Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004465.1 Kokia drynarioides strain JFW-HI SEQ_117881, 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, 637

Length: 1063
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31


Found at i:973 original size:21 final size:21

Alignment explanation


    Indices: 916--973  Score: 66
    Period size: 20  Copynumber: 2.8  Consensus size: 21

        906 TAATGAATTG

                           *     
        916 ATTCAAAGAAGCAAAGAATCA
          1 ATTCAAAGAAGCAAAAAATCA

                *   *             
        937 ATTTTAAATAA-CAAAAAATCA
          1 A-TTCAAAGAAGCAAAAAATCA

                             
        958 ATTCAAAGAAG-AAAAA
          1 ATTCAAAGAAGCAAAAA

        974 GAATAGACTT


Statistics
Matches: 30,  Mismatches: 5, Indels: 5
        0.75            0.12        0.12

Matches are distributed among these distances:
  20   12  0.40
  21   11  0.37
  22    7  0.23

ACGTcount: A:0.62, C:0.10, G:0.09, T:0.19


Consensus pattern (21 bp):   
ATTCAAAGAAGCAAAAAATCA

Found at i:1018 original size:42 final size:41

Alignment explanation


    Indices: 870--1021  Score: 133
    Period size: 43  Copynumber: 3.5  Consensus size: 41

        860 AGAAAAAATG

                    *       * *    *                     
        870 GATTCAAAAAAGCAAATAGTCAATTTAAAACAACAATAATGAATT
          1 GATTCAAAGAAGCAAAGAAT-AACTTAAAACAAC-A-AAT-AATT

                                   *  *   *      *   *
        915 GATTCAAAGAAGCAAAGAATCAATTTTAAATAACAAAAAATC
          1 GATTCAAAGAAGCAAAGAAT-AACTTAAAACAACAAATAATT

            *            *                             
        957 AATTCAAAGAAGAAAAAGAATAGACTTAAAACAACAAATAATT
          1 GATTCAAAGAAG-CAAAGAATA-ACTTAAAACAACAAATAATT

                    *             
       1000 GATTCAAATAAGCAAAGAATAA
          1 GATTCAAAGAAGCAAAGAATAA

       1022 ACGAAAATGC


Statistics
Matches: 88,  Mismatches: 17, Indels: 8
        0.78            0.15        0.07

Matches are distributed among these distances:
  41    1  0.01
  42   23  0.26
  43   34  0.39
  44    1  0.01
  45   29  0.33

ACGTcount: A:0.59, C:0.11, G:0.10, T:0.21


Consensus pattern (41 bp):   
GATTCAAAGAAGCAAAGAATAACTTAAAACAACAAATAATT
Done.