Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004947.1 Kokia drynarioides strain JFW-HI SEQ_118661, 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, 833

Length: 1389
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35


Found at i:176 original size:41 final size:40

Alignment explanation


    Indices: 131--208  Score: 93
    Period size: 40  Copynumber: 1.9  Consensus size: 40

        121 ATTTTTAACA

                             *                       
        131 GCGTTTGGACAGAAAACGCCACAAAAGGTAAAGCAATAGTG
          1 GCGTTTGGACA-AAAACCCCACAAAAGGTAAAGCAATAGTG

                  **   *       *         *       
        172 GCGTTTTTACATAAACCCCGCAAAAGGTAGAGCAATA
          1 GCGTTTGGACAAAAACCCCACAAAAGGTAAAGCAATA

        209 AGGTCAGAGC


Statistics
Matches: 31,  Mismatches: 6, Indels: 1
        0.82            0.16        0.03

Matches are distributed among these distances:
  40   22  0.71
  41    9  0.29

ACGTcount: A:0.40, C:0.19, G:0.23, T:0.18


Consensus pattern (40 bp):   
GCGTTTGGACAAAAACCCCACAAAAGGTAAAGCAATAGTG

Found at i:271 original size:41 final size:40

Alignment explanation


    Indices: 208--344  Score: 177
    Period size: 41  Copynumber: 3.4  Consensus size: 40

        198 GTAGAGCAAT

                             *                       
        208 AAGGTCAGAGCAATAGTGGCGCTTATGGGCAAGCGCCGCTA
          1 AAGGTCAGAGCAATAG-CGCGCTTATGGGCAAGCGCCGCTA

                                                     
        249 AAGGTCAGAGCAATAGCAGCGCTTATGGGCAAGCGCCGCTA
          1 AAGGTCAGAGCAATAGC-GCGCTTATGGGCAAGCGCCGCTA

                 *             *    *  *       *      
        290 AAGGTTAGAGCAATAGCGATGCTTTTGAG-AAGGCACCGCTA
          1 AAGGTCAGAGCAATAGCG-CGCTTATGGGCAA-GCGCCGCTA

                          
        331 AAGGTCAGAGCAAT
          1 AAGGTCAGAGCAAT

        345 CATAAGCACC


Statistics
Matches: 86,  Mismatches: 7, Indels: 6
        0.87            0.07        0.06

Matches are distributed among these distances:
  40    3  0.03
  41   83  0.97

ACGTcount: A:0.31, C:0.20, G:0.31, T:0.18


Consensus pattern (40 bp):   
AAGGTCAGAGCAATAGCGCGCTTATGGGCAAGCGCCGCTA
Done.