Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401228.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4374.0, 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, 729

Length: 1215
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.24

Warning! 405 characters in sequence are not A, C, G, or T


Found at i:1198 original size:172 final size:172

Alignment explanation


    Indices: 545--1178  Score: 685
    Period size: 172  Copynumber: 3.7  Consensus size: 172

        535 NNNNNNNNNG

                                         *                       *           
        545 GTTGACATTCAATTATAATCTGTTTTAACTAAAAATGTACAAAGAATTCAAATGTAAATCAATTT
          1 GTTGACATTCAATTATAATCTGTTTTAACAAAAAATGTACAAAGAATTCAAATTTAAATCAATTT

                  *                            *                       *   **
        610 TGAGAAAATAAAA-AGATTTAAAGTGAGTAATAAGTCTTTTGAAGGAATGGGTGACTATTAATAA
         66 TGAGAATATAAAACA-ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGG

                *                                       *
        674 ACTTCTCTTGCCAATGAATGTCTTTTCC-TT-CGTGTTTCTTGAC
        130 ACTTTTCTTGCCAATGAATGTCTTTTCCTTTACGT-TTT-TTGAT

                 *               *                                  *   *    
        717 GTTGATATTCAATTATAATCTTTTTTAA-ACAAAAATGTACAAAGAATTCAAATTTCAATAAATT
          1 GTTGACATTCAATTATAATCTGTTTTAACA-AAAAATGTACAAAGAATTCAAATTTAAATCAATT

                      *     *         *    *                  *              
        781 TTGA-AATTACAAAACCATTTAAAGTAAGTATTAAGGCTTTTGAAGGAATTGGTGACTATAAATG
         65 TTGAGAA-TATAAAACAATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATG

                        *  **    *     *          * *   
        845 GACTTTTCTTGCAAACAAATGCCTTTTTCTTTACGTTTCTCGAT
        129 GACTTTTCTTGCCAATGAATGTCTTTTCCTTTACGTTTTTTGAT

            *               **           *                       * **        
        889 ATTGACATTCAATTATTGTCTGTTTTAACTAAAAATGTA-AAA-AACTGT-AACTAAAAATCAAT
          1 GTTGACATTCAATTATAATCTGTTTTAACAAAAAATGTACAAAGAA-T-TCAAATTTAAATCAAT

             *                   *    *        *             *               
        951 TATG-GTAATATAAAACCAA-CTAAAATGAGTAATGAGGCTTTTGAAGGGATGGGTGACTATAAA
         64 TTTGAG-AATATAAAA-CAATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAA

            *   *              *        *                 
       1014 CGGATTTTTCTTGCCAATGTATGTCTTTCCCTTTACGTTTTTTGAT
        127 TGGACTTTTCTTGCCAATGAATGTCTTTTCCTTTACGTTTTTTGAT

                      *  *              *                 *                  
       1060 GTTGACATTCTATGATAATCTGTTTTAAGAAAAAATGTACAAAGAAATCAAATTTAAATCAATTT
          1 GTTGACATTCAATTATAATCTGTTTTAACAAAAAATGTACAAAGAATTCAAATTTAAATCAATTT

                 *                *       *                       
       1125 TGAGATTATAAAACAATTTAAATTGAGTAAAAAGGCTTTTGAAGGAATGGGTGA
         66 TGAGAATATAAAACAATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGA

       1179 GCATGGATGG


Statistics
Matches: 371,  Mismatches: 75, Indels: 32
        0.78            0.16        0.07

Matches are distributed among these distances:
 170    2  0.01
 171  132  0.36
 172  227  0.61
 173    7  0.02
 174    3  0.01

ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36


Consensus pattern (172 bp):   
GTTGACATTCAATTATAATCTGTTTTAACAAAAAATGTACAAAGAATTCAAATTTAAATCAATTT
TGAGAATATAAAACAATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGA
CTTTTCTTGCCAATGAATGTCTTTTCCTTTACGTTTTTTGAT
Done.