Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001569.1 Corchorus olitorius cultivar O-4 contig01569, 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: 1875
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29


Found at i:1052 original size:21 final size:21

Alignment explanation


    Indices: 1007--1061  Score: 65
    Period size: 21  Copynumber: 2.6  Consensus size: 21

        997 CGGCCGTTCA

                           **    
       1007 CCGTGCCACCACCGGTTAAGC
          1 CCGTGCCACCACCGGCCAAGC

                              * *
       1028 CCGTGCCACCACCGGCCATGT
          1 CCGTGCCACCACCGGCCAAGC

                    *    
       1049 CCGTGCCATCACC
          1 CCGTGCCACCACC

       1062 ATTCCAAGCC


Statistics
Matches: 29,  Mismatches: 5, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  21   29  1.00

ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15


Consensus pattern (21 bp):   
CCGTGCCACCACCGGCCAAGC

Found at i:1433 original size:15 final size:14

Alignment explanation


    Indices: 1413--1442  Score: 51
    Period size: 15  Copynumber: 2.1  Consensus size: 14

       1403 ATCTTTTTAA

                           
       1413 TTTTCCTTGCATTAT
          1 TTTTCCTTG-ATTAT

                          
       1428 TTTTCCTTGATTAT
          1 TTTTCCTTGATTAT

             
       1442 T
          1 T

       1443 GCTTTGATTG


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14    6  0.40
  15    9  0.60

ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63


Consensus pattern (14 bp):   
TTTTCCTTGATTAT
Done.