Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022918.1 Corchorus olitorius cultivar O-4 contig22951, 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: 2916
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26


Found at i:170 original size:15 final size:15

Alignment explanation


    Indices: 150--191  Score: 57
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        140 ACAGAGATTG

                   *       
        150 ACAGAAAGCAATTAA
          1 ACAGAAAACAATTAA

                           
        165 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                 *      
        180 ACTAGGAAACAA
          1 AC-AGAAAACAA

        192 AGCATAGTAA


Statistics
Matches: 24,  Mismatches: 2, Indels: 1
        0.89            0.07        0.04

Matches are distributed among these distances:
  15   16  0.67
  16    8  0.33

ACGTcount: A:0.62, C:0.14, G:0.12, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA

Found at i:191 original size:16 final size:15

Alignment explanation


    Indices: 153--191  Score: 51
    Period size: 16  Copynumber: 2.5  Consensus size: 15

        143 GAGATTGACA

                            
        153 GAAAGCAATTAAACAG
          1 GAAA-CAATTAAACAG

            *               
        169 AAAACAATTAAACTAG
          1 GAAACAATTAAAC-AG

                   
        185 GAAACAA
          1 GAAACAA

        192 AGCATAGTAA


Statistics
Matches: 20,  Mismatches: 2, Indels: 2
        0.83            0.08        0.08

Matches are distributed among these distances:
  15    9  0.45
  16   11  0.55

ACGTcount: A:0.62, C:0.13, G:0.13, T:0.13


Consensus pattern (15 bp):   
GAAACAATTAAACAG
Done.