Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400109.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3327.0, 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: 5281
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.23

Warning! 1933 characters in sequence are not A, C, G, or T


Found at i:5035 original size:340 final size:325

Alignment explanation


    Indices: 4492--5133  Score: 639
    Period size: 340  Copynumber: 1.9  Consensus size: 325

       4482 GGGTGACTAT

                            *                                *               
       4492 AAATGGACTTTTCTCGTCAATGAATGCCTTTTTTTTCATGTTTCTGGAGGTAAATATTCAATTAT
          1 AAATGGACTTTTCTCGCCAATGAATGCCTTTTTTTTCATGTTTCTGGAGCTAAATATTCAATTAT

               *       *        * *                                     *    
       4557 TGTCTGTTTTATCTAAAAATGTTAAAAATTCAACTTAAAATCAATTATGAAATTATAAAATAATT
         66 TGTATGTTTTAACTAAAAATATAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACAATT

                           **                            *          *********
       4622 TAAAGCGAATAATAAGGCTTTTGAAGGAACAGGTGACCATAAATGGACTTTTCTTCNNNNNNNNN
        131 TAAAGCGAATAATAAAACTTTTGAAGGAACAGGTGACCATAAATGAACTTTTCTTCTCAATCAAA

            *            *               *                *                  
       4687 NGCTTTTTTTGCATG-TTTCTCTAAGAAGGCATTCAATTATAGTCTGTTTGAACC-AAAATTTCA
        196 AGCTTTTTTTGCACGTTTTCTC-AAGAAGACATTCAATTATAGTCTCTTTGAACCAAAAATTT-A

                               *                                             
       4750 AAAAAAAAAAACTTAAAATTAATTTTGG-GATTATAAAACAATTTAAAGCGAGTAATAAGGCTTT
        259 AAAAAAAAAAACTTAAAATCAATTTTGGTG-TTATAAAACAATTTAAAGCGAGTAATAAGGCTTT

               
       4814 TAA
        323 TAA

                                          *                              *   
       4817 ANNNNNNNNNNNNNNNNAATGGACTTTTCTTGCCAATGAATGCCTTTTTTTTCATGTTTCTTGAG
          1 A----------------AATGGACTTTTCTCGCCAATGAATGCCTTTTTTTTCATGTTTCTGGAG

                                            *                                
       4882 CTAAACT-TAT-AATTATTGTATGTTTTAAC-CAAAATATAAAAAATTCAACTTAAAATCAATTA
         50 CTAAA-TAT-TCAATTATTGTATGTTTTAACTAAAAATATAAAAAATTCAACTTAAAATCAATTA

              **               *   *  *  *             *   **     *          
       4944 TGGGATTATAAAACAATTTGAAGTGAGTAGTAAAACTTTTGAATGAATGGGTGATCATAAATGAA
        113 TGAAATTATAAAACAATTTAAAGCGAATAATAAAACTTTTGAAGGAACAGGTGACCATAAATGAA

                                                 *   * *                     
       5009 CTTTTCTTCTCAATCAAAAGCTTTTTTTGCACGTTTTTTCAGGCAGACATTCAATTATAGTCTCT
        178 CTTTTCTTCTCAATCAAAAGCTTTTTTTGCACGTTTTCTCAAGAAGACATTCAATTATAGTCTCT

              *            *      ***            *                      
       5074 TTTAACCAAAAATTTTAAAAAACTTAACTTAAAATCACTTTTGGTGTTATAAAACAATTT
        243 TTGAACCAAAAATTTAAAAAAAAAAAACTTAAAATCAATTTTGGTGTTATAAAACAATTT

       5134 NNNNNNNNNN


Statistics
Matches: 250,  Mismatches: 46, Indels: 27
        0.77            0.14        0.08

Matches are distributed among these distances:
 325    1  0.00
 340  167  0.67
 341   80  0.32
 342    2  0.01

ACGTcount: A:0.36, C:0.12, G:0.12, T:0.37


Consensus pattern (325 bp):   
AAATGGACTTTTCTCGCCAATGAATGCCTTTTTTTTCATGTTTCTGGAGCTAAATATTCAATTAT
TGTATGTTTTAACTAAAAATATAAAAAATTCAACTTAAAATCAATTATGAAATTATAAAACAATT
TAAAGCGAATAATAAAACTTTTGAAGGAACAGGTGACCATAAATGAACTTTTCTTCTCAATCAAA
AGCTTTTTTTGCACGTTTTCTCAAGAAGACATTCAATTATAGTCTCTTTGAACCAAAAATTTAAA
AAAAAAAAACTTAAAATCAATTTTGGTGTTATAAAACAATTTAAAGCGAGTAATAAGGCTTTTAA
Done.