Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006654.1 Kokia drynarioides strain JFW-HI SEQ_121245, 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: 5941
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32


Found at i:5802 original size:26 final size:26

Alignment explanation


    Indices: 5773--5870  Score: 133
    Period size: 26  Copynumber: 3.8  Consensus size: 26

       5763 AGGCATGATA

                      *           *   
       5773 ATTTTACCCCCAATAAAATTATCATG
          1 ATTTTACCCCTAATAAAATTATAATG

                       *              
       5799 ATTTTACCCCTGATAAAATTATAATG
          1 ATTTTACCCCTAATAAAATTATAATG

                                    **
       5825 ATTTTACCCCTAATAAAATTATAACA
          1 ATTTTACCCCTAATAAAATTATAATG

                     * *        
       5851 ATTTTACCCTTGATAAAATT
          1 ATTTTACCCCTAATAAAATT

       5871 TCTAAAAAAA


Statistics
Matches: 64,  Mismatches: 8, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  26   64  1.00

ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38


Consensus pattern (26 bp):   
ATTTTACCCCTAATAAAATTATAATG

Found at i:5869 original size:52 final size:52

Alignment explanation


    Indices: 5745--5870  Score: 153
    Period size: 52  Copynumber: 2.4  Consensus size: 52

       5735 CTTCTCATCC

                        *      ***  *                         * 
       5745 CAATTTTACCCTCGATAAAGGCATGATAATTTTACCCCCAATAAAATTATCA
          1 CAATTTTACCCTTGATAAAATTATAATAATTTTACCCCCAATAAAATTATAA

            **         *               *          *             
       5797 TGATTTTACCCCTGATAAAATTATAATGATTTTACCCCTAATAAAATTATAA
          1 CAATTTTACCCTTGATAAAATTATAATAATTTTACCCCCAATAAAATTATAA

                                  
       5849 CAATTTTACCCTTGATAAAATT
          1 CAATTTTACCCTTGATAAAATT

       5871 TCTAAAAAAA


Statistics
Matches: 60,  Mismatches: 14, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  52   60  1.00

ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36


Consensus pattern (52 bp):   
CAATTTTACCCTTGATAAAATTATAATAATTTTACCCCCAATAAAATTATAA
Done.