Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002613.1 Kokia drynarioides strain JFW-HI SEQ_114828, 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, 681

Length: 1135
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39


Found at i:366 original size:3 final size:3

Alignment explanation


    Indices: 358--429  Score: 63
    Period size: 3  Copynumber: 22.3  Consensus size: 3

        348 TTTTCCCTTT

                          *      *                             *   *       
        358 TTA TTA TTAA TGA TTA ATA TTA TTA TTA TTA TTA TTAA TGA GGTA GTTA
          1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA -TTA

                                          
        407 TTA CTTA TTA TTA TTA TTA TTA T
          1 TTA -TTA TTA TTA TTA TTA TTA T

        430 ACTACTTATG


Statistics
Matches: 57,  Mismatches: 8, Indels: 8
        0.78            0.11        0.11

Matches are distributed among these distances:
   3   46  0.81
   4   11  0.19

ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57


Consensus pattern (3 bp):   
TTA

Found at i:395 original size:28 final size:31

Alignment explanation


    Indices: 358--425  Score: 97
    Period size: 31  Copynumber: 2.3  Consensus size: 31

        348 TTTTCCCTTT

                          *                
        358 TTATTATTAATGA-TTA-ATATTA-TTATTA
          1 TTATTATTAATGAGGTAGATATTACTTATTA

                              *            
        386 TTATTATTAATGAGGTAGTTATTACTTATTA
          1 TTATTATTAATGAGGTAGATATTACTTATTA

                     
        417 TTATTATTA
          1 TTATTATTA

        426 TTATACTACT


Statistics
Matches: 35,  Mismatches: 2, Indels: 3
        0.88            0.05        0.08

Matches are distributed among these distances:
  28   13  0.37
  29    2  0.06
  30    5  0.14
  31   15  0.43

ACGTcount: A:0.35, C:0.01, G:0.07, T:0.56


Consensus pattern (31 bp):   
TTATTATTAATGAGGTAGATATTACTTATTA
Done.