Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015351.1 Corchorus olitorius cultivar O-4 contig15384, 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: 56088
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:146 original size:13 final size:14

Alignment explanation


    Indices: 119--149  Score: 53
    Period size: 14  Copynumber: 2.2  Consensus size: 14

        109 AAAGAAATAG

                   *      
        119 AAATTTTTTTAAAA
          1 AAATTTTATTAAAA

                          
        133 AAATTTTATTAAAA
          1 AAATTTTATTAAAA

               
        147 AAA
          1 AAA

        150 CCAAAAATTA


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

Matches are distributed among these distances:
  14   16  1.00

ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42


Consensus pattern (14 bp):   
AAATTTTATTAAAA

Found at i:19159 original size:29 final size:29

Alignment explanation


    Indices: 19126--19189  Score: 74
    Period size: 29  Copynumber: 2.2  Consensus size: 29

      19116 TGATAATTAG

                             *           
      19126 CATTAAATTGTTCAATATATGAGGATTCC
          1 CATTAAATTGTTCAATACATGAGGATTCC

                  *  *  ***              
      19155 CATTAATTTTTTGGGTACATGAGGATTCC
          1 CATTAAATTGTTCAATACATGAGGATTCC

                  
      19184 CATTAA
          1 CATTAA

      19190 TTTAGTACTT


Statistics
Matches: 29,  Mismatches: 6, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  29   29  1.00

ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39


Consensus pattern (29 bp):   
CATTAAATTGTTCAATACATGAGGATTCC

Found at i:51465 original size:8 final size:8

Alignment explanation


    Indices: 51454--51478  Score: 50
    Period size: 8  Copynumber: 3.1  Consensus size: 8

      51444 TCATATTTTC

                    
      51454 TTGGCATT
          1 TTGGCATT

                    
      51462 TTGGCATT
          1 TTGGCATT

                    
      51470 TTGGCATT
          1 TTGGCATT

             
      51478 T
          1 T

      51479 ATGTGTAGGA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   8   17  1.00

ACGTcount: A:0.12, C:0.12, G:0.24, T:0.52


Consensus pattern (8 bp):   
TTGGCATT
Done.