Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021529.1 Corchorus olitorius cultivar O-4 contig21562, 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: 14896
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


Found at i:4465 original size:38 final size:39

Alignment explanation


    Indices: 4400--4479  Score: 101
    Period size: 38  Copynumber: 2.1  Consensus size: 39

       4390 GTTGTTCCAA

                              **                   
       4400 TTCATGAAGGATCCAAAAGTTAAATTT-GATTTACAACT
          1 TTCATGAAGGATCCAAAAACTAAATTTGGATTTACAACT

                                   *      *         
       4438 TTCATGAAGGA-CCTAAAAACTATATTTGGGTTTACAACT
          1 TTCATGAAGGATCC-AAAAACTAAATTTGGATTTACAACT

               
       4477 TTC
          1 TTC

       4480 CGAAATTTGC


Statistics
Matches: 36,  Mismatches: 4, Indels: 3
        0.84            0.09        0.07

Matches are distributed among these distances:
  37    2  0.06
  38   21  0.58
  39   13  0.36

ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35


Consensus pattern (39 bp):   
TTCATGAAGGATCCAAAAACTAAATTTGGATTTACAACT

Found at i:11811 original size:11 final size:11

Alignment explanation


    Indices: 11795--11820  Score: 52
    Period size: 11  Copynumber: 2.4  Consensus size: 11

      11785 GACAGCATAA

                       
      11795 GCGACATACTT
          1 GCGACATACTT

                       
      11806 GCGACATACTT
          1 GCGACATACTT

                
      11817 GCGA
          1 GCGA

      11821 TAAAATTGTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   15  1.00

ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23


Consensus pattern (11 bp):   
GCGACATACTT
Done.