Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021245.1 Corchorus olitorius cultivar O-4 contig21278, 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: 5005
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:37 original size:30 final size:30

Alignment explanation


    Indices: 1--58  Score: 107
    Period size: 30  Copynumber: 1.9  Consensus size: 30

                        *                 
          1 TTAGAGTTTTCAGCGGGCTTTGCCACGGTT
          1 TTAGAGTTTTCAACGGGCTTTGCCACGGTT

                                        
         31 TTAGAGTTTTCAACGGGCTTTGCCACGG
          1 TTAGAGTTTTCAACGGGCTTTGCCACGG

         59 ATAATTTGTT


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  30   27  1.00

ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34


Consensus pattern (30 bp):   
TTAGAGTTTTCAACGGGCTTTGCCACGGTT

Found at i:483 original size:23 final size:23

Alignment explanation


    Indices: 450--494  Score: 81
    Period size: 23  Copynumber: 2.0  Consensus size: 23

        440 ATTATTCTGG

                                   
        450 TAAATTGCCTTTCACTCTCTCTT
          1 TAAATTGCCTTTCACTCTCTCTT

                  *               
        473 TAAATTTCCTTTCACTCTCTCT
          1 TAAATTGCCTTTCACTCTCTCT

        495 GAAAAATCAT


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  23   21  1.00

ACGTcount: A:0.18, C:0.31, G:0.02, T:0.49


Consensus pattern (23 bp):   
TAAATTGCCTTTCACTCTCTCTT

Found at i:1498 original size:30 final size:30

Alignment explanation


    Indices: 1464--1527  Score: 119
    Period size: 30  Copynumber: 2.1  Consensus size: 30

       1454 AAAAACACAG

                                          
       1464 TTGAAAAGGCTAAAATACTCTGAAATATTT
          1 TTGAAAAGGCTAAAATACTCTGAAATATTT

                       *                  
       1494 TTGAAAAGGCTGAAATACTCTGAAATATTT
          1 TTGAAAAGGCTAAAATACTCTGAAATATTT

                
       1524 TTGA
          1 TTGA

       1528 TGGGTTATAC


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  30   33  1.00

ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34


Consensus pattern (30 bp):   
TTGAAAAGGCTAAAATACTCTGAAATATTT
Done.