Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001488.1 Corchorus olitorius cultivar O-4 contig01488, 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, 705

Length: 1175
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38


Found at i:500 original size:2 final size:2

Alignment explanation


    Indices: 493--542  Score: 70
    Period size: 2  Copynumber: 26.5  Consensus size: 2

        483 ATTGTTGTAA

                                                                          
        493 AT AT AT AT A- AT -T AT AT AT AT AT AT AT -T AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

                     *      
        532 AT AT AT CT AT A
          1 AT AT AT AT AT A

        543 CCTAACCTTA


Statistics
Matches: 43,  Mismatches: 2, Indels: 6
        0.84            0.04        0.12

Matches are distributed among these distances:
   1    3  0.07
   2   40  0.93

ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:688 original size:19 final size:21

Alignment explanation


    Indices: 635--691  Score: 73
    Period size: 22  Copynumber: 2.8  Consensus size: 21

        625 ATTCGAAATT

                                  
        635 TCTCTATTTGGTACCCACATCC
          1 TCTCTATTTGGTACCCACA-CC

                    *            
        657 TCTCTATTCGGTACCCAC-CC
          1 TCTCTATTTGGTACCCACACC

                 *          
        677 -CTCTGTTTGGTACCC
          1 TCTCTATTTGGTACCC

        692 GTTTCCACTC


Statistics
Matches: 32,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
  19   13  0.41
  20    2  0.06
  22   17  0.53

ACGTcount: A:0.14, C:0.39, G:0.12, T:0.35


Consensus pattern (21 bp):   
TCTCTATTTGGTACCCACACC
Done.