Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397537.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_1373.0, 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: 9429
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.24

Warning! 3638 characters in sequence are not A, C, G, or T


Found at i:3822 original size:171 final size:171

Alignment explanation


    Indices: 3247--4015  Score: 416
    Period size: 171  Copynumber: 4.5  Consensus size: 171

       3237 NNNNNNNNNN

                            *                   *           *    *      *    
       3247 TTACTCGCTT-TAAATCGTTTTATAATCTCATAATTTATTTTATA--TTAATTTTTTTTACATTT
          1 TTACTCG-TTCTAAATAGTTTTATAATCTCATAATTGATTTTA-AGCTCAA-TGTTTTTATATTT

                        *    *       *    *   ** *            **            *
       3309 TT--TTAAAACAGACAAAAATTGAATGTCTGCCTTGATAAACATAAAGAATTAAGCATTCATTGA
         63 TTCATTAAAACAAACAATAATTGAAAGTCTACCTCAAGAAACATAAAGAAAAAAGCATTCATTGG

            *         *             ***          *  *   *
       3372 TAAGAAAAGTTCATTTATAG-CATTTTATTCCTTCAATAGCCTTT
        128 CAAGAAAAGTCCATTTATAGCCA-CCCATTCCTTCAAAAGACTTA

              *                        **********                     **     
       3416 TTGCTCGTTCTAAAT-GATTTTATAATNNNNNNNNNNATTTTAAGCTCAAT-TTGTTTGCATTTT
          1 TTACTCGTTCTAAATAG-TTTTATAATCTCATAATTGATTTTAAGCTCAATGTT-TTTATATTTT

                       *  * *       *    *   **   *    *           *         
       3479 TCATTAAAACAGACTAGAATTGAATGTCTTCCTTGAGATACATTAAGAAAAAAGCTTTCATTGGC
         64 TCATTAAAACAAACAATAATTGAAAGTCTACCTCAAGAAACATAAAGAAAAAAGCATTCATTGGC

                    *             ***         *    *    
       3544 AAGAAAA-ACCTATTTATAGCCTTTCATTCCTTCGAAAGCCTTA
        129 AAGAAAAGTCC-ATTTATAGCCACCCATTCCTTCAAAAGACTTA

              *  *          * *          *      *     **********      *      
       3587 TTTCTTGCTT-TAAATGGCTTTATAATCTAATAATTAATTTTNNNNNNNNNNTTTTTACATTTTT
          1 TTACTCG-TTCTAAATAGTTTTATAATCTCATAATTGATTTTAAGCTCAATGTTTTTATATTTTT

                                        *  *            *    *               
       3651 CATTAAAACAAACAAT-ATAT-AAATGTTTATCTCAAGAAACATGAAGACAAAAGCATTCATTGG
         65 CATTAAAACAAACAATAAT-TGAAA-GTCTACCTCAAGAAACATAAAGAAAAAAGCATTCATTGG

                              * *                  *    
       3714 CAAGAAAAGTCCATTTATGGTCACCCATTCCTTCAAAAGCCTTA
        128 CAAGAAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGACTTA

                                                          * *                
       3758 TTACTCGCTT-TAAAT-GATTTTATAATCTCATAATTGATTTTAAGTTTAAT-TTCTTTATATTT
          1 TTACTCG-TTCTAAATAG-TTTTATAATCTCATAATTGATTTTAAGCTCAATGTT-TTTATATTT

                        *  *              *   *     **                       
       3820 TTCATTAAAACAGACTATAATTGAAAGTCTGCCTTAAGAAGTATAAAGAAAAAAGCATTCATTGG
         63 TTCATTAAAACAAACAATAATTGAAAGTCTACCTCAAGAAACATAAAGAAAAAAGCATTCATTGG

               **********         *             *      *
       3885 CAANNNNNNNNNNTTTATAGCCTCCCATTCCTTCAACAGACTTT
        128 CAAGAAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGACTTA

                 *                                                           
       3929 TTACTTGTTCTAAATAGTTTTATAATCTCATAATTGATTTTAAGCTCAATGTTTTTATATTTTTC
          1 TTACTCGTTCTAAATAGTTTTATAATCTCATAATTGATTTTAAGCTCAATGTTTTTATATTTTTC

                     *  *         
       3994 ATTAAAACAGACTATAATTGAA
         66 ATTAAAACAAACAATAATTGAA

       4016 TGTTTTCNNN


Statistics
Matches: 460,  Mismatches: 118, Indels: 42
        0.74            0.19        0.07

Matches are distributed among these distances:
 168    6  0.01
 169   37  0.08
 170   13  0.03
 171  388  0.84
 172   16  0.03

ACGTcount: A:0.34, C:0.14, G:0.09, T:0.39


Consensus pattern (171 bp):   
TTACTCGTTCTAAATAGTTTTATAATCTCATAATTGATTTTAAGCTCAATGTTTTTATATTTTTC
ATTAAAACAAACAATAATTGAAAGTCTACCTCAAGAAACATAAAGAAAAAAGCATTCATTGGCAA
GAAAAGTCCATTTATAGCCACCCATTCCTTCAAAAGACTTA
Done.