Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_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: 3488723
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 18
Found at i:3387685 original size:27 final size:27
Alignment explanation
Indices: 3387655--3387718 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
3387645 TTGAAAGTTT
3387655 TCGAGTTCGAGTCGAGCTCAGCAATAC
1 TCGAGTTCGAGTCGAGCTCAGCAATAC
*
3387682 TCGAGTTCAAGTCGAGCTCAGCAATAC
1 TCGAGTTCGAGTCGAGCTCAGCAATAC
*
3387709 TCGAGCTCGA
1 TCGAGTTCGA
3387719 CTCGGCTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.22
Consensus pattern (27 bp):
TCGAGTTCGAGTCGAGCTCAGCAATAC
Found at i:3388987 original size:14 final size:14
Alignment explanation
Indices: 3388970--3388999 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3388960 TTCATTTATA
3388970 TTCATTCATGTTCG
1 TTCATTCATGTTCG
*
3388984 TTCATTTATGTTCG
1 TTCATTCATGTTCG
3388998 TT
1 TT
3389000 TTTGTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (14 bp):
TTCATTCATGTTCG
Found at i:3389247 original size:23 final size:23
Alignment explanation
Indices: 3389219--3389307 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
3389209 ATTTGTTTAC
*
3389219 GTTCATTTAAGTTCATTTATTGT
1 GTTCATTTACGTTCATTTATTGT
* *
3389242 GTTCATTTCCGTTCATTTGTTTGT
1 GTTCATTTACGTTCATTT-ATTGT
* *
3389266 GTTCGTTTACGTTCGTTTATTGT
1 GTTCATTTACGTTCATTTATTGT
** *
3389289 GTTTGTTTATGTTCATTTA
1 GTTCATTTACGTTCATTTA
3389308 CATCCGTTCG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 36 0.65
24 19 0.35
ACGTcount: A:0.13, C:0.11, G:0.17, T:0.58
Consensus pattern (23 bp):
GTTCATTTACGTTCATTTATTGT
Found at i:3389329 original size:14 final size:14
Alignment explanation
Indices: 3389312--3389353 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
3389302 CATTTACATC
*
3389312 CGTTCGTTTATGTT
1 CGTTCATTTATGTT
*
3389326 CGTTCATTTTTGTT
1 CGTTCATTTATGTT
*
3389340 CGTTCATTTTTGTT
1 CGTTCATTTATGTT
3389354 TGTTTATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.07, C:0.14, G:0.17, T:0.62
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:3399526 original size:7 final size:7
Alignment explanation
Indices: 3399510--3399564 Score: 67
Period size: 7 Copynumber: 8.0 Consensus size: 7
3399500 TCATTATTTA
3399510 CATT-TT
1 CATTCTT
3399516 CATTCTT
1 CATTCTT
3399523 CATTCTT
1 CATTCTT
**
3399530 TGTTCTT
1 CATTCTT
3399537 CATTCTT
1 CATTCTT
3399544 CATTCTT
1 CATTCTT
**
3399551 TGTTCTT
1 CATTCTT
3399558 CATTCTT
1 CATTCTT
3399565 TACATTCATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
6 4 0.10
7 36 0.90
ACGTcount: A:0.11, C:0.24, G:0.04, T:0.62
Consensus pattern (7 bp):
CATTCTT
Found at i:3399539 original size:21 final size:21
Alignment explanation
Indices: 3399514--3399564 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
3399504 TATTTACATT
3399514 TTCATTCTTCATTCTTTGTTC
1 TTCATTCTTCATTCTTTGTTC
3399535 TTCATTCTTCATTCTTTGTTC
1 TTCATTCTTCATTCTTTGTTC
3399556 TTCATTCTT
1 TTCATTCTT
3399565 TACATTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.24, G:0.04, T:0.63
Consensus pattern (21 bp):
TTCATTCTTCATTCTTTGTTC
Found at i:3402171 original size:14 final size:14
Alignment explanation
Indices: 3402152--3402179 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3402142 ACACCTCCGT
3402152 CACCTTTGCACGTG
1 CACCTTTGCACGTG
3402166 CACCTTTGCACGTG
1 CACCTTTGCACGTG
3402180 ATGACTGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.36, G:0.21, T:0.29
Consensus pattern (14 bp):
CACCTTTGCACGTG
Found at i:3402972 original size:8 final size:8
Alignment explanation
Indices: 3402959--3403071 Score: 120
Period size: 8 Copynumber: 15.2 Consensus size: 8
3402949 AAAGAGAATG
3402959 AATGAAAA
1 AATGAAAA
3402967 AATGAAAA
1 AATGAAAA
*
3402975 AGTG-AAA
1 AATGAAAA
3402982 AA-GAAAA
1 AATGAAAA
3402989 AAT-AAAA
1 AATGAAAA
3402996 AA--AAAA
1 AATGAAAA
3403002 AATGAAAA
1 AATGAAAA
3403010 AA--AAAA
1 AATGAAAA
**
3403016 AAAAAAAA
1 AATGAAAA
3403024 AATGAAAA
1 AATGAAAA
3403032 AA--AAAA
1 AATGAAAA
3403038 AATGAAAAA
1 AATG-AAAA
3403047 AATGAAAA
1 AATGAAAA
3403055 AATG-AAA
1 AATGAAAA
3403062 AATGAAAA
1 AATGAAAA
3403070 AA
1 AA
3403072 AAAGAAAAAG
Statistics
Matches: 91, Mismatches: 4, Indels: 20
0.79 0.03 0.17
Matches are distributed among these distances:
6 19 0.21
7 22 0.24
8 42 0.46
9 8 0.09
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.09
Consensus pattern (8 bp):
AATGAAAA
Found at i:3402983 original size:1 final size:1
Alignment explanation
Indices: 3402979--3403080 Score: 69
Period size: 1 Copynumber: 102.0 Consensus size: 1
3402969 TGAAAAAGTG
* * ** ** **
3402979 AAAAAGAAAAAATAAAAAAAAAAAATGAAAAAAAAAAAAAAAAAAAATGAAAAAAAAAAAATGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** ** ** *
3403044 AAAAATGAAAAAATGAAAAATGAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3403081 GGAGGGTTCG
Statistics
Matches: 77, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.07
Consensus pattern (1 bp):
A
Found at i:3402987 original size:14 final size:14
Alignment explanation
Indices: 3402959--3403071 Score: 96
Period size: 15 Copynumber: 8.1 Consensus size: 14
3402949 AAAGAGAATG
3402959 AATGAAAAAATGAAAA
1 AATG-AAAAA-GAAAA
*
3402975 AGTGAAAAAGAAAA
1 AATGAAAAAGAAAA
*
3402989 AAT-AAAAAAAAAA
1 AATGAAAAAGAAAA
3403002 AATG--AAA-AAAA
1 AATGAAAAAGAAAA
3403013 AA--AAAAA-AAAA
1 AATGAAAAAGAAAA
*
3403024 AATGAAAAAAAAAA
1 AATGAAAAAGAAAA
3403038 AATGAAAAAAATGAAAA
1 AATG--AAAAA-GAAAA
3403055 AATGAAAAATGAAAA
1 AATGAAAAA-GAAAA
3403070 AA
1 AA
3403072 AAAGAAAAAG
Statistics
Matches: 84, Mismatches: 4, Indels: 19
0.79 0.04 0.18
Matches are distributed among these distances:
11 15 0.18
12 3 0.04
13 17 0.20
14 15 0.18
15 18 0.21
16 8 0.10
17 8 0.10
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.09
Consensus pattern (14 bp):
AATGAAAAAGAAAA
Found at i:3402990 original size:22 final size:21
Alignment explanation
Indices: 3402959--3403070 Score: 109
Period size: 22 Copynumber: 5.1 Consensus size: 21
3402949 AAAGAGAATG
3402959 AATGAAAAAATGAAAAAGTGAAA
1 AATGAAAAAAT-AAAAA-TGAAA
**
3402982 AA-GAAAAAATAAAAAAAAAA
1 AATGAAAAAATAAAAATGAAA
* **
3403002 AATGAAAAAAAAAAAAAAAAAA
1 AATG-AAAAAATAAAAATGAAA
*
3403024 AATGAAAAAAAAAAAATGAAAAA
1 AATGAAAAAATAAAAATG--AAA
3403047 AATGAAAAAATGAAAAATGAAA
1 AATGAAAAAAT-AAAAATGAAA
3403069 AA
1 AA
3403071 AAAAGAAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.06
21 18 0.23
22 33 0.42
23 15 0.19
24 7 0.09
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.09
Consensus pattern (21 bp):
AATGAAAAAATAAAAATGAAA
Found at i:3403011 original size:36 final size:34
Alignment explanation
Indices: 3402963--3403074 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 34
3402953 AGAATGAATG
*
3402963 AAAAAATGAAAAAGTGAAAAAGAAAAAATAAAAAA
1 AAAAAATGAAAAAATGAAAAA-AAAAAATAAAAAA
**
3402998 AAAAAATGAAAAAAAAAAAAAAAAAAAATGAAAAAA
1 AAAAAATG-AAAAAATGAAAAAAAAAAAT-AAAAAA
*
3403034 AAAAAATGAAAAAAATGAAAAAATGAAAAATGAAAAA
1 AAAAAATG-AAAAAATGAAAAAA--AAAAATAAAAAA
3403071 AAAA
1 AAAA
3403075 GAAAAAGGAG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
35 15 0.22
36 37 0.55
37 9 0.13
38 6 0.09
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.08
Consensus pattern (34 bp):
AAAAAATGAAAAAATGAAAAAAAAAAATAAAAAA
Found at i:3404173 original size:105 final size:105
Alignment explanation
Indices: 3403981--3404666 Score: 1061
Period size: 105 Copynumber: 6.6 Consensus size: 105
3403971 TCAACAACAA
*
3403981 TCAAATCCACCCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
1 TCAAATCCA-CCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
3404046 TCCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
65 TCCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
3404087 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
* *
3404152 CCTAAAGGAGAAGGTTCGTAATGAGAAGAACTTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
3404192 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
3404257 CCTAAAGGAGAAGGTTCGTAATGAGAAGAG-CTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* *
3404296 TCAAATCCACCGCAG-A-GAGGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTG
1 TCAAATCCACCACAGAAGGA-GGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
* *
3404359 TCCTAAAGG-GAAGGTTCATAATGAGAAGAGCATGTTCCTT
65 TCCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* *
3404399 TCAAATCCACCGCAG-A-GAGGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
1 TCAAATCCACCACAGAAGGA-GGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
* * *
3404462 TCTTAAAGGAGAAGGTTCGTAATGACAAGAG--T-ATCCTT
65 TCCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
3404500 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAG-A-AGTTCATAATGAGAAGAAACTCG
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAG-AACTCG
*
3404563 TCTTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
65 TCCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* * * * * *
3404604 TTAAATTCACCCCAGAAGGAGGTGAATCGACATTTCCAGAAGAGTTCATAATGAGAACAACTC
1 TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
3404667 ATCCGAAAAA
Statistics
Matches: 545, Mismatches: 24, Indels: 23
0.92 0.04 0.04
Matches are distributed among these distances:
100 16 0.03
101 57 0.10
102 42 0.08
103 132 0.24
104 80 0.15
105 194 0.36
106 24 0.04
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (105 bp):
TCAAATCCACCACAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
Found at i:3404641 original size:206 final size:209
Alignment explanation
Indices: 3403981--3404666 Score: 1075
Period size: 206 Copynumber: 3.3 Consensus size: 209
3403971 TCAACAACAA
*
3403981 TCAAATCCACCCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
1 TCAAATCCACCC-CAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
*
3404046 TCCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTTTCAAATCCACCACAGAAGGAGGTG
65 TCCTAAAGGAGAAGGTTCGTAATGAGAAGAG-CTGTTCCTTTCAAATCCACCGCAGAAGGAGGTG
*
3404111 ACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAGGTTCGTAATGA
129 AACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAGGTTCGTAATGA
* *
3404176 GAAGAACTTGTTCCTT
194 GAAGAGCATGTTCCTT
* *
3404192 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCCCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
3404257 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCTGTTCCTTTCAAATCCACCGCAG-A-GAGGGTGA
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCTGTTCCTTTCAAATCCACCGCAGAAGGA-GGTGA
* *
3404320 ACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTGTCCTAAAGG-GAAGGTTCATAATGAG
130 ACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAGGTTCGTAATGAG
3404384 AAGAGCATGTTCCTT
195 AAGAGCATGTTCCTT
* *
3404399 TCAAATCCACCGCAG-A-GAGGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
1 TCAAATCCACCCCAGAAGGA-GGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCG
* * *
3404462 TCTTAAAGGAGAAGGTTCGTAATGACAAGAG-T-ATCCTTTCAAATCCACCGCAGAAGGAGGTGA
65 TCCTAAAGGAGAAGGTTCGTAATGAGAAGAGCTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGA
*
3404525 ACCAACATTTCCAG-A-AGTTCATAATGAGAAGAAACTCGTCTTAAAGGAGAAGGTTCGTAATGA
130 ACCAACATTTCCAGAAGAGTTCATAATGAGAAG-AACTCGTCCTAAAGGAGAAGGTTCGTAATGA
*
3404588 GAAGAGCCTGTTCCTT
194 GAAGAGCATGTTCCTT
* * * * *
3404604 TTAAATTCACCCCAGAAGGAGGTGAATCGACATTTCCAGAAGAGTTCATAATGAGAACAACTC
1 TCAAATCCACCCCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
3404667 ATCCGAAAAA
Statistics
Matches: 443, Mismatches: 24, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
203 16 0.04
204 34 0.08
205 64 0.14
206 114 0.26
207 46 0.10
208 52 0.12
209 23 0.05
210 83 0.19
211 11 0.02
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (209 bp):
TCAAATCCACCCCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAA
CCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAGGTTCGTAATGAGA
AGAGCATGTTCCTT
Found at i:3410697 original size:2 final size:2
Alignment explanation
Indices: 3410687--3410717 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3410677 TTTTCAACGT
3410687 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3410718 GTAAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3412162 original size:21 final size:21
Alignment explanation
Indices: 3412136--3412175 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
3412126 CCTGTTTATT
3412136 ATTATTT-ATTTATTTTATTTC
1 ATTATTTCA-TTATTTTATTTC
3412157 ATTATTTCATTATTTTATT
1 ATTATTTCATTATTTTATT
3412176 ATTTTTACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTATTTCATTATTTTATTTC
Found at i:3412180 original size:8 final size:8
Alignment explanation
Indices: 3412130--3412203 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
3412120 TTTAACCCTG
3412130 TTTATTAT
1 TTTATTAT
*
3412138 TAT-TTAT
1 TTTATTAT
*
3412145 TTATTTTAT
1 TT-TATTAT
*
3412154 TTCATTAT
1 TTTATTAT
*
3412162 TTCATTAT
1 TTTATTAT
3412170 TTTATTATT
1 TTTATTA-T
*
3412179 TTTACTCCAT
1 TTTA-T-TAT
3412189 TTTATTTAT
1 TTTA-TTAT
3412198 TTTATT
1 TTTATT
3412204 TTTCCCTCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
7 5 0.09
8 23 0.43
9 17 0.32
10 7 0.13
11 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTATTAT
Found at i:3413187 original size:17 final size:17
Alignment explanation
Indices: 3413165--3413198 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3413155 TCTTTTTACC
3413165 TTTTTCTT-TCATTACTA
1 TTTTTCTTAT-ATTACTA
3413182 TTTTTCTTATATTACTA
1 TTTTTCTTATATTACTA
3413199 ACTTTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTCTTATATTACTA
Found at i:3416212 original size:95 final size:95
Alignment explanation
Indices: 3416047--3416287 Score: 319
Period size: 95 Copynumber: 2.7 Consensus size: 95
3416037 AATATTATTT
3416047 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
* *
3416112 TATTCAGCTAGCCTGATAAAGGTGATTATA
66 GATTCAGCTAACCTGATAAAGGTGATTATA
* *
3416142 ATATACAATAAAGCTTGAGTTTTCCCTCTA-AGACAATTGGTTAAACGCCCTGGCTTTATGGATA
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAG-CAATTGGTTAAACGCCCCGGCTTTATGGATA
3416206 AGATTCAGCTAACCTGATAAA-G-G--TAT-
65 AGATTCAGCTAACCTGATAAAGGTGATTATA
* * *
3416232 -T-TAC-AT--A--TTGAGCTGCCCCTCTAGAGCAATTGGTAAAACGCCCCGGCTTTATGGAT
1 ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
3416288 CCAGCTAGCC
Statistics
Matches: 135, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
83 41 0.30
84 2 0.01
85 1 0.01
87 2 0.01
88 3 0.02
89 1 0.01
91 3 0.02
93 1 0.01
94 3 0.02
95 78 0.58
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (95 bp):
ATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAA
GATTCAGCTAACCTGATAAAGGTGATTATA
Found at i:3418034 original size:247 final size:244
Alignment explanation
Indices: 3417419--3419141 Score: 1696
Period size: 247 Copynumber: 7.0 Consensus size: 244
3417409 TATCTGCCAT
* * *
3417419 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGG
* * ** * * * *
3417484 CTAGAAGGGTTATATGTCTCCAAAGACCTTCAAGTTCGAATACGCTCAGCTCCAAGGTACATCAT
65 CTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCACATCAT
* * * *
3417549 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTTCACTCAGC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * *
3417614 TTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
195 TTC-AAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTG-C
* * * * * *
3417666 ACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCAAAGGCATATTATTTGCAACATAACTTAAGT
1 -CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* * * * * * *
3417731 CGAGAAGGGCTATCTG-C--CAAAGACCTTCGAGTTCGACTATGTTCAGCTCCAAGGCACATCTT
65 CTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCACATCAT
* * * * * *
3417793 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCTCCAAAGACCTTCGAGTTCGACTACGCTC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCTTCGAGTTCGACTACGCTC
* * * * * * *
3417858 AGCTTCAAGGTACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATATG-
192 AGCTTCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGC
* * * * * *
3417910 CCAAAGACCCTCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGG
* *
3417975 CTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTTAAAGGCACAAT-A
65 CTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCAC-ATCA
* ** * * **
3418039 CTTGCAGCATAAATTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTTGAGTTCGATTTTGC
129 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGACTACGC
* * * * * * *
3418104 TAAGC-TCAATGACACATCATTTGCGGTATAGCTTAATGCTAGAAGGGCTATCTG-
190 TCAGCTTCAA-GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGC
* * * * *
3418158 TCAAAGACCTTCGAGTTCAACTACGTTCAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGC
* * * * * *
3418223 TAGAAGGGTTATCTACCAACAAATACATTTGAGTTCGATTACACTCAGCTCAAAGGCACAACATT
66 TAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCACATCATT
** * *
3418288 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAGCCAAAGACCTTTAAGTTCGATTATGCTC
131 TGCAGCATAGCTTAAGTCGAGAAGGGCTATC-T---GCCAAAGACCTTCGAGTTCGACTACGCTC
* *
3418353 AGC-TCAACGACACATCATTTGC-G-ATATAGCTCAAGGCTAGAAGGGCTATCT-A
192 AGCTTCAA-GGCACATCATTTGCAGCATA-A-CTCAAGGCTAGAAGGGCTATCTGC
* * ** **
3418405 CCAAAGAGCTTCGAGTTCGACTACGCTCATCTCCAAA-GCACATCATTTATATTATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAAGGCACATCATTTGCAGCATAACTCAAGG
** * *
3418469 CTAGAAGGGTTATCTATCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCAT
65 CTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCACATCAT
*
3418534 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGTTCAGC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC
* * *
3418599 TCCAAGGCACATCATTTGCATCATAACTCAAGGCTAGAAGGGTTATCTGC
195 TTCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGC
* * * * *
3418649 CAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAATGCACAACATTTGCAGCATAACTTAAG
1 C--CAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAG
* * * * * *
3418714 TCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTTGATTATGCTCAGCTCAACA-ACACAT
64 GCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACGCTCAGCTCAA-AGGCACAT
* * * * * ** *
3418778 CATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATCTATCAAAGACCTTCGAGTTCGACTACG-TT
127 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTC
* * * *
3418842 ATGCTCCAAGGCACATCATTTGCTGTATAACTCAAGGCTAGAAGGGTTATCTGC
192 A-GCTTCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGC
* * * * * * * *
3418896 CAACAAAGACCTTCGAGTTTGATTACACTTAGCTCAAAGGCACAACATTTGCAGTATAGCTTAAG
1 C--CAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAG
* * * * * * * * *
3418961 TCGAGAATGGATATCTGCCAATCAAAGACCTTTGAGTTCGATTATGCTCAGCTCAACGACACATT
64 GCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCACATC
* * * * * * *
3419026 ATTTG-AGGTATAACTCAAGGCTATAAGGGCTATCTGCCAAAGACCTTCGAGTTCAACTACGCTC
128 ATTTGCA-GCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTC
* * * * **
3419090 AAC-TCTAAGGCACATCATTTACAGTATAGCTCAAGGAAAGAAGGGCTATCTG
192 AGCTTC-AAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTG
3419142 TCAATAAAAT
Statistics
Matches: 1250, Mismatches: 192, Indels: 67
0.83 0.13 0.04
Matches are distributed among these distances:
243 87 0.07
244 112 0.09
245 11 0.01
246 106 0.08
247 808 0.65
248 125 0.10
251 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (244 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGC
TAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCACATCATT
TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCT
TCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGC
Found at i:3418058 original size:327 final size:326
Alignment explanation
Indices: 3417378--3419143 Score: 1870
Period size: 327 Copynumber: 5.4 Consensus size: 326
3417368 TTATACAAAC
* * * * *
3417378 TATTTGCAGTATAGCTTAAGTTGAGAAAGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTAC
1 TATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGACTAC
* * * * *
3417443 GCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCTCCAAA
62 GCTCAGC-TCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGCTATCTGTCTCCAAA
* * * *
3417508 GACCTTCAAGTTCGAATACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTAAGTCGAGAA
126 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAA
* * * * *
3417573 GGGCTATCTGCCAAAGACCCTCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCATTTACAGCA
191 GGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTGCAGCA
* * * *
3417638 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCAAA
255 TAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAA
* *
3417703 GGCATAT
320 GGCACAA
* * *
3417710 TATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTATGTTC
1 TATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTC
* * *
3417775 AGCTCCAAGGCACATCTTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCTCCAAAGACCT
66 AGCTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGCTATCTGTCTCCAAAGACCT
* *
3417840 TCGAGTTCGACTACGCTCAGCTTCAAGGTACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCT
131 TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCT
* * * * *
3417905 ATATGCCAAAGACCCTCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCATTTGCAGCATAACT
196 ATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACT
* *
3417970 CAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTTAAAGGCAC
260 CAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCAC
3418035 AA
325 AA
* * * * **
3418037 TACTTGCAGCATAAATTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTTGAGTTCGATTTT
1 TATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGACTAC
* * * * * * *
3418102 GCTAAGCT-CAATGACACATCATTTGCGGTATAGCTTAATGCTAGAAGGGCTATCTG--T-CAAA
62 GCTCAGCTCCAA-GGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGCTATCTGTCTCCAAA
* * * * * *
3418163 GACCTTCGAGTTCAACTACGTTCAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAA
126 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAA
* * * * * *
3418228 GGGTTATCTACCAACAAATACATTTGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGCAG
191 GGGCTATCT-GC--CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAG
* * * * * * * ** *
3418293 CATAGCTTAAGTCGAGAAGGGCTATCTTCCAGCCAAAGACCTTTAAGTTCGATTATGCTCAGCTC
253 CATAACTCAAGGCTAGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGATTACGCTCAGCTC
* *
3418358 AACGACAC-A
317 AAAGGCACAA
* * * * *
3418367 TCATTTGC-G-ATATAGCTCAAGGCTAGAAGGGCTATCTACCAAAGAGCTTCGAGTTCGACTACG
1 T-ATTTGCAGCATA-A-CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACG
* * * * * * *
3418430 CTCATCTCCAAAGCACATCATTTATATTATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAGA
63 CTCAGCTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGCTATCTGTCTCCAAAGA
* *
3418495 CCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGG
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGG
* ** * *
3418560 GCTATCTGCCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCATCATAA
193 GCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAA
* *
3418625 CTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAATGC
258 CTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGC
3418690 ACAA
323 ACAA
* * * * * *
3418694 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTTGATTAT
1 TATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGACTAC
* * * *
3418759 GCTCAGCTCAACAA--CACATCATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATC--TAT-CAA
62 GCTCAGCTC--CAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGCTATCTGTCTCCAA
* * * * * *
3418819 AGACCTTCGAGTTCGACTACG-TTATGCTCCAAGGCACATCATTTGCT-GTATAACTCAAGGCTA
125 AGACCTTCGAGTTCGACTACGCTCA-GCTCCAAGGCACATCATTTG-TAGCATAGCTTAAGTCGA
* * * *
3418882 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTTGATTACACTTAGCTCAAAGGCACAACATTTG
188 GAAGGGCTATCTG-C--CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTG
* * * * * * * * *
3418947 CAGTATAGCTTAAGTCGAGAATGGATATCTGCCAATCAAAGACCTTTGAGTTCGATTATGCTCAG
250 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACGCTCAG
* * *
3419012 CTCAACGACACAT
314 CTCAAAGGCACAA
* * * * * *
3419025 TATTTG-AGGTATAACTCAAGGCTATAAGGGCTATCTGCCAAAGACCTTCGAGTTCAACTACGCT
1 TATTTGCA-GCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCT
* * * **
3419089 CAACTCTAAGGCACATCATTTACAGTATAGCTCAAGGAAAGAAGGGCTATCTGTC
65 CAGCTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGCTATCTGTC
3419144 AATAAAATTG
Statistics
Matches: 1194, Mismatches: 204, Indels: 75
0.81 0.14 0.05
Matches are distributed among these distances:
325 2 0.00
326 59 0.05
327 532 0.45
328 105 0.09
329 7 0.01
330 249 0.21
331 206 0.17
332 34 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (326 bp):
TATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTC
AGCTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGCTATCTGTCTCCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCT
ATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTC
AAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACGCTCAGCTCAAAGGCACA
A
Found at i:3418612 original size:410 final size:410
Alignment explanation
Indices: 3417401--3419140 Score: 1857
Period size: 410 Copynumber: 4.2 Consensus size: 410
3417391 GCTTAAGTTG
* * * * * * *
3417401 AGAAAGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACAACAT
* * * * * * * * * *
3417466 TTACAGCATAACTCAAGGCTAGAAGGGTTATATGT-C-TCCAAAGACCTTCAAGTTCGAATACGC
64 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT-TCCAGCCAAAGACCTTCAAGTTCGATTATGC
** * * * * *
3417529 TCAGCTCCAA-GGTACATCATTTGC-AGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
128 TCAGCT-CAACGACACATCATTTGCGA-TATAGCTCAAGGCTAGAAGGGCTATCTACCAAAGACC
* * * * **
3417592 CTCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
191 TTCGAGTTCGACTACACTCAGC-TCCAAAGCACATCATTTACAGCATAACTCAAGGCTAGAAGGG
* * * *
3417657 TTATCTGTCACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCAAAGGCATATTATTTGCAACAT
255 TTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCAT
* *
3417722 AACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTATGTTCAGCTCCAAGGCA
320 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCA
* *
3417787 CATCTTTTACAGCATAACTCAAGGCT
385 CATCATTTGCAGCATAACTCAAGGCT
* ** * * * *
3417813 AGAAGGGTTATCTGTCTCCAAAGACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGTACATCATT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACAACATT
* * * * *
3417877 TGTAGCATAGCTTAAGTCGAGAAGGGCTAT-AT---GCCAAAGACCCTCGAGTTCGATT-TCACT
65 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAGCCAAAGACCTTCAAGTTCGATTAT-GCT
* * * * *
3417937 CAGCTTCGAGGGCACATCATTTGCAGCATA-A-CTCAAGGCTAGAAGGGTTATCTGCCAACAAAG
129 CAGC-TCAACGACACATCATTTGC-G-ATATAGCTCAAGGCTAGAAGGGCTATCT---ACCAAAG
* * * * * * * *
3418000 ACCTTCGAGTTCGATTACACTCAGCT-TAAAGGCACAAT-ACTTGCAGCATAAATTAAGTCGAGA
188 ACCTTCGAGTTCGACTACACTCAGCTCCAAA-GCAC-ATCATTTACAGCATAACTCAAGGCTAGA
* * * * ** * * *
3418063 AGGGCTATCTGCTAACCAAAGACCTTTGAGTTCGATTTTGCTAAGCTCAATGACACATCATTTGC
251 AGGGTTATCTG-TCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGC
* * * * *
3418128 GGTATAGCTTAA-TGCTAGAAGGGCTATCTGTCAAAGACCTTCGAGTTCAACTACGTTCAGCTCC
315 AGCATAGCTTAAGT-CGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGTTCAGCTCC
*
3418192 AAGGCACATCATTTGTAGCATAACTCAAGGCT
379 AAGGCACATCATTTGCAGCATAACTCAAGGCT
* * * *
3418224 AGAAGGGTTATCTACCAACAAATACATTTGAGTTCGATTACACTCAGCTCAAAGGCACAACATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTT
*
3418289 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAGCCAAAGACCTTTAAGTTCGATTATGCTCA
66 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAGCCAAAGACCTTCAAGTTCGATTATGCTCA
*
3418354 GCTCAACGACACATCATTTGCGATATAGCTCAAGGCTAGAAGGGCTATCTACCAAAGAGCTTCGA
131 GCTCAACGACACATCATTTGCGATATAGCTCAAGGCTAGAAGGGCTATCTACCAAAGACCTTCGA
* * * **
3418419 GTTCGACTACGCTCATCTCCAAAGCACATCATTTATATTATAACTCAAGGCTAGAAGGGTTATCT
196 GTTCGACTACACTCAGCTCCAAAGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
*
3418484 ATCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTA
261 GTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTA
3418549 AGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCAT
326 AGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCAT
*
3418614 TTGCATCATAACTCAAGGCT
391 TTGCAGCATAACTCAAGGCT
*
3418634 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAATGCACAACATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTT
* * * * ** *
3418699 GCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTTGATTATGCTCA
66 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAGCCAAAGACCTTCAAGTTCGATTATGCTCA
* * *
3418764 GCTCAACAACACATCATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATCTATCAAAGACCTTCGA
131 GCTCAACGACACATCATTTGCGATATAGCTCAAGGCTAGAAGGGCTATCTACCAAAGACCTTCGA
* * * * * *
3418829 GTTCGACTAC-GTTATGCTCCAAGGCACATCATTTGCTGTATAACTCAAGGCTAGAAGGGTTATC
196 GTTCGACTACACTCA-GCTCCAAAGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATC
* * * * * * * *
3418893 TGCCAACAAAGACCTTCGAGTTTGATTACACTTAGCTCAAAGGCACAACATTTGCAGTATAGCTT
260 TGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTT
* * * * * * *
3418958 AAGTCGAGAATGGATATCTGCCAATCAAAGACCTTTGAGTTCGATTATGCTCAGCT-CAACGACA
325 AAGTCGAGAAGGGCTATCTG-C---CAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAA-GGCA
* *
3419022 CATTATTTG-AGGTATAACTCAAGGCT
385 CATCATTTGCA-GCATAACTCAAGGCT
* * * * * * * *
3419048 ATAAGGGCTATCTG-C--CAAAGACCTTCGAGTTCAACTACGCTCAACTCTAAGGCACATCATTT
1 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTT
* * * ***
3419110 ACAGTATAGCTCAAGGAAAGAAGGGCTATCT
66 GCAGCATAGCTTAAGTCGAGAAGGGCTATCT
3419141 GTCAATAAAA
Statistics
Matches: 1123, Mismatches: 174, Indels: 63
0.83 0.13 0.05
Matches are distributed among these distances:
407 27 0.02
408 33 0.03
409 4 0.00
410 513 0.46
411 391 0.35
412 21 0.02
413 7 0.01
414 100 0.09
415 26 0.02
416 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (410 bp):
AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTT
GCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAGCCAAAGACCTTCAAGTTCGATTATGCTCA
GCTCAACGACACATCATTTGCGATATAGCTCAAGGCTAGAAGGGCTATCTACCAAAGACCTTCGA
GTTCGACTACACTCAGCTCCAAAGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
GTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTA
AGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCAT
TTGCAGCATAACTCAAGGCT
Found at i:3418850 original size:657 final size:655
Alignment explanation
Indices: 3417379--3419140 Score: 2312
Period size: 657 Copynumber: 2.7 Consensus size: 655
3417369 TATACAAACT
* * * * * * * *
3417379 ATTTGCAGTATAGCTTAAGTTGAGAAAGGTTATCTGCCATCCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTATG
* * * * * * * * * *
3417444 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCTCCAAAG
66 CTCAGC-TCAACGACACATCATTTGCGGTATAGCTCAAGGCTAGAAGGG--CTATCTAT-CAAAG
* * * * * * * * *
3417509 ACCTTCAAGTTCGAATACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTAAGTCGAGAAG
127 ACCTTCGAGTTCGACTACG-TTAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAG
* * * * * * * *
3417574 GGCTATCTGC--CAAAGACCCTCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCATTTACAGC
191 GGTTATCTCCAACAAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACAACATTTGCAGC
* * * * * * * * *
3417637 ATAACTCAAGGCTAGAAGGGTTATCTGT-CACCAAAGACCTTCGAGTTCAACTACGCTCAGCTCA
255 ATAGCTTAAGTCGAGAAGGGATATCT-TCCACCAAAGACCTTTGAGTTCGATTATGCTCAGCTCA
* * * * * * * *
3417701 AAGGCATATTATTTGCAACATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCG
319 ACGACACATTATTTGCGATATAACTCAAGGCTAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCG
* * * * * * *
3417766 ACTATGTTCAGCTCCAAGGCACATCTTTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCTC
384 ACTACGCTCAACTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTATCAC
* *
3417831 CAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGTACATCATTTGTAGCATAGCTTAAGTCG
449 CAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * * *
3417896 AGAAGGGCTATATGCCAAAGACCCTCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCATTTGC
514 AGAAGGGCTATATGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGC
3417961 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
579 AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCT
* *
3418026 TAAAGGCACAAT
644 CAAAGGCACAAC
* * * * *
3418038 ACTTGCAGCATAAATTAAGTCGAGAAGGGCTATCTGCTAACCAAAGACCTTTGAGTTCGATTTTG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTATG
* * * * *
3418103 CTAAGCTCAATGACACATCATTTGCGGTATAGCTTAATGCTAGAAGGGCTATCTGTCAAAGACCT
66 CTCAGCTCAACGACACATCATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATCTATCAAAGACCT
*
3418168 TCGAGTTCAACTACGTTCAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTT
131 TCGAGTTCGACTACGTT-AGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTT
* * *
3418233 ATCTACCAACAAATACATTTGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGCAGCATAG
195 ATCT-CCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGCAGCATAG
* *
3418298 CTTAAGTCGAGAAGGGCTATCTTCCAGCCAAAGACCTTTAAGTTCGATTATGCTCAGCTCAACGA
259 CTTAAGTCGAGAAGGGATATCTTCCA-CCAAAGACCTTTGAGTTCGATTATGCTCAGCTCAACGA
* * * *
3418363 CACATCATTTGCGATATAGCTCAAGGCTAGAAGGGCTATCTACCAAAGAGCTTCGAGTTCGACTA
323 CACATTATTTGCGATATAACTCAAGGCTAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTA
* * * *
3418428 CGCTCATCTCCAAAGCACATCATTTATATTATAACTCAAGGCTAGAAGGGTTATCTATCACCAAA
388 CGCTCAACTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTATCACCAAA
3418493 GACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
453 GACCTTCGAGTTCGACTACGCTCAGCTTC-AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
* * ** *
3418557 AGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGTTCAGC-TCCAAGGCACATCATTTGCATC
517 AGGGCTATATGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGC
3418621 ATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
582 ATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAA
*
3418686 ATGCACAAC
647 AGGCACAAC
*
3418695 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTTGATTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTATG
*
3418760 CTCAGCTCAACAACACATCATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATCTATCAAAGACCT
66 CTCAGCTCAACGACACATCATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATCTATCAAAGACCT
*
3418825 TCGAGTTCGACTACGTTATGCTCCAAGGCACATCATTTGCT-GTATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGACTACGTTA-GCTCCAAGGCACATCATTTG-TAGCATAACTCAAGGCTAGAAGGGT
* * *
3418889 TATCTGCCAACAAAGACCTTCGAGTTTGATTACACTTAGCTCAAAGGCACAACATTTGCAGTATA
194 TATCT-CCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGCAGCATA
* * *
3418954 GCTTAAGTCGAGAATGGATATCTGCCAATCAAAGACCTTTGAGTTCGATTATGCTCAGCTCAACG
258 GCTTAAGTCGAGAAGGGATATCTTCC-ACCAAAGACCTTTGAGTTCGATTATGCTCAGCTCAACG
* * * *
3419019 ACACATTATTTGAGGTATAACTCAAGGCTATAAGGGCTATCTGCCAAAGACCTTCGAGTTCAACT
322 ACACATTATTTGCGATATAACTCAAGGCTAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACT
* * ** *
3419084 ACGCTCAACTCTAAGGCACATCATTTACAGTATAGCTCAAGGAAAGAAGGGCTATCT
387 ACGCTCAACTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCT
3419141 GTCAATAAAA
Statistics
Matches: 957, Mismatches: 136, Indels: 22
0.86 0.12 0.02
Matches are distributed among these distances:
654 1 0.00
655 65 0.07
656 8 0.01
657 530 0.55
658 296 0.31
659 57 0.06
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (655 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTATG
CTCAGCTCAACGACACATCATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATCTATCAAAGACCT
TCGAGTTCGACTACGTTAGCTCCAAGGCACATCATTTGTAGCATAACTCAAGGCTAGAAGGGTTA
TCTCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGCAGCATAGCT
TAAGTCGAGAAGGGATATCTTCCACCAAAGACCTTTGAGTTCGATTATGCTCAGCTCAACGACAC
ATTATTTGCGATATAACTCAAGGCTAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGC
TCAACTCCAAGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAGAC
CTTCGAGTTCGACTACGCTCAGCTTCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
CTATATGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAA
CTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGC
ACAAC
Found at i:3421005 original size:13 final size:12
Alignment explanation
Indices: 3420985--3421028 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
3420975 TTTAACCCTG
3420985 TTTA-TTATTAT
1 TTTATTTATTAT
3420996 TGTTATTTATTTAT
1 T-TTATTTA-TTAT
3421010 TTTATTTCATTAT
1 TTTATTT-ATTAT
3421023 TTTATT
1 TTTATT
3421029 ATTTTTACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.03
12 3 0.10
13 19 0.66
14 6 0.21
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTTATTAT
Found at i:3426159 original size:129 final size:130
Alignment explanation
Indices: 3425701--3426179 Score: 640
Period size: 131 Copynumber: 3.7 Consensus size: 130
3425691 ATAATATCTT
* * * * *
3425701 TTCATTTC-AGTTGGAGTAATAAATAAATTCTTTAAGGCATGAGATGTCATTTATTCTCGATTGG
1 TTCATTTCGA-TTGGAGCAATAAATGAATGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGG
* * * * *
3425765 AAATAATTTGATGTTACCGTTTTCTCTCGAATTAATATTGATTTTTAAGACGGAATAGTGATATA
65 AAATAATTAGATATTATCGTTTTCACTCGAATTAATATTGAATTTTAAGA-GGAATAGTGATATA
*
3425830 TT
129 TC
* * * *
3425832 TTCATTTCGATTAGAGCAATAAATGACTGCTTTAAGGTATGAGAGATTATTTATTCTCGATTGGA
1 TTCATTTCGATTGGAGCAATAAATGAATGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGA
* * *
3425897 AATCATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGATGGAATAATGATATAT
66 AATAATTAGATATTATCGTTTTCACTCGAATTAATATTGAATTTTAAGA-GGAATAGTGATATAT
3425962 C
130 C
* *
3425963 TTCATTTCGATTGGAGCAATAAATGATTGGTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGA
1 TTCATTTCGATTGGAGCAATAAATGAATGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGA
* * * *
3426028 AATCATTAGATATTATCGTTTTCACTCGAATTGATATTGAATTTTAAGA-AAATAGTGATATCTC
66 AATAATTAGATATTATCGTTTTCACTCGAATTAATATTGAATTTTAAGAGGAATAGTGATATATC
* **
3426092 TTCATTTCGATTGGAGTAATAAATGAATGCTTTAA-GTCATGAGAGGTCATTTATTCTCGATCAG
1 TTCATTTCGATTGGAGCAATAAATGAATGCTTTAAGGT-ATGAGAGGTCATTTATTCTCGATTGG
* *
3426156 AAATAATTGGATATTATCATTTTC
65 AAATAATTAGATATTATCGTTTTC
3426180 TCTCTTAGAA
Statistics
Matches: 309, Mismatches: 37, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
128 2 0.01
129 89 0.29
131 217 0.70
132 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.40
Consensus pattern (130 bp):
TTCATTTCGATTGGAGCAATAAATGAATGCTTTAAGGTATGAGAGGTCATTTATTCTCGATTGGA
AATAATTAGATATTATCGTTTTCACTCGAATTAATATTGAATTTTAAGAGGAATAGTGATATATC
Found at i:3427037 original size:2 final size:2
Alignment explanation
Indices: 3427032--3427122 Score: 175
Period size: 2 Copynumber: 46.0 Consensus size: 2
3427022 ACACACACAC
3427032 AT 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 AT
3427074 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3427115 AT AT AT AT
1 AT AT AT AT
3427123 GAACATTTGT
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 87 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3435467 original size:35 final size:35
Alignment explanation
Indices: 3435421--3435495 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
3435411 TTCATGTTCA
3435421 AAATTCCAAAATACTTGAATTACATTCTAAACCCT
1 AAATTCCAAAATACTTGAATTACATTCTAAACCCT
* * *
3435456 AAATTCTAAAATACTTTAATTACATTCTAAACCTT
1 AAATTCCAAAATACTTGAATTACATTCTAAACCCT
3435491 AAATT
1 AAATT
3435496 GAAGTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (35 bp):
AAATTCCAAAATACTTGAATTACATTCTAAACCCT
Found at i:3436089 original size:20 final size:21
Alignment explanation
Indices: 3436048--3436094 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
3436038 TTAGGCAATT
* *
3436048 TCGATATTGTTCGTGTTGATA
1 TCGATAATGTTCATGTTGATA
3436069 TCGATAATGTTCATG-TGATA
1 TCGATAATGTTCATGTTGATA
3436089 TCGATA
1 TCGATA
3436095 TCAAGAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.43
Consensus pattern (21 bp):
TCGATAATGTTCATGTTGATA
Found at i:3439205 original size:17 final size:18
Alignment explanation
Indices: 3439164--3439205 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
3439154 GTGAAACTCC
*
3439164 AAAAGAAGAAGGAAGAAGA
1 AAAAG-AGAAGGAACAAGA
*
3439183 ATAAGAGAA-GAACAAGA
1 AAAAGAGAAGGAACAAGA
3439200 AAAAGA
1 AAAAGA
3439206 ATGAGGTGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
19 4 0.20
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.02
Consensus pattern (18 bp):
AAAAGAGAAGGAACAAGA
Found at i:3444267 original size:242 final size:245
Alignment explanation
Indices: 3443805--3444514 Score: 762
Period size: 259 Copynumber: 2.8 Consensus size: 245
3443795 AGGTCTTATA
* **
3443805 GATGGCCCGAAA-GACTTATCATCTTGCTCGAAA-ATCTGAAAAATGACCCAAAGGATTTAATCA
1 GATGGCCC-AAAGGACTTATCATCTTGCTCGAAAGA-CTGAAAGATGACCTGAAGGATTTAATCA
* * * * *
3443868 TCATGCTCGAAAGACTTTCTGATGGCCTGAAGGACTTATCAATTTTGGAAATAGTCTATTGGGTA
64 TCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATATTCTATT-GGTA
* * * * *
3443933 AGAAACTTTGGAAATTGCTTTCTTACTTTTCAAATA-TTCATTTTCTAAAAATATTAAGTGAGAA
128 AGAAACTTTGGAAACTGTTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTAAATGAGAA
* ** **
3443997 ACTTTGGAAATCGTTTTCTCATTTTTTTTCCCGAAAATCATGTG-A-AA-TC-ATC
193 ACTTTGAAAATCACTTAATCATTTTTTTT---GAAAATCATGTGAACAAGTCTATC
* * *
3444049 -AT-GCCTAAAGGACTTATCATCTTGCTCGAAAGAGTGACAGATGACCTGAAGGATTTAATCATC
1 GATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGAAAGATGACCTGAAGGATTTAATCATC
*
3444112 ATGCTCAAAAGGCTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATATTCTATTGCGTAAG
66 ATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATATTCTATTG-GTAAG
* * * *
3444177 AAACTTTAGAAACTGTTTTCTTACTTTTCAAAAATTTCATCTACTCAAAATACTAAATGAGAAAC
130 AAACTTTGGAAACTGTTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTAAATGAGAAAC
*
3444242 TTCGAAAATCACTTAATCA-TTTTTTTGAAAATCATGTGAAAACATTCTTCCCGAAGGTCTTATC
195 TTTGAAAATCACTTAATCATTTTTTTTGAAAATCATGTG---A-A-------C-AA-GTC-TATC
* * * *
3444306 GATGGCCCGAAGGACTTATTATCTTGCTCGAAAGACTGATAGATGACCTGAAGGATTTAGTCATC
1 GATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGAAAGATGACCTGAAGGATTTAATCATC
** * *
3444371 ATGCTCAAAAGACTTA-TCGATGGCCCGAATAACTTACCAATTTTGGAAATAGTT-TACTAGTTA
66 ATGCTCAAAAGACTTACT-GATGGCCCGAAGGACTTACCAATTTTGGAAATA-TTCTA-TTGGTA
* * *
3444434 ATAAGCTTTGGAAATCT-TTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAGA
128 AGAAACTTTGGAAA-CTGTTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTAAATGAGA
3444498 AACTTTGAAAATCACTT
192 AACTTTGAAAATCACTT
3444515 TCTTATTTTT
Statistics
Matches: 393, Mismatches: 45, Indels: 41
0.82 0.09 0.09
Matches are distributed among these distances:
239 12 0.03
241 4 0.01
242 143 0.36
243 41 0.10
244 1 0.00
253 2 0.01
255 2 0.01
257 3 0.01
258 3 0.01
259 176 0.45
260 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (245 bp):
GATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGAAAGATGACCTGAAGGATTTAATCATC
ATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATATTCTATTGGTAAGA
AACTTTGGAAACTGTTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATACTAAATGAGAAACT
TTGAAAATCACTTAATCATTTTTTTTGAAAATCATGTGAACAAGTCTATC
Found at i:3447011 original size:14 final size:15
Alignment explanation
Indices: 3446979--3447016 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
3446969 TTGATGATAA
**
3446979 ATGAAGAAGAAGATG
1 ATGAAGAAGAAGAAC
3446994 ATGAA-AAGAAGAAC
1 ATGAAGAAGAAGAAC
3447008 ATGAAGAAG
1 ATGAAGAAG
3447017 GAGGTAGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.58, C:0.03, G:0.29, T:0.11
Consensus pattern (15 bp):
ATGAAGAAGAAGAAC
Found at i:3450115 original size:784 final size:790
Alignment explanation
Indices: 3448592--3450117 Score: 2147
Period size: 784 Copynumber: 1.9 Consensus size: 790
3448582 AAAGGGGGAG
*
3448592 AAGTATTGTTTGAAAAATTCAATTTCTCAATGAAAAAGTGGGAGCTTTTAACATTTTCCAAAATA
1 AAGTATGGTTTGAAAAATTCAATTTCTCAATGAAAAAGTGGGAGCTTTTAACATTTTCCAAAATA
*
3448657 TGTCTATTTTTCATTAAATATTTTATTAAGGGGGAGTTTTGCCAAAAAACAATTTTTCAAATGTT
66 TGTCTATTTTTCATTAAATATTTTATTAAGGGGGAGTTTTACCAAAAAACAATTTTTCAAATGTT
* *
3448722 TTGTTATATCAAAAATGGGGAGATTGTAGAACCATGTTTTGTAATATTTTGATATAACAAATTAA
131 TTGTTATATCAAAAAGGGGGAGATTGTAGAACCATGATTTGTAATATTTTGATATAACAAATTAA
* *
3448787 GGAAAATGATTTTAGACTTAATTGAAGTTGTTCAAAGTTTTCAAAAATTATTCAAAGTCCATTAA
196 GGAAAATGATTTTAGACTTAATTGAAGTTGTTCAAAGTTTTCAAAAATTATTCAAAATCAATTAA
* **
3448852 AAGTGAATTCGAGCACAAAATTGATTTTCACTTACGAAGTAGCGATATTGTTCTAACAGTATTGA
261 AAGTGAATTC-A-CACAAAA-TGATTTTCAC-TACGAAATAGCGATATTGTTCTAACAGTACCGA
* * * * *
3448917 TATTATATGAACAATACCGATATTGTTCATGTGGTACCAATACCATATGAAAGAGAAGTATTGAT
322 TACTATATGAACAATACCGATATTGTTCATATGGTACCAATACCATAGGAAAGAGAACTATCGAT
* * *
3448982 ACTCTCTAAGTAGTACCGATACTACCAGCATTACTCAAATTCCATAATGCAAAAATGGTATCGAT
387 ACTCTCTAAGTAGTACCGATAATACCAGCATTACTCAAATTCCAGAATACAAAAATGGTATCGAT
*
3449047 ACCCAAAGGGGTACTGATATTACTTTACATAGTAGTATCGATACCATAGGCTTAGTTTCAATACC
452 ACCCAAAGGGGTACTGATATTACTTTACATAGTAGTATCGATACCATAGGCTTAGTATCAATACC
* * * * * * *
3449112 GTCAGGCTCAAACGGCTAGTATCAACTAGTTTTATTTAAAAATAACAAAGGTAGTATCGATACTC
517 GTCAAGCACAAACAGCTAGTAACAACTAGCTTTATTTAAAAATAACAAAGGTAATACCGATACTC
* * *
3449177 CCTTTAGGAGTACCGATACCCTATGTCTTGGGCAGTTTTATTTTGTAGAGGAAAATATCCCCAAC
582 CCTTTAGGAGTACCGATACCCTATGTCTTGGGCAGTTTTATTTTGCAGAGAAAAACATCCCCAAC
* *
3449242 GGCTAGAAATGGCCACAAACTCATTCCAACATATAAATACAAGTTCAAGACACTTGAAGAAGAGT
647 GGCTAGAAACGACCACAAACTCATTCCAACATATAAATACAAGTTCAAGACACTTGAAGAAGAGT
* *
3449307 TAGAGCACCTATCCAAGCAATCAAACACAAAAGAAGAGCTTTTCACTCTTTATTTCTATTCTTTT
712 TAGAACACCTATCCAAACAATCAAACACAAAAGAAGAGCTTTTCACTCTTTATTTCTATTCTTTT
3449372 TTAAATATTTTGTA
777 TTAAATATTTTGTA
* *
3449386 AAGTATGGTTTGAAAAATTCAATTTCTTAATGAAAAA-TATGGAGCTTTTAACATTTTCCAAAAT
1 AAGTATGGTTTGAAAAATTCAATTTCTCAATGAAAAAGT-GGGAGCTTTTAACATTTTCCAAAAT
* *
3449450 ATGTCTCTTTTTCATTAAATATTTTATTAAGGGGGAGTTTTACCAAAAAATAATTTTTTCAAATG
65 ATGTCTATTTTTCATTAAATATTTTATTAAGGGGGAGTTTTACCAAAAAACAA-TTTTTCAAATG
* * *
3449515 TTTTGTTATATCAAACAGGGGGAGATTGTTGAATCATGATTTGTAATATTTTGATA-AACAAATT
129 TTTTGTTATATCAAAAAGGGGGAGATTGTAGAACCATGATTTGTAATATTTTGATATAACAAATT
* * * *
3449579 AAGGCAAAATGTTTTTGGACTTAATTGAATTTGTTCAAAGTTTTCAAAAGTT-TTCAAAAAT-AA
194 AAGG-AAAATGATTTTAGACTTAATTGAAGTTGTTCAAAGTTTTCAAAAATTATTC-AAAATCAA
* * * * ** * *
3449642 TTCAAAGCT-CATT-A-A-AAGA-GATTTTGAGC-AC-AAAT-TTGATTTTCACGTTC-GA-AGT
257 TTAAAAG-TGAATTCACACAAAATGATTTTCA-CTACGAAATAGCGATATT---GTTCTAACAGT
* * *
3449697 ACCGATACTATATGAACAGTATCGATATTGTTCATATGGTA-TAGATAACC-TAGGAAAGAGAAC
317 ACCGATACTATATGAACAATACCGATATTGTTCATATGGTACCA-AT-ACCATAGGAAAGAGAAC
* * *
3449760 TATCGATACTCTCTAGGTAGTACCGATAATAGCAGCATTGCTCAAATTCCAGAATACAAAAATGG
380 TATCGATACTCTCTAAGTAGTACCGATAATACCAGCATTACTCAAATTCCAGAATACAAAAATGG
*
3449825 TATCGATACCCAAAGGGGTA-TCGATAGTT-CTTTACATAGTAGTATCGATACCATAGGTTTAGT
445 TATCGATACCCAAAGGGGTACT-GATA-TTACTTTACATAGTAGTATCGATACCATAGGCTTAGT
* *
3449888 ATCAATACCTTCAAGCAC-AACAGCTAGTAACAGCTAGCTTTATTTAAAAATAACAAAGGTAATA
508 ATCAATACCGTCAAGCACAAACAGCTAGTAACAACTAGCTTTATTTAAAAATAACAAAGGTAATA
* * *
3449952 CCGATACTTCCTTTAGGAGTACCGATACCCTCTGTCTTGGGTAGTTTTATTTTGCAGAGAAAAAC
573 CCGATACTCCCTTTAGGAGTACCGATACCCTATGTCTTGGGCAGTTTTATTTTGCAGAGAAAAAC
* *
3450017 ATCTCCAACGGCTAGAAACGACCACAAACTTATTCCAACATATAAATACAA-TATCAAGACACTT
638 ATCCCCAACGGCTAGAAACGACCACAAACTCATTCCAACATATAAATACAAGT-TCAAGACACTT
* *
3450081 GAAGAATAGTTAGAACACCTATCGAAACAATCAAACA
702 GAAGAAGAGTTAGAACACCTATCCAAACAATCAAACA
3450118 TTTCACTCTT
Statistics
Matches: 651, Mismatches: 67, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
783 1 0.00
784 197 0.30
785 183 0.28
786 8 0.01
787 11 0.02
788 1 0.00
789 3 0.00
790 1 0.00
792 1 0.00
793 1 0.00
794 134 0.21
795 110 0.17
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (790 bp):
AAGTATGGTTTGAAAAATTCAATTTCTCAATGAAAAAGTGGGAGCTTTTAACATTTTCCAAAATA
TGTCTATTTTTCATTAAATATTTTATTAAGGGGGAGTTTTACCAAAAAACAATTTTTCAAATGTT
TTGTTATATCAAAAAGGGGGAGATTGTAGAACCATGATTTGTAATATTTTGATATAACAAATTAA
GGAAAATGATTTTAGACTTAATTGAAGTTGTTCAAAGTTTTCAAAAATTATTCAAAATCAATTAA
AAGTGAATTCACACAAAATGATTTTCACTACGAAATAGCGATATTGTTCTAACAGTACCGATACT
ATATGAACAATACCGATATTGTTCATATGGTACCAATACCATAGGAAAGAGAACTATCGATACTC
TCTAAGTAGTACCGATAATACCAGCATTACTCAAATTCCAGAATACAAAAATGGTATCGATACCC
AAAGGGGTACTGATATTACTTTACATAGTAGTATCGATACCATAGGCTTAGTATCAATACCGTCA
AGCACAAACAGCTAGTAACAACTAGCTTTATTTAAAAATAACAAAGGTAATACCGATACTCCCTT
TAGGAGTACCGATACCCTATGTCTTGGGCAGTTTTATTTTGCAGAGAAAAACATCCCCAACGGCT
AGAAACGACCACAAACTCATTCCAACATATAAATACAAGTTCAAGACACTTGAAGAAGAGTTAGA
ACACCTATCCAAACAATCAAACACAAAAGAAGAGCTTTTCACTCTTTATTTCTATTCTTTTTTAA
ATATTTTGTA
Found at i:3455012 original size:32 final size:30
Alignment explanation
Indices: 3454938--3455066 Score: 141
Period size: 32 Copynumber: 4.1 Consensus size: 30
3454928 AAGATTCGAG
* * *
3454938 GGTTACCTATGTCTTTCGAGATATATGGATA
1 GGTTACCTATGTC-TTCGGGACATATGGACA
*
3454969 GTTTACCTATGTCATTCGGGACATATGGACA
1 GGTTACCTATGTC-TTCGGGACATATGGACA
3455000 GGATTACCTATGTCCTTCGGGACATATGGACA
1 GG-TTACCTATGT-CTTCGGGACATATGGACA
* * *
3455032 GTGTTACCTATGTTCTTTGGAACATATGGATA
1 G-GTTACCTATG-TCTTCGGGACATATGGACA
3455064 GGT
1 GGT
3455067 CTTTCGGGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
31 29 0.34
32 53 0.62
33 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (30 bp):
GGTTACCTATGTCTTCGGGACATATGGACA
Found at i:3455027 original size:63 final size:64
Alignment explanation
Indices: 3454940--3455061 Score: 167
Period size: 63 Copynumber: 1.9 Consensus size: 64
3454930 GATTCGAGGG
* * * *
3454940 TTACCTATGTCTTTCGAGATATATGGATAGT-TTACCTATG-TCATTCGGGACATATGGACAGGA
1 TTACCTATGTCCTTCGAGACATATGGACAGTGTTACCTATGTTC-TTCGGAACATATGGACAGGA
* *
3455003 TTACCTATGTCCTTCGGGACATATGGACAGTGTTACCTATGTTCTTTGGAACATATGGA
1 TTACCTATGTCCTTCGAGACATATGGACAGTGTTACCTATGTTCTTCGGAACATATGGA
3455062 TAGGTCTTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 27 0.53
64 22 0.43
65 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (64 bp):
TTACCTATGTCCTTCGAGACATATGGACAGTGTTACCTATGTTCTTCGGAACATATGGACAGGA
Found at i:3462848 original size:21 final size:22
Alignment explanation
Indices: 3462799--3462858 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
3462789 CCCCCCATGA
*
3462799 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCC-TTGAAG
3462822 GGGAACCGATTCCCCC-T-ACAG
1 GGGAACCGATTCCCCCTTGA-AG
*
3462843 GGGAACCGATACCCCC
1 GGGAACCGATTCCCCC
3462859 CTGGGGTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 17 0.50
23 16 0.47
ACGTcount: A:0.23, C:0.37, G:0.23, T:0.17
Consensus pattern (22 bp):
GGGAACCGATTCCCCCTTGAAG
Found at i:3469676 original size:32 final size:31
Alignment explanation
Indices: 3469607--3469719 Score: 129
Period size: 32 Copynumber: 3.6 Consensus size: 31
3469597 AAGAGTCGAG
* *
3469607 GGTTACCTAT-TTCTTTCGAGACATATGGATA
1 GGTTACCTATGTTC-TTCGGGACATATGGACA
* *
3469638 GTTTACCTATGTTCTTCGGGACATATAGACA
1 GGTTACCTATGTTCTTCGGGACATATGGACA
* *
3469669 GGATTACCTATGTCCTTCAGGACATATGGACA
1 GG-TTACCTATGTTCTTCGGGACATATGGACA
*
3469701 GTGTTACATATGTTCTTCG
1 G-GTTACCTATGTTCTTCG
3469720 AAATATATGG
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
31 24 0.35
32 43 0.63
33 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (31 bp):
GGTTACCTATGTTCTTCGGGACATATGGACA
Found at i:3470410 original size:16 final size:16
Alignment explanation
Indices: 3470384--3470423 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
3470374 TAATATGAAG
3470384 TTTTCCATAACGGGAAA
1 TTTT-CATAACGGGAAA
3470401 TTTTCATAACGGGAAA
1 TTTTCATAACGGGAAA
3470417 TTTTCAT
1 TTTTCAT
3470424 TATATATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (16 bp):
TTTTCATAACGGGAAA
Found at i:3475938 original size:24 final size:24
Alignment explanation
Indices: 3475911--3475989 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
3475901 TGTGTTACAT
3475911 AAAATATATCATATGCATATTCAC
1 AAAATATATCATATGCATATTCAC
** * * *
3475935 AAAATATA-CACCT-TATGTTACAT
1 AAAATATATCATATGCATATT-CAC
* *
3475958 AAAATATATCATATGCATATGCGC
1 AAAATATATCATATGCATATTCAC
3475982 AAAATATA
1 AAAATATA
3475990 CGCATTATCA
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
22 4 0.10
23 13 0.32
24 20 0.50
25 3 0.08
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAATATATCATATGCATATTCAC
Found at i:3483532 original size:30 final size:30
Alignment explanation
Indices: 3483498--3483554 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
3483488 ATATGCATGG
3483498 ATACACTAACACACATTAATATATATACAT
1 ATACACTAACACACATTAATATATATACAT
3483528 ATACACTAACACACATTAATATATATA
1 ATACACTAACACACATTAATATATATA
3483555 TATACATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (30 bp):
ATACACTAACACACATTAATATATATACAT
Found at i:3483584 original size:34 final size:34
Alignment explanation
Indices: 3483498--3483567 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
3483488 ATATGCATGG
3483498 ATACACTAACACACAT---TA-ATATATATACAT
1 ATACACTAACACACATGAATATATATATATACAT
*
3483528 ATACACTAACACACATTAATATATATATATACAT
1 ATACACTAACACACATGAATATATATATATACAT
3483562 ATACAC
1 ATACAC
3483568 ATATATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
30 16 0.44
33 2 0.06
34 18 0.50
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (34 bp):
ATACACTAACACACATGAATATATATATATACAT
Found at i:3485123 original size:21 final size:21
Alignment explanation
Indices: 3485099--3485183 Score: 59
Period size: 21 Copynumber: 3.9 Consensus size: 21
3485089 ATTTTGGTCC
3485099 TTTTTATTTATTTTTTATTTA
1 TTTTTATTTATTTTTTATTTA
3485120 TTTTT-TATTATTTTTT-TTCTAA
1 TTTTTAT-TTATTTTTTATT-T-A
* * *
3485142 CTTTCATTTATCTTTTTTATCTA
1 TTTTTATTTA--TTTTTTATTTA
*
3485165 -TTATATTTATTTTATTATT
1 TTTTTATTTATTTT-TTATT
3485184 ATTATATTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
20 7 0.14
21 19 0.38
22 14 0.28
23 2 0.04
24 7 0.14
25 1 0.02
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTATTTATTTTTTATTTA
Found at i:3485136 original size:11 final size:11
Alignment explanation
Indices: 3485099--3485135 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
3485089 ATTTTGGTCC
3485099 TTTTTATTTAT
1 TTTTTATTTAT
3485110 TTTTTATTTAT
1 TTTTTATTTAT
3485121 TTTTTA-TTAT
1 TTTTTATTTAT
3485131 TTTTT
1 TTTTT
3485136 TTCTAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:3486062 original size:23 final size:23
Alignment explanation
Indices: 3486032--3486078 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
3486022 AGAACCTAAC
3486032 CGGGAGAGTGCAGGGAATTAGAG
1 CGGGAGAGTGCAGGGAATTAGAG
3486055 CGGGAGAGTGCAGGGAATTAGAG
1 CGGGAGAGTGCAGGGAATTAGAG
3486078 C
1 C
3486079 TCACCCCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.11, G:0.47, T:0.13
Consensus pattern (23 bp):
CGGGAGAGTGCAGGGAATTAGAG
Done.