Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010262.1 Kokia drynarioides strain JFW-HI SEQ_125100, 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, 871

Length: 1452
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.37

Warning! 60 characters in sequence are not A, C, G, or T


Found at i:652 original size:30 final size:29

Alignment explanation


    Indices: 599--814  Score: 170
    Period size: 30  Copynumber: 7.3  Consensus size: 29

        589 TAAAAATTTG

                     * *                 
        599 TTTTTACCCCCGAACTTCCAAAAATCCCA
          1 TTTTTACCCTCAAACTTCCAAAAATCCCA

                      **       *         * 
        628 TTTTTGACCCAAAAACTTCTAAAAA-CTCTA
          1 TTTTT-ACCCTCAAACTTCCAAAAATC-CCA

                       *     *           
        658 TTTTTACCCTCGAACTTACAAAAATCCCA
          1 TTTTTACCCTCAAACTTCCAAAAATCCCA

                                *      * * 
        687 TTTTTGACCC-CGAAACTTCTAAAAATTCTA
          1 TTTTT-ACCCTC-AAACTTCCAAAAATCCCA

                      **                  
        717 TTTTTACCCTTGAACTTCCAAAAAATCCCA
          1 TTTTTACCCTCAAACTTCC-AAAAATCCCA

                       *             * * 
        747 TTTTTACCCTCGAACTTCCAAAAATTCAA
          1 TTTTTACCCTCAAACTTCCAAAAATCCCA

                        *               *   
        776 TTTTTGATCCC-GAAACTTCCAAAAATTACCA
          1 TTTTT-A-CCCTCAAACTTCCAAAAA-TCCCA

                     
        807 -TTTTACCC
          1 TTTTTACCC

        815 CNNNNNNNNN


Statistics
Matches: 149,  Mismatches: 28, Indels: 21
        0.75            0.14        0.11

Matches are distributed among these distances:
  28    3  0.02
  29   52  0.35
  30   88  0.59
  31    6  0.04

ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33


Consensus pattern (29 bp):   
TTTTTACCCTCAAACTTCCAAAAATCCCA

Found at i:673 original size:59 final size:59

Alignment explanation


    Indices: 581--810  Score: 268
    Period size: 59  Copynumber: 3.9  Consensus size: 59

        571 AGAGGTCCCT

                              *         *                               
        581 AAACTGTCTAAAAATT-TGTTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCAA
          1 AAACT-TCTAAAAATTCTATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCAA

                         *                     *                     **
        640 AAACTTCTAAAAACTCTATTTTTACCCTCGAACTTACAAAAATCCCATTTTTGACCCCG
          1 AAACTTCTAAAAATTCTATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCAA

                                        *                             **
        699 AAACTTCTAAAAATTCTATTTTTACCCTTGAACTTCCAAAAAATCCCATTTTT-ACCCTC
          1 AAACTTCTAAAAATTCTATTTTTACCCTCGAACTTCC-AAAAATCCCATTTTTGACCCAA

            *      *        *        *                    *       
        758 GAACTTCCAAAAATTCAATTTTTGATCC-CGAAACTTCCAAAAATTACCATTTT
          1 AAACTTCTAAAAATTCTATTTTT-ACCCTCG-AACTTCCAAAAA-TCCCATTTT

        811 ACCCCNNNNN


Statistics
Matches: 149,  Mismatches: 17, Indels: 9
        0.85            0.10        0.05

Matches are distributed among these distances:
  58    9  0.06
  59  107  0.72
  60   33  0.22

ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34


Consensus pattern (59 bp):   
AAACTTCTAAAAATTCTATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCAA

Done.