Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010355.1 Kokia drynarioides strain JFW-HI SEQ_125226, 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: 1890
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.35

Warning! 81 characters in sequence are not A, C, G, or T


Found at i:421 original size:33 final size:33

Alignment explanation


    Indices: 379--445  Score: 125
    Period size: 33  Copynumber: 2.0  Consensus size: 33

        369 TGACCGCGTC

                                             
        379 GTTTGTTTCAATCCACTTCTCTGTATCTCATCA
          1 GTTTGTTTCAATCCACTTCTCTGTATCTCATCA

                          *                  
        412 GTTTGTTTCAATCCGCTTCTCTGTATCTCATCA
          1 GTTTGTTTCAATCCACTTCTCTGTATCTCATCA

             
        445 G
          1 G

        446 GAAGACAAAT


Statistics
Matches: 33,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  33   33  1.00

ACGTcount: A:0.16, C:0.27, G:0.12, T:0.45


Consensus pattern (33 bp):   
GTTTGTTTCAATCCACTTCTCTGTATCTCATCA

Found at i:545 original size:48 final size:48

Alignment explanation


    Indices: 472--583  Score: 179
    Period size: 48  Copynumber: 2.3  Consensus size: 48

        462 CACTCCCCAG

                            *                               
        472 TATCTCATCAGGAAGCTATCCGTTTTATTACTTCGACCTGCTTCTCAA
          1 TATCTCATCAGGAAGCCATCCGTTTTATTACTTCGACCTGCTTCTCAA

                                *            *             *
        520 TATCTCATCAGGAAGCCATCTGTTTTATTACTTTGACCTGCTTCTCAG
          1 TATCTCATCAGGAAGCCATCCGTTTTATTACTTCGACCTGCTTCTCAA

                      *     
        568 TATCTCATCAAGAAGC
          1 TATCTCATCAGGAAGC

        584 TGGGGTTCGA


Statistics
Matches: 59,  Mismatches: 5, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  48   59  1.00

ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37


Consensus pattern (48 bp):   
TATCTCATCAGGAAGCCATCCGTTTTATTACTTCGACCTGCTTCTCAA

Found at i:1630 original size:28 final size:28

Alignment explanation


    Indices: 1586--1646  Score: 88
    Period size: 28  Copynumber: 2.2  Consensus size: 28

       1576 TCAAAAATTC

                         *       *      
       1586 TATT-AAAAAGAGTATCAAAGGAAACAA
          1 TATTAAAAAAGAGCATCAAAGAAAACAA

                                        
       1613 TATTAAAAAAGAGCATCAAAGAAAACAA
          1 TATTAAAAAAGAGCATCAAAGAAAACAA

                  
       1641 TCATTA
          1 T-ATTA

       1647 GTTGAAAATT


Statistics
Matches: 30,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  27    4  0.13
  28   22  0.73
  29    4  0.13

ACGTcount: A:0.59, C:0.10, G:0.11, T:0.20


Consensus pattern (28 bp):   
TATTAAAAAAGAGCATCAAAGAAAACAA
Done.