Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001144.1 Kokia drynarioides strain JFW-HI SEQ_112444, 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: 1961
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33

Warning! 11 characters in sequence are not A, C, G, or T


Found at i:166 original size:16 final size:16

Alignment explanation


    Indices: 121--170  Score: 52
    Period size: 16  Copynumber: 3.2  Consensus size: 16

        111 TAAACCTAGC

                      *     
        121 TAATTAATTACCAAAA
          1 TAATTAATTATCAAAA

                        *    
        137 T-A-TAA-TATAAAAAA
          1 TAATTAATTAT-CAAAA

                            
        151 TAATTAATTATCAAAA
          1 TAATTAATTATCAAAA

                
        167 TAAT
          1 TAAT

        171 ACCCCCATCA


Statistics
Matches: 27,  Mismatches: 3, Indels: 8
        0.71            0.08        0.21

Matches are distributed among these distances:
  13    2  0.07
  14    8  0.30
  15    2  0.07
  16   12  0.44
  17    3  0.11

ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34


Consensus pattern (16 bp):   
TAATTAATTATCAAAA

Found at i:1525 original size:43 final size:43

Alignment explanation


    Indices: 1446--1527  Score: 112
    Period size: 43  Copynumber: 1.9  Consensus size: 43

       1436 AACATGTTAA

                               *        *              
       1446 ATTATATTACTTGACTCGTGTTAATATAGTTGCATGTTACTAG
          1 ATTATATTACTTGACTCGTATTAATATACTTGCATGTTACTAG

                        *    *                      
       1489 ATTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
          1 ATTATATTACTTGACTCGTATTAATATACTTG-CATGTTA

       1528 TTAATTGTGC


Statistics
Matches: 34,  Mismatches: 4, Indels: 2
        0.85            0.10        0.05

Matches are distributed among these distances:
  42    3  0.09
  43   31  0.91

ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48


Consensus pattern (43 bp):   
ATTATATTACTTGACTCGTATTAATATACTTGCATGTTACTAG
Done.