Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001013.1 Kokia drynarioides strain JFW-HI SEQ_112224, 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: 1878
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34


Found at i:1347 original size:25 final size:23

Alignment explanation


    Indices: 1301--1350  Score: 66
    Period size: 23  Copynumber: 2.2  Consensus size: 23

       1291 GAACACTAGC

                                   
       1301 GTGCTCTCTGATTAGCATTGTGT
          1 GTGCTCTCTGATTAGCATTGTGT

                              * *   
       1324 GTGCTCTCTG-TTCAGCACTATGT
          1 GTGCTCTCTGATT-AGCATTGTGT

                
       1347 GTGC
          1 GTGC

       1351 CCTTTGTTAT


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  22    2  0.08
  23   22  0.92

ACGTcount: A:0.12, C:0.22, G:0.26, T:0.40


Consensus pattern (23 bp):   
GTGCTCTCTGATTAGCATTGTGT

Found at i:1422 original size:48 final size:47

Alignment explanation


    Indices: 1323--1433  Score: 134
    Period size: 48  Copynumber: 2.3  Consensus size: 47

       1313 TAGCATTGTG

                 *         *                     **  *      
       1323 TGTGCTCTCTGTTCAGCACTATGTGTGCCCTTTGTTATTAGTACTTCA
          1 TGTGCCCTCTGTT-AACACTATGTGTGCCCTTTGTTACCAGCACTTCA

                                *                            
       1371 TGTGCCCTCTGATTAACACTTTGTGTGCCCTTTGTTACCCAGCACTT-A
          1 TGTGCCCTCTG-TTAACACTATGTGTGCCCTTTGTTA-CCAGCACTTCA

                           
       1419 TGTGCCCTCTGTTAA
          1 TGTGCCCTCTGTTAA

       1434 GTGCTTCGGT


Statistics
Matches: 55,  Mismatches: 6, Indels: 5
        0.83            0.09        0.08

Matches are distributed among these distances:
  47    4  0.07
  48   43  0.78
  49    8  0.15

ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41


Consensus pattern (47 bp):   
TGTGCCCTCTGTTAACACTATGTGTGCCCTTTGTTACCAGCACTTCA
Done.