Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010207.1 Kokia drynarioides strain JFW-HI SEQ_125026, 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, 786

Length: 1311
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.40

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


Found at i:51 original size:16 final size:17

Alignment explanation


    Indices: 30--64  Score: 54
    Period size: 16  Copynumber: 2.1  Consensus size: 17

         20 TTTTTTATAC

                             
         30 ATTTTTATATA-TATTA
          1 ATTTTTATATATTATTA

                    *        
         46 ATTTTTATTTATTATTA
          1 ATTTTTATATATTATTA

              
         63 AT
          1 AT

         65 ATTTCATGAT


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

Matches are distributed among these distances:
  16   10  0.59
  17    7  0.41

ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66


Consensus pattern (17 bp):   
ATTTTTATATATTATTA

Found at i:426 original size:16 final size:17

Alignment explanation


    Indices: 405--439  Score: 54
    Period size: 16  Copynumber: 2.1  Consensus size: 17

        395 TTTTTTATAC

                             
        405 ATTTTTATATA-TATTA
          1 ATTTTTATATATTATTA

                    *        
        421 ATTTTTATTTATTATTA
          1 ATTTTTATATATTATTA

              
        438 AT
          1 AT

        440 ATTTCATGAT


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

Matches are distributed among these distances:
  16   10  0.59
  17    7  0.41

ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66


Consensus pattern (17 bp):   
ATTTTTATATATTATTA

Found at i:1262 original size:13 final size:13

Alignment explanation


    Indices: 1243--1286  Score: 52
    Period size: 13  Copynumber: 3.3  Consensus size: 13

       1233 TTGTAAAATA

                    *    
       1243 AATTTGGATTTGT
          1 AATTTGGACTTGT

            *            
       1256 GATTTGGACTTGT
          1 AATTTGGACTTGT

                        * 
       1269 AATTTTGGACTTTT
          1 AA-TTTGGACTTGT

                
       1283 AATT
          1 AATT

       1287 AAACTTTAAA


Statistics
Matches: 26,  Mismatches: 4, Indels: 2
        0.81            0.12        0.06

Matches are distributed among these distances:
  13   14  0.54
  14   12  0.46

ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52


Consensus pattern (13 bp):   
AATTTGGACTTGT

Found at i:1277 original size:14 final size:14

Alignment explanation


    Indices: 1245--1286  Score: 50
    Period size: 14  Copynumber: 3.1  Consensus size: 14

       1235 GTAAAATAAA

                  *    *  
       1245 TTTGGATTTGTGA-
          1 TTTGGACTTGTAAT

                          
       1258 TTTGGACTTGTAAT
          1 TTTGGACTTGTAAT

                     *    
       1272 TTTGGACTTTTAAT
          1 TTTGGACTTGTAAT

             
       1286 T
          1 T

       1287 AAACTTTAAA


Statistics
Matches: 25,  Mismatches: 3, Indels: 1
        0.86            0.10        0.03

Matches are distributed among these distances:
  13   11  0.44
  14   14  0.56

ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55


Consensus pattern (14 bp):   
TTTGGACTTGTAAT
Done.