Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013731.1 Kokia drynarioides strain JFW-HI SEQ_128759, 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: 9391
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.33


Found at i:391 original size:23 final size:24

Alignment explanation


    Indices: 352--402  Score: 61
    Period size: 23  Copynumber: 2.2  Consensus size: 24

        342 TAATAGGTAT

                                    
        352 TTTCAATTTACAATTCA-TATCAC
          1 TTTCAATTTACAATTCACTATCAC

                     *          *    
        375 TTTCAA-TTCCAATTTCACTTTCAC
          1 TTTCAATTTACAA-TTCACTATCAC

                
        399 TTTC
          1 TTTC

        403 GCTTTCAATT


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

Matches are distributed among these distances:
  22    5  0.21
  23   10  0.42
  24    9  0.38

ACGTcount: A:0.27, C:0.25, G:0.00, T:0.47


Consensus pattern (24 bp):   
TTTCAATTTACAATTCACTATCAC

Found at i:1065 original size:11 final size:11

Alignment explanation


    Indices: 1037--1068  Score: 57
    Period size: 10  Copynumber: 3.0  Consensus size: 11

       1027 TTTAGTCTCT

                       
       1037 TATGATTTTTC
          1 TATGATTTTTC

                       
       1048 TAT-ATTTTTC
          1 TATGATTTTTC

                       
       1058 TATGATTTTTC
          1 TATGATTTTTC

       1069 AAAGTCAGAA


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  10   10  0.50
  11   10  0.50

ACGTcount: A:0.19, C:0.09, G:0.06, T:0.66


Consensus pattern (11 bp):   
TATGATTTTTC

Found at i:3392 original size:2 final size:2

Alignment explanation


    Indices: 3385--3420  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       3375 CTTAATTTAA

                                                                 
       3385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       3421 TATCTAATTA


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.