Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001852.1 Corchorus olitorius cultivar O-4 contig01852, 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, 882

Length: 1470
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24


Found at i:271 original size:69 final size:70

Alignment explanation


    Indices: 176--336  Score: 252
    Period size: 69  Copynumber: 2.3  Consensus size: 70

        166 ATTTTCCGCA

                *                         *                          *       
        176 ACAACTCCTGGACAGGACTTGGGTAACTCCTGCCCAGGTCTTGTCCTGTA-ATTTGCGCTCCTCA
          1 ACAAGTCCTGGACAGGACTTGGGTAACTCCCGCCCAGGTCTTGTCCTGTATATTTGCACTCCTCA

                 
        240 ACAGC
         66 ACAGC

                    *                                          *      *      
        245 ACAAGTCCGGGACAGGACTTGGGTAACTCCCGCCCAGGTCTTGTCCTGTATTTTTGCATTCCTCA
          1 ACAAGTCCTGGACAGGACTTGGGTAACTCCCGCCCAGGTCTTGTCCTGTATATTTGCACTCCTCA

                 
        310 ACAGC
         66 ACAGC

            *                     
        315 CCAAGTCCTGGACAGGACTTGG
          1 ACAAGTCCTGGACAGGACTTGG

        337 CCAAGATCTG


Statistics
Matches: 83,  Mismatches: 8, Indels: 1
        0.90            0.09        0.01

Matches are distributed among these distances:
  69   47  0.57
  70   36  0.43

ACGTcount: A:0.20, C:0.30, G:0.24, T:0.25


Consensus pattern (70 bp):   
ACAAGTCCTGGACAGGACTTGGGTAACTCCCGCCCAGGTCTTGTCCTGTATATTTGCACTCCTCA
ACAGC

Found at i:368 original size:70 final size:70

Alignment explanation


    Indices: 176--368  Score: 156
    Period size: 70  Copynumber: 2.8  Consensus size: 70

        166 ATTTTCCGCA

                *   *             **  *   *  *    *         *  *     **      
        176 ACAACTCCTGGACAGGACTTGGGTAACTCCTGCCCAGGTCTTGTCCTGTA-ATTTGCGCTCCTCA
          1 ACAAGTCCGGGACAGGACTTGGCCAAATCCCGCACAGGACTTGTCCTGCATTTTTGCATTCCTCA

                 
        240 ACAGC
         66 ACAGC

                                  **  *      *    *         *                
        245 ACAAGTCCGGGACAGGACTTGGGTAACTCCCGCCCAGGTCTTGTCCTGTATTTTTGCATTCCTCA
          1 ACAAGTCCGGGACAGGACTTGGCCAAATCCCGCACAGGACTTGTCCTGCATTTTTGCATTCCTCA

                 
        310 ACAGC
         66 ACAGC

            *       *                      * *           *         
        315 CCAAGTCCTGGACAGGACTTGGCCAAGAT-CTGGACAGGACTTGTTCTGCATTTT
          1 ACAAGTCCGGGACAGGACTTGGCCAA-ATCCCGCACAGGACTTGTCCTGCATTTT

        369 CATTTCTCTT


Statistics
Matches: 105,  Mismatches: 17, Indels: 3
        0.84            0.14        0.02

Matches are distributed among these distances:
  69   47  0.45
  70   57  0.54
  71    1  0.01

ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27


Consensus pattern (70 bp):   
ACAAGTCCGGGACAGGACTTGGCCAAATCCCGCACAGGACTTGTCCTGCATTTTTGCATTCCTCA
ACAGC
Done.