Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000701.1 Kokia drynarioides strain JFW-HI SEQ_111703, 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: 2009
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42


Found at i:924 original size:27 final size:30

Alignment explanation


    Indices: 864--925  Score: 76
    Period size: 27  Copynumber: 2.2  Consensus size: 30

        854 TTTATAGGTT

                                         *
        864 AATTTTTTTTATCAACTTTTAAGGGTTTCC
          1 AATTTTTTTTATCAACTTTTAAGGGTTTCA

                           *            * 
        894 AATTTTTTTT-T-AATTTTTAA-GGTTTTA
          1 AATTTTTTTTATCAACTTTTAAGGGTTTCA

                 
        921 AATTT
          1 AATTT

        926 ATTGTTTTTA


Statistics
Matches: 29,  Mismatches: 3, Indels: 3
        0.83            0.09        0.09

Matches are distributed among these distances:
  27   10  0.34
  28    8  0.28
  29    1  0.03
  30   10  0.34

ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60


Consensus pattern (30 bp):   
AATTTTTTTTATCAACTTTTAAGGGTTTCA

Found at i:1526 original size:14 final size:13

Alignment explanation


    Indices: 1475--1527  Score: 52
    Period size: 14  Copynumber: 3.7  Consensus size: 13

       1465 ACTTTAGAAT

                         
       1475 TTTTCTTTTTTTC
          1 TTTTCTTTTTTTC

                       *     
       1488 TTCTCCTCTTCCTTTTC
          1 TT-T--TCTT-TTTTTC

                         
       1505 TTTTCTTTTTTTC
          1 TTTTCTTTTTTTC

                      
       1518 GTTTTCTTTT
          1 -TTTTCTTTT

       1528 ACTACTCAAC


Statistics
Matches: 33,  Mismatches: 2, Indels: 9
        0.75            0.05        0.20

Matches are distributed among these distances:
  13    7  0.21
  14   14  0.42
  16    5  0.15
  17    7  0.21

ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75


Consensus pattern (13 bp):   
TTTTCTTTTTTTC
Done.