Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022120.1 Corchorus olitorius cultivar O-4 contig22153, 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: 5629
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31


Found at i:476 original size:27 final size:28

Alignment explanation


    Indices: 435--510  Score: 100
    Period size: 29  Copynumber: 2.7  Consensus size: 28

        425 ATGTGAACTT

                      *            *    
        435 AAAATGACCAGAATGCCCCTGGACGT-G
          1 AAAATGACCAAAATGCCCCTGGAAGTGG

            *                        *   
        462 CAAATGACCAAAATGCCCCCTGGAATTGG
          1 AAAATGACCAAAATG-CCCCTGGAAGTGG

                                
        491 AAAATGACCAAAATGCCCCT
          1 AAAATGACCAAAATGCCCCT

        511 AGTTGATTCT


Statistics
Matches: 42,  Mismatches: 5, Indels: 3
        0.84            0.10        0.06

Matches are distributed among these distances:
  27   13  0.31
  28   14  0.33
  29   15  0.36

ACGTcount: A:0.37, C:0.28, G:0.20, T:0.16


Consensus pattern (28 bp):   
AAAATGACCAAAATGCCCCTGGAAGTGG

Found at i:5387 original size:18 final size:19

Alignment explanation


    Indices: 5364--5399  Score: 65
    Period size: 18  Copynumber: 1.9  Consensus size: 19

       5354 GTGTGAATTC

                               
       5364 AAATTGATTTTTG-TAAAA
          1 AAATTGATTTTTGATAAAA

                              
       5382 AAATTGATTTTTGATAAA
          1 AAATTGATTTTTGATAAA

       5400 CTTACACAAT


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  18   13  0.76
  19    4  0.24

ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44


Consensus pattern (19 bp):   
AAATTGATTTTTGATAAAA

Done.