Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007881.1 Kokia drynarioides strain JFW-HI SEQ_122522, 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: 6982
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38


Found at i:1558 original size:26 final size:24

Alignment explanation


    Indices: 1529--1584  Score: 60
    Period size: 26  Copynumber: 2.2  Consensus size: 24

       1519 TTTGTGTGGA

                        *         *   
       1529 ATAAATAAATAAGAAATAATAATTAT
          1 ATAAAT-AATAAAAAAT-ATAAGTAT

                                     
       1555 ATAAACTAATAAAAAATATAAGTAT
          1 ATAAA-TAATAAAAAATATAAGTAT

                  
       1580 A-AAAT
          1 ATAAAT

       1585 TTTAATTTTA


Statistics
Matches: 27,  Mismatches: 2, Indels: 5
        0.79            0.06        0.15

Matches are distributed among these distances:
  23    1  0.04
  24    3  0.11
  25    8  0.30
  26   14  0.52
  27    1  0.04

ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29


Consensus pattern (24 bp):   
ATAAATAATAAAAAATATAAGTAT

Found at i:5934 original size:14 final size:14

Alignment explanation


    Indices: 5885--5936  Score: 63
    Period size: 13  Copynumber: 3.9  Consensus size: 14

       5875 TAAACTAAAC

                     *    
       5885 TTTTCAAAATCACT
          1 TTTTCAAAAACACT

                   **     
       5899 TTTTC-ACCACACT
          1 TTTTCAAAAACACT

                          
       5912 TTTTCAAAAACAC-
          1 TTTTCAAAAACACT

                        
       5925 TTTTCAAAAACA
          1 TTTTCAAAAACA

       5937 ATGCTAAACT


Statistics
Matches: 32,  Mismatches: 5, Indels: 3
        0.80            0.12        0.08

Matches are distributed among these distances:
  13   22  0.69
  14   10  0.31

ACGTcount: A:0.38, C:0.25, G:0.00, T:0.37


Consensus pattern (14 bp):   
TTTTCAAAAACACT
Done.