Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004282.1 Kokia drynarioides strain JFW-HI SEQ_117577, 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: 3196
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33


Found at i:946 original size:16 final size:16

Alignment explanation


    Indices: 925--981  Score: 60
    Period size: 16  Copynumber: 3.4  Consensus size: 16

        915 ATTCTACCCC

                            
        925 TTTACACTTGATCACT
          1 TTTACACTTGATCACT

                  *   *       *
        941 TTTACATTTGTTCTACCCC
          1 TTTACACTTGATC-A--CT

                            
        960 TTTACACTTGATCACT
          1 TTTACACTTGATCACT

                  
        976 TTTACA
          1 TTTACA

        982 TTTGTCAAAA


Statistics
Matches: 32,  Mismatches: 6, Indels: 6
        0.73            0.14        0.14

Matches are distributed among these distances:
  16   18  0.56
  17    1  0.03
  18    1  0.03
  19   12  0.38

ACGTcount: A:0.23, C:0.26, G:0.05, T:0.46


Consensus pattern (16 bp):   
TTTACACTTGATCACT

Found at i:962 original size:35 final size:35

Alignment explanation


    Indices: 916--986  Score: 142
    Period size: 35  Copynumber: 2.0  Consensus size: 35

        906 AGTGGACTTA

                                               
        916 TTCTACCCCTTTACACTTGATCACTTTTACATTTG
          1 TTCTACCCCTTTACACTTGATCACTTTTACATTTG

                                               
        951 TTCTACCCCTTTACACTTGATCACTTTTACATTTG
          1 TTCTACCCCTTTACACTTGATCACTTTTACATTTG

             
        986 T
          1 T

        987 CAAAACGTTT


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  35   36  1.00

ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46


Consensus pattern (35 bp):   
TTCTACCCCTTTACACTTGATCACTTTTACATTTG

Found at i:2854 original size:15 final size:14

Alignment explanation


    Indices: 2834--2863  Score: 51
    Period size: 15  Copynumber: 2.1  Consensus size: 14

       2824 TTTTGTTCTT

                           
       2834 TTTTTTATATTATTA
          1 TTTTTTATATT-TTA

                          
       2849 TTTTTTATATTTTA
          1 TTTTTTATATTTTA

             
       2863 T
          1 T

       2864 GAGTATGTGT


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14    4  0.27
  15   11  0.73

ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77


Consensus pattern (14 bp):   
TTTTTTATATTTTA
Done.