Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009477.1 Hibiscus syriacus cultivar Beakdansim tig00114328_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: 42098
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.21
Found at i:4279 original size:33 final size:31
Alignment explanation
Indices: 4242--4328 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 31
4232 GCGTGAGCCC
4242 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGT-GCCT
* ** *
4275 CGGTCACCATCGGCAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGCGGGTGCCT
4306 C-GTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAA-CCCAGGC
4329 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 14 0.30
31 8 0.17
32 8 0.17
33 16 0.35
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGCCT
Found at i:4447 original size:32 final size:32
Alignment explanation
Indices: 4375--4505 Score: 187
Period size: 31 Copynumber: 4.2 Consensus size: 32
4365 GTGCGTGAGG
* *
4375 CTCGGTCACCATC-GC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
4406 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
4438 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
4469 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
4501 CTCGG
1 CTCGG
4506 CAACCCCAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
31 42 0.46
32 38 0.41
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:4474 original size:63 final size:63
Alignment explanation
Indices: 4373--4505 Score: 189
Period size: 63 Copynumber: 2.1 Consensus size: 63
4363 TGGTGCGTGA
*
4373 GGCTCGGTCACCATCGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GGCTCGGTCACCATCGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
* * * *
4436 GTCTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATC-GC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
4499 GGCTCGG
1 GGCTCGG
4506 CAACCCCAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
63 49 0.79
64 5 0.08
65 8 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (63 bp):
GGCTCGGTCACCATCGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:4651 original size:63 final size:62
Alignment explanation
Indices: 4552--4685 Score: 250
Period size: 63 Copynumber: 2.1 Consensus size: 62
4542 GCCGAGAGTT
*
4552 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTC-GCAACCCCAGGCCAC
4615 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGCAACCCCAGGCCAC
4677 GGGTGCGGG
1 GGGTGCGGG
4686 AGTGCCGCAC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 24 0.34
63 46 0.66
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.10
Consensus pattern (62 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGCAACCCCAGGCCAC
Found at i:4662 original size:95 final size:94
Alignment explanation
Indices: 4438--4662 Score: 233
Period size: 95 Copynumber: 2.4 Consensus size: 94
4428 AGACGGGTGT
* *
4438 CTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
4502 TCGGCAACCCCAGGCCACGGGTGCGGGAG
66 TCGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
4531 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGG
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGG
*
4593 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGGG
62 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
4626 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCG
4663 CAACCCCAGG
Statistics
Matches: 98, Mismatches: 25, Indels: 16
0.71 0.18 0.12
Matches are distributed among these distances:
92 1 0.01
93 6 0.06
94 7 0.07
95 76 0.78
96 7 0.07
97 1 0.01
ACGTcount: A:0.16, C:0.37, G:0.34, T:0.12
Consensus pattern (94 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
TCGGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:4781 original size:188 final size:188
Alignment explanation
Indices: 4563--4924 Score: 477
Period size: 188 Copynumber: 1.9 Consensus size: 188
4553 GGTGCGGGGT
* * * ** *
4563 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACC-CCAGGC-CA-CGGGTGCGGGG
1 CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGC-ACCACC-GGCAAACCCAG-ACGGGG
4625 GCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTC-GCAACCCCAGGCCACGGGTGCGGGAGT
63 GCCTCGGTCACCATC-GCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
*
4689 GCCGCACAGAACCGAGCGTT-GGTGCGTGAGG-CTC-GTCACCATCGGCAATCCCAGGCGGGTGG
126 GCCGCACAGAACCGAGAGTTGGGTGCG-G-GGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGG
* * * * * * *
4751 CCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCGTCACCATCGGCAAACCCAGACGGGTGTC
1 CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGCACCACCGGCAAACCCAGACGGGGGCC
4816 TCGGTCACCATCGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGC
66 TCGGTCACCATCGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGC
*
4881 ACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCGGCAA
131 ACAGAACCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCGGCAA
4925 CACCCGACGG
Statistics
Matches: 152, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
186 10 0.07
187 67 0.44
188 73 0.48
189 2 0.01
ACGTcount: A:0.17, C:0.36, G:0.33, T:0.13
Consensus pattern (188 bp):
CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGCACCACCGGCAAACCCAGACGGGGGCC
TCGGTCACCATCGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGC
ACAGAACCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGG
Found at i:4794 original size:31 final size:32
Alignment explanation
Indices: 4723--4849 Score: 152
Period size: 31 Copynumber: 4.0 Consensus size: 32
4713 CGTGAGGCTC
* * *
4723 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGT-GTCTCG
* *
4756 GTCACCATTGGCAAAGCCAGACGGGTGTCTC-
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
4787 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
* * *
4819 GTCACCATC-GCAACCCCCGAC-GGTGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
4849 G
1 G
4850 CAACCCCAGG
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
30 9 0.11
31 39 0.47
32 13 0.16
33 22 0.27
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.16
Consensus pattern (32 bp):
GTCACCATCGGCAAACCCAGACGGGTGTCTCG
Found at i:4973 original size:92 final size:92
Alignment explanation
Indices: 4815--4995 Score: 283
Period size: 92 Copynumber: 2.0 Consensus size: 92
4805 AGACGGGTGT
*
4815 CTCGGTCACCATCGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
1 CTCGGTCACCATCGCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
* *
4880 CACAGAGCCGAGAGTTGGGTGCGGGGC
66 CACAGAACCGAGAGCTGGGTGCGGGGC
* **
4907 CTCGGTCACCATCGGCAACACCCGACGGTGCCTCGGCAACCCCAGTCCA-TTGTGCGGGAGTGCC
1 CTCGGTCACCATC-GCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
*
4971 GCACAGAACCGAGCGCTGGGTGCGG
65 GCACAGAACCGAGAGCTGGGTGCGG
4996 CAGCCTCGCA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 48 0.59
93 33 0.41
ACGTcount: A:0.17, C:0.36, G:0.35, T:0.12
Consensus pattern (92 bp):
CTCGGTCACCATCGCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
CACAGAACCGAGAGCTGGGTGCGGGGC
Found at i:13073 original size:33 final size:31
Alignment explanation
Indices: 13034--13121 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
13024 GCGTGAGCCC
*
13034 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGC-GGT-GCCT
* ** *
13067 CGGTCACCATCGGCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGTGCCT
*
13098 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
13122 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 23 0.50
32 3 0.07
33 20 0.43
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAAACCCAGGCGGTGCCT
Found at i:13105 original size:64 final size:62
Alignment explanation
Indices: 13034--13277 Score: 187
Period size: 64 Copynumber: 3.8 Consensus size: 62
13024 GCGTGAGCCC
13034 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGT-GCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
*** * * *
13098 CGGTCACCATCGGCAACCCCAGGCCATTG-GT-GAGTGC-CGCA-CAG--AAACCGAGCGT-TGG
1 CGGTCACCATCGGCAA-CCCAGGCGGGTGCCTCG-GT-CAC-CATCGGCAAAACC-A---TACGG
13156 TGCGTGAGGCT
58 T--GT----CT
* *
13167 CGGTCACCATCGGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAAACCATAC-GGTGTCT
* *
13230 CGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAA
1 CGGTCACCATCGGC-AACCCAGGCGGGTGCCTCGGTCACCATCGGCAA
13278 CCCCCGACGG
Statistics
Matches: 141, Mismatches: 17, Indels: 44
0.70 0.08 0.22
Matches are distributed among these distances:
60 5 0.04
61 2 0.01
62 6 0.04
63 23 0.16
64 56 0.40
65 2 0.01
67 2 0.01
68 12 0.09
69 27 0.19
70 2 0.01
71 4 0.03
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (62 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
Found at i:13225 original size:32 final size:32
Alignment explanation
Indices: 13165--13296 Score: 212
Period size: 32 Copynumber: 4.2 Consensus size: 32
13155 GTGCGTGAGG
* *
13165 CTCGGTCACCATCGGC-AACCCAGGCGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
13196 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
13228 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
13260 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
13292 CTCGG
1 CTCGG
13297 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 16 0.17
32 79 0.83
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:13439 original size:61 final size:62
Alignment explanation
Indices: 13343--13473 Score: 246
Period size: 61 Copynumber: 2.1 Consensus size: 62
13333 GCCGAGAGTT
*
13343 GGGTGCGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
13405 GGGTGCGGGGCCTC-GTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
13466 GGGTGCGG
1 GGGTGCGG
13474 AGTGCCGCAC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 55 0.81
62 13 0.19
ACGTcount: A:0.14, C:0.40, G:0.35, T:0.11
Consensus pattern (62 bp):
GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:13630 original size:63 final size:64
Alignment explanation
Indices: 13508--13639 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 64
13498 GTGCGTGAGG
* * * * *
13508 CTCGGTCACCATCGGCAATCCCAGGCGGTGGCCTCGGTCACCATTGGCAAAGCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGC
* * *
13571 CTCGGTCACCATCGGCAAACCCAGACGG-GTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGTG-GCCTCGGTCACCATCGGCAAACCCAGACGGGTGC
13635 CTCGG
1 CTCGG
13640 CAACCCCAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
62 1 0.02
63 49 0.83
64 9 0.15
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (64 bp):
CTCGGTCACCATCGGCAAACCCAGACGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:13631 original size:32 final size:31
Alignment explanation
Indices: 13508--13639 Score: 165
Period size: 32 Copynumber: 4.2 Consensus size: 31
13498 GTGCGTGAGG
* *
13508 CTCGGTCACCATCGGCAATCCCAGGCGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGT-GC
* * *
13540 CTCGGTCACCATTGGCAAAGCCAGACGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGTGC
*
13571 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGAC-GGTGC
* *
13603 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGAC-GGTGC
13635 CTCGG
1 CTCGG
13640 CAACCCCAGG
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 25 0.28
32 64 0.72
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAAACCCAGACGGTGC
Found at i:13702 original size:343 final size:340
Alignment explanation
Indices: 13107--13741 Score: 1098
Period size: 343 Copynumber: 1.9 Consensus size: 340
13097 TCGGTCACCA
**
13107 TCGGCAACCCCAGGCCATTGGTGAGTGCCGCACAGAAACCGAGCGTTGGTGCGTGAGGCTCGGTC
1 TCGGCAACCCCAGGCCACGGGTGAGTGCCGCACAGAAACCGAGCGTTGGTGCGTGAGGCTCGGTC
13172 ACCATCGGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCAC
66 ACCATCGGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCAC
*
13237 CATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACC
131 CATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACC
* * *
13302 CCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGTCCTCGGTCACCATC
196 CCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCATC
*
13367 GGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGTCACCATCGGCA
261 GGCAACACCCGACGGGTGCCTC-GCAACCCCAGGCCACGGGTGCGGGGCCTCGTCACCATCGGCA
13432 ACCCCCGACGGGTGCC
325 ACCCCCGACGGGTGCC
13448 TCGGCAACCCCAGGCCACGGGTGCGGAGTGCCGCACAG-AACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGT---GAGTGCCGCACAGAAACCGAGCGTTGGTGCGTGAGGCTCG
* *
13512 GTCACCATCGGCAATCCCAGGC-GGTGGCCTCGGTCACCATTGGCAAAGCCAGAC-GGTGTCTCG
63 GTCACCATCGGCAA-CCCAGGCGGGT-GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
13575 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
126 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
13640 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACA-AGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
191 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGC-GGGGCCTCGGTC
13704 ACCATCGGCAACACCCGACGGGTGCCTCGCAACCCCAG
255 ACCATCGGCAACACCCGACGGGTGCCTCGCAACCCCAG
13742 TCCATTGGTG
Statistics
Matches: 279, Mismatches: 9, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
341 20 0.07
342 27 0.10
343 186 0.67
344 46 0.16
ACGTcount: A:0.18, C:0.35, G:0.34, T:0.13
Consensus pattern (340 bp):
TCGGCAACCCCAGGCCACGGGTGAGTGCCGCACAGAAACCGAGCGTTGGTGCGTGAGGCTCGGTC
ACCATCGGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCAC
CATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACC
CCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCATC
GGCAACACCCGACGGGTGCCTCGCAACCCCAGGCCACGGGTGCGGGGCCTCGTCACCATCGGCAA
CCCCCGACGGGTGCC
Found at i:21906 original size:32 final size:31
Alignment explanation
Indices: 21867--22129 Score: 191
Period size: 32 Copynumber: 8.1 Consensus size: 31
21857 GCGTGAGCCC
21867 CGGTCACCATCGGCAATCCCAGACGGGTGTCT
1 CGGTCACCATCGGCAA-CCCAGACGGGTGTCT
21899 CGGTCACCATCGGCAAACCCAGACGGGTGTCT
1 CGGTCACCATCGGC-AACCCAGACGGGTGTCT
** **
21931 CGGTCACCATCGGCAACCCCAGGCCATTGGTG-AG
1 CGGTCACCATCGGCAA-CCCA-G--ACGGGTGTCT
* * *
21965 GGAGTGC-CGCA-CAG-AACCGAG-CGTTGGTGCGTGAGGCT
1 CG-GT-CAC-CATCGGCAACCCAGACG--GGT--GT----CT
* *
22003 CGGTCACCATCGGCAACCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAACCCAGACGGGT-GTCT
22035 CGGTCACCATCGGCAAACCCAGAC-GG-GT-T
1 CGGTCACCATCGGC-AACCCAGACGGGTGTCT
22064 CGGTCACCATCGGCAACCCAGACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGACGGGTGTCT
* *
22095 CGGTCACCATCGGCAACCCCCGACGGGTGGCT
1 CGGTCACCATCGGCAA-CCCAGACGGGTGTCT
22127 CGG
1 CGG
22130 CAACCCCAGG
Statistics
Matches: 185, Mismatches: 20, Indels: 52
0.72 0.08 0.20
Matches are distributed among these distances:
28 9 0.05
29 17 0.09
30 3 0.02
31 22 0.12
32 82 0.44
33 15 0.08
34 3 0.02
35 10 0.05
36 7 0.04
37 8 0.04
38 7 0.04
39 2 0.01
ACGTcount: A:0.19, C:0.34, G:0.32, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAACCCAGACGGGTGTCT
Found at i:22274 original size:62 final size:62
Alignment explanation
Indices: 22176--22307 Score: 241
Period size: 61 Copynumber: 2.1 Consensus size: 62
22166 GCCGAGAGTT
22176 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCAC
22239 GGGTGCGGGG-CCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
22300 GGGT-CGGG
1 GGGTGCGGG
22308 AGTGCCGCAC
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
60 4 0.06
61 28 0.41
62 27 0.39
63 10 0.14
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (62 bp):
GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
Found at i:22376 original size:32 final size:32
Alignment explanation
Indices: 22336--22470 Score: 145
Period size: 32 Copynumber: 4.3 Consensus size: 32
22326 GCGTTGGTGC
* *
22336 GTGG-CTCGGTCACCATCGGCAATCCCAGGCG
1 GTGGCCTCGGTCACCATCGGCAAACCCAGACG
* *
22367 GTGGCCTCGGTCACCATTGGCAAAGCCAGACG
1 GTGGCCTCGGTCACCATCGGCAAACCCAGACG
*
22399 G-GTGTCTCGGTCACCATCGGCAAACCCAGACG
1 GTG-GCCTCGGTCACCATCGGCAAACCCAGACG
* * *
22431 G-GTGTCTCGGTCACCATC-GCAACCCCCGACG
1 GTG-GCCTCGGTCACCATCGGCAAACCCAGACG
22462 GT-GCCTCGG
1 GTGGCCTCGG
22471 CAACCCAGGC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
30 6 0.07
31 17 0.19
32 68 0.75
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
GTGGCCTCGGTCACCATCGGCAAACCCAGACG
Found at i:22561 original size:94 final size:93
Alignment explanation
Indices: 22239--22618 Score: 280
Period size: 95 Copynumber: 4.1 Consensus size: 93
22229 CCCAGGCCAC
*
22239 GGGTGC-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGGTGCGGGGGCCTCGGTCACCATC-GCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGG
*
22303 T-CGGGAGTGCCGCACAGAACCGAGCG-T
65 TGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * *** * *
22330 TGGTGC-GTGG-CTCGGTCACCATCGGCAATC-CCAGGCGGTGGCCTCGGTC-ACCATTGGCAAA
1 GGGTGCGGGGGCCTCGGTCACCATC-GCAA-CACCCGACGGT-GCCTCGG-CAACCCCAGGCCAC
*** * * * * * *
22391 GCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACC
62 GGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCT
** * * * *
22425 CAG-ACGGGTGTCTCGGTCACCATCGCAACCCCCGACGGTGCCTCGGCAA-CCCAGGCCACGGGT
1 GGGTGCGGGGGCCTCGGTCACCATCGCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGT
* *
22488 GCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GCGGGAGTGCCGCACAGAACCGAGAGCT
* **
22516 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATC-GCAACACCCGAC-GGTGCCTCGGCAACCCCAGGCCACGG
*
22581 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
64 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
22611 GGGTGCGG
1 GGGTGCGG
22619 CAGCCTCGCA
Statistics
Matches: 215, Mismatches: 53, Indels: 38
0.70 0.17 0.12
Matches are distributed among these distances:
90 29 0.13
91 30 0.14
92 27 0.13
93 27 0.13
94 27 0.13
95 62 0.29
96 13 0.06
ACGTcount: A:0.17, C:0.34, G:0.35, T:0.13
Consensus pattern (93 bp):
GGGTGCGGGGGCCTCGGTCACCATCGCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGT
GCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:22562 original size:340 final size:341
Alignment explanation
Indices: 21940--22587 Score: 1083
Period size: 340 Copynumber: 1.9 Consensus size: 341
21930 TCGGTCACCA
**
21940 TCGGCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGT-AGGCTCG
22005 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTTCGGTCA
65 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTTCGGTCA
*
22070 CCATCGGCAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACC
130 CCATCGGCAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACC
* * *
22135 CCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCACCAT
195 CCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCACCAT
*
22200 CGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCATCGG
260 CGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCATCGG
22265 CAACCCCCGACGGTGCC
325 CAACCCCCGACGGTGCC
*
22282 TCGGCAACCCCAGGCCACGGGT-CGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGT-GGCTCGG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTAGGCTCGG
* *
22345 TCACCATCGGCAATCCCAGGC-GGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCGG
66 TCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GG-GT-TCGG
22409 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATC-GCAACCCCCGAC-GGTGCCTCGGC
127 TCACCATCGGC-AACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
22472 AA-CCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
191 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCA
* **
22536 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
256 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
22588 AGTGCCGCAC
Statistics
Matches: 288, Mismatches: 13, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
339 50 0.17
340 116 0.40
341 47 0.16
342 47 0.16
343 28 0.10
ACGTcount: A:0.17, C:0.35, G:0.34, T:0.13
Consensus pattern (341 bp):
TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTAGGCTCGG
TCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTTCGGTCAC
CATCGGCAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCC
CAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCACCATC
GGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCATCGGC
AACCCCCGACGGTGCC
Found at i:30766 original size:33 final size:31
Alignment explanation
Indices: 30726--30814 Score: 97
Period size: 33 Copynumber: 2.8 Consensus size: 31
30716 GCGTGAGCCC
*
30726 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGC-GGT-GCCT
* ** *
30759 CGGTCACCATCGGCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGTGCCT
*
30790 CGGTCACCATCGGCAACCCCCAGGC
1 CGGTCACCATCGGCAA-ACCCAGGC
30815 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
31 19 0.41
32 7 0.15
33 20 0.43
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAAACCCAGGCGGTGCCT
Found at i:30929 original size:31 final size:32
Alignment explanation
Indices: 30863--30989 Score: 179
Period size: 32 Copynumber: 4.0 Consensus size: 32
30853 CGTGAGGCTC
* *
30863 GTCACCATCGGC-AACCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGT-GTCTCG
30895 GTCACCATCGGCAAACCCAGAC-GGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
30926 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
* * *
30958 GTCACCATCGGCAACCCCCGAC-GGTGGCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
30989 G
1 G
30990 CAACCCCAGG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
31 36 0.41
32 44 0.50
33 8 0.09
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
GTCACCATCGGCAAACCCAGACGGGTGTCTCG
Found at i:30962 original size:63 final size:63
Alignment explanation
Indices: 30858--30989 Score: 196
Period size: 63 Copynumber: 2.1 Consensus size: 63
30848 TTGTGCGTGA
*
30858 GGCTC-GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
* * * *
30920 GTCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCCCGACGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
30983 GGCTCGG
1 GGCTCGG
30990 CAACCCCAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
62 4 0.06
63 46 0.74
64 12 0.19
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (63 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
Found at i:31081 original size:31 final size:31
Alignment explanation
Indices: 31041--31144 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
31031 GAGTTGGGTG
31041 CGGGT-CCTCGTCACCATCGGCAACCCCCGA
1 CGGGTGCCTCGTCACCATCGGCAACCCCCGA
* * * ****
31071 CGGGTGCCTCGGCAACC-CCAGGCCACGGGTG-
1 CGGGTGCCTCGTC-ACCATC-GGCAACCCCCGA
*
31102 CGGGGGCCTCGGTCACCATCGGCAACCCCCGA
1 CGGGTGCCTC-GTCACCATCGGCAACCCCCGA
31134 CGGGTGCCTCG
1 CGGGTGCCTCG
31145 GCAACCCCAG
Statistics
Matches: 52, Mismatches: 16, Indels: 11
0.66 0.20 0.14
Matches are distributed among these distances:
30 5 0.10
31 26 0.50
32 21 0.40
ACGTcount: A:0.13, C:0.42, G:0.33, T:0.12
Consensus pattern (31 bp):
CGGGTGCCTCGTCACCATCGGCAACCCCCGA
Found at i:31125 original size:63 final size:62
Alignment explanation
Indices: 31036--31167 Score: 239
Period size: 63 Copynumber: 2.1 Consensus size: 62
31026 GCCGAGAGTT
*
31036 GGGTGC-GGGTCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
31097 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTC-GTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
31160 GGGTGCGG
1 GGGTGCGG
31168 AGTGCCGCAC
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 6 0.09
62 7 0.10
63 55 0.81
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (62 bp):
GGGTGCGGGGGCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:31133 original size:155 final size:157
Alignment explanation
Indices: 30954--31239 Score: 429
Period size: 156 Copynumber: 1.8 Consensus size: 157
30944 AGACGGGTGT
* *
30954 CTCGGTCACCATCGGCAACCCCCGAC-GGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGC-GGAGTGC
* * *
31018 CGGACAGAGCCGAGAGTTGGGTGCG-G-GTCCTC-GTCACCATCGGCAACCCCCGACGGGT-GCC
65 CGCACAGAACCGAGAGTT-GGTGCGTGAG-CCTCGGTCACCATCGGCAACCCCAGACGGGTGGCC
31079 TCGGCAACCCCAGGCCACGGGTGCGGGGGC
128 TCGGCAACCCCAGGCCACGGGTGCGGGGGC
31109 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGAGTGCC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGAGTGCC
* * * *
31174 GCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
66 GCACAGAACCGAGAGTTGGTGCGTGAGCCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTCG
31239 G
131 G
31240 TCACCATTGG
Statistics
Matches: 117, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
154 6 0.05
155 51 0.44
156 53 0.45
157 7 0.06
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (157 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGAGTGCC
GCACAGAACCGAGAGTTGGTGCGTGAGCCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTCG
GCAACCCCAGGCCACGGGTGCGGGGGC
Found at i:31138 original size:93 final size:92
Alignment explanation
Indices: 30922--31144 Score: 227
Period size: 93 Copynumber: 2.4 Consensus size: 92
30912 CAGACGGTGT
* *
30922 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGTGGCT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTC-GTCACCATCGGCAACCCCCGACGGTGCCT
30987 CGGCAACCCCAGGCCACGGGTGCGGGAG
65 CGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
31015 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGGT-CCTCGTCACCATCGGCAACCCCCGACGGGTG
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTGCCTCGTCACCATCGGCAACCCCCGAC-GGTG
*
31077 CCTCGGCAACCCCAGGCCACGGGTGCGGGGG
62 CCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
31108 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCG
31145 GCAACCCCAG
Statistics
Matches: 97, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
92 23 0.24
93 52 0.54
94 21 0.22
95 1 0.01
ACGTcount: A:0.16, C:0.38, G:0.34, T:0.13
Consensus pattern (92 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGTCACCATCGGCAACCCCCGACGGTGCCTC
GGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:31173 original size:32 final size:31
Alignment explanation
Indices: 31071--31173 Score: 93
Period size: 32 Copynumber: 3.3 Consensus size: 31
31061 CAACCCCCGA
31071 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * * ****
31102 CGGGGGCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
31133 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
31165 CGGAGTGCC
1 CGG-GTGCC
31174 GCACAGAACC
Statistics
Matches: 52, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
31 25 0.48
32 27 0.52
ACGTcount: A:0.14, C:0.40, G:0.37, T:0.10
Consensus pattern (31 bp):
CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
Found at i:31300 original size:31 final size:32
Alignment explanation
Indices: 31202--31334 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
31192 GTGCGTGAGG
* *
31202 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
31235 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
31267 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
31298 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
31330 CTCGG
1 CTCGG
31335 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:31326 original size:63 final size:65
Alignment explanation
Indices: 31202--31334 Score: 180
Period size: 63 Copynumber: 2.1 Consensus size: 65
31192 GTGCGTGAGG
* * * * *
31202 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGC
* * *
31267 CTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGC
31330 CTCGG
1 CTCGG
31335 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:31409 original size:95 final size:95
Alignment explanation
Indices: 31097--31470 Score: 343
Period size: 95 Copynumber: 3.9 Consensus size: 95
31087 CCCAGGCCAC
31097 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
31162 GTGC-GGAGTGCCGCACAGAACCGAGCGTT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGTT
* * * * *** *
31191 -GGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACCCCAGGCCA
* *** * * * * ***
31253 AGCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACC
63 CGGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGTT
** * * *
31288 CAG-AC-GGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
31351 GTGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGTT
* * **
31381 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
31446 GTGCGGGAGTGCCGCACAGAACCGA
66 GTGCGGGAGTGCCGCACAGAACCGA
31471 CGCTGGGTGC
Statistics
Matches: 211, Mismatches: 52, Indels: 33
0.71 0.18 0.11
Matches are distributed among these distances:
92 4 0.02
93 39 0.18
94 28 0.13
95 98 0.46
96 32 0.15
97 5 0.02
98 5 0.02
ACGTcount: A:0.18, C:0.34, G:0.35, T:0.13
Consensus pattern (95 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
GTGCGGGAGTGCCGCACAGAACCGAGAGTT
Found at i:39603 original size:33 final size:31
Alignment explanation
Indices: 39566--39653 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
39556 GCGTGAGCCC
*
39566 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGC-GGT-GCCT
* ** *
39599 CGGTCACCATCGGCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGTGCCT
*
39630 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
39654 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 23 0.50
32 3 0.07
33 20 0.43
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAAACCCAGGCGGTGCCT
Found at i:39734 original size:30 final size:31
Alignment explanation
Indices: 39698--39821 Score: 152
Period size: 30 Copynumber: 4.1 Consensus size: 31
39688 GTGCGTGAGG
* *
39698 CTCGTCACCATCGGC-AACCCAGGCGGTGGC
1 CTCGTCACCATCGGCAAACCCAGACGGTGGT
39728 CTCGTCACCATCGGCAAACCCAGACGGT-GT
1 CTCGTCACCATCGGCAAACCCAGACGGTGGT
39758 CTCGGTCACCATC-GCAAACCCAGAC-G-GGT
1 CTC-GTCACCATCGGCAAACCCAGACGGTGGT
* *
39787 CTCGTCACCATCGGCAACCCCCGACGGGTGG-
1 CTCGTCACCATCGGCAAACCCAGAC-GGTGGT
39818 CTCG
1 CTCG
39822 GCAACCCCAG
Statistics
Matches: 83, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
28 9 0.11
29 16 0.19
30 31 0.37
31 25 0.30
32 2 0.02
ACGTcount: A:0.19, C:0.40, G:0.27, T:0.15
Consensus pattern (31 bp):
CTCGTCACCATCGGCAAACCCAGACGGTGGT
Found at i:39803 original size:59 final size:62
Alignment explanation
Indices: 39696--39822 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 62
39686 TGGTGCGTGA
*
39696 GGCTC-GTCACCATCGGCAACCCAGGCGGTGGCCTCGTCACCATCGGCAAACCCAGAC-GGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGT
* * * *
39756 GTCTCGGTCACCATC-GCAAACCCAGAC-G-GGTCTCGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGT
39816 GGCTCGG
1 GGCTCGG
39823 CAACCCCAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
59 25 0.43
60 16 0.28
61 17 0.29
ACGTcount: A:0.19, C:0.39, G:0.28, T:0.14
Consensus pattern (62 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGTGGCCTCGTCACCATCGGCAAACCCAGACGGGT
Found at i:39967 original size:62 final size:63
Alignment explanation
Indices: 39869--39996 Score: 249
Period size: 62 Copynumber: 2.0 Consensus size: 63
39859 GCCGAGAGTT
39869 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
39932 GGGTGCGGGG-CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
39994 GGG
1 GGG
39997 CGGGAGTGCC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 55 0.85
63 10 0.15
ACGTcount: A:0.14, C:0.41, G:0.35, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:40075 original size:186 final size:189
Alignment explanation
Indices: 39880--40240 Score: 488
Period size: 186 Copynumber: 1.9 Consensus size: 189
39870 GGTGCGGGGT
* * * ** *
39880 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG-CAACC-CCAGGC-CA-CGGGTGCGGG
1 CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTC-ACCACC-GGCAAACCCAG-AC-GG
39941 GCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-GG-GCGGGAGT
62 GCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
*
40004 GCCGCACAGAACCGAGCGTT-GGTGCGTGAGG-CTC-GTCACCATCGGCAATCCCAGGCGGGTGG
127 GCCGCACAGAACCGAGAGTTGGGTGCG-G-GGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGG
* * * * *
40066 CCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCGGTCACCATCGGCAAACCCAGACGGGTCT
1 CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCACCGGCAAACCCAGACGGGCCT
40131 CGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
66 CGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
*
40196 CACAGAGCCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCGGCAA
131 CACAGAACCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCGGCAA
40241 CACCCGACGG
Statistics
Matches: 153, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
186 93 0.61
187 8 0.05
188 32 0.21
189 20 0.13
ACGTcount: A:0.17, C:0.37, G:0.34, T:0.12
Consensus pattern (189 bp):
CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCACCGGCAAACCCAGACGGGCCT
CGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCG
CACAGAACCGAGAGTTGGGTGCGGGGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGG
Found at i:40108 original size:32 final size:32
Alignment explanation
Indices: 40038--40165 Score: 170
Period size: 32 Copynumber: 4.0 Consensus size: 32
40028 CGTGAGGCTC
* *
40038 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGT-GCCTCG
* * *
40071 GTCACCATTGGCAAAGCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGCCTCG
40103 GTCACCATCGGCAAACCCAGACGGGT--CTCG
1 GTCACCATCGGCAAACCCAGACGGGTGCCTCG
* *
40133 GTCACCATCGGCAACCCCCGACGGGTGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGCCTCG
40165 G
1 G
40166 CAACCCCAGG
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
30 28 0.33
32 34 0.40
33 22 0.26
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.15
Consensus pattern (32 bp):
GTCACCATCGGCAAACCCAGACGGGTGCCTCG
Found at i:40133 original size:30 final size:30
Alignment explanation
Indices: 40038--40158 Score: 143
Period size: 30 Copynumber: 3.9 Consensus size: 30
40028 CGTGAGGCTC
* *
40038 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGT---CTCG
* *
40071 GTCACCATTGGCAAAGCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGAC-GG-GTCTCG
40103 GTCACCATCGGCAAACCCAGACGGGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTCTCG
* *
40133 GTCACCATCGGCAACCCCCGACGGGT
1 GTCACCATCGGCAAACCCAGACGGGT
40159 GCCTCGGCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
30 30 0.38
31 2 0.03
32 24 0.31
33 18 0.23
34 2 0.03
35 2 0.03
ACGTcount: A:0.20, C:0.36, G:0.30, T:0.15
Consensus pattern (30 bp):
GTCACCATCGGCAAACCCAGACGGGTCTCG
Found at i:40158 original size:62 final size:63
Alignment explanation
Indices: 40038--40165 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 63
40028 CGTGAGGCTC
* * * * *
40038 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGT-G-CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCG
* *
40103 GTCACCATCGGCAAACCCAGACGGGT-CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCG
40165 G
1 G
40166 CAACCCCAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
62 32 0.57
65 24 0.43
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.15
Consensus pattern (63 bp):
GTCACCATCGGCAAACCCAGACGGGTGCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCG
Found at i:40235 original size:94 final size:94
Alignment explanation
Indices: 39932--40313 Score: 336
Period size: 94 Copynumber: 4.1 Consensus size: 94
39922 CCCAGGCCAC
39932 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-GG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
*
39996 -GCGGGAGTGCCGCACAGAACCGAGCG-T
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * *** *
40023 TGGTGCGTGAGG-CTC-GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAA
1 GGGTGCG-G-GGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACCCCAGGCCA
* *** * * * * * *
40085 AGCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACC
62 CGGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCT
** * *
40120 CAG-AC-GGGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
* *
40183 TGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
* * **
40212 GGGTGCGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
*
40277 TGCGGGAGTGCCGCACAGAACCGAGCGCT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
40306 GGGTGCGG
1 GGGTGCGG
40314 CAGCCTCGCA
Statistics
Matches: 221, Mismatches: 50, Indels: 37
0.72 0.16 0.12
Matches are distributed among these distances:
91 33 0.15
92 24 0.11
93 14 0.06
94 110 0.50
95 30 0.14
96 5 0.02
97 5 0.02
ACGTcount: A:0.17, C:0.35, G:0.36, T:0.13
Consensus pattern (94 bp):
GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
TGCGGGAGTGCCGCACAGAACCGAGAGCT
Done.