Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014002.1 Corchorus olitorius cultivar O-4 contig14035, 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: 6592
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31


Found at i:1006 original size:11 final size:11

Alignment explanation


    Indices: 990--1015  Score: 52
    Period size: 11  Copynumber: 2.4  Consensus size: 11

        980 CCTTACCTAA

                       
        990 AAAACTAGAAG
          1 AAAACTAGAAG

                       
       1001 AAAACTAGAAG
          1 AAAACTAGAAG

                
       1012 AAAA
          1 AAAA

       1016 GAAATTATCT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   15  1.00

ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08


Consensus pattern (11 bp):   
AAAACTAGAAG

Found at i:5402 original size:28 final size:28

Alignment explanation


    Indices: 5361--5435  Score: 73
    Period size: 28  Copynumber: 2.7  Consensus size: 28

       5351 TTAAGATGTC

                    **               *  
       5361 AAAATTACTGTTTTGCCCTTGGTCGGCT
          1 AAAATTACCATTTTGCCCTTGGTCGACT

                          *   *    *    
       5389 AAAATTACCATTTTACCCATGGTTGACT
          1 AAAATTACCATTTTGCCCTTGGTCGACT

                                 
       5417 -AAATTA-CAGTTTTGCCCTT
          1 AAAATTACCA-TTTTGCCCTT

       5436 AAATGCCGGA


Statistics
Matches: 38,  Mismatches: 8, Indels: 3
        0.78            0.16        0.06

Matches are distributed among these distances:
  26    2  0.05
  27   14  0.37
  28   22  0.58

ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39


Consensus pattern (28 bp):   
AAAATTACCATTTTGCCCTTGGTCGACT

Done.