Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022365.1 Corchorus olitorius cultivar O-4 contig22398, 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: 2562
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30


Found at i:520 original size:15 final size:16

Alignment explanation


    Indices: 490--529  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

        480 TTACTCTGCT

                            
        490 TTGTTTTCTAGTTTAA
          1 TTGTTTTCTAGTTTAA

                     *      
        506 TTGTTTT-TTGTTTAA
          1 TTGTTTTCTAGTTTAA

               *     
        521 TTGCTTTCT
          1 TTGTTTTCT

        530 GTCAATCTCT


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  15   13  0.62
  16    8  0.38

ACGTcount: A:0.12, C:0.07, G:0.12, T:0.68


Consensus pattern (16 bp):   
TTGTTTTCTAGTTTAA

Found at i:938 original size:23 final size:23

Alignment explanation


    Indices: 908--967  Score: 77
    Period size: 24  Copynumber: 2.6  Consensus size: 23

        898 TCGAAAAAAG

                          *        
        908 AAAAAAAAATATTTTTGCGTCAT
          1 AAAAAAAAATATTTCTGCGTCAT

                                     
        931 AAAAAAAAAT-TGATTCTGCGTCAT
          1 AAAAAAAAATAT--TTCTGCGTCAT

                    *    
        955 AAAAAAAATTATT
          1 AAAAAAAAATATT

        968 GTTCCTGCGT


Statistics
Matches: 32,  Mismatches: 2, Indels: 6
        0.80            0.05        0.15

Matches are distributed among these distances:
  22    1  0.03
  23   11  0.34
  24   19  0.59
  25    1  0.03

ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32


Consensus pattern (23 bp):   
AAAAAAAAATATTTCTGCGTCAT
Done.