Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009511.1 Hibiscus syriacus cultivar Beakdansim tig00115394_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: 35011
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.22
Found at i:2488 original size:11 final size:11
Alignment explanation
Indices: 2472--2504 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2462 CGATAATGTC
2472 TCGCCGGAGCA
1 TCGCCGGAGCA
*
2483 TCGCCGGAGCG
1 TCGCCGGAGCA
2494 TCGCCGGAGCA
1 TCGCCGGAGCA
2505 CCACCGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.39, T:0.09
Consensus pattern (11 bp):
TCGCCGGAGCA
Found at i:2953 original size:33 final size:33
Alignment explanation
Indices: 2890--3077 Score: 179
Period size: 33 Copynumber: 5.6 Consensus size: 33
2880 ATGGCCCGGG
* * *
2890 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
2922 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * *
2955 CTGCCGATGGTGACCGAGGCTC-CCGCACCAATGGCCCGGG
1 TTGCCGATGGTGACCGAGGC-CACC-CGCC--T-G---GGA
* * * *
2995 TTACCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
3027 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
3060 TTGCCGAT-G-GACCGAGGC
1 TTGCCGATGGTGACCGAGGC
3078 TCACGCACAA
Statistics
Matches: 129, Mismatches: 16, Indels: 23
0.77 0.10 0.14
Matches are distributed among these distances:
31 9 0.07
32 36 0.28
33 53 0.41
34 4 0.03
35 1 0.01
36 2 0.02
37 1 0.01
38 3 0.02
39 3 0.02
40 17 0.13
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.17
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:2993 original size:105 final size:103
Alignment explanation
Indices: 2869--3085 Score: 389
Period size: 105 Copynumber: 2.1 Consensus size: 103
2859 CTGTGCGGCA
*
2869 CTCCCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
2934 ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
66 ACCGAGGCCACCCGCCTGGGACTGCCGAT-G-GACCGAGG
2974 CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
*
3039 ACCGAGGCCACCCGCCTGGGATTGCCGATGGACCGAGG
66 ACCGAGGCCACCCGCCTGGGACTGCCGATGGACCGAGG
*
3077 CTCACGCAC
1 CTCCCGCAC
3086 AAGCGGCCTG
Statistics
Matches: 109, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
103 16 0.15
104 1 0.01
105 92 0.84
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (103 bp):
CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
ACCGAGGCCACCCGCCTGGGACTGCCGATGGACCGAGG
Found at i:3230 original size:33 final size:33
Alignment explanation
Indices: 3161--3245 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
3151 TGGCCCGGGG
* * *
3161 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
*
3193 TTGCCGATGGTGACCGAGGCCACCCGCCTTGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
3226 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
3246 TCACGCACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 17 0.35
33 31 0.65
ACGTcount: A:0.15, C:0.29, G:0.35, T:0.20
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:3400 original size:33 final size:33
Alignment explanation
Indices: 3332--3412 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
3322 GCCGGGGTTG
* * * *
3332 CCGAT-GTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
*
3363 CCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
3396 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
3413 GCACGCACAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 5 0.12
32 8 0.19
33 30 0.70
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (33 bp):
CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
Found at i:3402 original size:167 final size:167
Alignment explanation
Indices: 2974--3547 Score: 992
Period size: 168 Copynumber: 3.4 Consensus size: 167
2964 GTGACCGAGG
*
2974 CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
* * *
3039 ACCGAGGCCACCCGCCTGGGATTGCCGAT-G-GACCGAGGCTCACGCACAAGCGGCCTGATGGTG
66 ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGCCTGATGGTG
*
3102 ACCGAGACTCCCGCACCAACGCTCGTTCTGTGCGGCA
131 ACCGAGGCTCCCGCACCAACGCTCGTTCTGTGCGGCA
3139 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCC-GGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
3204 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGCCTGATGGT
65 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGCCTGATGGT
* *
3269 GACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
130 GACCGAGGCTCCCGCACCAACGCTC-GTTCTGTGCGGCA
*
3308 CTCCCGCACCAATGGCCGGGGTTGCCGAT-GTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
* *
3372 ACCGAGGCCACCCGCCTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGGCCTGATGGT
66 ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACAC-GGGGCCTGATGGT
3437 GACCGAGGCTCCCGCACCAACGCTCGTTCTGTGCGGCA
130 GACCGAGGCTCCCGCACCAACGCTCGTTCTGTGCGGCA
**
3475 CTCCCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
3540 ACCGAGGC
66 ACCGAGGC
3548 ACGCACACGT
Statistics
Matches: 388, Mismatches: 15, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
165 18 0.05
166 74 0.19
167 125 0.32
168 142 0.37
169 29 0.07
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.17
Consensus pattern (167 bp):
CTCCCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
ACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGCCTGATGGTG
ACCGAGGCTCCCGCACCAACGCTCGTTCTGTGCGGCA
Found at i:11446 original size:11 final size:11
Alignment explanation
Indices: 11430--11462 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
11420 CGATAATGTC
11430 TCGCCGGAGCA
1 TCGCCGGAGCA
*
11441 TCGCCGGAGCG
1 TCGCCGGAGCA
11452 TCGCCGGAGCA
1 TCGCCGGAGCA
11463 CCACCGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.39, T:0.09
Consensus pattern (11 bp):
TCGCCGGAGCA
Found at i:11911 original size:33 final size:33
Alignment explanation
Indices: 11848--12035 Score: 211
Period size: 33 Copynumber: 5.6 Consensus size: 33
11838 ATGGCCCGGG
* * *
11848 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
11880 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * *
11913 CTGCCGATGGTGACCGAGGCTCCCACCAATGGCCCGGG-
1 TTGCCGATGGTGACCGAGG---CCACC---CGCCTGGGA
* * * *
11951 TTACCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
11983 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
12016 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
12036 TCACGCACAA
Statistics
Matches: 131, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
31 5 0.04
32 33 0.25
33 62 0.47
34 4 0.03
36 5 0.04
37 1 0.01
38 15 0.11
39 6 0.05
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:11940 original size:103 final size:103
Alignment explanation
Indices: 11833--12037 Score: 392
Period size: 103 Copynumber: 2.0 Consensus size: 103
11823 GGCACTCCCG
*
11833 CACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAG
1 CACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAG
11898 GCCACCCGCCTGGGACTGCCGATGGTGACCGAGGCTCC
66 GCCACCCGCCTGGGACTGCCGATGGTGACCGAGGCTCC
11936 CACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAG
1 CACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAG
*
12001 GCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTC
66 GCCACCCGCCTGGGACTGCCGATGGTGACCGAGGCTC
12038 ACGCACAAGC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.17
Consensus pattern (103 bp):
CACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAG
GCCACCCGCCTGGGACTGCCGATGGTGACCGAGGCTCC
Found at i:12143 original size:136 final size:136
Alignment explanation
Indices: 11779--12210 Score: 485
Period size: 136 Copynumber: 3.2 Consensus size: 136
11769 CGTCGGGGTT
11779 GCCGATGGTGACCGAGGCTCCCGCACCAACGCCCGGTTCTGTGCGGCACTCCCGCACCAATGGCC
1 GCCGATGGTGACCGAGGCTCCCGCACCAACGCCCGGTTCTGTGCGGCACTCCCGCACCAATGGCC
11844 C-GGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCC
66 CGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCA-CCGCC
** *
11908 TGGGACT
130 TAAGACG
* * **
11915 GCCGATGGTGACCGAGGCT-CC-CACCAATGGCCCGGGTTACCGATG-GTG-AC-CGAGACACC-
1 GCCGATGGTGACCGAGGCTCCCGCACCAA-CGCCC-GGTT-CTG-TGCG-GCACTCCCG-CACCA
* * * * * * *
11974 --CGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCT
60 ATGGCCCGGGGTTGCCGATGGTGACCGA-GACACCCGTCTGGGTTTGCCGATGGTGACCGAGGC-
12037 CA-CGCAC-AAG-CG
123 CACCGC-CTAAGACG
* *
12049 GCCTGATGGTGACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGC
1 GCC-GATGGTGACCGAGGCTCCCGCACCAACGCCCGGTTCTGTGCGGCACTCCCGCACCAATGGC
12114 CCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACC-CC
65 CCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCGCC
** **
12178 TTGGATT
130 TAAGACG
*
12185 GCCGATGGTGACCGAGGCTCACGCAC
1 GCCGATGGTGACCGAGGCTCCCGCAC
12211 ACGGGGCCTG
Statistics
Matches: 241, Mismatches: 33, Indels: 45
0.76 0.10 0.14
Matches are distributed among these distances:
133 3 0.01
134 22 0.09
135 75 0.31
136 99 0.41
137 39 0.16
138 3 0.01
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (136 bp):
GCCGATGGTGACCGAGGCTCCCGCACCAACGCCCGGTTCTGTGCGGCACTCCCGCACCAATGGCC
CGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCGCCT
AAGACG
Found at i:12201 original size:31 final size:32
Alignment explanation
Indices: 12120--12202 Score: 116
Period size: 31 Copynumber: 2.6 Consensus size: 32
12110 TGGCCCGGGG
* *
12120 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCG-CTGGGA
*
12152 TTGCCGATGGTGACCGAGGCCACCC-CTTGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCTGGGA
12183 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
12203 TCACGCACAC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
31 24 0.51
32 17 0.36
33 6 0.13
ACGTcount: A:0.16, C:0.29, G:0.35, T:0.20
Consensus pattern (32 bp):
TTGCCGATGGTGACCGAGGCCACCCGCTGGGA
Found at i:12353 original size:33 final size:33
Alignment explanation
Indices: 12284--12365 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
12274 GGCCGGGTTG
* * * *
12284 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
*
12316 CCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
12349 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
12366 GCACGCACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 14 0.32
33 30 0.68
ACGTcount: A:0.17, C:0.30, G:0.34, T:0.18
Consensus pattern (33 bp):
CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
Found at i:20379 original size:11 final size:11
Alignment explanation
Indices: 20363--20395 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
20353 CGATAATGTC
20363 TCGCCGGAGCA
1 TCGCCGGAGCA
*
20374 TCGCCGGAGCG
1 TCGCCGGAGCA
20385 TCGCCGGAGCA
1 TCGCCGGAGCA
20396 CCACCGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.39, T:0.09
Consensus pattern (11 bp):
TCGCCGGAGCA
Found at i:20846 original size:33 final size:33
Alignment explanation
Indices: 20783--20972 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
20773 ATGGCCCGGG
* * *
20783 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
20815 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * *
20848 CTGCCGATGGTGACCGAGGCTC-CCGCACCAATGGCCCGGG
1 TTGCCGATGGTGACCGAGGC-CACC-CGCC--T-G---GGA
* * * *
20888 TTACCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
20920 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
20953 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
20973 TCACGCACAA
Statistics
Matches: 131, Mismatches: 16, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
32 35 0.27
33 65 0.50
34 4 0.03
35 1 0.01
36 2 0.02
37 1 0.01
38 3 0.02
39 3 0.02
40 17 0.13
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.17
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:20886 original size:105 final size:105
Alignment explanation
Indices: 20762--20980 Score: 411
Period size: 105 Copynumber: 2.1 Consensus size: 105
20752 CTGTGCGGCA
*
20762 CTCCCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
20827 ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
66 ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
20867 CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
*
20932 ACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGG
66 ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
*
20972 CTCACGCAC
1 CTCCCGCAC
20981 AAGGCCTGAT
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 111 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (105 bp):
CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
Found at i:21089 original size:166 final size:167
Alignment explanation
Indices: 20867--21439 Score: 983
Period size: 166 Copynumber: 3.4 Consensus size: 167
20857 GTGACCGAGG
*
20867 CTCCCGCACCAATGGCCC-GGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* *
20931 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACAAGGCCTGATGGTGA
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACAGGGCCTGATGGTGA
*
20996 CCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 CCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
21033 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCT-GGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* * *
21097 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCGCACACGGGGCCTGATGGTGA
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACAGGGCCTGATGGTGA
* *
21162 CCGAGGCTCCCGCACCAAAGCTC-GTACTGTGCGGCA
131 CCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
21198 CTCCCGCACCAATGG-CCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* *
21262 GACCGAGGCCACCCGCCTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGCCTGATGGT
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACA--GGGCCTGATGGT
21327 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
129 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
21366 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
21431 GACCGAGGC
66 GACCGAGGC
21440 ACGCACACGT
Statistics
Matches: 383, Mismatches: 18, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
164 34 0.09
165 87 0.23
166 113 0.30
167 66 0.17
168 27 0.07
169 56 0.15
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.17
Consensus pattern (167 bp):
CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACAGGGCCTGATGGTGA
CCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:21128 original size:33 final size:32
Alignment explanation
Indices: 21055--21138 Score: 125
Period size: 33 Copynumber: 2.6 Consensus size: 32
21045 TGGCCCGGGG
* * *
21055 TTGCCGATGGTGACCGA-GACACCCGTCTGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGA
21086 TTGCCGATGGTGACCGAGGCCACCCGCCTTGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCC-TGGA
21119 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
21139 TCGCACACGG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
31 17 0.35
32 8 0.17
33 23 0.48
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (32 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGA
Found at i:21291 original size:33 final size:33
Alignment explanation
Indices: 21222--21303 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
21212 GCCGGGGTTG
* * * *
21222 CCGATGGTGACCGA-GACACCCGTCTGGGTTTG
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
*
21254 CCGATGGTGACCGAGGCCACCCGCCTTGGATTA
1 CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
21287 CCGATGGTGACCGAGGC
1 CCGATGGTGACCGAGGC
21304 GCACGCACAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 14 0.32
33 30 0.68
ACGTcount: A:0.17, C:0.30, G:0.34, T:0.18
Consensus pattern (33 bp):
CCGATGGTGACCGAGGCCACCCGCCTGGGATTA
Found at i:29339 original size:11 final size:11
Alignment explanation
Indices: 29323--29355 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
29313 CGATAATGTC
29323 TCGCCGGAGCA
1 TCGCCGGAGCA
*
29334 TCGCCGGAGCG
1 TCGCCGGAGCA
29345 TCGCCGGAGCA
1 TCGCCGGAGCA
29356 CCACCGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.39, T:0.09
Consensus pattern (11 bp):
TCGCCGGAGCA
Found at i:29805 original size:33 final size:33
Alignment explanation
Indices: 29742--29932 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
29732 ATGGCCCGGG
* * *
29742 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
29774 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
* * * *
29807 CTGCCGATGGTGACCGAGGCTCCCGCACCAATGGCCCGGGG
1 TTGCCGATGGTGACCGAGG----C-CACC---CGCCTGGGA
* * * *
29848 TTACCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
29880 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
29913 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
29933 TCACGCACAA
Statistics
Matches: 131, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
32 38 0.29
33 62 0.47
35 4 0.03
37 1 0.01
38 4 0.03
40 1 0.01
41 21 0.16
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.17
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:29866 original size:106 final size:105
Alignment explanation
Indices: 29721--29940 Score: 404
Period size: 106 Copynumber: 2.1 Consensus size: 105
29711 CTGTGCGGCA
*
29721 CTCCCGCACCAATGGCCCGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
1 CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
29786 ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
66 ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
29826 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCC-GGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
29891 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGG
65 GACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
*
29932 CTCACGCAC
1 CTCCCGCAC
29941 AAGCGGCCTG
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
105 18 0.16
106 93 0.84
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (105 bp):
CTCCCGCACCAATGGCCCGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTG
ACCGAGGCCACCCGCCTGGGACTGCCGATGGTGACCGAGG
Found at i:30026 original size:169 final size:169
Alignment explanation
Indices: 29826--30402 Score: 1002
Period size: 169 Copynumber: 3.4 Consensus size: 169
29816 GTGACCGAGG
*
29826 CTCCCGCACCAATGGCCCGGGGTTACCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* *
29891 GACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGGCTCACGCACAAGCGGCCTGATGGT
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACAAGGGGCCTGATGGT
*
29956 GACCGAGACTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
29995 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
*
30060 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACACGGGGGCCTGATGG
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACA-AGGGGCCTGATGG
* *
30125 TGACCGAGGCTCCCGCACCAAAGCTCGGTACTGTGCGGCA
130 TGACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
30165 CTCCCGCACCAATGG-CC-GGGTTGCCGATGGTGACCGAGACA-CC--CTGGGTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
* * *
30225 GACCGAGGCCACCCGCCTTGGATTACCGATGGTGACCGAGGCGCACGCACACGGGGCCTGATGGT
66 GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACAAGGGGCCTGATGGT
30290 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
131 GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
**
30329 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGTTTTTGCCGATGGT
1 CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
30394 GACCGAGGC
66 GACCGAGGC
30403 ACGCACACGT
Statistics
Matches: 388, Mismatches: 14, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
164 65 0.17
165 68 0.18
166 24 0.06
167 4 0.01
168 24 0.06
169 140 0.36
170 63 0.16
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.17
Consensus pattern (169 bp):
CTCCCGCACCAATGGCCCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGT
GACCGAGGCCACCCGCCTTGGATTGCCGATGGTGACCGAGGCTCACGCACAAGGGGCCTGATGGT
GACCGAGGCTCCCGCACCAACGCTCGGTTCTGTGCGGCA
Found at i:30086 original size:33 final size:33
Alignment explanation
Indices: 30017--30101 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
30007 TGGCCCGGGG
* * *
30017 TTGCCGATGGTGACCGA-GACACCCGTCTGGGT
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
*
30049 TTGCCGATGGTGACCGAGGCCACCCGCCTTGGA
1 TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
30082 TTGCCGATGGTGACCGAGGC
1 TTGCCGATGGTGACCGAGGC
30102 TCACGCACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 17 0.35
33 31 0.65
ACGTcount: A:0.15, C:0.29, G:0.35, T:0.20
Consensus pattern (33 bp):
TTGCCGATGGTGACCGAGGCCACCCGCCTGGGA
Done.