Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007591.1 Corchorus capsularis cultivar CVL-1 contig07612, 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: 4523
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40


Found at i:402 original size:109 final size:109

Alignment explanation


    Indices: 246--545  Score: 440
    Period size: 109  Copynumber: 2.7  Consensus size: 109

        236 TAAATTAAAA

                         **          *                                       
        246 TGGTAAAAATAAAAAAATTATATAAAATATT-GAATTTAATTAAATGAAAATAGAGTTTTTAGTA
          1 TGGTAAAAATAAAGTAATTATA-AAGATATTAG-ATTTAATTAAATGAAAATAGAGTTTTTAGTA

                                                          
        310 GAATAAAATTATATATTAGAAAAAATTTTAATATATCCAAATTTTT
         64 GAATAAAATTATATATTAGAAAAAATTTTAATATATCCAAATTTTT

                                                                             
        356 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
          1 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA

                    *             *     *               
        421 ATAAAATTGTATATTAGAAAAATTTTTAGTATATCCAAATTTTT
         66 ATAAAATTATATATTAGAAAAAATTTTAATATATCCAAATTTTT

                                                             *        *   *  
        465 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTTAATTGAATAAAAATAGAATTTCTA
          1 TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAA-TT-A---AATGAAAATAGAGTTTTTA

                       *    
        530 GTAGAATAAAACTATA
         61 GTAGAATAAAATTATA

        546 ATAGTTAAGT


Statistics
Matches: 173,  Mismatches: 11, Indels: 8
        0.90            0.06        0.04

Matches are distributed among these distances:
 109  119  0.69
 110   23  0.13
 111    1  0.01
 114   30  0.17

ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38


Consensus pattern (109 bp):   
TGGTAAAAATAAAGTAATTATAAAGATATTAGATTTAATTAAATGAAAATAGAGTTTTTAGTAGA
ATAAAATTATATATTAGAAAAAATTTTAATATATCCAAATTTTT

Found at i:1732 original size:1 final size:1

Alignment explanation


    Indices: 1690--1716  Score: 54
    Period size: 1  Copynumber: 27.0  Consensus size: 1

       1680 TTGTAGTTTA

                                       
       1690 TTTTTTTTTTTTTTTTTTTTTTTTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTT

       1717 ATAATAAATT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   26  1.00

ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00


Consensus pattern (1 bp):   
T
Done.