Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004986.1 Corchorus capsularis cultivar CVL-1 contig05004, 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: 4078
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32


Found at i:1907 original size:21 final size:21

Alignment explanation


    Indices: 1883--1922  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1873 AAGGGTAATA

                                 
       1883 GAAAAAAAAAAGGAATTTTAG
          1 GAAAAAAAAAAGGAATTTTAG

                 **  *         
       1904 GAAAATTAATAGGAATTTT
          1 GAAAAAAAAAAGGAATTTT

       1923 GTTAGTAATA


Statistics
Matches: 16,  Mismatches: 3, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   16  1.00

ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28


Consensus pattern (21 bp):   
GAAAAAAAAAAGGAATTTTAG

Found at i:2468 original size:21 final size:19

Alignment explanation


    Indices: 2437--2486  Score: 57
    Period size: 18  Copynumber: 2.5  Consensus size: 19

       2427 ATATATATTT

                           *      
       2437 TTTATTTATTTTTAACTCATTA
          1 TTTA-TTATTTTTAAAT-A-TA

                               
       2459 TTTATTA-TTTTAAATATA
          1 TTTATTATTTTTAAATATA

                      
       2477 TTTATTATTT
          1 TTTATTATTT

       2487 ATTTATTAAT


Statistics
Matches: 26,  Mismatches: 1, Indels: 5
        0.81            0.03        0.16

Matches are distributed among these distances:
  18    9  0.35
  19    3  0.12
  20    7  0.27
  21    3  0.12
  22    4  0.15

ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66


Consensus pattern (19 bp):   
TTTATTATTTTTAAATATA
Done.