Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010822.1 Corchorus olitorius cultivar O-4 contig10854, 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: 18392
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31


Found at i:3841 original size:16 final size:16

Alignment explanation


    Indices: 3816--3860  Score: 65
    Period size: 16  Copynumber: 2.8  Consensus size: 16

       3806 GTGGGATTTT

                             
       3816 TAATAATAATTATTCAA
          1 TAATAATAATTATT-AA

                            
       3833 TAA-AATAATTATTAA
          1 TAATAATAATTATTAA

                         
       3848 TAATAATCAATTA
          1 TAATAAT-AATTA

       3861 ATTTCAGTCC


Statistics
Matches: 26,  Mismatches: 0, Indels: 4
        0.87            0.00        0.13

Matches are distributed among these distances:
  15    5  0.19
  16   13  0.50
  17    8  0.31

ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40


Consensus pattern (16 bp):   
TAATAATAATTATTAA

Found at i:17595 original size:26 final size:26

Alignment explanation


    Indices: 17536--17595  Score: 68
    Period size: 26  Copynumber: 2.3  Consensus size: 26

      17526 GTGTTCATGA

                 *         **         
      17536 TTTAGGGGTTACTAATTCTCTTTTTC
          1 TTTAGAGGTTACTAACGCTCTTTTTC

               *                      
      17562 TTTTGAGGTTACTAACGCTCTTTTT-
          1 TTTAGAGGTTACTAACGCTCTTTTTC

                     
      17587 TTTCAGAGG
          1 TTT-AGAGG

      17596 GACAATACTT


Statistics
Matches: 28,  Mismatches: 5, Indels: 2
        0.80            0.14        0.06

Matches are distributed among these distances:
  25    3  0.11
  26   25  0.89

ACGTcount: A:0.17, C:0.15, G:0.18, T:0.50


Consensus pattern (26 bp):   
TTTAGAGGTTACTAACGCTCTTTTTC
Done.