Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000893.1 Corchorus olitorius cultivar O-4 contig00893, 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, 744

Length: 1240
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29


Found at i:979 original size:7 final size:7

Alignment explanation


    Indices: 969--1001  Score: 50
    Period size: 7  Copynumber: 4.9  Consensus size: 7

        959 AAAAAAGAAG

                   
        969 TGAAAAT
          1 TGAAAAT

                  *
        976 TG-AAAG
          1 TGAAAAT

                   
        982 TGAAAAT
          1 TGAAAAT

                   
        989 TGAAAAT
          1 TGAAAAT

                  
        996 TGAAAA
          1 TGAAAA

       1002 AAAGTATAAG


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   6    5  0.22
   7   18  0.78

ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24


Consensus pattern (7 bp):   
TGAAAAT

Found at i:982 original size:13 final size:13

Alignment explanation


    Indices: 966--993  Score: 56
    Period size: 13  Copynumber: 2.2  Consensus size: 13

        956 ACAAAAAAAG

                         
        966 AAGTGAAAATTGA
          1 AAGTGAAAATTGA

                         
        979 AAGTGAAAATTGA
          1 AAGTGAAAATTGA

              
        992 AA
          1 AA

        994 ATTGAAAAAA


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   15  1.00

ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21


Consensus pattern (13 bp):   
AAGTGAAAATTGA
Done.