Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004588.1 Kokia drynarioides strain JFW-HI SEQ_118078, 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: 8378
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34


Found at i:4005 original size:109 final size:109

Alignment explanation


    Indices: 3813--4093  Score: 386
    Period size: 109  Copynumber: 2.6  Consensus size: 109

       3803 ATATCACCTG

                        *           * *        **     *            *     *   
       3813 CTCACGATGTTGTTCACACAAGCTGTTGAGAATCCATAACATGTGTAGGATCTCAGCCATCACGA
          1 CTCACGATGTTGCTCACACAAGCTATCGAGAATCCGCAACATATGTAGGATCTCAACCATCGCGA

                      *                    *             
       3878 CAGTGGATGTTATCAGAACATAGTATCCATTTAGTATTCATCAGA
         66 CAGTGGATGTCATCAGAACATAGTATCCATTCAGTATTCA-CAGA

                                  *                                          
       3923 -TCACGATGTTGCTCACACAAGGTATCGAGAATCCGCAACATATGTAGGATCTCAACCATCGCGA
          1 CTCACGATGTTGCTCACACAAGCTATCGAGAATCCGCAACATATGTAGGATCTCAACCATCGCGA

             *                                        *  
       3987 CGGTGTG-TGTCATCAGAACATAGTATCCATTCAGTATTCACCGA
         66 CAGTG-GATGTCATCAGAACATAGTATCCATTCAGTATTCACAGA

                *    *                       *                             
       4031 CTCATGATGCTGCTCACACAAGCTATCGAGAATTCGCAACATATGTAGGATCTCAACCATCGC
          1 CTCACGATGTTGCTCACACAAGCTATCGAGAATCCGCAACATATGTAGGATCTCAACCATCGC

       4094 TATGGTTTGT


Statistics
Matches: 152,  Mismatches: 17, Indels: 5
        0.87            0.10        0.03

Matches are distributed among these distances:
 108    3  0.02
 109  148  0.97
 110    1  0.01

ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26


Consensus pattern (109 bp):   
CTCACGATGTTGCTCACACAAGCTATCGAGAATCCGCAACATATGTAGGATCTCAACCATCGCGA
CAGTGGATGTCATCAGAACATAGTATCCATTCAGTATTCACAGA

Found at i:7884 original size:21 final size:21

Alignment explanation


    Indices: 7860--7911  Score: 70
    Period size: 22  Copynumber: 2.4  Consensus size: 21

       7850 TTGTATTAAT

                                  
       7860 TTATCAATTTAA-ACTAAAAAA
          1 TTATCAATTTAACA-TAAAAAA

                                  
       7881 TTATCAAATTTAACATAAAAAA
          1 TTATC-AATTTAACATAAAAAA

                *    
       7903 TTATAAATT
          1 TTATCAATT

       7912 ATATAAAATA


Statistics
Matches: 28,  Mismatches: 1, Indels: 4
        0.85            0.03        0.12

Matches are distributed among these distances:
  21    9  0.32
  22   18  0.64
  23    1  0.04

ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37


Consensus pattern (21 bp):   
TTATCAATTTAACATAAAAAA
Done.