Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016782.1 Corchorus olitorius cultivar O-4 contig16815, 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: 8880
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34


Found at i:335 original size:70 final size:70

Alignment explanation


    Indices: 210--364  Score: 262
    Period size: 70  Copynumber: 2.2  Consensus size: 70

        200 AGATCTTGGT

                                                                             
        210 CAAGTCCTGT-CCAGGACTTGGGCTGTTAGGAACGCAGAAATACAGGACAAGACCTGGGCAGGAG
          1 CAAGTCCTGTCCCAGGACTTGGGCTGTTAGGAACGCAGAAATACAGGACAAGACCTGGGCAGGAG

                 
        274 TTACC
         66 TTACC

                                 *           *                               
        279 CAAGTCCTGTCCCA-GACTTGTGCTGTTGAGGAGCGCAGAAATACAGGACAAGACCTGGGCAGGA
          1 CAAGTCCTGTCCCAGGACTTGGGCTGTT-AGGAACGCAGAAATACAGGACAAGACCTGGGCAGGA

                  
        343 GTTACC
         65 GTTACC

                             
        349 CAAGTCCTGT-CCAGGA
          1 CAAGTCCTGTCCCAGGA

        365 GTTGTTGCGG


Statistics
Matches: 81,  Mismatches: 2, Indels: 5
        0.92            0.02        0.06

Matches are distributed among these distances:
  69   25  0.31
  70   56  0.69

ACGTcount: A:0.28, C:0.25, G:0.30, T:0.18


Consensus pattern (70 bp):   
CAAGTCCTGTCCCAGGACTTGGGCTGTTAGGAACGCAGAAATACAGGACAAGACCTGGGCAGGAG
TTACC

Found at i:6417 original size:27 final size:27

Alignment explanation


    Indices: 6369--6429  Score: 68
    Period size: 27  Copynumber: 2.3  Consensus size: 27

       6359 ATTACCAAAA

                 *           *    *    
       6369 TACCCGTGATGGACAAATTTACTATAT
          1 TACCCCTGATGGACAAAATTACGATAT

                      *  *           * 
       6396 TACCCCTGATTGATAAAATTACGATTT
          1 TACCCCTGATGGACAAAATTACGATAT

                   
       6423 TACCCCT
          1 TACCCCT

       6430 ACAATGAGGA


Statistics
Matches: 28,  Mismatches: 6, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  27   28  1.00

ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34


Consensus pattern (27 bp):   
TACCCCTGATGGACAAAATTACGATAT
Done.