Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007818.1 Corchorus olitorius cultivar O-4 contig07845, 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: 1715
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26


Found at i:1108 original size:21 final size:21

Alignment explanation


    Indices: 1083--1132  Score: 73
    Period size: 21  Copynumber: 2.4  Consensus size: 21

       1073 CGGCCATTCA

                           **    
       1083 CCGTGCCACCACCGGTTAAGC
          1 CCGTGCCACCACCGGCCAAGC

                              *  
       1104 CCGTGCCACCACCGGCCATGC
          1 CCGTGCCACCACCGGCCAAGC

                    
       1125 CCGTGCCA
          1 CCGTGCCA

       1133 TCGCCATTCC


Statistics
Matches: 26,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   26  1.00

ACGTcount: A:0.16, C:0.48, G:0.24, T:0.12


Consensus pattern (21 bp):   
CCGTGCCACCACCGGCCAAGC

Found at i:1509 original size:15 final size:14

Alignment explanation


    Indices: 1489--1518  Score: 51
    Period size: 15  Copynumber: 2.1  Consensus size: 14

       1479 ATCTCTTTAA

                           
       1489 TTTTCCTTGCATTAT
          1 TTTTCCTTG-ATTAT

                          
       1504 TTTTCCTTGATTAT
          1 TTTTCCTTGATTAT

             
       1518 T
          1 T

       1519 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.