Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401841.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4948.0, 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, 801

Length: 1336
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.30

Warning! 254 characters in sequence are not A, C, G, or T


Found at i:727 original size:170 final size:170

Alignment explanation


    Indices: 1--757  Score: 643
    Period size: 170  Copynumber: 4.4  Consensus size: 170

                   *                 *   **    *        *              *  *  
          1 CATAATTAATTTTAAGTCAAATTTTATTATGTTTTCGGTTAAAATAGATAATAATTGAACGTTTG
          1 CATAATTGATTTTAAGTC-AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTG

               *  *                         *                         **     
         66 TCTTAAAAAACGTGAAGAAAAAGATATCCATTAGCAAAAAAAGTCAATTTATAGTCACTTATTCC
         65 TCTCAAGAAACGTGAAGAAAAAGATATCCATTGGCAAAAAAAGTCAATTTATAGTCACCCA-TCC

            *                *      *    *            
        131 GT-CAAAAGCCTTATTATTCGCTTGAAATGTTTTTATAAACT
        129 TTGCAAAAGCCTTATTACTCGCTTTAAATATTTTTATAAACT

                                   *            *      *                     
        172 CATAATTGATTTTAAGTCAAATTGTTTTACATTTTTTGTTAAACCAGATAATAATTGAATGTCTG
          1 CATAATTGATTTTAAGTC-AATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTG

            *    *                                        *                **
        237 CCTCATGAAACGTGAAGAAACAA-ATATCCATTGGCAAGAAAAA-TTAATTTATAGTCACCCANN
         65 TCTCAAGAAACGTGAAGAAA-AAGATATCCATTGGCAA-AAAAAGTCAATTTATAGTCACCCATC

            ********      *                        *   
        300 NNNNNNNNAGCCTTTTTACTCGCTTTAAATATTTTTATACACT
        128 CTTGCAAAAGCCTTATTACTCGCTTTAAATATTTTTATAAACT

                                             *                               
        343 CATAATTGATTTTAAGTCAATTTTTTTACATTTCTGGTTAAAACAGATAATAATTGAATGTCTGT
          1 CATAATTGATTTTAAGTCAATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTGT

               *                  *       *    **********                    
        408 CT-TAGAAAACGTGAAGAAAAATATATCCACTGGTNNNNNNNNNNC-ATTTATAGTCACCCATGC
         66 CTCAAG-AAACGTGAAGAAAAAGATATCCATTGG-CAAAAAAAGTCAATTTATAGTCACCCAT-C

                       **         *                  *  
        471 CTTTG-AAAA-TATTATTACTCACTTTAAATATTTTTATAATCT
        128 C-TTGCAAAAGCCTTATTACTCGCTTTAAATATTTTTATAAACT

                            * *    *      *  *    *            *    *        
        513 CATAATTGATTTTAAAATGAATTATTTT-CGTTGTTGGCTAAAACAGATAACAATTAAATGTCTG
          1 CATAATTGATTTT-AAGTCAATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTG

                   *   *               *                 *                   
        577 TCTCAAGCAACATGAAGAAAAAGATATTCATTGGCAAAAAAAGTCCATTTATAGTCACCCA-CAC
         65 TCTCAAGAAACGTGAAGAAAAAGATATCCATTGGCAAAAAAAGTCAATTTATAGTCACCCATC-C

                     *   *       *       *         *  
        641 TTGCAAAAGTCTTTTTACTCGTTTTAAATGTTTTTAT-ATCT
        129 TTGCAAAAGCCTTATTACTCGCTTTAAATATTTTTATAAACT

               *                         *      *          * *     *         
        682 CATTATTGATTTTAAGTCAAGTTTTTTTATATTTTTTGTTAAAACAGTTTATAATGGAATGTCTG
          1 CATAATTGATTTTAAGTCAA-TTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTG

            *          
        747 CCTCAAGAAAC
         65 TCTCAAGAAAC

        758 ATAAAAAAAA


Statistics
Matches: 457,  Mismatches: 112, Indels: 35
        0.76            0.19        0.06

Matches are distributed among these distances:
 168    9  0.02
 169   31  0.07
 170  250  0.55
 171  160  0.35
 172    7  0.02

ACGTcount: A:0.35, C:0.13, G:0.11, T:0.37


Consensus pattern (170 bp):   
CATAATTGATTTTAAGTCAATTTTTTTACATTTTTGGTTAAAACAGATAATAATTGAATGTCTGT
CTCAAGAAACGTGAAGAAAAAGATATCCATTGGCAAAAAAAGTCAATTTATAGTCACCCATCCTT
GCAAAAGCCTTATTACTCGCTTTAAATATTTTTATAAACT
Done.