Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003907.1 Kokia drynarioides strain JFW-HI SEQ_116969, 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: 2507
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38


Found at i:841 original size:25 final size:25

Alignment explanation


    Indices: 813--861  Score: 62
    Period size: 25  Copynumber: 2.0  Consensus size: 25

        803 AATATTTTCA

                        *     *      
        813 AAAAAAATATCATAATAATAAATTT
          1 AAAAAAATATCAAAATAAAAAATTT

                 *    *             
        838 AAAAATATATTAAAATAAAAAATT
          1 AAAAAAATATCAAAATAAAAAATT

        862 ATTGTTGACA


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  25   20  1.00

ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31


Consensus pattern (25 bp):   
AAAAAAATATCAAAATAAAAAATTT

Found at i:1798 original size:16 final size:16

Alignment explanation


    Indices: 1777--1814  Score: 76
    Period size: 16  Copynumber: 2.4  Consensus size: 16

       1767 CGGTCTTGGG

                            
       1777 GTCGTCTGGAGGTGCA
          1 GTCGTCTGGAGGTGCA

                            
       1793 GTCGTCTGGAGGTGCA
          1 GTCGTCTGGAGGTGCA

                  
       1809 GTCGTC
          1 GTCGTC

       1815 CAGAGCTCAA


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   22  1.00

ACGTcount: A:0.11, C:0.21, G:0.42, T:0.26


Consensus pattern (16 bp):   
GTCGTCTGGAGGTGCA

Found at i:2104 original size:25 final size:26

Alignment explanation


    Indices: 2071--2126  Score: 80
    Period size: 25  Copynumber: 2.2  Consensus size: 26

       2061 AGGAAACTCT

                         *            
       2071 TTATTTTATTTAATATTAATA-AA-A
          1 TTATTTTATTTAACATTAATATAATA

                                       
       2095 TTATATTTATTTAACATTAATATAATA
          1 TTAT-TTTATTTAACATTAATATAATA

                 
       2122 TTATT
          1 TTATT

       2127 ATAAAATTTA


Statistics
Matches: 28,  Mismatches: 1, Indels: 4
        0.85            0.03        0.12

Matches are distributed among these distances:
  24    4  0.14
  25   16  0.57
  26    3  0.11
  27    5  0.18

ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55


Consensus pattern (26 bp):   
TTATTTTATTTAACATTAATATAATA
Done.