Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004550.1 Kokia drynarioides strain JFW-HI SEQ_118018, 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: 1749
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32


Found at i:1356 original size:17 final size:17

Alignment explanation


    Indices: 1331--1402  Score: 108
    Period size: 17  Copynumber: 4.2  Consensus size: 17

       1321 AATAAGTTTG

                             
       1331 AATTTATTTTAAATTTA
          1 AATTTATTTTAAATTTA

                *     * *   *
       1348 AATTCATTTTGAGTTTG
          1 AATTTATTTTAAATTTA

                             
       1365 AATTTATTTTAAATTTA
          1 AATTTATTTTAAATTTA

                             
       1382 AATTTATTTTAAATTTA
          1 AATTTATTTTAAATTTA

                
       1399 AATT
          1 AATT

       1403 AATTAAAAAA


Statistics
Matches: 47,  Mismatches: 8, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  17   47  1.00

ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57


Consensus pattern (17 bp):   
AATTTATTTTAAATTTA

Found at i:1363 original size:34 final size:34

Alignment explanation


    Indices: 1325--1391  Score: 125
    Period size: 34  Copynumber: 2.0  Consensus size: 34

       1315 TTTTTAAATA

                                              
       1325 AGTTTGAATTTATTTTAAATTTAAATTCATTTTG
          1 AGTTTGAATTTATTTTAAATTTAAATTCATTTTG

                                       *     
       1359 AGTTTGAATTTATTTTAAATTTAAATTTATTTT
          1 AGTTTGAATTTATTTTAAATTTAAATTCATTTT

       1392 AAATTTAAAT


Statistics
Matches: 32,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  34   32  1.00

ACGTcount: A:0.33, C:0.01, G:0.07, T:0.58


Consensus pattern (34 bp):   
AGTTTGAATTTATTTTAAATTTAAATTCATTTTG

Found at i:1625 original size:21 final size:21

Alignment explanation


    Indices: 1600--1639  Score: 71
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1590 GCTCACCAGC

                        *        
       1600 CCCTCTGCACCAGCACCACCA
          1 CCCTCTGCACCAACACCACCA

                               
       1621 CCCTCTGCACCAACACCAC
          1 CCCTCTGCACCAACACCAC

       1640 TGTAAACCTG


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.25, C:0.57, G:0.07, T:0.10


Consensus pattern (21 bp):   
CCCTCTGCACCAACACCACCA
Done.