Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004494.1 Kokia drynarioides strain JFW-HI SEQ_117928, 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: 3991
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32


Found at i:1657 original size:46 final size:46

Alignment explanation


    Indices: 1607--1701  Score: 136
    Period size: 46  Copynumber: 2.1  Consensus size: 46

       1597 GAGCGAAACC

                    *       **                     * *    
       1607 TTATCACAGAGAGCTCGTATAGGGAGCTTGGCTGATACATAGCTTA
          1 TTATCACAAAGAGCTCACATAGGGAGCTTGGCTGATACACAACTTA

                                           *              
       1653 TTATCACAAAGAGCTCACATAGGGAGCTTGGTTGATACACAACTTA
          1 TTATCACAAAGAGCTCACATAGGGAGCTTGGCTGATACACAACTTA

               
       1699 TTA
          1 TTA

       1702 AAACCGTTCC


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


Consensus pattern (46 bp):   
TTATCACAAAGAGCTCACATAGGGAGCTTGGCTGATACACAACTTA

Found at i:2636 original size:10 final size:10

Alignment explanation


    Indices: 2621--2645  Score: 50
    Period size: 10  Copynumber: 2.5  Consensus size: 10

       2611 TATGAAATAT

                      
       2621 TAATTTTAAA
          1 TAATTTTAAA

                      
       2631 TAATTTTAAA
          1 TAATTTTAAA

                 
       2641 TAATT
          1 TAATT

       2646 AATATTAATT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   15  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (10 bp):   
TAATTTTAAA
Done.