Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400027.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_325.0, 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: 2162
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.19

Warning! 1033 characters in sequence are not A, C, G, or T


Found at i:1520 original size:171 final size:171

Alignment explanation


    Indices: 1228--1637  Score: 581
    Period size: 171  Copynumber: 2.4  Consensus size: 171

       1218 NNNNNNTTTA

                                                                   *         
       1228 CTAAGGAAAACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAAGTTAAAATCA
          1 CTAAGGAAAACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCA

                *            * *      *                 *  *                 
       1293 ATTTTAAAGCTATAAAATCGTTTAAAGAGAGTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAA
         66 ATTTGAAAGCTATAAAACCATTTAAAAAGAGTAATAAGGCTTTTAAAAGCTTGGGTGACTATAAA

              *                            *          
       1358 TGGGCTTTTCTCATCAA-CGAATGGGTTTTTGTTCATGTTTC
        131 TGAGCTTTTCTCATCAATC-AATGGGTTTTTCTTCATGTTTC

                  *                   *                *       *  *        * 
       1399 CTAAGGCAAACATTCAATTATAATCTTTTTTAACAAAAAATATGAAAAAATCCATCTTAAAATAA
          1 CTAAGGAAAACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCA

                   *  *                                                      
       1464 ATTTCGAGA-TTATAAAACCATTTAAAAAGAGTAATAAGGCTTTTAAAAGCTTGGGTGACTATAA
         66 ATTT-GAAAGCTATAAAACCATTTAAAAAGAGTAATAAGGCTTTTAAAAGCTTGGGTGACTATAA

                        **                            
       1528 ATGAGCTTTTCTTGTCAATCAATGGGTTTTTCTTCATGTTTC
        130 ATGAGCTTTTCTCATCAATCAATGGGTTTTTCTTCATGTTTC

             *                                *      * *                     
       1570 CCAAGGAAAACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAAAATTCAACTTAAAATCA
          1 CTAAGGAAAACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCA

               
       1635 ATT
         66 ATT

       1638 ATAAGGTAAT


Statistics
Matches: 209,  Mismatches: 28, Indels: 4
        0.87            0.12        0.02

Matches are distributed among these distances:
 171  206  0.99
 172    3  0.01

ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34


Consensus pattern (171 bp):   
CTAAGGAAAACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAAATTCAACTTAAAATCA
ATTTGAAAGCTATAAAACCATTTAAAAAGAGTAATAAGGCTTTTAAAAGCTTGGGTGACTATAAA
TGAGCTTTTCTCATCAATCAATGGGTTTTTCTTCATGTTTC

Found at i:1730 original size:149 final size:149

Alignment explanation


    Indices: 1494--1798  Score: 475
    Period size: 149  Copynumber: 2.0  Consensus size: 149

       1484 TTTAAAAAGA

                                                                      *      
       1494 GTAATAAGGCTTTTAAAAGCTTGGGTGACTATAAATGAGCTTTTCTTGTCAATCAATGGGTTTTT
          1 GTAATAAGGCTTTTAAAAGCTTGGGTGACTATAAATGAGCTTTTCTTGTCAATCAATGAGTTTTT

                                                                * *          
       1559 CTTCATGTTTCCCAAGGAAAACATTCAATTATAATCTGTTTTAACCAAAAATGTTAAAAAATTCA
         66 CTTCATGTTTCCCAAGGAAAACATTCAATTATAATCTGTTTTAACCAAAAATATGAAAAAATTCA

                               
       1624 ACTTAAAATCAATTATAAG
        131 ACTTAAAATCAATTATAAG

                          *  *                   *               *           
       1643 GTAATAAGGCTTTTGAAGGCTTGGGTGACTATAAATGGGCTTTTCTTGTCAATGAATGAGTTTTT
          1 GTAATAAGGCTTTTAAAAGCTTGGGTGACTATAAATGAGCTTTTCTTGTCAATCAATGAGTTTTT

                  *   *      *            *              *    *              
       1708 CTTCATTTTTTCCAAGGTAAACATTCAATTTTAATCTGTTTTAACTAAAACTATGAAAAAATTCA
         66 CTTCATGTTTCCCAAGGAAAACATTCAATTATAATCTGTTTTAACCAAAAATATGAAAAAATTCA

                            *  
       1773 ACTTAAAATCAATTATTAG
        131 ACTTAAAATCAATTATAAG

            *      
       1792 ATAATAA
          1 GTAATAA

       1799 AANNNNNNNN


Statistics
Matches: 141,  Mismatches: 15, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
 149  141  1.00

ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38


Consensus pattern (149 bp):   
GTAATAAGGCTTTTAAAAGCTTGGGTGACTATAAATGAGCTTTTCTTGTCAATCAATGAGTTTTT
CTTCATGTTTCCCAAGGAAAACATTCAATTATAATCTGTTTTAACCAAAAATATGAAAAAATTCA
ACTTAAAATCAATTATAAG
Done.