Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004175.1 Kokia drynarioides strain JFW-HI SEQ_117407, 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: 1826
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36


Found at i:83 original size:50 final size:51

Alignment explanation


    Indices: 8--108  Score: 186
    Period size: 50  Copynumber: 2.0  Consensus size: 51

          1 TTTACGG

                                        *                      
          8 ATTAAAGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAAT-CATGGCGA
          1 ATTAAAGGTCCGATGACTAAGTGTCATCCTGAGTAAATGAATCCATGGCGA

                                                               
         58 ATTAAAGGTCCGATGACTAAGTGTCATCCTGAGTAAATGAATCCATGGCGA
          1 ATTAAAGGTCCGATGACTAAGTGTCATCCTGAGTAAATGAATCCATGGCGA

        109 GAAATAAATG


Statistics
Matches: 49,  Mismatches: 1, Indels: 1
        0.96            0.02        0.02

Matches are distributed among these distances:
  50   41  0.84
  51    8  0.16

ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26


Consensus pattern (51 bp):   
ATTAAAGGTCCGATGACTAAGTGTCATCCTGAGTAAATGAATCCATGGCGA

Found at i:1790 original size:20 final size:21

Alignment explanation


    Indices: 1767--1805  Score: 71
    Period size: 20  Copynumber: 1.9  Consensus size: 21

       1757 AAATAATTTG

                                 
       1767 TTAAAATATA-AATTATATCA
          1 TTAAAATATATAATTATATCA

                               
       1787 TTAAAATATATAATTATAT
          1 TTAAAATATATAATTATAT

       1806 ATGTATGTTT


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  20   10  0.56
  21    8  0.44

ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44


Consensus pattern (21 bp):   
TTAAAATATATAATTATATCA

Done.