Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011535.1 Corchorus olitorius cultivar O-4 contig11568, 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: 4132
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27


Found at i:2277 original size:17 final size:16

Alignment explanation


    Indices: 2252--2298  Score: 55
    Period size: 13  Copynumber: 3.1  Consensus size: 16

       2242 TGTTGGCGCG

                *            
       2252 TATCAACTGATTTATCT
          1 TATCGACTGATTTAT-T

                            
       2269 TATCGACTGA--T-TT
          1 TATCGACTGATTTATT

                            
       2282 TATCGACTGATTTATT
          1 TATCGACTGATTTATT

             
       2298 T
          1 T

       2299 TATACGCAAT


Statistics
Matches: 26,  Mismatches: 1, Indels: 7
        0.76            0.03        0.21

Matches are distributed among these distances:
  13   11  0.42
  14    1  0.04
  15    2  0.08
  16    3  0.12
  17    9  0.35

ACGTcount: A:0.26, C:0.15, G:0.11, T:0.49


Consensus pattern (16 bp):   
TATCGACTGATTTATT

Found at i:2299 original size:17 final size:17

Alignment explanation


    Indices: 2252--2301  Score: 54
    Period size: 17  Copynumber: 3.2  Consensus size: 17

       2242 TGTTGGCGCG

                *          * 
       2252 TATCAACTGATTTATCT
          1 TATCGACTGATTTATTT

                             
       2269 TATCGACTG----ATTT
          1 TATCGACTGATTTATTT

                             
       2282 TATCGACTGATTTATTT
          1 TATCGACTGATTTATTT

               
       2299 TAT
          1 TAT

       2302 ACGCAATTAC


Statistics
Matches: 27,  Mismatches: 2, Indels: 8
        0.73            0.05        0.22

Matches are distributed among these distances:
  13   12  0.44
  17   15  0.56

ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50


Consensus pattern (17 bp):   
TATCGACTGATTTATTT
Done.