Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010042.1 Corchorus olitorius cultivar O-4 contig10074, 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: 2737
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34


Found at i:1952 original size:16 final size:16

Alignment explanation


    Indices: 1916--1954  Score: 51
    Period size: 16  Copynumber: 2.4  Consensus size: 16

       1906 AAAAATAAAC

                       *  * 
       1916 AAACCAACATACTACT
          1 AAACCAACATAATAAT

                            
       1932 AAACCAACATAATAAT
          1 AAACCAACATAATAAT

            *      
       1948 GAACCAA
          1 AAACCAA

       1955 ACCCACATAT


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  16   20  1.00

ACGTcount: A:0.56, C:0.26, G:0.03, T:0.15


Consensus pattern (16 bp):   
AAACCAACATAATAAT

Found at i:2287 original size:62 final size:62

Alignment explanation


    Indices: 2190--2313  Score: 248
    Period size: 62  Copynumber: 2.0  Consensus size: 62

       2180 TTGTTATATC

                                                                          
       2190 TGAGGGAGGGTATTTGAAATATGTTAGTAGCCTTGTTTGTAGTCAATTTTACTGGCAAGTCA
          1 TGAGGGAGGGTATTTGAAATATGTTAGTAGCCTTGTTTGTAGTCAATTTTACTGGCAAGTCA

                                                                          
       2252 TGAGGGAGGGTATTTGAAATATGTTAGTAGCCTTGTTTGTAGTCAATTTTACTGGCAAGTCA
          1 TGAGGGAGGGTATTTGAAATATGTTAGTAGCCTTGTTTGTAGTCAATTTTACTGGCAAGTCA

       2314 AGATGTCGTC


Statistics
Matches: 62,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  62   62  1.00

ACGTcount: A:0.26, C:0.10, G:0.27, T:0.37


Consensus pattern (62 bp):   
TGAGGGAGGGTATTTGAAATATGTTAGTAGCCTTGTTTGTAGTCAATTTTACTGGCAAGTCA
Done.