Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012613.1 Kokia drynarioides strain JFW-HI SEQ_127622, 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: 2797
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32


Found at i:1886 original size:24 final size:24

Alignment explanation


    Indices: 1850--1908  Score: 100
    Period size: 24  Copynumber: 2.5  Consensus size: 24

       1840 AAGCATTCTA

                    *               
       1850 ACTACCGATACAAATATGCTCAGT
          1 ACTACCGAAACAAATATGCTCAGT

                *                   
       1874 ACTATCGAAACAAATATGCTCAGT
          1 ACTACCGAAACAAATATGCTCAGT

                       
       1898 ACTACCGAAAC
          1 ACTACCGAAAC

       1909 TTAAATTTCA


Statistics
Matches: 32,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  24   32  1.00

ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22


Consensus pattern (24 bp):   
ACTACCGAAACAAATATGCTCAGT

Found at i:2525 original size:42 final size:41

Alignment explanation


    Indices: 2469--2567  Score: 126
    Period size: 41  Copynumber: 2.4  Consensus size: 41

       2459 TTATGCTCTA

                 *   *                  *   *         
       2469 TCGAGTCATAAGTCTTCCTTTAACCATATTCTTATTCTCATC
          1 TCGAGACATGAGTCTTCC-TTAACCATAATCTCATTCTCATC

                                  *                  
       2511 TCGAGACATGAGTCTTCCTTAATCATAATCTCATTCTCATC
          1 TCGAGACATGAGTCTTCCTTAACCATAATCTCATTCTCATC

              *   *         
       2552 TCAAGATATGAGTCTT
          1 TCGAGACATGAGTCTT

       2568 ATTAATAATT


Statistics
Matches: 50,  Mismatches: 7, Indels: 1
        0.86            0.12        0.02

Matches are distributed among these distances:
  41   34  0.68
  42   16  0.32

ACGTcount: A:0.26, C:0.24, G:0.10, T:0.39


Consensus pattern (41 bp):   
TCGAGACATGAGTCTTCCTTAACCATAATCTCATTCTCATC

Done.