Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400247.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3455.0, 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, 993

Length: 1656
ACGTcount: A:0.22, C:0.08, G:0.09, T:0.22

Warning! 650 characters in sequence are not A, C, G, or T


Found at i:433 original size:172 final size:172

Alignment explanation


    Indices: 1--666  Score: 680
    Period size: 172  Copynumber: 3.9  Consensus size: 172

                                  *             *                 * *    *   
          1 AATGTACAAAGAATTCAAATTTCAATCAATTTTGAGGTTACAAAACCATTTAAAATTAGTATTAA
          1 AATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATAA

                   *   *                           * *   **  *              *
         66 GGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTCGTCAACAAACACCTTTTTCTAT-AC
         66 GGCTTTTGAAGAAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCT-TCAT

            *     *  *   *             *           *   
        130 CTTTCTCGATATTAACATTCAATTATAGTCTGTTTTAACTAAA
        130 GTTTCTTGACATTGACATTCAATTATAATCTGTTTTAACCAAA

                               ****        **  *     *      *       *       *
        173 AATGTA-AAA-AACTTCAACCAAAAATCAATGATGGGATTATAAAACCGTTTAAAGCGAGTAATG
          1 AATGTACAAAGAA-TTCAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATA

                                          **  *        *     *  *            
        236 AGGCTTTTGAA-AGAATGGGTGACTATAAACAGATTTTTCTTGGCAATGTATTCCTTTTTCTTCA
         65 AGGCTTTTGAAGA-AATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCA

                     ***** *                            
        300 TGTTTCTTGGGGCCGGCATTCAATTATAATCTGTTTTAACCAAA
        129 TGTTTCTTGACATTGACATTCAATTATAATCTGTTTTAACCAAA

             *                                      *                *       
        344 ACTGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAAGTGTGTAATAA
          1 AATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATAA

            *                                     *           *      *       
        409 AGCTTTTGAAGAAATGGGTGACTATAAATGGACTTTTCCTGCCAATGAATGCCTTTTCCTTCATG
         66 GGCTTTTGAAGAAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATG

                     *    *               *           
        474 TTTCTTGACTTTGAAATTCAATTATAATCTTTTTTAACCAAA
        131 TTTCTTGACATTGACATTCAATTATAATCTGTTTTAACCAAA

               *                  *                                      *   
        516 AATATACAAAGAATTCAAATTTCAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTATTAA
          1 AATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATAA

                       *    *  *   *    *           *                        
        581 GGCTTTTGAAGGAATGAGTAACTGTAAAGGGACTTTTCTTACCAATG-A-ACCTTTTTCTTCATG
         66 GGCTTTTGAAGAAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATG

                     *    *         
        644 TTTC-TGAAGATTGGCATTCAATT
        131 TTTCTTG-ACATTGACATTCAATT

        667 TTGAGATTAT


Statistics
Matches: 398,  Mismatches: 89, Indels: 16
        0.79            0.18        0.03

Matches are distributed among these distances:
 169    2  0.01
 170   32  0.08
 171  125  0.31
 172  236  0.59
 173    3  0.01

ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36


Consensus pattern (172 bp):   
AATGTACAAAGAATTCAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAATAA
GGCTTTTGAAGAAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTCATG
TTTCTTGACATTGACATTCAATTATAATCTGTTTTAACCAAA
Done.