Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001777.1 Corchorus olitorius cultivar O-4 contig01777, 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, 982

Length: 1637
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32


Found at i:124 original size:42 final size:42

Alignment explanation


    Indices: 52--162  Score: 142
    Period size: 42  Copynumber: 2.7  Consensus size: 42

         42 TGATAAGTTT

                         *                              
         52 ATCAT-CATATCCATTG-ATATATG-TCATACATCC-TCCATGC
          1 ATCATCCAT-TCCTTTGTATATATGTTCATACATCCAT-CATGC

                                                   *   
         92 ATCATCCATGT-CTTTGTATATATGTTCATACATCCATCGTGC
          1 ATCATCCAT-TCCTTTGTATATATGTTCATACATCCATCATGC

                                         
        134 ATCATCCATTCCTTTGTATATATGTTCAT
          1 ATCATCCATTCCTTTGTATATATGTTCAT

        163 GCATAGGTCG


Statistics
Matches: 63,  Mismatches: 3, Indels: 8
        0.85            0.04        0.11

Matches are distributed among these distances:
  40    9  0.14
  41   12  0.19
  42   41  0.65
  43    1  0.02

ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41


Consensus pattern (42 bp):   
ATCATCCATTCCTTTGTATATATGTTCATACATCCATCATGC

Found at i:174 original size:42 final size:42

Alignment explanation


    Indices: 52--186  Score: 136
    Period size: 42  Copynumber: 3.3  Consensus size: 42

         42 TGATAAGTTT

                         *                      *   *   
         52 ATCAT-CATATCCATTG-ATATATG-TCATACAT-CCTCCATGC
          1 ATCATCCAT-TCCTTTGTATATATGTTCATACATACAT-CGTGC

                                              *        
         92 ATCATCCATGT-CTTTGTATATATGTTCATACATCCATCGTGC
          1 ATCATCCAT-TCCTTTGTATATATGTTCATACATACATCGTGC

                                         *    **      
        134 ATCATCCATTCCTTTGTATATATGTTCATGCATAGGTCGTGC
          1 ATCATCCATTCCTTTGTATATATGTTCATACATACATCGTGC

              *        
        176 ATTATCCATTC
          1 ATCATCCATTC

        187 ATTACTACAT


Statistics
Matches: 81,  Mismatches: 9, Indels: 8
        0.83            0.09        0.08

Matches are distributed among these distances:
  40    9  0.11
  41   12  0.15
  42   58  0.72
  43    2  0.02

ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39


Consensus pattern (42 bp):   
ATCATCCATTCCTTTGTATATATGTTCATACATACATCGTGC
Done.