Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000985.1 Corchorus olitorius cultivar O-4 contig00985, 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: 3325
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:78 original size:50 final size:50

Alignment explanation


    Indices: 3--420  Score: 656
    Period size: 50  Copynumber: 8.3  Consensus size: 50

          1 CN

                                                           *  
          3 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAGCT
          1 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT

                  *                       *                *  
         53 CGTTTCTATACGAGTCAATTATCAACATAGACTTTTCCACAAGCCAAGCT
          1 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT

                    *                   *                     
        103 CGTTTCCACACGAGTCAATTATCAACATTGGCTTTTCCACAAGCCAAACT
          1 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT

                    *                                         
        153 CGTTTCCACACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT
          1 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT

                                                           *  
        203 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAGCT
          1 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT

                                        *                     
        253 CGTTTCCATACGAGTCAATTATCAACATTGGCTTTTCCACAAGCCAAACT
          1 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT

                    * *                                       
        303 CGTTTCCACATGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT
          1 CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT

                   *          *                               *    
        353 CGTTTCCGTACGAGTCAACTATCCAAGCCACATAGGCTTTTCCACAAGCCGAACT
          1 CGTTTCCATACGAGTCAATTAT-C-A---ACATAGGCTTTTCCACAAGCCAAACT

             *           
        408 CATTTCCATACGA
          1 CGTTTCCATACGA

        421 TTCAGTTCAA


Statistics
Matches: 341,  Mismatches: 22, Indels: 5
        0.93            0.06        0.01

Matches are distributed among these distances:
  50  303  0.89
  51    1  0.00
  52    1  0.00
  55   36  0.11

ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28


Consensus pattern (50 bp):   
CGTTTCCATACGAGTCAATTATCAACATAGGCTTTTCCACAAGCCAAACT

Found at i:1035 original size:28 final size:26

Alignment explanation


    Indices: 1003--1075  Score: 85
    Period size: 27  Copynumber: 2.7  Consensus size: 26

        993 GGTCATCTAT

                                         
       1003 GGGGCATTTTGGGTCATTTG-CATGTCCA
          1 GGGGCATTTT-GGTCATTTGACAT-T-CA

                     * *               
       1031 GGGGCATTTCGATCATTTGAACATTCA
          1 GGGGCATTTTGGTCATTTG-ACATTCA

                              
       1058 GGGGCATTTTGGTCATTT
          1 GGGGCATTTTGGTCATTT

       1076 TAAACTCACT


Statistics
Matches: 39,  Mismatches: 4, Indels: 5
        0.81            0.08        0.10

Matches are distributed among these distances:
  27   26  0.67
  28   10  0.26
  29    3  0.08

ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37


Consensus pattern (26 bp):   
GGGGCATTTTGGTCATTTGACATTCA
Done.