Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400203.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3416.0, 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: 4932
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.21

Warning! 2216 characters in sequence are not A, C, G, or T


Found at i:568 original size:171 final size:171

Alignment explanation


    Indices: 1--791  Score: 986
    Period size: 171  Copynumber: 4.6  Consensus size: 171

                     *           *                        *    *   *  *      
          1 CATTTAAGGTGAGTAATAAGGTTTTCGAAAGCATGGGTGACTATAACTGGAATTTACTTGCCAAT
          1 CATTTAAGGCGAGTAATAAGGCTTTCGAAAGCATGGGTGACTATAAATGGACTTTTCTAGCCAAT

                        *                *       *           *               
         66 GGATATCTTTTTTTTCATGTTTCTCAAGGCAGACATTTAATTACAATCTATTTTAATAAAAAATA
         66 GGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTACAATCTGTTTTAATAAAAAATA

                    *            *                    
        131 TAAAAAAAATTAAATTAAAATTAATTATGA-GTT-TAGAAAT
        131 TAAAAAAATTTAAATTAAAATCAATTATGAGGTTATA-AAAT

             *       *                   *                               *   
        171 CTTTTAAGGAGAGTAATAAGGCTTTCGAAGGCATGGGTGACTATAAATGGACTTTTCTTA-TCAA
          1 CATTTAAGGCGAGTAATAAGGCTTTCGAAAGCATGGGTGACTATAAATGGACTTTTC-TAGCCAA

              *                       *                     *                
        235 TGCATATCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTACAATTTGTTTTAAT-AAAAAT
         65 TGGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTACAATCTGTTTTAATAAAAAAT

                       *                              
        299 ATAAAAAAATTCAAATTAAAATCAATTATGAGGTTATAAAAT
        130 ATAAAAAAATTTAAATTAAAATCAATTATGAGGTTATAAAAT

                   *  *    *   *         * *                                *
        341 CATTTAAAGCAAGTAGTAAAGCTTTCGAATGTATGGGTGACTATAAATGGACTTTTCTAGCCAAC
          1 CATTTAAGGCGAGTAATAAGGCTTTCGAAAGCATGGGTGACTATAAATGGACTTTTCTAGCCAAT

             *    *                              *         *     *           
        406 GAATATGTTTTTCTTCATGTTTCTCAAGGTAGACATTTAATT-CTAAACTGTTGTAATAAAAAAT
         66 GGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTAC-AATCTGTTTTAATAAAAAAT

                          *                            
        470 ATAAAAAAATTTAACTTAAAATCAATTATGAGGTTATTAAAAT
        130 ATAAAAAAATTTAAATTAAAATCAATTATGAGGTTA-TAAAAT

                                    *    *     *      *      *               
        513 -ATTTAAGGCGAGTAATAAGGCTTCCGAAGGCATGAGTGACTGTAAATGAACTTTTCTTA-CCAA
          1 CATTTAAGGCGAGTAATAAGGCTTTCGAAAGCATGGGTGACTATAAATGGACTTTTC-TAGCCAA

                               *                 *       *          *        
        576 TGGATATCTTTTTCTTCATATTTCTTCAA-GTAGACAATCAATTATAATCTGTTTTCATAAAAAA
         65 TGGATATCTTTTTCTTCATGTTTC-TCAAGGTAGACATTCAATTACAATCTGTTTTAATAAAAAA

                                                       
        640 TATAAAAAAATTTAAATTAAAATCAATTATGAGGTTATAAAAT
        129 TATAAAAAAATTTAAATTAAAATCAATTATGAGGTTATAAAAT

                   *                                *             *   *      
        683 CATTTAACGCGAGTAATAAGGCTTTCGAAAGCATGGGTGATTATAAATGGACTTCTCTTGCCAAT
          1 CATTTAAGGCGAGTAATAAGGCTTTCGAAAGCATGGGTGACTATAAATGGACTTTTCTAGCCAAT

              *          *  *      * **   *             
        748 GGTTATCATTTTTTTTTATGTTTTTTGAGGCAGACATTCAATTA
         66 GGATATC-TTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTA

        792 TANNNNNNNN


Statistics
Matches: 530,  Mismatches: 77, Indels: 26
        0.84            0.12        0.04

Matches are distributed among these distances:
 169   37  0.07
 170  218  0.41
 171  238  0.45
 172   37  0.07

ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37


Consensus pattern (171 bp):   
CATTTAAGGCGAGTAATAAGGCTTTCGAAAGCATGGGTGACTATAAATGGACTTTTCTAGCCAAT
GGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTACAATCTGTTTTAATAAAAAATA
TAAAAAAATTTAAATTAAAATCAATTATGAGGTTATAAAAT
Done.