Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006965.1 Corchorus olitorius cultivar O-4 contig06990, 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, 678

Length: 1131
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33


Found at i:254 original size:25 final size:24

Alignment explanation


    Indices: 217--263  Score: 76
    Period size: 25  Copynumber: 1.9  Consensus size: 24

        207 ACGTTTGTAC

                                     
        217 AAATACCTAAGAATTTGAATTAAAA
          1 AAATACCTAAGAATTT-AATTAAAA

                    *             
        242 AAATACCTTAGAATTTAATTAA
          1 AAATACCTAAGAATTTAATTAA

        264 TGTAAGTATT


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  24    6  0.29
  25   15  0.71

ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32


Consensus pattern (24 bp):   
AAATACCTAAGAATTTAATTAAAA

Found at i:583 original size:17 final size:18

Alignment explanation


    Indices: 549--585  Score: 53
    Period size: 15  Copynumber: 2.2  Consensus size: 18

        539 ATTAAATATA

                              
        549 TTTATTATAATATATTTT
          1 TTTATTATAATATATTTT

                              
        567 TTTATT-TAAT-T-TTTT
          1 TTTATTATAATATATTTT

                
        582 TTTA
          1 TTTA

        586 AATAATAAAA


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  15    8  0.42
  16    1  0.05
  17    4  0.21
  18    6  0.32

ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73


Consensus pattern (18 bp):   
TTTATTATAATATATTTT
Done.