Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007083.1 Corchorus capsularis cultivar CVL-1 contig07104, 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: 9024
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31


Found at i:98 original size:15 final size:18

Alignment explanation


    Indices: 65--101  Score: 53
    Period size: 15  Copynumber: 2.2  Consensus size: 18

         55 CTTTTAAAAA

                              
         65 AATTATTAATTCAATATT
          1 AATTATTAATTCAATATT

                              
         83 AATTATT-ATT-AA-ATT
          1 AATTATTAATTCAATATT

                
         98 AATT
          1 AATT

        102 TAGATTTAGG


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

Matches are distributed among these distances:
  15    7  0.37
  16    2  0.11
  17    3  0.16
  18    7  0.37

ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51


Consensus pattern (18 bp):   
AATTATTAATTCAATATT

Found at i:1162 original size:17 final size:17

Alignment explanation


    Indices: 1123--1163  Score: 55
    Period size: 17  Copynumber: 2.4  Consensus size: 17

       1113 TTCTATGATT

                             
       1123 TTTTTAAAAAAAATTTG
          1 TTTTTAAAAAAAATTTG

            **       *       
       1140 GATTTAAAATAAATTTG
          1 TTTTTAAAAAAAATTTG

                   
       1157 TTTTTAA
          1 TTTTTAA

       1164 TTTTTAAAAT


Statistics
Matches: 19,  Mismatches: 5, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  17   19  1.00

ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49


Consensus pattern (17 bp):   
TTTTTAAAAAAAATTTG
Done.