Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015933.1 Corchorus olitorius cultivar O-4 contig15966, 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, 874

Length: 1458
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29


Found at i:1112 original size:22 final size:22

Alignment explanation


    Indices: 1072--1180  Score: 182
    Period size: 22  Copynumber: 4.9  Consensus size: 22

       1062 TGAAGTTGAA

                                    
       1072 GAAAATAATGCACTCTGCAAAGTG
          1 GAAAATAATG--CTCTGCAAAGTG

                                  
       1096 GAAAATAATGCTCTGCAAAGTG
          1 GAAAATAATGCTCTGCAAAGTG

                                 *
       1118 GAAAATAATGCTCTGCAAAGTA
          1 GAAAATAATGCTCTGCAAAGTG

                                  
       1140 GAAAATAATGCTCTGCAAAGTG
          1 GAAAATAATGCTCTGCAAAGTG

             *                 
       1162 GTAAATAATGCTCTGCAAA
          1 GAAAATAATGCTCTGCAAA

       1181 AATGTTTCCA


Statistics
Matches: 82,  Mismatches: 3, Indels: 2
        0.94            0.03        0.02

Matches are distributed among these distances:
  22   72  0.88
  24   10  0.12

ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23


Consensus pattern (22 bp):   
GAAAATAATGCTCTGCAAAGTG

Found at i:1393 original size:16 final size:16

Alignment explanation


    Indices: 1374--1408  Score: 52
    Period size: 16  Copynumber: 2.2  Consensus size: 16

       1364 GTTTTCAATT

                  *         
       1374 TTCTTGCTTTTTATTA
          1 TTCTTGATTTTTATTA

                 *          
       1390 TTCTTTATTTTTATTA
          1 TTCTTGATTTTTATTA

               
       1406 TTC
          1 TTC

       1409 AAAACATCAA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.14, C:0.11, G:0.03, T:0.71


Consensus pattern (16 bp):   
TTCTTGATTTTTATTA
Done.