Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002879.1 Kokia drynarioides strain JFW-HI SEQ_115290, 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: 1961
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37


Found at i:124 original size:29 final size:30

Alignment explanation


    Indices: 87--145  Score: 75
    Period size: 29  Copynumber: 2.0  Consensus size: 30

         77 TATGGTTTAA

                *         *     *         
         87 TGTGTAATTGTATATATGAACTTT-GATTT
          1 TGTGCAATTGTATACATGAAATTTCGATTT

                     *                    
        116 TGTGCAATTTTATACATGAAATTTCGATTT
          1 TGTGCAATTGTATACATGAAATTTCGATTT

        146 GATCCAGTTC


Statistics
Matches: 25,  Mismatches: 4, Indels: 1
        0.83            0.13        0.03

Matches are distributed among these distances:
  29   20  0.80
  30    5  0.20

ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49


Consensus pattern (30 bp):   
TGTGCAATTGTATACATGAAATTTCGATTT

Found at i:287 original size:31 final size:30

Alignment explanation


    Indices: 250--318  Score: 88
    Period size: 31  Copynumber: 2.3  Consensus size: 30

        240 GATTTAATCA

                                            
        250 AAATTAAAATTTCA-A-GTATACATTTAAACC
          1 AAATTAAAATTTCACATGTATA-A-TTAAACC

                                       *   
        280 ACAATTAAAATTTCACATGTATAATTACACC
          1 A-AATTAAAATTTCACATGTATAATTAAACC

                    
        311 AAATTAAA
          1 AAATTAAA

        319 GTTCATATAT


Statistics
Matches: 35,  Mismatches: 1, Indels: 6
        0.83            0.02        0.14

Matches are distributed among these distances:
  30    8  0.23
  31   20  0.57
  32    2  0.06
  33    5  0.14

ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32


Consensus pattern (30 bp):   
AAATTAAAATTTCACATGTATAATTAAACC
Done.