Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001582.1 Kokia drynarioides strain JFW-HI SEQ_113190, 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: 26258
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37


Found at i:773 original size:23 final size:23

Alignment explanation


    Indices: 747--802  Score: 94
    Period size: 23  Copynumber: 2.4  Consensus size: 23

        737 AGCACGTTTC

                                   
        747 GTGCCCTCTGATTAGCACTTCGT
          1 GTGCCCTCTGATTAGCACTTCGT

                                *  
        770 GTGCCCTCTGATTAGCACTTTGT
          1 GTGCCCTCTGATTAGCACTTCGT

                *     
        793 GTGCTCTCTG
          1 GTGCCCTCTG

        803 TTAAGTATTT


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  23   31  1.00

ACGTcount: A:0.11, C:0.29, G:0.23, T:0.38


Consensus pattern (23 bp):   
GTGCCCTCTGATTAGCACTTCGT

Found at i:1740 original size:30 final size:30

Alignment explanation


    Indices: 1702--1759  Score: 84
    Period size: 31  Copynumber: 1.9  Consensus size: 30

       1692 AAGAATTATA

                                           
       1702 ATTTTTAA-TATTTTCTAAAA-TTTTAAAAT
          1 ATTTTTAATTATTTT-TAAAACTTTTAAAAT

                                         
       1731 ATTTATTAATTATTTTTAAAACTTTTAAA
          1 ATTT-TTAATTATTTTTAAAACTTTTAAA

       1760 TAAATTAAAT


Statistics
Matches: 26,  Mismatches: 0, Indels: 4
        0.87            0.00        0.13

Matches are distributed among these distances:
  29    4  0.15
  30    9  0.35
  31   13  0.50

ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55


Consensus pattern (30 bp):   
ATTTTTAATTATTTTTAAAACTTTTAAAAT

Found at i:20851 original size:20 final size:20

Alignment explanation


    Indices: 20805--20851  Score: 60
    Period size: 21  Copynumber: 2.4  Consensus size: 20

      20795 ATTACATGTG

                                
      20805 AAAAT-ATATAATAAAATAA
          1 AAAATAATATAATAAAATAA

                        *    *   
      20824 ATAAATAATATATTAAATTAA
          1 A-AAATAATATAATAAAATAA

                   
      20845 AAAATAA
          1 AAAATAA

      20852 CTCTTAATTT


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  19    1  0.04
  20   10  0.42
  21   13  0.54

ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30


Consensus pattern (20 bp):   
AAAATAATATAATAAAATAA
Done.