Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402582.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5654.0, 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, 818

Length: 1364
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.13

Warning! 787 characters in sequence are not A, C, G, or T


Found at i:79 original size:18 final size:18

Alignment explanation


    Indices: 12--73  Score: 83
    Period size: 18  Copynumber: 3.5  Consensus size: 18

          2 TCCCAAAAAT

                         *    
         12 AAAATAAAAT-AAGAT-A
          1 AAAATAAAATCAAAATAA

                               
         28 AAAATCAAAATCAAAATAA
          1 AAAAT-AAAATCAAAATAA

                    *         
         47 AAAATAAATTCAAAATAA
          1 AAAATAAAATCAAAATAA

                     
         65 AAAATAAAA
          1 AAAATAAAA

         74 GTAAAAACAG


Statistics
Matches: 40,  Mismatches: 3, Indels: 4
        0.85            0.06        0.09

Matches are distributed among these distances:
  16    5  0.12
  17    5  0.12
  18   24  0.60
  19    6  0.15

ACGTcount: A:0.76, C:0.05, G:0.02, T:0.18


Consensus pattern (18 bp):   
AAAATAAAATCAAAATAA

Found at i:80 original size:7 final size:6

Alignment explanation


    Indices: 6--80  Score: 50
    Period size: 6  Copynumber: 12.8  Consensus size: 6

          1 ATCCC

                                    *          *      *            
          6 AAAAAT -AAAAT -AAAAT -AAGAT AAAAAT CAAAAT CAAAAT AAAAA-
          1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT

                 *  *                  *       
         50 ATAAATT CAAAAT AAAAAAT AAAAGT AAAAA
          1 A-AAAAT AAAAAT -AAAAAT AAAAAT AAAAA

         81 CAGAAACTCA


Statistics
Matches: 55,  Mismatches: 10, Indels: 8
        0.75            0.14        0.11

Matches are distributed among these distances:
   5   15  0.27
   6   35  0.64
   7    5  0.09

ACGTcount: A:0.76, C:0.04, G:0.03, T:0.17


Consensus pattern (6 bp):   
AAAAAT
Done.