Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000125.1 Kokia drynarioides strain JFW-HI SEQ_110771, 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, 612

Length: 1021
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35


Found at i:921 original size:4 final size:4

Alignment explanation


    Indices: 901--981  Score: 69
    Period size: 4  Copynumber: 20.2  Consensus size: 4

        891 AATACATTAC

                       *                     *   *                     * 
        901 CTTT CTTT CCTT C-TT CTTT CTTT CCTCT CCTT -TTT CTTT CTTT CCTCT
          1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT -CTTT

             *                                        
        949 CCTT C-TT CATTT CTTT CTTT CTTT CTTT CTTT C
          1 CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT C

        982 CCGTTTATTT


Statistics
Matches: 63,  Mismatches: 8, Indels: 12
        0.76            0.10        0.14

Matches are distributed among these distances:
   3    8  0.13
   4   46  0.73
   5    9  0.14

ACGTcount: A:0.01, C:0.33, G:0.00, T:0.65


Consensus pattern (4 bp):   
CTTT

Found at i:981 original size:20 final size:20

Alignment explanation


    Indices: 908--965  Score: 98
    Period size: 20  Copynumber: 2.9  Consensus size: 20

        898 TACCTTTCTT

                                
        908 TCCTTCTTCTTTCTTTCCTC
          1 TCCTTCTTCTTTCTTTCCTC

                 *              
        928 TCCTTTTTCTTTCTTTCCTC
          1 TCCTTCTTCTTTCTTTCCTC

                              
        948 TCCTTCTTCATTTCTTTC
          1 TCCTTCTTC-TTTCTTTC

        966 TTTCTTTCTT


Statistics
Matches: 35,  Mismatches: 2, Indels: 1
        0.92            0.05        0.03

Matches are distributed among these distances:
  20   27  0.77
  21    8  0.23

ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62


Consensus pattern (20 bp):   
TCCTTCTTCTTTCTTTCCTC
Done.