Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013642.1 Corchorus olitorius cultivar O-4 contig13675, 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: 17838
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29


Found at i:227 original size:32 final size:32

Alignment explanation


    Indices: 191--261  Score: 97
    Period size: 32  Copynumber: 2.2  Consensus size: 32

        181 AGATTGATAG

                    *     *          *      
        191 ACAAAATAGCCCTCGAATTTTGACATAGAAGA
          1 ACAAAATAACCCTCAAATTTTGACAAAGAAGA

                                        *  *
        223 ACAAAATAACCCTCAAATTTTGACAAAGTAGG
          1 ACAAAATAACCCTCAAATTTTGACAAAGAAGA

                   
        255 ACAAAAT
          1 ACAAAAT

        262 GTTCTTTGAA


Statistics
Matches: 34,  Mismatches: 5, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  32   34  1.00

ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21


Consensus pattern (32 bp):   
ACAAAATAACCCTCAAATTTTGACAAAGAAGA

Found at i:17700 original size:58 final size:58

Alignment explanation


    Indices: 17605--17719  Score: 151
    Period size: 58  Copynumber: 2.0  Consensus size: 58

      17595 ATTAATCAAA

                                                          *           
      17605 TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTCGGACCAAGACT
          1 TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCAAGACT

                *            *            *  *      *            *    
      17663 TATCGAGTGACATGTTTTTTTATTAGATGCCT-GAAAAAGGCGTTTTAGGACCGAGAC
          1 TATCAAGTGACATG-TTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCAAGAC

      17720 ATGATGCTAT


Statistics
Matches: 49,  Mismatches: 7, Indels: 2
        0.84            0.12        0.03

Matches are distributed among these distances:
  58   34  0.69
  59   15  0.31

ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32


Consensus pattern (58 bp):   
TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCAAGACT
Done.