Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011024.1 Kokia drynarioides strain JFW-HI SEQ_125995, 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: 3140
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37


Found at i:1208 original size:30 final size:29

Alignment explanation


    Indices: 1170--1518  Score: 304
    Period size: 29  Copynumber: 11.9  Consensus size: 29

       1160 CCCAAAAGGT

                                *       * 
       1170 CCCT-AAACTATCCAAAAATCACATTTTGA
          1 CCCTCAAACT-TCCAAAAATTACATTTTTA

                                  *       
       1199 CCCTCAAACTTCTCAAAAATTATATTTTTA
          1 CCCTCAAACTTC-CAAAAATTACATTTTTA

                         **               
       1229 CCCTCAAACTTCTTGAAAATTACATTTTTA
          1 CCCTCAAACTTC-CAAAAATTACATTTTTA

                                  *       
       1259 CCCTCAAACTTCTCAAAAATTATA-TTTTA
          1 CCCTCAAACTTC-CAAAAATTACATTTTTA

                *     * *                
       1288 CCCTTAAACTGCTAAAAATTACATTTTTA
          1 CCCTCAAACTTCCAAAAATTACATTTTTA

                *                        
       1317 CCCTAAAACTTCC-AAAATTACATTTTTA
          1 CCCTCAAACTTCCAAAAATTACATTTTTA

                *              *       * 
       1345 CCCTTAAACTTCCAAAAATCAC-TTTTAA
          1 CCCTCAAACTTCCAAAAATTACATTTTTA

                  *               *         *
       1373 CCCGT-GAACTTTCCAAAAAAAATACATTTTTG
          1 CCC-TCAAAC-TTCC--AAAAATTACATTTTTA

             *                           
       1405 CTCTCAAACTTCCAAAAATTACATTTTTA
          1 CCCTCAAACTTCCAAAAATTACATTTTTA

             *                     *       
       1434 -TCTCTAAACTTCTCAAAAATT-TATTTTTA
          1 CCCTC-AAACTTC-CAAAAATTACATTTTTA

                          **    *         
       1463 CCC-CAAACTTTCCCTAAATGACATTTTTA
          1 CCCTCAAAC-TTCCAAAAATTACATTTTTA

                               *         
       1492 CCC-CTAAACTTTCC-AAAGTTACATTTT
          1 CCCTC-AAAC-TTCCAAAAATTACATTTT

       1519 AACCTTGAAC


Statistics
Matches: 267,  Mismatches: 37, Indels: 32
        0.79            0.11        0.10

Matches are distributed among these distances:
  28   60  0.22
  29  101  0.38
  30   85  0.32
  31   12  0.04
  32    9  0.03

ACGTcount: A:0.36, C:0.25, G:0.02, T:0.37


Consensus pattern (29 bp):   
CCCTCAAACTTCCAAAAATTACATTTTTA

Done.