Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022646.1 Corchorus olitorius cultivar O-4 contig22679, 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: 16748
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34


Found at i:2710 original size:18 final size:18

Alignment explanation


    Indices: 2687--2729  Score: 86
    Period size: 18  Copynumber: 2.4  Consensus size: 18

       2677 ATGATTGATG

                              
       2687 AATGCTTAGAATTTTAAT
          1 AATGCTTAGAATTTTAAT

                              
       2705 AATGCTTAGAATTTTAAT
          1 AATGCTTAGAATTTTAAT

                   
       2723 AATGCTT
          1 AATGCTT

       2730 TATTTATTGA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   25  1.00

ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44


Consensus pattern (18 bp):   
AATGCTTAGAATTTTAAT

Found at i:16372 original size:48 final size:49

Alignment explanation


    Indices: 16281--16381  Score: 123
    Period size: 48  Copynumber: 2.1  Consensus size: 49

      16271 GTAATTAGTT

                           *                 *   **         *
      16281 GTAATCAGCTTAATTTAGGGTAATCAAGTTAATTAAGTGGTAAAATGAG
          1 GTAATCAGCTTAATTCAGGGTAATCAAGTTAATAAAGAAGTAAAATGAA

                 *                  *     *                  
      16330 GTAATTAGCTTAATTCA-GGTAATTAAGTTGATAAAGAAGTAAAATGAA
          1 GTAATCAGCTTAATTCAGGGTAATCAAGTTAATAAAGAAGTAAAATGAA

                
      16378 GTAA
          1 GTAA

      16382 AATGAAATAA


Statistics
Matches: 44,  Mismatches: 8, Indels: 1
        0.83            0.15        0.02

Matches are distributed among these distances:
  48   29  0.66
  49   15  0.34

ACGTcount: A:0.43, C:0.05, G:0.21, T:0.32


Consensus pattern (49 bp):   
GTAATCAGCTTAATTCAGGGTAATCAAGTTAATAAAGAAGTAAAATGAA
Done.