Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012578.1 Corchorus olitorius cultivar O-4 contig12611, 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: 21125
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32


Found at i:12430 original size:18 final size:18

Alignment explanation


    Indices: 12407--12441  Score: 61
    Period size: 18  Copynumber: 1.9  Consensus size: 18

      12397 AAGAATAATT

                   *          
      12407 AAAAAAATTGTTTTCATA
          1 AAAAAAAGTGTTTTCATA

                             
      12425 AAAAAAAGTGTTTTCAT
          1 AAAAAAAGTGTTTTCAT

      12442 GACAAGACGA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37


Consensus pattern (18 bp):   
AAAAAAAGTGTTTTCATA

Found at i:15290 original size:27 final size:27

Alignment explanation


    Indices: 15260--15333  Score: 114
    Period size: 27  Copynumber: 2.8  Consensus size: 27

      15250 TTAAGGTAAT

                 *                     
      15260 CTAGGAGCATTTTGGTCATTTCCACAC
          1 CTAGGGGCATTTTGGTCATTTCCACAC

                               *  *    
      15287 CTAGGGGCATTTTGGTCATCTCTACAC
          1 CTAGGGGCATTTTGGTCATTTCCACAC

                                 
      15314 CTAGGGGCATTTTGGT-ATTT
          1 CTAGGGGCATTTTGGTCATTT

      15334 GCACGTTCAG


Statistics
Matches: 43,  Mismatches: 4, Indels: 1
        0.90            0.08        0.02

Matches are distributed among these distances:
  26    3  0.07
  27   40  0.93

ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36


Consensus pattern (27 bp):   
CTAGGGGCATTTTGGTCATTTCCACAC
Done.