Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010752.1 Corchorus olitorius cultivar O-4 contig10784, 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: 3003
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34


Found at i:79 original size:20 final size:21

Alignment explanation


    Indices: 56--94  Score: 62
    Period size: 20  Copynumber: 1.9  Consensus size: 21

         46 TATCTTGGTA

                                 
         56 TTTTATGATTTTA-GATTTAT
          1 TTTTATGATTTTATGATTTAT

                   *           
         76 TTTTATGTTTTTATGATTT
          1 TTTTATGATTTTATGATTT

         95 CTAATTGATT


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  20   12  0.71
  21    5  0.29

ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69


Consensus pattern (21 bp):   
TTTTATGATTTTATGATTTAT

Found at i:571 original size:24 final size:25

Alignment explanation


    Indices: 525--575  Score: 68
    Period size: 24  Copynumber: 2.1  Consensus size: 25

        515 ATTGGAGTAT

                           *         
        525 TTATTTATCTTGTTGCTTAATTTTA
          1 TTATTTATCTTGTTGATTAATTTTA

                          *   *      
        550 TTATTT-TCTTGTTTATTTATTTTA
          1 TTATTTATCTTGTTGATTAATTTTA

              
        574 TT
          1 TT

        576 GTTCACATTA


Statistics
Matches: 23,  Mismatches: 3, Indels: 1
        0.85            0.11        0.04

Matches are distributed among these distances:
  24   17  0.74
  25    6  0.26

ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71


Consensus pattern (25 bp):   
TTATTTATCTTGTTGATTAATTTTA
Done.