Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402814.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_587.0, 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: 4412
ACGTcount: A:0.18, C:0.07, G:0.06, T:0.19

Warning! 2210 characters in sequence are not A, C, G, or T


Found at i:863 original size:170 final size:168

Alignment explanation


    Indices: 491--1173  Score: 623
    Period size: 170  Copynumber: 4.0  Consensus size: 168

        481 NNNNNNNNNN

                            * *                   **                         
        491 TAAATGGTTTTATAATATCATAATTGATTTTAAGTTGAGTTTTTTTACATTTTTTATTAAAACA-
          1 TAAATGGTTTTATAATCTAATAATTGATTTTAAGTTGAAATTTTTTACATTTTTTATTAAAACAG

                      *            **     *                                  
        555 AGCTATAATTCAATGTCTGCCTCAAGAAACATGAAGAAAAACA-CATTCATTGGTAAGAAAAGTC
         66 A-CTATAATTGAATGTCTG--TCTTGAAACGTGAAGAAAAA-AGCATTCATTGGTAAGAAAAGTC

            *        * * *                        *    
        619 CATTTATAGTCACCCATTCCTTCAAAAGTCTTATTACTCGCTT
        127 TATTTATAGCCTCTCATTCCTTC-AAAGTCTTATTACTTGCTT

                **  *        *     *                    * *       *          
        662 TAAAAAG-CTTATAATCGAATAAGTGATTTTAAGTTGAAATTTTATCCATTTTTCATTAAAACAG
          1 TAAATGGTTTTATAATCTAATAATTGATTTTAAGTTGAAATTTTTTACATTTTTTATTAAAACAG

                        *                                 *    *             
        726 ACTATAATTGAACGTCTGTCTTGACAGACGTGAA-AAAAAAGCATTTATTGATAAGAAAAGTCTA
         66 ACTATAATTGAATGTCTGTCTTGA-A-ACGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCTA

                  *             *     *   *          
        790 TTTATAACCTCTCATTCCTTTAATAGCCTTTTTACTTG-TT
        129 TTTATAGCCTCTCATTCCTTCAA-AGTCTTATTACTTGCTT

                       *       *      *                      *           *   
        830 CTAAATGGTTTCATAATCTCATAATTAATTTTAAGTT-AAATTTTTTTATATTTTTTATTAGAAC
          1 -TAAATGGTTTTATAATCTAATAATTGATTTTAAGTTGAAA-TTTTTTACATTTTTTATTAAAAC

                            *  *  *      *                       *       *   
        894 AGACTATAATTGAATGGCTATAATTGAAAAGTGAAGAAAAAAGCATTCATTGGCAAGAAAATTCT
         64 AGACTATAATTGAATGTCTGT-CTTGAAACGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCT

                *                                      
        959 ATTTGTAGCCT-TCCATTCCTTCAAAGGTCTTATTACTTGCTT
        128 ATTTATAGCCTCT-CATTCCTTCAAA-GTCTTATTACTTGCTT

                                             *     *                         
       1001 TAAATGGTTTTATAATCTAATAATTGATTTTAACTTGAATTTTTTTACATTTTTGT-TTAAAACA
          1 TAAATGGTTTTATAATCTAATAATTGATTTTAAGTTGAAATTTTTTACATTTTT-TATTAAAACA

               *          * * *     *    *       *     *                     
       1065 GACAATAATTGAATTTTTATCTCGAGAAATGTGAAGACAAAAGTATTCATTGGGT-AGAAAAGTC
         65 GACTATAATTGAATGTCTGTCT--TGAAACGTGAAGAAAAAAGCATTCATT-GGTAAGAAAAGTC

            *    *                        *         *    
       1129 CATTTCTAGTCAC-CT-ATTCCTTCAAAAGCCTTATTACTCGCTT
        127 TATTTATAG-C-CTCTCATTCCTTC-AAAGTCTTATTACTTGCTT

              
       1172 TA
          1 TA

       1174 NNNNNNNNNN


Statistics
Matches: 413,  Mismatches: 77, Indels: 44
        0.77            0.14        0.08

Matches are distributed among these distances:
 168    9  0.02
 169   70  0.17
 170  249  0.60
 171   77  0.19
 172    6  0.01
 173    2  0.00

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


Consensus pattern (168 bp):   
TAAATGGTTTTATAATCTAATAATTGATTTTAAGTTGAAATTTTTTACATTTTTTATTAAAACAG
ACTATAATTGAATGTCTGTCTTGAAACGTGAAGAAAAAAGCATTCATTGGTAAGAAAAGTCTATT
TATAGCCTCTCATTCCTTCAAAGTCTTATTACTTGCTT
Done.