Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013742.1 Kokia drynarioides strain JFW-HI SEQ_128770, 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: 8027
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34


Found at i:1109 original size:16 final size:16

Alignment explanation


    Indices: 1088--1118  Score: 62
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       1078 ATATACCCGA

                            
       1088 GTTGCACTTTCTAAGG
          1 GTTGCACTTTCTAAGG

                           
       1104 GTTGCACTTTCTAAG
          1 GTTGCACTTTCTAAG

       1119 TAAGCGGAAG


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   15  1.00

ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39


Consensus pattern (16 bp):   
GTTGCACTTTCTAAGG

Found at i:1921 original size:39 final size:39

Alignment explanation


    Indices: 1876--1958  Score: 132
    Period size: 39  Copynumber: 2.1  Consensus size: 39

       1866 TCTCATCCTT

                                                    
       1876 CGGAGTTTTTGCTGCACA-AGCCTACTTTCTTCCTTTATA
          1 CGGAGTTTTTGCTGCACAGA-CCTACTTTCTTCCTTTATA

            *                      *               
       1915 GGGAGTTTTTGCTGCACAGACCTGCTTTCTTCCTTTATA
          1 CGGAGTTTTTGCTGCACAGACCTACTTTCTTCCTTTATA

                 
       1954 CGGAG
          1 CGGAG

       1959 ATACTTGTCC


Statistics
Matches: 40,  Mismatches: 3, Indels: 2
        0.89            0.07        0.04

Matches are distributed among these distances:
  39   39  0.98
  40    1  0.03

ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39


Consensus pattern (39 bp):   
CGGAGTTTTTGCTGCACAGACCTACTTTCTTCCTTTATA
Done.