Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024912.1 Corchorus olitorius cultivar O-4 contig24945, 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: 8639
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31


Found at i:4812 original size:26 final size:26

Alignment explanation


    Indices: 4755--4828  Score: 85
    Period size: 26  Copynumber: 2.8  Consensus size: 26

       4745 TAAGGTCACC

                                ***  *
       4755 TAAGGGCATTTTGGTCATTTTTGCAC
          1 TAAGGGCATTTTGGTCATTTGCCCAA

                                      
       4781 TAAGGGCATTTTGGTCATTTGCCCAA
          1 TAAGGGCATTTTGGTCATTTGCCCAA

                *                 
       4807 TCAGGGGGCATTTTGGTCATTT
          1 T-A-AGGGCATTTTGGTCATTT

       4829 TAAGTTCACT


Statistics
Matches: 41,  Mismatches: 5, Indels: 2
        0.85            0.10        0.04

Matches are distributed among these distances:
  26   23  0.56
  27    1  0.02
  28   17  0.41

ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39


Consensus pattern (26 bp):   
TAAGGGCATTTTGGTCATTTGCCCAA

Found at i:6297 original size:15 final size:16

Alignment explanation


    Indices: 6273--6312  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       6263 AGAGGTTGAA

                 *          
       6273 AGAAAGCAATTAAAC-
          1 AGAAAACAATTAAACT

                        *   
       6288 AGAAAACAATTATACT
          1 AGAAAACAATTAAACT

                     
       6304 AGAAAACAA
          1 AGAAAACAA

       6313 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.