Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014400.1 Corchorus olitorius cultivar O-4 contig14433, 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: 6750
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35


Found at i:3799 original size:68 final size:68

Alignment explanation


    Indices: 3690--3820  Score: 203
    Period size: 68  Copynumber: 1.9  Consensus size: 68

       3680 ACAAATAAGG

                      *                                       *              
       3690 AAAAATGGTGGGAGCACCATTAATTACATCACAATGCTAAAATTACATATTAAGACAATGCATAG
          1 AAAAATGGTGAGAGCACCATTAATTACATCACAATGCTAAAATTACATATAAAGACAATGCATAG

               
       3755 GGA
         66 GGA

                              *                                              
       3758 AAAAATGGT-AGAGACACTATTAATTACATC-CAAATGCTAAAATTACATATAAAGACAATGCAT
          1 AAAAATGGTGAGAG-CACCATTAATTACATCAC-AATGCTAAAATTACATATAAAGACAATGCAT

       3821 TTTCAAGCAA


Statistics
Matches: 58,  Mismatches: 3, Indels: 4
        0.89            0.05        0.06

Matches are distributed among these distances:
  67    4  0.07
  68   54  0.93

ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24


Consensus pattern (68 bp):   
AAAAATGGTGAGAGCACCATTAATTACATCACAATGCTAAAATTACATATAAAGACAATGCATAG
GGA

Found at i:6126 original size:21 final size:21

Alignment explanation


    Indices: 6093--6136  Score: 72
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       6083 GCCTAGCCCA

                                  
       6093 TTCTTTATTCTTCTTTTCTTTT
          1 TTCTTTATTCTTCTTTT-TTTT

                                 
       6115 TTCTTT-TTCTTCTTTTTTTT
          1 TTCTTTATTCTTCTTTTTTTT

              
       6135 TT
          1 TT

       6137 AAAGGATTGG


Statistics
Matches: 22,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  20    6  0.27
  21   10  0.45
  22    6  0.27

ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82


Consensus pattern (21 bp):   
TTCTTTATTCTTCTTTTTTTT
Done.