Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010379.1 Kokia drynarioides strain JFW-HI SEQ_125252, 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: 14758
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35


Found at i:470 original size:37 final size:38

Alignment explanation


    Indices: 370--471  Score: 91
    Period size: 37  Copynumber: 2.6  Consensus size: 38

        360 GACCTTGAGT

                                   *               **
        370 CGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATT
          1 CGATGAGACACTGGGTGTC---ACTTTACTTCGGATAGAGC

                   **       **                     
        411 CGATGAGGTACTGGGTACCACTTTACTTC-GACTAG-GC
          1 CGATGAGACACTGGGTGTCACTTTACTTCGGA-TAGAGC

                                    
        448 CGATGAGACACTGGGTGTCACTTT
          1 CGATGAGACACTGGGTGTCACTTT

        472 GTTGCTTCGA


Statistics
Matches: 49,  Mismatches: 11, Indels: 6
        0.74            0.17        0.09

Matches are distributed among these distances:
  37   22  0.45
  38   12  0.24
  41   15  0.31

ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31


Consensus pattern (38 bp):   
CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC

Found at i:5385 original size:23 final size:23

Alignment explanation


    Indices: 5355--5449  Score: 118
    Period size: 23  Copynumber: 4.0  Consensus size: 23

       5345 CCAGACAACA

                    *              
       5355 TTAGCTCTCACGAGCCCGAATGG
          1 TTAGCTCTTACGAGCCCGAATGG

                       *           
       5378 TTAGCTCTTACAAGCCCGAATGG
          1 TTAGCTCTTACGAGCCCGAATGG

                              **     
       5401 TTAGCTCTTACGAGTTCCAAAATGG
          1 TTAGCTCTTACGAG--CCCGAATGG

                         *          
       5426 TTAGCTCTTACGAACCCAGAATGG
          1 TTAGCTCTTACGAGCCC-GAATGG

       5450 ATAACCAGTC


Statistics
Matches: 61,  Mismatches: 8, Indels: 5
        0.82            0.11        0.07

Matches are distributed among these distances:
  23   36  0.59
  24    5  0.08
  25   20  0.33

ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26


Consensus pattern (23 bp):   
TTAGCTCTTACGAGCCCGAATGG

Found at i:8347 original size:14 final size:14

Alignment explanation


    Indices: 8330--8369  Score: 53
    Period size: 14  Copynumber: 2.9  Consensus size: 14

       8320 TCCTGACCTG

                 *        
       8330 TTGACCTTGACCCA
          1 TTGACTTTGACCCA

                       * *
       8344 TTGACTTTGACTCG
          1 TTGACTTTGACCCA

                        
       8358 TTGACTTTGACC
          1 TTGACTTTGACC

       8370 AAACTGAACC


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  14   22  1.00

ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38


Consensus pattern (14 bp):   
TTGACTTTGACCCA
Done.