Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022754.1 Corchorus olitorius cultivar O-4 contig22787, 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: 13394
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32


Found at i:8282 original size:12 final size:13

Alignment explanation


    Indices: 8260--8289  Score: 53
    Period size: 12  Copynumber: 2.4  Consensus size: 13

       8250 ACTAGCAATT

                         
       8260 AAAATCAATCAAG
          1 AAAATCAATCAAG

                         
       8273 AAAA-CAATCAAG
          1 AAAATCAATCAAG

                 
       8285 AAAAT
          1 AAAAT

       8290 TAAAGAAATC


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  12   12  0.75
  13    4  0.25

ACGTcount: A:0.67, C:0.13, G:0.07, T:0.13


Consensus pattern (13 bp):   
AAAATCAATCAAG

Found at i:8806 original size:32 final size:34

Alignment explanation


    Indices: 8727--8808  Score: 98
    Period size: 32  Copynumber: 2.5  Consensus size: 34

       8717 TGGTGCTGCA

                         *                    
       8727 TGCTGATGCGCGGGATGGCTTCAACATGGCCTGG
          1 TGCTGATGCGCGGCATGGCTTCAACATGGCCTGG

                                   *  *    *   
       8761 TGCTGA-GCGGCGGCATGGC-TCGACGTGG-TTGG
          1 TGCTGATGC-GCGGCATGGCTTCAACATGGCCTGG

                            
       8793 TGCTGATGCGCGGCAT
          1 TGCTGATGCGCGGCAT

       8809 CGGCATGGCT


Statistics
Matches: 42,  Mismatches: 4, Indels: 6
        0.81            0.08        0.12

Matches are distributed among these distances:
  32   16  0.38
  33   11  0.26
  34   15  0.36

ACGTcount: A:0.12, C:0.23, G:0.41, T:0.23


Consensus pattern (34 bp):   
TGCTGATGCGCGGCATGGCTTCAACATGGCCTGG
Done.