Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012274.1 Corchorus olitorius cultivar O-4 contig12307, 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: 7096
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32


Found at i:4772 original size:38 final size:38

Alignment explanation


    Indices: 4702--4814  Score: 201
    Period size: 38  Copynumber: 3.0  Consensus size: 38

       4692 GGAGGAAAAG

                               *                  
       4702 TCATGTAAAGGCGTGGA-TAGACATAGCAAACAATCAT
          1 TCATGTAAAGGCGTGGATTCGACATAGCAAACAATCAT

                                                  
       4739 TCATGTAAAGGCGTGGATTCGACATAGCAAACAATCAT
          1 TCATGTAAAGGCGTGGATTCGACATAGCAAACAATCAT

                        *                         
       4777 TCATGTAAAGGCATGGATTCGACATAGCAAACAATCAT
          1 TCATGTAAAGGCGTGGATTCGACATAGCAAACAATCAT

       4815 ATAGTGACAG


Statistics
Matches: 73,  Mismatches: 2, Indels: 1
        0.96            0.03        0.01

Matches are distributed among these distances:
  37   17  0.23
  38   56  0.77

ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23


Consensus pattern (38 bp):   
TCATGTAAAGGCGTGGATTCGACATAGCAAACAATCAT

Found at i:5952 original size:15 final size:16

Alignment explanation


    Indices: 5932--5966  Score: 63
    Period size: 15  Copynumber: 2.2  Consensus size: 16

       5922 TGAATTGAAG

                            
       5932 CACTATATTCTTC-AT
          1 CACTATATTCTTCAAT

                            
       5947 CACTATATTCTTCAAT
          1 CACTATATTCTTCAAT

                
       5963 CACT
          1 CACT

       5967 TAGAATAACA


Statistics
Matches: 19,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  15   13  0.68
  16    6  0.32

ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43


Consensus pattern (16 bp):   
CACTATATTCTTCAAT

Done.