Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013767.1 Corchorus olitorius cultivar O-4 contig13800, 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: 2669
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37


Found at i:813 original size:11 final size:11

Alignment explanation


    Indices: 797--836  Score: 55
    Period size: 11  Copynumber: 3.6  Consensus size: 11

        787 AAGTTCGTGT

                       
        797 TTGAAGACTTA
          1 TTGAAGACTTA

                     * 
        808 TTGAAGA-TAA
          1 TTGAAGACTTA

                        
        818 TTTGAAGACTTA
          1 -TTGAAGACTTA

                   
        830 TTGAAGA
          1 TTGAAGA

        837 TAATTTGAAG


Statistics
Matches: 25,  Mismatches: 2, Indels: 4
        0.81            0.06        0.13

Matches are distributed among these distances:
  10    2  0.08
  11   21  0.84
  12    2  0.08

ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35


Consensus pattern (11 bp):   
TTGAAGACTTA

Found at i:821 original size:22 final size:22

Alignment explanation


    Indices: 796--847  Score: 104
    Period size: 22  Copynumber: 2.4  Consensus size: 22

        786 GAAGTTCGTG

                                  
        796 TTTGAAGACTTATTGAAGATAA
          1 TTTGAAGACTTATTGAAGATAA

                                  
        818 TTTGAAGACTTATTGAAGATAA
          1 TTTGAAGACTTATTGAAGATAA

                    
        840 TTTGAAGA
          1 TTTGAAGA

        848 TTTGAAGACC


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   30  1.00

ACGTcount: A:0.40, C:0.04, G:0.19, T:0.37


Consensus pattern (22 bp):   
TTTGAAGACTTATTGAAGATAA

Found at i:844 original size:11 final size:11

Alignment explanation


    Indices: 808--848  Score: 57
    Period size: 11  Copynumber: 3.7  Consensus size: 11

        798 TGAAGACTTA

                       
        808 TTGAAGATAAT
          1 TTGAAGATAAT

                     *  
        819 TTGAAGACTTA-
          1 TTGAAGA-TAAT

                       
        830 TTGAAGATAAT
          1 TTGAAGATAAT

                    
        841 TTGAAGAT
          1 TTGAAGAT

        849 TTGAAGACCA


Statistics
Matches: 26,  Mismatches: 2, Indels: 4
        0.81            0.06        0.12

Matches are distributed among these distances:
  10    2  0.08
  11   22  0.85
  12    2  0.08

ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37


Consensus pattern (11 bp):   
TTGAAGATAAT
Done.