Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006565.1 Kokia drynarioides strain JFW-HI SEQ_121151, 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: 1811
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36


Found at i:1512 original size:61 final size:59

Alignment explanation


    Indices: 1445--1560  Score: 178
    Period size: 61  Copynumber: 1.9  Consensus size: 59

       1435 AGTGATTATC

                                                       *     *           
       1445 TTAATATTAAATTTAATTTAATATTTATCTTGTAAAAAATATTTTATTATTTTAATAAGAT
          1 TTAATATTAAATTTAATTTAATATTTATCTTG--AAAAATATTATATTAATTTAATAAGAT

                     *                       *                     
       1506 TTAATATTACATTTAATTTAATATTTATCTTGATAAATATTATATTAATTTAATA
          1 TTAATATTAAATTTAATTTAATATTTATCTTGAAAAATATTATATTAATTTAATA

       1561 TTAAAGTGAT


Statistics
Matches: 51,  Mismatches: 4, Indels: 2
        0.89            0.07        0.04

Matches are distributed among these distances:
  59   20  0.39
  61   31  0.61

ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53


Consensus pattern (59 bp):   
TTAATATTAAATTTAATTTAATATTTATCTTGAAAAATATTATATTAATTTAATAAGAT

Found at i:1719 original size:23 final size:25

Alignment explanation


    Indices: 1671--1718  Score: 66
    Period size: 22  Copynumber: 2.0  Consensus size: 25

       1661 AGTTGTATAG

                                      
       1671 AGAAAATTCTCTAAAGAGATTATTTT
          1 AGAAAATTCTCT-AAGAGATTATTTT

                                     
       1697 AGAAAA-TCTCT-AGAGA-TATTTT
          1 AGAAAATTCTCTAAGAGATTATTTT

       1719 TTTGATTTTA


Statistics
Matches: 22,  Mismatches: 0, Indels: 4
        0.85            0.00        0.15

Matches are distributed among these distances:
  22    6  0.27
  23    5  0.23
  25    5  0.23
  26    6  0.27

ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38


Consensus pattern (25 bp):   
AGAAAATTCTCTAAGAGATTATTTT
Done.