Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017706.1 Corchorus olitorius cultivar O-4 contig17739, 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: 13799
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Found at i:628 original size:6 final size:6

Alignment explanation


    Indices: 617--654  Score: 55
    Period size: 6  Copynumber: 6.8  Consensus size: 6

        607 TTAAAGTGTT

                                                           
        617 TTTTTG TTTTTG TTTTTG -TTTT- TTTTTG TTTTT- TTTTT
          1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT

        655 CGGTTCAAAA


Statistics
Matches: 30,  Mismatches: 0, Indels: 5
        0.86            0.00        0.14

Matches are distributed among these distances:
   5   13  0.43
   6   17  0.57

ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89


Consensus pattern (6 bp):   
TTTTTG

Found at i:634 original size:12 final size:11

Alignment explanation


    Indices: 615--654  Score: 64
    Period size: 11  Copynumber: 3.6  Consensus size: 11

        605 AGTTAAAGTG

                       
        615 TTTTTTTGTTT
          1 TTTTTTTGTTT

                        
        626 TTGTTTTTG-TT
          1 TT-TTTTTGTTT

                       
        637 TTTTTTTGTTT
          1 TTTTTTTGTTT

                   
        648 TTTTTTT
          1 TTTTTTT

        655 CGGTTCAAAA


Statistics
Matches: 27,  Mismatches: 0, Indels: 4
        0.87            0.00        0.13

Matches are distributed among these distances:
  10    6  0.22
  11   15  0.56
  12    6  0.22

ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90


Consensus pattern (11 bp):   
TTTTTTTGTTT

Found at i:644 original size:10 final size:10

Alignment explanation


    Indices: 615--653  Score: 60
    Period size: 10  Copynumber: 3.7  Consensus size: 10

        605 AGTTAAAGTG

                       
        615 TTTTTTTGTTT
          1 TTTTTTTG-TT

                       
        626 TTGTTTTTGTT
          1 TT-TTTTTGTT

                      
        637 TTTTTTTGTT
          1 TTTTTTTGTT

                   
        647 TTTTTTT
          1 TTTTTTT

        654 TCGGTTCAAA


Statistics
Matches: 27,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
  10   15  0.56
  11    6  0.22
  12    6  0.22

ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90


Consensus pattern (10 bp):   
TTTTTTTGTT
Done.