Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004229.1 Kokia drynarioides strain JFW-HI SEQ_117486, 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: 2217
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36


Found at i:1384 original size:24 final size:24

Alignment explanation


    Indices: 1248--1384  Score: 157
    Period size: 24  Copynumber: 5.7  Consensus size: 24

       1238 TTTAGTTAAC

                            **   *  
       1248 ATAAACAAACATGTTCTTGAATGT
          1 ATAAACAAACATGTTCACGAACGT

                                    
       1272 ATAAACAAACATGTTCACGAACGT
          1 ATAAACAAACATGTTCACGAACGT

                           **       
       1296 ATAAACAAACATGTTTGCGAACGT
          1 ATAAACAAACATGTTCACGAACGT

                           * * *  * 
       1320 ATAAACAAACATGTTTAGGGACAT
          1 ATAAACAAACATGTTCACGAACGT

               *  *               * 
       1344 ATAGACGAACATGTTCACGAACAT
          1 ATAAACAAACATGTTCACGAACGT

                  *          
       1368 ATAAACGAACATGTTCA
          1 ATAAACAAACATGTTCA

       1385 ACATGTTCGC


Statistics
Matches: 98,  Mismatches: 15, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  24   98  1.00

ACGTcount: A:0.44, C:0.17, G:0.15, T:0.25


Consensus pattern (24 bp):   
ATAAACAAACATGTTCACGAACGT

Found at i:1389 original size:33 final size:32

Alignment explanation


    Indices: 1351--1415  Score: 94
    Period size: 33  Copynumber: 2.0  Consensus size: 32

       1341 CATATAGACG

                                             
       1351 AACATGTTCACGAACATATAAACGAACATGTTC
          1 AACATGTTCACGAACAT-TAAACGAACATGTTC

                     *           * *        
       1384 AACATGTTCGCGAACATTAAATGGACATGTTC
          1 AACATGTTCACGAACATTAAACGAACATGTTC

       1416 GCGAACGCTA


Statistics
Matches: 29,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
  32   13  0.45
  33   16  0.55

ACGTcount: A:0.38, C:0.20, G:0.15, T:0.26


Consensus pattern (32 bp):   
AACATGTTCACGAACATTAAACGAACATGTTC
Done.