Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004488.1 Kokia drynarioides strain JFW-HI SEQ_117914, 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: 7694
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:879 original size:72 final size:72

Alignment explanation


    Indices: 791--934  Score: 254
    Period size: 72  Copynumber: 2.0  Consensus size: 72

        781 CATCCCATTG

                                                                             
        791 GATGTGTCCCTCTGGATGTGGTTTATGCCAATC-GTCTCTTACGACACCAAAAGTTCTCAACATG
          1 GATGTGTCCCTCTGGATGTGGTTTATGCCAA-CAGTCTCTTACGACACCAAAAGTTCTCAACATG

                    
        855 GAAAATTT
         65 GAAAATTT

                                                    *                        
        863 GATGTGTCCCTCTGGATGTGGTTTATGCCAACAGTCTCTTGCGACACCAAAAGTTCTCAACATGG
          1 GATGTGTCCCTCTGGATGTGGTTTATGCCAACAGTCTCTTACGACACCAAAAGTTCTCAACATGG

            *      
        928 GAAATTT
         66 AAAATTT

        935 AGACACATTG


Statistics
Matches: 69,  Mismatches: 2, Indels: 2
        0.95            0.03        0.03

Matches are distributed among these distances:
  71    1  0.01
  72   68  0.99

ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31


Consensus pattern (72 bp):   
GATGTGTCCCTCTGGATGTGGTTTATGCCAACAGTCTCTTACGACACCAAAAGTTCTCAACATGG
AAAATTT

Found at i:7469 original size:79 final size:78

Alignment explanation


    Indices: 7317--7477  Score: 227
    Period size: 79  Copynumber: 2.1  Consensus size: 78

       7307 TGGAATAGGG

                *                      *                   *                 
       7317 TATTCGATTATCTCGATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTTCAAAACC
          1 TATTAGATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAACC

               *          
       7382 AGAGATAAAGAAAA
         66 AGAAATAAA-AAAA

                                          *                                  
       7396 TATTAGATTAT-TCAGATTTGAAGAAAAATTGCGCCTAGTAAGTTAAGACACAAATTTTCAAAAC
          1 TATTAGATTATCTC-GATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAAC

                        *  
       7460 TC-GAAATAAAAGAA
         65 -CAGAAATAAAAAAA

                
       7474 TATT
          1 TATT

       7478 TCCTCGATTT


Statistics
Matches: 74,  Mismatches: 6, Indels: 5
        0.87            0.07        0.06

Matches are distributed among these distances:
  78    9  0.12
  79   64  0.86
  80    1  0.01

ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28


Consensus pattern (78 bp):   
TATTAGATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGACACAAATTTTCAAAACC
AGAAATAAAAAAA
Done.