Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402311.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5393.0, 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, 781

Length: 1302
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35


Found at i:394 original size:171 final size:170

Alignment explanation


    Indices: 1--1078  Score: 885
    Period size: 171  Copynumber: 6.3  Consensus size: 170

                               *     *                *                      
          1 AAGCGAGTAATAAGGCTTTTGAAGGAATGAGTGACTATAAA-CAGACTTTTCTTGCCAATGAAT-
          1 AAGCGAGTAATAAGGCTTTCGAAGGGATGAGTGACTATAAATGA-ACTTTTCTTGCCAATGAATG

                                 *      * *            ** *      *           
         64 GCATTTTTCTTCACGTTT-CCTGAGGCAAACATTCAATTATAACCTGTTTTATCCAAAAAA-GTA
         65 GC-TTTTTCTTCACGTTTCCCAG-GGCAGATATTCAATTATAATATATTTTA-ACAAAAAATGTA

                    *                  **                 
        127 AAAAAATTGAACTTAAAAATCAATTATTTGATTATAAAATCATTTA
        127 AAAAAATTCAACTT-AAAATCAATTATGAGATTATAAAA-CATTTA

               *  *            **    *   *             *               *     
        173 AAGTGAATAATAAGGCTTTTAAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATCAATGG
          1 AAGCGAGTAATAAGGCTTTCGAAGGGATGAGTGACTATAAATGAACTTTTCTTGCCAATGAATGG

                     *  *          *                   *                     
        238 CTTTTTCTTTACATTTCCCAGGGTAGATATTCAATTATAATATGTTTTAACAAAAAATGTAAAAA
         66 CTTTTTCTTCACGTTTCCCAGGGCAGATATTCAATTATAATATATTTTAACAAAAAATGTAAAAA

                *                                    
        303 AATTTAACTTAAAATCAATTATGAGATTATAAAACAATTTA
        131 AATTCAACTTAAAATCAATTATGAGATTATAAAAC-ATTTA

                                      * *   * *                * *      *    
        344 AAGCGAGTAATAAGGCTTTCGAAGGGTTTAGTAATTATAAATGAACTTTTCGTACCAATGGATGG
          1 AAGCGAGTAATAAGGCTTTCGAAGGGATGAGTGACTATAAATGAACTTTTCTTGCCAATGAATGG

                **   * *        * *              **                  *       
        409 CTTTCGCTTTATGTTTCCCAAGACAG-TCATTCAATTGCAATATATTTTAATC-AAATATGTAAG
         66 CTTTTTCTTCACGTTTCCCAGGGCAGAT-ATTCAATTATAATATATTTTAA-CAAAAAATGTAA-

                                                  *    *
        472 AAAAA-TCAACTTAAAATCAATTATGAGATTATAAAATTATTTG
        128 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CATTTA

                         **    *     **     *           ***     *         *  
        515 AAGCGAGTAATAAAACTTTGGAAGGCTTG-GACGACTATAAATGGGGTTTTCCTGCCAATGATTG
          1 AAGCGAGTAATAAGGCTTTCGAAGGGATGAG-TGACTATAAATGAACTTTTCTTGCCAATGAATG

            *            *     *    * * * * *    *      **        *  *       
        579 ACTTTTTCTTTGCTC-TTTTCCA-TGAAAACACTCAAGTATAATCGATTTTAACTAACAATGTAA
         65 GCTTTTTC-TT-CACGTTTCCCAGGGCAGATATTCAATTATAATATATTTTAACAAAAAATGTAA

                       *  *           *                 
        642 AAAAATTCAACCTAGAATCAATTATGTGATTATAAAACCATTTA
        128 AAAAATTCAACTTAAAATCAATTATGAGATTATAAAA-CATTTA

                        * *          **  *               *         **   *   *
        686 AAGCGAGTAATACGACTTTCGAAGGCTTGTGTGACTATAAAT-AGGCTTTTCTTGTTAATTAATA
          1 AAGCGAGTAATAAGGCTTTCGAAGGGATGAGTGACTATAAATGA-ACTTTTCTTGCCAATGAATG

            *           **       *                     *                     
        750 TCTTTTTCTTCATTTTTCCCATGGCAG-TCATTCAATTATAATCTATTTTAACAAAAAATGTAAA
         65 GCTTTTTCTTCACGTTTCCCAGGGCAGAT-ATTCAATTATAATATATTTTAACAAAAAATGTAAA

                                      *                 
        814 AAAATTCAA-TCTAAAATCAATTATGTGATTATAAAACTATTTA
        129 AAAATTCAACT-TAAAATCAATTATGAGATTATAAAAC-ATTTA

                               *     *                          ***          
        857 AAGCGAGTAATAAGGCTTTTGAA-GCATGAGTGACTATAAATGAACTTTTCTCATCAATGAATGG
          1 AAGCGAGTAATAAGGCTTTCGAAGGGATGAGTGACTATAAATGAACTTTTCTTGCCAATGAATGG

                          *   **    *          *       *       *       *     
        921 CTTTTTCTTCACGTCT-CTGGAGGTAGATATTCAACTATAATACATTTTAATAAAAAATAT-AAA
         66 CTTTTTCTTCACGTTTCCCAG-GGCAGATATTCAATTATAATATATTTTAACAAAAAATGTAAAA

                                                       
        984 AAATTCAACTTAAAAT-AGATTATGAGATTATAAAATCATTTA
        130 AAATTCAACTTAAAATCA-ATTATGAGATTATAAAA-CATTTA

               *        * *           *  *             *         
       1026 AAGTGAGTAATACGACTTTCGAAGGGTTGGGTGACTATAAATGGACTTTTCTT
          1 AAGCGAGTAATAAGGCTTTCGAAGGGATGAGTGACTATAAATGAACTTTTCTT

       1079 CATATTTTTC


Statistics
Matches: 727,  Mismatches: 150, Indels: 60
        0.78            0.16        0.06

Matches are distributed among these distances:
 168    1  0.00
 169   59  0.08
 170  118  0.16
 171  422  0.58
 172  122  0.17
 173    5  0.01

ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35


Consensus pattern (170 bp):   
AAGCGAGTAATAAGGCTTTCGAAGGGATGAGTGACTATAAATGAACTTTTCTTGCCAATGAATGG
CTTTTTCTTCACGTTTCCCAGGGCAGATATTCAATTATAATATATTTTAACAAAAAATGTAAAAA
AATTCAACTTAAAATCAATTATGAGATTATAAAACATTTA

Found at i:1117 original size:149 final size:149

Alignment explanation


    Indices: 941--1227  Score: 402
    Period size: 149  Copynumber: 1.9  Consensus size: 149

        931 ACGTCTCTGG

                   *                                                         
        941 AGGTAGATATTCAACTATAATACATTTTAAT-AAAAAATATAAAAAATTCAACTTAAAAT-AGAT
          1 AGGTAGACATTCAACTATAATACATTTTAATCAAAAAA-ATAAAAAATTCAACTTAAAATCA-AT

                            *                   *   *        *   *           
       1004 TAT-GAGATTATAAAATCATTTAAAG-TGAGTAATACGACTTTCGAAGGGTTGGGTGACTATAAA
         64 T-TGGAGATTATAAAACCATTTAAAGCT-AGTAATAAGACCTTCGAAGGCTTGAGTGACTATAAA

                                   
       1067 TGGACTTTTCTTCATATTTTTCA
        127 TGGACTTTTCTTCATATTTTTCA

                          *       *             * *                          
       1090 AGGTAGACATTCAAGTATAATATATTTTAATCAAAACAGTAAAAAATTCAACTTAAAATCAATTT
          1 AGGTAGACATTCAACTATAATACATTTTAATCAAAAAAATAAAAAATTCAACTTAAAATCAATTT

                *                                                 *          
       1155 GGAGGTTATAAAACCATTTAAAGCTAGTAATAAGACCTTCGAAGGCTTGAGTGAGTATAAATGGA
         66 GGAGATTATAAAACCATTTAAAGCTAGTAATAAGACCTTCGAAGGCTTGAGTGACTATAAATGGA

                    
       1220 CTTTTCTT
        131 CTTTTCTT

       1228 GCCAATGAGT


Statistics
Matches: 122,  Mismatches: 12, Indels: 8
        0.86            0.08        0.06

Matches are distributed among these distances:
 148    1  0.01
 149  114  0.93
 150    7  0.06

ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34


Consensus pattern (149 bp):   
AGGTAGACATTCAACTATAATACATTTTAATCAAAAAAATAAAAAATTCAACTTAAAATCAATTT
GGAGATTATAAAACCATTTAAAGCTAGTAATAAGACCTTCGAAGGCTTGAGTGACTATAAATGGA
CTTTTCTTCATATTTTTCA
Done.