Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400915.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4078.0, 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, 878

Length: 1464
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.30

Warning! 250 characters in sequence are not A, C, G, or T


Found at i:906 original size:170 final size:169

Alignment explanation


    Indices: 174--1152  Score: 502
    Period size: 170  Copynumber: 5.8  Consensus size: 169

        164 NNNNNNNNNN

                  *   *                  *      *     *    *        **       
        174 TTTATAGCCTTAAAATTGATTTTAAGTT-TAATGTTTTTA-GATTTTGGATTAAAATGGATTATA
          1 TTTATAACCTCAAAATTGATTTTAAGTTGAAAT-TTCTTACGTTTTTAG-TTAAAACAGATTATA

                                     *        *         *   *                
        237 ATTGAATGTTTGCCTTGAGAAACATGAAGAAAAACCCATTCATTTGCATGAAAAGCCCATTTATA
         64 ATTGAATGTTTG-C-TGAGAAACATAAAGAAAAAGCCATTCATTGGCAAGAAAAGCCCATTTATA

                 *   *            * **********     * * 
        302 GTCACTCAAGCCTTCAAAAGCCTTNNNNNNNNNNTTAAATGAT
        127 GTCACCCAAACCTTCAAAAGCCATATTACTCTCTTTAAACGGT

               *   *    *                            *             *         
        345 TTTGTAATCTCATAATTGATTTTAAGTTG-AATGTTC--ACATTTTTAGTTAAAATAGATTATAA
          1 TTTATAACCTCAAAATTGATTTTAAGTTGAAAT-TTCTTACGTTTTTAGTTAAAACAGATTATAA

                   *        *       *                                      **
        407 TTGAAT-ATTGCCTTGGGAAACATCAAGAAAAA-CCTATTCATTGGCAAGAAAAGCCCATTTANN
         65 TTGAATGTTTG-C-TGAGAAACATAAAGAAAAAGCC-ATTCATTGGCAAGAAAAGCCCATTTATA

            ******** *            *      **        *   
        470 NNNNNNNNAGCCTTCAAAAGCCTTATTACAATCTTTAAATGGT
        127 GTCACCCAAACCTTCAAAAGCCATATTACTCTCTTTAAACGGT

                    *    *             *     *   *   **     *           *    
        513 TTTCA-AATCTCATAATTGATTTTAAACTT---TTTTTTTATATTTTTGGTTAAAACAGACTATA
          1 TTT-ATAACCTCAAAATTGATTTT-AAGTTGAAATTTCTTACGTTTTTAGTTAAAACAGATTATA

                                          *                            *     
        574 ATTGAATGTTTGCCTTTG-GAAACATAAAGCAAAA-CACATTCATTGGCAAGAAAAGCCTATTTA
         64 ATTGAATGTTTG-C--TGAGAAACATAAAGAAAAAGC-CATTCATTGGCAAGAAAAGCCCATTTA

                    * **    **    * *    *   *       **  
        637 TAGTCACCTAGGCCTTTGAAAGGCTTATTTCTCGCTTTAAATAGT
        125 TAGTCACCCAAACCTTCAAAAGCCATATTACTCTCTTTAAACGGT

                   *    *       *********  **   *     *                      
        682 TTTATAATCTCATAATT-ANNNNNNNNNNGAGTTTTTTTACATTTTTTA-TTAAAACAGATTATA
          1 TTTATAACCTCAAAATTGA-TTTTAAGTTGAAATTTCTTAC-GTTTTTAGTTAAAACAGATTATA

                 *                            *     *                        
        745 ATTGAGTGTTTAGCTCGAGAAACATAAAG-AAAACCCATTTATTGGCAAGAAAAGCCCATTTATA
         64 ATTGAATGTTT-GCT-GAGAAACATAAAGAAAAAGCCATTCATTGGCAAGAAAAGCCCATTTATA

                 **************** *                    
        809 GTCACNNNNNNNNNNNNNNNNCTTATTACTCTCTTTAAACGGT
        127 GTCACCCAAACCTTCAAAAGCCATATTACTCTCTTTAAACGGT

                                                *   *                        
        852 TTTATAACCTCAAAATTGATTTTAAGTTG-AATTGTTTTATGTTTTTAGTTAAAACAGATTATAA
          1 TTTATAACCTCAAAATTGATTTTAAGTTGAAATT-TCTTACGTTTTTAGTTAAAACAGATTATAA

                       *           * *         *        **                   
        916 TTGAATGTTTTCCTTG-GTAAACCTTAAGAAAAAGTCATTCATTTTCAAGAAAAGCCCA-TTATA
         65 TTGAATG-TTTGC-TGAG-AAACATAAAGAAAAAGCCATTCATTGGCAAGAAAAGCCCATTTATA

              **                            *      *   
        979 GTGGCCCAAACCTTCAAAAGCCATATTACTCTGTTTAAATGGT
        127 GTCACCCAAACCTTCAAAAGCCATATTACTCTCTTTAAACGGT

                        *                                 *                  
       1022 TTTATAACCTCATAATTGATTTTAAGTTGAAATTTCTTACGTTTTTGGTTAAAACAGATTATAAT
          1 TTTATAACCTCAAAATTGATTTTAAGTTGAAATTTCTTACGTTTTTAGTTAAAACAGATTATAAT

                         *         *                                         
       1087 TGAATGTTTGCATTAGGAAACATGAAGAAAAAGCCATTCATTGGCAAGAAAAGCCCATTTATAGT
         66 TGAATGTTTGC-TGA-GAAACATAAAGAAAAAGCCATTCATTGGCAAGAAAAGCCCATTTATAGT

             
       1152 C
        129 C

       1153 NNNNNNNNNN


Statistics
Matches: 616,  Mismatches: 161, Indels: 62
        0.73            0.19        0.07

Matches are distributed among these distances:
 166    2  0.00
 167    3  0.00
 168  122  0.20
 169  127  0.21
 170  241  0.39
 171  115  0.19
 172    6  0.01

ACGTcount: A:0.34, C:0.13, G:0.13, T:0.36


Consensus pattern (169 bp):   
TTTATAACCTCAAAATTGATTTTAAGTTGAAATTTCTTACGTTTTTAGTTAAAACAGATTATAAT
TGAATGTTTGCTGAGAAACATAAAGAAAAAGCCATTCATTGGCAAGAAAAGCCCATTTATAGTCA
CCCAAACCTTCAAAAGCCATATTACTCTCTTTAAACGGT
Done.