Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009187.1 Kokia drynarioides strain JFW-HI SEQ_123892, 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: 3305
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39


Found at i:356 original size:21 final size:22

Alignment explanation


    Indices: 332--374  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        322 ATAATTGGCA

                      *           
        332 TTATTT-TAATTATTTTTTATT
          1 TTATTTGTAACTATTTTTTATT

                    *             
        353 TTATTTGTTACTATTTTTTATT
          1 TTATTTGTAACTATTTTTTATT

        375 ATTTACTATA


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  21    6  0.32
  22   13  0.68

ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74


Consensus pattern (22 bp):   
TTATTTGTAACTATTTTTTATT

Found at i:373 original size:17 final size:17

Alignment explanation


    Indices: 351--404  Score: 58
    Period size: 17  Copynumber: 3.2  Consensus size: 17

        341 TTATTTTTTA

                             
        351 TTTTATTTGTTACTATT
          1 TTTTATTTGTTACTATT

                               
        368 TTTTATTAT-TTACTATAT
          1 TTTTATT-TGTTACTAT-T

              *   *          
        386 TTCTATATGTTA-TATT
          1 TTTTATTTGTTACTATT

               
        402 TTT
          1 TTT

        405 ATGCTATTAT


Statistics
Matches: 31,  Mismatches: 3, Indels: 7
        0.76            0.07        0.17

Matches are distributed among these distances:
  16    3  0.10
  17   18  0.58
  18   10  0.32

ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69


Consensus pattern (17 bp):   
TTTTATTTGTTACTATT

Found at i:3191 original size:19 final size:19

Alignment explanation


    Indices: 3158--3198  Score: 57
    Period size: 19  Copynumber: 2.2  Consensus size: 19

       3148 AGTGCAACTA

                           *   
       3158 AATTAACAAAAAAAATTGC
          1 AATTAACAAAAAAAAATGC

                                
       3177 AATT-ACAAAATAAAAATGC
          1 AATTAACAAAA-AAAAATGC

               
       3196 AAT
          1 AAT

       3199 GATAATAAAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  18    6  0.30
  19   14  0.70

ACGTcount: A:0.63, C:0.10, G:0.05, T:0.22


Consensus pattern (19 bp):   
AATTAACAAAAAAAAATGC
Done.