Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005151.1 Kokia drynarioides strain JFW-HI SEQ_118994, 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: 4694
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29


Found at i:1098 original size:30 final size:29

Alignment explanation


    Indices: 1064--1141  Score: 77
    Period size: 29  Copynumber: 2.6  Consensus size: 29

       1054 GGTTAAAACA

                 *                        
       1064 TAATTATGGAAAAGTTTAGAGATAAAAATG
          1 TAATTTTGG-AAAGTTTAGAGATAAAAATG

                               * * *      
       1094 TAATTTTAGGAAAGTTT-GGGGTTAAAATG
          1 TAATTTT-GGAAAGTTTAGAGATAAAAATG

             *                 
       1123 TGATTTTGGGAAAGTTTAG
          1 TAATTTT-GGAAAGTTTAG

       1142 GGCCAAAATG


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

Matches are distributed among these distances:
  29   24  0.60
  30   14  0.35
  31    2  0.05

ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36


Consensus pattern (29 bp):   
TAATTTTGGAAAGTTTAGAGATAAAAATG

Found at i:1177 original size:29 final size:29

Alignment explanation


    Indices: 1074--1201  Score: 114
    Period size: 29  Copynumber: 4.4  Consensus size: 29

       1064 TAATTATGGA

                       * *       *     *  
       1074 AAAGTTTAGAGATAAAAATGTAATTTTAGG
          1 AAAGTTTAG-GGTCAAAATGTGATTTTTGG

                   *    *             *  
       1104 AAAGTTTGGGGTTAAAATGTGATTTTGGG
          1 AAAGTTTAGGGTCAAAATGTGATTTTTGG

                       *         *       
       1133 AAAGTTTAGGGCCAAAATGTGGTTTTTGG
          1 AAAGTTTAGGGTCAAAATGTGATTTTTGG

                     *      * *  *        
       1162 AAAGTTTAGTGTCAAATTAT-TTTTTTGGG
          1 AAAGTTTAGGGTCAAAATGTGATTTTT-GG

                       
       1191 AAAGTTTAGGG
          1 AAAGTTTAGGG

       1202 ATTAAAACAA


Statistics
Matches: 81,  Mismatches: 16, Indels: 3
        0.81            0.16        0.03

Matches are distributed among these distances:
  28    5  0.06
  29   68  0.84
  30    8  0.10

ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38


Consensus pattern (29 bp):   
AAAGTTTAGGGTCAAAATGTGATTTTTGG
Done.