Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400825.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3999.0, 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: 1921
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.32

Warning! 199 characters in sequence are not A, C, G, or T


Found at i:300 original size:171 final size:169

Alignment explanation


    Indices: 5--915  Score: 1056
    Period size: 171  Copynumber: 5.3  Consensus size: 169

          1 AGCG

                  * *           *          *                  *  *           
          5 AGTAATGATGCTTTTGAAGGTATGGGTGACTGTAAATGAACTTTTCTTGCTAAGGAATGCTTTTT
          1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCTTTTT

                  *                 *      *                   **            
         70 TCTTCAAGTTTCTCAAGGTAGACATTCAATTAAGTTTGTTTTAACCAAAAACGTACAAAGATTAC
         66 TCTTCATGTTTCTCAAGGTAGACAGTCAATTCAGTTTGTTTTAACCAAAAATATACAAAGATT-C

                                               *     
        135 AAATTTAAATCAATTTTGAGATTATAAAACCATTTGAAGCT
        130 AAATTTAAATCAATTTTGAGATTATAAAACCATTTAAAG-T

                  **            *  *       *                                 
        176 AGTAATGGGGCTTTTGAAGGTATAGGTGACTGTAAATGAACTTTTCTTGCCAATGAATGCTTTTT
          1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCTTTTT

                                  *             *        *                   
        241 TCTTCATGTTTCTCAAGGTAGATAGTCAATTCAGTTGGTTTTAACTAAAAATATACAAAGAATTC
         66 TCTTCATGTTTCTCAAGGTAGACAGTCAATTCAGTTTGTTTTAACCAAAAATATACAAAG-ATTC

                       *  *          *              
        306 AAATTTAAATCTATGTTGAGATTATCAAACCATTTAAAGT
        130 AAATTTAAATCAATTTTGAGATTATAAAACCATTTAAAGT

                                           *     * *                        *
        346 GAGTAATAAGGCTTTTGAAGGAATGGGTGACAATAAAAGGACTTTTCTTGCCAATGAATGCTTTG
          1 -AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCTTTT

                 * *                                      *      *  *    *   
        411 TTCTTAACGTTTCTCAAGGTAGACAGTCAATTCAGTTTGTTTTAACTAAAAATGTATAAATAATT
         65 TTCTTCATGTTTCTCAAGGTAGACAGTCAATTCAGTTTGTTTTAACCAAAAATATACAAA-GATT

                        *                   *        
        476 CAAATTTAAATCTATTTTGAGATTATAAAACCGTTTAAAGT
        129 CAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAAGT

                *                                  *                         
        517 GAGTGATAAGGCTTTTGAAGGAATGGGTGACTATAAATGGACTTTTCTTGCCAATGAATG-TCTT
          1 -AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCT-TT

                  *         **                  *   **      *           *   *
        581 TTTCTTTACT-TTTCTTGAGGTAGACA-TCCAATTATAGTCCGTTTTAGCCAAAAATATAAAAAA
         64 TTTCTTCA-TGTTTCTCAAGGTAGACAGT-CAATT-CAGTTTGTTTTAACCAAAAATATACAAAG

               *  *  *         *              *          *
        644 ATTTAACTTAAAATCAATTATG-GTATTATAAAATCATTTAAAGCG
        126 ATTCAAATTTAAATCAATTTTGAG-ATTATAAAACCATTTAAAG-T

            *     *             ** *                                  *      
        689 GGTAATGAGGCTTTTGAAGGTGTTGGTGACTATAAATGAACTTTTCTTGCCAATGAATTCTTTTT
          1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCTTTTT

                   *          *     *                           *  *         
        754 TCTTCATATTTCTCAAGGCAGACATTCAATTCAGTTTGTTTTAACCAAAAACCATGCAAAGAATT
         66 TCTTCATGTTTCTCAAGGTAGACAGTCAATTCAGTTTGTTTTAACCAAAAA-TATACAAAG-ATT

                                      *              *
        819 CAAATTTAAATCAATTTTGAGATTATCAAACCATTTAAAGAG
        129 CAAATTTAAATCAATTTTGAGATTATAAAACCATTTAAAG-T

                                                   *               
        861 AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAAATGGACTTTTCTTGCCAAT
          1 AGTAATAAGGCTTTTGAAGGAATGGGTGACTAT-AAATGAACTTTTCTTGCCAAT

        916 NNNNNNNNNN


Statistics
Matches: 632,  Mismatches: 92, Indels: 30
        0.84            0.12        0.04

Matches are distributed among these distances:
 170   21  0.03
 171  500  0.79
 172   90  0.14
 173   21  0.03

ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37


Consensus pattern (169 bp):   
AGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATGAACTTTTCTTGCCAATGAATGCTTTTT
TCTTCATGTTTCTCAAGGTAGACAGTCAATTCAGTTTGTTTTAACCAAAAATATACAAAGATTCA
AATTTAAATCAATTTTGAGATTATAAAACCATTTAAAGT

Done.