Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019462.1 Corchorus olitorius cultivar O-4 contig19495, 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: 2914
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29


Found at i:2222 original size:18 final size:17

Alignment explanation


    Indices: 2199--2236  Score: 58
    Period size: 18  Copynumber: 2.2  Consensus size: 17

       2189 CCCAAATTAC

                              
       2199 TTATGGAAAATAGGGAAA
          1 TTATGGAAAATA-GGAAA

                     *       
       2217 TTATGGAAATTAGGAAA
          1 TTATGGAAAATAGGAAA

               
       2234 TTA
          1 TTA

       2237 AATGAATTAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  17    8  0.42
  18   11  0.58

ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29


Consensus pattern (17 bp):   
TTATGGAAAATAGGAAA

Found at i:2232 original size:8 final size:9

Alignment explanation


    Indices: 2199--2236  Score: 51
    Period size: 9  Copynumber: 4.3  Consensus size: 9

       2189 CCCAAATTAC

                     
       2199 TTATGGAAA
          1 TTATGGAAA

            *  *     
       2208 ATAGGGAAA
          1 TTATGGAAA

                     
       2217 TTATGGAAA
          1 TTATGGAAA

                     
       2226 TTA-GGAAA
          1 TTATGGAAA

               
       2234 TTA
          1 TTA

       2237 AATGAATTAA


Statistics
Matches: 25,  Mismatches: 4, Indels: 1
        0.83            0.13        0.03

Matches are distributed among these distances:
   8    8  0.32
   9   17  0.68

ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29


Consensus pattern (9 bp):   
TTATGGAAA
Done.