Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007267.1 Kokia drynarioides strain JFW-HI SEQ_121883, 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, 876

Length: 1460
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37


Found at i:314 original size:25 final size:23

Alignment explanation


    Indices: 274--319  Score: 65
    Period size: 25  Copynumber: 1.9  Consensus size: 23

        264 CTAATTAGGG

                                   
        274 AATTATTATTTAAATTTAATTCA
          1 AATTATTATTTAAATTTAATTCA

                    *              
        297 AATTATCTTTTTAGAATTTAATT
          1 AATTAT-TATTTA-AATTTAATT

        320 TGGATCTAAC


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  23    6  0.30
  24    5  0.25
  25    9  0.45

ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54


Consensus pattern (23 bp):   
AATTATTATTTAAATTTAATTCA

Found at i:1381 original size:21 final size:21

Alignment explanation


    Indices: 1357--1402  Score: 56
    Period size: 21  Copynumber: 2.2  Consensus size: 21

       1347 TTATAAACAA

                 *             * 
       1357 TAAACGTTAAACCTTAAATCC
          1 TAAACATTAAACCTTAAATAC

                *       *        
       1378 TAAATATTAAACTTTAAATAC
          1 TAAACATTAAACCTTAAATAC

                
       1399 TAAA
          1 TAAA

       1403 TTTTACATTT


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.50, C:0.15, G:0.02, T:0.33


Consensus pattern (21 bp):   
TAAACATTAAACCTTAAATAC

Found at i:1403 original size:21 final size:21

Alignment explanation


    Indices: 1363--1422  Score: 75
    Period size: 21  Copynumber: 2.9  Consensus size: 21

       1353 ACAATAAACG

                  *              
       1363 TTAAACCTTAAATCCTAAATA
          1 TTAAACTTTAAATCCTAAATA

                         *      *
       1384 TTAAACTTTAAATACTAAATT
          1 TTAAACTTTAAATCCTAAATA

               * *            
       1405 TTACATTTTAAATCCTAA
          1 TTAAACTTTAAATCCTAA

       1423 CTATACATTG


Statistics
Matches: 33,  Mismatches: 6, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  21   33  1.00

ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40


Consensus pattern (21 bp):   
TTAAACTTTAAATCCTAAATA
Done.