Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023694.1 Corchorus olitorius cultivar O-4 contig23727, 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: 8211
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29


Found at i:1669 original size:38 final size:38

Alignment explanation


    Indices: 1573--1713  Score: 228
    Period size: 38  Copynumber: 3.7  Consensus size: 38

       1563 GGCTGTGCAT

                                          *        
       1573 AGTGGACCCGTACCTCAGGGGGTTAAACTGATGGTAAAG
          1 AGTGGACCCGTACCTCAGGGGGTTAAACTGTTGGT-AAG

                     *    *                       
       1612 AGTGGACCCATACCACAGGGGGTTAAACTGTTGGTAAG
          1 AGTGGACCCGTACCTCAGGGGGTTAAACTGTTGGTAAG

                       *                          
       1650 AGTGGACCCGTGCCTCAGGGGGTTAAACTGTTGGTAAG
          1 AGTGGACCCGTACCTCAGGGGGTTAAACTGTTGGTAAG

                       *              
       1688 AGTGGACCCGTGCCTCAGGGGGTTAA
          1 AGTGGACCCGTACCTCAGGGGGTTAA

       1714 CCGTTGGCTA


Statistics
Matches: 96,  Mismatches: 6, Indels: 1
        0.93            0.06        0.01

Matches are distributed among these distances:
  38   64  0.67
  39   32  0.33

ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21


Consensus pattern (38 bp):   
AGTGGACCCGTACCTCAGGGGGTTAAACTGTTGGTAAG

Found at i:1761 original size:6 final size:6

Alignment explanation


    Indices: 1750--1799  Score: 100
    Period size: 6  Copynumber: 8.3  Consensus size: 6

       1740 CGTTAACGGA

                                                                   
       1750 TGATTG TGATTG TGATTG TGATTG TGATTG TGATTG TGATTG TGATTG
          1 TGATTG TGATTG TGATTG TGATTG TGATTG TGATTG TGATTG TGATTG

              
       1798 TG
          1 TG

       1800 GTGCAGCCTG


Statistics
Matches: 44,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   44  1.00

ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50


Consensus pattern (6 bp):   
TGATTG

Done.