Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401925.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5026.0, 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, 818

Length: 1364
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.31

Warning! 190 characters in sequence are not A, C, G, or T


Found at i:398 original size:170 final size:169

Alignment explanation


    Indices: 5--698  Score: 578
    Period size: 171  Copynumber: 4.1  Consensus size: 169

          1 TTTA

                 *         *                           *           * *     * 
          5 AAGCGTGTAATAATGCTTTCGAAGGCATGGGTGACTATAAATGTACTTTGT-TTGCCGATAAAAG
          1 AAGCGAGTAATAATGTTTTCGAAGGCATGGGTGACTATAAATGAACTTT-TCTTGTCAATAAATG

                               **           *         *       **        *    
         69 GCTTTTTCTTCATGTTTATCAAGGCAGACATTTAATTATAATTTGTTTTAATAAGAAATATTAAA
         65 GCTTTTTCTTCATGTTTATTGAGGCAGACATTCAATTATAATCTGTTTTAGCAA-AAAT-GTAAA

               *       *    *      *                 **
        134 AAACTCAACTTGAAATAAATTATAAGT-TTATAAAACCATTAA
        128 AAATTCAACTTAAAATCAATTATGA-TATTATAAAACCATTTG

                    *      *                   *        ***                  
        176 AAGCGAGTGATAATCCTTTT-GAAGGCATGGGTGATTATAAATGGTGTTTTCTTGTCAATAAATG
          1 AAGCGAGTAATAAT-GTTTTCGAAGGCATGGGTGACTATAAATGAACTTTTCTTGTCAATAAATG

                        *    *      *                           *            
        240 GCTTTTTCTTCACGTTTCTTGAGGAAGACATTCAATTATAATCTGTTTTAGCCAAAATGTAGAAA
         65 GCTTTTTCTTCATGTTTATTGAGGCAGACATTCAATTATAATCTGTTTTAGCAAAAATGTA-AAA

                  *        *    *                    
        305 AATTCAGCTTAAAATTAATTTTGATATTATAAAACCATTTG
        129 AATTCAACTTAAAATCAATTATGATATTATAAAACCATTTG

               **      *        *                                            
        346 AAGTAAGTAATTATGTTTTCTAAGGCATGGGTGACTATAAATGAACTTTTCTTGTCAATGAAA-G
          1 AAGCGAGTAATAATGTTTTCGAAGGCATGGGTGACTATAAATGAACTTTTCTTGTCAAT-AAATG

                  * *          *     *            *    *        *      *     
        410 GCTTTTCCATCATGATTT-CTGAGGTAGACATTCAATTTTAATATGTTTTTACCAAAAACGT-AA
         65 GCTTTTTCTTCATG-TTTATTGAGGCAGACATTCAATTATAATCTG-TTTTAGCAAAAATGTAAA

                 *               **********       *   
        473 AAATTTAACTTAAAATCAATTNNNNNNNNNNAAAA-CAATTG
        128 AAATTCAACTTAAAATCAATTATGATATTATAAAACCATTTG

                                             *             *        *     *  
        514 AAAGCGAGTAATAATGTTTTCGAAGGCATGGGTAACTATAAAT-AGATTTTTCTT-ACGAATGAA
          1 -AAGCGAGTAATAATGTTTTCGAAGGCATGGGTGACTATAAATGA-ACTTTTCTTGTC-AATAAA

                           *         *             *              *      *   
        577 TGGCTTTTTCTTCATATTTATTGAGTCAGACATTCAATTGTAATCTGTTTTAAGTAAAAATATAA
         63 TGGCTTTTTCTTCATGTTTATTGAGGCAGACATTCAATTATAATCTGTTTT-AGCAAAAATGT-A

                        *                        **    *
        642 AAAAATTCAACTCAAAATCAATTATGATATTATAAAATTATTTA
        126 AAAAATTCAACTTAAAATCAATTATGATATTATAAAACCATTTG

                         
        686 AAGCGAGTAATAA
          1 AAGCGAGTAATAA

        699 GGCNNNNNNN


Statistics
Matches: 407,  Mismatches: 99, Indels: 34
        0.75            0.18        0.06

Matches are distributed among these distances:
 168   16  0.04
 169  120  0.29
 170  118  0.29
 171  147  0.36
 172    6  0.01

ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36


Consensus pattern (169 bp):   
AAGCGAGTAATAATGTTTTCGAAGGCATGGGTGACTATAAATGAACTTTTCTTGTCAATAAATGG
CTTTTTCTTCATGTTTATTGAGGCAGACATTCAATTATAATCTGTTTTAGCAAAAATGTAAAAAA
TTCAACTTAAAATCAATTATGATATTATAAAACCATTTG
Done.