Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023720.1 Corchorus olitorius cultivar O-4 contig23753, 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: 25036
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31


Found at i:6146 original size:19 final size:18

Alignment explanation


    Indices: 6122--6157  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       6112 TGAAAACTTA

                               
       6122 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
       6141 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

       6158 ATTATCTCAA


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

Found at i:10953 original size:19 final size:18

Alignment explanation


    Indices: 10921--10956  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

      10911 TTGAGATAAT

                     *        
      10921 TCTTCAATTGTCTTCAAA
          1 TCTTCAATTATCTTCAAA

                              
      10939 TCTTCAAATTATCTTCAA
          1 TCTTC-AATTATCTTCAA

      10957 TAAGTCTTCA


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

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44


Consensus pattern (18 bp):   
TCTTCAATTATCTTCAAA

Found at i:23358 original size:11 final size:11

Alignment explanation


    Indices: 23342--23366  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

      23332 GGGGAATAAT

                       
      23342 CAATCCAAAAA
          1 CAATCCAAAAA

                       
      23353 CAATCCAAAAA
          1 CAATCCAAAAA

               
      23364 CAA
          1 CAA

      23367 ACAATTTTCT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08


Consensus pattern (11 bp):   
CAATCCAAAAA
Done.