Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397639.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3914.0, 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: 3174
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.26

Warning! 892 characters in sequence are not A, C, G, or T


Found at i:803 original size:22 final size:22

Alignment explanation


    Indices: 778--830  Score: 63
    Period size: 22  Copynumber: 2.5  Consensus size: 22

        768 AAATATAAAA

                      *           
        778 CCATTTGAAGTGCGTAATAAGG
          1 CCATTTGAAGCGCGTAATAAGG

                  *     *         
        800 CCATTTAAAGCGTGTAATAAGG
          1 CCATTTGAAGCGCGTAATAAGG

              *       
        822 -CTTTTGAAG
          1 CCATTTGAAG

        831 GAATGGGTGA


Statistics
Matches: 26,  Mismatches: 5, Indels: 1
        0.81            0.16        0.03

Matches are distributed among these distances:
  21    7  0.27
  22   19  0.73

ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30


Consensus pattern (22 bp):   
CCATTTGAAGCGCGTAATAAGG

Found at i:1461 original size:341 final size:333

Alignment explanation


    Indices: 877--1536  Score: 693
    Period size: 341  Copynumber: 2.0  Consensus size: 333

        867 NNNNNNNNNN

                       *  *     *                 *      **        **        
        877 TCTTCATGTTTTTTGAAGTTGACATTCAATTATAATCTTTTTTAATGAAAAATGCGTAAAGAATT
          1 TCTTCATGTTTCTTAAAGTTCACATTCAATTATAATCTGTTTTAACCAAAAATGCACAAAGAATT

                                                          **                 
        942 CAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTATTAAGGCTTTTGAAGGAAT
         66 CAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAAAAAGGCTTTTGAAGGAAT

                                                                         *   
       1007 GGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTTACGTTTCTCAAGATTGAC
        131 GGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTTACGTTTCTCAAGATAGAC

                        *                            *                       
       1072 AGTCAATTATAGTCTGTTTAAAAATATATATAAAAAACTTCTACTTAAAATCAATTATGCCATTA
        196 AGTCAATTATAGCCTGTTTAAAAATATATATAAAAAACTTCAACTTAAAATCAATTATGCCATTA

                      *             *                                        
       1137 TAAAA-CTATTTAAAACGAGTAATGAGGC-TTTTAAACGAATGGGTGACTATAAATGGANNNNNN
        261 TAAAATC-ATGTAAAACGAGTAATAAGGCTTTTTAAACGAATGGGTGACTATAAATGGA------

                               
       1200 NNNNCAATGTATGCCTTTT
        319 ----CAATGTATGCCTTTT

                                                                  *          
       1219 TCTTCATGTTTCTTAAAGTTCACATTCAATTATAATCTGTTTTAACCAAAAATGTACAAAGAATT
          1 TCTTCATGTTTCTTAAAGTTCACATTCAATTATAATCTGTTTTAACCAAAAATGCACAAAGAATT

                                     *     *                    **********   
       1284 CAAA-TTAAATCAATTTTGAGATTATAAAACTATTTAAAGTGAGTAAAAAGGNNNNNNNNNNAAT
         66 CAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAAAAAGGCTTTTGAAGGAAT

              *              *             *   *                        *   *
       1348 GGTTGACTATAAATGGATTTTTCTTGCCAATTAATGCCTTTTT-TATTACGTTTCTCAAGGTAGC
        131 GGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCT-TTACGTTTCTCAAGATAGA

                     *           *  *  *********                       *     
       1412 CA-TCAATTCTAGCCTGTTT-TAACTNNNNNNNNNNAAACGTTCAACTTAAAATCAATTCTGCCA
        195 CAGTCAATTATAGCCTGTTTAAAAAT-ATATATAAAAAAC-TTCAACTTAAAATCAATTATGCCA

                             *                     * *       *            
       1475 TTATAAAATCATGTAAAGCGAGTAATAAGGCTTTTTAAAGGTATGGGTGGCTATAAATGGAC
        258 TTATAAAATCATGTAAAACGAGTAATAAGGCTTTTTAAACGAATGGGTGACTATAAATGGAC

       1537 TNNNNNNNNN


Statistics
Matches: 262,  Mismatches: 51, Indels: 20
        0.79            0.15        0.06

Matches are distributed among these distances:
 332    1  0.00
 339    3  0.01
 340   20  0.08
 341  151  0.58
 342   87  0.33

ACGTcount: A:0.35, C:0.12, G:0.13, T:0.35


Consensus pattern (333 bp):   
TCTTCATGTTTCTTAAAGTTCACATTCAATTATAATCTGTTTTAACCAAAAATGCACAAAGAATT
CAAATTTAAATCAATTTTGAGATTACAAAACCATTTAAAGTGAGTAAAAAGGCTTTTGAAGGAAT
GGGTGACTATAAATGGACTTTTCTTGCCAATGAATACCTTTTTCTTTACGTTTCTCAAGATAGAC
AGTCAATTATAGCCTGTTTAAAAATATATATAAAAAACTTCAACTTAAAATCAATTATGCCATTA
TAAAATCATGTAAAACGAGTAATAAGGCTTTTTAAACGAATGGGTGACTATAAATGGACAATGTA
TGCCTTTT

Found at i:3050 original size:22 final size:22

Alignment explanation


    Indices: 3022--3064  Score: 68
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       3012 TCCTTGAAAA

                            *     
       3022 GCCTTATTACACACTTTAAATG
          1 GCCTTATTACACACTTCAAATG

                      *          
       3044 GCCTTATTACGCACTTCAAAT
          1 GCCTTATTACACACTTCAAAT

       3065 AGTTTTATAT


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  22   19  1.00

ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35


Consensus pattern (22 bp):   
GCCTTATTACACACTTCAAATG
Done.