Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003045.1 Kokia drynarioides strain JFW-HI SEQ_115571, 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: 2030
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39


Found at i:751 original size:38 final size:40

Alignment explanation


    Indices: 674--762  Score: 128
    Period size: 38  Copynumber: 2.2  Consensus size: 40

        664 TCAAAAATAT

                                              *     
        674 TTATATTAAAAACACTAACATAAATATAACAAATGTTTTA
          1 TTATATTAAAAACACTAACATAAATATAACAAATATTTTA

                                         *          
        714 TTATATTAAAAACAC-AA-ATAAATATAATAAATATTTTA
          1 TTATATTAAAAACACTAACATAAATATAACAAATATTTTA

              *        
        752 TTGTAATTAAA
          1 TTAT-ATTAAA

        763 TATAATTTTT


Statistics
Matches: 45,  Mismatches: 3, Indels: 3
        0.88            0.06        0.06

Matches are distributed among these distances:
  38   22  0.49
  39    8  0.18
  40   15  0.33

ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37


Consensus pattern (40 bp):   
TTATATTAAAAACACTAACATAAATATAACAAATATTTTA

Found at i:1765 original size:40 final size:40

Alignment explanation


    Indices: 1710--1819  Score: 211
    Period size: 40  Copynumber: 2.8  Consensus size: 40

       1700 AGAAATATTA

                  *                                 
       1710 GGTCCCGATGTTGTCTGTCATATTGCTAATAAAGACATTC
          1 GGTCCCCATGTTGTCTGTCATATTGCTAATAAAGACATTC

                                                    
       1750 GGTCCCCATGTTGTCTGTCATATTGCTAATAAAGACATTC
          1 GGTCCCCATGTTGTCTGTCATATTGCTAATAAAGACATTC

                                          
       1790 GGTCCCCATGTTGTCTGTCATATTGCTAAT
          1 GGTCCCCATGTTGTCTGTCATATTGCTAAT

       1820 TTCATCCTCA


Statistics
Matches: 69,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  40   69  1.00

ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36


Consensus pattern (40 bp):   
GGTCCCCATGTTGTCTGTCATATTGCTAATAAAGACATTC
Done.