Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002097.1 Kokia drynarioides strain JFW-HI SEQ_114016, 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: 4910
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.32

Warning! 103 characters in sequence are not A, C, G, or T


Found at i:3344 original size:59 final size:60

Alignment explanation


    Indices: 3271--3406  Score: 177
    Period size: 60  Copynumber: 2.3  Consensus size: 60

       3261 TTCGAGATCG

                    *                            *                       
       3271 AAAATGGAGTTTTTGGACATCCGAGGGT--AAAATAGTAATTTTTGAAAGTTTCGGGGTCA
          1 AAAATGGAATTTTTGGACATCCGAGGGTACAAAAT-GGAATTTTTGAAAGTTTCGGGGTCA

                     *       ** *                               *   *   
       3330 AAAATGGAAATTTTGGAGGTTCGAGGGTACAAAATGGAATTTTTGAAAGTTTTGGGTTCA
          1 AAAATGGAATTTTTGGACATCCGAGGGTACAAAATGGAATTTTTGAAAGTTTCGGGGTCA

                             
       3390 AAAATGGAATTTTTGGA
          1 AAAATGGAATTTTTGGA

       3407 AGTTCAGGGG


Statistics
Matches: 66,  Mismatches: 9, Indels: 3
        0.85            0.12        0.04

Matches are distributed among these distances:
  59   23  0.35
  60   38  0.58
  61    5  0.08

ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33


Consensus pattern (60 bp):   
AAAATGGAATTTTTGGACATCCGAGGGTACAAAATGGAATTTTTGAAAGTTTCGGGGTCA

Found at i:3394 original size:30 final size:30

Alignment explanation


    Indices: 3307--3425  Score: 114
    Period size: 30  Copynumber: 4.0  Consensus size: 30

       3297 GTAAAATAGT

                           *   *          
       3307 AATTTTTGAAAGTTTCGGGGTCAAAAATGG
          1 AATTTTTGAAAGTTTAGGGTTCAAAAATGG

              *     * *    *     *         
       3337 AAATTTTGGAGGTTCGAGGGTAC-AAAATGG
          1 AATTTTTGAAAGTT-TAGGGTTCAAAAATGG

                           *              
       3367 AATTTTTGAAAGTTTTGGGTTCAAAAATGG
          1 AATTTTTGAAAGTTTAGGGTTCAAAAATGG

                    *     *    * *       
       3397 AATTTTTGGAAGTTCAGGGGTGAAAAATG
          1 AATTTTTGAAAGTTTAGGGTTCAAAAATG

       3426 ACTAATTTGG


Statistics
Matches: 69,  Mismatches: 18, Indels: 4
        0.76            0.20        0.04

Matches are distributed among these distances:
  29    5  0.07
  30   60  0.87
  31    4  0.06

ACGTcount: A:0.34, C:0.05, G:0.29, T:0.33


Consensus pattern (30 bp):   
AATTTTTGAAAGTTTAGGGTTCAAAAATGG
Done.