Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007651.1 Hibiscus syriacus cultivar Beakdansim tig00024910_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: 41427
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.23
Found at i:292 original size:32 final size:33
Alignment explanation
Indices: 216--300 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
206 GTGTGCGTGC
* * *
216 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
249 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
281 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
301 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:456 original size:30 final size:31
Alignment explanation
Indices: 385--474 Score: 114
Period size: 33 Copynumber: 2.9 Consensus size: 31
375 GTGTGCGTGA
* *
385 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCA--CGGGTG
418 GCCTCGGTCACCATCGGCAAACCCACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCACGGGTG
*
448 GTCTCGGTCACCATCGGC-AACCC-CGGG
1 GCCTCGGTCACCATCGGCAAACCCACGGG
475 CCATTGGTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
28 4 0.07
29 5 0.09
30 17 0.31
31 5 0.09
33 23 0.43
ACGTcount: A:0.18, C:0.38, G:0.30, T:0.14
Consensus pattern (31 bp):
GCCTCGGTCACCATCGGCAAACCCACGGGTG
Found at i:625 original size:31 final size:32
Alignment explanation
Indices: 552--739 Score: 166
Period size: 31 Copynumber: 5.6 Consensus size: 32
542 TTGTGCGTGA
*
552 GCCTCGGTCACCATCGGCAATCCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
584 GGCCTCGGTCACCATCGGCAAACCCAGAC-GGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
* * * *
616 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGGA
1 GCCTCGGTCACCATCGGCAA--AC---CCA---G-GCGGGT
**
657 GCCTCGGTCACCATCGGCAGTCCCAGGC-GGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
688 GGCCTC-GTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
720 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
740 CCCCGGGCCA
Statistics
Matches: 126, Mismatches: 16, Indels: 27
0.75 0.09 0.16
Matches are distributed among these distances:
31 43 0.34
32 27 0.21
33 28 0.22
36 6 0.05
39 2 0.02
40 1 0.01
41 19 0.15
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
Found at i:702 original size:168 final size:170
Alignment explanation
Indices: 81--657 Score: 1006
Period size: 169 Copynumber: 3.4 Consensus size: 170
71 ACGTGTGCGT
**
81 GCCTCGGTCACCATCGGCAAAAACAGAC-GGTGTCTC-GTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
144 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
209 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
249 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
313 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
378 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
418 GCCTCGGTCACCATCGGCAAACCC--ACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
481 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
545 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
585 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
649 GTGCGGGAG
66 GTGCGGGAG
658 CCTCGGTCAC
Statistics
Matches: 391, Mismatches: 13, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
167 98 0.25
168 132 0.34
169 143 0.37
170 18 0.05
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:743 original size:104 final size:105
Alignment explanation
Indices: 544--761 Score: 386
Period size: 104 Copynumber: 2.1 Consensus size: 105
534 CAGGCCGCTT
*
544 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
609 AGACGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
649 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGC-GGTGGCCTC-GTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
712 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
753 GTGCGGGAG
1 GTGCGGGAG
762 TGCCGCACAG
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
103 22 0.20
104 53 0.49
105 34 0.31
ACGTcount: A:0.17, C:0.35, G:0.33, T:0.16
Consensus pattern (105 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:1142 original size:11 final size:11
Alignment explanation
Indices: 1126--1157 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1116 TTCCCGTGGT
1126 GCTCCGGCGAC
1 GCTCCGGCGAC
*
1137 GCTCCGGCGAT
1 GCTCCGGCGAC
1148 GCTCCGGCGA
1 GCTCCGGCGA
1158 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:9222 original size:32 final size:33
Alignment explanation
Indices: 9146--9230 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
9136 GTGTGCGTGC
* * *
9146 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
9179 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
9211 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
9231 CCCCGACCAT
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:9360 original size:32 final size:32
Alignment explanation
Indices: 9313--9396 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
9303 GTGTGCGTGA
* *
9313 GCCTCGGTCACCATCGGCAATCCAAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
9345 GGCCTC-GTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
9377 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
9397 CCCCGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
31 4 0.09
32 37 0.80
33 5 0.11
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:9522 original size:33 final size:33
Alignment explanation
Indices: 9480--9668 Score: 179
Period size: 33 Copynumber: 5.6 Consensus size: 33
9470 TTGTGCGTGA
*
9480 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
9513 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
9544 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
9584 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
9618 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
9649 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
9669 CCCCGGGCCA
Statistics
Matches: 128, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
31 41 0.32
32 7 0.05
33 51 0.40
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:9531 original size:168 final size:168
Alignment explanation
Indices: 9011--9585 Score: 980
Period size: 167 Copynumber: 3.4 Consensus size: 168
9001 ACGTGTGCGT
**
9011 GCCTCGGTCACCATCGGCAAAAACAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
9076 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGTCACCATCAGGCCCCCGTGTG
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGTCACCATCAGGCCCCCGTGTG
* *
9141 CGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
9179 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GACCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
9243 GTGC-GGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGTCACCATCAGGCCCCCGTGT
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGTCACCATCAGGCCCCCGTGT
9307 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
130 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
9346 GCCTC-GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
9410 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCA-G-CCGCTTG
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTC-GTCACCATCAGGCCCCCGTG
*
9473 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
129 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
9513 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
9578 TGCGGGAG
66 TGCGGGAG
9586 CCTCGGTCAC
Statistics
Matches: 387, Mismatches: 15, Indels: 11
0.94 0.04 0.03
Matches are distributed among these distances:
166 50 0.13
167 204 0.53
168 96 0.25
169 37 0.10
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (168 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGG
TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGTCACCATCAGGCCCCCGTGTG
CGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:9552 original size:64 final size:66
Alignment explanation
Indices: 9480--9668 Score: 179
Period size: 64 Copynumber: 2.8 Consensus size: 66
9470 TTGTGCGTGA
*
9480 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
9544 -
66 G
* * * * * **
9544 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGGAGCCTCGGTCACCATCGGCAGTCCC
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG-GCCTCGGTCACCATCGGCAAACCC
*
9609 AGGCGGGTG
58 AGACGGGTG
* *
9618 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
9669 CCCCGGGCCA
Statistics
Matches: 99, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
64 41 0.41
65 1 0.01
66 1 0.01
67 1 0.01
69 1 0.01
70 1 0.01
71 2 0.02
72 25 0.25
73 4 0.04
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:9595 original size:105 final size:105
Alignment explanation
Indices: 9472--9690 Score: 411
Period size: 105 Copynumber: 2.1 Consensus size: 105
9462 TCAGCCGCTT
*
9472 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
9537 AGACGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
9577 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
9642 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
9682 GTGCGGGAG
1 GTGCGGGAG
9691 TGCCGCACAG
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 111 1.00
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (105 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:10067 original size:11 final size:11
Alignment explanation
Indices: 10053--10084 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
10043 TCCCGGTGGT
10053 GCTCCGGCGAC
1 GCTCCGGCGAC
*
10064 GCTCCGGCGAT
1 GCTCCGGCGAC
10075 GCTCCGGCGA
1 GCTCCGGCGA
10085 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:27285 original size:32 final size:33
Alignment explanation
Indices: 27209--27293 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
27199 GTGTGCGTGC
* * *
27209 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
27242 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
27274 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
27294 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:27355 original size:169 final size:170
Alignment explanation
Indices: 27072--27653 Score: 1051
Period size: 169 Copynumber: 3.4 Consensus size: 170
27062 ACGTGTGCGT
**
27072 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
27137 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
27202 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
27242 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
27306 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
27371 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
27411 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
27476 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
27540 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
27580 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
27645 GTGCGGGAG
66 GTGCGGGAG
27654 CCTCGGTCAC
Statistics
Matches: 398, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
169 282 0.71
170 116 0.29
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:27454 original size:32 final size:33
Alignment explanation
Indices: 27378--27462 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
27368 GTGTGCGTGA
* *
27378 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
27411 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
27443 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
27463 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:27589 original size:33 final size:33
Alignment explanation
Indices: 27547--27737 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
27537 TTGTGCGTGA
*
27547 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
27580 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
27612 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
27652 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
27686 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
27718 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
27738 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:27621 original size:65 final size:66
Alignment explanation
Indices: 27547--27737 Score: 197
Period size: 65 Copynumber: 2.8 Consensus size: 66
27537 TTGTGCGTGA
*
27547 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
27612 -
66 G
* * * * * **
27612 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGGAGCCTCGGTCACCATCGGCAGTCCC
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG-GCCTCGGTCACCATCGGCAAACCC
*
27677 AGGCGGGTG
58 AGACGGGTG
* *
27686 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
27738 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:27664 original size:106 final size:106
Alignment explanation
Indices: 27539--27759 Score: 415
Period size: 106 Copynumber: 2.1 Consensus size: 106
27529 CAGGCCGCTT
*
27539 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
27604 AGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
27645 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
27710 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
27751 GTGCGGGAG
1 GTGCGGGAG
27760 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:28142 original size:11 final size:11
Alignment explanation
Indices: 28128--28159 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
28118 TCCCGGTGGT
28128 GCTCCGGCGAC
1 GCTCCGGCGAC
*
28139 GCTCCGGCGAT
1 GCTCCGGCGAC
28150 GCTCCGGCGA
1 GCTCCGGCGA
28160 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:36298 original size:32 final size:33
Alignment explanation
Indices: 36222--36306 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
36212 GTGTGCGTGC
* * *
36222 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
36255 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
36287 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
36307 CCCCGACCAT
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:36369 original size:169 final size:170
Alignment explanation
Indices: 36085--36666 Score: 1042
Period size: 169 Copynumber: 3.4 Consensus size: 170
36075 ACGTGTGCGT
**
36085 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
36150 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
36215 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
36255 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GACCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
36319 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
36384 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
36424 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
36489 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
36553 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
36593 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
36658 GTGCGGGAG
66 GTGCGGGAG
36667 CCTCGGTCAC
Statistics
Matches: 396, Mismatches: 15, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
169 281 0.71
170 115 0.29
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:36467 original size:32 final size:33
Alignment explanation
Indices: 36391--36475 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
36381 GTGTGCGTGA
* *
36391 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
36424 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
36456 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
36476 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:36602 original size:33 final size:33
Alignment explanation
Indices: 36560--36749 Score: 188
Period size: 33 Copynumber: 5.6 Consensus size: 33
36550 TTGTGCGTGA
*
36560 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
36593 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
36625 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
36665 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
36699 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
36730 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
36750 CCCCGGGCCA
Statistics
Matches: 130, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
31 19 0.15
32 25 0.19
33 56 0.43
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:36677 original size:106 final size:105
Alignment explanation
Indices: 36552--36771 Score: 404
Period size: 106 Copynumber: 2.1 Consensus size: 105
36542 CAGGCCGCTT
*
36552 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
36617 AGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
36658 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
36723 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
36763 GTGCGGGAG
1 GTGCGGGAG
36772 TGCCGCACAG
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
105 44 0.40
106 67 0.60
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (105 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:37155 original size:11 final size:11
Alignment explanation
Indices: 37141--37172 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
37131 TCCCGGTGGT
37141 GCTCCGGCGAC
1 GCTCCGGCGAC
*
37152 GCTCCGGCGAT
1 GCTCCGGCGAC
37163 GCTCCGGCGA
1 GCTCCGGCGA
37173 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.