Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007912.1 Corchorus capsularis cultivar CVL-1 contig07933, 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: 7956
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31


Found at i:5633 original size:21 final size:21

Alignment explanation


    Indices: 5607--5681  Score: 107
    Period size: 21  Copynumber: 3.6  Consensus size: 21

       5597 TAATCCTATG

                      *          
       5607 TTGGAGGTTTTTTATTTATAT
          1 TTGGAGGTTTCTTATTTATAT

                              *  
       5628 TTGGAGGTTTCTTATTTACA-
          1 TTGGAGGTTTCTTATTTATAT

                 *               
       5648 TTGGAAGTTTCTTATTTATAT
          1 TTGGAGGTTTCTTATTTATAT

                  *      
       5669 TTGGAGTTTTCTT
          1 TTGGAGGTTTCTT

       5682 TATAATTTGC


Statistics
Matches: 47,  Mismatches: 6, Indels: 2
        0.85            0.11        0.04

Matches are distributed among these distances:
  20   18  0.38
  21   29  0.62

ACGTcount: A:0.19, C:0.05, G:0.19, T:0.57


Consensus pattern (21 bp):   
TTGGAGGTTTCTTATTTATAT

Found at i:7783 original size:19 final size:18

Alignment explanation


    Indices: 7759--7794  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       7749 TGAAGATTTC

                               
       7759 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
       7778 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

       7795 ATTATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAT
Done.