Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009562.1 Hibiscus syriacus cultivar Beakdansim tig00116640_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: 22689
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.22
Found at i:12932 original size:95 final size:95
Alignment explanation
Indices: 12777--13165 Score: 383
Period size: 95 Copynumber: 4.1 Consensus size: 95
12767 TGCGAGGCTG
* ** *
12777 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
*
12842 GTCGGGTGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
* *
12872 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
* *
12937 GTCGGGGGTTGCCGATGGTGACCGAGACAC
66 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
******* * ** ** * *** * * ***
12967 CCGTCTGGGTTTGC-CGATGGTGACCGAG-ACACCCGTCTGGCTTTGCCAATGG-TGACCGAGGC
1 CCG-CACCCAACGCTCGGTTCTGTGCG-GCACTCCCG-CACCCGTGGCCTGGGGTTG-CCGAGG-
* * *
13029 CACCCGCCTGGGATTGCCGATGGTGACCGA-GCCTC
61 CACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC-C
*
13064 ACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
13128 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
13158 CCGCACCC
1 CCGCACCC
13166 GTGGCCTGGG
Statistics
Matches: 221, Mismatches: 62, Indels: 22
0.72 0.20 0.07
Matches are distributed among these distances:
94 32 0.14
95 125 0.57
96 34 0.15
97 30 0.14
ACGTcount: A:0.13, C:0.36, G:0.34, T:0.17
Consensus pattern (95 bp):
CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
GTCGGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:12962 original size:32 final size:32
Alignment explanation
Indices: 12926--13059 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
12916 CCTGGGGTTG
* * *
12926 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
12958 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
12990 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
13022 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
13055 CCGAG
1 CCGAG
13060 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 64 0.70
33 27 0.30
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:13153 original size:32 final size:32
Alignment explanation
Indices: 13117--13221 Score: 101
Period size: 32 Copynumber: 3.3 Consensus size: 32
13107 CCTGGGGTTG
13117 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
* **** * *
13149 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCGGGGGTTGCC-GATGG-TGA
13180 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
13212 CCGAGG-ACCC
1 CCGAGGCACCC
13222 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
31 26 0.48
32 28 0.52
ACGTcount: A:0.11, C:0.34, G:0.41, T:0.13
Consensus pattern (32 bp):
CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
Found at i:13172 original size:63 final size:63
Alignment explanation
Indices: 13094--13228 Score: 261
Period size: 63 Copynumber: 2.1 Consensus size: 63
13084 GTGCGGCACT
*
13094 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
13157 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
13220 CCCGCACCC
1 CCCGCACCC
13229 AACTCTCGGC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.10, C:0.37, G:0.39, T:0.13
Consensus pattern (63 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
Found at i:13186 original size:31 final size:31
Alignment explanation
Indices: 13094--13191 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
13084 GTGCGGCACT
13094 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
**** * * *
13125 CCCGTCGGGGGTTGCC-GATGG-TGACCGAGGCC
1 CCCG-CACCCGTGGCCTG-GGGTTG-CCGAGGCA
13157 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
13188 CCCG
1 CCCG
13192 TCGGGGGTTG
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
31 26 0.54
32 22 0.46
ACGTcount: A:0.09, C:0.38, G:0.40, T:0.13
Consensus pattern (31 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
Found at i:13317 original size:32 final size:32
Alignment explanation
Indices: 13275--13406 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
13265 CCTGGGGTTG
* *
13275 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
13307 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
13339 CCGAGACACCCGTCTGGGTTTG-CGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
* *
13370 CCGAGGCCACCCGCCT-GGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGGTTGCCGATGGTGA
13402 CCGAG
1 CCGAG
13407 CCTCACGCAC
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
31 19 0.21
32 73 0.79
ACGTcount: A:0.14, C:0.30, G:0.37, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
Found at i:13358 original size:158 final size:159
Alignment explanation
Indices: 12958--13377 Score: 523
Period size: 158 Copynumber: 2.7 Consensus size: 159
12948 CCGATGGTGA
* * * *
12958 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGAC
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
* * * *
13023 CGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-GCCTCACGCACCAACGCTCGGTTCTGTG
66 CGA-GACACCCGTCTGGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGCTCTGTC
*
13087 CGGCACTCCCGCACCCGTGGCCTGGGGTTG
130 CGGAACTCCCGCACCCGTGGCCTGGGGTTG
* * * *** * *
13117 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-TGGCCTG-GGGTT
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTC-TGGGTTTGCC-GATGG-T
* * * *
13179 G-CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTC
63 GACCGAGACACCCGTCTGGGATTGCCGATGGTGACCGAGG-CCTCACGCA-CCAACGCTCGGCTC
13241 TGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTG
126 TGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTG
*
13275 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
1 CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
*
13340 CGAGACACCCGTCTGGGTTTG-CGATGGTGACCGAGGCC
66 CGAGACACCCGTCTGGGATTGCCGATGGTGACCGAGGCC
13378 ACCCGCCTGG
Statistics
Matches: 220, Mismatches: 31, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
157 34 0.15
158 117 0.53
159 69 0.31
ACGTcount: A:0.13, C:0.34, G:0.35, T:0.17
Consensus pattern (159 bp):
CCGAGACACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGAC
CGAGACACCCGTCTGGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGCTCTGTCC
GGAACTCCCGCACCCGTGGCCTGGGGTTG
Found at i:13530 original size:33 final size:32
Alignment explanation
Indices: 13453--13541 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
13443 CTCACCAATG
*
13453 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
13485 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
13518 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
13542 GGGCTCACGC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 21 0.45
33 26 0.55
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.20
Consensus pattern (32 bp):
GCCTGGGATTGCCGATGGTGACCGAGACACCC
Found at i:13532 original size:349 final size:344
Alignment explanation
Indices: 12822--13467 Score: 1134
Period size: 349 Copynumber: 1.9 Consensus size: 344
12812 CACCAATGGA
* *
12822 CTGGGGTTGCCGAGGCACCCGTCGGGTGTTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTC
1 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTC
* * *
12887 GGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGA
66 GGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGA
12952 TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT
131 TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT
13017 GGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
196 GGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
** *
13082 CTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGT
261 CTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGAGGCACCCGTAGGGGGTTGCCGATGGT
13147 GACCGAGGCCCCCGCACCCGTGGC
326 GACCGAGG---CCGCACCC--GGC
13171 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTC
1 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTC
13236 GGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGA
66 GGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGA
* *
13301 TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTG-CGAT
131 TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT
13365 GGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
196 GGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
*
13429 CTGTGCGGCACTCCCTCACCAATGGCCTGGGGTTGCCGA
261 CTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGA
13468 TGGTGACCGA
Statistics
Matches: 287, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
347 76 0.26
348 27 0.09
349 184 0.64
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.18
Consensus pattern (344 bp):
CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGACCCCGCACCCAACTCTC
GGCTCTGTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGA
TGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT
GGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTT
CTGTGCGGCACTCCCGCACCAATGGCCTGGGGTTGCCGAGGCACCCGTAGGGGGTTGCCGATGGT
GACCGAGGCCGCACCCGGC
Found at i:21857 original size:95 final size:93
Alignment explanation
Indices: 21702--21882 Score: 256
Period size: 95 Copynumber: 1.9 Consensus size: 93
21692 TGCGAGGCTG
* * *
21702 CCGCACCCAGCGCTCGGTTTGTGCGGCACTCCCGCACCAAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTCTGTGCGGCACTCCCGCACC-AATGGACTGGGGTTGACGAGGCA-CC
*
21767 GTCGGGTGTTGCCGATGGTGACCGAGGCCC
64 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
* * *
21797 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCAGCACC-GTGGCCTGGGGTTGACGAGGCACC
1 CCGCACCCAACGCTCGG-TCTGTGCGGCACTCCC-GCACCAATGGACTGGGGTTGACGAGGCACC
21861 GTCGGGGGTTGCCGATGGTGAC
64 GTCGGGGGTTGCCGATGGTGAC
21883 GGACACCGTC
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
94 23 0.30
95 34 0.44
96 15 0.19
97 5 0.06
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.17
Consensus pattern (93 bp):
CCGCACCCAACGCTCGGTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGACGAGGCACCGT
CGGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:21940 original size:32 final size:31
Alignment explanation
Indices: 21849--21975 Score: 134
Period size: 32 Copynumber: 4.1 Consensus size: 31
21839 GGCCTGGGGT
* * *
21849 TGACGAGGCA-CCGTCGGGGGTTGCCGATGG
1 TGACGAGACACCCGTCTGGGTTTGCCGATGG
21879 TGACG-GACA-CCGTCTGGGTTTGCCGATGG
1 TGACGAGACACCCGTCTGGGTTTGCCGATGG
* * *
21908 TGACCGAGACACCCGTATGGCTTTGCCAATGG
1 TGA-CGAGACACCCGTCTGGGTTTGCCGATGG
* * *
21940 TGACGAGGCCACCCGCCTGGGATTGCCGATGG
1 TGACGA-GACACCCGTCTGGGTTTGCCGATGG
21972 TGAC
1 TGAC
21976 CGAGCCTCAC
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.30
30 7 0.09
31 7 0.09
32 43 0.53
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.20
Consensus pattern (31 bp):
TGACGAGACACCCGTCTGGGTTTGCCGATGG
Found at i:22128 original size:60 final size:59
Alignment explanation
Indices: 22021--22140 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 59
22011 ACTCCGCACC
* *
22021 CGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCGCA
1 CGTGGCCTGGGGTTGACGAGGCACCCGTCGGGGGTTGCCGATGGTGA-CGAGG-ACCCGCA
22082 CGTGGCCTGGGGTTGACGAGGCA-CCGTCGGGGGTTGCCGATGGTGACGAGGACCCGCA
1 CGTGGCCTGGGGTTGACGAGGCACCCGTCGGGGGTTGCCGATGGTGACGAGGACCCGCA
22140 C
1 C
22141 CCAACTCGGC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
58 7 0.12
59 5 0.09
60 23 0.40
61 22 0.39
ACGTcount: A:0.12, C:0.30, G:0.43, T:0.15
Consensus pattern (59 bp):
CGTGGCCTGGGGTTGACGAGGCACCCGTCGGGGGTTGCCGATGGTGACGAGGACCCGCA
Found at i:22130 original size:30 final size:30
Alignment explanation
Indices: 22037--22132 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
22027 CTGGGGTTGC
22037 CGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CGAGGCA-CCGTCGGGGGTTGCCGATGGTGA
* *** * *
22068 CCGAGGC-CC-CCGCACGTGGCCTG-GGGTTGA
1 -CGAGGCACCGTCGGGGGTTGCC-GATGG-TGA
22098 CGAGGCACCGTCGGGGGTTGCCGATGGTGA
1 CGAGGCACCGTCGGGGGTTGCCGATGGTGA
22128 CGAGG
1 CGAGG
22133 ACCCGCACCC
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
29 15 0.32
30 17 0.36
31 9 0.19
32 6 0.13
ACGTcount: A:0.12, C:0.28, G:0.45, T:0.15
Consensus pattern (30 bp):
CGAGGCACCGTCGGGGGTTGCCGATGGTGA
Found at i:22289 original size:31 final size:32
Alignment explanation
Indices: 22186--22315 Score: 157
Period size: 31 Copynumber: 4.2 Consensus size: 32
22176 CCTGGGGTTG
* *
22186 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGCCACCCGTCTGGGTTTGCCGATGGTGA
*
22218 CCGAGACA-CCGTCTGGGTTTG-CGATGGTGA
1 CCGAGCCACCCGTCTGGGTTTGCCGATGGTGA
22248 CCGAGACCA-CCGTCTGGGTTTG-CGATGGTGA
1 CCGAG-CCACCCGTCTGGGTTTGCCGATGGTGA
*
22279 CCGAGGCCACCCG-CCGGG-TTGCCGATGGTGA
1 CCGA-GCCACCCGTCTGGGTTTGCCGATGGTGA
22310 -CGAGCC
1 CCGAGCC
22316 TCACGCACGA
Statistics
Matches: 89, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
29 3 0.03
30 20 0.22
31 55 0.62
32 11 0.12
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.18
Consensus pattern (32 bp):
CCGAGCCACCCGTCTGGGTTTGCCGATGGTGA
Found at i:22329 original size:22 final size:23
Alignment explanation
Indices: 22301--22346 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
22291 GCCGGGTTGC
22301 CGATGGTGA-CGAGCCTCACGCA
1 CGATGGTGACCGAGCCTCACGCA
22323 CGATGGTGACCGAGCCTCACGCA
1 CGATGGTGACCGAGCCTCACGCA
22346 C
1 C
22347 CAACGCTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.22, C:0.35, G:0.30, T:0.13
Consensus pattern (23 bp):
CGATGGTGACCGAGCCTCACGCA
Found at i:22461 original size:34 final size:32
Alignment explanation
Indices: 22383--22470 Score: 113
Period size: 34 Copynumber: 2.7 Consensus size: 32
22373 CTCACCAATG
*
22383 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** **
22415 GTATGGTTTTGCCGATGGTGACCGAGGCACACCC
1 GCCTGGGATTGCCGATGGTGACCGA-G-ACACCC
22449 GCCTGGGATTGCCGATGGTGAC
1 GCCTGGGATTGCCGATGGTGAC
22471 GGGGCTCACG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 21 0.46
33 1 0.02
34 24 0.52
ACGTcount: A:0.16, C:0.27, G:0.36, T:0.20
Consensus pattern (32 bp):
GCCTGGGATTGCCGATGGTGACCGAGACACCC
Done.