Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402778.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5837.0, 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, 692

Length: 1154
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.27

Warning! 271 characters in sequence are not A, C, G, or T


Found at i:620 original size:170 final size:169

Alignment explanation


    Indices: 1--638  Score: 521
    Period size: 170  Copynumber: 3.8  Consensus size: 169

                                 *                               **       *  
          1 TAATAAAAAATATAAAAAAATCTAAATTAAAATCAATTATGAAGTTATAAAATTGTTTAAAGAGA
          1 TAATAAAAAATAT-AAAAAATTTAAATTAAAATCAATTATGAAGTTATAAAATCATTTAAAGCGA

                               *   *               **********                
         66 -TAATAAAGCTTTTGAAGGTATGTGTGACTATAAATGGANNNNNNNNNNCAATGGATATCTTTTT
         65 GTAATAAAGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTTT

                            *           *           
        130 CTTCACGTTTACTAAGGAAAA-ATTTAACTATAATCTTTT
        130 CTTCACGTTTACTAAGAAAAACATTTAATTATAATCTTTT

                                                  *                          
        169 TAATAAAAAATATAAAAAATTTAAATTAAAATCAATTAAG-AGATTATAAAATCATTTAAAGCGA
          1 TAATAAAAAATATAAAAAATTTAAATTAAAATCAATTATGAAG-TTATAAAATCATTTAAAGCGA

                 *                       *                              *****
        233 GTAATCAAGCTTTTGAAGGCATGGGTGACCATAAATGGACTTTTCTTGCCAATGGATATCNNNNN
         65 GTAATAAAGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTTT

            *******************      *         *     
        298 NNNNNNNNNNNNNNNNNNNAACATTCAATTATAATTTATTT
        130 CTTCACGTTTACTAAGAAAAACATTTAATTATAATCT-TTT

                                   *    *      *           *      *          
        339 TAATAAAAAATAT-AAAAATGTCAAAATAAAAATCTATTATGAAGTTGTAAAATTATTTAAAGCG
          1 TAATAAAAAATATAAAAAAT-T-TAAATTAAAATCAATTATGAAGTTATAAAATCATTTAAAGCG

                                *   **********                         *     
        403 AGTAATAAAGCTTTTGAAGGTATGNNNNNNNNNNAATGGACTTTTCTTGCCAATGGATACCTTTT
         64 AGTAATAAAGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTT

                       *  *                          
        468 TCTTCACGTTTTCTGAGAAAAACATTTAATTATAATCTTTT
        129 TCTTCACGTTTACTAAGAAAAACATTTAATTATAATCTTTT

            *   *                                                            
        509 AAATTAAAAATATAAAACAATTTAAATTAAAATCAATTATG-AGATTATAAAATCATTTAAAGCG
          1 TAATAAAAAATATAAAA-AATTTAAATTAAAATCAATTATGAAG-TTATAAAATCATTTAAAGCG

             *                *  *               *  *                        
        573 ATTAATAAAGCTTTTGAACGCGTGGGTGACTATAAATTGATTTTTCTTGCCAATGGATATCTTTT
         64 AGTAATAAAGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTT

             
        638 T
        129 T

        639 NNNNNNNNNN


Statistics
Matches: 345,  Mismatches: 115, Indels: 18
        0.72            0.24        0.04

Matches are distributed among these distances:
 166    2  0.01
 167   43  0.12
 168   60  0.17
 169   20  0.06
 170  114  0.33
 171  101  0.29
 172    5  0.01

ACGTcount: A:0.39, C:0.09, G:0.11, T:0.34


Consensus pattern (169 bp):   
TAATAAAAAATATAAAAAATTTAAATTAAAATCAATTATGAAGTTATAAAATCATTTAAAGCGAG
TAATAAAGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTTTC
TTCACGTTTACTAAGAAAAACATTTAATTATAATCTTTT
Done.