Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007648.1 Hibiscus syriacus cultivar Beakdansim tig00024749_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: 33999
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.22
Found at i:154 original size:32 final size:33
Alignment explanation
Indices: 78--166 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
68 GTGTGCGTGC
* * * *
78 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
111 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
*
143 GTCTCGGTCACCATCGGCAAACCC
1 GCCTCGGTCACCATCGGCAAACCC
167 GGCCATTGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 23 0.45
33 28 0.55
ACGTcount: A:0.20, C:0.36, G:0.28, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
Found at i:326 original size:32 final size:34
Alignment explanation
Indices: 249--334 Score: 131
Period size: 34 Copynumber: 2.6 Consensus size: 34
239 GTGTGCGTGA
*
249 GCCTCGGTCACCATCGGCAAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAATCCAAGACGGGTG
*
283 GCCTCGGTCACCATCGGCAAA-CCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAATCCAAGACGGGTG
*
315 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
335 CCCCGGGCCA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
32 19 0.39
33 9 0.18
34 21 0.43
ACGTcount: A:0.21, C:0.35, G:0.29, T:0.15
Consensus pattern (34 bp):
GCCTCGGTCACCATCGGCAAATCCAAGACGGGTG
Found at i:456 original size:33 final size:33
Alignment explanation
Indices: 419--606 Score: 188
Period size: 33 Copynumber: 5.6 Consensus size: 33
409 GTGTGCGTGA
419 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
* *
452 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
* * * * *
484 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAATCCCAGG-C----G-G-GTG
*
524 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
*
558 GCCTCGGTCACCATCGGCAA-CCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
589 G--TCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
607 CCCGGGCCAT
Statistics
Matches: 130, Mismatches: 16, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
29 17 0.13
31 1 0.01
32 32 0.25
33 50 0.38
34 2 0.02
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.32, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
Found at i:508 original size:169 final size:170
Alignment explanation
Indices: 1--525 Score: 854
Period size: 169 Copynumber: 3.1 Consensus size: 170
1 CCCGGGCCATTGGTGCGGGAGTG-CG--CAGAA---AGCG-TGGTGCGGGAGCCTCGGTCACCAT
1 CCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCAT
* * *
59 CAGGCCCCCGTGTGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTGGCCTCGGTCACCA
66 CAGGCCACCGTGTGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTGGCCTCGGTCACCA
*
124 TCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAA
131 TCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAC
* *
164 CCC-GGCCATTGGTGCGGGAGGAGTGCCGCACA-TACCGAGCTTTGGTGCGGGAGCCTCGGTCAC
1 CCCGGGCCATTGGTGC--G-GGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCAC
227 CATCAGGCCACCGTGTGCGTGAGCCTCGGTCACCATCGGCAAATCCAAGGCGGGTGGCCTCGGTC
63 CATCAGGCCACCGTGTGCGTGAGCCTCGGTCACCATCGGC-AATCCAAGGCGGGTGGCCTCGGTC
292 ACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAC
127 ACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAC
*
336 CCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTG-GGGAGTCTCGGTCACCAT
1 CCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCAT
* *
400 CAGGCCGCCGTGTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCA
66 CAGGCCACCGTGTGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTGGCCTCGGTCACCA
*
465 TCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAAC
131 TCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAC
505 CCCGGGCCATTGGTGCGGGAG
1 CCCGGGCCATTGGTGCGGGAG
526 CCTCGGTCAC
Statistics
Matches: 337, Mismatches: 12, Indels: 20
0.91 0.03 0.05
Matches are distributed among these distances:
162 12 0.04
163 3 0.01
164 1 0.00
165 6 0.02
166 2 0.01
167 1 0.00
168 2 0.01
169 87 0.26
170 69 0.20
171 72 0.21
172 70 0.21
173 12 0.04
ACGTcount: A:0.17, C:0.33, G:0.34, T:0.16
Consensus pattern (170 bp):
CCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCAT
CAGGCCACCGTGTGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTGGCCTCGGTCACCA
TCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAAC
Found at i:536 original size:106 final size:102
Alignment explanation
Indices: 411--627 Score: 371
Period size: 106 Copynumber: 2.1 Consensus size: 102
401 AGGCCGCCGT
*
411 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGC-AACCC
*
476 AGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
65 AGACGGGTG--TCGGTCACCATCGGCAA-CCCGGGCCATTG
*
517 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAACCCA
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAACCCA
582 GACGGGTGTCGGTCACCATCGGCAACCCGGGCCATTG
66 GACGGGTGTCGGTCACCATCGGCAACCCGGGCCATTG
619 GTGCGGGAG
1 GTGCGGGAG
628 TGCCGCACAG
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
102 21 0.19
103 16 0.15
105 14 0.13
106 57 0.53
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (102 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAACCCA
GACGGGTGTCGGTCACCATCGGCAACCCGGGCCATTG
Found at i:600 original size:29 final size:31
Alignment explanation
Indices: 527--609 Score: 116
Period size: 29 Copynumber: 2.7 Consensus size: 31
517 GTGCGGGAGC
* *
527 CTCGGTCACCATCGGCAGTCCCAGGCGGGTGG
1 CTCGGTCACCATCGGCA-ACCCAGACGGGTGG
559 CCTCGGTCACCATCGGCAACCCAGACGGGT-G
1 -CTCGGTCACCATCGGCAACCCAGACGGGTGG
590 -TCGGTCACCATCGGCAACCC
1 CTCGGTCACCATCGGCAACCC
610 GGGCCATTGG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
29 20 0.42
31 1 0.02
32 10 0.21
33 17 0.35
ACGTcount: A:0.17, C:0.39, G:0.30, T:0.14
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAACCCAGACGGGTGG
Found at i:13723 original size:32 final size:33
Alignment explanation
Indices: 13647--13731 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
13637 GTGTGCGTGC
* * *
13647 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
13680 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
13712 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
13732 CCCCGACCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:13822 original size:169 final size:170
Alignment explanation
Indices: 13511--14090 Score: 1017
Period size: 169 Copynumber: 3.4 Consensus size: 170
13501 ACGTGTGCGT
**
13511 GCCTCGGTCACCATCGGCAAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATT
1 GCCTCGGTCACCATCGGC-AAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATT
13576 GGTG-GGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCA-CATCAGGCCCCCGT
65 GGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGT
* *
13639 GTGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
130 GTGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
13680 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GACCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
13744 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
13809 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
13849 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
13914 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
13978 TGCGTGAGCCTCGGTCACCATCGGCAATCC-AGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
14017 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
14082 GTGCGGGAG
66 GTGCGGGAG
14091 CCTCGGTCAC
Statistics
Matches: 394, Mismatches: 14, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
167 10 0.03
168 161 0.41
169 162 0.41
170 61 0.15
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:13892 original size:32 final size:33
Alignment explanation
Indices: 13816--13900 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
13806 GTGTGCGTGA
* *
13816 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
13849 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
13881 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
13901 CCCCGGGCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 19 0.40
33 29 0.60
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:14021 original size:32 final size:32
Alignment explanation
Indices: 13985--14177 Score: 183
Period size: 32 Copynumber: 5.7 Consensus size: 32
13975 TTGTGCGTGA
*
13985 GCCTCGGTCACCATCGGCAATCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAACCCAGGCGGGTG
*
14017 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGC-AACCCAGGCGGGTG
* * * *
14049 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAA-CCCAGG-C----G-G-GTG
*
14089 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCA-ACCCAGGCGGGTG
*
14123 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGC-AACCCAGGCGGGTG
*
14155 GTCTCGGTCACCATCGGCAACCC
1 GCCTCGGTCACCATCGGCAACCC
14178 CGGGCCATTG
Statistics
Matches: 133, Mismatches: 15, Indels: 27
0.76 0.09 0.15
Matches are distributed among these distances:
31 7 0.05
32 55 0.41
33 40 0.30
34 3 0.02
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAACCCAGGCGGGTG
Found at i:14127 original size:33 final size:32
Alignment explanation
Indices: 14085--14174 Score: 126
Period size: 33 Copynumber: 2.8 Consensus size: 32
14075 GCCATTGGTG
* ** *
14085 CGGGAGCCTCGGTCACCATCGGCAGTCCCAGG
1 CGGGTGCCTCGGTCACCATCGGCAAACCCAGA
14117 CGGGTGGCCTCGGTCACCATCGGCAAACCCAGA
1 CGGGT-GCCTCGGTCACCATCGGCAAACCCAGA
*
14150 CGGGTGTCTCGGTCACCATCGGCAA
1 CGGGTGCCTCGGTCACCATCGGCAA
14175 CCCCGGGCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 23 0.44
33 29 0.56
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (32 bp):
CGGGTGCCTCGGTCACCATCGGCAAACCCAGA
Found at i:14141 original size:106 final size:105
Alignment explanation
Indices: 13977--14196 Score: 404
Period size: 106 Copynumber: 2.1 Consensus size: 105
13967 CAGGCCGCTT
*
13977 GTGCGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
*
14042 GACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 GACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
14082 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAAT-CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
14147 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
65 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
14188 GTGCGGGAG
1 GTGCGGGAG
14197 TGCCGCACAG
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
105 27 0.24
106 84 0.76
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (105 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
GACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:14578 original size:11 final size:11
Alignment explanation
Indices: 14564--14595 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
14554 TCCCGGTGGT
14564 GCTCCGGCGAC
1 GCTCCGGCGAC
*
14575 GCTCCGGCGAT
1 GCTCCGGCGAC
14586 GCTCCGGCGA
1 GCTCCGGCGA
14596 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:27198 original size:166 final size:169
Alignment explanation
Indices: 26930--27505 Score: 963
Period size: 166 Copynumber: 3.4 Consensus size: 169
26920 ACGTGTGCGT
**
26930 GCCTCGGTCACCATC-GCAAAAACAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
26994 TGCGGGAGTGCCGCACA-TAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 TGCGGGAGTGCCGCACAGT-ACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
27058 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
130 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
27098 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTC-GTCACCATCGGCAACCCC-GGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
*
27161 TGCGGGA-TGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
66 TGCGGGAGTGCCGCACAGTACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
27225 GCGTGAGCCTC-GTCACCATCGGCAATCCAAGGCGGGTG
131 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
27263 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATC-GCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
27327 TGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCTCGGTCACCATCAGG-CCGC
65 -GTGCGGGAGTGCCGCACAGTACCGAGCGTTGGTGCGGGAG-C-CTCGGTCACCATCAGGCCCCC
*
27391 TTGTGCGTGAGCCTCGGTCACCATCGGCAATCC-AGGCGGGTG
127 GTGTGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
27433 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
27498 TGCGGGAG
66 TGCGGGAG
27506 CCTCGGTCAC
Statistics
Matches: 387, Mismatches: 10, Indels: 21
0.93 0.02 0.05
Matches are distributed among these distances:
165 54 0.14
166 80 0.21
167 34 0.09
168 41 0.11
169 74 0.19
170 71 0.18
171 33 0.09
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (169 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
TGCGGGAGTGCCGCACAGTACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:27276 original size:33 final size:32
Alignment explanation
Indices: 27231--27310 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 32
27221 GTGTGCGTGA
* *
27231 GCCTC-GTCACCATCGGCAATCCAAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
27262 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
27295 GTCTCGGTCACCATCG
1 GCCTCGGTCACCATCG
27311 CAACCCCGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 20 0.47
33 23 0.53
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:27473 original size:31 final size:32
Alignment explanation
Indices: 27401--27586 Score: 148
Period size: 31 Copynumber: 5.6 Consensus size: 32
27391 TTGTGCGTGA
*
27401 GCCTCGGTCACCATCGGC-AATCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
27432 GGCCTCGGTCACCATCGGCAAACCCAGAC-GGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
* * * *
27464 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGGA
1 GCCTCGGTCACCATCGGCAA--AC---CCA---G-GCGGGT
**
27505 GCCTCGGTCACCATCGGCAGTCCCAGGC-GGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
27536 GGCCTC-GTCACCATC-GCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
27567 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
27587 CCCCGGGCCA
Statistics
Matches: 123, Mismatches: 16, Indels: 30
0.73 0.09 0.18
Matches are distributed among these distances:
30 13 0.11
31 41 0.33
32 32 0.26
33 9 0.07
36 6 0.05
39 2 0.02
40 1 0.01
41 19 0.15
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
Found at i:27590 original size:103 final size:104
Alignment explanation
Indices: 27393--27608 Score: 366
Period size: 103 Copynumber: 2.1 Consensus size: 104
27383 CAGGCCGCTT
*
27393 GTGCGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
*
27458 GACGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 GACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
27497 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGC-GGTGGCCTC-GTCACCATC-GCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAAT-CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
27559 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
65 AGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
27600 GTGCGGGAG
1 GTGCGGGAG
27609 TGCCCACAGA
Statistics
Matches: 107, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
102 12 0.11
103 53 0.50
104 36 0.34
105 6 0.06
ACGTcount: A:0.17, C:0.35, G:0.32, T:0.16
Consensus pattern (104 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
GACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:27985 original size:11 final size:11
Alignment explanation
Indices: 27969--28000 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
27959 TTCCCGTGGT
27969 GCTCCGGCGAC
1 GCTCCGGCGAC
*
27980 GCTCCGGCGAT
1 GCTCCGGCGAC
27991 GCTCCGGCGA
1 GCTCCGGCGA
28001 GACTTATCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Done.