Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000589.1 Kokia drynarioides strain JFW-HI SEQ_111519, 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: 7255
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


Found at i:3253 original size:28 final size:29

Alignment explanation


    Indices: 3213--3305  Score: 102
    Period size: 29  Copynumber: 3.2  Consensus size: 29

       3203 CAAAATATTA

                    *                    
       3213 TTTTTTTAGCTTTTAAAATGTT-TAATTT
          1 TTTTTTTAACTTTTAAAATGTTATAATTT

                                   *      
       3241 TTTTTTTAACTTTTAAAA-GTTAAAACTTT
          1 TTTTTTTAACTTTTAAAATGTTATAA-TTT

                *    *             *      
       3270 TTTTATTAATTTTTAAAAAT-TTCTAATTT
          1 TTTTTTTAACTTTT-AAAATGTTATAATTT

                   
       3299 TTTTTTT
          1 TTTTTTT

       3306 TAGTTTTTGA


Statistics
Matches: 54,  Mismatches: 7, Indels: 7
        0.79            0.10        0.10

Matches are distributed among these distances:
  27    3  0.06
  28   19  0.35
  29   24  0.44
  30    8  0.15

ACGTcount: A:0.29, C:0.04, G:0.03, T:0.63


Consensus pattern (29 bp):   
TTTTTTTAACTTTTAAAATGTTATAATTT

Found at i:3270 original size:29 final size:28

Alignment explanation


    Indices: 3213--3307  Score: 93
    Period size: 28  Copynumber: 3.3  Consensus size: 28

       3203 CAAAATATTA

                    *             *     
       3213 TTTTTTTAGCTTTTAAAATGTTTAATTT
          1 TTTTTTTAACTTTTAAAATGTTAAATTT

                                          
       3241 TTTTTTTAACTTTTAAAA-GTTAAAACTTT
          1 TTTTTTTAACTTTTAAAATGTT-AAA-TTT

                *    *          *     *   
       3270 TTTTATTAATTTTTAAAAATTTCTAATTTT
          1 TTTTTTTAACTTTT-AAAATGT-TAAATTT

                    
       3300 TTTTTTTA
          1 TTTTTTTA

       3308 GTTTTTGAGG


Statistics
Matches: 55,  Mismatches: 7, Indels: 8
        0.79            0.10        0.11

Matches are distributed among these distances:
  27    3  0.05
  28   19  0.35
  29   15  0.27
  30   14  0.25
  31    3  0.05
  32    1  0.02

ACGTcount: A:0.29, C:0.04, G:0.03, T:0.63


Consensus pattern (28 bp):   
TTTTTTTAACTTTTAAAATGTTAAATTT

Done.