Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000611.1 Corchorus olitorius cultivar O-4 contig00611, 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, 861

Length: 1435
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37


Found at i:247 original size:16 final size:16

Alignment explanation


    Indices: 226--256  Score: 62
    Period size: 16  Copynumber: 1.9  Consensus size: 16

        216 CCTACTCCTA

                            
        226 GTTGGATTGGATGAGT
          1 GTTGGATTGGATGAGT

                           
        242 GTTGGATTGGATGAG
          1 GTTGGATTGGATGAG

        257 CGATCTCTTT


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

Matches are distributed among these distances:
  16   15  1.00

ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35


Consensus pattern (16 bp):   
GTTGGATTGGATGAGT

Found at i:501 original size:42 final size:42

Alignment explanation


    Indices: 454--546  Score: 141
    Period size: 42  Copynumber: 2.2  Consensus size: 42

        444 CTCGATGAAA

                        *           *                 
        454 TGGATTTGAGAGGAATAGCCGAAGGCTTGTTATTCCTCGTTG
          1 TGGATTTGAGAGAAATAGCCGAAGACTTGTTATTCCTCGTTG

                            * *                       
        496 TGGATTTGAGAGAAATGGTCGAAGACTTGTTATTCCTCGTTG
          1 TGGATTTGAGAGAAATAGCCGAAGACTTGTTATTCCTCGTTG

                     
        538 TCGGATTTG
          1 T-GGATTTG

        547 TTAGATTTGA


Statistics
Matches: 46,  Mismatches: 4, Indels: 1
        0.90            0.08        0.02

Matches are distributed among these distances:
  42   39  0.85
  43    7  0.15

ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35


Consensus pattern (42 bp):   
TGGATTTGAGAGAAATAGCCGAAGACTTGTTATTCCTCGTTG
Done.