Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402618.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5689.0, 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: 7180
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.29

Warning! 417 characters in sequence are not A, C, G, or T


Found at i:2326 original size:29 final size:29

Alignment explanation


    Indices: 2244--2326  Score: 69
    Period size: 29  Copynumber: 2.9  Consensus size: 29

       2234 CAAGTATAAG

                               * *      *
       2244 AGAGGAAGCTGTACATGAACAAGTACAAG
          1 AGAGGAAGCTGTACATGAATAGGTACAAA

                *    * *   * *   *        
       2273 AGA-AAATGTTATACGTAAATGGGTACAAA
          1 AGAGGAA-GCTGTACATGAATAGGTACAAA

                                     
       2302 AGAGGAAGCTGTACATGAATAGGTA
          1 AGAGGAAGCTGTACATGAATAGGTA

       2327 TAAGAGAAAA


Statistics
Matches: 37,  Mismatches: 15, Indels: 4
        0.66            0.27        0.07

Matches are distributed among these distances:
  28    2  0.05
  29   33  0.89
  30    2  0.05

ACGTcount: A:0.45, C:0.10, G:0.27, T:0.19


Consensus pattern (29 bp):   
AGAGGAAGCTGTACATGAATAGGTACAAA

Found at i:2361 original size:58 final size:58

Alignment explanation


    Indices: 2226--2362  Score: 157
    Period size: 58  Copynumber: 2.4  Consensus size: 58

       2216 AGAAAAGTTG

                             *                                   * *  
       2226 TACGTGAACAAGTATAAGAGAGGAAGCTGTACATGAACAAGTACAAGAGAAAATGTTA
          1 TACGTGAACAAGTATAAAAGAGGAAGCTGTACATGAACAAGTACAAGAGAAAAAGCTA

                 *  ***   *                      * *   *              
       2284 TACGTAAATGGGTACAAAAGAGGAAGCTGTACATGAATAGGTATAAGAGAAAAAGCTA
          1 TACGTGAACAAGTATAAAAGAGGAAGCTGTACATGAACAAGTACAAGAGAAAAAGCTA

              *        *         
       2342 TATGTGAACAAATATAAAAGA
          1 TACGTGAACAAGTATAAAAGA

       2363 ATAAGAAAAA


Statistics
Matches: 61,  Mismatches: 18, Indels: 0
        0.77            0.23        0.00

Matches are distributed among these distances:
  58   61  1.00

ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20


Consensus pattern (58 bp):   
TACGTGAACAAGTATAAAAGAGGAAGCTGTACATGAACAAGTACAAGAGAAAAAGCTA

Found at i:2967 original size:18 final size:18

Alignment explanation


    Indices: 2946--2981  Score: 72
    Period size: 18  Copynumber: 2.0  Consensus size: 18

       2936 CCTCTGACTT

                              
       2946 CGAATTGGATGCTGAAAA
          1 CGAATTGGATGCTGAAAA

                              
       2964 CGAATTGGATGCTGAAAA
          1 CGAATTGGATGCTGAAAA

       2982 AGTCTAGCTC


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22


Consensus pattern (18 bp):   
CGAATTGGATGCTGAAAA
Done.