Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007679.1 Hibiscus syriacus cultivar Beakdansim tig00028189_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: 27563
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.22
Found at i:9475 original size:33 final size:32
Alignment explanation
Indices: 9438--9522 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 32
9428 GTGTGCGTGC
* * *
9438 GCCTCGGTCACCATCGGTAATCCAAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
* *
9470 GGCCTCGGTCACCATCGACAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
9503 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
9523 CCCCGGCCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 18 0.40
33 27 0.60
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:9682 original size:32 final size:33
Alignment explanation
Indices: 9606--9690 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
9596 GTGTGCGTGA
* ** *
9606 GCCTCGGTCACCATCGGCAATCCTGGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
9639 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
*
9671 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
9691 CCCCGGGCCA
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:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
Found at i:9694 original size:168 final size:168
Alignment explanation
Indices: 9302--9880 Score: 1000
Period size: 168 Copynumber: 3.4 Consensus size: 168
9292 ACGTGTGCGT
**
9302 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAA-CCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
9366 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGTTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAG-ACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGG-CCCCGTG
* *
9431 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
129 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
9471 GCCTCGGTCACCATCGACAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
9535 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGT
66 GTGCGGGAGTGCCGCACAG-ACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGT
**
9600 GCGTGAGCCTCGGTCACCATCGGCAATCCTGGGCGGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
9639 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
9704 GTGCGGGAGTGCCGCACAGAACGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGGCCCCTTGTG
66 GTGCGGGAGTGCCGCACAGACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGTG
*
9769 CGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
9807 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
9872 GTGCGGGAG
66 GTGCGGGAG
9881 CCTCGGTCAC
Statistics
Matches: 391, Mismatches: 17, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
168 250 0.64
169 138 0.35
170 3 0.01
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.17
Consensus pattern (168 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGTG
CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:9816 original size:33 final size:33
Alignment explanation
Indices: 9774--9996 Score: 195
Period size: 32 Copynumber: 6.6 Consensus size: 33
9764 TTGTGCGTGA
*
9774 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
9807 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * *
9839 GTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
** * *
9879 AGCCTCGGTCACCATCAGGC---CCCTTGTGCGTG
1 -GCCTCGGTCACCATC-GGCAAACCCAGGCGGGTG
**
9911 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
9945 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
9977 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
9997 CCCCGGGCCA
Statistics
Matches: 156, Mismatches: 21, Indels: 27
0.76 0.10 0.13
Matches are distributed among these distances:
31 3 0.02
32 60 0.38
33 60 0.38
34 9 0.06
37 1 0.01
38 1 0.01
39 5 0.03
41 14 0.09
42 3 0.02
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:9820 original size:65 final size:65
Alignment explanation
Indices: 9744--9959 Score: 231
Period size: 65 Copynumber: 3.2 Consensus size: 65
9734 GTGCGGGAGT
9744 CTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
* * * * * * *
9809 CTCGGTCACCATC-GGCAAACCC-AG-ACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATT
1 CTCGGTCACCATCAGGC---CCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGG-C---
*
9871 GGTGCGGGAGC
59 -G-G-GTG-GC
*
9882 CTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGC
1 CTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
9947 CTCGGTCACCATC
1 CTCGGTCACCATC
9960 GGCAAACCCA
Statistics
Matches: 120, Mismatches: 17, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
64 3 0.03
65 55 0.46
66 4 0.03
67 4 0.03
68 1 0.01
70 1 0.01
71 4 0.03
72 4 0.03
73 41 0.34
74 3 0.03
ACGTcount: A:0.15, C:0.37, G:0.31, T:0.18
Consensus pattern (65 bp):
CTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
Found at i:9900 original size:138 final size:138
Alignment explanation
Indices: 9731--10018 Score: 558
Period size: 138 Copynumber: 2.1 Consensus size: 138
9721 AGAACGAGCG
*
9731 TTGGTGCGGGAGTCTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
1 TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
9796 CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACC
66 CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACC
9861 CCGGGCCA
131 CCGGGCCA
*
9869 TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAGTC
1 TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
9934 CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACC
66 CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACC
9999 CCGGGCCA
131 CCGGGCCA
10007 TTGGTGCGGGAG
1 TTGGTGCGGGAG
10019 TGCCGCACAG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 148 1.00
ACGTcount: A:0.15, C:0.35, G:0.33, T:0.17
Consensus pattern (138 bp):
TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACC
CCGGGCCA
Found at i:24019 original size:33 final size:32
Alignment explanation
Indices: 23979--24063 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 32
23969 CCGTGCGTGC
* * *
23979 GCCTCGGTCACCATCGGTAATCCAAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
* *
24011 GGCCTCGGTCACCATCGACAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
24044 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
24064 CCCCGGCCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 18 0.40
33 27 0.60
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:24221 original size:32 final size:33
Alignment explanation
Indices: 24145--24229 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
24135 CGTGTGCTGA
* ** *
24145 GCCTCGGTCACCATCGGCAATCCTGGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
24178 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
*
24210 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
24230 CCCCGGGCCA
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:0.18, C:0.35, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
Found at i:24354 original size:136 final size:134
Alignment explanation
Indices: 24271--24556 Score: 412
Period size: 136 Copynumber: 2.1 Consensus size: 134
24261 GAACCGAGCG
*
24271 TTGGTGCGGGAGTCTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
1 TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGT--GTGAGCCTCGGTCACCATCGGCAATC
* * *
24336 AGGCGGGGTGGCCTCGGTCACCATCGGCAAACCTAGACGGGTGTCTCGGTCCACCATCGGCAACC
64 AGGC-GGGTGGCCTCGGTCACCATCGGCAAACCGAGACGGGTGTCGCGGTCCACCATCAGCAA-C
*
24401 CCGGGCCA
127 CCGAGCCA
*
24409 TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGTGTGAGCCTCGGTCACCATCGGCAGTCCC
1 TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGTGTGAGCCTCGGTCACCATCGGCAAT--C
* * *
24474 AGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT-CACCATCGGCAACCC
64 AGGCGGGTGGCCTCGGTCACCATCGGCAAACCGAGACGGGTGTCGCGGTCCACCATCAGCAA-CC
*
24538 CGGGCCA
128 CGAGCCA
24545 TTGGTGCGGGAG
1 TTGGTGCGGGAG
24557 TGCCGCACAG
Statistics
Matches: 143, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
136 58 0.41
137 44 0.31
138 41 0.29
ACGTcount: A:0.15, C:0.34, G:0.33, T:0.18
Consensus pattern (134 bp):
TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGTGTGAGCCTCGGTCACCATCGGCAATCAG
GCGGGTGGCCTCGGTCACCATCGGCAAACCGAGACGGGTGTCGCGGTCCACCATCAGCAACCCGA
GCCA
Found at i:24359 original size:168 final size:168
Alignment explanation
Indices: 23844--24420 Score: 934
Period size: 166 Copynumber: 3.4 Consensus size: 168
23834 ACGTGTGCGT
**
23844 GCCTCGGTCACCATCGGCAAAAACAGACGGGTTGTCTCGGTCACCATCGGCAACCCCGGGCCATT
1 GCCTCGGTCACCATCGGCAAACCCAGACGGG-TGTCTCGGTCACCATCGGCAACCCCGGGCCATT
* *
23909 GGTGCGGGAGTGCCGCACAGAACCGAGCG-TGGTGCGGGAGCCTCGTTCACCATCAGGCCCCCGT
65 GGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTGT
* *
23973 GCGTGCGCCTCGGTCACCATCGGTAATCCAAGGC-GGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCC-AGGCGGGGTG
*
24012 GCCTCGGTCACCATCGACAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
24076 GTGCGGGAGTGCCGCACAGTA-CGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGT
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCC-TGT
*
24140 GC-TGAGCCTCGGTCACCATCGGCAATCCTGG-GCGGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAGGCG-GGGTG
24178 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
24243 GTGCGGGAGTACCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGGCCCCTTGT
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCC-TGT
24308 GCGTGAGCCTCGGTCACCATCGGCAAT-CAGGCGGGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGGTG
*
24346 GCCTCGGTCACCATCGGCAAACCTAGACGGGTGTCTCGGTCCACCATCGGCAACCCCGGGCCATT
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT-CACCATCGGCAACCCCGGGCCATT
24411 GGTGCGGGAG
65 GGTGCGGGAG
24421 CCTCGGTCAC
Statistics
Matches: 382, Mismatches: 18, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
165 7 0.02
166 143 0.37
167 56 0.15
168 117 0.31
169 59 0.15
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (168 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTGTG
CGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGGTG
Found at i:24384 original size:32 final size:33
Alignment explanation
Indices: 24314--24534 Score: 106
Period size: 33 Copynumber: 6.6 Consensus size: 33
24304 TTGTGCGTGA
* *
24314 GCCTCGGTCACCATCGGC-AATCAGGCGGGGTG
1 GCCTCGGTCACCATCGGCAAACCAGACGGGGTG
24346 GCCTCGGTCACCATCGGCAAACCTAGAC-GGGT-
1 GCCTCGGTCACCATCGGCAAACC-AGACGGGGTG
* * * * *
24378 GTCTCGGTCCACCATCGGCAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGT-CACCATCGGCAA-ACC-AG--A-CGG-G-GTG
* *
24419 AGCCTCGGTCACCATCAGGC---CC---CTTGTGTG
1 -GCCTCGGTCACCATC-GGCAAACCAGAC-GGGGTG
** *
24449 AGCCTCGGTCACCATCGGCAGTCCCAGGC-GGGTG
1 -GCCTCGGTCACCATCGGCA-AACCAGACGGGGTG
24483 GCCTCGGTCACCATCGGCAAACCCAGAC-GGGT-
1 GCCTCGGTCACCATCGGCAAA-CCAGACGGGGTG
*
24515 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
24535 CCCCGGGCCA
Statistics
Matches: 149, Mismatches: 18, Indels: 44
0.71 0.09 0.21
Matches are distributed among these distances:
29 3 0.02
30 18 0.12
32 45 0.30
33 49 0.33
34 10 0.07
36 2 0.01
38 3 0.02
39 1 0.01
40 1 0.01
41 7 0.05
42 10 0.07
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.17
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAGACGGGGTG
Found at i:24458 original size:168 final size:168
Alignment explanation
Indices: 23844--24534 Score: 828
Period size: 166 Copynumber: 4.1 Consensus size: 168
23834 ACGTGTGCGT
**
23844 GCCTCGGTCACCATCGGCAAAAACAGACGGGTTGTCTCGGTCACCATCGGCAACCCCGGGCCATT
1 GCCTCGGTCACCATCGGCAAACCCAGACGGG-TGTCTCGGTCACCATCGGCAACCCCGGGCCATT
* * * *
23909 GGTGCGGGAGTGCCGCACAGAACCGA--GCG-TGGTGCGGGAGCCTCGTTCACCATCAGGCCCCC
65 GGTGCGGGAGTGCCGCACACAACAGAGCGCGTTGGT-CGGGAGCCTCGGTCACCATCAGGCCCCT
* *
23971 GTGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
129 GTGCGTGAGCCTCGGTCACCATCGGCAATCC-AGGCGGGTG
*
24012 GCCTCGGTCACCATCGACAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
** *
24076 GTGCGGGAGTGCCGCACAGTAC-GA--GCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGT
66 GTGCGGGAGTGCCGCACACAACAGAGCGCGTTGGT-CGGGAGCCTCGGTCACCATCAGGCCCC-T
*
24138 GTGC-TGAGCCTCGGTCACCATCGGCAATCCTGGGCGGGTG
129 GTGCGTGAGCCTCGGTCACCATCGGCAATCC-AGGCGGGTG
24178 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * * *
24243 GTGCGGGAGTACCGCACAGAACCGA--GCGTTGGTGCGGGAGTCTCGGTCACCATCAGGCCCCTT
66 GTGCGGGAGTGCCGCACACAACAGAGCGCGTTGGT-CGGGAGCCTCGGTCACCATCAGGCCCC-T
24306 GTGCGTGAGCCTCGGTCACCATCGGCAAT-CAGGCGGGGTG
129 GTGCGTGAGCCTCGGTCACCATCGGCAATCCAGGC-GGGTG
*
24346 GCCTCGGTCACCATCGGCAAACCTAGACGGGTGTCTCGGTCCACCATCGGCAACCCCGGGCCATT
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT-CACCATCGGCAACCCCGGGCCATT
* * * * *
24411 GGTGCGGGAGCCT-CGGTCAC-CATCAG-GCCCCTT-GT-GTGAGCCTCGGTCACCATC-GGCAG
65 GGTGCGGGAG--TGCCG-CACACAACAGAGCGCGTTGGTCGGGAGCCTCGGTCACCATCAGGC--
* * *
24470 TCCCAG-GCGGGTG-GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
125 -CCCTGTGC--GTGAGCCTCGGTCACCATCGGC-AATCCAGGCGGGTG
*
24515 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
24535 CCCCGGGCCA
Statistics
Matches: 473, Mismatches: 31, Indels: 37
0.87 0.06 0.07
Matches are distributed among these distances:
165 4 0.01
166 147 0.31
167 63 0.13
168 133 0.28
169 96 0.20
170 19 0.04
171 11 0.02
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (168 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACACAACAGAGCGCGTTGGTCGGGAGCCTCGGTCACCATCAGGCCCCTGT
GCGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTG
Found at i:24492 original size:33 final size:32
Alignment explanation
Indices: 24450--24534 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 32
24440 CCTTGTGTGA
** *
24450 GCCTCGGTCACCATCGGCAGTCCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGT
24482 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGACGGGT
*
24515 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
24535 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:0.18, C:0.36, G:0.31, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:24596 original size:137 final size:137
Alignment explanation
Indices: 24271--24606 Score: 461
Period size: 137 Copynumber: 2.5 Consensus size: 137
24261 GAACCGAGCG
* *
24271 TTGGTGCGGGAGTCTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
1 TTGGTGCGGGAG-CTCCGTCACCAACAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
*
24336 AGGCGGGGTGGCCTCGGTCACCATCGGCAAACCTAGACGGGTGTCTCGGTCCACCATCGGCAACC
65 AGGCGGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCCACCATCGGCAACC
24401 CCGGGCCA
130 CCGGGCCA
* * *
24409 TTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCTTGT--GTGAGCCTCGGTCACCATCGGCAGTC
1 TTGGTGCGGGAG-CTCCGTCACCAACAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAAT-
24472 CCAGGC-GGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGT-CACCATCGGCAA
64 -CAGGCGGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCCACCATCGGCAA
24535 CCCCGGGCCA
128 CCCCGGGCCA
* * * * *
24545 TTGGTGCGGGAG-TGCCG-CACAGAACCGG-GCGTTGGTGCGGGAGCCTCGGTCACCATCGGCAA
1 TTGGTGCGGGAGCT-CCGTCAC-CAACAGGCCCCTT-GTGCGTGAGCCTCGGTCACCATCGGCAA
24607 CCCCCGACGG
Statistics
Matches: 180, Mismatches: 11, Indels: 15
0.87 0.05 0.07
Matches are distributed among these distances:
134 7 0.04
135 8 0.04
136 58 0.32
137 66 0.37
138 41 0.23
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (137 bp):
TTGGTGCGGGAGCTCCGTCACCAACAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCA
GGCGGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCCACCATCGGCAACCC
CGGGCCA
Done.