Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398293.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1597.0, 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: 3947
ACGTcount: A:0.19, C:0.07, G:0.08, T:0.20

Warning! 1822 characters in sequence are not A, C, G, or T


Found at i:2617 original size:171 final size:162

Alignment explanation


    Indices: 2435--2764  Score: 386
    Period size: 171  Copynumber: 2.0  Consensus size: 162

       2425 TTTCAAGTTT

                *                                   *                *       
       2435 GTAATAAGGCTTTTGAAGGAATTGG-TGACTATAAACGGATTTTTCTT-ACCAA-TGTATGCCTT
          1 GTAAAAAGGCTTTTGAAGGAA-TGGATGACTATAAACGGACTTTTCTTGA-CAACT-AATGCCTT

                                                                    *   *    
       2497 TTTC-TTCAGGTTTCTTGAGGTTA-ACATTCAATTATAATCTGTTTTAA-AAAAAATGTATAAAG
         63 TTTCATT-AGGTTTCTTGAGG-TAGACATTCAATTATAATCTGTTTTAACAAAAAAAGTACAAAG

                           *                                
       2559 AATTCAAATTTAAATCAATTTTGAG-ATTATAAAAANNNNNNNNNNGA
        126 AATTCAAATTTAAATAAATTTTG-GCATTATAAAAA----------GA

                                               *                             
       2606 GTAAAAAGGCTTTTGAAGGAATGGATGACTATAAATGGACTTTTCTTGACAACTAATGCCTTTTT
          1 GTAAAAAGGCTTTTGAAGGAATGGATGACTATAAACGGACTTTTCTTGACAACTAATGCCTTTTT

                 *        *                                                  
       2671 CATTATGTTTCTTGTGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAAGTACAAAGAATTC
         66 CATTAGGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAAGTACAAAGAATTC

                                         
       2736 AAATTTAAATAAATTTTGGCATTATAAAA
        131 AAATTTAAATAAATTTTGGCATTATAAAA

       2765 CCATTTAAAG


Statistics
Matches: 143,  Mismatches: 9, Indels: 13
        0.87            0.05        0.08

Matches are distributed among these distances:
 170    5  0.03
 171   90  0.63
 172   48  0.34

ACGTcount: A:0.36, C:0.10, G:0.14, T:0.36


Consensus pattern (162 bp):   
GTAAAAAGGCTTTTGAAGGAATGGATGACTATAAACGGACTTTTCTTGACAACTAATGCCTTTTT
CATTAGGTTTCTTGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAAGTACAAAGAATTC
AAATTTAAATAAATTTTGGCATTATAAAAAGA

Found at i:2809 original size:172 final size:171

Alignment explanation


    Indices: 2423--3057  Score: 494
    Period size: 172  Copynumber: 3.7  Consensus size: 171

       2413 NNNNNNNNNN

                 *    *     *                 *                *             
       2423 CATTTCAAGTTTGTAATAAGGCTTTTGAAGGAATTGGTGACTATAAACGGATTTTTCTTACCAAT
          1 CATTTAAAGTGTGTAAAAAGGCTTTTGAAGGAATGGGTGACTATAAACGGACTTTTCTTACCAAT

             *                                                            *  
       2488 GTATGCCTTTTTCTTCAGGTTTCTTGAGGTTAACATTCAATTATAATCTGTTTTAAAAAAAATGT
         66 GAATGCCTTTTTCTTCAGGTTTCTTGAGGTTAACATTCAATTATAATCTGTTTTAAAAAAAAAGT

             *                   *                   
       2553 ATAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAAA
        131 ACAAAGAATTCAAATTTAAATAAATTTTGAGATTATAAAAA

            ********** *                        *          *                 
       2594 NNNNNNNNNNGAGTAAAAAGGCTTTTGAAGGAATGGATGACTATAAATGGACTTTTCTTGA-CAA
          1 CATTTAAAGTGTGTAAAAAGGCTTTTGAAGGAATGGGTGACTATAAACGGACTTTTCTT-ACCAA

                                *        *                                   
       2658 CT-AATGCCTTTTTCATT-ATGTTTCTTGTGG-TAGACATTCAATTATAATCTGTTTTAACAAAA
         65 -TGAATGCCTTTTTC-TTCAGGTTTCTTGAGGTTA-ACATTCAATTATAATCTGTTTTAA-AAAA

                                                          *
       2720 AAAGTACAAAGAATTCAAATTTAAATAAATTTTG-GCATTATAAAAC
        126 AAAGTACAAAGAATTCAAATTTAAATAAATTTTGAG-ATTATAAAAA

                                                              **********     
       2766 CATTTAAAGTGTGTAAAAAGGCTTTTGAAGGAATGGGTGACTATTAATA-NNNNNNNNNNT-CCA
          1 CATTTAAAGTGTGTAAAAAGGCTTTTGAAGGAATGGGTGACTA-TAA-ACGGACTTTTCTTACCA

             *           *     **        *   *    *          * *             
       2829 AAGAATGCCTTTTCCTTCATCTTTCTTGACGTTGACATCCAATTATAATTTTTTTTAACAAAAAA
         64 ATGAATGCCTTTTTCTTCAGGTTTCTTGAGGTTAACATTCAATTATAATCTGTTTTAA-AAAAAA

            *                  **   *           ********
       2894 TGTACAAAGAATTCAAATTCCAATCAATTTTGAGATNNNNNNNN
        128 AGTACAAAGAATTCAAATTTAAATAAATTTTGAGATTATAAAAA

            **         *   **   *                       *  *           *     
       2938 NNTTTAAAGTGAGTATTAAGACTTTTGAAGGAATGGGTGACTATTAATGGACTTTTCTTCCCAAT
          1 CATTTAAAGTGTGTAAAAAGGCTTTTGAAGGAATGGGTGACTATAAACGGACTTTTCTTACCAAT

            *          *     *         *   *                 *      
       3003 AAATGCC-TTTCCTTCATGTTTCTTGACGTTGACATTCAATTATAATCTTTTTTAA
         66 GAATGCCTTTTTCTTCAGGTTTCTTGAGGTTAACATTCAATTATAATCTGTTTTAA

       3058 CCAAAANNNN


Statistics
Matches: 360,  Mismatches: 89, Indels: 30
        0.75            0.19        0.06

Matches are distributed among these distances:
 170    3  0.01
 171  142  0.39
 172  208  0.58
 173    6  0.02
 174    1  0.00

ACGTcount: A:0.33, C:0.12, G:0.14, T:0.37


Consensus pattern (171 bp):   
CATTTAAAGTGTGTAAAAAGGCTTTTGAAGGAATGGGTGACTATAAACGGACTTTTCTTACCAAT
GAATGCCTTTTTCTTCAGGTTTCTTGAGGTTAACATTCAATTATAATCTGTTTTAAAAAAAAAGT
ACAAAGAATTCAAATTTAAATAAATTTTGAGATTATAAAAA
Done.