Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021708.1 Corchorus olitorius cultivar O-4 contig21741, 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: 9372
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30


Found at i:4846 original size:19 final size:19

Alignment explanation


    Indices: 4818--4858  Score: 57
    Period size: 19  Copynumber: 2.2  Consensus size: 19

       4808 CACCTACGGA

                 *              
       4818 AATAATTAATGAAT-ACATT
          1 AATAAATAAT-AATAACATT

                               
       4837 AATAAATAATAATAACATT
          1 AATAAATAATAATAACATT

               
       4856 AAT
          1 AAT

       4859 TAATTAAACC


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  18    3  0.15
  19   17  0.85

ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34


Consensus pattern (19 bp):   
AATAAATAATAATAACATT

Found at i:6336 original size:15 final size:15

Alignment explanation


    Indices: 6316--6357  Score: 57
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       6306 GCAGAGGTTG

                           
       6316 AAAGAAAACAATTAA
          1 AAAGAAAACAATTAA

                   *       
       6331 AAAGAAAGCAATTAA
          1 AAAGAAAACAATTAA

              *         
       6346 ACTAGAAAACAA
          1 A-AAGAAAACAA

       6358 AGCAAAGTAA


Statistics
Matches: 23,  Mismatches: 3, Indels: 1
        0.85            0.11        0.04

Matches are distributed among these distances:
  15   15  0.65
  16    8  0.35

ACGTcount: A:0.69, C:0.10, G:0.10, T:0.12


Consensus pattern (15 bp):   
AAAGAAAACAATTAA
Done.