Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NW_018401895.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4997.0, 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: 2831
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.25

Warning! 1050 characters in sequence are not A, C, G, or T


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

Alignment explanation


    Indices: 749--1064  Score: 433
    Period size: 170  Copynumber: 1.9  Consensus size: 171

        739 NNNNNNNNAA

                                                     **              *     * 
        749 TCTATTTATAGTCACACAAGCCTTCAAAAGCCTTATTACTCTTTTTAAATGTGTTTATAATCTTA
          1 TCTATTTATAGTCACACAAGCCTTCAAAAGCCTTATTACTCGCTTTAAATGTGTTTAAAATCTCA

                *           *     *   *        *        *                    
        814 TAATTGATTTTAAGTTTAATTTTTTTGCATTTTTTGTTAAAACAGATAATAATTGAATATTTACC
         66 TAATAGATTTTAAGTTGAATTTCTTTACATTTTTTATTAAAACAAATAATAATTGAATATTTACC

                                                      
        879 T-TAGGAAACATGAAGAGAAACATATCCATTGGCAAGAAAAG
        131 TCTA-GAAACATGAAGAGAAACATATCCATTGGCAAGAAAAG

                                           *               *                 
        920 TCTATTTATAGTCAC-CAATGCCTTC-AAAGTCTTATTACTCGCTTTGAATGT-TTTAAAAATCT
          1 TCTATTTATAGTCACACAA-GCCTTCAAAAGCCTTATTACTCGCTTTAAATGTGTTT-AAAATCT

                                                    *        *      *   *    
        982 CATAATAGATTTTAAGTTGAATTTCTTTACATTTTTTATTCAAACAAATTATAATTTAATGTTTA
         64 CATAATAGATTTTAAGTTGAATTTCTTTACATTTTTTATTAAAACAAATAATAATTGAATATTTA

                              
       1047 CCTCTAGAAACATGAAGA
        129 CCTCTAGAAACATGAAGA

       1065 ANNNNNNNNN


Statistics
Matches: 126,  Mismatches: 16, Indels: 7
        0.85            0.11        0.05

Matches are distributed among these distances:
 169    3  0.02
 170  100  0.79
 171   23  0.18

ACGTcount: A:0.35, C:0.13, G:0.10, T:0.41


Consensus pattern (171 bp):   
TCTATTTATAGTCACACAAGCCTTCAAAAGCCTTATTACTCGCTTTAAATGTGTTTAAAATCTCA
TAATAGATTTTAAGTTGAATTTCTTTACATTTTTTATTAAAACAAATAATAATTGAATATTTACC
TCTAGAAACATGAAGAGAAACATATCCATTGGCAAGAAAAG

Found at i:2703 original size:170 final size:170

Alignment explanation


    Indices: 2322--2732  Score: 423
    Period size: 171  Copynumber: 2.4  Consensus size: 170

       2312 NNNNNNTTTT

                                     *      *                 *            * 
       2322 AAAAGCCTTATTACTCGCTTTAAATGTTTTTATAATCTCATAATTGATTTAAAGTTGAATTTTCT
          1 AAAAGCCTTATTACTCGCTTTAAATATTTTTAAAATCTCATAATTGATTTTAAGTT-AATTTTTT

                      *                       *     *        *               
       2387 TATATTTTTGGTTAAAACAGATAATAATTAAATGTCTGTCTTAGGAAACGTAAAGAAACAGATAT
         65 TATATTTTTGATTAAAACAGATAATAATTAAATGACTGTCCTAGGAAACATAAAGAAACAGATAT

                 *                                   
       2452 CCATTTGCAAGAAAAGTCCATTTATAATCAACCACGCCTTC
        130 CCATTAGCAAGAAAAGTCCATTTATAATCAACCACGCCTTC

            *            *  *    *    *     *                                
       2493 GAAAGCCTTATTAGTCACTTTGAATACTTTTACAATCTCATAATTGATTTTAAGTTATATTTTTT
          1 AAAAGCCTTATTACTCGCTTTAAATATTTTTAAAATCTCATAATTGATTTTAAGTTA-ATTTTTT

                     *            *      *            *      *  *           *
       2558 TATATTTTTTATTAAAACAGATTATAATTGAATGACT-TCCTCGAGAAATATGAAGAAA-AGATT
         65 TATATTTTTGATTAAAACAGATAATAATTAAATGACTGTCCTAG-GAAACATAAAGAAACAGATA

                    *                  *  *   *********
       2621 TCCATTAGTAAGAAAAGTCCATTTATAGT-TACNNNNNNNNNN
        129 TCCATTAGCAAGAAAAGTCCATTTATAATCAAC-CACGCCTTC

                                                        **          *        
       2663 AAAAGCCTTATTACTCGCTTTAAATATTTTTAAAATCTCATAATAAATTTTAAGCTGAATTTTTT
          1 AAAAGCCTTATTACTCGCTTTAAATATTTTTAAAATCTCATAATTGATTTTAAG-TTAATTTTTT

                 
       2728 TATAT
         65 TATAT

       2733 NNNNNNNNNN


Statistics
Matches: 194,  Mismatches: 42, Indels: 9
        0.79            0.17        0.04

Matches are distributed among these distances:
 169    2  0.01
 170   93  0.48
 171   99  0.51

ACGTcount: A:0.36, C:0.12, G:0.10, T:0.39


Consensus pattern (170 bp):   
AAAAGCCTTATTACTCGCTTTAAATATTTTTAAAATCTCATAATTGATTTTAAGTTAATTTTTTT
ATATTTTTGATTAAAACAGATAATAATTAAATGACTGTCCTAGGAAACATAAAGAAACAGATATC
CATTAGCAAGAAAAGTCCATTTATAATCAACCACGCCTTC
Done.