Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008152.1 Corchorus olitorius cultivar O-4 contig08179, 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, 825

Length: 1375
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34


Found at i:781 original size:33 final size:33

Alignment explanation


    Indices: 744--853  Score: 123
    Period size: 33  Copynumber: 3.3  Consensus size: 33

        734 ATTAGCATCC

                                              
        744 AAAACAGAATTT-GTTTCATCACAAACAACACCT
          1 AAAACA-AATTTAGTTTCATCACAAACAACACCT

                          *                * 
        777 AAAACAAATTTAGTGTCATCACAAACAACACTT
          1 AAAACAAATTTAGTTTCATCACAAACAACACCT

               ** **      *       *       *  
        810 AAATTAGGTTTAGTATCATCACTAACAACATCT
          1 AAAACAAATTTAGTTTCATCACAAACAACACCT

                       
        843 AAAACAAATTT
          1 AAAACAAATTT

        854 CATGTCATTG


Statistics
Matches: 62,  Mismatches: 14, Indels: 2
        0.79            0.18        0.03

Matches are distributed among these distances:
  32    5  0.08
  33   57  0.92

ACGTcount: A:0.46, C:0.20, G:0.06, T:0.27


Consensus pattern (33 bp):   
AAAACAAATTTAGTTTCATCACAAACAACACCT

Found at i:831 original size:66 final size:66

Alignment explanation


    Indices: 759--885  Score: 184
    Period size: 66  Copynumber: 1.9  Consensus size: 66

        749 AGAATTTGTT

                                                               *    *        
        759 TCATCACAAACAACACCTAAAACAAATTT-AGTGTCATCACAAACAACACTTAAATTAGGTTTAG
          1 TCATCACAAACAACACCTAAAACAAATTTCA-TGTCATCACAAACAACACTCAAATCAGGTTTAG

              
        823 TA
         65 TA

                   *       *                     **                      
        825 TCATCACTAACAACATCTAAAACAAATTTCATGTCATTGCAAACAACACTCAAATCAGGTT
          1 TCATCACAAACAACACCTAAAACAAATTTCATGTCATCACAAACAACACTCAAATCAGGTT

        886 CAGAATTACT


Statistics
Matches: 54,  Mismatches: 6, Indels: 2
        0.87            0.10        0.03

Matches are distributed among these distances:
  66   53  0.98
  67    1  0.02

ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26


Consensus pattern (66 bp):   
TCATCACAAACAACACCTAAAACAAATTTCATGTCATCACAAACAACACTCAAATCAGGTTTAGT
A
Done.