Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021779.1 Corchorus olitorius cultivar O-4 contig21812, 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: 13677
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35


Found at i:9378 original size:16 final size:17

Alignment explanation


    Indices: 9359--9398  Score: 50
    Period size: 16  Copynumber: 2.5  Consensus size: 17

       9349 ACCTTACCCT

                    *        
       9359 AGACCCAGTA-GACTTG
          1 AGACCCAGAATGACTTG

                             
       9375 AGACCC-GAATGACTTG
          1 AGACCCAGAATGACTTG

                     
       9391 A-ACCCAGA
          1 AGACCCAGA

       9399 TGAGTCGGAA


Statistics
Matches: 21,  Mismatches: 1, Indels: 4
        0.81            0.04        0.15

Matches are distributed among these distances:
  15    6  0.29
  16   15  0.71

ACGTcount: A:0.35, C:0.28, G:0.23, T:0.15


Consensus pattern (17 bp):   
AGACCCAGAATGACTTG

Found at i:10148 original size:116 final size:118

Alignment explanation


    Indices: 9977--10192  Score: 339
    Period size: 116  Copynumber: 1.8  Consensus size: 118

       9967 GGTTTTTTAA

                     *                                                       
       9977 TTAATTAAATTAGTAAAATGTCAAAAATAAAAAAGGGTATAAGGATATTAGATTTAATTAAATAA
          1 TTAATTAAAATAGTAAAATGTCAAAAATAAAAAAGGGTATAAGGATATTAGATTTAATTAAATAA

                   *           *                                 
      10042 AAATAGAGTTTTTAGATGAGTAAAACTATAAAAGTATAATATATTTAAGTTTT
         66 AAATAGAATTTTTAGATGACTAAAACTATAAAAGTATAATATATTTAAGTTTT

                                            **   *                           
      10095 TTAATTAAAATAGTAAAATGGT-AAAAA-AAATTA-GTTATAAGGATATTAGATTTAATTAAATA
          1 TTAATTAAAATAGTAAAAT-GTCAAAAATAAAAAAGGGTATAAGGATATTAGATTTAATTAAATA

                            *                   
      10157 AAAATAGAATTTTTAGTTGACTAAAACTATAAAAGT
         65 AAAATAGAATTTTTAGATGACTAAAACTATAAAAGT

      10193 TTAAACAATG


Statistics
Matches: 90,  Mismatches: 7, Indels: 4
        0.89            0.07        0.04

Matches are distributed among these distances:
 116   61  0.68
 117    4  0.04
 118   23  0.26
 119    2  0.02

ACGTcount: A:0.51, C:0.02, G:0.12, T:0.35


Consensus pattern (118 bp):   
TTAATTAAAATAGTAAAATGTCAAAAATAAAAAAGGGTATAAGGATATTAGATTTAATTAAATAA
AAATAGAATTTTTAGATGACTAAAACTATAAAAGTATAATATATTTAAGTTTT
Done.