Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000119.1 Kokia drynarioides strain JFW-HI SEQ_110760, 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: 1820
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37


Found at i:1361 original size:48 final size:48

Alignment explanation


    Indices: 1309--1434  Score: 198
    Period size: 48  Copynumber: 2.6  Consensus size: 48

       1299 TAATTATGCT

                                                            
       1309 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACA
          1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACA

                  *                               *      ** 
       1357 TCATTATGTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGTA
          1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACA

             *     *                      
       1405 TTATTAAATGTTTTGTTTGTTAAATGCATC
          1 TCATTAAGTGTTTTGTTTGTTAAATGCATC

       1435 CCAGTTAAGT


Statistics
Matches: 71,  Mismatches: 7, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  48   71  1.00

ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52


Consensus pattern (48 bp):   
TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTACA

Found at i:1392 original size:24 final size:24

Alignment explanation


    Indices: 1317--1393  Score: 61
    Period size: 24  Copynumber: 3.2  Consensus size: 24

       1307 CTTCATTAAG

                                    
       1317 TGTTTTGTTTGTTAAATGCATCTT
          1 TGTTTTGTTTGTTAAATGCATCTT

                 **  *  *  *          
       1341 TGTTTAATAAT-CTACAT-CAT-TAT
          1 TGTTTTGT-TTGTTAAATGCATCT-T

                                     
       1364 GTGTTTTGTTTGTTAAATGCATCTT
          1 -TGTTTTGTTTGTTAAATGCATCTT

                 
       1389 TGTTT
          1 TGTTT

       1394 AGTAATCTGT


Statistics
Matches: 37,  Mismatches: 10, Indels: 12
        0.63            0.17        0.20

Matches are distributed among these distances:
  22    1  0.03
  23    5  0.14
  24   25  0.68
  25    5  0.14
  26    1  0.03

ACGTcount: A:0.21, C:0.09, G:0.14, T:0.56


Consensus pattern (24 bp):   
TGTTTTGTTTGTTAAATGCATCTT
Done.