Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402762.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5821.0, 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, 742

Length: 1237
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.34

Warning! 80 characters in sequence are not A, C, G, or T


Found at i:1059 original size:171 final size:171

Alignment explanation


    Indices: 1--1237  Score: 610
    Period size: 171  Copynumber: 7.2  Consensus size: 171

                 *                        *   *                       *      
          1 TAAAGTGAGTAATAAGGCTTTTGAAGGAATAGGTAACTATAAATGGAC-TTTTTT-CTCAATGAA
          1 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTGCTAAATGAA

                        *          *      **                      * *       *
         64 TG-TTTTTTTTTTACAGATTTCTAAAGGTAGGCATTCAATTATAGTCTGTTTTAACCAAAAATGA
         66 TGATTTTTTTTTCAC-G-TTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAGCTAAAAAT-T

                      *          *    *  *     *         
        128 AAAACAAATTCAACTTAAAATAAATTTTGGGATTAGAAAATAATT
        128 AAAA-AAATTTAACTTAAAATCAATTATGAGATTATAAAATAATT

                     **********   *        *            *       *     *      
        173 TAAAGCGAGNNNNNNNNNNTTTAAAGGAATGAGTGACTATAAATAGACTTTTCTTGC-CAATGAA
          1 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTGCTAAATGAA

                      *    *      *                                  *     * 
        237 TG-TATTTTTCTTCATGTTTCCCCAA-GTAGAA-ATTCAATTATAGTCTGTTTTAG-GAAACATT
         66 TGAT-TTTTTTTTCACGTTT-CTCAAGGTA-AACATTCAATTATAGTCTGTTTTAGCTAAA-AAT

                  *    *                                  
        298 GTAAAAGAATTCAACTTAAAATCAATTATGAGATTATAAAATAATT
        127 -TAAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATAATT

            *              ********************    *      *     *     *  *   
        344 GAAAGCGAGTAATAANNNNNNNNNNNNNNNNNNNNACTACAAATGGTCTTTTCTTGC-CAACGAA
          1 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTGCTAAATGAA

                      *            *        *               *                
        408 TG-TGTTTTTCTTCACGTTTCTCCA-GTCAAAAATTCAATTATAGTCTATTTTAGCTAAAAATAT
         66 TGAT-TTTTTTTTCACGTTTCTCAAGGT-AAACATTCAATTATAGTCTGTTTTAGCTAAAAAT-T

                 *   ***********                        
        471 AAAAACATTCNNNNNNNNNNCAATTATGAGATTATAAAATAATT
        128 AAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATAATT

             **      *                           **********           *     *
        515 TTCAGCGAGCAATAAGGCTTTTGAAGGAATGGGTGACNNNNNNNNNNC-TTTTTT-CTCAATGAG
          1 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTGCTAAATGAA

                *  *  * *  *      *  *   **                       *        * 
        578 T-AGCTTGTTGTGCATGTTTCTTAAAGTAGGCATTCAATTATAGTCTGTTTTA-ATAAAAAATAA
         66 TGA-TTTTTTTTTCACGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAGCT-AAAAATTA

                                        *   ********** 
        641 AAAAAATTTAACTTAAAATCAATTATGATATTNNNNNNNNNNT
        129 AAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATAATT

                 *                                 *    *                    
        684 TAAAGTGAGTAATAAGGCTTTTGAAGGAATGGGTGACTAAAAATAGAC-TTTTTT-CTAAATGAA
          1 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTGCTAAATGAA

              *    *   *  *    *         *         *            * *        * 
        747 TGGTTTTGTTTACATGTTTTTCAAGGTAAGCATTCAATTTTAGTCTGTTTTAACCAAAAATTTTA
         66 TGATTTTTTTTTCACGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAGCTAAAAA-TTAA

                                   *    *        *    
        812 AAAAATTTAACTTAAAATCAATTTTGAGTTTATAAAACAATT
        130 AAAAATTTAACTTAAAATCAATTATGAGATTATAAAATAATT

                 *      *  **********                                 *      
        854 TAAAGTGAGTAAAAANNNNNNNNNNGGAATGGGTGACTATAAATGGACTTTTTTTGC-CAATGAA
          1 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTGCTAAATGAA

                                               * *      *             *      
        918 TGATTTTTTTTTCACGTTTCTCAAGGTAAACATTCGACTATAGTGTGTTTTAGCTAAAGATGTAA
         66 TGATTTTTTTTTCACGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAGCTAAAAAT-TAA

                                                   *  
        983 AAAAATTTAACTTAAAATCAATTATGAGATTATAAAATATTT
        130 AAAAATTTAACTTAAAATCAATTATGAGATTATAAAATAATT

                    *                   *                 *      *    *******
       1025 TAAAGCGACTAATAAGGAC-TTTGAAGGCATGGGTGACTATAAATGAACTTTTCTTGCNNNNNNN
          1 TAAAGCGAGTAATAAGG-CTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTGCTAAATGA

            ***       *                       *                              
       1089 NNNA-TTTTTCTTCACGTTTCTCTAA-GTGAAA-GTTCAATTATAGTCTGTTTTAGCTAAAAATT
         65 ATGATTTTTTTTTCACGTTTCTC-AAGGT-AAACATTCAATTATAGTCTGTTTTAGCTAAAAATT

                      *                     *            
       1151 GAAAAAAATTCAACTTAAAATCAATTATGAGACTATAAAATAATT
        128 -AAAAAAATTTAACTTAAAATCAATTATGAGATTATAAAATAATT

             *                                        
       1196 TCAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAA
          1 TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAA


Statistics
Matches: 774,  Mismatches: 265, Indels: 53
        0.71            0.24        0.05

Matches are distributed among these distances:
 169  115  0.15
 170  128  0.17
 171  427  0.55
 172   76  0.10
 173   19  0.02
 174    9  0.01

ACGTcount: A:0.35, C:0.10, G:0.14, T:0.34


Consensus pattern (171 bp):   
TAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTTTTGCTAAATGAA
TGATTTTTTTTTCACGTTTCTCAAGGTAAACATTCAATTATAGTCTGTTTTAGCTAAAAATTAAA
AAAATTTAACTTAAAATCAATTATGAGATTATAAAATAATT
Done.