Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023419.1 Corchorus olitorius cultivar O-4 contig23452, 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: 7353
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31


Found at i:2085 original size:21 final size:21

Alignment explanation


    Indices: 2061--2130  Score: 115
    Period size: 21  Copynumber: 3.3  Consensus size: 21

       2051 TTAGGCAATC

                        *        
       2061 CCAATGAGCTTGAAACCTTCT
          1 CCAATGAGCTTGGAACCTTCT

                                 
       2082 CCAATGAGCTTGGAACCTTCT
          1 CCAATGAGCTTGGAACCTTCT

                                  
       2103 CCAATGAGCTTGGAA-CTTGCT
          1 CCAATGAGCTTGGAACCTT-CT

                   
       2124 CCAATGA
          1 CCAATGA

       2131 TCTCCTAGCA


Statistics
Matches: 47,  Mismatches: 1, Indels: 2
        0.94            0.02        0.04

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

ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27


Consensus pattern (21 bp):   
CCAATGAGCTTGGAACCTTCT

Found at i:6205 original size:29 final size:30

Alignment explanation


    Indices: 6162--6230  Score: 95
    Period size: 29  Copynumber: 2.3  Consensus size: 30

       6152 GCGCCGTTGC

                                          
       6162 CGGGGAAGGGTAACTTTTTCTGGTATTTGA
          1 CGGGGAAGGGTAACTTTTTCTGGTATTTGA

                  *                 *    *
       6192 CGGGGATGGG-AACTTTTTCTGGTTTTTGC
          1 CGGGGAAGGGTAACTTTTTCTGGTATTTGA

                      
       6221 CAGGGGAAGG
          1 C-GGGGAAGG

       6231 AAAATAGACT


Statistics
Matches: 34,  Mismatches: 4, Indels: 2
        0.85            0.10        0.05

Matches are distributed among these distances:
  29   18  0.53
  30   16  0.47

ACGTcount: A:0.17, C:0.12, G:0.38, T:0.33


Consensus pattern (30 bp):   
CGGGGAAGGGTAACTTTTTCTGGTATTTGA

Done.