Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007896.1 Kokia drynarioides strain JFW-HI SEQ_122537, 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: 1997
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36


Found at i:624 original size:31 final size:29

Alignment explanation


    Indices: 584--669  Score: 75
    Period size: 29  Copynumber: 2.9  Consensus size: 29

        574 GAATAAATCT

                *                          
        584 CAAAATTATACATGAATTTTGATTTAATATG
          1 CAAACTTATACATGAATTTTGATTT--TATG

               **     *                *  
        615 CAATTTTATATATGAACTTTT-ATTTTGTG
          1 CAAACTTATACATGAA-TTTTGATTTTATG

            *                         
        644 TAAACTTATACATGAAATTTTGATTT
          1 CAAACTTATACATG-AATTTTGATTT

        670 GACTAAATTC


Statistics
Matches: 44,  Mismatches: 8, Indels: 7
        0.75            0.14        0.12

Matches are distributed among these distances:
  29   17  0.39
  30    6  0.14
  31   17  0.39
  32    4  0.09

ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48


Consensus pattern (29 bp):   
CAAACTTATACATGAATTTTGATTTTATG

Found at i:896 original size:29 final size:30

Alignment explanation


    Indices: 842--898  Score: 82
    Period size: 29  Copynumber: 1.9  Consensus size: 30

        832 TTTGAACAAC

                            *             
        842 AATCAAAGTTTCATGTGTATAATTGCACCA
          1 AATCAAAGTTTCATGTATATAATTGCACCA

                                         
        872 AATCAAAGTTT-ATGTATCA-AATTGCAC
          1 AATCAAAGTTTCATGTAT-ATAATTGCAC

        899 GTTGAATCAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 3
        0.86            0.03        0.10

Matches are distributed among these distances:
  29   13  0.52
  30   12  0.48

ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33


Consensus pattern (30 bp):   
AATCAAAGTTTCATGTATATAATTGCACCA
Done.