Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018397575.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_3745.0, 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: 6507
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.34

Warning! 216 characters in sequence are not A, C, G, or T


Found at i:538 original size:41 final size:41

Alignment explanation


    Indices: 481--561  Score: 144
    Period size: 41  Copynumber: 2.0  Consensus size: 41

        471 TAAACGTCGG

                                                     
        481 AGCATAACCAGATAAGGTAAGGTAGGTAAAGTTTTAGTATA
          1 AGCATAACCAGATAAGGTAAGGTAGGTAAAGTTTTAGTATA

                       *                *           
        522 AGCATAACCAGGTAAGGTAAGGTAGGTAGAGTTTTAGTAT
          1 AGCATAACCAGATAAGGTAAGGTAGGTAAAGTTTTAGTAT

        562 GATTCAATTA


Statistics
Matches: 38,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  41   38  1.00

ACGTcount: A:0.38, C:0.07, G:0.27, T:0.27


Consensus pattern (41 bp):   
AGCATAACCAGATAAGGTAAGGTAGGTAAAGTTTTAGTATA

Found at i:621 original size:52 final size:52

Alignment explanation


    Indices: 543--643  Score: 193
    Period size: 52  Copynumber: 1.9  Consensus size: 52

        533 GTAAGGTAAG

                                           *                    
        543 GTAGGTAGAGTTTTAGTATGATTCAATTAAGGTTGAAAACTTTAAAAAAAAT
          1 GTAGGTAGAGTTTTAGTATGATTCAATTAAGATTGAAAACTTTAAAAAAAAT

                                                             
        595 GTAGGTAGAGTTTTAGTATGATTCAATTAAGATTGAAAACTTTAAAAAA
          1 GTAGGTAGAGTTTTAGTATGATTCAATTAAGATTGAAAACTTTAAAAAA

        644 TTAATGCCAA


Statistics
Matches: 48,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  52   48  1.00

ACGTcount: A:0.43, C:0.04, G:0.19, T:0.35


Consensus pattern (52 bp):   
GTAGGTAGAGTTTTAGTATGATTCAATTAAGATTGAAAACTTTAAAAAAAAT

Found at i:5853 original size:15 final size:14

Alignment explanation


    Indices: 5802--5853  Score: 50
    Period size: 15  Copynumber: 3.5  Consensus size: 14

       5792 GTTATATTTT

                   *       
       5802 CAACAATTACATTTC
          1 CAACAATCACA-TTC

                  *       
       5817 CAACAAGCACATTC
          1 CAACAATCACATTC

               *           
       5831 ACAGCAATCACATTC
          1 -CAACAATCACATTC

                    
       5846 CTAACAAT
          1 C-AACAAT

       5854 ATACCAAACA


Statistics
Matches: 30,  Mismatches: 5, Indels: 4
        0.77            0.13        0.10

Matches are distributed among these distances:
  14    4  0.13
  15   26  0.87

ACGTcount: A:0.42, C:0.31, G:0.04, T:0.23


Consensus pattern (14 bp):   
CAACAATCACATTC
Done.