCCAA
*
7143496 CGACCTTGTAGGTCGCCAAACAATCCCGG
1 CGACCTTGTAGGTCACCAAACAATCCCGG
*
7143525 CGACCTTGTAGGTCACCAAGCAATCCCGG
1 CGACCTTGTAGGTCACCAAACAATCCCGG
*
7143554 TGACC
1 CGACC
7143559 AAGCCTCGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.35, G:0.24, T:0.17
Consensus pattern (29 bp):
CGACCTTGTAGGTCACCAAACAATCCCGG
Found at i:7143538 original size:58 final size:60
Alignment explanation
Indices: 7143416--7143530 Score: 146
Period size: 58 Copynumber: 1.9 Consensus size: 60
7143406 CGTCCCCAAC
* * *
7143416 AGGTCGCCATGCATTCCCCAACACCCTTACAAGGTCGCCAAGCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCCAACACCCTTACAAGGTCGCCAAACAATCCCAGCGACCTACA
** *
7143476 AGGTCGCCATGCACT-CCCAACGA-CCTT-GTAGGTCGCCAAACAATCCCGGCGACCT
1 AGGTCGCCATGCACTCCCCAAC-ACCCTTACAAGGTCGCCAAACAATCCCAGCGACCT
7143531 TGTAGGTCAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 23 0.48
59 10 0.21
60 15 0.31
ACGTcount: A:0.25, C:0.40, G:0.19, T:0.16
Consensus pattern (60 bp):
AGGTCGCCATGCACTCCCCAACACCCTTACAAGGTCGCCAAACAATCCCAGCGACCTACA
Found at i:7143640 original size:32 final size:32
Alignment explanation
Indices: 7143599--7143663 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
7143589 ACTTAACCCT
7143599 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
7143631 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
7143663 G
1 G
7143664 GAGATTCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.31, G:0.29, T:0.28
Consensus pattern (32 bp):
GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
Found at i:7143679 original size:23 final size:23
Alignment explanation
Indices: 7143649--7143692 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
7143639 GTGCATGGGT
7143649 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
7143672 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
7143693 GTAGCCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:7144156 original size:28 final size:30
Alignment explanation
Indices: 7144116--7144177 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
7144106 AATTTAGTTA
7144116 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
7144144 ATTAGTTTGTTAGTTTAAGTTATATATTAT
1 ATTAGTTTGTTAGTTTAAGTTATATATTAT
7144174 ATTA
1 ATTA
7144178 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (30 bp):
ATTAGTTTGTTAGTTTAAGTTATATATTAT
Found at i:7144515 original size:20 final size:21
Alignment explanation
Indices: 7144471--7144515 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7144461 AAATATTGTG
**
7144471 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
7144492 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
7144512 TTTA
1 TTTA
7144516 TATTATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:7147585 original size:49 final size:49
Alignment explanation
Indices: 7147528--7148280 Score: 491
Period size: 60 Copynumber: 13.4 Consensus size: 49
7147518 TTATAAGATT
*
7147528 TAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
*
7147577 TAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTA
1 TAGTAATGA-TTAGT-A--A-T-G-----ATGAAATTATTATTAAT-TTT--T-AAT-G--ATT-
7147642 ATGA
47 -TGA
*
7147646 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
7147697 TAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGT-A--A-T-G-----ATGAAATTATTATTAATTTTTAATGATTTGA
*
7147756 TAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGT-A--A-T-G-----ATGAAATTATTATTAATTTTTAATGATTTGA
* *
7147815 TAGTAATGATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTA
1 TAGTAATGA-TTAGT-A--A-T-G-----ATGAAATTATTATTAATTTTTAATG-----AT--T-
7147880 ATGA
47 -TGA
*
7147884 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
*
7147935 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
7147984 TAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGA-TTAGT-A--A-T-G-----ATGAAATTATTATTAATTTTTAATGATTTGA
*
7148044 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
*
7148093 TAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAA
1 TAGTAATGATTAGT-A--A-T-G-----ATGAAATTATTATTAATTTTTAATGATTTG-------
7148158 TAA
49 --A
*
7148161 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 --TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
* * *
7148212 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
*
7148260 TATTAATGATTTAGTAATGAT
1 TAGTAATGA-TTAGTAATGAT
7148281 TTACGACTTG
Statistics
Matches: 607, Mismatches: 20, Indels: 154
0.78 0.03 0.20
Matches are distributed among these distances:
48 34 0.06
49 156 0.26
50 12 0.02
51 9 0.01
52 2 0.00
53 8 0.01
54 2 0.00
55 5 0.01
56 3 0.00
57 1 0.00
58 1 0.00
59 135 0.22
60 169 0.28
61 2 0.00
63 1 0.00
64 2 0.00
65 3 0.00
66 3 0.00
67 7 0.01
68 1 0.00
69 9 0.01
70 24 0.04
71 18 0.03
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:7147595 original size:60 final size:60
Alignment explanation
Indices: 7147524--7147951 Score: 763
Period size: 60 Copynumber: 7.2 Consensus size: 60
7147514 GTATTTATAA
* *
7147524 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
* *
7147584 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
7147644 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
7147704 GA-TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
*
7147763 GA-TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
* * *
7147822 GATTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
7147882 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
7147942 GA-TTAGTAAT
1 GATTTAGTAAT
7147952 AATGAAATTA
Statistics
Matches: 357, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
59 125 0.35
60 232 0.65
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
Found at i:7147702 original size:109 final size:108
Alignment explanation
Indices: 7147588--7148228 Score: 886
Period size: 119 Copynumber: 5.6 Consensus size: 108
7147578 AGTAATGATT
*
7147588 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAGTA
7147653 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
65 ATGATTAGTAATAATGAAATTATTATTAATTTTT-A--A--TGAT--T--TGA
*
7147706 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTA
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTA
*
7147771 ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
65 ATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATGAT--T--TGA
* *
7147824 TTTAGTAATGATTAGTAATAATGAAATTGTTATTAATATTTAATGATTTAATAGTAATGATTTAG
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAG
7147889 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
63 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
7147935 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAGTA
7148000 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
65 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
7148044 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
*
7148109 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATAA
66 TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG---------A
*
7148161 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGT
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGT
7148226 AAT
64 AAT
7148229 AATAATTTAT
Statistics
Matches: 493, Mismatches: 13, Indels: 32
0.92 0.02 0.06
Matches are distributed among these distances:
108 48 0.10
109 164 0.33
111 3 0.01
113 1 0.00
115 4 0.01
116 1 0.00
117 2 0.00
118 48 0.10
119 184 0.37
120 36 0.07
121 2 0.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (108 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:7147710 original size:10 final size:10
Alignment explanation
Indices: 7147697--7147842 Score: 65
Period size: 10 Copynumber: 14.7 Consensus size: 10
7147687 AATGATTTGA
7147697 TAGTAATGAT
1 TAGTAATGAT
7147707 TAGTAATGAT
1 TAGTAATGAT
*
7147717 TAGTAAT-AA
1 TAGTAATGAT
* *
7147726 T-GAAATTAT
1 TAGTAATGAT
* **
7147735 TATTAATTTT
1 TAGTAATGAT
* *
7147745 TAATGATTTGA-
1 TAGT-A-ATGAT
7147756 TAGTAATGAT
1 TAGTAATGAT
7147766 TAGTAATGAT
1 TAGTAATGAT
*
7147776 TAGTAAT-AA
1 TAGTAATGAT
* *
7147785 T-GAAATTAT
1 TAGTAATGAT
*
7147794 TATTAAT-AT
1 TAGTAATGAT
7147803 T--TAATGATTT
1 TAGTAATGA--T
7147813 GATAGTAATGATT
1 --TAGTAATGA-T
7147826 TAGTAATGAT
1 TAGTAATGAT
7147836 TAGTAAT
1 TAGTAAT
7147843 AATGAAATTG
Statistics
Matches: 105, Mismatches: 17, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
7 4 0.04
8 9 0.09
9 14 0.13
10 55 0.52
11 13 0.12
12 2 0.02
13 2 0.02
14 6 0.06
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:7147940 original size:39 final size:45
Alignment explanation
Indices: 7147891--7148109 Score: 195
Period size: 49 Copynumber: 4.3 Consensus size: 45
7147881 TGATTTAGTA
7147891 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGT
1 ATGATTAGTAATAATGAAATTATTATTAATTTTTAA-GA-TTGATA-T
7147939 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTTAGT
1 -ATGATTAGTAATAATGAAATTATTATTAATTTTT-A--A---G--A-T--TGA--TA-T
7147999 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGT
1 -ATGATTAGTAATAATGAAATTATTATTAATTTTTAA-GA-TTGATA-T
7148048 AATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGT
1 -ATGATTAGTAATAATGAAATTATTATTAATTTTTAA-GA-TTGATA-T
7148097 AATGATTAGTAAT
1 -ATGATTAGTAAT
7148110 GATTAGTAAT
Statistics
Matches: 157, Mismatches: 2, Indels: 22
0.87 0.01 0.12
Matches are distributed among these distances:
49 100 0.64
50 1 0.01
51 3 0.02
52 1 0.01
53 2 0.01
54 2 0.01
55 2 0.01
56 2 0.01
57 1 0.01
58 3 0.02
59 1 0.01
60 39 0.25
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.47
Consensus pattern (45 bp):
ATGATTAGTAATAATGAAATTATTATTAATTTTTAAGATTGATAT
Found at i:7148060 original size:24 final size:24
Alignment explanation
Indices: 7148033--7148113 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
7148023 TATTAATTTT
7148033 TAATGATTTGATAGTAATGATTAG
1 TAATGATTTGATAGTAATGATTAG
* *** * * * **
7148057 TAATAATGAAATTATTATTAATTTT
1 TAATGATTTGA-TAGTAATGATTAG
7148082 TAATGATTTGATAGTAATGATTAG
1 TAATGATTTGATAGTAATGATTAG
7148106 TAATGATT
1 TAATGATT
7148114 AGTAATAATG
Statistics
Matches: 38, Mismatches: 18, Indels: 2
0.66 0.31 0.03
Matches are distributed among these distances:
24 23 0.61
25 15 0.39
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.46
Consensus pattern (24 bp):
TAATGATTTGATAGTAATGATTAG
Found at i:7148106 original size:10 final size:10
Alignment explanation
Indices: 7148093--7148119 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
7148083 AATGATTTGA
7148093 TAGTAATGAT
1 TAGTAATGAT
7148103 TAGTAATGAT
1 TAGTAATGAT
7148113 TAGTAAT
1 TAGTAAT
7148120 AATGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:7148113 original size:59 final size:60
Alignment explanation
Indices: 7148044--7148281 Score: 340
Period size: 59 Copynumber: 4.2 Consensus size: 60
7148034 AATGATTTGA
*
7148044 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-T
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
* *
7148103 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATAATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
*
7148163 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-T
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
*
7148222 TAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAATGATT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
7148271 TAGTAATGATT
1 TAGTAATGATT
7148282 TACGACTTGA
Statistics
Matches: 163, Mismatches: 8, Indels: 20
0.85 0.04 0.10
Matches are distributed among these distances:
48 32 0.20
49 4 0.02
52 8 0.05
53 2 0.01
55 1 0.01
56 1 0.01
59 59 0.36
60 56 0.34
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (60 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATT
Found at i:7148137 original size:18 final size:18
Alignment explanation
Indices: 7148111--7148197 Score: 50
Period size: 18 Copynumber: 4.5 Consensus size: 18
7148101 ATTAGTAATG
*
7148111 ATTAGTAATAATGAAATT
1 ATTATTAATAATGAAATT
* *
7148129 ATTATTAATATTTAATGATT
1 ATTATTAATAATGAA--ATT
* *
7148149 -TGATATTAATAATTTAGTAATG
1 AT--TATTAATAA--T-GAAATT
*
7148171 ATTAGTAATAATGAAATT
1 ATTATTAATAATGAAATT
7148189 ATTATTAAT
1 ATTATTAAT
7148198 TTTTAATGAT
Statistics
Matches: 50, Mismatches: 11, Indels: 16
0.65 0.14 0.21
Matches are distributed among these distances:
18 24 0.48
19 2 0.04
20 3 0.06
21 16 0.32
22 2 0.04
23 2 0.04
24 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (18 bp):
ATTATTAATAATGAAATT
Found at i:7148155 original size:21 final size:21
Alignment explanation
Indices: 7148131--7148272 Score: 71
Period size: 21 Copynumber: 6.6 Consensus size: 21
7148121 ATGAAATTAT
7148131 TATTAATATTTAATGATTTGA
1 TATTAATATTTAATGATTTGA
* *
7148152 TATTAATAATTTAGT-A-ATGA
1 TATTAAT-ATTTAATGATTTGA
* * *
7148172 TTAGTAATAATGAA--ATTAT--
1 -TATTAATATTTAATGATT-TGA
*
7148191 TATTAATTTTTAATGATTTGA
1 TATTAATATTTAATGATTTGA
* * *
7148212 TAGTAATGATTAGTAATAATAATTTA
1 TATTAAT-ATT--TAATGAT--TTGA
7148238 TTATTAATATTTAATGATTTGA
1 -TATTAATATTTAATGATTTGA
7148260 TATTAATGATTTA
1 TATTAAT-ATTTA
7148273 GTAATGATTT
Statistics
Matches: 88, Mismatches: 18, Indels: 29
0.65 0.13 0.21
Matches are distributed among these distances:
18 9 0.10
19 2 0.02
20 9 0.10
21 28 0.32
22 16 0.18
24 12 0.14
26 6 0.07
27 6 0.07
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (21 bp):
TATTAATATTTAATGATTTGA
Found at i:7148241 original size:48 final size:49
Alignment explanation
Indices: 7148163--7148277 Score: 187
Period size: 48 Copynumber: 2.3 Consensus size: 49
7148153 ATTAATAATT
*
7148163 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
7148212 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
7148260 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
7148278 GATTTACGAC
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
48 34 0.55
49 28 0.45
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:7150868 original size:22 final size:21
Alignment explanation
Indices: 7150830--7150870 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7150820 TTTATGTATA
*
7150830 ATATAACTTAAACTAACAATC
1 ATATAACCTAAACTAACAATC
*
7150851 ATATAACCCTAAATTAACAA
1 ATATAA-CCTAAACTAACAA
7150871 ACTAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATAACCTAAACTAACAATC
Found at i:7151010 original size:13 final size:13
Alignment explanation
Indices: 7150971--7151017 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
7150961 CTCACAAGAG
7150971 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
* *
7150985 CTTCTTCTTCCTTT
1 CCT-TTCTCCCTTT
7150999 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
7151012 -CTTTCT
1 CCTTTCT
7151018 TTCTCGACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.32
14 12 0.43
15 1 0.04
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:7151161 original size:33 final size:33
Alignment explanation
Indices: 7151119--7151185 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
7151109 ATAATTTAGG
7151119 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
1 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
7151152 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
1 TGTCACCGGCTGCCTCAATTATTTCACCAATAA
7151185 T
1 T
7151186 TGTGCAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (33 bp):
TGTCACCGGCTGCCTCAATTATTTCACCAATAA
Found at i:7151416 original size:31 final size:29
Alignment explanation
Indices: 7151332--7151391 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
7151322 CATGAAGCTT
*
7151332 GGTCGCCGGGAGTGCTTGGCGACCTTGTA
1 GGTCGCTGGGAGTGCTTGGCGACCTTGTA
7151361 GGTCGCTGGGAGTGCTTGGCGACCTTGTA
1 GGTCGCTGGGAGTGCTTGGCGACCTTGTA
7151390 GG
1 GG
7151392 GGTGTTGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.10, C:0.22, G:0.43, T:0.25
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCTTGGCGACCTTGTA
Found at i:7151998 original size:26 final size:28
Alignment explanation
Indices: 7151924--7151998 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 28
7151914 TAAATGGTTA
* * * *
7151924 AATTAGGCATCTAACATTTTTCAGGTGC
1 AATTAGGTACCTAATATTTTTCAGGTAC
7151952 AATTAGGTACCTAAT-TCTTTT-A-GTAC
1 AATTAGGTACCTAATAT-TTTTCAGGTAC
7151978 AATTAGGTACCTAATATTTTT
1 AATTAGGTACCTAATATTTTT
7151999 TTAAAAAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 22 0.54
27 3 0.07
28 16 0.39
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (28 bp):
AATTAGGTACCTAATATTTTTCAGGTAC
Found at i:7152223 original size:28 final size:30
Alignment explanation
Indices: 7152175--7152236 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 30
7152165 AATTGTATAA
*
7152175 AAAATAAGTTAGATGTCTAATTGTACCATT
1 AAAATAAGTTAGATGTCTAATTATACCATT
7152205 AAAA-AAGTTAG-TG-CATAATTATACCATT
1 AAAATAAGTTAGATGTC-TAATTATACCATT
7152233 AAAA
1 AAAA
7152237 GAAAATTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 1 0.03
28 18 0.60
29 7 0.23
30 4 0.13
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (30 bp):
AAAATAAGTTAGATGTCTAATTATACCATT
Found at i:7154625 original size:34 final size:34
Alignment explanation
Indices: 7154580--7154693 Score: 147
Period size: 34 Copynumber: 3.2 Consensus size: 34
7154570 CAACTTTGAA
7154580 AAAATGATTTTCAAAGTTTGGTAAATGTTTTTTG
1 AAAATGATTTTCAAAGTTTGGTAAATGTTTTTTG
*
7154614 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGATTTTCAAAGTTTGGTAAATGTTT-TTTG
* * * *
7154649 AAAAATAGTTTTTCAAAATTTGGTAGATGTTTGTTG
1 -AAAAT-GATTTTCAAAGTTTGGTAAATGTTTTTTG
7154685 AAAAATGAT
1 -AAAATGAT
7154694 AATGAGATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
34 29 0.41
35 6 0.08
36 14 0.20
37 22 0.31
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (34 bp):
AAAATGATTTTCAAAGTTTGGTAAATGTTTTTTG
Found at i:7158933 original size:16 final size:16
Alignment explanation
Indices: 7158891--7158926 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7158881 ACCACTGACA
7158891 AACTGAAGTTGTGTTC
1 AACTGAAGTTGTGTTC
*
7158907 AGCTGAAGTTGTGTTC
1 AACTGAAGTTGTGTTC
7158923 AACT
1 AACT
7158927 TCAGTTGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (16 bp):
AACTGAAGTTGTGTTC
Found at i:7159095 original size:21 final size:21
Alignment explanation
Indices: 7159071--7159135 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
7159061 AACTTTGAAA
7159071 AAATGATTTTCAAAGTTTGGT
1 AAATGATTTTCAAAGTTTGGT
* *
7159092 AAATG-TTTT-----TTTTGA
1 AAATGATTTTCAAAGTTTGGT
*
7159107 AAATGGTTTTCAAAGTTTGGT
1 AAATGATTTTCAAAGTTTGGT
7159128 AAAT-ATTT
1 AAATGATTT
7159136 CTTTGAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 13
0.65 0.10 0.25
Matches are distributed among these distances:
15 9 0.27
16 4 0.12
20 7 0.21
21 13 0.39
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (21 bp):
AAATGATTTTCAAAGTTTGGT
Found at i:7159117 original size:36 final size:37
Alignment explanation
Indices: 7159063--7159185 Score: 146
Period size: 36 Copynumber: 3.4 Consensus size: 37
7159053 TGACAACCAA
7159063 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTTT
1 CTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTTT
* * *
7159101 TTTTG-AAAATGGTTTTCAAAGTTTGGTAAAT-ATTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTTT
* *
7159136 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATG-TTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTTT
*
7159173 -GTTGAAAAATGAT
1 CTTTGAAAAATGAT
7159186 AATGGGATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
35 9 0.12
36 39 0.53
37 22 0.30
38 4 0.05
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (37 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTTT
Found at i:7165658 original size:2 final size:2
Alignment explanation
Indices: 7165651--7165684 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7165641 TGTATCAATG
7165651 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
7165685 CACTTATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7167418 original size:23 final size:23
Alignment explanation
Indices: 7167392--7167459 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
7167382 CTAATAATTG
* *
7167392 TCTTTATAATATGTTTTTCTCTA
1 TCTTTATGATATGTTTTCCTCTA
7167415 TCTTTATGATATGTTTTCCTCTA
1 TCTTTATGATATGTTTTCCTCTA
7167438 TCTTTATGATATGTTTTCCTCT
1 TCTTTATGATATGTTTTCCTCT
7167460 GTATTTTGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.18, C:0.16, G:0.07, T:0.59
Consensus pattern (23 bp):
TCTTTATGATATGTTTTCCTCTA
Found at i:7169667 original size:17 final size:18
Alignment explanation
Indices: 7169634--7169667 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7169624 ATTGGAATTA
7169634 TAAAATGCCCATAAAGTG
1 TAAAATGCCCATAAAGTG
*
7169652 TAAAATGGCC-TAAAGT
1 TAAAATGCCCATAAAGT
7169668 ATCTCCAAGC
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:0.44, C:0.15, G:0.18, T:0.24
Consensus pattern (18 bp):
TAAAATGCCCATAAAGTG
Found at i:7171102 original size:33 final size:32
Alignment explanation
Indices: 7171018--7171103 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 32
7171008 TAAAATAACC
* *
7171018 CTTGGGTAGGTTC-CGAGGCCCCGAGATCTTT
1 CTTGGGTAGGCTCTCGAGGCCCCGAGAACTTT
* *
7171049 CTTGGGTAGGCCCT-GTGGCCCCGAGTAACTTTT
1 CTTGGGTAGGCTCTCGAGGCCCCGAG-AAC-TTT
*
7171082 TTTGGGTAGGCTCTCG-GGCCCC
1 CTTGGGTAGGCTCTCGAGGCCCC
7171104 AAGGCATTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
31 21 0.47
32 2 0.04
33 21 0.47
34 1 0.02
ACGTcount: A:0.10, C:0.28, G:0.33, T:0.29
Consensus pattern (32 bp):
CTTGGGTAGGCTCTCGAGGCCCCGAGAACTTT
Found at i:7172003 original size:2 final size:2
Alignment explanation
Indices: 7171998--7172023 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7171988 TTTTTTAAAG
7171998 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
7172024 TCATTTATTA
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:7181050 original size:3 final size:3
Alignment explanation
Indices: 7181032--7181102 Score: 97
Period size: 3 Copynumber: 23.3 Consensus size: 3
7181022 TGTAATATTA
* * *
7181032 AAT AAT ATAT ATT AAT AAT AAT AAT AAT AAT TAT AAT TAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
7181078 AAT AAT TAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
7181103 TAAATAACAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:7193102 original size:7 final size:7
Alignment explanation
Indices: 7193080--7193122 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
7193070 AACCCGACAC
7193080 GACCGTT
1 GACCGTT
*
7193087 GACC--C
1 GACCGTT
7193092 GACCGTT
1 GACCGTT
7193099 GACCGTT
1 GACCGTT
7193106 GACCG-T
1 GACCGTT
7193112 GACCGTT
1 GACCGTT
7193119 GACC
1 GACC
7193123 TTCTTTGACC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 4 0.13
6 6 0.19
7 21 0.68
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (7 bp):
GACCGTT
Found at i:7193116 original size:13 final size:14
Alignment explanation
Indices: 7193080--7193122 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
7193070 AACCCGACAC
*
7193080 GACCGTTGACC--C
1 GACCGTTGACCGTT
7193092 GACCGTTGACCGTT
1 GACCGTTGACCGTT
7193106 GACCG-TGACCGTT
1 GACCGTTGACCGTT
7193119 GACC
1 GACC
7193123 TTCTTTGACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 11 0.39
13 12 0.43
14 5 0.18
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:7200266 original size:19 final size:19
Alignment explanation
Indices: 7200226--7200273 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
7200216 GCTGAAAACT
7200226 GGTTTCGACCGGTTCGAACC
1 GGTTT-GACCGGTTCGAACC
*
7200246 GGTTTGACC-GTTCTGACCC
1 GGTTTGACCGGTTC-GAACC
*
7200265 GGTCTGACC
1 GGTTTGACC
7200274 CGACCCGACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 16 0.64
20 5 0.20
ACGTcount: A:0.12, C:0.31, G:0.29, T:0.27
Consensus pattern (19 bp):
GGTTTGACCGGTTCGAACC
Found at i:7206894 original size:21 final size:21
Alignment explanation
Indices: 7206868--7206912 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
7206858 CGCTGCTCGA
*
7206868 CTCGACT-GATTGCTTGTTAAG
1 CTCGACTCG-TTGCTCGTTAAG
7206889 CTCGACTCGTTGCTCGTTAAG
1 CTCGACTCGTTGCTCGTTAAG
7206910 CTC
1 CTC
7206913 ACTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.36
Consensus pattern (21 bp):
CTCGACTCGTTGCTCGTTAAG
Found at i:7209579 original size:7 final size:7
Alignment explanation
Indices: 7209567--7209630 Score: 110
Period size: 7 Copynumber: 9.1 Consensus size: 7
7209557 GACGAAATGA
7209567 CCCAATT
1 CCCAATT
7209574 CCCAATT
1 CCCAATT
*
7209581 CCCAACT
1 CCCAATT
7209588 CCCAATT
1 CCCAATT
*
7209595 CCCAACT
1 CCCAATT
7209602 CCCAATT
1 CCCAATT
7209609 CCCAATT
1 CCCAATT
7209616 CCCAATT
1 CCCAATT
7209623 CCCAATT
1 CCCAATT
7209630 C
1 C
7209631 GCTTCTTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (7 bp):
CCCAATT
Found at i:7214346 original size:2 final size:2
Alignment explanation
Indices: 7214339--7214370 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7214329 TTTTAAGAAA
7214339 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
7214371 TTATTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7214389 original size:17 final size:18
Alignment explanation
Indices: 7214367--7214405 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
7214357 ATATATATAT
*
7214367 ATATTTATTTATTTA-AA
1 ATATTTATTTACTTAGAA
7214384 ATATTTATTTACTTAGAA
1 ATATTTATTTACTTAGAA
7214402 ATAT
1 ATAT
7214406 CAGAAAAGGG
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:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
ATATTTATTTACTTAGAA
Found at i:7214505 original size:24 final size:25
Alignment explanation
Indices: 7214458--7214522 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
7214448 TATAAAAATA
*
7214458 ATTAA-TTAAAAAAAATAGATTA-TT
1 ATTAATTTAAAAAATA-AGATTATTT
7214482 ATATAATTTAAAAAATAAGA-TATTT
1 AT-TAATTTAAAAAATAAGATTATTT
*
7214507 ATTTATTTAAAAAATA
1 ATTAATTTAAAAAATA
7214523 TCAGAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 17 0.47
25 10 0.28
26 9 0.25
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (25 bp):
ATTAATTTAAAAAATAAGATTATTT
Found at i:7214765 original size:21 final size:20
Alignment explanation
Indices: 7214723--7214767 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
7214713 CTAAAACACA
**
7214723 TAAAATTAAAATAATATGAT
1 TAAAATTAAAATAATAAAAT
*
7214743 TAAAATATAAAATATTAAAAT
1 TAAAAT-TAAAATAATAAAAT
7214764 TAAA
1 TAAA
7214768 GGTCATAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAATTAAAATAATAAAAT
Found at i:7214767 original size:14 final size:15
Alignment explanation
Indices: 7214727--7214767 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
7214717 AACACATAAA
*
7214727 ATTAAAA-TAATATG
1 ATTAAAATTAAAATG
7214741 ATTAAAATATAAAAT-
1 ATTAAAAT-TAAAATG
7214756 ATTAAAATTAAA
1 ATTAAAATTAAA
7214768 GGTCATAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
ATTAAAATTAAAATG
Found at i:7215194 original size:24 final size:24
Alignment explanation
Indices: 7215162--7215209 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
7215152 CAAAACGACG
7215162 TCGTTTTGGTGAGGGTATTTATAC
1 TCGTTTTGGTGAGGGTATTTATAC
7215186 TCGTTTTGGTGAGGGTATTTATAC
1 TCGTTTTGGTGAGGGTATTTATAC
7215210 CCCTTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.08, G:0.29, T:0.46
Consensus pattern (24 bp):
TCGTTTTGGTGAGGGTATTTATAC
Found at i:7216197 original size:3 final size:3
Alignment explanation
Indices: 7216178--7216239 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
7216168 TTGTAATATT
* * * *
7216178 TAA TAAA TAA T-A CAA TAA TAA TAT TAA TAT TAT TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
7216223 TAA TTT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
7216240 TTAAATTTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
2 1 0.02
3 43 0.91
4 3 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:7216206 original size:12 final size:12
Alignment explanation
Indices: 7216171--7216243 Score: 67
Period size: 12 Copynumber: 5.8 Consensus size: 12
7216161 TTGGGTTTTG
7216171 TAATATTTAATAAA
1 TAATA-TTAAT-AA
*
7216185 TAATA-CAATAA
1 TAATATTAATAA
7216196 TAATATTAATATTA
1 TAATATTAATA--A
*
7216210 TTAATAATAATAA
1 -TAATATTAATAA
*
7216223 TAATTTTAATAA
1 TAATATTAATAA
7216235 TAATATTAA
1 TAATATTAA
7216244 ATTTAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
11 7 0.14
12 25 0.51
13 1 0.02
14 6 0.12
15 10 0.20
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:7216211 original size:9 final size:9
Alignment explanation
Indices: 7216193--7216236 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
7216183 AATAATACAA
7216193 TAATAATAT
1 TAATAATAT
*
7216202 TAATATTAT
1 TAATAATAT
*
7216211 TAATAATAA
1 TAATAATAT
*
7216220 TAATAATTT
1 TAATAATAT
7216229 TAATAATA
1 TAATAATA
7216237 ATATTAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TAATAATAT
Found at i:7216237 original size:18 final size:18
Alignment explanation
Indices: 7216193--7216249 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
7216183 AATAATACAA
*
7216193 TAATAATATTAAT-ATTAT
1 TAATAATAATAATAATT-T
7216211 TAATAATAATAATAATTT
1 TAATAATAATAATAATTT
* *
7216229 TAATAATAATATTAAATT
1 TAATAATAATAATAATTT
7216247 TAA
1 TAA
7216250 ATTTAAAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
18 32 0.91
19 3 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATAATAATAATTT
Found at i:7216430 original size:46 final size:45
Alignment explanation
Indices: 7216377--7216524 Score: 215
Period size: 45 Copynumber: 3.3 Consensus size: 45
7216367 GATGGAAATG
7216377 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-TT
* * **
7216423 TTGAAAACATCATGCACTGAAGGACTTACAGATAACCTAAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
7216468 TTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
7216513 TTAAAAATATCA
1 TTGAAAACATCA
7216525 AAAAGCTCCC
Statistics
Matches: 89, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 50 0.56
46 39 0.44
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
Found at i:7216613 original size:45 final size:45
Alignment explanation
Indices: 7216542--7216645 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
7216532 CCCGAAGGCT
* * *
7216542 TTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCAAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGG
* * **
7216587 TTTTGAAAGCATCATGCATTGAAGGGCTTACAGATGACCTGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGG
*
7216632 TTTTGAAAATATCA
1 TTTTGAAAACATCA
7216646 AAAAGCTCCC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGG
Found at i:7216641 original size:121 final size:121
Alignment explanation
Indices: 7216412--7217077 Score: 1102
Period size: 121 Copynumber: 5.5 Consensus size: 121
7216402 TTACAGATGA
* * * * * *
7216412 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTTACAGATAACCTAAAGGTTTTGAAAGC
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCAAAGGTTTTGAAAGC
* *
7216476 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAAAATATCAAAAAGCT
66 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT
7216532 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCAAAGGTTTTGAAAGC
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCAAAGGTTTTGAAAGC
* *
7216597 ATCATGCATTGAAGGGCTTACAGATGACCTGAAGGTTTTGAAAATATCAAAAAGCT
66 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT
*
7216653 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGC
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCAAAGGTTTTGAAAGC
* * *
7216718 ATCATGCACTGAAGGGCTTACAAATGTCCCGAAGGCTTTGAAAATATCAAAAAGCT
66 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT
* **
7216774 CCCGAAGGCTTTTT-AAAAGCATCTTGCACTGCAGGGCTTACGGATGACCTGAAGGTTTTGAAAG
1 CCCGAAGGCTTTTTGAAAA-CATCCTGCACTGCAGGGCTTACGGATGACCCAAAGGTTTTGAAAG
7216838 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT
65 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT
* * *
7216895 CCCGAAAGCTTTTTGAAAACATCCTGCACTACAGGGCTTACGGATGACCCGAAGGTTTTGAAAGC
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCAAAGGTTTTGAAAGC
*
7216960 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTAAAAATATCAAAAAGCT
66 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT
* *
7217016 CCCGAAGGCTTTTTGAAAACATCCCGCACTACAGGGCTTACGGATGACCCAAAGGTTTTGAA
1 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCAAAGGTTTTGAA
7217078 TTCTACCTTC
Statistics
Matches: 514, Mismatches: 29, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
120 12 0.02
121 498 0.97
122 4 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (121 bp):
CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCAAAGGTTTTGAAAGC
ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCT
Found at i:7216726 original size:45 final size:45
Alignment explanation
Indices: 7216653--7216766 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 45
7216643 TCAAAAAGCT
* * **
7216653 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
* *
7216700 CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGGCTTACAAATGT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
* *
7216745 CCCGAAGGCTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
7216767 AAAAGCTCCC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 50 0.86
47 8 0.14
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAAATGA
Found at i:7216847 original size:45 final size:45
Alignment explanation
Indices: 7216774--7216881 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
7216764 TCAAAAAGCT
* * * *
7216774 CCCGAAGGCTTTTTAAAAGCATCTTGCACTGCAGGGCTTACGGATGA
1 CCCGAAGG--TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGA
*
7216821 CCTGAAGGTTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGA
7216866 CCCGAAGGTTTTGAAA
1 CCCGAAGGTTTTGAAA
7216882 ATATCAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 48 0.87
47 7 0.13
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGA
Found at i:7216968 original size:45 final size:45
Alignment explanation
Indices: 7216905--7217008 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
7216895 CCCGAAAGCT
* *
7216905 TTTTGAAAACATCCTGCACT-ACAGGGCTTACGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGA-AGGGCTTACAGATGACCCGAAGG
*
7216950 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* *
7216995 TTTTAAAAATATCA
1 TTTTGAAAACATCA
7217009 AAAAGCTCCC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:7217533 original size:22 final size:22
Alignment explanation
Indices: 7217508--7217587 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 22
7217498 AATAAAGCTT
7217508 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
7217530 TCATCTTT--AAAGAGATAGGCTA
1 TCATCTTTGAAAAGAGA-A-TCTA
* * *
7217552 TCATCTTTGAAGAA-ATAGTTTA
1 TCATCTTTGAA-AAGAGAATCTA
7217574 TCATCTTTGAAAAG
1 TCATCTTTGAAAAG
7217588 TGTAGATGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
20 7 0.15
21 3 0.06
22 32 0.68
24 3 0.06
25 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:7224103 original size:22 final size:22
Alignment explanation
Indices: 7224067--7224117 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
7224057 AATTTGAAAC
**
7224067 AAAATGTAATTATGCCAA-GATG
1 AAAATGTAAAAATG-CAAGGATG
7224089 AAAATGTAAAAATGCAAGGATG
1 AAAATGTAAAAATGCAAGGATG
*
7224111 CAAATGT
1 AAAATGT
7224118 GAATATGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (22 bp):
AAAATGTAAAAATGCAAGGATG
Found at i:7227074 original size:2 final size:2
Alignment explanation
Indices: 7227061--7227099 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
7227051 TTTTAAGAAA
7227061 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7227100 TTATTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7227116 original size:17 final size:18
Alignment explanation
Indices: 7227096--7227135 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
7227086 TATATATATT
*
7227096 ATATTTATTTATTTA-AA
1 ATATTTATTTACTTAGAA
7227113 ATATTTATTTACTTAGAA
1 ATATTTATTTACTTAGAA
7227131 ATATT
1 ATATT
7227136 AGAAAAGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (18 bp):
ATATTTATTTACTTAGAA
Found at i:7227260 original size:24 final size:24
Alignment explanation
Indices: 7227225--7227285 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
7227215 TATAAAAATA
*
7227225 ATTAATTAAAAAAAT-AGAT-TATT
1 ATTAATTTAAAAAATAAGATAT-TT
7227248 ATATAATTTAAAAAATAAGATATTT
1 AT-TAATTTAAAAAATAAGATATTT
*
7227273 ATTTATTTAAAAA
1 ATTAATTTAAAAA
7227286 TATCAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 22 0.67
25 8 0.24
26 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (24 bp):
ATTAATTTAAAAAATAAGATATTT
Found at i:7227378 original size:154 final size:156
Alignment explanation
Indices: 7227113--7227396 Score: 357
Period size: 154 Copynumber: 1.8 Consensus size: 156
7227103 TTTATTTAAA
* * * * *
7227113 ATATTTATTTACTTAGAAATATTAGAAAAGGGCTTCTAGGTGCTTTAAGACAGCTCATTTCTTAA
1 ATATTTATTTACTTAAAAATATCAGAAAAGGACATCCAGGTGCTTTAAGACAGCTCATTTCTTAA
*
7227178 TATATAAAAAAGTAAATAAATATTAATAAAAAATTTATATAAAAATAAT-TA-ATTAAAAAAATA
66 TATATAAAAAAGTAAATAAATATTAATAAAAAAATTATATAAAAATAATATATATTAAAAAAATA
7227241 GATTATTATATAATTTAAAAAATAAG
131 GATTATTATATAATTTAAAAAATAAG
* * *
7227267 ATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGCTTTAAGACTGC-CATTTCTTA
1 ATATTTATTTACTTAAAAATATCAGAAAA-GGACATCCAGGTGCTTTAAGACAGCTCATTTCTTA
* * *
7227331 ATAT-TGAAAAA-TAAATAAATATTATTAATTTACAAAATTA-AT-TAAATAATATATATTAAAA
65 ATATATAAAAAAGTAAATAAATATTAATAA---A-AAAATTATATAAAAATAATATATATTAAAA
*
7227392 TAATA
126 AAATA
7227397 AAATAATAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
152 16 0.15
153 6 0.05
154 46 0.42
155 25 0.23
156 17 0.15
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.37
Consensus pattern (156 bp):
ATATTTATTTACTTAAAAATATCAGAAAAGGACATCCAGGTGCTTTAAGACAGCTCATTTCTTAA
TATATAAAAAAGTAAATAAATATTAATAAAAAAATTATATAAAAATAATATATATTAAAAAAATA
GATTATTATATAATTTAAAAAATAAG
Found at i:7227520 original size:21 final size:20
Alignment explanation
Indices: 7227488--7227532 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
7227478 CTAAAACACA
*
7227488 TAAAATTAAAATAATACAAT
1 TAAAATTAAAATAATAAAAT
*
7227508 TAAAATATAAAATATTAAAAT
1 TAAAAT-TAAAATAATAAAAT
7227529 TAAA
1 TAAA
7227533 GGTCATAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAATTAAAATAATAAAAT
Found at i:7227532 original size:14 final size:14
Alignment explanation
Indices: 7227487--7227520 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7227477 ACTAAAACAC
7227487 ATAAAATTAAAATA
1 ATAAAATTAAAATA
*
7227501 ATACAATTAAAAT-
1 ATAAAATTAAAATA
7227514 ATAAAAT
1 ATAAAAT
7227521 ATTAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAATTAAAATA
Found at i:7228932 original size:3 final size:3
Alignment explanation
Indices: 7228919--7228975 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
7228909 TTGTAATATT
** **
7228919 TAA TAAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TTT TAA TTT TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7228964 TAA TAA TAA TAA
1 TAA TAA TAA TAA
7228976 ATTTAAATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Done.