Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015225.1 Corchorus olitorius cultivar O-4 contig15258, 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: 4479
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28


Found at i:159 original size:33 final size:33

Alignment explanation


    Indices: 117--181  Score: 112
    Period size: 33  Copynumber: 2.0  Consensus size: 33

        107 CCGCCCTAGG

                                 *           
        117 TGGGCGGCATGGCCATGGTAATGCCACCCTCGC
          1 TGGGCGGCATGGCCATGGTAAAGCCACCCTCGC

                                     *      
        150 TGGGCGGCATGGCCATGGTAAAGCCGCCCTCG
          1 TGGGCGGCATGGCCATGGTAAAGCCACCCTCG

        182 GAGGATGGCA


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  33   30  1.00

ACGTcount: A:0.15, C:0.32, G:0.35, T:0.17


Consensus pattern (33 bp):   
TGGGCGGCATGGCCATGGTAAAGCCACCCTCGC

Found at i:1511 original size:19 final size:18

Alignment explanation


    Indices: 1442--1512  Score: 65
    Period size: 19  Copynumber: 3.8  Consensus size: 18

       1432 CAACATGTGA

                            *   
       1442 TATTA-TTATTTATTAGTCG
          1 TATTATTTA-TTATTAAT-G

                      *       
       1461 TATTATTTATCATTAATG
          1 TATTATTTATTATTAATG

                                
       1479 TTATTA-TTATTTATTAATG
          1 -TATTATTTA-TTATTAATG

                           
       1498 TATTCATTTATTATT
          1 TATT-ATTTATTATT

       1513 TCCGCAGGTG


Statistics
Matches: 44,  Mismatches: 3, Indels: 10
        0.77            0.05        0.18

Matches are distributed among these distances:
  18    8  0.18
  19   30  0.68
  20    6  0.14

ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61


Consensus pattern (18 bp):   
TATTATTTATTATTAATG
Done.