Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012560.1 Corchorus olitorius cultivar O-4 contig12593, 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: 3512
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39


Found at i:223 original size:13 final size:13

Alignment explanation


    Indices: 190--216  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

        180 CTGCATAAAA

                         
        190 TAATTAATAGTAT
          1 TAATTAATAGTAT

                         
        203 TAATTAATAGTAT
          1 TAATTAATAGTAT

             
        216 T
          1 T

        217 GCATAATTAA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48


Consensus pattern (13 bp):   
TAATTAATAGTAT

Found at i:2053 original size:25 final size:25

Alignment explanation


    Indices: 2005--2055  Score: 77
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       1995 GATTTTTGAA

                          *          
       2005 TGAATTTCTTCTTCTTGTTCTATTT
          1 TGAATTTCTTCTTCCTGTTCTATTT

                                      
       2030 TGAATTTCTTCTTCCTG-TCTTATTT
          1 TGAATTTCTTCTTCCTGTTC-TATTT

             
       2055 T
          1 T

       2056 TTTGGAAGCC


Statistics
Matches: 24,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  24    2  0.08
  25   22  0.92

ACGTcount: A:0.12, C:0.18, G:0.08, T:0.63


Consensus pattern (25 bp):   
TGAATTTCTTCTTCCTGTTCTATTT
Done.