Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013600.1 Kokia drynarioides strain JFW-HI SEQ_128627, 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: 3923
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32


Found at i:1539 original size:42 final size:43

Alignment explanation


    Indices: 1445--1641  Score: 263
    Period size: 42  Copynumber: 4.6  Consensus size: 43

       1435 CTTGCCTTGG

                   *  *                               *
       1445 CAACGCTCATTCCACAAACGCCGCTAAAGAACATGATTTTTAG
          1 CAACGCTTATCCCACAAACGCCGCTAAAGAACATGATTTTTAA

             *  *              *               * *     
       1488 CGACACTTATCCCACAAACACCGCTAAA-AACATGGTCTTTAA
          1 CAACGCTTATCCCACAAACGCCGCTAAAGAACATGATTTTTAA

                                   *                   
       1530 CAACGCTTATCCCACAAACGCCGTTAAAGAACATGATTTTTAA
          1 CAACGCTTATCCCACAAACGCCGCTAAAGAACATGATTTTTAA

                                                 *     
       1573 CAACGCTTATCCCACAAACGCCGCTAAA-AACATGATATTTAA
          1 CAACGCTTATCCCACAAACGCCGCTAAAGAACATGATTTTTAA

                 *  *          *       
       1615 CAACGTTTTTCCCACAAACACCGCTAA
          1 CAACGCTTATCCCACAAACGCCGCTAA

       1642 CATTAACAAA


Statistics
Matches: 134,  Mismatches: 19, Indels: 3
        0.86            0.12        0.02

Matches are distributed among these distances:
  42   72  0.54
  43   62  0.46

ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23


Consensus pattern (43 bp):   
CAACGCTTATCCCACAAACGCCGCTAAAGAACATGATTTTTAA

Found at i:1588 original size:85 final size:85

Alignment explanation


    Indices: 1445--1641  Score: 286
    Period size: 85  Copynumber: 2.3  Consensus size: 85

       1435 CTTGCCTTGG

                   *  *                               * *                    
       1445 CAACGCTCATTCCACAAACGCCGCTAAAGAACATGATTTTTAGCGACACTTATCCCACAAACACC
          1 CAACGCTTATCCCACAAACGCCGCTAAAGAACATGATTTTTAACAACACTTATCCCACAAACACC

                        * *     
       1510 GCTAAAAACATGGTCTTTAA
         66 GCTAAAAACATGATATTTAA

                                   *                       *              *  
       1530 CAACGCTTATCCCACAAACGCCGTTAAAGAACATGATTTTTAACAACGCTTATCCCACAAACGCC
          1 CAACGCTTATCCCACAAACGCCGCTAAAGAACATGATTTTTAACAACACTTATCCCACAAACACC

                                
       1595 GCTAAAAACATGATATTTAA
         66 GCTAAAAACATGATATTTAA

                 *  *          *       
       1615 CAACGTTTTTCCCACAAACACCGCTAA
          1 CAACGCTTATCCCACAAACGCCGCTAA

       1642 CATTAACAAA


Statistics
Matches: 99,  Mismatches: 13, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  85   99  1.00

ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23


Consensus pattern (85 bp):   
CAACGCTTATCCCACAAACGCCGCTAAAGAACATGATTTTTAACAACACTTATCCCACAAACACC
GCTAAAAACATGATATTTAA
Done.