Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000792.1 Corchorus olitorius cultivar O-4 contig00792, 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, 777

Length: 1295
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39


Found at i:143 original size:22 final size:22

Alignment explanation


    Indices: 118--162  Score: 81
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        108 CTCTCTCAAT

                                  
        118 TGACTAAATGGAAGTAAAAAAG
          1 TGACTAAATGGAAGTAAAAAAG

                     *            
        140 TGACTAAATTGAAGTAAAAAAG
          1 TGACTAAATGGAAGTAAAAAAG

             
        162 T
          1 T

        163 AGAAAGACAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22


Consensus pattern (22 bp):   
TGACTAAATGGAAGTAAAAAAG

Found at i:654 original size:16 final size:16

Alignment explanation


    Indices: 633--684  Score: 53
    Period size: 16  Copynumber: 3.6  Consensus size: 16

        623 TCTTTTCTAT

                            
        633 AATTTAATGTGTTTAA
          1 AATTTAATGTGTTTAA

                             
        649 AATTTAATGAT-TTT--
          1 AATTTAATG-TGTTTAA

                            
        663 --TTTAA-GTGTTTAA
          1 AATTTAATGTGTTTAA

                     
        676 AATTTAATG
          1 AATTTAATG

        685 ATAATTAATT


Statistics
Matches: 29,  Mismatches: 0, Indels: 14
        0.67            0.00        0.33

Matches are distributed among these distances:
  10    1  0.03
  11    4  0.14
  12    5  0.17
  15    5  0.17
  16   13  0.45
  17    1  0.03

ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52


Consensus pattern (16 bp):   
AATTTAATGTGTTTAA
Done.