Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402454.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5531.0, 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, 706

Length: 1177
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.26

Warning! 317 characters in sequence are not A, C, G, or T


Found at i:519 original size:170 final size:171

Alignment explanation


    Indices: 1--727  Score: 527
    Period size: 170  Copynumber: 4.3  Consensus size: 171

                                           *                        *        
          1 ATTCAACTTAAAATCAATTATGAGATTATAAGACCATTTAAAGCG-GGTAATAAG-GTTTTGAAG
          1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGG-AATAAGCTTTTTGAAG

                 *  *  *    *            * *                  *           *  
         64 GAATGAGTAACAATAAGTAGACTTTTCTTCTGAATAAATGGCTTTTTTTTACACATTTC-CTGAG
         65 GAATGGGTGACTATAAATAGACTTTTCTTTTCAATAAATGGC-TTTTTTTGCACATTTCTC-AAG

                                  *      *              
        128 GTAGACATTCAATTATAGTCTGATTTAACAAAAAATGTAAAAAA
        128 GTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA

             *       *         *             **         **********           
        172 AATCAACTTTAAATCAATTGTGAGATTATAAAATAATTTAAAGCNNNNNNNNNNCTTTTTGAAGG
          1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGGAATAAGCTTTTTGAAGG

               *       **  * *          *     *                *  *      *   
        237 AATAGGTGACTCCAAGTGGAC-TTTCTTGTCAATGAAT-GCTTATTTCTT-TACGTTTCTCGAGG
         66 AATGGGTGACTATAAATAGACTTTTCTTTTCAATAAATGGCTT-TTT-TTGCACATTTCTCAAGG

                *             *        *      *********
        299 TAGATATTCAATTATAGTATGTTTTAATCAAAAANNNNNNNNN
        129 TAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA

            *                                       *              *         
        342 NTTCAACTTAAAATCAATTATGAGATTATAAAACCATTTACAGCGAGGAATAAGCCTTTTGAAGG
          1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGGAATAAGCTTTTTGAAGG

                                     *     *                   **          * 
        407 AATGGGTGACTATAAATAGACTTTTTTTTTCCATAAATGGCTTTTTTTGCATGTTTCTCAAGGCA
         66 AATGGGTGACTATAAATAGACTTTTCTTTTCAATAAATGGCTTTTTTTGCACATTTCTCAAGGTA

                  *                                  
        472 GACATTTAATTATAGTCTG-TTTAACCAAAAATGTAAAAAA
        131 GACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA

                            *     **********  **           *               **
        512 ATTCAACTTAAAATCACTTATGNNNNNNNNNNACTGTTTAAAGCGAGTAATAAGCTTTTTGAAAA
          1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGGAATAAGCTTTTTGAAGG

                      **    **                 * *  *      *    *     *      
        577 AATGGGTGACCCTAAACGGACTTTTCTTCTT-AATGAGTGACTTTTTCTGCATATTTCCCAAGGT
         66 AATGGGTGACTATAAATAGACTTTTCTT-TTCAATAAATGGCTTTTTTTGCACATTTCTCAAGGT

                 *       *                     *       
        641 AGACAATCAATTACAGTCTGTTTTAA-CAAAAATTTTAAAAAA
        130 AGACATTCAATTATAGTCTGTTTTAACCAAAAA-TGTAAAAAA

                            *                 *          
        683 ATTCAACTTAAAATCAGTTATGAGATTATAAAACTATTTAAAGCG
          1 ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCG

        728 NNNNNNNNNN


Statistics
Matches: 411,  Mismatches: 134, Indels: 22
        0.72            0.24        0.04

Matches are distributed among these distances:
 169    2  0.00
 170  237  0.58
 171  145  0.35
 172   27  0.07

ACGTcount: A:0.36, C:0.12, G:0.14, T:0.34


Consensus pattern (171 bp):   
ATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCGAGGAATAAGCTTTTTGAAGG
AATGGGTGACTATAAATAGACTTTTCTTTTCAATAAATGGCTTTTTTTGCACATTTCTCAAGGTA
GACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAA
Done.