Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001178.1 Kokia drynarioides strain JFW-HI SEQ_112508, 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: 4007
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:172 original size:29 final size:28

Alignment explanation


    Indices: 140--209  Score: 72
    Period size: 29  Copynumber: 2.5  Consensus size: 28

        130 ATCATTGTCT

                                          
        140 TTTAAAAATCGACTAATCCATCAATTTA-C
          1 TTTAAAAATCGACTAAT--ATCAATTTATC

                *     *           *      
        169 TTTACAAATAAGA-TAATATCATTTTATC
          1 TTTAAAAAT-CGACTAATATCAATTTATC

                         
        197 TTTAAAAATCGAC
          1 TTTAAAAATCGAC

        210 GCAACTTGTA


Statistics
Matches: 33,  Mismatches: 5, Indels: 7
        0.73            0.11        0.16

Matches are distributed among these distances:
  27   10  0.30
  28    9  0.27
  29   12  0.36
  30    2  0.06

ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37


Consensus pattern (28 bp):   
TTTAAAAATCGACTAATATCAATTTATC

Found at i:1731 original size:6 final size:6

Alignment explanation


    Indices: 1720--1744  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

       1710 CGCTTGCAAA

                                         
       1720 ACTAGC ACTAGC ACTAGC ACTAGC A
          1 ACTAGC ACTAGC ACTAGC ACTAGC A

       1745 ATGACAAGAA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16


Consensus pattern (6 bp):   
ACTAGC

Done.