Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011410.1 Corchorus olitorius cultivar O-4 contig11443, 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: 5577
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32


Found at i:405 original size:30 final size:30

Alignment explanation


    Indices: 371--428  Score: 100
    Period size: 30  Copynumber: 1.9  Consensus size: 30

        361 AGCTTAGAGT

                                           
        371 AATTTCTGA-TTTAATTTTCTAAGTATTGTA
          1 AATTTCTGATTTTAA-TTTCTAAGTATTGTA

                                        
        401 AATTTCTGATTTTAATTTCTAAGTATTG
          1 AATTTCTGATTTTAATTTCTAAGTATTG

        429 AAAACCGTCT


Statistics
Matches: 27,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
  30   22  0.81
  31    5  0.19

ACGTcount: A:0.29, C:0.07, G:0.10, T:0.53


Consensus pattern (30 bp):   
AATTTCTGATTTTAATTTCTAAGTATTGTA

Found at i:4856 original size:25 final size:24

Alignment explanation


    Indices: 4828--4884  Score: 80
    Period size: 25  Copynumber: 2.4  Consensus size: 24

       4818 GTGGATTGTA

                        *            
       4828 AAATAAATTGAATAATTAAGACATT
          1 AAATAAATTGAAGAATTAA-ACATT

                     *              
       4853 AAATAAATTTAAGAATTAAACATT
          1 AAATAAATTGAAGAATTAAACATT

                     
       4877 AAA-AAATT
          1 AAATAAATT

       4885 CAAGGCTTGA


Statistics
Matches: 30,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  23    5  0.17
  24    8  0.27
  25   17  0.57

ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32


Consensus pattern (24 bp):   
AAATAAATTGAAGAATTAAACATT
Done.