Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000864.1 Corchorus capsularis cultivar CVL-1 contig00864, 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: 2419
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34


Found at i:726 original size:13 final size:13

Alignment explanation


    Indices: 708--742  Score: 61
    Period size: 13  Copynumber: 2.7  Consensus size: 13

        698 ATAATTATTG

                         
        708 TTTGCTTTATTAA
          1 TTTGCTTTATTAA

                         
        721 TTTGCTTTATTAA
          1 TTTGCTTTATTAA

             *       
        734 TCTGCTTTA
          1 TTTGCTTTA

        743 GATTTAGATT


Statistics
Matches: 21,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  13   21  1.00

ACGTcount: A:0.20, C:0.11, G:0.09, T:0.60


Consensus pattern (13 bp):   
TTTGCTTTATTAA

Found at i:750 original size:6 final size:6

Alignment explanation


    Indices: 739--765  Score: 54
    Period size: 6  Copynumber: 4.5  Consensus size: 6

        729 ATTAATCTGC

                                           
        739 TTTAGA TTTAGA TTTAGA TTTAGA TTT
          1 TTTAGA TTTAGA TTTAGA TTTAGA TTT

        766 GCTTTGCTTT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   21  1.00

ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56


Consensus pattern (6 bp):   
TTTAGA

Found at i:1147 original size:18 final size:19

Alignment explanation


    Indices: 1124--1159  Score: 65
    Period size: 18  Copynumber: 1.9  Consensus size: 19

       1114 CGCGATAGAA

                               
       1124 AAGAAAAAGATAA-AAAAT
          1 AAGAAAAAGATAACAAAAT

                              
       1142 AAGAAAAAGATAACAAAA
          1 AAGAAAAAGATAACAAAA

       1160 AAAAGGCTTT


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  18   13  0.76
  19    4  0.24

ACGTcount: A:0.78, C:0.03, G:0.11, T:0.08


Consensus pattern (19 bp):   
AAGAAAAAGATAACAAAAT
Done.