Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000685.1 Corchorus olitorius cultivar O-4 contig00685, 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, 769

Length: 1282
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36


Found at i:573 original size:10 final size:9

Alignment explanation


    Indices: 549--606  Score: 59
    Period size: 10  Copynumber: 6.4  Consensus size: 9

        539 ATTTCTTACC

                 *   
        549 CTTATCTTT
          1 CTTATTTTT

                     
        558 -TTATTTTT
          1 CTTATTTTT

                      
        566 CGTTATTTTT
          1 C-TTATTTTT

                      
        576 CTT-TTTCTT
          1 CTTATTT-TT

                     
        585 -TTATTTTT
          1 CTTATTTTT

                      
        593 CGTTATTTTT
          1 C-TTATTTTT

                
        603 CTTA
          1 CTTA

        607 GTTACTTTTA


Statistics
Matches: 42,  Mismatches: 1, Indels: 12
        0.76            0.02        0.22

Matches are distributed among these distances:
   8   14  0.33
   9   10  0.24
  10   18  0.43

ACGTcount: A:0.10, C:0.12, G:0.03, T:0.74


Consensus pattern (9 bp):   
CTTATTTTT

Found at i:588 original size:17 final size:16

Alignment explanation


    Indices: 555--593  Score: 51
    Period size: 16  Copynumber: 2.4  Consensus size: 16

        545 TACCCTTATC

                 *          
        555 TTTTTATTTTTCGTTA
          1 TTTTTCTTTTTCGTTA

                         *   
        571 TTTTTCTTTTTCTTTTA
          1 TTTTTCTTTTTC-GTTA

                  
        588 TTTTTC
          1 TTTTTC

        594 GTTATTTTTC


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  16   11  0.55
  17    9  0.45

ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79


Consensus pattern (16 bp):   
TTTTTCTTTTTCGTTA
Done.