Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401119.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4276.0, 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: 4370
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.26

Warning! 1321 characters in sequence are not A, C, G, or T


Found at i:298 original size:171 final size:172

Alignment explanation


    Indices: 5--722  Score: 816
    Period size: 171  Copynumber: 4.2  Consensus size: 172

          1 AAGT

                                                  *        *   **       *    
          5 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATAGA-ATTTTGTTGTTAATAAATGCCTT
          1 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACA-TTTCTTGACAATAAATACCTT

                     * *   * *        *          **        *    *            
         69 TTT-TTCTATGGTTCCTGAGATAGACGTTCAATTATAGCCTGTTTTAGCCAAGAATGTAAAAAAA
         65 TTTCTTCTACGTTTCTTAAGATAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAA

                  *           *   *                    
        133 TTCAACGTAAAATCAATTATGAAATTATAAAACCATTTAAAGC
        130 TTCAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGC

                                                                   *         
        176 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACATTTCTTGACAATGAATACCTTT
          1 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACATTTCTTGACAATAAATACCTTT

                    *          *  *        **       *                        
        241 TTCTT-TATGTTTCTTAAGGTAAACATTCAACAATAATCTATTTTAACCAAAAATGTAAAAAAAT
         66 TTCTTCTACGTTTCTTAAGATAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAAT

                        *                             
        305 TCAACTTAAAATTAATTTTGAGATTATAAAACCATTTAAAGC
        131 TCAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGC

                          *     **           *     *                         
        347 GAGTAATAAGGCTTCTGAAGCTATGAGTGACT-GAAATGAAC-TTTGCTT-ATCAATAAATACCT
          1 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACATTT-CTTGA-CAATAAATACCT

                             *                                    *          
        409 TTTTCTTCT-CGTTTCTCAAGATAGACATTCAATTATAATCTGTTTTAACCAAATATGTAAAAAA
         64 TTTTCTTCTACGTTTCTTAAGATAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAA

                                                       *
        473 ATTCAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGT
        129 ATTCAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGC

                            *                *                *    *   *    *
        517 GAGTAATAAGGCTTTTAAAGGAATGAGTGACTAAAAATGGACATTTCTTGTCAATGAATGCCTTC
          1 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACATTTCTTGACAATAAATACCTTT

               *     *          * *                                 **       
        582 TTCATC-ACATTTC-TAGAGGTGGACATTCAATTATAATCT-TTGTTAA--AAAAAAAT-AAAAA
         66 TTCTTCTACGTTTCTTA-AGATAGACATTCAATTATAATCTGTT-TTAACCAAAAATGTAAAAAA

             *     *       *                        * * *
        641 ACT-ATATTTAAAATTAATTTTGAGATTATAAAACCATTTCATGT
        129 ATTCA-ACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGC

                                     *            
        685 GAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAT
          1 GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAAT

        723 AAAAAATTCT


Statistics
Matches: 470,  Mismatches: 65, Indels: 27
        0.84            0.12        0.05

Matches are distributed among these distances:
 167    1  0.00
 168   77  0.16
 169    9  0.02
 170  148  0.31
 171  229  0.49
 172    6  0.01

ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35


Consensus pattern (172 bp):   
GAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAATGGACATTTCTTGACAATAAATACCTTT
TTCTTCTACGTTTCTTAAGATAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAAT
TCAACTTAAAATCAATTTTGAGATTATAAAACCATTTAAAGC

Done.