Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008225.1 Hibiscus syriacus cultivar Beakdansim tig00110858_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: 1890193
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 10
Found at i:1883936 original size:47 final size:47
Alignment explanation
Indices: 1883864--1883959 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
1883854 GGTCCGAGTC
* * * *
1883864 ATGTTGATTCACTTTTGTTCTTTATTGGCTTGGATCTGTCACTTCAT
1 ATGTTGATTCACTTTTGTTCCTTATTGGCCTGGAACTGTCACTTAAT
* *
1883911 ATGTTGATTTACTTTTGTTCCTTATTGGCCTGGAACTGTCTCTTAAT
1 ATGTTGATTCACTTTTGTTCCTTATTGGCCTGGAACTGTCACTTAAT
1883958 AT
1 AT
1883960 TTTAGGTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (47 bp):
ATGTTGATTCACTTTTGTTCCTTATTGGCCTGGAACTGTCACTTAAT
Found at i:1884713 original size:25 final size:25
Alignment explanation
Indices: 1884680--1884728 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1884670 TTTTGGATTT
* *
1884680 CAAACTATTTGCGGGTTGATGCTTC
1 CAAAATATTAGCGGGTTGATGCTTC
*
1884705 CAAAATATTAGCTGGTTGATGCTT
1 CAAAATATTAGCGGGTTGATGCTT
1884729 ATTGATCCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (25 bp):
CAAAATATTAGCGGGTTGATGCTTC
Done.