Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007599.1 Corchorus olitorius cultivar O-4 contig07624, 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, 821

Length: 1369
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32


Found at i:1219 original size:13 final size:12

Alignment explanation


    Indices: 1189--1244  Score: 57
    Period size: 12  Copynumber: 4.8  Consensus size: 12

       1179 CCCGTTGAGG

                        
       1189 AAATG-TTTTAT
          1 AAATGCTTTTAT

              *          
       1200 AACTGCTTTATAT
          1 AAATGCTTT-TAT

                        
       1213 AAATGC-TTTAT
          1 AAATGCTTTTAT

                         
       1224 AAATG-TTTTAAT
          1 AAATGCTTTT-AT

                      
       1236 AAATG-TTTT
          1 AAATGCTTTT

       1245 GGGTGCATAA


Statistics
Matches: 39,  Mismatches: 2, Indels: 7
        0.81            0.04        0.15

Matches are distributed among these distances:
  11   15  0.38
  12   16  0.41
  13    8  0.21

ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50


Consensus pattern (12 bp):   
AAATGCTTTTAT

Found at i:1222 original size:24 final size:23

Alignment explanation


    Indices: 1189--1240  Score: 68
    Period size: 24  Copynumber: 2.2  Consensus size: 23

       1179 CCCGTTGAGG

                 *       *          
       1189 AAATGTTTTATAACTGCTTTATAT
          1 AAATGCTTTATAAATGCTTTA-AT

                            *      
       1213 AAATGCTTTATAAATGTTTTAAT
          1 AAATGCTTTATAAATGCTTTAAT

                 
       1236 AAATG
          1 AAATG

       1241 TTTTGGGTGC


Statistics
Matches: 25,  Mismatches: 3, Indels: 1
        0.86            0.10        0.03

Matches are distributed among these distances:
  23    7  0.28
  24   18  0.72

ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46


Consensus pattern (23 bp):   
AAATGCTTTATAAATGCTTTAAT
Done.