Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400788.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3964.0, 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, 753

Length: 1256
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.28

Warning! 195 characters in sequence are not A, C, G, or T


Found at i:291 original size:170 final size:170

Alignment explanation


    Indices: 5--777  Score: 763
    Period size: 170  Copynumber: 4.6  Consensus size: 170

          1 GTAC

                    *   *           *      *               *   * *           
          5 AAAAAATTGAACATAAAATCAATTTTGAGATAATAAAACCATTTAAAATGAGTCATAAGGCTTTT
          1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGACTAATAAGGCTTTT

                                  *  *                   *      *            
         70 GAAGGAATGAGAGACTATAAATAAAATTTTCTGT-CAAATAAATGGGTTTTTTTACACGTTTTCC
         66 GAAGGAATGAGAGACTATAAATGAACTTTTCT-TCCAAATAAATGAGTTTTTCTACACGTTTTCC

                                *    ************     
        134 AAGGCAGGCATTCAATTATAAT-TNNNNNNNNNNNNNAATGT
        130 AAGGCAGGCATTCAATTATAGTAT-GTATTAATAAAAAATGT

                                                       *                **   
        175 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTCAAAGT-ATCTAATAAGATTTT
          1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGA-CTAATAAGGCTTT

                 *    *             *                                        
        239 TGAAGAAATGGGAGACTATAAATGCACTTTTCTTCCAAATAAATGAGTTTTT-TCACACGTTTAT
         65 TGAAGGAATGAGAGACTATAAATGAACTTTTCTTCCAAATAAATGAGTTTTTCT-ACACGTTT-T

                  *                 *            *     
        303 -CAAGGTAGGCATTCAATTATAGTCTGTATTAATAAACAATGT
        128 CCAAGGCAGGCATTCAATTATAGTATGTATTAATAAAAAATGT

                                     *             *                       **
        345 AAAAAATTCAACTTAAAATCAATTAGGAGATTA-AAAACTATTTAAA-TCGACTAATAAGGCTNN
          1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGT-GACTAATAAGGCTTT

            ********                       *  *                          *   
        408 NNNNNNNNTGAGAGACTATAAATGAACTTTTTTTTCAAATAAATGAGTTTTTCTACACGTTGTCC
         65 TGAAGGAATGAGAGACTATAAATGAACTTTTCTTCCAAATAAATGAGTTTTTCTACACGTTTTCC

                  *                   *            **
        473 AAGGCAAGCATTCAATTATAGTATGTTTTAATAAAAAATAA
        130 AAGGCAGGCATTCAATTATAGTATGTATTAATAAAAAATGT

                     *                       *     *        *           *   *
        514 AAAAAATTCTACTTAAAATCAATTATGAGATTAAAAAACTATTTAAAGCGACTAATAAGGGTTTA
          1 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGACTAATAAGGCTTTT

                                   *      *                                 *
        579 GAAGGAATGAGAGACTATAAATGCACTTTTATTCCAAATAAATTGA-TTTTTCTACACGTTTTCT
         66 GAAGGAATGAGAGACTATAAATGAACTTTTCTTCCAAATAAA-TGAGTTTTTCTACACGTTTTCC

                                  **  *    *        *
        643 AAGGCAGGCATTCAATTATAGTCGGTTTTAACAAAAAAT-A
        130 AAGGCAGGCATTCAATTATAGTATGTATTAATAAAAAATGT

                                 *     *                     **              
        683 AAAATAATTCAACTTAAAATCGATTATAAGATTATAAAACCATTTAAAGCCACTAATAAGGCTTT
          1 AAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGACTAATAAGGCTTT

                   *                *     
        748 TGAAGGAGTGAGAGACTATAAATGGACTTT
         65 TGAAGGAATGAGAGACTATAAATGAACTTT

        778 NNNNNNNNNN


Statistics
Matches: 500,  Mismatches: 90, Indels: 26
        0.81            0.15        0.04

Matches are distributed among these distances:
 168    2  0.00
 169  141  0.28
 170  352  0.70
 171    5  0.01

ACGTcount: A:0.41, C:0.11, G:0.13, T:0.32


Consensus pattern (170 bp):   
AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGTGACTAATAAGGCTTTT
GAAGGAATGAGAGACTATAAATGAACTTTTCTTCCAAATAAATGAGTTTTTCTACACGTTTTCCA
AGGCAGGCATTCAATTATAGTATGTATTAATAAAAAATGT

Done.