Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018204.1 Corchorus olitorius cultivar O-4 contig18237, 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: 4592
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31


Found at i:225 original size:31 final size:30

Alignment explanation


    Indices: 187--264  Score: 104
    Period size: 31  Copynumber: 2.6  Consensus size: 30

        177 AAAGAAGATT

                      *            *       
        187 ATATATTTTTTTGTTATATACTATAAATTAA
          1 ATATATTTTTATGTTATATACTACAAATT-A

                                          
        218 ATATATTTTTATGTTATATACTACAAATTA
          1 ATATATTTTTATGTTATATACTACAAATTA

                     *        
        248 ATATGATTTATAT-TTAT
          1 ATAT-ATTTTTATGTTAT

        265 TTAATATATA


Statistics
Matches: 43,  Mismatches: 3, Indels: 3
        0.88            0.06        0.06

Matches are distributed among these distances:
  30    9  0.21
  31   34  0.79

ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54


Consensus pattern (30 bp):   
ATATATTTTTATGTTATATACTACAAATTA

Found at i:323 original size:2 final size:2

Alignment explanation


    Indices: 316--347  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

        306 CGTGCTTTAA

                                                           
        316 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

        348 TAAGCAGCCT


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

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


Consensus pattern (2 bp):   
AT

Done.