Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002126.1 Kokia drynarioides strain JFW-HI SEQ_114059, 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: 3957
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36


Found at i:3091 original size:33 final size:34

Alignment explanation


    Indices: 3046--3111  Score: 100
    Period size: 33  Copynumber: 2.0  Consensus size: 34

       3036 TATTTTTTTA

                                               
       3046 TTTTTTTAATTTTAAATA-TATAAAAAAAAATTTG
          1 TTTTTTTAATTTTAAA-ACTATAAAAAAAAATTTG

                                        *    
       3080 TTTTTTT-ATTTTAAAACTATAAAAAAATATTT
          1 TTTTTTTAATTTTAAAACTATAAAAAAAAATTT

       3112 TATTTAAATT


Statistics
Matches: 30,  Mismatches: 1, Indels: 3
        0.88            0.03        0.09

Matches are distributed among these distances:
  32    1  0.03
  33   22  0.73
  34    7  0.23

ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52


Consensus pattern (34 bp):   
TTTTTTTAATTTTAAAACTATAAAAAAAAATTTG

Found at i:3124 original size:31 final size:30

Alignment explanation


    Indices: 3044--3147  Score: 104
    Period size: 31  Copynumber: 3.3  Consensus size: 30

       3034 TGTATTTTTT

                                           
       3044 TATTTT-TTTAATTTTAAATATATAAAAAAA
          1 TATTTTATTTAATTTTAAA-ATATAAAAAAA

            *       *   *                    
       3074 AATTTGTTTTTTTATTTTAAAACTATAAAAAAA
          1 TA-TT-TTATTTAATTTTAAAA-TATAAAAAAA

                        *                   
       3107 TATTTTATTTAAATTT-AAATATAAAAAATAA
          1 TATTTTATTTAATTTTAAAATAT-AAAAA-AA

                      
       3138 TATTTTATTT
          1 TATTTTATTT

       3148 GGTGGAGTTA


Statistics
Matches: 62,  Mismatches: 6, Indels: 11
        0.78            0.08        0.14

Matches are distributed among these distances:
  29    3  0.05
  30    9  0.15
  31   23  0.37
  32    5  0.08
  33   22  0.35

ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51


Consensus pattern (30 bp):   
TATTTTATTTAATTTTAAAATATAAAAAAA
Done.