Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007577.1 Kokia drynarioides strain JFW-HI SEQ_122207, 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: 1721
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37


Found at i:438 original size:25 final size:26

Alignment explanation


    Indices: 380--439  Score: 70
    Period size: 25  Copynumber: 2.4  Consensus size: 26

        370 TAAAGAAATA

                   *  *      *        
        380 AATATATCAATTTATTTTTGTATTGG
          1 AATATATAAAATTATTTATGTATTGG

                *                     
        406 -ATAAATAAAATTATTTATGTA-TGG
          1 AATATATAAAATTATTTATGTATTGG

                      
        430 AATATATAAA
          1 AATATATAAA

        440 CATAAAATGA


Statistics
Matches: 28,  Mismatches: 5, Indels: 3
        0.78            0.14        0.08

Matches are distributed among these distances:
  24    3  0.11
  25   25  0.89

ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45


Consensus pattern (26 bp):   
AATATATAAAATTATTTATGTATTGG

Found at i:1132 original size:16 final size:16

Alignment explanation


    Indices: 1113--1149  Score: 56
    Period size: 16  Copynumber: 2.3  Consensus size: 16

       1103 GGAATTGGGC

                            
       1113 TGTAATGAAATAGAGA
          1 TGTAATGAAATAGAGA

                   *       *
       1129 TGTAATGGAATAGAGC
          1 TGTAATGAAATAGAGA

                 
       1145 TGTAA
          1 TGTAA

       1150 CCAATAATTA


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  16   19  1.00

ACGTcount: A:0.43, C:0.03, G:0.27, T:0.27


Consensus pattern (16 bp):   
TGTAATGAAATAGAGA
Done.