Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005106.1 Kokia drynarioides strain JFW-HI SEQ_118929, 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, 954

Length: 1590
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34


Found at i:678 original size:29 final size:28

Alignment explanation


    Indices: 623--682  Score: 68
    Period size: 29  Copynumber: 2.1  Consensus size: 28

        613 AGCCCCAAAT

                 *       *       *       
        623 TTTTTGTTTTTGTGATACATGTGTTTTTG
          1 TTTTTATTTTTGTCATACAT-AGTTTTTG

                                         
        652 TTTTTATTTTTGTCATAACATA-TTTTTG
          1 TTTTTATTTTTGTCAT-ACATAGTTTTTG

               
        680 TTT
          1 TTT

        683 GCATTCATTT


Statistics
Matches: 27,  Mismatches: 3, Indels: 3
        0.82            0.09        0.09

Matches are distributed among these distances:
  28    9  0.33
  29   14  0.52
  30    4  0.15

ACGTcount: A:0.15, C:0.05, G:0.13, T:0.67


Consensus pattern (28 bp):   
TTTTTATTTTTGTCATACATAGTTTTTG

Found at i:1219 original size:16 final size:16

Alignment explanation


    Indices: 1198--1238  Score: 55
    Period size: 16  Copynumber: 2.6  Consensus size: 16

       1188 ATGAATGCTT

                      * * * 
       1198 AAAGAAAAAATTGTTA
          1 AAAGAAAAAAATATAA

                            
       1214 AAAGAAAAAAATATAA
          1 AAAGAAAAAAATATAA

                     
       1230 AAAGAAAAA
          1 AAAGAAAAA

       1239 TTATTTGTCG


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  16   22  1.00

ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15


Consensus pattern (16 bp):   
AAAGAAAAAAATATAA

Done.