Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002493.1 Kokia drynarioides strain JFW-HI SEQ_114647, 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: 5083
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35


Found at i:710 original size:48 final size:48

Alignment explanation


    Indices: 645--812  Score: 264
    Period size: 48  Copynumber: 3.5  Consensus size: 48

        635 TTATGCTTTG

                *      *                       *          * 
        645 TTAAGTGTTTTTTTTGTTAAATGCATCTTTGTTTAATAATCTGCATCA
          1 TTAACTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCATTA

                                                            
        693 TTAACTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCATTA
          1 TTAACTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCATTA

                 **    *                            *       
        741 TTAACAATTTTATTTGTTAAATGCATCTTTGTTTAGTAATATGCATTA
          1 TTAACTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCATTA

                                    
        789 TTAACTGTTTTGTTTGTTAAATGC
          1 TTAACTGTTTTGTTTGTTAAATGC

        813 CTTGCATTAA


Statistics
Matches: 109,  Mismatches: 11, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  48  109  1.00

ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52


Consensus pattern (48 bp):   
TTAACTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCATTA

Found at i:1338 original size:80 final size:80

Alignment explanation


    Indices: 1249--1396  Score: 233
    Period size: 80  Copynumber: 1.9  Consensus size: 80

       1239 AGGTGAAATG

                       * *                *                  *   **          
       1249 CCATGCCTTTTCAGCTACATCAGATCCTAATGAAGAGACAAGACTCATTGGCTTTCCTACAAGAG
          1 CCATGCCTTTTAAACTACATCAGATCCTAACGAAGAGACAAGACTCATTAGCTACCCTACAAGAG

                           
       1314 TTAAAAACAAAATTT
         66 TTAAAAACAAAATTT

                                                    *                        
       1329 CCATGCCTTTTAAACTACATCAGATCCTAACGAAGAGACATGACTCATTAGCTACCCTACAAGAG
          1 CCATGCCTTTTAAACTACATCAGATCCTAACGAAGAGACAAGACTCATTAGCTACCCTACAAGAG

               
       1394 TTA
         66 TTA

       1397 CAAAGAAATT


Statistics
Matches: 61,  Mismatches: 7, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  80   61  1.00

ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26


Consensus pattern (80 bp):   
CCATGCCTTTTAAACTACATCAGATCCTAACGAAGAGACAAGACTCATTAGCTACCCTACAAGAG
TTAAAAACAAAATTT
Done.