Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009515.1 Corchorus olitorius cultivar O-4 contig09547, 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, 606

Length: 1010
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28


Found at i:424 original size:35 final size:36

Alignment explanation


    Indices: 353--428  Score: 95
    Period size: 36  Copynumber: 2.1  Consensus size: 36

        343 AAAATAAAAG

                          *                *    
        353 AAAATATTTTTTTTCTTTTCTAAAAACGCAGGAACA
          1 AAAATATTTTTTTTATTTTCTAAAAACGCAGAAACA

                                                  
        389 AGAAAT-TTTTTTTTATTTT-TAGAAAACGCA-AAACA
          1 A-AAATATTTTTTTTATTTTCTA-AAAACGCAGAAACA

                 
        424 AAAAT
          1 AAAAT

        429 GTTTATGACG


Statistics
Matches: 36,  Mismatches: 2, Indels: 6
        0.82            0.05        0.14

Matches are distributed among these distances:
  34    4  0.11
  35    7  0.19
  36   21  0.58
  37    4  0.11

ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38


Consensus pattern (36 bp):   
AAAATATTTTTTTTATTTTCTAAAAACGCAGAAACA

Found at i:822 original size:15 final size:16

Alignment explanation


    Indices: 798--837  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

        788 AGAGGTTGAA

                 *          
        798 AGAAAGCAATTAAAC-
          1 AGAAAACAATTAAACT

                        *   
        813 AGAAAACAATTATACT
          1 AGAAAACAATTAAACT

                     
        829 AGAAAACAA
          1 AGAAAACAA

        838 AGCAAAGTAA


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15


Consensus pattern (16 bp):   
AGAAAACAATTAAACT

Done.