Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003393.1 Kokia drynarioides strain JFW-HI SEQ_116132, 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: 3298
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39


Found at i:169 original size:23 final size:22

Alignment explanation


    Indices: 126--171  Score: 56
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        116 TATATACTTA

                *    *      *     
        126 TATATTTTTTAAAAATTATTTT
          1 TATAATTTTCAAAAATGATTTT

                                   
        148 TATAATTTTCAAAAATAGATTTT
          1 TATAATTTTCAAAAAT-GATTTT

             
        171 T
          1 T

        172 TTTAGTTTTT


Statistics
Matches: 20,  Mismatches: 3, Indels: 1
        0.83            0.12        0.04

Matches are distributed among these distances:
  22   14  0.70
  23    6  0.30

ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57


Consensus pattern (22 bp):   
TATAATTTTCAAAAATGATTTT

Found at i:554 original size:34 final size:33

Alignment explanation


    Indices: 501--583  Score: 105
    Period size: 34  Copynumber: 2.5  Consensus size: 33

        491 TATGTTTTTT

                         *                    
        501 TTTTG-TTTTGGATTTCGAATTTTAGATTTTAAA
          1 TTTTGATTTT-GAATTCGAATTTTAGATTTTAAA

                                    * *       
        534 TTTTGATTTTCGAATTCGAATTTTGGGTTTTAAA
          1 TTTTGATTTT-GAATTCGAATTTTAGATTTTAAA

                            
        568 TTTTGGATTTTGAATT
          1 TTTT-GATTTTGAATT

        584 TGATGGTTTT


Statistics
Matches: 44,  Mismatches: 4, Indels: 3
        0.86            0.08        0.06

Matches are distributed among these distances:
  33    5  0.11
  34   33  0.75
  35    6  0.14

ACGTcount: A:0.23, C:0.04, G:0.17, T:0.57


Consensus pattern (33 bp):   
TTTTGATTTTGAATTCGAATTTTAGATTTTAAA
Done.