Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017836.1 Corchorus olitorius cultivar O-4 contig17869, 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: 42524
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:11458 original size:15 final size:15

Alignment explanation


    Indices: 11438--11467  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

      11428 CATTATTAAT

                           
      11438 TTGCATTGCATGAAA
          1 TTGCATTGCATGAAA

                           
      11453 TTGCATTGCATGAAA
          1 TTGCATTGCATGAAA

      11468 CCTTTTCTTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33


Consensus pattern (15 bp):   
TTGCATTGCATGAAA

Found at i:17742 original size:61 final size:62

Alignment explanation


    Indices: 17652--17775  Score: 178
    Period size: 61  Copynumber: 2.0  Consensus size: 62

      17642 AGCACTTCTG

                 *                *       *                           *   
      17652 AAAAAGGGTTTCTGGAAAAAAATTTCAATTTAGAGCTTCTGGCTTTTAGTTAAAACAATTGA
          1 AAAAAAGGTTTCTGGAAAAAAACTTCAATTCAGAGCTTCTGGCTTTTAGTTAAAACAACTGA

                                              **  *                       
      17714 AAAAAAGGTTTCTGG-AAAAAACTTCAATTCAGATTTTTTGGCTTTTAGTTAAAACAACTGA
          1 AAAAAAGGTTTCTGGAAAAAAACTTCAATTCAGAGCTTCTGGCTTTTAGTTAAAACAACTGA

             
      17775 A
          1 A

      17776 GGGGTGATTG


Statistics
Matches: 55,  Mismatches: 7, Indels: 1
        0.87            0.11        0.02

Matches are distributed among these distances:
  61   41  0.75
  62   14  0.25

ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34


Consensus pattern (62 bp):   
AAAAAAGGTTTCTGGAAAAAAACTTCAATTCAGAGCTTCTGGCTTTTAGTTAAAACAACTGA
Done.