Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013203.1 Corchorus olitorius cultivar O-4 contig13236, 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: 4271
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32


Found at i:58 original size:11 final size:11

Alignment explanation


    Indices: 42--89  Score: 50
    Period size: 11  Copynumber: 4.7  Consensus size: 11

         32 GAAGTTCGTG

                       
         42 TTTGAAGACCA
          1 TTTGAAGACCA

                    ** 
         53 TTTGAAGATAA
          1 TTTGAAGACCA

                       
         64 TTTGAAGA-C-
          1 TTTGAAGACCA

                       
         73 -TTGAAGACCA
          1 TTTGAAGACCA

                    
         83 -TTGAAGA
          1 TTTGAAGA

         90 TTTTGATGCC


Statistics
Matches: 32,  Mismatches: 3, Indels: 5
        0.80            0.08        0.12

Matches are distributed among these distances:
   8    7  0.22
   9    1  0.03
  10    7  0.22
  11   17  0.53

ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29


Consensus pattern (11 bp):   
TTTGAAGACCA

Found at i:1477 original size:15 final size:15

Alignment explanation


    Indices: 1450--1488  Score: 69
    Period size: 15  Copynumber: 2.5  Consensus size: 15

       1440 CTTTGTTTTA

                            
       1450 TTTTCTAGTTTAATTG
          1 TTTTCT-GTTTAATTG

                           
       1466 TTTTCTGTTTAATTG
          1 TTTTCTGTTTAATTG

                    
       1481 TTTTCTGT
          1 TTTTCTGT

       1489 CAACCTCTGT


Statistics
Matches: 23,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  15   17  0.74
  16    6  0.26

ACGTcount: A:0.13, C:0.08, G:0.13, T:0.67


Consensus pattern (15 bp):   
TTTTCTGTTTAATTG
Done.