Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023989.1 Corchorus olitorius cultivar O-4 contig24022, 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: 14356
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34


Found at i:6 original size:1 final size:1

Alignment explanation


    Indices: 1--30  Score: 51
    Period size: 1  Copynumber: 30.0  Consensus size: 1

                       *                  
          1 AAAAAAAAAAAGAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

         31 CTGTTGGGTC


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   1   27  1.00

ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00


Consensus pattern (1 bp):   
A

Found at i:3450 original size:102 final size:101

Alignment explanation


    Indices: 3274--3580  Score: 398
    Period size: 102  Copynumber: 3.0  Consensus size: 101

       3264 TGCCAATGGT

                                     * **      *                            *
       3274 AGTTTCAACTACACAGAAGAGTTAACATTTCCAGGGCAATGCATCTTATAGAAGCTTTGTTCAAG
          1 AGTTTCAACTACACAGAAGAGTTAAAAGGTCCAGGACAA-GCATCTTATAGAAGCTTTGTTCAAT

                                           *     
       3339 TACATCATAAATCGTTTGATTTTGAGATGTCTAAGAG
         65 TACATCATAAATCGTTTGATTTTGAGATGTCAAAGAG

                                          *                       *          
       3376 AGTTTCAACTACACAGAAGAGTTAAAAGGTGCAGGACATAGCATCTTATAGAAGTTTTGTTCAAT
          1 AGTTTCAACTACACAGAAGAGTTAAAAGGTCCAGGACA-AGCATCTTATAGAAGCTTTGTTCAAT

              **        *           *            
       3441 TAGGTCATAAATTGTTTGATTTTGGGATGTCAAAGAG
         65 TACATCATAAATCGTTTGATTTTGAGATGTCAAAGAG

                                            * *         *              *     
       3478 AGTTTCAACTACACAGAAGAGTTAAAAGGTCCTGAACAAAGCATATTATAGAAGCTTTGCTCAAT
          1 AGTTTCAACTACACAGAAGAGTTAAAAGGTCCAGGAC-AAGCATCTTATAGAAGCTTTGTTCAAT

                     *   *    *      *     *     
       3543 TACATCATAGATCATTTGTTTTTGAAATGTCCAAGAG
         65 TACATCATAAATCGTTTGATTTTGAGATGTCAAAGAG

             
       3580 A
          1 A

       3581 TTCAAATTAC


Statistics
Matches: 176,  Mismatches: 27, Indels: 4
        0.85            0.13        0.02

Matches are distributed among these distances:
 102  174  0.99
 103    2  0.01

ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32


Consensus pattern (101 bp):   
AGTTTCAACTACACAGAAGAGTTAAAAGGTCCAGGACAAGCATCTTATAGAAGCTTTGTTCAATT
ACATCATAAATCGTTTGATTTTGAGATGTCAAAGAG
Done.