Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018403310.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_982.0, 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: 1889
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.25

Warning! 559 characters in sequence are not A, C, G, or T


Found at i:947 original size:171 final size:168

Alignment explanation


    Indices: 532--1049  Score: 506
    Period size: 172  Copynumber: 3.0  Consensus size: 168

        522 NNNNNNNNNC

                                         *                         *        *
        532 ATTTAAAGTGAGTAATAAGGCTTTTGAAGTAATGGATGGCTATAAATAGACCTTTCTTGTCAATT
          1 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGG-TGGCTATAAATAGACCTTTTTTGTCAATG

               *                    *                      * *   *          *
        597 AATGCCTTTTTCTCTACA-TTTCTTG-AGGTAGACATTCAATTATAAACTATTTTAACAAAAAAT
         65 AATACCTTTTTCT-T-CAGTTTC-CGAAGGTAGACATTCAATTATAATCAATTCTAACAAAAAAC

                         **  *         *   *            *
        660 GTAAAAAAAATTGGGA-TTAAAATCAAATTTAAGATTATAAAACC
        127 GT--AAAAAATT-CAACCTAAAATCAATTTTGAGATTATAAAACT

                *    *        *      *            *           *         *    
        704 ATTTCAAGTAAGTAATAATGCTTTTTAAGGAATTGGTGACTATAAAT-GAACTTTTCTTGCCAAT
          1 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAA-TGGTGGCTATAAATAGACCTTTT-TTGTCAAT

                                        *                                  * 
        768 GAATACCTTTTTCTTCATGTTTCCGAAGATAGACATTCAATTATAATCAATTCTAACAAAAAAGG
         64 GAATACCTTTTTCTTCA-GTTTCCGAAGGTAGACATTCAATTATAATCAATTCTAACAAAAAACG

              *    *                        *         
        833 TCCAAAAGTTCAACCTAAAATCAATTTTGAGACTATAAAACT
        128 T-AAAAAATTCAACCTAAAATCAATTTTGAGATTATAAAACT

                        *        *     *                              *  *   
        875 ATTTAAAGTGAGCAATAAGGCCTTTGAGGGAATGGCTGGCTATAAATAGACCTTTTTTATCGATG
          1 ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGG-TGGCTATAAATAGACCTTTTTTGTCAATG

                                   * *  * *                **    *  *        
        940 AATACC-TTTTCTTCACGTTTCCCACGGCAAACATTCAATTATAATCCGTTCTTACTAAAAACGT
         65 AATACCTTTTTCTTCA-GTTTCCGAAGGTAGACATTCAATTATAATCAATTCTAACAAAAAACGT

                                     *               
       1004 AAAACAATTCAACCTAAAATCAATTATGAGATTATAAAACT
        129 AAAA-AATTCAACCTAAAATCAATTTTGAGATTATAAAACT

                 
       1045 ATTTA
          1 ATTTA

       1050 NNNNNNNNNN


Statistics
Matches: 283,  Mismatches: 54, Indels: 20
        0.79            0.15        0.06

Matches are distributed among these distances:
 169    3  0.01
 170   91  0.32
 171   84  0.30
 172  102  0.36
 173    3  0.01

ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34


Consensus pattern (168 bp):   
ATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGGTGGCTATAAATAGACCTTTTTTGTCAATGA
ATACCTTTTTCTTCAGTTTCCGAAGGTAGACATTCAATTATAATCAATTCTAACAAAAAACGTAA
AAAATTCAACCTAAAATCAATTTTGAGATTATAAAACT

Found at i:1023 original size:170 final size:171

Alignment explanation


    Indices: 628--1049  Score: 422
    Period size: 170  Copynumber: 2.5  Consensus size: 171

        618 CTTGAGGTAG

                          * *   *          *   *         **  *         *   * 
        628 ACATTCAATTATAAACTATTTTAACAAAAAATGTAAAAAAAATTGGGA-TTAAAATCAAATTTAA
          1 ACATTCAATTATAATCAATTCTAACAAAAAACGT-CAAAAAATT-CAACCTAAAATCAATTTTGA

                       *    *       *     *  *   *                           
        692 GATTATAAAACCATTTCAAGTAAGTAATAATGCTTTTTAAGGAATTGGTGACTATAAATGAACTT
         64 GATTATAAAACTATTTAAAGTAAGCAATAAGGCCTTTGAAGGAATTGGTGACTATAAATGAACTT

                 *                      *      *    * *
        757 TTCTTGCCAATGAATACCTTTTTCTTCATGTTTCCGAAGATAG
        129 TTCTTACCAATGAATACCTTTTTCTTCACGTTTCCCAAGACAA

                                           *   *    *                        
        800 ACATTCAATTATAATCAATTCTAACAAAAAAGGTCCAAAAGTTCAACCTAAAATCAATTTTGAGA
          1 ACATTCAATTATAATCAATTCTAACAAAAAACGTCAAAAAATTCAACCTAAAATCAATTTTGAGA

            *                  *                 *           *           *   
        865 CTATAAAACTATTTAAAGTGAGCAATAAGGCCTTTGAGGGAA-TGGCTGGCTATAAATAGACCTT
         66 TTATAAAACTATTTAAAGTAAGCAATAAGGCCTTTGAAGGAATTGG-TGACTATAAAT-GAACTT

                  * *                            * *   
        929 TT-TTATCGATGAATACC-TTTTCTTCACGTTTCCCACGGCAA
        129 TTCTTACCAATGAATACCTTTTTCTTCACGTTTCCCAAGACAA

                            **    *  *                                  *    
        970 ACATTCAATTATAATCCGTTCTTACTAAAAACGT-AAAACAATTCAACCTAAAATCAATTATGAG
          1 ACATTCAATTATAATCAATTCTAACAAAAAACGTCAAAA-AATTCAACCTAAAATCAATTTTGAG

                            
       1034 ATTATAAAACTATTTA
         65 ATTATAAAACTATTTA

       1050 NNNNNNNNNN


Statistics
Matches: 205,  Mismatches: 41, Indels: 10
        0.80            0.16        0.04

Matches are distributed among these distances:
 169    3  0.01
 170   89  0.43
 171   76  0.37
 172   37  0.18

ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33


Consensus pattern (171 bp):   
ACATTCAATTATAATCAATTCTAACAAAAAACGTCAAAAAATTCAACCTAAAATCAATTTTGAGA
TTATAAAACTATTTAAAGTAAGCAATAAGGCCTTTGAAGGAATTGGTGACTATAAATGAACTTTT
CTTACCAATGAATACCTTTTTCTTCACGTTTCCCAAGACAA
Done.