Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011356.1 Kokia drynarioides strain JFW-HI SEQ_126336, 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: 1934
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.40

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:100 original size:44 final size:41

Alignment explanation


    Indices: 37--157  Score: 169
    Period size: 44  Copynumber: 3.0  Consensus size: 41

         27 GCTTATTTGA

                                                        
         37 ATATTGTTTTGTTTAGATCTTGTGTTTTACATATATATATATAT
          1 ATATTGTTTTGTTTAGATCTTGTGTTTTACATA-ATATAT-T-T

                                                     
         81 ATATTGTTTTGTTTAGATCTTGTGTTTTAC--AA-ATATTT
          1 ATATTGTTTTGTTTAGATCTTGTGTTTTACATAATATATTT

                 *       *                          
        119 ATATTATTTTGTTCAGATCTTGTGTTTTACATAA-ATATT
          1 ATATTGTTTTGTTTAGATCTTGTGTTTTACATAATATATT

        158 AAATATTTTA


Statistics
Matches: 73,  Mismatches: 2, Indels: 8
        0.88            0.02        0.10

Matches are distributed among these distances:
  38   29  0.40
  39    1  0.01
  40   11  0.15
  41    1  0.01
  42    1  0.01
  44   30  0.41

ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56


Consensus pattern (41 bp):   
ATATTGTTTTGTTTAGATCTTGTGTTTTACATAATATATTT

Found at i:123 original size:38 final size:42

Alignment explanation


    Indices: 37--164  Score: 167
    Period size: 38  Copynumber: 3.1  Consensus size: 42

         27 GCTTATTTGA

                                                        
         37 ATATTGTTTTGTTTAGATCTTGTGTTTTACATATATATATATAT
          1 ATATTGTTTTGTTTAGATCTTGTGTTTTAC--ATATATATATAT

                                                      
         81 ATATTGTTTTGTTTAGATCTTGTGTTTTACA-A-ATAT-T-T
          1 ATATTGTTTTGTTTAGATCTTGTGTTTTACATATATATATAT

                 *       *                   *       *
        119 ATATTATTTTGTTCAGATCTTGTGTTTTACATAAATAT-TAA
          1 ATATTGTTTTGTTTAGATCTTGTGTTTTACATATATATATAT

                 
        160 ATATT
          1 ATATT

        165 TTATATTTAT


Statistics
Matches: 78,  Mismatches: 3, Indels: 9
        0.87            0.03        0.10

Matches are distributed among these distances:
  38   30  0.38
  39    2  0.03
  40    9  0.12
  41    6  0.08
  42    1  0.01
  44   30  0.38

ACGTcount: A:0.28, C:0.05, G:0.11, T:0.55


Consensus pattern (42 bp):   
ATATTGTTTTGTTTAGATCTTGTGTTTTACATATATATATAT

Done.