Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014431.1 Kokia drynarioides strain JFW-HI SEQ_129469, 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: 4407
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36


Found at i:1391 original size:2 final size:2

Alignment explanation


    Indices: 1386--1417  Score: 57
    Period size: 2  Copynumber: 16.5  Consensus size: 2

       1376 TATATATATA

                                                             
       1386 TG TG TG TG TG TG TG TG TG TG T- TG TG TG TG TG T
          1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T

       1418 ATATGCGTGA


Statistics
Matches: 29,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   1    1  0.03
   2   28  0.97

ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53


Consensus pattern (2 bp):   
TG

Found at i:1689 original size:49 final size:49

Alignment explanation


    Indices: 1632--1739  Score: 198
    Period size: 49  Copynumber: 2.2  Consensus size: 49

       1622 TCAAATTAGT

                                     *                       
       1632 GGTGGCTTGTTCACATATTAAATCAGTGACAGTAAATTTGCATATCAGC
          1 GGTGGCTTGTTCACATATTAAATCAATGACAGTAAATTTGCATATCAGC

                                                            *
       1681 GGTGGCTTGTTCACATATTAAATCAATGACAGTAAATTTGCATATCAGT
          1 GGTGGCTTGTTCACATATTAAATCAATGACAGTAAATTTGCATATCAGC

                      
       1730 GGTGGCTTGT
          1 GGTGGCTTGT

       1740 CCATATCAGT


Statistics
Matches: 57,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  49   57  1.00

ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34


Consensus pattern (49 bp):   
GGTGGCTTGTTCACATATTAAATCAATGACAGTAAATTTGCATATCAGC

Found at i:1796 original size:22 final size:22

Alignment explanation


    Indices: 1771--1831  Score: 68
    Period size: 22  Copynumber: 2.8  Consensus size: 22

       1761 TATTAGTGGA

                         *      * 
       1771 AGTTTATTTACAACTCAATGGC
          1 AGTTTATTTACAAATCAATGAC

                *  * *            
       1793 AGTTCATATGCAAATCAATGAC
          1 AGTTTATTTACAAATCAATGAC

                     *       
       1815 AGTTTATTTGCAAATCA
          1 AGTTTATTTACAAATCA

       1832 GTGGCGGCAT


Statistics
Matches: 32,  Mismatches: 7, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  22   32  1.00

ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34


Consensus pattern (22 bp):   
AGTTTATTTACAAATCAATGAC
Done.