Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004499.1 Kokia drynarioides strain JFW-HI SEQ_117937, 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: 4268
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39


Found at i:3976 original size:12 final size:12

Alignment explanation


    Indices: 3961--4015  Score: 51
    Period size: 12  Copynumber: 4.8  Consensus size: 12

       3951 TTTTTTTTAC

                        
       3961 TGTTTTGGTTGT
          1 TGTTTTGGTTGT

                    *   
       3973 TGTTTT-GCTGT
          1 TGTTTTGGTTGT

             *     *  * 
       3984 TATTTT-TTTAT
          1 TGTTTTGGTTGT

                       *
       3995 TGTTTTGGTTGC
          1 TGTTTTGGTTGT

                     
       4007 TGTTTTGGT
          1 TGTTTTGGT

       4016 ATTTTTTTAC


Statistics
Matches: 33,  Mismatches: 9, Indels: 2
        0.75            0.20        0.05

Matches are distributed among these distances:
  11   16  0.48
  12   17  0.52

ACGTcount: A:0.04, C:0.04, G:0.25, T:0.67


Consensus pattern (12 bp):   
TGTTTTGGTTGT

Found at i:4090 original size:12 final size:12

Alignment explanation


    Indices: 4034--4091  Score: 54
    Period size: 12  Copynumber: 5.2  Consensus size: 12

       4024 ACTGTTTTGA

                        
       4034 TGTTGTTATTTT
          1 TGTTGTTATTTT

                         
       4046 T-TCTGTTATTTT
          1 TGT-TGTTATTTT

                 * *    
       4058 TGTTGCTGTTTT
          1 TGTTGTTATTTT

                        
       4070 TGTTG----TTT
          1 TGTTGTTATTTT

                        
       4078 TGTTGTTATTTT
          1 TGTTGTTATTTT

              
       4090 TG
          1 TG

       4092 CGGCTGCTTT


Statistics
Matches: 38,  Mismatches: 2, Indels: 12
        0.73            0.04        0.23

Matches are distributed among these distances:
   8    8  0.21
  11    1  0.03
  12   28  0.74
  13    1  0.03

ACGTcount: A:0.05, C:0.03, G:0.19, T:0.72


Consensus pattern (12 bp):   
TGTTGTTATTTT
Done.