Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402590.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5661.0, 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, 812

Length: 1354
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.30

Warning! 280 characters in sequence are not A, C, G, or T


Found at i:345 original size:172 final size:167

Alignment explanation


    Indices: 167--674  Score: 450
    Period size: 172  Copynumber: 3.0  Consensus size: 167

        157 NNNNNNCTTG

                                       *                                     
        167 CCAATGAATGATTTTTTCTTCATGTTTTTTAAGGTAGACATTTAATTCTAGTCTGTTTTAACCAA
          1 CCAATGAATGATTTTTTCTTCATGTTTCTT-AGGTAGAC-TTTAATTCTAGTCTGTTTTAACCAA

               *  *                                                       *  
        232 AATTGTGCAAAGAATTCAAAATT-AAATAAATTTTGAGATTATAAAA-ACATTTAAAGTGAGGAA
         64 AA-AG-ACAAA-AATTC-AAATTAAAATAAATTTTGAGATTATAAAACA-ATTTAAAGTGAGTAA

                                                        
        295 TAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACGTTTCTTC
        124 TAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACGTTTCTTC

                           *     *               ********    *  * *          
        339 CCAATGAATG-TTCTCTTCTTTATGTTTCTT-GGNNNNNNNNNNCAATTATAATATGTTTTAACC
          1 CCAATGAATGATT-TTTTCTTCATGTTTCTTAGG---TAGACTTTAATTCTAGTCTGTTTTAACC

                      *       *  *       *                               *   
        402 AGAAAAGCCAAAAAAATTGAACTTAAAATTAATTTTGAGATTATAAAACAATTTAAAGTGATTAA
         62 A-AAAAG--ACAAAAATTCAAATTAAAATAAATTTTGAGATTATAAAACAATTTAAAGTGAGTAA

                      *   *   *             *   *      *
        467 TAAGGCTTTTCAAGCAATAGGTGACTATAAATAGACTTTTCTTG
        124 TAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACGTTTCTTC

             *                 *          *                        *         
        511 CTAATGAAT-ACTTTTTTCCTCATGTTTCTCATGGTAGACTTTCAATTCTAGTCTATTTTAACCA
          1 CCAATGAATGA-TTTTTTCTTCATGTTTCTTA-GGTAGACTTT-AATTCTAGTCTGTTTTAACC-

                                   *    *                   *       *        
        575 AAAAAGCACAAAACATTCAAATTGAAATCAATTTTGAGATTATAAAACTATTTAAACTGAGTAAT
         62 AAAAAG-ACAAAA-ATTCAAATTAAAATAAATTTTGAGATTATAAAACAATTTAAAGTGAGTAAT

              *   *           *                
        640 AAAGCTCTTGAAGGAATGAGTGACTATAAATGGAC
        125 AAGGCTTTTGAAGGAATGGGTGACTATAAATGGAC

        675 TTTNNNNNNN


Statistics
Matches: 260,  Mismatches: 61, Indels: 30
        0.74            0.17        0.09

Matches are distributed among these distances:
 170    2  0.01
 171   12  0.05
 172  234  0.90
 173   10  0.04
 174    2  0.01

ACGTcount: A:0.37, C:0.12, G:0.14, T:0.35


Consensus pattern (167 bp):   
CCAATGAATGATTTTTTCTTCATGTTTCTTAGGTAGACTTTAATTCTAGTCTGTTTTAACCAAAA
AGACAAAAATTCAAATTAAAATAAATTTTGAGATTATAAAACAATTTAAAGTGAGTAATAAGGCT
TTTGAAGGAATGGGTGACTATAAATGGACGTTTCTTC
Done.