Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003820.1 Corchorus capsularis cultivar CVL-1 contig03828, 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, 610

Length: 1018
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:142 original size:18 final size:17

Alignment explanation


    Indices: 115--150  Score: 54
    Period size: 18  Copynumber: 2.1  Consensus size: 17

        105 TTTCTCTTCA

                             
        115 TCTATTTTTCTTATAGT
          1 TCTATTTTTCTTATAGT

                         *    
        132 TCTAGTTTTTCTTCTAGT
          1 TCTA-TTTTTCTTATAGT

             
        150 T
          1 T

        151 TTAGGTTGAG


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  17    4  0.24
  18   13  0.76

ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64


Consensus pattern (17 bp):   
TCTATTTTTCTTATAGT

Found at i:925 original size:20 final size:21

Alignment explanation


    Indices: 881--928  Score: 62
    Period size: 20  Copynumber: 2.3  Consensus size: 21

        871 TAGATTTAGA

                      *   *   *  
        881 TTTAATTTACTTTGTTTTGTT
          1 TTTAATTTACATTGCTTTCTT

                                 
        902 TTTAATTTA-ATTGCTTTCTT
          1 TTTAATTTACATTGCTTTCTT

                   
        922 TTTAATT
          1 TTTAATT

        929 GATAATTTTA


Statistics
Matches: 24,  Mismatches: 3, Indels: 1
        0.86            0.11        0.04

Matches are distributed among these distances:
  20   15  0.62
  21    9  0.38

ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69


Consensus pattern (21 bp):   
TTTAATTTACATTGCTTTCTT
Done.