Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001382.1 Corchorus olitorius cultivar O-4 contig01382, 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: 1813
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31


Found at i:411 original size:27 final size:27

Alignment explanation


    Indices: 374--474  Score: 123
    Period size: 27  Copynumber: 3.7  Consensus size: 27

        364 AAAATGCCCA

                                       
        374 AAATGACCAAAATGCCCCTGAGTATGC
          1 AAATGACCAAAATGCCCCTGAGTATGC

                                 * *   
        401 AAATGACCAAAATGCCCCTGAATGTGC
          1 AAATGACCAAAATGCCCCTGAGTATGC

                   *                *   *
        428 AAATGACTAAAATGCCCCT-AGATTTCGA
          1 AAATGACCAAAATGCCCCTGAG-TAT-GC

                    *          
        456 AAATGACCGAAATGCCCCT
          1 AAATGACCAAAATGCCCCT

        475 AGTTGATCCT


Statistics
Matches: 64,  Mismatches: 8, Indels: 3
        0.85            0.11        0.04

Matches are distributed among these distances:
  26    1  0.02
  27   45  0.70
  28   18  0.28

ACGTcount: A:0.38, C:0.26, G:0.17, T:0.20


Consensus pattern (27 bp):   
AAATGACCAAAATGCCCCTGAGTATGC

Found at i:798 original size:6 final size:6

Alignment explanation


    Indices: 787--814  Score: 56
    Period size: 6  Copynumber: 4.7  Consensus size: 6

        777 TTGGCGAAAG

                                            
        787 TAATAT TAATAT TAATAT TAATAT TAAT
          1 TAATAT TAATAT TAATAT TAATAT TAAT

        815 GCAGTTTGCT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (6 bp):   
TAATAT

Done.