Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000031.1 Kokia drynarioides strain JFW-HI SEQ_42291, 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, 660

Length: 1101
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.35


Found at i:318 original size:27 final size:27

Alignment explanation


    Indices: 260--318  Score: 64
    Period size: 27  Copynumber: 2.2  Consensus size: 27

        250 CCCGTGGATG

                   * *              * *
        260 AAAAAAAGTTTAGATATCAATCTGGAC
          1 AAAAAAACTATAGATATCAATCTGAAA

            *            *             
        287 TAAAAAACTATAGGTATCAATCTGAAA
          1 AAAAAAACTATAGATATCAATCTGAAA

                 
        314 AAAAA
          1 AAAAA

        319 TGAACAAGTT


Statistics
Matches: 25,  Mismatches: 7, Indels: 0
        0.78            0.22        0.00

Matches are distributed among these distances:
  27   25  1.00

ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24


Consensus pattern (27 bp):   
AAAAAAACTATAGATATCAATCTGAAA

Found at i:770 original size:18 final size:19

Alignment explanation


    Indices: 747--786  Score: 64
    Period size: 18  Copynumber: 2.2  Consensus size: 19

        737 TCAATCAAAT

                  *            
        747 AAATATTAAAA-ATTTATA
          1 AAATATAAAAATATTTATA

                               
        765 AAATATAAAAATATTTATA
          1 AAATATAAAAATATTTATA

               
        784 AAA
          1 AAA

        787 ATTGATTAAT


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  18   10  0.50
  19   10  0.50

ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35


Consensus pattern (19 bp):   
AAATATAAAAATATTTATA

Found at i:773 original size:17 final size:20

Alignment explanation


    Indices: 747--786  Score: 59
    Period size: 19  Copynumber: 2.1  Consensus size: 20

        737 TCAATCAAAT

                                
        747 AAATATT-AAAA-ATTTATA
          1 AAATATTAAAAATATTTATA

                                
        765 AAATA-TAAAAATATTTATA
          1 AAATATTAAAAATATTTATA

               
        784 AAA
          1 AAA

        787 ATTGATTAAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 3
        0.87            0.00        0.13

Matches are distributed among these distances:
  17    1  0.05
  18    9  0.45
  19   10  0.50

ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35


Consensus pattern (20 bp):   
AAATATTAAAAATATTTATA

Done.