Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003081.1 Kokia drynarioides strain JFW-HI SEQ_115625, 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: 7798
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33


Found at i:3183 original size:40 final size:40

Alignment explanation


    Indices: 3095--3172  Score: 111
    Period size: 40  Copynumber: 1.9  Consensus size: 40

       3085 TATCAAAAAA

                                        *           
       3095 ATCGAATCAAAACTAATCGAATTCCATCTATTCAAATTAG
          1 ATCGAATCAAAACTAATCGAATTCCATCCATTCAAATTAG

                        *    *           *  *     
       3135 ATCGAATCAAAATTAATTGAATTCCATCCGTTTAAATT
          1 ATCGAATCAAAACTAATCGAATTCCATCCATTCAAATT

       3173 GGGTTGAATC


Statistics
Matches: 33,  Mismatches: 5, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  40   33  1.00

ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33


Consensus pattern (40 bp):   
ATCGAATCAAAACTAATCGAATTCCATCCATTCAAATTAG

Found at i:3434 original size:79 final size:79

Alignment explanation


    Indices: 3332--3481  Score: 212
    Period size: 79  Copynumber: 1.9  Consensus size: 79

       3322 TTTTGTGGAC

                                                      *       *           *  
       3332 AAATTCTGTTGAACGAAAGGAATAAAATCCTGAAAAAGAATTGTTCAATTGATTTCTATTTGGAA
          1 AAATTCTGTTGAACGAAAGGAATAAAATCCTGAAAAAGAATTATTCAATTAATTTCTATTTGCAA

             *            
       3397 ATAGAAAATCGAAT
         66 ACAGAAAATCGAAT

                            *            **     *                            
       3411 AAATTCTGTTGAACGGCAA-GAATAAAATTTTGAAATAGAATTATTCAATTAATTTCTATTTGCA
          1 AAATTCTGTTGAAC-GAAAGGAATAAAATCCTGAAAAAGAATTATTCAATTAATTTCTATTTGCA

                   
       3475 AACAGAA
         65 AACAGAA

       3482 TACAATTTTG


Statistics
Matches: 62,  Mismatches: 8, Indels: 2
        0.86            0.11        0.03

Matches are distributed among these distances:
  79   59  0.95
  80    3  0.05

ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32


Consensus pattern (79 bp):   
AAATTCTGTTGAACGAAAGGAATAAAATCCTGAAAAAGAATTATTCAATTAATTTCTATTTGCAA
ACAGAAAATCGAAT
Done.