Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007977.1 Corchorus olitorius cultivar O-4 contig08004, 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, 633

Length: 1056
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38


Found at i:324 original size:5 final size:5

Alignment explanation


    Indices: 311--354  Score: 52
    Period size: 5  Copynumber: 8.6  Consensus size: 5

        301 CGTCGCAATC

                *                     *       *                 
        311 TTTGC TTTGT TTTGT TTTGT TTGGTT TTTTT TTTGT TTTGT TTT
          1 TTTGT TTTGT TTTGT TTTGT TTTG-T TTTGT TTTGT TTTGT TTT

        355 AATTTTTTTT


Statistics
Matches: 33,  Mismatches: 5, Indels: 2
        0.82            0.12        0.05

Matches are distributed among these distances:
   5   30  0.91
   6    3  0.09

ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80


Consensus pattern (5 bp):   
TTTGT

Found at i:344 original size:16 final size:16

Alignment explanation


    Indices: 320--354  Score: 52
    Period size: 16  Copynumber: 2.2  Consensus size: 16

        310 CTTTGCTTTG

                            
        320 TTTTGTTTTGTTTGGT
          1 TTTTGTTTTGTTTGGT

                *        *  
        336 TTTTTTTTTGTTTTGT
          1 TTTTGTTTTGTTTGGT

               
        352 TTT
          1 TTT

        355 AATTTTTTTT


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83


Consensus pattern (16 bp):   
TTTTGTTTTGTTTGGT

Found at i:346 original size:21 final size:21

Alignment explanation


    Indices: 320--367  Score: 69
    Period size: 21  Copynumber: 2.3  Consensus size: 21

        310 CTTTGCTTTG

                          **     
        320 TTTTGTTTTGTTTGGTTTTTT
          1 TTTTGTTTTGTTTGAATTTTT

                         *       
        341 TTTTGTTTTGTTTTAATTTTT
          1 TTTTGTTTTGTTTGAATTTTT

                  
        362 TTTTGT
          1 TTTTGT

        368 GTAGGCTTTA


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   24  1.00

ACGTcount: A:0.04, C:0.00, G:0.15, T:0.81


Consensus pattern (21 bp):   
TTTTGTTTTGTTTGAATTTTT
Done.