Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018398861.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2143.0, 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, 827

Length: 1379
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.30

Warning! 204 characters in sequence are not A, C, G, or T


Found at i:1311 original size:170 final size:170

Alignment explanation


    Indices: 354--1367  Score: 1061
    Period size: 171  Copynumber: 6.0  Consensus size: 170

        344 TTTTGAGATA

                              *       *        *        *  *       **        
        354 AACATTCAATTATAGTCTATTTTAACTAAAAATGTAAAAAAATTTAAATTAAAATTGATTATGAG
          1 AACATTCAATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAG

                    *          * *   *          *              *             
        419 ATTATAAAGCAATTTAAAGAGTGTAGTAAGGC-TTTGAAGGAAT-AG-TGAATATAAATGGACTT
         66 ATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGAT-ACTATAAATGGACTT

                 *    *      *       *  ***           
        481 TTCTTCCCAAAGAATGCCTTTTTCTACACAATTCTCGAGAG-
        130 TTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGAG-GT

                                     **      *                               
        522 AACATTCAATTATAGTCTGTTTTAATGAAAAATAT-ACAAAAATTCAACTTAAAATCAATTATGA
          1 AACATTCAATTATAGTCTGTTTTAACCAAAAATGTGA-AAAAATTCAACTTAAAATCAATTATGA

                      *    *      *               *   *      *               
        586 GATTATAGAATC-ATGTAAAGCAAGTAATAAGGCTTTTGAAGAAAT-AGGTGACTATAAATGGAC
         65 GATTATA-AAACAATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGAT-ACTATAAATGGAC

                               *         * *     *      *
        649 TTTTCTT-CTCAATGAATGGTTTTTTC-TAACG-TTCCCGAGGCA
        128 TTTTCTTGC-CAATGAATGCTTTTTTCTTCATGTTTCTCGAGG-T

                                                      *    *                 
        691 AACATTCAATTATAGTCT-TATTTAACCAAAAATGTGAAAAAGTTCAGCGTT-AAATCAATTATG
          1 AACATTCAATTATAGTCTGT-TTTAACCAAAAATGTGAAAAAATTCAAC-TTAAAATCAATTATG

                                  *              *            *         *    
        754 AGATTATAAAACAATTTAAAGCAAGTAATAAGGCTTTAAAAGGAATAAGAGACTATAAATTGACT
         64 AGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGATACTATAAATGGACT

                  * *         *                   *    
        819 TTTCTTACAAATGAATGCCTTTTTCTTCACT-TTTCTCAAGGT
        129 TTTCTTGCCAATGAATGCTTTTTTCTTCA-TGTTTCTCGAGGT

               **                 **                                    *    
        861 AGATGTTCAATTATAGTCTGTTGAAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATAATGA
          1 A-ACATTCAATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGA

                      *                                      * *             
        926 GATTATAAAATAATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGAGAGTATAAATGGACTT
         65 GATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGATACTATAAATGGACTT

                               *   *         * *  *  
        991 TTCTTGCCAATGAATGCTTGTTTATTCATGTTTTTTGATGT
        130 TTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGAGGT

                     *  **                   *                *        *   * 
       1032 AAACATTCATTTGCAGTCTGTTTTAACCAAAAAAGTGAAAAAATTCAACTCAAAATCAACTATTA
          1 -AACATTCAATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGA

                                             *            *      *           
       1097 GATTATAAAACAATTTAAAGCGAGTAATAAGGCCTTTAAAGGAATATGATACTCTAAATGGACTT
         65 GATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGATACTATAAATGGACTT

                   *                           *     
       1162 TTCTTGCGAATGAATGCTTTTTTCTTCATGTTTCTTGAGGT
        130 TTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGAGGT

                                                          *                  
       1203 AACATTCAATTATCA-TCTGTTTTAACCAAAAATGT-AAGAAAATTAAACTTAAAATCAATTATG
          1 AACATTCAATTAT-AGTCTGTTTTAACCAAAAATGTGAA-AAAATTCAACTTAAAATCAATTATG

                  *     *        *                *        * *   *      *    
       1266 AGATTACAAAACCATTTAAAGTGAGTAATAAGGCTTTTTAAGGAAT-GGGTAATTATAAACGGAC
         64 AGATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGAT-ACTATAAATGGAC

                    *            *                
       1330 TTTTCTTGTCAATGAATGCTTGTTTCTTCATGTTTCTC
        128 TTTTCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTC

       1368 AAGCTAGACA


Statistics
Matches: 712,  Mismatches: 110, Indels: 46
        0.82            0.13        0.05

Matches are distributed among these distances:
 167    2  0.00
 168   88  0.12
 169  143  0.20
 170  182  0.26
 171  295  0.41
 172    2  0.00

ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35


Consensus pattern (170 bp):   
AACATTCAATTATAGTCTGTTTTAACCAAAAATGTGAAAAAATTCAACTTAAAATCAATTATGAG
ATTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTAAAGGAATAAGATACTATAAATGGACTTT
TCTTGCCAATGAATGCTTTTTTCTTCATGTTTCTCGAGGT
Done.