Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009885.1 Corchorus olitorius cultivar O-4 contig09917, 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: 2941
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30


Found at i:498 original size:25 final size:25

Alignment explanation


    Indices: 468--517  Score: 84
    Period size: 25  Copynumber: 2.0  Consensus size: 25

        458 AAAAAAATTT

                                      
        468 TCTTTTTTTTTTTAT-GACGCAAAAA
          1 TCTTTTTTTTTTT-TCGACGCAAAAA

                                     
        493 TCTTTTTTTTTTTTCGACGCAAAAA
          1 TCTTTTTTTTTTTTCGACGCAAAAA

        518 CAAACAGATT


Statistics
Matches: 24,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  24    1  0.04
  25   23  0.96

ACGTcount: A:0.26, C:0.14, G:0.08, T:0.52


Consensus pattern (25 bp):   
TCTTTTTTTTTTTTCGACGCAAAAA

Found at i:558 original size:29 final size:29

Alignment explanation


    Indices: 489--558  Score: 72
    Period size: 29  Copynumber: 2.4  Consensus size: 29

        479 TTATGACGCA

                           *              
        489 AAAATCTTTTTTTTTTTTCGACGCAAAAAC
          1 AAAATC-TTTTTTTTCTTCGACGCAAAAAC

                  **                       
        519 AAACA-GATTTTTTTCTT-GACGCAAAAGAC
          1 AAA-ATCTTTTTTTTCTTCGACGCAAAA-AC

                       
        548 AAAATCTTTTT
          1 AAAATCTTTTT

        559 GTAAAAAAAA


Statistics
Matches: 32,  Mismatches: 5, Indels: 7
        0.73            0.11        0.16

Matches are distributed among these distances:
  28   10  0.31
  29   18  0.56
  30    3  0.09
  31    1  0.03

ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40


Consensus pattern (29 bp):   
AAAATCTTTTTTTTCTTCGACGCAAAAAC
Done.