Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003521.1 Corchorus capsularis cultivar CVL-1 contig03529, 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: 1765
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35


Found at i:813 original size:21 final size:21

Alignment explanation


    Indices: 779--819  Score: 57
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        769 CCCCTTTCCT

                                  
        779 ATATAAAATAAATTATCAAATA
          1 ATATAAAATAAATTAT-AAATA

                     *          
        801 ATAT-AAATTAATTATAAAT
          1 ATATAAAATAAATTATAAAT

        820 TTATTATGAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  20    4  0.22
  21   10  0.56
  22    4  0.22

ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37


Consensus pattern (21 bp):   
ATATAAAATAAATTATAAATA

Found at i:949 original size:21 final size:21

Alignment explanation


    Indices: 923--965  Score: 77
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        913 TGAAGACAAT

                            *    
        923 AGCAATCAAAGTAATTTATTG
          1 AGCAATCAAAGTAATTGATTG

                                 
        944 AGCAATCAAAGTAATTGATTG
          1 AGCAATCAAAGTAATTGATTG

             
        965 A
          1 A

        966 CCAAGCCTAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30


Consensus pattern (21 bp):   
AGCAATCAAAGTAATTGATTG

Found at i:1072 original size:17 final size:17

Alignment explanation


    Indices: 1050--1084  Score: 61
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       1040 AATATAGCTA

                             
       1050 TGTGAATATAATCCCAT
          1 TGTGAATATAATCCCAT

                   *         
       1067 TGTGAATGTAATCCCAT
          1 TGTGAATATAATCCCAT

             
       1084 T
          1 T

       1085 AAGTTATTGT


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   17  1.00

ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37


Consensus pattern (17 bp):   
TGTGAATATAATCCCAT
Done.