Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013598.1 Kokia drynarioides strain JFW-HI SEQ_128625, 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: 3636
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34


Found at i:1524 original size:10 final size:10

Alignment explanation


    Indices: 1511--1536  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

       1501 GAATTAATAC

                      
       1511 AAATTATTTA
          1 AAATTATTTA

                      
       1521 AAATTATTTA
          1 AAATTATTTA

                  
       1531 AAATTA
          1 AAATTA

       1537 ATATTTCATA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46


Consensus pattern (10 bp):   
AAATTATTTA

Found at i:1976 original size:46 final size:46

Alignment explanation


    Indices: 1908--2002  Score: 136
    Period size: 46  Copynumber: 2.1  Consensus size: 46

       1898 GTAACGGTTT

                   * *                     **       *     
       1908 TAATAAGTTGTGTATCAACCAAGCTCCCTATGTGAGCTCTTTGTGA
          1 TAATAAGCTATGTATCAACCAAGCTCCCTATACGAGCTCTCTGTGA

                             *                            
       1954 TAATAAGCTATGTATCAGCCAAGCTCCCTATACGAGCTCTCTGTGA
          1 TAATAAGCTATGTATCAACCAAGCTCCCTATACGAGCTCTCTGTGA

               
       2000 TAA
          1 TAA

       2003 GGTTTCGCTC


Statistics
Matches: 43,  Mismatches: 6, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  46   43  1.00

ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32


Consensus pattern (46 bp):   
TAATAAGCTATGTATCAACCAAGCTCCCTATACGAGCTCTCTGTGA

Found at i:2219 original size:27 final size:27

Alignment explanation


    Indices: 2181--2244  Score: 119
    Period size: 27  Copynumber: 2.4  Consensus size: 27

       2171 TATTATCGAA

                 *                     
       2181 AATAGTGGTGTGAAGCAGAATCACACC
          1 AATAGCGGTGTGAAGCAGAATCACACC

                                       
       2208 AATAGCGGTGTGAAGCAGAATCACACC
          1 AATAGCGGTGTGAAGCAGAATCACACC

                      
       2235 AATAGCGGTG
          1 AATAGCGGTG

       2245 GATCACGGCC


Statistics
Matches: 36,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  27   36  1.00

ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17


Consensus pattern (27 bp):   
AATAGCGGTGTGAAGCAGAATCACACC
Done.