Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001762.1 Kokia drynarioides strain JFW-HI SEQ_113479, 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: 5371
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:48 original size:30 final size:31

Alignment explanation


    Indices: 12--83  Score: 94
    Period size: 30  Copynumber: 2.4  Consensus size: 31

          2 GTCACATTTA

                          *                 
         12 ACAAAACAGTCACTCAACTT-T-GAAAATGTG
          1 ACAAAACAGTCACTAAACTTATCGAAAA-GTG

                             *             
         42 ACAAAACAGTCACTAAAGTTATCGAAAAGTG
          1 ACAAAACAGTCACTAAACTTATCGAAAAGTG

                  *    
         73 ACAAAATAGTC
          1 ACAAAACAGTC

         84 CACTTGTTGT


Statistics
Matches: 37,  Mismatches: 3, Indels: 3
        0.86            0.07        0.07

Matches are distributed among these distances:
  30   18  0.49
  31   14  0.38
  32    5  0.14

ACGTcount: A:0.47, C:0.18, G:0.14, T:0.21


Consensus pattern (31 bp):   
ACAAAACAGTCACTAAACTTATCGAAAAGTG

Found at i:1224 original size:30 final size:30

Alignment explanation


    Indices: 1163--1224  Score: 88
    Period size: 30  Copynumber: 2.1  Consensus size: 30

       1153 GATGGAAAAG

                     *                *   
       1163 GACTATTTTGTCACATTTTCAAAGCTGAGA
          1 GACTATTTTATCACATTTTCAAAGCTAAGA

                               *    *     
       1193 GACTATTTTATCACATTTTTAAAGTTAAGA
          1 GACTATTTTATCACATTTTCAAAGCTAAGA

              
       1223 GA
          1 GA

       1225 TTGAAATGTA


Statistics
Matches: 28,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  30   28  1.00

ACGTcount: A:0.34, C:0.13, G:0.15, T:0.39


Consensus pattern (30 bp):   
GACTATTTTATCACATTTTCAAAGCTAAGA
Done.