Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016601.1 Corchorus olitorius cultivar O-4 contig16634, 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: 13601
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30


Found at i:161 original size:18 final size:18

Alignment explanation


    Indices: 135--170  Score: 54
    Period size: 18  Copynumber: 2.0  Consensus size: 18

        125 TATCAACTCC

                *             
        135 TCACCAAACCAAGAAGAT
          1 TCACAAAACCAAGAAGAT

                         *    
        153 TCACAAAACCAAGGAGAT
          1 TCACAAAACCAAGAAGAT

        171 AGTTTATCTG


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.50, C:0.25, G:0.14, T:0.11


Consensus pattern (18 bp):   
TCACAAAACCAAGAAGAT

Found at i:1521 original size:31 final size:31

Alignment explanation


    Indices: 1479--1551  Score: 92
    Period size: 31  Copynumber: 2.4  Consensus size: 31

       1469 CGTTATTGAT

                  *               * *      
       1479 TGGACTCAATTGACCCAATCTTGTTAGTAGA
          1 TGGACTAAATTGACCCAATCTTATGAGTAGA

                               *         * 
       1510 TGGACTAAATTGACCCAATTTTATGAGTATA
          1 TGGACTAAATTGACCCAATCTTATGAGTAGA

              *        
       1541 TGTACTAAATT
          1 TGGACTAAATT

       1552 AATCGCCTTT


Statistics
Matches: 36,  Mismatches: 6, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  31   36  1.00

ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36


Consensus pattern (31 bp):   
TGGACTAAATTGACCCAATCTTATGAGTAGA
Done.