Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009449.1 Kokia drynarioides strain JFW-HI SEQ_124156, 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, 994

Length: 1657
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35


Found at i:642 original size:13 final size:13

Alignment explanation


    Indices: 624--675  Score: 52
    Period size: 13  Copynumber: 4.1  Consensus size: 13

        614 ACATAGAAAT

                         
        624 TAAATTATTATTA
          1 TAAATTATTATTA

                   *    *
        637 TAAATTAGTATTG
          1 TAAATTATTATTA

                   *  * *
        650 T-AATTAATAATG
          1 TAAATTATTATTA

                         
        662 TAAATTATTATTA
          1 TAAATTATTATTA

             
        675 T
          1 T

        676 TATTTTTGTA


Statistics
Matches: 31,  Mismatches: 7, Indels: 2
        0.77            0.17        0.05

Matches are distributed among these distances:
  12   10  0.32
  13   21  0.68

ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50


Consensus pattern (13 bp):   
TAAATTATTATTA

Found at i:654 original size:25 final size:25

Alignment explanation


    Indices: 626--673  Score: 60
    Period size: 25  Copynumber: 1.9  Consensus size: 25

        616 ATAGAAATTA

                 *  *                
        626 AATTATTATTATAAATTAGTATTGT
          1 AATTAATAATATAAATTAGTATTGT

                      *       *    
        651 AATTAATAATGTAAATTATTATT
          1 AATTAATAATATAAATTAGTATT

        674 ATTATTTTTG


Statistics
Matches: 19,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  25   19  1.00

ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50


Consensus pattern (25 bp):   
AATTAATAATATAAATTAGTATTGT

Found at i:1565 original size:2 final size:2

Alignment explanation


    Indices: 1558--1590  Score: 57
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       1548 GGTTGTAAAA

                                                            
       1558 AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT

       1591 TTTGATATTA


Statistics
Matches: 30,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   2   28  0.93
   3    2  0.07

ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Done.