Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012607.1 Kokia drynarioides strain JFW-HI SEQ_127616, 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: 8490
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:7278 original size:27 final size:27

Alignment explanation


    Indices: 7237--7297  Score: 77
    Period size: 27  Copynumber: 2.2  Consensus size: 27

       7227 CAATTTTCAA

                     *       *          
       7237 TTAATGATTGTTTCCTTTGATCCTCCCT
          1 TTAAT-ATTATTTCCTTCGATCCTCCCT

                                    ** 
       7265 TTAATATTATTTCCTTCGATCCTCTTT
          1 TTAATATTATTTCCTTCGATCCTCCCT

                  
       7292 TTAATA
          1 TTAATA

       7298 GAATTCTTGG


Statistics
Matches: 29,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  27   24  0.83
  28    5  0.17

ACGTcount: A:0.20, C:0.21, G:0.07, T:0.52


Consensus pattern (27 bp):   
TTAATATTATTTCCTTCGATCCTCCCT

Found at i:8324 original size:204 final size:204

Alignment explanation


    Indices: 7978--8486  Score: 763
    Period size: 204  Copynumber: 2.5  Consensus size: 204

       7968 ACGTGGTCAT

                        ***    *                                          *  
       7978 CTTCCTGATGAGACACTGAGAAGAAGACCCAAACAAGGCTCAAAGTGAGCAAAGTCTTTGAAACC
          1 CTTCCTGATGAGGTGCTGAAAAGAAGACCCAAACAAGGCTCAAAGTGAGCAAAGTCTTTGAACCC

                            *                                *         * *   
       8043 CAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAGAAGGTTAGCTTCCTGATGAGGTA
         66 CAGCTTCCTGATGAGAGACTGAGAAGCAGGTCGAAGCAATAGAAGGTTAACTTCCTGATAAAGTA

                                                                       *    *
       8108 CTGAGAAGTGAACCAAATTCGTCTTCCAGATGAAATACGGAGAAGCGAATTGAAACAAATAGCGG
        131 CTGAGAAGTGAACCAAATTCGTCTTCCAGATGAAATACGGAGAAGCGAATTGAAACAAACAGCGA

                    *
       8173 TGTAATCAT
        196 TGTAATCAC

                                   *           *                             
       8182 CTTCCTGATGAGGTGCCT-AAAATAAGACCCAAACGAGGCTCAAAGTGAGCAAAGTCTTTGAACC
          1 CTTCCTGATGAGGTG-CTGAAAAGAAGACCCAAACAAGGCTCAAAGTGAGCAAAGTCTTTGAACC

                                                  *                          
       8246 CCAGCTTCCTGATGAGAGACTGAGAAGCAGGTCGAAGCTATAGAAGGTTAACTTCCTGATAAAGT
         65 CCAGCTTCCTGATGAGAGACTGAGAAGCAGGTCGAAGCAATAGAAGGTTAACTTCCTGATAAAGT

                                        *                                    
       8311 ACTGAGAAGTGAACCAAATTCGTCTTCCGGATGAAATACGGAGAAGCGAATTGAAACAAACAGCG
        130 ACTGAGAAGTGAACCAAATTCGTCTTCCAGATGAAATACGGAGAAGCGAATTGAAACAAACAGCG

                      
       8376 ATGTAATCAC
        195 ATGTAATCAC

                                    *               *   **            *      
       8386 CTTCCTGATGAGGTGCTGAAAAGATGACCCAAACAAGGCTTAAAACGAGCAAA-TCTTCGAACCC
          1 CTTCCTGATGAGGTGCTGAAAAGAAGACCCAAACAAGGCTCAAAGTGAGCAAAGTCTTTGAACCC

                    *           *        *        
       8450 CAGCTTCCCGATGAGACG-CGGAGAAGCAAGTCGAAGC
         66 CAGCTTCCTGATGAGA-GACTGAGAAGCAGGTCGAAGC

       8487 CATA


Statistics
Matches: 276,  Mismatches: 26, Indels: 7
        0.89            0.08        0.02

Matches are distributed among these distances:
 203   44  0.16
 204  230  0.83
 205    2  0.01

ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19


Consensus pattern (204 bp):   
CTTCCTGATGAGGTGCTGAAAAGAAGACCCAAACAAGGCTCAAAGTGAGCAAAGTCTTTGAACCC
CAGCTTCCTGATGAGAGACTGAGAAGCAGGTCGAAGCAATAGAAGGTTAACTTCCTGATAAAGTA
CTGAGAAGTGAACCAAATTCGTCTTCCAGATGAAATACGGAGAAGCGAATTGAAACAAACAGCGA
TGTAATCAC
Done.