Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007870.1 Kokia drynarioides strain JFW-HI SEQ_122511, 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: 9679
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34


Found at i:3391 original size:23 final size:24

Alignment explanation


    Indices: 3345--3393  Score: 73
    Period size: 24  Copynumber: 2.1  Consensus size: 24

       3335 GAGTAAAATC

                  *            *    
       3345 TGTCAGTGCAAATATAATATAAAA
          1 TGTCAGAGCAAATATAATAGAAAA

                                    
       3369 TGTCAGAGCAAAT-TAATAGAAAA
          1 TGTCAGAGCAAATATAATAGAAAA

              
       3392 TG
          1 TG

       3394 GATTGACTGT


Statistics
Matches: 23,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  23   11  0.48
  24   12  0.52

ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27


Consensus pattern (24 bp):   
TGTCAGAGCAAATATAATAGAAAA

Found at i:5960 original size:3 final size:3

Alignment explanation


    Indices: 5935--5993  Score: 52
    Period size: 3  Copynumber: 20.3  Consensus size: 3

       5925 AGGCAACATT

                      *                                            *    
       5935 TTC TTC TTT TTC TTCC TTC -TC TTC TTC TTC TTC TTC TT- TTT TTC
          1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC

            *        *           
       5979 CT- TTC TCC TTC TTC T
          1 TTC TTC TTC TTC TTC T

       5994 GCCTCAATAC


Statistics
Matches: 45,  Mismatches: 7, Indels: 8
        0.75            0.12        0.13

Matches are distributed among these distances:
   2    5  0.11
   3   37  0.82
   4    3  0.07

ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68


Consensus pattern (3 bp):   
TTC

Done.