Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021803.1 Corchorus olitorius cultivar O-4 contig21836, 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: 8153
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:4725 original size:17 final size:17

Alignment explanation


    Indices: 4703--4738  Score: 56
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       4693 TGCTTCTGAT

                              
       4703 TATTC-ATGACATATATA
          1 TATTCAATGAC-TATATA

                             
       4720 TATTCAATGACTATATA
          1 TATTCAATGACTATATA

              
       4737 TA
          1 TA

       4739 ATATACAATT


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  17   13  0.72
  18    5  0.28

ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42


Consensus pattern (17 bp):   
TATTCAATGACTATATA

Found at i:6052 original size:33 final size:33

Alignment explanation


    Indices: 6006--6087  Score: 146
    Period size: 33  Copynumber: 2.5  Consensus size: 33

       5996 GCAGTTGCAA

                    *                        
       6006 AGGGAGAGAGAGGCTGAGGCTGCTCGGATGTAT
          1 AGGGAGAGGGAGGCTGAGGCTGCTCGGATGTAT

                                             
       6039 AGGGAGAGGGAGGCTGAGGCTGCTCGGATGTAT
          1 AGGGAGAGGGAGGCTGAGGCTGCTCGGATGTAT

             *              
       6072 AAGGAGAGGGAGGCTG
          1 AGGGAGAGGGAGGCTG

       6088 CTGCTGGTGC


Statistics
Matches: 47,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  33   47  1.00

ACGTcount: A:0.24, C:0.11, G:0.49, T:0.16


Consensus pattern (33 bp):   
AGGGAGAGGGAGGCTGAGGCTGCTCGGATGTAT

Done.