Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021838.1 Corchorus olitorius cultivar O-4 contig21871, 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: 8122
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33


Found at i:3384 original size:16 final size:16

Alignment explanation


    Indices: 3360--3390  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       3350 CAAGGGAAAA

                *           
       3360 TTAATAATAATTATTC
          1 TTAAAAATAATTATTC

                           
       3376 TTAAAAATAATTATT
          1 TTAAAAATAATTATT

       3391 ATTTAATATT


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48


Consensus pattern (16 bp):   
TTAAAAATAATTATTC

Found at i:3638 original size:22 final size:23

Alignment explanation


    Indices: 3599--3644  Score: 60
    Period size: 22  Copynumber: 2.0  Consensus size: 23

       3589 AATTTACTAT

                                   
       3599 TTTTATATTTATGATTAAGTGTG
          1 TTTTATATTTATGATTAAGTGTG

                               *    
       3622 TTTTA-ATTATAT-ATTAATTGTG
          1 TTTTATATT-TATGATTAAGTGTG

             
       3644 T
          1 T

       3645 GTGGATATTA


Statistics
Matches: 21,  Mismatches: 1, Indels: 3
        0.84            0.04        0.12

Matches are distributed among these distances:
  22   13  0.62
  23    8  0.38

ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59


Consensus pattern (23 bp):   
TTTTATATTTATGATTAAGTGTG
Done.