Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017382.1 Corchorus olitorius cultivar O-4 contig17415, 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: 3542
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31


Found at i:2278 original size:12 final size:12

Alignment explanation


    Indices: 2261--2285  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

       2251 CAAAAAATCA

                        
       2261 AAATTTTTTTTT
          1 AAATTTTTTTTT

                        
       2273 AAATTTTTTTTT
          1 AAATTTTTTTTT

             
       2285 A
          1 A

       2286 TGACGCAAAC


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72


Consensus pattern (12 bp):   
AAATTTTTTTTT

Found at i:2693 original size:16 final size:15

Alignment explanation


    Indices: 2655--2696  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       2645 ACAGAGATTG

                   *       
       2655 ACAGAAAGCAATTAA
          1 ACAGAAAACAATTAA

                           
       2670 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
       2685 ACTAGAAAACAA
          1 AC-AGAAAACAA

       2697 AGCAGAGTAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.64, C:0.14, G:0.10, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA
Done.