Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007548.1 Hibiscus syriacus cultivar Beakdansim tig00021165_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: 60634
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Found at i:401 original size:32 final size:33
Alignment explanation
Indices: 320--409 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
310 GCCCCCGTGT
* *
320 GGTGAGCCTCGGTCACCATCGGCAATCCAAGGCG
1 GGTG-GCCTCGGTCACCATCGGCAAACCAAGACG
*
354 GGTGGCCTCGGTCACCATCGGCAAACCCAGACG
1 GGTGGCCTCGGTCACCATCGGCAAACCAAGACG
*
387 GGT-GTCTCGGTCACCATCGGCAA
1 GGTGGCCTCGGTCACCATCGGCAA
410 CCCCGGGCCA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 19 0.37
33 29 0.56
34 4 0.08
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.16
Consensus pattern (33 bp):
GGTGGCCTCGGTCACCATCGGCAAACCAAGACG
Found at i:495 original size:168 final size:169
Alignment explanation
Indices: 31--598 Score: 928
Period size: 163 Copynumber: 3.4 Consensus size: 169
21 ACGTGTGCGT
**
31 GCCTCGGTCACCATC-GCAAAAACAGACGGTGTCTCGGTCACCATC-GCAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
*
94 TGC-GGAGTGCCGCACAGAACCGATCGTTGGTGCGGGAGCCTC-GTCACCATCAGGCCCCCGTGT
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
* *
157 GC-TGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
195 GCCTC-GTCACCATCGGCAAACCCA-ACGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
* *
257 T--GGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
320 G-GTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
358 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
423 GTGCGGGAGTGCCGCACAG-ACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
486 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
130 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
526 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
591 TGCGGGAG
66 TGCGGGAG
599 CCTCGGTCAC
Statistics
Matches: 379, Mismatches: 13, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
162 36 0.09
163 100 0.26
164 39 0.10
165 2 0.01
166 27 0.07
167 61 0.16
168 99 0.26
169 15 0.04
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (169 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:535 original size:33 final size:33
Alignment explanation
Indices: 493--682 Score: 188
Period size: 33 Copynumber: 5.6 Consensus size: 33
483 TTGTGCGTGA
*
493 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
526 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
557 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
597 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
631 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
663 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
683 CCCCGGCCAT
Statistics
Matches: 129, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
31 22 0.17
32 23 0.18
33 55 0.43
34 2 0.02
35 1 0.01
36 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:608 original size:105 final size:105
Alignment explanation
Indices: 485--703 Score: 395
Period size: 105 Copynumber: 2.1 Consensus size: 105
475 CAGGCCGCTT
*
485 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
550 AGAC-GGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
*
590 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
655 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTG
695 GTGCGGGAG
1 GTGCGGGAG
704 TGCCGCACAG
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
105 84 0.76
106 26 0.24
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (105 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTG
Found at i:1081 original size:11 final size:11
Alignment explanation
Indices: 1067--1098 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1057 TCCCGGTGGT
1067 GCTCCGGCGAC
1 GCTCCGGCGAC
*
1078 GCTCCGGCGAT
1 GCTCCGGCGAC
1089 GCTCCGGCGA
1 GCTCCGGCGA
1099 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:9190 original size:166 final size:167
Alignment explanation
Indices: 8916--9487 Score: 949
Period size: 166 Copynumber: 3.4 Consensus size: 167
8906 ACGTGTGCGT
**
8916 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
8981 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
9046 CGTGCGCCCTCGGTCACCCATCGGTAATCCAAGGCGGT-
131 CGTGAG-CCTCGGTCA-CCATCGGCAATCCAAGGCGGTG
9084 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTC-GTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
9147 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCC--G
9212 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGTG
129 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGTG
9251 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* **
9316 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGGCCGCTTGT
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCC-CCCGT
*
9381 GCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGC-GGTG
*
9420 GCCTCGGTCACCATCGGCAAACCC--A-GGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
9482 GTGCGG
66 GTGCGG
9488 AGCCTCGGTC
Statistics
Matches: 384, Mismatches: 13, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
166 130 0.34
167 65 0.17
168 96 0.25
169 92 0.24
170 1 0.00
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.16
Consensus pattern (167 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGTG
Found at i:9260 original size:32 final size:32
Alignment explanation
Indices: 9219--9302 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
9209 GTGTGCGTGA
* *
9219 GCCTCGGTCACCATCGGCAATCCAAGGC-GGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
9250 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
9283 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
9303 CCCCGGGCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 44 0.94
33 3 0.06
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:9429 original size:33 final size:33
Alignment explanation
Indices: 9387--9573 Score: 186
Period size: 33 Copynumber: 5.6 Consensus size: 33
9377 TTGTGCGTGA
*
9387 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
9420 GCCTCGGTCACCATCGGCAAACCCA---GGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
9449 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C---GG-G-TG
**
9488 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
9522 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
9554 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
9574 CCCCGGGCCA
Statistics
Matches: 127, Mismatches: 16, Indels: 23
0.77 0.10 0.14
Matches are distributed among these distances:
29 21 0.17
30 4 0.03
32 19 0.15
33 53 0.42
34 1 0.01
35 1 0.01
36 4 0.03
37 1 0.01
39 1 0.01
40 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:9624 original size:105 final size:104
Alignment explanation
Indices: 9413--9718 Score: 295
Period size: 105 Copynumber: 3.0 Consensus size: 104
9403 GCAATCCCAG
*
9413 GCGGGTGGCCTCGGTCACCATCGGCAAACCC-A-GGGTGTCTCGGTCACCATCGGTAACCCCGGG
1 GCGGGTGGCCTCGGTCACCATCGGCAAACCCGACGGGTGTCTCGGTCACCATCGGCAACCCCGGG
* ** ** * *
9476 CCATTGGTGC-GGAG-CCTCGGTCACCATC-GGCAGTCCCAG-
66 CCATTGGTGCGGGAGTAC-CGCACAGAACCGGGC-GT--CGGT
9515 GCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGG
1 GCGGGTGGCCTCGGTCACCATCGGCAAACCC-GACGGGTGTCTCGGTCACCATCGGCAACCCCGG
* *
9580 GCCATTGGTGCGGGAGTGCCGCACAGAACCGGGCGTTGGT
65 GCCATTGGTGCGGGAGTACCGCACAGAACCGGGCGTCGGT
* * *
9620 GCGGG-AGCCTCGGTCACCATCGGCAACCCCCGAC-GG-G--T--G---CC-TCGGCAACCCCAG
1 GCGGGTGGCCTCGGTCACCATCGGCAA-ACCCGACGGGTGTCTCGGTCACCATCGGCAACCCCGG
* *
9674 GCCATTGGTGCGGGAGTACCGCACAGAACCGAGCGCTGGGT
65 GCCATTGGTGCGGGAGTACCGCACAGAACCGGGCG-TCGGT
9715 GCGG
1 GCGG
9719 AGCCTCGCAC
Statistics
Matches: 180, Mismatches: 15, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
94 45 0.25
95 10 0.06
98 1 0.01
100 1 0.01
102 32 0.18
103 2 0.01
104 25 0.14
105 48 0.27
106 12 0.07
107 4 0.02
ACGTcount: A:0.16, C:0.34, G:0.35, T:0.14
Consensus pattern (104 bp):
GCGGGTGGCCTCGGTCACCATCGGCAAACCCGACGGGTGTCTCGGTCACCATCGGCAACCCCGGG
CCATTGGTGCGGGAGTACCGCACAGAACCGGGCGTCGGT
Found at i:18013 original size:32 final size:33
Alignment explanation
Indices: 17937--18021 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
17927 CCGTGCGTGC
* * *
17937 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
17970 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
18002 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
18022 CCCCGGCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:18164 original size:166 final size:168
Alignment explanation
Indices: 17803--18376 Score: 989
Period size: 167 Copynumber: 3.4 Consensus size: 168
17793 ACGTGTGCGT
**
17803 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
17868 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGCCCCC-GTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGCCCCCTGTG
* *
17932 CGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
17970 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
18034 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTC-GTCACCATCAGCCCCCGTGT
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGCCCCC-TGT
18098 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
18137 GCCTCGGTCACCATCGGCAAA-CCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
18200 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGGCCGCTTGT
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCA-GCCCCCTGT
*
18265 GCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
18304 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATC-GTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
18368 GTGCGGGAG
66 GTGCGGGAG
18377 CCTCGGTCAC
Statistics
Matches: 388, Mismatches: 13, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
165 16 0.04
166 133 0.34
167 193 0.50
168 46 0.12
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (168 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGCCCCCTGTG
CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:18177 original size:31 final size:33
Alignment explanation
Indices: 18104--18187 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
18094 GTGTGCGTGA
* *
18104 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
18137 GCCTCGGTCACCATCGGCAAACC-AGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
18168 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
18188 CCCCGGCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
31 19 0.40
32 7 0.15
33 22 0.46
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:18313 original size:33 final size:33
Alignment explanation
Indices: 18271--18459 Score: 179
Period size: 33 Copynumber: 5.6 Consensus size: 33
18261 TTGTGCGTGA
*
18271 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
18304 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
18336 GTCTCGGTCACCATC-GTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
18375 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
18409 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
18440 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
18460 CCCCGGCCAT
Statistics
Matches: 128, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
31 26 0.20
32 18 0.14
33 55 0.43
34 2 0.02
35 1 0.01
36 2 0.02
37 1 0.01
38 1 0.01
40 15 0.12
41 7 0.05
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:18391 original size:105 final size:104
Alignment explanation
Indices: 18263--18482 Score: 388
Period size: 105 Copynumber: 2.1 Consensus size: 104
18253 CAGGCCGCTT
*
18263 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
18328 AGACGGGTGTCTCGGTCACCATC-GTAACCCCGGGCCATTG
66 AGAC-GGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
*
18368 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
18433 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTG
66 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTG
18472 GTGCGGGAGCC
1 GTGCGGGAGCC
18483 GCACAGAACC
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
104 37 0.33
105 74 0.67
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (104 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTG
Found at i:18859 original size:11 final size:11
Alignment explanation
Indices: 18843--18874 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
18833 TTCCCGTGGT
18843 GCTCCGGCGAC
1 GCTCCGGCGAC
*
18854 GCTCCGGCGAT
1 GCTCCGGCGAC
18865 GCTCCGGCGA
1 GCTCCGGCGA
18875 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:26920 original size:32 final size:33
Alignment explanation
Indices: 26844--26928 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
26834 GTGTGCGTGC
* * *
26844 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
26877 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
26909 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
26929 CCCCGGCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:27046 original size:167 final size:168
Alignment explanation
Indices: 26712--27283 Score: 962
Period size: 167 Copynumber: 3.4 Consensus size: 168
26702 ACGTGTGCGT
**
26712 GCCTCGGTCACCATCGGCAAAAACAGACGG-GTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
26776 TGC-GGAGTGCCGCACAGAACCGAGCGTTGGTGC-GGAGCCTC-GTCACCATCAGGCCCCCGTGT
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGG-CCCCGTGT
* *
26838 GCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
26877 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
26941 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGT
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGT
27006 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGC-GGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
27044 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
* * *
27109 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGGCCGCTTGTG
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGTG
*
27174 CGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
27212 GCCTCGGTCACCATCGGCAAACCC--ACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
27275 GTGCGGGAG
65 GTGCGGGAG
27284 CCTCGGTCAC
Statistics
Matches: 386, Mismatches: 13, Indels: 14
0.93 0.03 0.03
Matches are distributed among these distances:
165 26 0.07
166 43 0.11
167 229 0.59
168 76 0.20
169 12 0.03
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (168 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCGTGTG
CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:27084 original size:31 final size:32
Alignment explanation
Indices: 27012--27094 Score: 123
Period size: 32 Copynumber: 2.6 Consensus size: 32
27002 GTGTGCGTGA
* *
27012 GCCTCGGTCACCATCGGCAATCCAAGGCGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGTG
*
27044 GCCTCGGTCACCATCGGCAAACCCAGACGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGTG
*
27075 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
27095 CCCCGGGCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 19 0.40
32 28 0.60
ACGTcount: A:0.20, C:0.36, G:0.28, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGTG
Found at i:27221 original size:33 final size:33
Alignment explanation
Indices: 27179--27366 Score: 179
Period size: 33 Copynumber: 5.6 Consensus size: 33
27169 TTGTGCGTGA
*
27179 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
27212 GCCTCGGTCACCATCGGCAAACCCA--CGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
27242 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
27282 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
27316 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
27347 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
27367 CCCCGGGCCA
Statistics
Matches: 128, Mismatches: 16, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
30 21 0.16
31 24 0.19
32 3 0.02
33 50 0.39
34 2 0.02
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:27293 original size:104 final size:104
Alignment explanation
Indices: 27171--27388 Score: 384
Period size: 104 Copynumber: 2.1 Consensus size: 104
27161 CAGGCCGCTT
*
27171 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
27236 ACG-GGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 A-GAGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
27275 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
27340 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGA-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
27380 GTGCGGGAG
1 GTGCGGGAG
27389 TGCCGCACAG
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
103 1 0.01
104 64 0.59
105 44 0.40
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (104 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGAGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:27770 original size:11 final size:11
Alignment explanation
Indices: 27756--27787 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
27746 TCCCGGTGGT
27756 GCTCCGGCGAC
1 GCTCCGGCGAC
*
27767 GCTCCGGCGAT
1 GCTCCGGCGAC
27778 GCTCCGGCGA
1 GCTCCGGCGA
27788 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:35840 original size:32 final size:33
Alignment explanation
Indices: 35764--35848 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
35754 GTGTGCGTGC
* * *
35764 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
35797 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
35829 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
35849 CCCCGGCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:35963 original size:168 final size:170
Alignment explanation
Indices: 35628--36205 Score: 1015
Period size: 168 Copynumber: 3.4 Consensus size: 170
35618 ACGTGTGCGT
**
35628 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
35693 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTC-GTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
35757 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
35797 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
35861 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
35926 TGCGTGAGCCTC-GTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
35965 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
36030 GTGCGGGAGTGCCGCACAGAACCGAGCGTT-GTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
36093 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
36133 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
36197 GTGCGGGAG
66 GTGCGGGAG
36206 CCTCGGTCAC
Statistics
Matches: 393, Mismatches: 13, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
167 34 0.09
168 238 0.61
169 121 0.31
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:35978 original size:33 final size:32
Alignment explanation
Indices: 35933--36016 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
35923 GTGTGCGTGA
* *
35933 GCCTC-GTCACCATCGGCAATCCAAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
35964 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
35997 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
36017 CCCCGGGCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 24 0.51
33 23 0.49
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:36142 original size:33 final size:32
Alignment explanation
Indices: 36100--36286 Score: 182
Period size: 33 Copynumber: 5.6 Consensus size: 32
36090 TTGTGCGTGA
*
36100 GCCTCGGTCACCATCGGCAATCCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
36132 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
* * * *
36165 GTCTCGGTCACCATCGGTAACCCCGGCCATTGGTGCGGGA
1 GCCTCGGTCACCATCGGCAA--AC--CCA---G-GCGGGT
**
36205 GCCTCGGTCACCATCGGCAGTCCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
36237 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
36270 ---TCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
36287 CCCCGGGCCA
Statistics
Matches: 130, Mismatches: 15, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
29 17 0.13
32 23 0.18
33 60 0.46
34 1 0.01
36 6 0.05
38 1 0.01
39 1 0.01
40 21 0.16
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
Found at i:36215 original size:105 final size:103
Alignment explanation
Indices: 36092--36308 Score: 373
Period size: 105 Copynumber: 2.1 Consensus size: 103
36082 CAGGCCGCTT
*
36092 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
36157 AGACGGGTGTCTCGGTCACCATCGGTAACCCC-GGCCATTG
66 AGAC-GG-GT-TCGGTCACCATCGGCAACCCCGGGCCATTG
*
36197 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
36262 AGACGGGTTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTTCGGTCACCATCGGCAACCCCGGGCCATTG
36300 GTGCGGGAG
1 GTGCGGGAG
36309 TGCCGCACAG
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
102 20 0.19
103 19 0.18
104 2 0.02
105 67 0.62
ACGTcount: A:0.17, C:0.35, G:0.33, T:0.16
Consensus pattern (103 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:36409 original size:94 final size:99
Alignment explanation
Indices: 36238--36439 Score: 288
Period size: 94 Copynumber: 2.1 Consensus size: 99
36228 CAGGCGGGTG
*
36238 GCCTCGGTCACCATCGGCAAACCCAGACGGGTTCGGTCACCATCGGCAACCCCGGGCCATTGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTTC-G--ACCATCGGCAACCCCAGGCCATTGGTG
* * *
36303 CGGGAGTGCCGCACAGAACCGGGCG-TTGGTGCGGGA
63 CGGGAGTACCGCACAGAACCGAGCGCTGGGTGCGGGA
* *
36339 GCCTCGGTCACCATCGGCAACCCCCGACGGG-T-G-CC-TCGGCAACCCCAGGCCATTGGTGCGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTTCGACCATCGGCAACCCCAGGCCATTGGTGCGG
36400 GAGTACCGCACAGAACCGAGCGCTGGGTGCGGGA
66 GAGTACCGCACAGAACCGAGCGCTGGGTGCGGGA
36434 GCCTCG
1 GCCTCG
36440 CACAGCGTCG
Statistics
Matches: 94, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
94 45 0.48
95 18 0.19
98 1 0.01
100 1 0.01
101 29 0.31
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (99 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTTCGACCATCGGCAACCCCAGGCCATTGGTGCGG
GAGTACCGCACAGAACCGAGCGCTGGGTGCGGGA
Found at i:44765 original size:32 final size:33
Alignment explanation
Indices: 44689--44773 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
44679 CCGTGCGTGC
* * *
44689 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
44722 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
44754 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
44774 CCCCGGCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:44831 original size:167 final size:167
Alignment explanation
Indices: 44559--45127 Score: 974
Period size: 167 Copynumber: 3.4 Consensus size: 167
44549 CCACGTGCGT
44559 GCCTCGGTCACCATCGGCAA--C--ACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
44620 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGC
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGC
* *
44685 GTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 GTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
44722 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGC-AACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
44786 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
44851 CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
130 CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
44889 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGC-AACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* **
44954 GTGCGGGAGTGCCGCACAGAACC-AGCGTTGGTGCGGGAGTCTCGGTCACCATCAGGCCGCTTGT
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCC-CCCGT
*
45018 GC--GAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
129 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
45055 GCCTCGGTCACCATCGGCAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
45120 TGCGGGAG
66 TGCGGGAG
45128 CCTCGGTCAC
Statistics
Matches: 388, Mismatches: 11, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
163 18 0.05
164 2 0.01
165 54 0.14
166 53 0.14
167 196 0.51
168 65 0.17
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (167 bp):
GCCTCGGTCACCATCGGCAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGC
GTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:44932 original size:32 final size:33
Alignment explanation
Indices: 44856--44940 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
44846 CCGTGCGTGA
* *
44856 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
44889 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
44921 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
44941 CCCCGGGCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 19 0.40
33 29 0.60
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:45064 original size:33 final size:33
Alignment explanation
Indices: 45022--45211 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
45012 GCTTGTGCGA
45022 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
*
45055 GCCTCGGTCACCATCGGCAA-CCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
* * * * *
45086 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAATCCCAGG-C----G-G-GTG
*
45126 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
* *
45160 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
*
45192 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
45212 CCCCGGGCCA
Statistics
Matches: 131, Mismatches: 16, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
31 18 0.14
32 33 0.25
33 50 0.38
34 2 0.02
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.32, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
Found at i:45233 original size:106 final size:105
Alignment explanation
Indices: 45020--45233 Score: 401
Period size: 106 Copynumber: 2.0 Consensus size: 105
45010 CCGCTTGTGC
45020 GAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAACCCAGACGGG
1 GAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAACCCAGACGGG
*
45085 TGTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGG
66 TGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGG
*
45125 GAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGG
1 GAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGC-AACCCAGACGG
45190 GTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGG
65 GTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGG
45231 GAG
1 GAG
45234 TGCCGCACAG
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
105 52 0.49
106 54 0.51
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.15
Consensus pattern (105 bp):
GAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAACCCAGACGGG
TGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGG
Found at i:45616 original size:11 final size:11
Alignment explanation
Indices: 45602--45633 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
45592 TCCCGGTGGT
45602 GCTCCGGCGAC
1 GCTCCGGCGAC
*
45613 GCTCCGGCGAT
1 GCTCCGGCGAC
45624 GCTCCGGCGA
1 GCTCCGGCGA
45634 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:53720 original size:32 final size:33
Alignment explanation
Indices: 53644--53728 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
53634 GTGTGCGTGC
* * *
53644 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
53677 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
53709 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
53729 CCCCGGCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:53790 original size:169 final size:170
Alignment explanation
Indices: 53507--54087 Score: 1042
Period size: 169 Copynumber: 3.4 Consensus size: 170
53497 ACGTGTGCGT
**
53507 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
53572 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
53637 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
53677 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
53741 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
53806 TGCGTGAGCCTC-GTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
53845 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
53910 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
53974 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
54014 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
54079 GTGCGGGAG
66 GTGCGGGAG
54088 CCTCGGTCAC
Statistics
Matches: 396, Mismatches: 13, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
168 99 0.25
169 243 0.61
170 54 0.14
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:53858 original size:33 final size:32
Alignment explanation
Indices: 53813--53896 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
53803 GTGTGCGTGA
* *
53813 GCCTC-GTCACCATCGGCAATCCAAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
53844 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
53877 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
53897 CCCCGGGCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 24 0.51
33 23 0.49
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:54023 original size:33 final size:33
Alignment explanation
Indices: 53981--54171 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
53971 TTGTGCGTGA
*
53981 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
54014 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
54046 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
54086 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
54120 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
54152 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
54172 CCCCGGGCCA
Statistics
Matches: 131, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
32 41 0.31
33 60 0.46
34 2 0.02
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:54055 original size:65 final size:66
Alignment explanation
Indices: 53981--54171 Score: 197
Period size: 65 Copynumber: 2.8 Consensus size: 66
53971 TTGTGCGTGA
*
53981 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
54046 -
66 G
* * * * * **
54046 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGGAGCCTCGGTCACCATCGGCAGTCCC
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG-GCCTCGGTCACCATCGGCAAACCC
*
54111 AGGCGGGTG
58 AGACGGGTG
* *
54120 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
54172 CCCCGGGCCA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
65 41 0.41
66 1 0.01
67 1 0.01
68 1 0.01
69 1 0.01
70 1 0.01
71 1 0.01
72 2 0.02
73 30 0.30
74 22 0.22
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (66 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
G
Found at i:54098 original size:106 final size:106
Alignment explanation
Indices: 53973--54193 Score: 415
Period size: 106 Copynumber: 2.1 Consensus size: 106
53963 CAGGCCGCTT
*
53973 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
54038 AGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
54079 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
54144 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
54185 GTGCGGGAG
1 GTGCGGGAG
54194 TGCCGCACAG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 112 1.00
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.16
Consensus pattern (106 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:54576 original size:11 final size:11
Alignment explanation
Indices: 54562--54593 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
54552 TCCCGGTGGT
54562 GCTCCGGCGAC
1 GCTCCGGCGAC
*
54573 GCTCCGGCGAT
1 GCTCCGGCGAC
54584 GCTCCGGCGA
1 GCTCCGGCGA
54594 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Done.