Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000316.1 Kokia drynarioides strain JFW-HI SEQ_111079, 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:0.36, C:0.14, G:0.12, T:0.38


Found at i:629 original size:31 final size:30

Alignment explanation


    Indices: 575--661  Score: 131
    Period size: 29  Copynumber: 2.9  Consensus size: 30

        565 TTTTTTTAAA

                              *             
        575 TATTTTCCCTCAAAAATTGTACTCTCACTATT
          1 TATTTTCCCTC-AAAATTTTACTCTC-CTATT

                   *                      
        607 TATTTTCTCTCAAAATTTTACTCT-CTATT
          1 TATTTTCCCTCAAAATTTTACTCTCCTATT

                                      
        636 TATTTTCCCTCAAAATTTTACTCTCC
          1 TATTTTCCCTCAAAATTTTACTCTCC

        662 CAAAACTCTC


Statistics
Matches: 51,  Mismatches: 3, Indels: 4
        0.88            0.05        0.07

Matches are distributed among these distances:
  29   28  0.55
  30    1  0.02
  31   12  0.24
  32   10  0.20

ACGTcount: A:0.25, C:0.25, G:0.01, T:0.48


Consensus pattern (30 bp):   
TATTTTCCCTCAAAATTTTACTCTCCTATT

Found at i:1152 original size:19 final size:19

Alignment explanation


    Indices: 1128--1164  Score: 65
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       1118 AAGTTAATAA

                               
       1128 CAAATTTGATTACGGTGAT
          1 CAAATTTGATTACGGTGAT

                       *      
       1147 CAAATTTGATTTCGGTGA
          1 CAAATTTGATTACGGTGA

       1165 GTGCAATGGT


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  19   17  1.00

ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38


Consensus pattern (19 bp):   
CAAATTTGATTACGGTGAT
Done.