Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000395.1 Kokia drynarioides strain JFW-HI SEQ_111205, 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: 2662
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38


Found at i:580 original size:20 final size:20

Alignment explanation


    Indices: 553--604  Score: 70
    Period size: 20  Copynumber: 2.6  Consensus size: 20

        543 AAAATTTACG

                            *    
        553 AAATAATTATTAAATTGTTCA
          1 AAATAATTATTAAATTATT-A

                       *        
        574 AAA-AATTATTTAATTATTA
          1 AAATAATTATTAAATTATTA

                        
        593 AAATAATTATTA
          1 AAATAATTATTA

        605 TATAATTTTT


Statistics
Matches: 27,  Mismatches: 3, Indels: 3
        0.82            0.09        0.09

Matches are distributed among these distances:
  19    4  0.15
  20   20  0.74
  21    3  0.11

ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44


Consensus pattern (20 bp):   
AAATAATTATTAAATTATTA

Found at i:1067 original size:17 final size:17

Alignment explanation


    Indices: 1033--1067  Score: 52
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       1023 TTTGTATGTA

                       * *   
       1033 TATAACAATCACAGTTT
          1 TATAACAATCAAAATTT

                             
       1050 TATAACAATCAAAATTT
          1 TATAACAATCAAAATTT

             
       1067 T
          1 T

       1068 GACAAAAAAA


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37


Consensus pattern (17 bp):   
TATAACAATCAAAATTT
Done.