Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014830.1 Kokia drynarioides strain JFW-HI SEQ_129872, 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: 5483
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.32

Warning! 200 characters in sequence are not A, C, G, or T


Found at i:904 original size:15 final size:15

Alignment explanation


    Indices: 881--968  Score: 103
    Period size: 15  Copynumber: 6.1  Consensus size: 15

        871 GCTATCACTG

                *          
        881 TTGTCAATGAGTAAA
          1 TTGTTAATGAGTAAA

                           
        896 TTGTTAATGAGTAAA
          1 TTGTTAATGAGTAAA

                           
        911 TTGTTAATGAGTAAA
          1 TTGTTAATGAGTAAA

                         **
        926 TTGTT-A-GA-T-TC
          1 TTGTTAATGAGTAAA

              *             
        937 TTATTCAATGAGTAAA
          1 TTGTT-AATGAGTAAA

                           
        953 TTGTTAATGAGTAAA
          1 TTGTTAATGAGTAAA

             
        968 T
          1 T

        969 CCTTCCACCA


Statistics
Matches: 61,  Mismatches: 7, Indels: 10
        0.78            0.09        0.13

Matches are distributed among these distances:
  11    4  0.07
  12    1  0.02
  13    3  0.05
  14    3  0.05
  15   46  0.75
  16    4  0.07

ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41


Consensus pattern (15 bp):   
TTGTTAATGAGTAAA

Found at i:1295 original size:20 final size:21

Alignment explanation


    Indices: 1272--1310  Score: 62
    Period size: 20  Copynumber: 1.9  Consensus size: 21

       1262 TTAAAATAGC

                                 
       1272 TGAAAAAGA-AAAAAAACAGA
          1 TGAAAAAGATAAAAAAACAGA

                      *        
       1292 TGAAAAAGATTAAAAAACA
          1 TGAAAAAGATAAAAAAACA

       1311 TACCTACAAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  20    9  0.53
  21    8  0.47

ACGTcount: A:0.72, C:0.05, G:0.13, T:0.10


Consensus pattern (21 bp):   
TGAAAAAGATAAAAAAACAGA

Found at i:2976 original size:20 final size:21

Alignment explanation


    Indices: 2948--2987  Score: 55
    Period size: 20  Copynumber: 1.9  Consensus size: 21

       2938 TTTTGAAAGG

                *                
       2948 TAAATTATTA-ATACATTCAA
          1 TAAAATATTATATACATTCAA

                                
       2968 TAAAATATTATTATACATTC
          1 TAAAATATTA-TATACATTC

       2988 CATCAACAAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20    9  0.53
  22    8  0.47

ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42


Consensus pattern (21 bp):   
TAAAATATTATATACATTCAA
Done.