Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014550.1 Kokia drynarioides strain JFW-HI SEQ_129589, 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: 14276
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34

Warning! 23 characters in sequence are not A, C, G, or T


Found at i:9196 original size:30 final size:30

Alignment explanation


    Indices: 9155--9256  Score: 93
    Period size: 29  Copynumber: 3.4  Consensus size: 30

       9145 TTTAGGAGCC

                                           
       9155 AAATTTGAATTTTTGGAAAATTTAGGGGTT-
          1 AAATTT-AATTTTTGGAAAATTTAGGGGTTA

             *      *     *                
       9185 ATATTTAAATTTT-AAAAAGTTTAGGGGTTA
          1 AAATTTAATTTTTGGAAAA-TTTAGGGGTTA

               *              *    *      
       9215 AAACTTAATTTTTGGAAAGTTTAAGGG-TA
          1 AAATTTAATTTTTGGAAAATTTAGGGGTTA

                *  *     
       9244 AAATATATTTTTT
          1 AAATTTAATTTTT

       9257 TTAAATTTCG


Statistics
Matches: 57,  Mismatches: 12, Indels: 7
        0.75            0.16        0.09

Matches are distributed among these distances:
  28    4  0.07
  29   28  0.49
  30   22  0.39
  31    3  0.05

ACGTcount: A:0.37, C:0.01, G:0.18, T:0.44


Consensus pattern (30 bp):   
AAATTTAATTTTTGGAAAATTTAGGGGTTA

Found at i:9245 original size:29 final size:29

Alignment explanation


    Indices: 9136--9256  Score: 91
    Period size: 30  Copynumber: 4.1  Consensus size: 29

       9126 AAAATGAAAA

                              **           
       9136 TTTGGAAAGTTT-AGGAGCCAAATTTGAATT
          1 TTTGGAAAGTTTAAGG-GTAAAATTT-AATT

                    *    *    * *      * 
       9166 TTTGGAAAATTTAGGGGTTATATTTAAAT
          1 TTTGGAAAGTTTAAGGGTAAAATTTAATT

               **        *         *      
       9195 TTTAAAAAGTTTAGGGGTTAAAACTTAATT
          1 TTTGGAAAGTTTAAGGG-TAAAATTTAATT

                                   *  *  
       9225 TTTGGAAAGTTTAAGGGTAAAATATATTT
          1 TTTGGAAAGTTTAAGGGTAAAATTTAATT

               
       9254 TTT
          1 TTT

       9257 TTAAATTTCG


Statistics
Matches: 70,  Mismatches: 19, Indels: 5
        0.74            0.20        0.05

Matches are distributed among these distances:
  29   29  0.41
  30   39  0.56
  31    2  0.03

ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42


Consensus pattern (29 bp):   
TTTGGAAAGTTTAAGGGTAAAATTTAATT
Done.