Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001362.1 Kokia drynarioides strain JFW-HI SEQ_112819, 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: 8348
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33


Found at i:1292 original size:40 final size:40

Alignment explanation


    Indices: 1237--1373  Score: 222
    Period size: 40  Copynumber: 3.5  Consensus size: 40

       1227 GCGTGAGAAT

                                                    
       1237 ATTGTTAAAAAGGAAGACTTATGACTCGATAGAGCATAAG
          1 ATTGTTAAAAAGGAAGACTTATGACTCGATAGAGCATAAG

                      *            *                
       1277 ATTGTTAAAAGGGAAGACTTATGTCTCGATAGAGCATAAG
          1 ATTGTTAAAAAGGAAGACTTATGACTCGATAGAGCATAAG

                *                       *           
       1317 ATTGGTAAAAAGGAAGACTTATGACTCGGTAGAGCATAAG
          1 ATTGTTAAAAAGGAAGACTTATGACTCGATAGAGCATAAG

                  *           
       1357 ATTG-TCAAAAGGAAGAC
          1 ATTGTTAAAAAGGAAGAC

       1374 ACATGAACCT


Statistics
Matches: 90,  Mismatches: 7, Indels: 1
        0.92            0.07        0.01

Matches are distributed among these distances:
  39   12  0.13
  40   78  0.87

ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24


Consensus pattern (40 bp):   
ATTGTTAAAAAGGAAGACTTATGACTCGATAGAGCATAAG

Found at i:7408 original size:22 final size:22

Alignment explanation


    Indices: 7380--7432  Score: 97
    Period size: 22  Copynumber: 2.4  Consensus size: 22

       7370 ACGCTAGCGC

                                  
       7380 GCTTTTGTTCAGCACTGTGTGT
          1 GCTTTTGTTCAGCACTGTGTGT

                                  
       7402 GCTTTTGTTCAGCACTGTGTGT
          1 GCTTTTGTTCAGCACTGTGTGT

                *    
       7424 GCTTCTGTT
          1 GCTTTTGTT

       7433 TCCCCAGCAC


Statistics
Matches: 30,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  22   30  1.00

ACGTcount: A:0.08, C:0.19, G:0.26, T:0.47


Consensus pattern (22 bp):   
GCTTTTGTTCAGCACTGTGTGT

Done.