Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024115.1 Corchorus olitorius cultivar O-4 contig24148, 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: 5023
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31


Found at i:904 original size:21 final size:20

Alignment explanation


    Indices: 866--904  Score: 51
    Period size: 21  Copynumber: 1.9  Consensus size: 20

        856 GGATGGAGCA

                        *       
        866 GGTTTGGCCGGTGATGGCAT
          1 GGTTTGGCCGGTCATGGCAT

                          *    
        886 GGTTATGGCCGGTCTTGGC
          1 GGTT-TGGCCGGTCATGGC

        905 CAGGCCTGGC


Statistics
Matches: 16,  Mismatches: 2, Indels: 1
        0.84            0.11        0.05

Matches are distributed among these distances:
  20    4  0.25
  21   12  0.75

ACGTcount: A:0.08, C:0.18, G:0.44, T:0.31


Consensus pattern (20 bp):   
GGTTTGGCCGGTCATGGCAT

Found at i:4332 original size:30 final size:30

Alignment explanation


    Indices: 4298--4355  Score: 82
    Period size: 30  Copynumber: 1.9  Consensus size: 30

       4288 AAGTCTTACT

                                 *         
       4298 TCTTGAAATAATTCTTCAAT-GATCTTCATA
          1 TCTTGAAATAA-TCTTCAATAAATCTTCATA

                     *                  
       4328 TCTTGAAATTATCTTCAATAAATCTTCA
          1 TCTTGAAATAATCTTCAATAAATCTTCA

       4356 ATCACGAACT


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  29    8  0.32
  30   17  0.68

ACGTcount: A:0.34, C:0.17, G:0.05, T:0.43


Consensus pattern (30 bp):   
TCTTGAAATAATCTTCAATAAATCTTCATA
Done.