Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402014.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5109.0, 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, 1000

Length: 2302
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.28

Warning! 521 characters in sequence are not A, C, G, or T


Found at i:1451 original size:37 final size:37

Alignment explanation


    Indices: 1392--1464  Score: 92
    Period size: 37  Copynumber: 2.0  Consensus size: 37

       1382 AGGTAATCAA

                            **       *     *     
       1392 TTATAGTCTATTTTAATGAAAAATGTAAAAATTTCAC
          1 TTATAGTCTATTTTAACCAAAAATGCAAAAAATTCAC

                     *     *                    
       1429 TTATAGTCTGTTTTAGCCAAAAATGCAAAAAATTCA
          1 TTATAGTCTATTTTAACCAAAAATGCAAAAAATTCA

       1465 ACTAAGAATT


Statistics
Matches: 30,  Mismatches: 6, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  37   30  1.00

ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37


Consensus pattern (37 bp):   
TTATAGTCTATTTTAACCAAAAATGCAAAAAATTCAC

Found at i:2128 original size:171 final size:171

Alignment explanation


    Indices: 1832--2187  Score: 446
    Period size: 171  Copynumber: 2.1  Consensus size: 171

       1822 AAACATTCAT

                                       *     *  *                          * 
       1832 CTTAAAATCAATTACGAGATTATAAAATCATTTTAAGCAAGCAATAAGCCTTTTGAAGGAATGGG
          1 CTTAAAATCAATTACGAGATTATAAAACCATTTAAAACAAGCAATAAGCCTTTTGAAGGAATGAG

                  *                                 *    **                  
       1897 TGACTATAAATGGACTTTTCTTACTAATAAATAATTTTTTCTTCATGTTTCTCAAGGTAGAAATT
         66 TGACTAGAAATGGACTTTTCTTACTAATAAATAATTTTTTATTCACATTTCTCAAGGTAGAAATT

                   ** *         *                    
       1962 CAATTATTTTTTGTTTTAACCAAAAATATGAAAAAAGTTAA
        131 CAATTATAATCTGTTTTAACAAAAAATATGAAAAAAGTTAA

                *   *                             ** * *    *                
       2003 CTTAGAATTAATTACGAGATTATAAAACCATTTAAAACTTGTACTAAGGCTTTTGAAGGAATGAG
          1 CTTAAAATCAATTACGAGATTATAAAACCATTTAAAACAAGCAATAAGCCTTTTGAAGGAATGAG

                                   *     *   **                   *       *  
       2068 TGACTAGAAATGGACTTTTCTT-GTCAATGAATGCTTTTTTATTCACATTTCTCGAGGTAGACAT
         66 TGACTAGAAATGGACTTTTCTTACT-AATAAATAATTTTTTATTCACATTTCTCAAGGTAGAAAT

                                                      *
       2132 TCAATTATAATCTGTTTTAACAAAAAATATGAAAAAA-TTCAG
        130 TCAATTATAATCTGTTTTAACAAAAAATATGAAAAAAGTT-AA

                          
       2174 CTTAAAATCAATTA
          1 CTTAAAATCAATTA

       2188 TAAGANNNNN


Statistics
Matches: 155,  Mismatches: 28, Indels: 4
        0.83            0.15        0.02

Matches are distributed among these distances:
 170    3  0.02
 171  152  0.98

ACGTcount: A:0.39, C:0.12, G:0.13, T:0.37


Consensus pattern (171 bp):   
CTTAAAATCAATTACGAGATTATAAAACCATTTAAAACAAGCAATAAGCCTTTTGAAGGAATGAG
TGACTAGAAATGGACTTTTCTTACTAATAAATAATTTTTTATTCACATTTCTCAAGGTAGAAATT
CAATTATAATCTGTTTTAACAAAAAATATGAAAAAAGTTAA
Done.