Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011713.1 Kokia drynarioides strain JFW-HI SEQ_126707, 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, 747

Length: 1246
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39


Found at i:1159 original size:10 final size:10

Alignment explanation


    Indices: 1146--1203  Score: 53
    Period size: 10  Copynumber: 5.6  Consensus size: 10

       1136 ATATTTTTTA

                      
       1146 AAAAAATTAT
          1 AAAAAATTAT

                       
       1156 AAAAAATTTAT
          1 AAAAAA-TTAT

               *    * 
       1167 AAAGAATTCT
          1 AAAAAATTAT

               *       
       1177 AAAGAATATAT
          1 AAAAAAT-TAT

                  **  
       1188 AAAAAAAGAT
          1 AAAAAATTAT

                  
       1198 AAAAAA
          1 AAAAAA

       1204 AATTTAATAT


Statistics
Matches: 40,  Mismatches: 6, Indels: 4
        0.80            0.12        0.08

Matches are distributed among these distances:
  10   24  0.60
  11   16  0.40

ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24


Consensus pattern (10 bp):   
AAAAAATTAT

Found at i:1174 original size:21 final size:21

Alignment explanation


    Indices: 1142--1203  Score: 63
    Period size: 21  Copynumber: 3.0  Consensus size: 21

       1132 ATTAATATTT

                                 
       1142 TTTA-AAAAAATTATAAAAAA
          1 TTTATAAAAAATTATAAAAAA

                    *    *    *  
       1162 TTTATAAAGAATTCTAAAGAA
          1 TTTATAAAAAATTATAAAAAA

             *         **        
       1183 TATATAAAAAAAGATAAAAAA
          1 TTTATAAAAAATTATAAAAAA

       1204 AATTTAATAT


Statistics
Matches: 32,  Mismatches: 9, Indels: 1
        0.76            0.21        0.02

Matches are distributed among these distances:
  20    4  0.12
  21   28  0.88

ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27


Consensus pattern (21 bp):   
TTTATAAAAAATTATAAAAAA
Done.