Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006091.1 Kokia drynarioides strain JFW-HI SEQ_120586, 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: 5400
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30


Found at i:517 original size:12 final size:12

Alignment explanation


    Indices: 490--524  Score: 54
    Period size: 12  Copynumber: 3.0  Consensus size: 12

        480 ATTGTTGTTC

                  *     
        490 TGAACTGTTT-T
          1 TGAACTTTTTGT

                        
        501 TGAACTTTTTGT
          1 TGAACTTTTTGT

                        
        513 TGAACTTTTTGT
          1 TGAACTTTTTGT

        525 AAAGTGTCCT


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  11    9  0.41
  12   13  0.59

ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57


Consensus pattern (12 bp):   
TGAACTTTTTGT

Found at i:811 original size:11 final size:12

Alignment explanation


    Indices: 790--814  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

        780 TGAATTGTTT

                        
        790 TTGAACTTTTTG
          1 TTGAACTTTTTG

                        
        802 TTGAACTTTTTG
          1 TTGAACTTTTTG

             
        814 T
          1 T

        815 AAAGTTTCCT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60


Consensus pattern (12 bp):   
TTGAACTTTTTG

Found at i:1463 original size:74 final size:73

Alignment explanation


    Indices: 1339--1487  Score: 208
    Period size: 74  Copynumber: 2.0  Consensus size: 73

       1329 ATAATACTAT

                              *                    * * *           *         
       1339 AAATATGCCTCCGGGTACCAAGTCACCTATGTCTCAGGTGTTTGTAAAGGAAAATGTAGGGAAAT
          1 AAATATGCCTCCGGGTACAAAGTCACCTATGTCTCAGGTATCTATAAAGGAAAATATAGGGAAAT

                     
       1404 GAGCTATAA
         66 GAGCTA-AA

                      **                                 *       *           
       1413 AAATATGCCTTTGGGTACAAAGTCACCTATGTCTCAGGTATCTATGAAGGAAATTATAGGGAAAT
          1 AAATATGCCTCCGGGTACAAAGTCACCTATGTCTCAGGTATCTATAAAGGAAAATATAGGGAAAT

                    
       1478 GAGCTAAA
         66 GAGCTAAA

              
       1486 AA
          1 AA

       1488 GCCCAATGTG


Statistics
Matches: 66,  Mismatches: 9, Indels: 1
        0.87            0.12        0.01

Matches are distributed among these distances:
  73    4  0.06
  74   62  0.94

ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26


Consensus pattern (73 bp):   
AAATATGCCTCCGGGTACAAAGTCACCTATGTCTCAGGTATCTATAAAGGAAAATATAGGGAAAT
GAGCTAAA
Done.