Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022145.1 Corchorus olitorius cultivar O-4 contig22178, 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: 3952
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32


Found at i:2569 original size:11 final size:11

Alignment explanation


    Indices: 2553--2591  Score: 51
    Period size: 11  Copynumber: 3.4  Consensus size: 11

       2543 TTACAATAAT

                       
       2553 TAAATTTTAAA
          1 TAAATTTTAAA

                   *   
       2564 TAAATTTGAAA
          1 TAAATTTTAAA

                         
       2575 TAAAATTTTAGAA
          1 T-AAATTTTA-AA

                
       2588 TAAA
          1 TAAA

       2592 GTATAGTACT


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  11   11  0.46
  12   10  0.42
  13    3  0.12

ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38


Consensus pattern (11 bp):   
TAAATTTTAAA

Found at i:2820 original size:23 final size:22

Alignment explanation


    Indices: 2794--2844  Score: 59
    Period size: 21  Copynumber: 2.3  Consensus size: 22

       2784 AAAATATTTT

                               *    
       2794 ATAAAAATATTGAATTTTATTA-A
          1 ATAAAAATA--GAATTTTAATAGA

                  *               
       2817 ATAAAAGTAGAATTTTAATAGA
          1 ATAAAAATAGAATTTTAATAGA

                  
       2839 ATAAAA
          1 ATAAAA

       2845 CTGTAAAAGT


Statistics
Matches: 25,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  21   10  0.40
  22    7  0.28
  23    8  0.32

ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35


Consensus pattern (22 bp):   
ATAAAAATAGAATTTTAATAGA
Done.