Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006441.1 Kokia drynarioides strain JFW-HI SEQ_121023, 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: 3811
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37


Found at i:1053 original size:8 final size:8

Alignment explanation


    Indices: 1040--1100  Score: 54
    Period size: 8  Copynumber: 7.8  Consensus size: 8

       1030 TAGTGAATAC

                    
       1040 ATATAAAT
          1 ATATAAAT

                    
       1048 ATATAAAT
          1 ATATAAAT

              *     
       1056 ATTTAAAT
          1 ATATAAAT

                  ** 
       1064 ATAATATTT
          1 AT-ATAAAT

                    
       1073 ATATAAA-
          1 ATATAAAT

                 *  
       1080 A-ATATAT
          1 ATATAAAT

                    
       1087 ATATAAAT
          1 ATATAAAT

             *    
       1095 AAATAA
          1 ATATAA

       1101 TTTTTGTTTA


Statistics
Matches: 41,  Mismatches: 9, Indels: 6
        0.73            0.16        0.11

Matches are distributed among these distances:
   6    4  0.10
   7    2  0.05
   8   30  0.73
   9    5  0.12

ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39


Consensus pattern (8 bp):   
ATATAAAT

Found at i:1196 original size:15 final size:14

Alignment explanation


    Indices: 1176--1205  Score: 51
    Period size: 15  Copynumber: 2.1  Consensus size: 14

       1166 CAACATTATA

                           
       1176 TTTAAATAAATCACT
          1 TTTAAATAAAT-ACT

                          
       1191 TTTAAATAAATACT
          1 TTTAAATAAATACT

             
       1205 T
          1 T

       1206 ATATTTATTT


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:0.47, C:0.10, G:0.00, T:0.43


Consensus pattern (14 bp):   
TTTAAATAAATACT
Done.