Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008947.1 Hibiscus syriacus cultivar Beakdansim tig00112270_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: 26025
ACGTcount: A:0.23, C:0.27, G:0.29, T:0.22
Found at i:6973 original size:31 final size:32
Alignment explanation
Indices: 6933--7019 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
6923 GCGTGAGCCC
*
6933 CGGTCACCATC-GCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
6965 C-GTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
6996 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
7020 CATTGGTGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
31 13 0.30
32 31 0.70
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:7140 original size:31 final size:32
Alignment explanation
Indices: 7066--7197 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
7056 GTGCGTGAGG
* *
7066 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
7098 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
7130 CTC-GTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
7161 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
7193 CTCGG
1 CTCGG
7198 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
31 31 0.33
32 50 0.54
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:7169 original size:63 final size:63
Alignment explanation
Indices: 7064--7196 Score: 196
Period size: 63 Copynumber: 2.1 Consensus size: 63
7054 TGGTGCGTGA
*
7064 GGCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GGCTC-GTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
* * * *
7128 GTCTCGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
7191 GGCTCG
1 GGCTCG
7197 GCAACCCCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
63 46 0.74
64 16 0.26
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (63 bp):
GGCTCGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:7344 original size:156 final size:156
Alignment explanation
Indices: 7161--7447 Score: 447
Period size: 156 Copynumber: 1.8 Consensus size: 156
7151 AGACGGGTGT
* *
7161 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCAC-GGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
7225 CGGACAGAGCCGAGAGTTGGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GC
66 CGCACAGAACCGAGAGTT-GGTGCGTGAGG--CTCGGTCACCATCGGCAACCCCAG-CGGGTGGC
7287 CTCGGCAACCCCAGGCCACGGGTCGGGGGC
127 CTCGGCAACCCCAGGCCACGGGTCGGGGGC
7317 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* *
7382 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGCGGGTGGCCTCG
66 CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGCGGGTGGCCTCG
7447 G
131 G
7448 TCACCATTGG
Statistics
Matches: 120, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
155 5 0.04
156 85 0.71
157 28 0.23
158 2 0.02
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (156 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGTGAGGCTCGGTCACCATCGGCAACCCCAGCGGGTGGCCTCG
GCAACCCCAGGCCACGGGTCGGGGGC
Found at i:7345 original size:62 final size:63
Alignment explanation
Indices: 7243--7376 Score: 252
Period size: 62 Copynumber: 2.1 Consensus size: 63
7233 GCCGAGAGTT
*
7243 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
7306 GGGT-CGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
7368 GGGTGCGGG
1 GGGTGCGGG
7377 AGTGCCGCAC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
62 61 0.88
63 8 0.12
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:7352 original size:94 final size:94
Alignment explanation
Indices: 7133--7353 Score: 218
Period size: 94 Copynumber: 2.4 Consensus size: 94
7123 CGGGTGTCTC
* *
7133 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGG
1 GTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
*
7198 CAACCCCAGGCCACGGTGCGGGAGTTCCG
66 CAACCCCAGGCCACGGTGCGGGAGCTCCG
* * * * ***** *
7227 GACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCT
1 GTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCT
*
7289 CGGCAACCCCAGGCCACGG-GTCGGGGGC-CTCG
63 CGGCAACCCCAGGCCACGGTG-CGGGAGCTC-CG
* *
7321 GTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 GTCACCATCGGCAAACCCAGACGGGTGCCTCGG
7354 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
92 1 0.01
93 8 0.08
94 79 0.83
95 6 0.06
96 1 0.01
ACGTcount: A:0.16, C:0.37, G:0.34, T:0.12
Consensus pattern (94 bp):
GTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
CAACCCCAGGCCACGGTGCGGGAGCTCCG
Found at i:7515 original size:30 final size:32
Alignment explanation
Indices: 7411--7540 Score: 160
Period size: 32 Copynumber: 4.2 Consensus size: 32
7401 GTGCGTGAGG
*
7411 CTCGGTCACCATCGGCAATCCCAG-CGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
7443 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
7475 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
7506 CTC-GTCACCATCGGCAACCCCCGAC-GGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
7536 CTCGG
1 CTCGG
7541 CAACCCCAGG
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
30 27 0.31
31 9 0.10
32 46 0.53
33 5 0.06
ACGTcount: A:0.18, C:0.37, G:0.28, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:15830 original size:32 final size:32
Alignment explanation
Indices: 15791--15878 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
15781 GCGTGAGCCC
*
15791 CGGTCACCATC-GCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
15823 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
15855 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
15879 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
32 34 0.74
33 12 0.26
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:15991 original size:32 final size:32
Alignment explanation
Indices: 15924--16055 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
15914 GTGCGTGAGG
* *
15924 CTCGGTCACCATCGGC-AACCCAGGC-GGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
15955 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
15987 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
16019 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
16051 CTCGG
1 CTCGG
16056 CAACCCCAGG
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
31 16 0.17
32 75 0.80
33 3 0.03
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:16180 original size:62 final size:63
Alignment explanation
Indices: 16102--16236 Score: 254
Period size: 62 Copynumber: 2.2 Consensus size: 63
16092 GCCGAGAGTT
*
16102 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
16165 -GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
16227 GGGTGCGGGG
1 GGGTGCGGGG
16237 TGCCGCACAG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
62 61 0.87
63 9 0.13
ACGTcount: A:0.13, C:0.39, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:16238 original size:32 final size:31
Alignment explanation
Indices: 16140--16240 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 31
16130 AACCCCCGAC
16140 GGGTGCCTCGGCAACCCCAGGCCACGGTGCG
1 GGGTGCCTCGGCAACCCCAGGCCACGGTGCG
* * ***
16171 GGG-GCCTCGGTC-ACCATC-GGCAAC-CCCCG
1 GGGTGCCTCGG-CAACC-CCAGGCCACGGTGCG
16200 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCG
1 --GGGTGCCTCGGCAACCCCAGGCCAC-GGTGCG
16234 GGGTGCC
1 GGGTGCC
16241 GCACAGAACC
Statistics
Matches: 51, Mismatches: 10, Indels: 17
0.65 0.13 0.22
Matches are distributed among these distances:
29 2 0.04
30 15 0.29
31 10 0.20
32 22 0.43
34 2 0.04
ACGTcount: A:0.13, C:0.40, G:0.38, T:0.10
Consensus pattern (31 bp):
GGGTGCCTCGGCAACCCCAGGCCACGGTGCG
Found at i:16367 original size:31 final size:32
Alignment explanation
Indices: 16269--16401 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
16259 GTGCGTGAGG
* *
16269 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
16302 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
16334 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
16365 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
16397 CTCGG
1 CTCGG
16402 CAACCCCAGG
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
31 29 0.33
32 34 0.38
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:16393 original size:63 final size:65
Alignment explanation
Indices: 16269--16401 Score: 180
Period size: 63 Copynumber: 2.1 Consensus size: 65
16259 GTGCGTGAGG
* * * * *
16269 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGC
* * *
16334 CTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGC
16397 CTCGG
1 CTCGG
16402 CAACCCCAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 33 0.55
64 3 0.05
65 24 0.40
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (65 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:16476 original size:95 final size:95
Alignment explanation
Indices: 16165--16550 Score: 349
Period size: 95 Copynumber: 4.1 Consensus size: 95
16155 CCCAGGCCAC
16165 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
* *
16230 TGCGGG-GTGCCGCACAGAACCGAGCG-TT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCTG
* * * * *** * *
16258 GGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAAA
1 GGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACCCCAGGCCAC
*** * * * * * **
16321 GCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACCC
63 GGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCTG
* * * *
16356 AG-AC-GGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
* *
16419 TGCGGGAGTGCCGCACAGAGCCGAGAGTTG
66 TGCGGGAGTGCCGCACAGAACCGAGAGCTG
* * **
16449 GGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
*
16514 TGCGGGAGTGCCGCACAGAACCGAGCGCTG
66 TGCGGGAGTGCCGCACAGAACCGAGAGCTG
16544 GGTGCGG
1 GGTGCGG
16551 CAGCCTCGCA
Statistics
Matches: 223, Mismatches: 53, Indels: 32
0.72 0.17 0.10
Matches are distributed among these distances:
92 4 0.02
93 39 0.17
94 28 0.13
95 112 0.50
96 30 0.13
97 5 0.02
98 5 0.02
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (95 bp):
GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
TGCGGGAGTGCCGCACAGAACCGAGAGCTG
Found at i:16496 original size:346 final size:346
Alignment explanation
Indices: 15864--16519 Score: 1163
Period size: 346 Copynumber: 1.9 Consensus size: 346
15854 TCGGTCACCA
**
15864 TCGGCAACCCCAGGCCATTGGTGAGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
1 TCGGCAACCCCAGGCCACGGGTGAGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
15929 TCACCATCGGCAACCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTC
66 TCACCATCGGCAACCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTC
*
15994 ACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAA
131 ACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAA
* * *
16059 CCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCACC
196 CCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCACC
*
16124 ATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCA-CGGTGCGGGGGCCTCGGTCACCAT
261 ATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGGGGCCTCGGTCACCAT
16188 CGGCAACCCCCGACGGGTGCC
326 CGGCAACCCCCGACGGGTGCC
* *
16209 TCGGCAACCCCAGGCCACGGGTGCGGGGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
1 TCGGCAACCCCAGGCCACGGGTGAGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
* *
16274 TCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCGG
66 TCACCATCGGCAA-CCCAGGC-GGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
16339 TCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
129 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
16403 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
194 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
* *
16468 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
259 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGG
16520 AGTGCCGCAC
Statistics
Matches: 295, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
345 74 0.25
346 151 0.51
347 70 0.24
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (346 bp):
TCGGCAACCCCAGGCCACGGGTGAGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGG
TCACCATCGGCAACCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTC
ACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAA
CCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCACC
ATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGGGGCCTCGGTCACCAT
CGGCAACCCCCGACGGGTGCC
Found at i:24830 original size:32 final size:30
Alignment explanation
Indices: 24788--24916 Score: 156
Period size: 29 Copynumber: 4.2 Consensus size: 30
24778 GGTGCGTGAG
*
24788 GCTCGGTCACCATCGGC-AACCCAGGCGGGT
1 GCTCGGTCACCATC-GCAAACCCAGACGGGT
24818 GGCCTCGGTCACCATCGCAAACCCAGACGGGT
1 -G-CTCGGTCACCATCGCAAACCCAGACGGGT
24850 -CTCGGTCACCATCGCAAACCCAGACGGGT
1 GCTCGGTCACCATCGCAAACCCAGACGGGT
* *
24879 GTCTC-GTCACCATCGGCAACCCCCGACGGGT
1 G-CTCGGTCACCATC-GCAAACCCAGACGGGT
24910 GGCTCGG
1 -GCTCGG
24917 CAACCCCAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 13
0.85 0.03 0.12
Matches are distributed among these distances:
29 29 0.33
30 9 0.10
31 23 0.26
32 27 0.31
ACGTcount: A:0.19, C:0.38, G:0.29, T:0.14
Consensus pattern (30 bp):
GCTCGGTCACCATCGCAAACCCAGACGGGT
Found at i:24907 original size:31 final size:31
Alignment explanation
Indices: 24789--24916 Score: 156
Period size: 31 Copynumber: 4.2 Consensus size: 31
24779 GTGCGTGAGG
* *
24789 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATC-GCAAACCCAGACGGGT-GT
24821 CTCGGTCACCATCGCAAACCCAGAC-GG-GT
1 CTCGGTCACCATCGCAAACCCAGACGGGTGT
24850 CTCGGTCACCATCGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGCAAACCCAGACGGGTGT
* * *
24881 CTC-GTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATC-GCAAACCCAGACGGGTGT
24912 CTCGG
1 CTCGG
24917 CAACCCCAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
29 26 0.30
30 11 0.13
31 27 0.31
32 22 0.26
ACGTcount: A:0.19, C:0.38, G:0.29, T:0.14
Consensus pattern (31 bp):
CTCGGTCACCATCGCAAACCCAGACGGGTGT
Found at i:25143 original size:30 final size:32
Alignment explanation
Indices: 25038--25168 Score: 160
Period size: 30 Copynumber: 4.2 Consensus size: 32
25028 GTGCGTGAGG
* *
25038 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
25071 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
25103 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
25134 CTC-GTCACCATCGGCAACCCCCGAC-GGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
25164 CTCGG
1 CTCGG
25169 CAACCCCAGG
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
30 27 0.31
31 9 0.10
32 25 0.29
33 26 0.30
ACGTcount: A:0.18, C:0.37, G:0.29, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:25243 original size:93 final size:94
Alignment explanation
Indices: 25137--25315 Score: 281
Period size: 94 Copynumber: 1.9 Consensus size: 94
25127 ACGGTGTCTC
*
25137 GTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGC-GGAGTGCCGCA
1 GTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCA
*
25200 CAGAGCCGAGAGTTGGGTGCGGGGGCCTCG
66 CAGA-CCGAGAGCTGGGTGCGGGGGCCTCG
* **
25230 GTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGGAGTGCCGCA
1 GTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCA
*
25295 CAGACCGAGCGCTGGGTGCGG
66 CAGACCGAGAGCTGGGTGCGG
25316 CAGCCTCGCA
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
93 21 0.27
94 42 0.54
95 15 0.19
ACGTcount: A:0.17, C:0.35, G:0.36, T:0.12
Consensus pattern (94 bp):
GTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCA
CAGACCGAGAGCTGGGTGCGGGGGCCTCG
Done.