Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012941.1 Kokia drynarioides strain JFW-HI SEQ_127959, 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: 4290
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36


Found at i:1906 original size:18 final size:18

Alignment explanation


    Indices: 1883--1919  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       1873 ACAATTCATA

                              
       1883 TCACTTTCAATTCCAATT
          1 TCACTTTCAATTCCAATT

                     *  *     
       1901 TCACTTTCACTTTCAATT
          1 TCACTTTCAATTCCAATT

             
       1919 T
          1 T

       1920 TGATCACAAA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   17  1.00

ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49


Consensus pattern (18 bp):   
TCACTTTCAATTCCAATT

Found at i:2250 original size:17 final size:18

Alignment explanation


    Indices: 2216--2251  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       2206 TGGATTTCTA

                              
       2216 TCCAATTTATACCCTAAT
          1 TCCAATTTATACCCTAAT

                       *      
       2234 TCCAATTTA-ATCCTAAT
          1 TCCAATTTATACCCTAAT

             
       2251 T
          1 T

       2252 AACTCATTTA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  17    8  0.47
  18    9  0.53

ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42


Consensus pattern (18 bp):   
TCCAATTTATACCCTAAT

Found at i:2879 original size:2 final size:2

Alignment explanation


    Indices: 2872--2896  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

       2862 GGCTTTAATT

                                                 
       2872 TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA T

       2897 TTCATTAATC


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.