Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013688.1 Corchorus capsularis cultivar CVL-1 contig13709, 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: 29883
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:13218 original size:1 final size:1

Alignment explanation


    Indices: 13214--13251  Score: 76
    Period size: 1  Copynumber: 38.0  Consensus size: 1

      13204 TTTTTTAAAG

                                                  
      13214 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT

      13252 CTATACAAAT


Statistics
Matches: 37,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   37  1.00

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


Consensus pattern (1 bp):   
T

Found at i:20292 original size:18 final size:18

Alignment explanation


    Indices: 20257--20293  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

      20247 AGCAGACCAC

                       * *    
      20257 GAAGAAGAAGAGGCGGAG
          1 GAAGAAGAAGACGAGGAG

                              
      20275 GAAGAAGAAGACGAGGAG
          1 GAAGAAGAAGACGAGGAG

             
      20293 G
          1 G

      20294 CATCACCATG


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   17  1.00

ACGTcount: A:0.46, C:0.05, G:0.49, T:0.00


Consensus pattern (18 bp):   
GAAGAAGAAGACGAGGAG

Found at i:20749 original size:5 final size:5

Alignment explanation


    Indices: 20716--20749  Score: 50
    Period size: 5  Copynumber: 6.8  Consensus size: 5

      20706 GGGGAAGAGA

                        *        *                  
      20716 AAAAG AAAAG GAAAG AAAGG AAAAG AAAAG AAAA
          1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA

      20750 TAGAAGACAG


Statistics
Matches: 25,  Mismatches: 4, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
   5   25  1.00

ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00


Consensus pattern (5 bp):   
AAAAG
Done.