Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003093.1 Kokia drynarioides strain JFW-HI SEQ_115654, 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: 2881
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30


Found at i:178 original size:24 final size:24

Alignment explanation


    Indices: 146--201  Score: 94
    Period size: 24  Copynumber: 2.3  Consensus size: 24

        136 TGTATGGGTA

                                    
        146 TCTTCTTGTTTTCCATTTTCTTTT
          1 TCTTCTTGTTTTCCATTTTCTTTT

                        *           
        170 TCTTCTTGTTTTTCATTTTCTTTT
          1 TCTTCTTGTTTTCCATTTTCTTTT

              *     
        194 TCCTCTTG
          1 TCTTCTTG

        202 AGAACTCTCC


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

Matches are distributed among these distances:
  24   30  1.00

ACGTcount: A:0.04, C:0.21, G:0.05, T:0.70


Consensus pattern (24 bp):   
TCTTCTTGTTTTCCATTTTCTTTT

Found at i:1822 original size:22 final size:22

Alignment explanation


    Indices: 1789--1831  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       1779 TTTTTTTATT

                            *      
       1789 TTTTATTTTTCTCATATTTTTTC
          1 TTTTATTTTTCTC-TACTTTTTC

                                 
       1812 TTTT-TTTTTCTCTACTTTTT
          1 TTTTATTTTTCTCTACTTTTT

       1832 GATAATTTTT


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  21    7  0.37
  22    8  0.42
  23    4  0.21

ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77


Consensus pattern (22 bp):   
TTTTATTTTTCTCTACTTTTTC
Done.