Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015683.1 Corchorus capsularis cultivar CVL-1 contig15704, 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: 5957
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27


Found at i:1938 original size:27 final size:27

Alignment explanation


    Indices: 1885--1938  Score: 63
    Period size: 27  Copynumber: 2.0  Consensus size: 27

       1875 TAGTCAAAAT

                  * *           * *    
       1885 AAGAAATGTTTTTCAAAAATTGTTTTC
          1 AAGAAAAGGTTTTCAAAAATGGATTTC

                           *           
       1912 AAGAAAAGGTTTTCAGAAATGGATTTC
          1 AAGAAAAGGTTTTCAAAAATGGATTTC

       1939 CAAAAGGTTT


Statistics
Matches: 22,  Mismatches: 5, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  27   22  1.00

ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37


Consensus pattern (27 bp):   
AAGAAAAGGTTTTCAAAAATGGATTTC

Found at i:4929 original size:19 final size:18

Alignment explanation


    Indices: 4905--4940  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       4895 TCAAGATTTC

                               
       4905 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
       4924 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

       4941 ATTATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAT
Done.