Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014792.1 Corchorus capsularis cultivar CVL-1 contig14813, 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: 6522
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32


Found at i:3413 original size:25 final size:28

Alignment explanation


    Indices: 3365--3417  Score: 76
    Period size: 25  Copynumber: 2.0  Consensus size: 28

       3355 TAGATTTAGA

                                        
       3365 TTTAGATTTAATTTGCTTTGCTTTATTT
          1 TTTAGATTTAATTTGCTTTGCTTTATTT

                               *        
       3393 TTTAG-TTTAA-TTG-TTTTCTTTATTT
          1 TTTAGATTTAATTTGCTTTGCTTTATTT

       3418 GTTTTTATTT


Statistics
Matches: 24,  Mismatches: 1, Indels: 3
        0.86            0.04        0.11

Matches are distributed among these distances:
  25   11  0.46
  26    3  0.12
  27    5  0.21
  28    5  0.21

ACGTcount: A:0.17, C:0.06, G:0.09, T:0.68


Consensus pattern (28 bp):   
TTTAGATTTAATTTGCTTTGCTTTATTT

Found at i:3461 original size:34 final size:34

Alignment explanation


    Indices: 3391--3461  Score: 97
    Period size: 34  Copynumber: 2.1  Consensus size: 34

       3381 TTTGCTTTAT

                                     ***  **  
       3391 TTTTTAGTTTAATTGTTTTCTTTATTTGTTTTTA
          1 TTTTTAGTTTAATTGTTTTCTTTATAAATTGATA

                                              
       3425 TTTTTAGTTTAATTGTTTTCTTTATAAATTGATA
          1 TTTTTAGTTTAATTGTTTTCTTTATAAATTGATA

               
       3459 TTT
          1 TTT

       3462 ACAATCCCCT


Statistics
Matches: 32,  Mismatches: 5, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  34   32  1.00

ACGTcount: A:0.20, C:0.03, G:0.08, T:0.69


Consensus pattern (34 bp):   
TTTTTAGTTTAATTGTTTTCTTTATAAATTGATA

Found at i:4747 original size:6 final size:6

Alignment explanation


    Indices: 4738--4764  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

       4728 AAAGCAAAGC

                                           
       4738 AAATCT AAATCT AAATCT AAATCT AAA
          1 AAATCT AAATCT AAATCT AAATCT AAA

       4765 GCAAATTAAT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30


Consensus pattern (6 bp):   
AAATCT

Done.