Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011281.1 Corchorus capsularis cultivar CVL-1 contig11302, 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:0.32, C:0.15, G:0.18, T:0.35


Found at i:1284 original size:13 final size:13

Alignment explanation


    Indices: 1266--1291  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       1256 ATTCCCATGA

                         
       1266 GAATGTTGATATG
          1 GAATGTTGATATG

                         
       1279 GAATGTTGATATG
          1 GAATGTTGATATG

       1292 AGAAAGTTTT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38


Consensus pattern (13 bp):   
GAATGTTGATATG

Found at i:2184 original size:30 final size:30

Alignment explanation


    Indices: 2148--2225  Score: 90
    Period size: 29  Copynumber: 2.6  Consensus size: 30

       2138 CATCAGAAAA

                                           
       2148 GGGCTTATTTGGCCTTTTTAA-AGAGTTCAG
          1 GGGCTTATTTGGCC-TTTTAATAGAGTTCAG

                            **             
       2178 GGGCTTATTTGG-C-TACAATTAGAGTTCAG
          1 GGGCTTATTTGGCCTTTTAA-TAGAGTTCAG

                               
       2207 GGGCTTATTTGGCCGTTTT
          1 GGGCTTATTTGGCC-TTTT

       2226 GTGTAAGTTC


Statistics
Matches: 39,  Mismatches: 4, Indels: 8
        0.76            0.08        0.16

Matches are distributed among these distances:
  27    3  0.08
  29   22  0.56
  30   13  0.33
  32    1  0.03

ACGTcount: A:0.18, C:0.14, G:0.28, T:0.40


Consensus pattern (30 bp):   
GGGCTTATTTGGCCTTTTAATAGAGTTCAG
Done.