Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01015650.1 Corchorus capsularis cultivar CVL-1 contig15671, 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: 7589
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Found at i:2166 original size:177 final size:177
Alignment explanation
Indices: 1870--2226 Score: 660
Period size: 177 Copynumber: 2.0 Consensus size: 177
1860 ACTTTCCTTG
1870 CCCCTCGACAGCTGACGAGGCAGAGTTTCCCATAAAAATTCTATCTAATTACACCAAGTCAATTC
1 CCCCTCGACAGCTGACGAGGCAGAGTTTCCCATAAAAATTCTATCTAATTACACCAAGTCAATTC
1935 CAAGGAAAGAATGGAGGGGTCACAATCGGTCCCACTTAAAATCCATACTCCTTAGACAGAATTTT
66 CAAGGAAAGAATGGAGGGGTCACAATCGGTCCCACTTAAAATCCATACTCCTTAGACAGAATTTT
* *
2000 TCTAGACATGTAATTGTTAACACATCGGTCCAATATGACAATTCCAA
131 CCTAGACATGTAATTGATAACACATCGGTCCAATATGACAATTCCAA
* *
2047 CCCCTCGACAGCTGACGAGGTAGAGTTTCCCATAAAACTTCTATCTAATTACACCAAGTCAATTC
1 CCCCTCGACAGCTGACGAGGCAGAGTTTCCCATAAAAATTCTATCTAATTACACCAAGTCAATTC
* *
2112 CCAGGAAAGAATGGAGGGTTCACAATCGGTCCCACTTAAAATCCATACTCCTTAGACAGAATTTT
66 CAAGGAAAGAATGGAGGGGTCACAATCGGTCCCACTTAAAATCCATACTCCTTAGACAGAATTTT
2177 CCTAGACATGTAATTGATAACACATCGGTCCAATATGACAATTCCAA
131 CCTAGACATGTAATTGATAACACATCGGTCCAATATGACAATTCCAA
2224 CCC
1 CCC
2227 ATAAGGTCAG
Statistics
Matches: 174, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
177 174 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (177 bp):
CCCCTCGACAGCTGACGAGGCAGAGTTTCCCATAAAAATTCTATCTAATTACACCAAGTCAATTC
CAAGGAAAGAATGGAGGGGTCACAATCGGTCCCACTTAAAATCCATACTCCTTAGACAGAATTTT
CCTAGACATGTAATTGATAACACATCGGTCCAATATGACAATTCCAA
Done.