Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016998.1 Corchorus olitorius cultivar O-4 contig17031, 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: 7399
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32


Found at i:1579 original size:11 final size:11

Alignment explanation


    Indices: 1563--1596  Score: 50
    Period size: 11  Copynumber: 3.1  Consensus size: 11

       1553 CAATGGCCTT

                       
       1563 TTCTTTTCTTC
          1 TTCTTTTCTTC

                   *  *
       1574 TTCTTTTTTTT
          1 TTCTTTTCTTC

                       
       1585 TTCTTTTCTTC
          1 TTCTTTTCTTC

             
       1596 T
          1 T

       1597 CCTACTAGCT


Statistics
Matches: 19,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  11   19  1.00

ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79


Consensus pattern (11 bp):   
TTCTTTTCTTC

Found at i:6210 original size:13 final size:13

Alignment explanation


    Indices: 6177--6229  Score: 60
    Period size: 12  Copynumber: 4.4  Consensus size: 13

       6167 ACACCCAAAA

                        *
       6177 CATTTAT-TAAAA
          1 CATTTATATAAAG

                         
       6189 CATTT-TATAAAG
          1 CATTTATATAAAG

                         
       6201 CATTTATATAAAG
          1 CATTTATATAAAG

              *          
       6214 CAGTTATA-AAA-
          1 CATTTATATAAAG

                 
       6225 CATTT
          1 CATTT

       6230 CCTCAACGGG


Statistics
Matches: 36,  Mismatches: 3, Indels: 5
        0.82            0.07        0.11

Matches are distributed among these distances:
  11    5  0.14
  12   17  0.47
  13   14  0.39

ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40


Consensus pattern (13 bp):   
CATTTATATAAAG
Done.