Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014335.1 Kokia drynarioides strain JFW-HI SEQ_129372, 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: 8562
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35


Found at i:84 original size:49 final size:49

Alignment explanation


    Indices: 1--177  Score: 166
    Period size: 49  Copynumber: 3.7  Consensus size: 49

                     *              *      *                   
          1 CGACTTAAACCTTTCCCTT--TGTATCTTCGTGGTACTAGATTCACCGTTG
          1 CGACTTAAATCTTTCCCTTCATG-CT-TTCGAGGTACTAGATTCACCGTTG

              *                        *       *  *    *     
         50 CGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCATCGTTG
          1 CGACTTAAATCTTTCCCTTCATGCTTTCGAGGTACTAGATTCACCGTTG

                     *        *           *            * *    
         99 CGACTTAAACCTTTCCCTCCAAT-C-TTCGTGGTACTAGATTCGCTGTTG
          1 CGACTTAAATCTTTCCCTTC-ATGCTTTCGAGGTACTAGATTCACCGTTG

             *                              
        147 CAACTTAAATCTTTCCCTTCATGC-TTCGAGG
          1 CGACTTAAATCTTTCCCTTCATGCTTTCGAGG

        178 AACTGAGACT


Statistics
Matches: 102,  Mismatches: 22, Indels: 9
        0.77            0.17        0.07

Matches are distributed among these distances:
  47    2  0.02
  48   41  0.40
  49   54  0.53
  50    3  0.03
  51    2  0.02

ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37


Consensus pattern (49 bp):   
CGACTTAAATCTTTCCCTTCATGCTTTCGAGGTACTAGATTCACCGTTG

Found at i:604 original size:18 final size:18

Alignment explanation


    Indices: 578--613  Score: 63
    Period size: 18  Copynumber: 2.0  Consensus size: 18

        568 AAAATTACCG

                *             
        578 AATATTTACAAGGAACAA
          1 AATAATTACAAGGAACAA

                              
        596 AATAATTACAAGGAACAA
          1 AATAATTACAAGGAACAA

        614 TATTAGATGC


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   17  1.00

ACGTcount: A:0.58, C:0.11, G:0.11, T:0.19


Consensus pattern (18 bp):   
AATAATTACAAGGAACAA
Done.