Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018402716.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5778.0, 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: 6836
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.37


Found at i:4780 original size:49 final size:49

Alignment explanation


    Indices: 4629--4770  Score: 171
    Period size: 51  Copynumber: 2.9  Consensus size: 49

       4619 CACAAACTTG

                                      *                       
       4629 CTTGATCTTCGCTTTAAAGGTCTTCATGAC-TAAACTTTGATCACGAACA
          1 CTTGATCTTCGCTTTAAAGGTCTTCACGACTTAAAC-TTGATCACGAACA

                            *          *         *              
       4678 CTTGATCTCTTCGCTTCAATA-GTCTTTACGACTTAACCTTGATCACGAACA
          1 CTTGA--TCTTCGCTTTAA-AGGTCTTCACGACTTAAACTTGATCACGAACA

                             *         *      *       
       4729 CTTGATCTTCGCTTTAAGGGTCTTCACAACTTAATCTTGATC
          1 CTTGATCTTCGCTTTAAAGGTCTTCACGACTTAAACTTGATC

       4771 GTGAGCACTT


Statistics
Matches: 79,  Mismatches: 9, Indels: 10
        0.81            0.09        0.10

Matches are distributed among these distances:
  49   36  0.46
  51   38  0.48
  52    5  0.06

ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37


Consensus pattern (49 bp):   
CTTGATCTTCGCTTTAAAGGTCTTCACGACTTAAACTTGATCACGAACA

Found at i:5257 original size:81 final size:80

Alignment explanation


    Indices: 5153--5355  Score: 257
    Period size: 81  Copynumber: 2.5  Consensus size: 80

       5143 ATTAGTATAA

                             *           *              **  *     *          
       5153 TTATTAG-GATAAATTAAATGACCAATAATTAAATTTTGATTGGTCAAGAACATGAATATTATCT
          1 TTATTAGAGATAAATTAGATGACCAATAACTAAATTTTGATTGGAAAAAAACATAAATATTATCT

            *               
       5217 GTAAATT-ATTTTGAT
         66 CT-AATTCATTTTGAT

                           *                                    *      *     
       5232 TTATTTAGAGATAAACTAGATGACCAATAACTAAATTTTGATTGGAAAAAAATATAAATGTTATC
          1 TTA-TTAGAGATAAATTAGATGACCAATAACTAAATTTTGATTGGAAAAAAACATAAATATTATC

                            
       5297 TCTAATTCATTTTGAT
         65 TCTAATTCATTTTGAT

                      *                      *    *    
       5313 TTATTAGAGAAAAATTAGATGACCAATAACTAATTTTTAATTG
          1 TTATTAGAGATAAATTAGATGACCAATAACTAAATTTTGATTG

       5356 ATCCAATTTA


Statistics
Matches: 107,  Mismatches: 14, Indels: 5
        0.85            0.11        0.04

Matches are distributed among these distances:
  79    3  0.03
  80   44  0.41
  81   60  0.56

ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39


Consensus pattern (80 bp):   
TTATTAGAGATAAATTAGATGACCAATAACTAAATTTTGATTGGAAAAAAACATAAATATTATCT
CTAATTCATTTTGAT
Done.