Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007327.1 Kokia drynarioides strain JFW-HI SEQ_121943, 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: 16856
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35


Found at i:4846 original size:24 final size:24

Alignment explanation


    Indices: 4707--4837  Score: 192
    Period size: 24  Copynumber: 5.5  Consensus size: 24

       4697 TTAAACTCTA

                *                   
       4707 TCTGTGCTCGTAAGAGCTAACCAT
          1 TCTGGGCTCGTAAGAGCTAACCAT

                                 ** 
       4731 TCTGGGCTCGTAAGAGCTAA-TTT
          1 TCTGGGCTCGTAAGAGCTAACCAT

                      *          *   
       4754 TCCTGGGCTCATAAGAGCTAATCAT
          1 T-CTGGGCTCGTAAGAGCTAACCAT

                                    
       4779 TCTGGGCTCGTAAGAGCTAACCAT
          1 TCTGGGCTCGTAAGAGCTAACCAT

                                    
       4803 TCTGGGCTCGTAAGAGCTAACCAT
          1 TCTGGGCTCGTAAGAGCTAACCAT

             *         
       4827 TTTGGGCTCGT
          1 TCTGGGCTCGT

       4838 GTGGGCTAAA


Statistics
Matches: 96,  Mismatches: 9, Indels: 4
        0.88            0.08        0.04

Matches are distributed among these distances:
  23    2  0.02
  24   92  0.96
  25    2  0.02

ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30


Consensus pattern (24 bp):   
TCTGGGCTCGTAAGAGCTAACCAT

Found at i:7212 original size:21 final size:20

Alignment explanation


    Indices: 7188--7231  Score: 54
    Period size: 21  Copynumber: 2.1  Consensus size: 20

       7178 TTTTTTATTG

                                  
       7188 TATAATGTCTTAATTT-TCTCA
          1 TATAATGTCTT--TTTATCTCA

                  *             
       7209 TATAATTTCTTTTTATCTCA
          1 TATAATGTCTTTTTATCTCA

               
       7229 TAT
          1 TAT

       7232 TTTACGTACT


Statistics
Matches: 21,  Mismatches: 1, Indels: 3
        0.84            0.04        0.12

Matches are distributed among these distances:
  19    3  0.14
  20    8  0.38
  21   10  0.48

ACGTcount: A:0.27, C:0.14, G:0.02, T:0.57


Consensus pattern (20 bp):   
TATAATGTCTTTTTATCTCA
Done.