Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018400875.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4042.0, 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, 817

Length: 1362
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.26

Warning! 405 characters in sequence are not A, C, G, or T


Found at i:1049 original size:171 final size:170

Alignment explanation


    Indices: 565--1087  Score: 460
    Period size: 171  Copynumber: 3.1  Consensus size: 170

        555 NNNNNNTTGT

                      *                          *  *          *    *        
        565 ATTTTTTTACATTTTTAGTTAAAACAGATTATAATTGATTGTTTGCCTTAGAAAACGTGAAGAAA
          1 ATTTTTTTACTTTTTTAGTTAAAACAGATTATAATTGCTTCTTTGCCTTAGGAAACATGAAGAAA

                         *          *                      **           *    
        630 AACCCATTCATTTGTAAGAAAAGCGCATTTGTAGTCACCCAAGCCTTGGAAAGCCTTATTGCTCC
         66 AACCCATTCATTTATAAGAAAAGCCCATTTGTAGTCA-CCAAGCCTTCAAAAGCCTTATTACTCC

                  **********                         
        695 CTTTAANNNNNNNNNNAAACTCATAATTGATTTTAGGATGA
        130 CTTTAAATAGTTTTACAAACTCATAATTGATTTTAGGATGA

                 *                   *   *          *            *           
        736 ATTTTATTA-TATTTTTAGTTAAAATAGAATATAATT-C-ACTGTCTGCCTTAAGAAACATGAAG
          1 ATTTTTTTACT-TTTTTAGTTAAAACAGATTATAATTGCTTCT-T-TGCCTTAGGAAACATGAAG

                 *     *   *                 * *            *                
        798 AAAAAGCCATTGATTGATAAGAAAAGCCCATTTATTGTCACACATA-CTTTCAAAAGCCTTATTA
         63 AAAAACCCATTCATTTATAAGAAAAGCCCATTTGTAGTCAC-CA-AGCCTTCAAAAGCCTTATTA

            **********         *  *       *        * *   
        862 NNNNNNNNNNATAGTTTTATAATCTCATAAATGATTTTAAGTTGA
        126 CTCCCTTTAAATAGTTTTACAAACTCATAATTGATTTTAGGATGA

                            *         *                      *               
        907 ATTTTTTTACTTTTTTGGTTAAAACATATTATAATTGCTTCTTTGCCTTGGGAAACATGAAGAAA
          1 ATTTTTTTACTTTTTTAGTTAAAACAGATTATAATTGCTTCTTTGCCTTAGGAAACATGAAGAAA

                    *     *                                         *   *    
        972 AACCCATTTATTTAAAAGAAAAGCCCATTTGTAGTCACCTAAGCCTTCAAAAGCCTCATTTCTCC
         66 AACCCATTCATTTATAAGAAAAGCCCATTTGTAGTCACC-AAGCCTTCAAAAGCCTTATTACTCC

                              *               *      
       1037 CTTTAAATAGTTTTACAACCTCATAATTGATTTTCGGATGA
        130 CTTTAAATAGTTTTACAAACTCATAATTGATTTTAGGATGA

                      
       1078 ATTTTTTTAC
          1 ATTTTTTTAC

       1088 ANNNNNNNNN


Statistics
Matches: 264,  Mismatches: 78, Indels: 20
        0.73            0.22        0.06

Matches are distributed among these distances:
 169    1  0.00
 170    4  0.02
 171  253  0.96
 172    4  0.02
 173    2  0.01

ACGTcount: A:0.33, C:0.15, G:0.12, T:0.36


Consensus pattern (170 bp):   
ATTTTTTTACTTTTTTAGTTAAAACAGATTATAATTGCTTCTTTGCCTTAGGAAACATGAAGAAA
AACCCATTCATTTATAAGAAAAGCCCATTTGTAGTCACCAAGCCTTCAAAAGCCTTATTACTCCC
TTTAAATAGTTTTACAAACTCATAATTGATTTTAGGATGA
Done.