Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013213.1 Kokia drynarioides strain JFW-HI SEQ_128232, 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: 10773
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26

Warning! 20 characters in sequence are not A, C, G, or T


Found at i:2124 original size:29 final size:30

Alignment explanation


    Indices: 2050--2143  Score: 99
    Period size: 29  Copynumber: 3.2  Consensus size: 30

       2040 NNNNNNNNNN

                                          
       2050 CCAAAAATCCCATTTTTGATC-CGAACCTT
          1 CCAAAAATCCCATTTTTGATCTCGAACCTT

             *        *                      
       2079 -TAGAAAATTACCA-TTTT-ATCCTCGAA-CTT
          1 CCA-AAAA-TCCCATTTTTGAT-CTCGAACCTT

                                *         
       2108 CCAAAAATCCCATTTTTGATTTCGAACCTT
          1 CCAAAAATCCCATTTTTGATCTCGAACCTT

                  
       2138 CCAAAA
          1 CCAAAA

       2144 CTACCAATAC


Statistics
Matches: 52,  Mismatches: 5, Indels: 15
        0.72            0.07        0.21

Matches are distributed among these distances:
  28    7  0.13
  29   25  0.48
  30   20  0.38

ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33


Consensus pattern (30 bp):   
CCAAAAATCCCATTTTTGATCTCGAACCTT

Found at i:6465 original size:207 final size:207

Alignment explanation


    Indices: 6105--6519  Score: 758
    Period size: 207  Copynumber: 2.0  Consensus size: 207

       6095 CAAGCAAAAC

                               *                                             
       6105 AAAGCATGGCTGACAAAGGGAAAAGCCCAGCCATTGAGGAAGAAGAGGACCTGATGGTCCCCCTA
          1 AAAGCATGGCTGACAAAGGAAAAAGCCCAGCCATTGAGGAAGAAGAGGACCTGATGGTCCCCCTA

                                                                 *          *
       6170 GGCTTTGCTCCCCTTCATAACTCAGCGTCGCAAGAAATGCCGGTACGGGAACCCACTGTTACCAT
         66 GGCTTTGCTCCCCTTCATAACTCAGCGTCGCAAGAAATGCCGGTACGGGAACCAACTGTTACCAC

                   *                                                         
       6235 AAGGGCATAGCAACCAACCACAGGCACGTCACGACCGGCTAATTATCCAACTGGATCAGGGTCAA
        131 AAGGGCACAGCAACCAACCACAGGCACGTCACGACCGGCTAATTATCCAACTGGATCAGGGTCAA

                   *    
       6300 ACCCAGATGATA
        196 ACCCAGAGGATA

                                          *                                  
       6312 AAAGCATGGCTGACAAAGGAAAAAGCCCAGTCATTGAGGAAGAAGAGGACCTGATGGTCCCCCTA
          1 AAAGCATGGCTGACAAAGGAAAAAGCCCAGCCATTGAGGAAGAAGAGGACCTGATGGTCCCCCTA

                                                                             
       6377 GGCTTTGCTCCCCTTCATAACTCAGCGTCGCAAGAAATGCCGGTACGGGAACCAACTGTTACCAC
         66 GGCTTTGCTCCCCTTCATAACTCAGCGTCGCAAGAAATGCCGGTACGGGAACCAACTGTTACCAC

                            *                 *                              
       6442 AAGGGCACAGCAACCAGCCACAGGCACGTCACGATCGGCTAATTATCCAACTGGATCAGGGTCAA
        131 AAGGGCACAGCAACCAACCACAGGCACGTCACGACCGGCTAATTATCCAACTGGATCAGGGTCAA

                        
       6507 ACCCAGAGGATA
        196 ACCCAGAGGATA

             
       6519 A
          1 A

       6520 TACCGCAAAT


Statistics
Matches: 200,  Mismatches: 8, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 207  200  1.00

ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16


Consensus pattern (207 bp):   
AAAGCATGGCTGACAAAGGAAAAAGCCCAGCCATTGAGGAAGAAGAGGACCTGATGGTCCCCCTA
GGCTTTGCTCCCCTTCATAACTCAGCGTCGCAAGAAATGCCGGTACGGGAACCAACTGTTACCAC
AAGGGCACAGCAACCAACCACAGGCACGTCACGACCGGCTAATTATCCAACTGGATCAGGGTCAA
ACCCAGAGGATA
Done.