Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000412.1 Kokia drynarioides strain JFW-HI SEQ_111230, 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: 5303
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33


Found at i:1568 original size:29 final size:29

Alignment explanation


    Indices: 1530--1600  Score: 135
    Period size: 29  Copynumber: 2.5  Consensus size: 29

       1520 AACTATTCAA

                                         
       1530 AAGTTTTTTATTTATGACATTGGGTTGTT
          1 AAGTTTTTTATTTATGACATTGGGTTGTT

                                         
       1559 AAGTTTTTTATTTATGACATTGGGTTGTT
          1 AAGTTTTTTATTTATGACATTGGGTTGTT

                          
       1588 AAGTTTTTT-TTTA
          1 AAGTTTTTTATTTA

       1601 AAGTTCGGCT


Statistics
Matches: 42,  Mismatches: 0, Indels: 1
        0.98            0.00        0.02

Matches are distributed among these distances:
  28    4  0.10
  29   38  0.90

ACGTcount: A:0.21, C:0.03, G:0.18, T:0.58


Consensus pattern (29 bp):   
AAGTTTTTTATTTATGACATTGGGTTGTT

Found at i:4625 original size:20 final size:20

Alignment explanation


    Indices: 4589--4634  Score: 51
    Period size: 20  Copynumber: 2.3  Consensus size: 20

       4579 TCATTAAGCT

                        *        
       4589 TTAATTAATCATTTTTA-ATC
          1 TTAATTAATCATATTTATA-C

                                 
       4609 TTAATTAAATC-TATTTATAC
          1 TTAATT-AATCATATTTATAC

                  
       4629 TTAATT
          1 TTAATT

       4635 TAAACCATGC


Statistics
Matches: 23,  Mismatches: 1, Indels: 4
        0.82            0.04        0.14

Matches are distributed among these distances:
  20   18  0.78
  21    5  0.22

ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54


Consensus pattern (20 bp):   
TTAATTAATCATATTTATAC
Done.