Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003020.1 Kokia drynarioides strain JFW-HI SEQ_115535, 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: 6471
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29


Found at i:314 original size:87 final size:87

Alignment explanation


    Indices: 167--343  Score: 309
    Period size: 87  Copynumber: 2.0  Consensus size: 87

        157 TATCTACTTG

                      *                       *                            * 
        167 CAAGAAATTAGGAATAGGTTCGATGAAGCCCACTGCGGTGACATTGCAACTGACGAATAGATCTT
          1 CAAGAAATTAAGAATAGGTTCGATGAAGCCCACTACGGTGACATTGCAACTGACGAATAGATCCT

                                  
        232 TAGCACAACTTGAAGTACAAAT
         66 TAGCACAACTTGAAGTACAAAT

                                                                *  *         
        254 CAAGAAATTAAGAATAGGTTCGATGAAGCCCACTACGGTGACATTGCAACTGGCGGATAGATCCT
          1 CAAGAAATTAAGAATAGGTTCGATGAAGCCCACTACGGTGACATTGCAACTGACGAATAGATCCT

                                  
        319 TAGCACAACTTGAAGTACAAAT
         66 TAGCACAACTTGAAGTACAAAT

               
        341 CAA
          1 CAA

        344 AGATGTTCTT


Statistics
Matches: 85,  Mismatches: 5, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  87   85  1.00

ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22


Consensus pattern (87 bp):   
CAAGAAATTAAGAATAGGTTCGATGAAGCCCACTACGGTGACATTGCAACTGACGAATAGATCCT
TAGCACAACTTGAAGTACAAAT

Found at i:5530 original size:18 final size:19

Alignment explanation


    Indices: 5486--5531  Score: 60
    Period size: 18  Copynumber: 2.5  Consensus size: 19

       5476 GAGAAGGATC

                   *           
       5486 AAGATGAGGAAGAAAAGGG
          1 AAGATGAAGAAGAAAAGGG

                *              
       5505 AA-AGGAAGAAGAAAA-GG
          1 AAGATGAAGAAGAAAAGGG

                      
       5522 AAGATGAAGA
          1 AAGATGAAGA

       5532 GCCTGCCGAC


Statistics
Matches: 23,  Mismatches: 3, Indels: 3
        0.79            0.10        0.10

Matches are distributed among these distances:
  17    4  0.17
  18   17  0.74
  19    2  0.09

ACGTcount: A:0.59, C:0.00, G:0.37, T:0.04


Consensus pattern (19 bp):   
AAGATGAAGAAGAAAAGGG
Done.