Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000365.1 Corchorus capsularis cultivar CVL-1 contig00365, 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: 10882
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31


Found at i:8416 original size:11 final size:11

Alignment explanation


    Indices: 8400--8424  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

       8390 TAAACATCAT

                       
       8400 TATAAGACTAA
          1 TATAAGACTAA

                       
       8411 TATAAGACTAA
          1 TATAAGACTAA

               
       8422 TAT
          1 TAT

       8425 GGGAAAAGAA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32


Consensus pattern (11 bp):   
TATAAGACTAA

Found at i:10472 original size:13 final size:13

Alignment explanation


    Indices: 10454--10478  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

      10444 AATTTTTTTA

                         
      10454 AATATTATATTTG
          1 AATATTATATTTG

                        
      10467 AATATTATATTT
          1 AATATTATATTT

      10479 ATCTTATAAT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56


Consensus pattern (13 bp):   
AATATTATATTTG

Found at i:10525 original size:29 final size:29

Alignment explanation


    Indices: 10483--10542  Score: 102
    Period size: 29  Copynumber: 2.1  Consensus size: 29

      10473 ATATTTATCT

                             *        *  
      10483 TATAATGGGTAGTTTTTTTCTAAAATTGG
          1 TATAATGGGTAGTTTTTATCTAAAATGGG

                                         
      10512 TATAATGGGTAGTTTTTATCTAAAATGGG
          1 TATAATGGGTAGTTTTTATCTAAAATGGG

              
      10541 TA
          1 TA

      10543 GTTTTTATTT


Statistics
Matches: 29,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  29   29  1.00

ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45


Consensus pattern (29 bp):   
TATAATGGGTAGTTTTTATCTAAAATGGG
Done.