Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005202.1 Corchorus capsularis cultivar CVL-1 contig05220, 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, 880

Length: 1467
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.41


Found at i:412 original size:20 final size:20

Alignment explanation


    Indices: 375--412  Score: 51
    Period size: 20  Copynumber: 1.9  Consensus size: 20

        365 AATATAACAT

                       *        
        375 TTTTTTATAACTTGTATAGC
          1 TTTTTTATAACCTGTATAGC

                               
        395 TTTTTTAGTAACCT-TATA
          1 TTTTTTA-TAACCTGTATA

        413 TATATATATA


Statistics
Matches: 16,  Mismatches: 1, Indels: 2
        0.84            0.05        0.11

Matches are distributed among these distances:
  20   11  0.69
  21    5  0.31

ACGTcount: A:0.26, C:0.11, G:0.08, T:0.55


Consensus pattern (20 bp):   
TTTTTTATAACCTGTATAGC

Found at i:414 original size:2 final size:2

Alignment explanation


    Indices: 409--433  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

        399 TTAGTAACCT

                                                 
        409 TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA T

        434 GAAGATTGGT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:1200 original size:2 final size:2

Alignment explanation


    Indices: 1193--1224  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       1183 TCATTACTAG

                                                           
       1193 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       1225 GTCATCTAAA


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Done.