Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009025.1 Kokia drynarioides strain JFW-HI SEQ_123723, 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: 5980
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30


Found at i:1797 original size:30 final size:30

Alignment explanation


    Indices: 1763--1827  Score: 103
    Period size: 30  Copynumber: 2.2  Consensus size: 30

       1753 TAACTTAATA

                      *        *          
       1763 AACAAATGCCTCTAAAATAGTAACAAAATT
          1 AACAAATGCCGCTAAAATAATAACAAAATT

                 *                        
       1793 AACAAGTGCCGCTAAAATAATAACAAAATT
          1 AACAAATGCCGCTAAAATAATAACAAAATT

                 
       1823 AACAA
          1 AACAA

       1828 TAAAATAAAA


Statistics
Matches: 32,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  30   32  1.00

ACGTcount: A:0.55, C:0.17, G:0.08, T:0.20


Consensus pattern (30 bp):   
AACAAATGCCGCTAAAATAATAACAAAATT

Found at i:4076 original size:3 final size:3

Alignment explanation


    Indices: 4068--4115  Score: 87
    Period size: 3  Copynumber: 15.7  Consensus size: 3

       4058 ACTGTTGATG

                                                                        
       4068 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCAT
          1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT

              
       4114 TA
          1 TA

       4116 AATTGTTATT


Statistics
Matches: 44,  Mismatches: 0, Indels: 2
        0.96            0.00        0.04

Matches are distributed among these distances:
   3   41  0.93
   4    3  0.07

ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65


Consensus pattern (3 bp):   
TAT

Found at i:5947 original size:48 final size:48

Alignment explanation


    Indices: 5876--5980  Score: 183
    Period size: 48  Copynumber: 2.2  Consensus size: 48

       5866 GGGGAGGATC

                            *                               
       5876 AACGACCGTATTTGGGTCATCAGCACCGACAGGAGAAGGAGCAAGAGA
          1 AACGACCGTATTTGGGCCATCAGCACCGACAGGAGAAGGAGCAAGAGA

                                                       *   *
       5924 AACGACCGTATTTGGGCCATCAGCACCGACAGGAGAAGGAGCACGAGC
          1 AACGACCGTATTTGGGCCATCAGCACCGACAGGAGAAGGAGCAAGAGA

                     
       5972 AACGACCGT
          1 AACGACCGT


Statistics
Matches: 54,  Mismatches: 3, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  48   54  1.00

ACGTcount: A:0.33, C:0.25, G:0.30, T:0.11


Consensus pattern (48 bp):   
AACGACCGTATTTGGGCCATCAGCACCGACAGGAGAAGGAGCAAGAGA
Done.