Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003620.1 Kokia drynarioides strain JFW-HI SEQ_116513, 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, 772

Length: 1287
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37


Found at i:519 original size:3 final size:3

Alignment explanation


    Indices: 511--582  Score: 54
    Period size: 3  Copynumber: 22.3  Consensus size: 3

        501 TTTTCCCTTT

                          *      *   *                         *   *       
        511 TTA TTA TTAA TGA TTA ATA ATA 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

                                          
        560 TTA CTTA TTA TTA TTA TTA TTA T
          1 TTA -TTA TTA TTA TTA TTA TTA T

        583 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:0.36, C:0.01, G:0.07, T:0.56


Consensus pattern (3 bp):   
TTA

Found at i:548 original size:28 final size:31

Alignment explanation


    Indices: 511--578  Score: 88
    Period size: 31  Copynumber: 2.3  Consensus size: 31

        501 TTTTCCCTTT

                          *                
        511 TTATTATTAATGA-TTA-ATAATA-TTATTA
          1 TTATTATTAATGAGGTAGATAATACTTATTA

                              *  *         
        539 TTATTATTAATGAGGTAGTTATTACTTATTA
          1 TTATTATTAATGAGGTAGATAATACTTATTA

                     
        570 TTATTATTA
          1 TTATTATTA

        579 TTATACTACT


Statistics
Matches: 34,  Mismatches: 3, Indels: 3
        0.85            0.08        0.08

Matches are distributed among these distances:
  28   13  0.38
  29    2  0.06
  30    4  0.12
  31   15  0.44

ACGTcount: A:0.37, C:0.01, G:0.07, T:0.54


Consensus pattern (31 bp):   
TTATTATTAATGAGGTAGATAATACTTATTA
Done.