Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000916.1 Corchorus olitorius cultivar O-4 contig00916, 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, 683

Length: 1139
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37


Found at i:518 original size:15 final size:15

Alignment explanation


    Indices: 476--528  Score: 63
    Period size: 15  Copynumber: 3.5  Consensus size: 15

        466 TGGTATGAAG

                *          
        476 GAAATGGGAAGGAAA
          1 GAAAAGGGAAGGAAA

                            
        491 GAAGAAGGG-AGGAAA
          1 GAA-AAGGGAAGGAAA

                *         *
        506 GAAAGGGGAAGGAAG
          1 GAAAAGGGAAGGAAA

                    
        521 GAAAAGGG
          1 GAAAAGGG

        529 TTACTTTGTT


Statistics
Matches: 32,  Mismatches: 4, Indels: 4
        0.80            0.10        0.10

Matches are distributed among these distances:
  14    4  0.12
  15   24  0.75
  16    4  0.12

ACGTcount: A:0.51, C:0.00, G:0.47, T:0.02


Consensus pattern (15 bp):   
GAAAAGGGAAGGAAA

Found at i:903 original size:37 final size:37

Alignment explanation


    Indices: 862--935  Score: 130
    Period size: 37  Copynumber: 2.0  Consensus size: 37

        852 CTCGTCAACT

                           *                     
        862 CGATTTCAATCTTCATCTCAATTTCGTGCTTGGAACA
          1 CGATTTCAATCTTCACCTCAATTTCGTGCTTGGAACA

                   *                             
        899 CGATTTCGATCTTCACCTCAATTTCGTGCTTGGAACA
          1 CGATTTCAATCTTCACCTCAATTTCGTGCTTGGAACA

        936 AGGTTAGATG


Statistics
Matches: 35,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  37   35  1.00

ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36


Consensus pattern (37 bp):   
CGATTTCAATCTTCACCTCAATTTCGTGCTTGGAACA
Done.