Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018864.1 Corchorus olitorius cultivar O-4 contig18897, 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, 806

Length: 1344
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28


Found at i:76 original size:21 final size:21

Alignment explanation


    Indices: 52--143  Score: 141
    Period size: 21  Copynumber: 4.4  Consensus size: 21

         42 CTTAGGCAAT

                         *       
         52 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                 
         73 TCCAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

            *                    
         94 CCCAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                      *           
        115 TCCAATGAGCATGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                    
        136 TCCAATGA
          1 TCCAATGA

        144 TCTCCTAGCA


Statistics
Matches: 66,  Mismatches: 4, Indels: 2
        0.92            0.06        0.03

Matches are distributed among these distances:
  20    3  0.05
  21   63  0.95

ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26


Consensus pattern (21 bp):   
TCCAATGAGCTTGGAACCTTC

Found at i:1080 original size:21 final size:21

Alignment explanation


    Indices: 1015--1085  Score: 117
    Period size: 21  Copynumber: 3.4  Consensus size: 21

       1005 CTTAGGCAAT

                                 
       1015 TCCAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

            *                    
       1036 CCCAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                  
       1057 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                    
       1078 TCCAATGA
          1 TCCAATGA

       1086 TCTCCTAACA


Statistics
Matches: 47,  Mismatches: 2, Indels: 2
        0.92            0.04        0.04

Matches are distributed among these distances:
  20    3  0.06
  21   44  0.94

ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27


Consensus pattern (21 bp):   
TCCAATGAGCTTGGAACCTTC
Done.