Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024535.1 Corchorus olitorius cultivar O-4 contig24568, 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: 2153
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29


Found at i:2067 original size:23 final size:23

Alignment explanation


    Indices: 2002--2117  Score: 73
    Period size: 23  Copynumber: 5.0  Consensus size: 23

       1992 GCAACATCAC

                                    
       2002 CCATCCTGATGGTATAAATTTCTT
          1 CCATCCTGATGGTATAAATTTC-T

                     *      **       
       2026 CACA-CCATCA-GG-ACCAATTTCT
          1 C-CATCC-TGATGGTATAAATTTCT

                                    
       2048 CCATCCTGATGGTATAAATTTCTT
          1 CCATCCTGATGGTATAAATTTC-T

                     *      **       
       2072 CACA-CCATCA-GG-ACCAATTTCT
          1 C-CATCC-TGATGGTATAAATTTCT

                                    
       2094 CCATCCTGATGGTATAAAATTTCT
          1 CCATCCTGATGGTAT-AAATTTCT

       2118 TCACACCATC


Statistics
Matches: 68,  Mismatches: 12, Indels: 24
        0.65            0.12        0.23

Matches are distributed among these distances:
  21    8  0.12
  22   12  0.18
  23   22  0.32
  24   18  0.26
  25    8  0.12

ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34


Consensus pattern (23 bp):   
CCATCCTGATGGTATAAATTTCT

Found at i:2132 original size:47 final size:46

Alignment explanation


    Indices: 2002--2153  Score: 277
    Period size: 46  Copynumber: 3.3  Consensus size: 46

       1992 GCAACATCAC

                                                          
       2002 CCATCCTGATGGTATAAATTTCTTCACACCATCAGGACCAATTTCT
          1 CCATCCTGATGGTATAAATTTCTTCACACCATCAGGACCAATTTCT

                                                          
       2048 CCATCCTGATGGTATAAATTTCTTCACACCATCAGGACCAATTTCT
          1 CCATCCTGATGGTATAAATTTCTTCACACCATCAGGACCAATTTCT

                                                        * *
       2094 CCATCCTGATGGTATAAAATTTCTTCACACCATCAGGACCAATTCCG
          1 CCATCCTGATGGTAT-AAATTTCTTCACACCATCAGGACCAATTTCT

                         
       2141 CCATCCTGATGGT
          1 CCATCCTGATGGT


Statistics
Matches: 103,  Mismatches: 2, Indels: 1
        0.97            0.02        0.01

Matches are distributed among these distances:
  46   61  0.59
  47   42  0.41

ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31


Consensus pattern (46 bp):   
CCATCCTGATGGTATAAATTTCTTCACACCATCAGGACCAATTTCT
Done.