Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021000.1 Corchorus olitorius cultivar O-4 contig21033, 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: 3042
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30


Found at i:1109 original size:20 final size:20

Alignment explanation


    Indices: 1068--1109  Score: 57
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       1058 CTAGCCCTAA

                             *  
       1068 AACTAGAAGAAAAAAACTAG
          1 AACTAGAAGAAAAAAACAAG

                      *     *   
       1088 AACTAGAAGAGAAAAAGAAG
          1 AACTAGAAGAAAAAAACAAG

              
       1108 AA
          1 AA

       1110 GAGAAAATTA


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  20   19  1.00

ACGTcount: A:0.67, C:0.07, G:0.19, T:0.07


Consensus pattern (20 bp):   
AACTAGAAGAAAAAAACAAG

Found at i:1736 original size:19 final size:18

Alignment explanation


    Indices: 1703--1738  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       1693 TGGAAATAAT

                              
       1703 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
       1721 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

       1739 TAAATCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGGTCTTCAAA
Done.