Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006691.1 Kokia drynarioides strain JFW-HI SEQ_121285, 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: 2079
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32


Found at i:260 original size:37 final size:33

Alignment explanation


    Indices: 188--276  Score: 106
    Period size: 37  Copynumber: 2.6  Consensus size: 33

        178 TGTTACTCTT

                                        *    
        188 ACGAGCTAGTATTGCTCTTACAAGTATGGTCAA
          1 ACGAGCTAGTATTGCTCTTACAAGTATGCTCAA

                  *                           *  
        221 ACGAGCCAGTATTGCTCTTACTAGCGAGTATGCTTAA
          1 ACGAGCTAGTATTGCTCTTAC-A---AGTATGCTCAA

                         *     
        258 ACGAGCTAGTATTACTCTT
          1 ACGAGCTAGTATTGCTCTT

        277 CCTTCCGCAT


Statistics
Matches: 47,  Mismatches: 5, Indels: 4
        0.84            0.09        0.07

Matches are distributed among these distances:
  33   20  0.43
  34    1  0.02
  37   26  0.55

ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31


Consensus pattern (33 bp):   
ACGAGCTAGTATTGCTCTTACAAGTATGCTCAA

Found at i:1464 original size:30 final size:30

Alignment explanation


    Indices: 1421--1526  Score: 122
    Period size: 30  Copynumber: 3.5  Consensus size: 30

       1411 GTTACAGACA

                    *        *       *    
       1421 AGCTTTCCGGAAAGCTCGTCCAGCTAAACG
          1 AGCTTTCCAGAAAGCTCATCCAGCTGAACG

            *      *          *          *
       1451 GGCTTTCTAGAAAGCTCACCCAGCTGAACA
          1 AGCTTTCCAGAAAGCTCATCCAGCTGAACG

                             *            
       1481 AGCTTTCCAGAAAGCTCTTCCAGCTGAACG
          1 AGCTTTCCAGAAAGCTCATCCAGCTGAACG

            **              
       1511 CTCTTTCCAGAAAGCT
          1 AGCTTTCCAGAAAGCT

       1527 TGCCCGGTTA


Statistics
Matches: 62,  Mismatches: 14, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  30   62  1.00

ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23


Consensus pattern (30 bp):   
AGCTTTCCAGAAAGCTCATCCAGCTGAACG
Done.