Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401156.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4309.0, 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, 807

Length: 1345
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.27

Warning! 337 characters in sequence are not A, C, G, or T


Found at i:1234 original size:171 final size:160

Alignment explanation


    Indices: 1011--1345  Score: 309
    Period size: 171  Copynumber: 2.0  Consensus size: 160

       1001 TAAAACCATT

                                            *                      *      *  
       1011 TAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGATAATAAATAGACTTTTCTTGC-CAATGAA
          1 TAAAGCGAGTAATAAGGCTTTTGAAGAAATGGATGATAATAAATAGACTTTTC-TCCTCAATCAA

                       *  **      * * *                   *                  
       1075 TCCCTTTTTCTTCATGTTTCTCGATGTAGACATTCAATTAAAATTTGTTTTAACT-AAAAAAGTA
         65 TCCCTTTTTCTACACCTTTCT-AAGGCAGACATTCAATTAAAATTTCTTTTAA-TGAAAAAAGTA

                    *               *        
       1139 AAAAAATTGAACTTAAAACCAATTTTGAGATTA
        128 AAAAAATTCAACTTAAAACCAATTATGAGATTA

                           *                    *                            
       1172 TNNNNNNNNNNAAAGTGAGTAATAAGGCTTTTGAAGGAATGGATGACT-ATAAAT-GCACTTTTC
          1 T----------AAAGCGAGTAATAAGGCTTTTGAAGAAATGGATGA-TAATAAATAG-ACTTTTC

                        **                         *          * *            
       1235 TCCTCAATCAATGGCTTTTTCTACACCTTTCTAAGGCAGGCATTCAATTATACTTTCTTTTAATG
         54 TCCTCAATCAATCCCTTTTTCTACACCTTTCTAAGGCAGACATTCAATTAAAATTTCTTTTAATG

                 *                   * *              
       1300 AAAAATGTAAAAAAATTCAACTTAACATCAATTATGAGATTA
        119 AAAAAAGTAAAAAAATTCAACTTAAAACCAATTATGAGATTA

                
       1342 TAAA
          1 TAAA


Statistics
Matches: 138,  Mismatches: 22, Indels: 29
        0.73            0.12        0.15

Matches are distributed among these distances:
 160    3  0.02
 161    1  0.01
 169    1  0.01
 170   65  0.47
 171   67  0.49
 172    1  0.01

ACGTcount: A:0.37, C:0.13, G:0.13, T:0.34


Consensus pattern (160 bp):   
TAAAGCGAGTAATAAGGCTTTTGAAGAAATGGATGATAATAAATAGACTTTTCTCCTCAATCAAT
CCCTTTTTCTACACCTTTCTAAGGCAGACATTCAATTAAAATTTCTTTTAATGAAAAAAGTAAAA
AAATTCAACTTAAAACCAATTATGAGATTA
Done.