Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018399105.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2381.0, 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, 733

Length: 1222
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35


Found at i:308 original size:172 final size:170

Alignment explanation


    Indices: 1--1213  Score: 1212
    Period size: 172  Copynumber: 7.1  Consensus size: 170

                                                *                 *  *    *  
          1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCATTTGAAGGAATGGGTGAATACAAATGGA
          1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGA

                     *                            *      *  *   *           *
         66 CTTTTCTTGTCAATGAATGCCTTTTTCTTCATGTTTC-AGTAGGTTGATATTTAATTATAATCTA
         66 CTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTG-AGGTAGACATTCAATTATAATCTG

                                                 *    *
        130 TTTTAACCAAAAATGTTAAAAAACTTGAACTTAAAATAAATTT
        130 TTTTAACCAAAAATG-TAAAAAA-TTGAACTTAAAATCAATTA

                    *                                   *                    
        173 TGAGATTACAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGAAATGGGTGACTATAAATAGA
          1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGA

                      **        *     *                        **   *  *     
        238 CTTTTCTTGCTGATGAATGCTTTTTTTTTCATGTTTCTTGAGGTAGACATTTGATTGTAGTCTGT
         66 CTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAATCTGT

                  *       *        *                
        303 TTTAACTAAAAATGGAAAAAATTTAACTTAAAATCAATTA
        131 TTTAACCAAAAATGTAAAAAATTGAACTTAAAATCAATTA

                   *      *           *                          *           
        343 TGAGATTGTAAAACGATTTAAAGCGATTAATAAGGCTTTTGAAGGAATGAGG-AACTATAAATAG
          1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATG-GGTGACTATAAATAG

                            *   * *       *  *        * *                    
        407 ACTTTTCTT-CCAAATAAATTCGTTTTTCTACACGTTT-TCTAATGTAGACATTCAATTATAATC
         65 ACTTTTCTTGCC-AATGAATGCCTTTTTCTTCATGTTTCT-TGAGGTAGACATTCAATTATAATC

             *     *                          *       *
        470 TATTTTAGCC--AAA---AAAAAATTGAACTTAATATCAATTG
        128 TGTTTTAACCAAAAATGTAAAAAATTGAACTTAAAATCAATTA

                                   *                 *       *               
        508 TGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGGAGGAATGTGTGACTATAAATAGA
          1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGA

                                    *   *        *    *    *  * *         *  
        573 CTTTTCTTGCCAATGAATGCCTTTCTCTACATGTTTTGTTGATGTAGGCACTAAATTATAATTTG
         66 CTTTTCTTGCCAATGAATGCCTTTTTCTTCATG-TTTCTTGAGGTAGACATTCAATTATAATCTG

             *    **      *        *               *  
        638 TGTTAAGTAAAAATATAAAAAAAATGAACTTAAAATCAACTA
        130 TTTTAACCAAAAATGT-AAAAAATTGAACTTAAAATCAATTA

                   *              *       *                 **               
        680 TGAGATTGTAAAACCATTTAAATCGAGTAAAAAGGCTTTTGAAGGAATTAGTGACTATAAA-AGG
          1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATA-G

                      *    *     *                        *   *          *   
        744 ACTTTTCTTGTCAATAAAT--ATTTTT-TTCATGTTT-TTCGAGGTTGACTTTCAATTATACTCT
         65 ACTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTT-GAGGTAGACATTCAATTATAATCT

                    *                *  *               
        805 GTTTTAACAAAAAATGTAAAAACAACTGCACTTAAAATCAATTA
        129 GTTTTAACCAAAAATGT-AAAA-AATTGAACTTAAAATCAATTA

                 *                 *  *            *        **      *     *  
        849 TGAGAATATAAAACCATTTAAAGTGAATAATAAGGCTTTGGAAGGAATACGTGACTCTAAATGGA
          1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGA

                    *          *     *  *        ***     *             *     
        914 CTTTTCTTTCCAATGAATGGCTTTTCCTGCATGTTTCACAAGGTAAACATTCAATTATAGTCTGT
         66 CTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAATCTGT

                 **           *    *  *       *     
        979 TTTAATGAAAAATGTAAACAATTCAAGTTAAAATGAATTA
        131 TTTAACCAAAAATGTAAAAAATTGAACTTAAAATCAATTA

                         *          *                  *      ***         *  
       1019 TGAGATTATAAAAGCATTTAAAGCAAGTAATAAGGCTTTTGAAAGAATGGACAACTATAAATGGA
          1 TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGA

                 *           *                    *                        * 
       1084 CTTTTTTTGCCAATGAAAGCCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATAATCTAT
         66 CTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAATCTGT

            *            *             *             *
       1149 CTTAACCAAAAATCTAAAAAAAATTGACCTTAAAATCAATTT
        131 TTTAACCAAAAATGT--AAAAAATTGAACTTAAAATCAATTA

               *                   
       1191 TGATATTATAAAACCATTTAAAG
          1 TGAGATTATAAAACCATTTAAAG

       1214 TAAGCAATA


Statistics
Matches: 847,  Mismatches: 170, Indels: 48
        0.80            0.16        0.05

Matches are distributed among these distances:
 164    1  0.00
 165  103  0.12
 166   29  0.03
 167    3  0.00
 168   43  0.05
 169   93  0.11
 170  260  0.31
 171   16  0.02
 172  298  0.35
 173    1  0.00

ACGTcount: A:0.38, C:0.12, G:0.15, T:0.36


Consensus pattern (170 bp):   
TGAGATTATAAAACCATTTAAAGCGAGTAATAAGGCTTTTGAAGGAATGGGTGACTATAAATAGA
CTTTTCTTGCCAATGAATGCCTTTTTCTTCATGTTTCTTGAGGTAGACATTCAATTATAATCTGT
TTTAACCAAAAATGTAAAAAATTGAACTTAAAATCAATTA

Done.