Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015527.1 Corchorus olitorius cultivar O-4 contig15560, 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: 5700
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39


Found at i:2977 original size:26 final size:28

Alignment explanation


    Indices: 2939--3008  Score: 99
    Period size: 28  Copynumber: 2.6  Consensus size: 28

       2929 CCGTGTATTC

                                        
       2939 ACAAAGGCAGAG-A-TTTTTTGGTGAAA
          1 ACAAAGGCAGAGAATTTTTTTGGTGAAA

             *      *                   
       2965 ATAAAGGCTGAGAATTTTTTTGGTGAAA
          1 ACAAAGGCAGAGAATTTTTTTGGTGAAA

                   *        
       2993 ACAAAGGTAGAGAATT
          1 ACAAAGGCAGAGAATT

       3009 AGAGTGAGGT


Statistics
Matches: 37,  Mismatches: 5, Indels: 2
        0.84            0.11        0.05

Matches are distributed among these distances:
  26   10  0.27
  27    1  0.03
  28   26  0.70

ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29


Consensus pattern (28 bp):   
ACAAAGGCAGAGAATTTTTTTGGTGAAA

Found at i:4039 original size:22 final size:22

Alignment explanation


    Indices: 4008--4049  Score: 66
    Period size: 22  Copynumber: 1.9  Consensus size: 22

       3998 AGAGCTTCAA

                 *         *      
       4008 TGATTGTTCTAAAAAGTATAAG
          1 TGATTATTCTAAAAACTATAAG

                                
       4030 TGATTATTCTAAAAACTATA
          1 TGATTATTCTAAAAACTATA

       4050 TTATTATCTT


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  22   18  1.00

ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38


Consensus pattern (22 bp):   
TGATTATTCTAAAAACTATAAG
Done.