Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016400.1 Corchorus olitorius cultivar O-4 contig16433, 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: 6339
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30


Found at i:1417 original size:13 final size:13

Alignment explanation


    Indices: 1399--1423  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       1389 GTGCCGTCAA

                         
       1399 ATCTGTCCACGTC
          1 ATCTGTCCACGTC

                        
       1412 ATCTGTCCACGT
          1 ATCTGTCCACGT

       1424 GGCTCAAAAA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32


Consensus pattern (13 bp):   
ATCTGTCCACGTC

Found at i:1485 original size:41 final size:42

Alignment explanation


    Indices: 1405--1488  Score: 136
    Period size: 41  Copynumber: 2.0  Consensus size: 42

       1395 TCAAATCTGT

                                                       
       1405 CCACGTCATCTGTCCACGTGGCTCAAAAAGCCACGTGGCCAAA
          1 CCACGTCATCTGTCCACGTGGC-CAAAAAGCCACGTGGCCAAA

                                                       
       1448 CCACGTCATCT-TCCCACGTGG-CAAAAAGCCACGTGGCCAAA
          1 CCACGTCATCTGT-CCACGTGGCCAAAAAGCCACGTGGCCAAA

       1489 ATATTTTTTC


Statistics
Matches: 40,  Mismatches: 0, Indels: 4
        0.91            0.00        0.09

Matches are distributed among these distances:
  41   20  0.50
  42    1  0.03
  43   19  0.47

ACGTcount: A:0.29, C:0.36, G:0.20, T:0.15


Consensus pattern (42 bp):   
CCACGTCATCTGTCCACGTGGCCAAAAAGCCACGTGGCCAAA
Done.