Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005004.1 Corchorus capsularis cultivar CVL-1 contig05022, 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: 19335
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31


Found at i:17956 original size:1 final size:1

Alignment explanation


    Indices: 17950--17982  Score: 66
    Period size: 1  Copynumber: 33.0  Consensus size: 1

      17940 AGATAGATAT

                                             
      17950 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

      17983 GCCCTGATCA


Statistics
Matches: 32,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   32  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Found at i:18789 original size:18 final size:18

Alignment explanation


    Indices: 18744--18787  Score: 65
    Period size: 18  Copynumber: 2.6  Consensus size: 18

      18734 ATTTATTTAT

                        *     
      18744 ATTTTTTTTTGAGATATA
          1 ATTTTTTTTTGAAATATA

                              
      18762 ATTTTTTTTTGAAATAT-
          1 ATTTTTTTTTGAAATATA

                      
      18779 -TTTTTTTTT
          1 ATTTTTTTTT

      18788 TTTGATCATA


Statistics
Matches: 25,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  16    9  0.36
  18   16  0.64

ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70


Consensus pattern (18 bp):   
ATTTTTTTTTGAAATATA
Done.