Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007706.1 Corchorus olitorius cultivar O-4 contig07732, 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: 4761
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35


Found at i:1038 original size:21 final size:21

Alignment explanation


    Indices: 1012--1052  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       1002 TGAAGTTGTG

                      *          
       1012 AGATTAAACATTGTACAGATC
          1 AGATTAAACACTGTACAGATC

                           *    
       1033 AGATTAAACACTGTATAGAT
          1 AGATTAAACACTGTACAGAT

       1053 AAGAATATAA


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29


Consensus pattern (21 bp):   
AGATTAAACACTGTACAGATC

Found at i:1904 original size:24 final size:26

Alignment explanation


    Indices: 1872--1931  Score: 88
    Period size: 24  Copynumber: 2.3  Consensus size: 26

       1862 TTTGTTCCTA

                                      
       1872 GTTTTTCATTTTCATTG-AG-TTTAT
          1 GTTTTTCATTTTCATTGCAGATTTAT

                         *             
       1896 GTTTTTCATTTTCCTTGTCAGATTTAT
          1 GTTTTTCATTTTCATTG-CAGATTTAT

                     
       1923 GTTTTTCAT
          1 GTTTTTCAT

       1932 ATTATAAGTG


Statistics
Matches: 32,  Mismatches: 1, Indels: 3
        0.89            0.03        0.08

Matches are distributed among these distances:
  24   16  0.50
  26    2  0.06
  27   14  0.44

ACGTcount: A:0.15, C:0.12, G:0.12, T:0.62


Consensus pattern (26 bp):   
GTTTTTCATTTTCATTGCAGATTTAT

Done.