Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009898.1 Corchorus capsularis cultivar CVL-1 contig09919, 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: 36056
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:834 original size:106 final size:106

Alignment explanation


    Indices: 542--825  Score: 496
    Period size: 106  Copynumber: 2.7  Consensus size: 106

        532 AGTCTACACC

                                                    *                        
        542 AAATAAGATTTGAAAAAGTTAATATGTCTCAACTTTAGATCAGTCGGAACTTAATATGACTCTGA
          1 AAATAAGATTTGAAAAAGTTAATATGTCTCAACTTTAGATTAGTCGGAACTTAATATGACTCTGA

                                            *    *   
        607 TTAGATATTGGGTATGGTCGGTTGGATTGAGTGAATAGATA
         66 TTAGATATTGGGTATGGTCGGTTGGATTGAGTCAATAAATA

                                                                             
        648 AAATAAGATTTGAAAAAGTTAATATGTCTCAACTTTAGATTAGTCGGAACTTAATATGACTCTGA
          1 AAATAAGATTTGAAAAAGTTAATATGTCTCAACTTTAGATTAGTCGGAACTTAATATGACTCTGA

                                                     
        713 TTAGATATTGGGTATGGTCGGTTGGATTGAGTCAATAAATA
         66 TTAGATATTGGGTATGGTCGGTTGGATTGAGTCAATAAATA

                  *                 *            *                  *        
        754 AAATAAAATTTGAAAAAGTTAATACGTCTCAACTTTAAATTAGTCGGAACTTAATACGACTCTGA
          1 AAATAAGATTTGAAAAAGTTAATATGTCTCAACTTTAGATTAGTCGGAACTTAATATGACTCTGA

             *     
        819 TCAGATA
         66 TTAGATA

        826 CTTAGTATGT


Statistics
Matches: 170,  Mismatches: 8, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 106  170  1.00

ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33


Consensus pattern (106 bp):   
AAATAAGATTTGAAAAAGTTAATATGTCTCAACTTTAGATTAGTCGGAACTTAATATGACTCTGA
TTAGATATTGGGTATGGTCGGTTGGATTGAGTCAATAAATA

Found at i:33955 original size:3 final size:3

Alignment explanation


    Indices: 33947--33976  Score: 60
    Period size: 3  Copynumber: 10.0  Consensus size: 3

      33937 CCAAACCAAT

                                                   
      33947 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
          1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC

      33977 CTGGTCACTG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   27  1.00

ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67


Consensus pattern (3 bp):   
TTC

Done.