Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010218.1 Corchorus olitorius cultivar O-4 contig10250, 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: 2678
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33


Found at i:2068 original size:17 final size:16

Alignment explanation


    Indices: 2032--2075  Score: 63
    Period size: 17  Copynumber: 2.8  Consensus size: 16

       2022 AGCCAGCCAG

                            
       2032 CAGGCCAG-GCGGGCC
          1 CAGGCCAGCGCGGGCC

            *                
       2047 TAGGCCAGCGCGCGGCC
          1 CAGGCCAGCGCG-GGCC

                        
       2064 CAGGCCAGCGCG
          1 CAGGCCAGCGCG

       2076 TGGGCCTCAT


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  15    7  0.28
  16    3  0.12
  17   15  0.60

ACGTcount: A:0.14, C:0.41, G:0.43, T:0.02


Consensus pattern (16 bp):   
CAGGCCAGCGCGGGCC

Found at i:2216 original size:14 final size:14

Alignment explanation


    Indices: 2196--2232  Score: 51
    Period size: 14  Copynumber: 2.7  Consensus size: 14

       2186 AGAAAGAAAT

                          
       2196 TAAAATAAAAT-AA
          1 TAAAATAAAATAAA

                           
       2209 TAATAAT-AAATAAA
          1 TAA-AATAAAATAAA

                      
       2223 TAAAATAAAA
          1 TAAAATAAAA

       2233 AGAATGAATT


Statistics
Matches: 21,  Mismatches: 0, Indels: 5
        0.81            0.00        0.19

Matches are distributed among these distances:
  13   10  0.48
  14   11  0.52

ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24


Consensus pattern (14 bp):   
TAAAATAAAATAAA
Done.