Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010074.1 Kokia drynarioides strain JFW-HI SEQ_124852, 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: 6819
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37

Warning! 10 characters in sequence are not A, C, G, or T


Found at i:32 original size:4 final size:4

Alignment explanation


    Indices: 25--67  Score: 61
    Period size: 4  Copynumber: 10.8  Consensus size: 4

         15 TTCTTCCTTC

                                             *                    
         25 TTCT TTCT TTCT TTCT TTCT TTCT CTTTT TTCT TTCT TT-T TTC
          1 TTCT TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTCT TTC

         68 CTTCATTTTT


Statistics
Matches: 35,  Mismatches: 2, Indels: 4
        0.85            0.05        0.10

Matches are distributed among these distances:
   3    3  0.09
   4   29  0.83
   5    3  0.09

ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77


Consensus pattern (4 bp):   
TTCT

Found at i:64 original size:11 final size:11

Alignment explanation


    Indices: 22--78  Score: 60
    Period size: 11  Copynumber: 4.9  Consensus size: 11

         12 TCCTTCTTCC

                 *     
         22 TTCTTCTTTCT
          1 TTCTTTTTTCT

                         
         33 TTCTTTCTTTCTT
          1 TTCTTT-TTTC-T

                        
         46 TCTCTTTTTTCT
          1 T-TCTTTTTTCT

                      *
         58 TTCTTTTTTCC
          1 TTCTTTTTTCT

               *      
         69 TTCATTTTTC
          1 TTCTTTTTTC

         79 GTTGGTTCTC


Statistics
Matches: 40,  Mismatches: 3, Indels: 6
        0.82            0.06        0.12

Matches are distributed among these distances:
  11   23  0.57
  12    6  0.15
  13    6  0.15
  14    5  0.12

ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74


Consensus pattern (11 bp):   
TTCTTTTTTCT

Found at i:341 original size:27 final size:27

Alignment explanation


    Indices: 310--362  Score: 81
    Period size: 27  Copynumber: 2.0  Consensus size: 27

        300 CTTAGTGCCT

                                        
        310 GTGCCGCCAC-TTGATATTCCTCCATTA
          1 GTGCCGCCACTTTG-TATTCCTCCATTA

                           *          
        337 GTGCCGCCACTTTGTGTTCCTCCATT
          1 GTGCCGCCACTTTGTATTCCTCCATT

        363 GGGTGTCAGG


Statistics
Matches: 24,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  27   21  0.88
  28    3  0.12

ACGTcount: A:0.13, C:0.34, G:0.17, T:0.36


Consensus pattern (27 bp):   
GTGCCGCCACTTTGTATTCCTCCATTA
Done.