Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016581.1 Corchorus olitorius cultivar O-4 contig16614, 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: 34015
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35


Found at i:21220 original size:84 final size:84

Alignment explanation


    Indices: 21079--21248  Score: 340
    Period size: 84  Copynumber: 2.0  Consensus size: 84

      21069 ATTGATGTTA

                                                                             
      21079 TCAGAGAATTTGACCCAGATTTTGAGTGTTGGCATTCCTATTATACTAAAGGTATAATGGTGCCA
          1 TCAGAGAATTTGACCCAGATTTTGAGTGTTGGCATTCCTATTATACTAAAGGTATAATGGTGCCA

                               
      21144 ATTGAAGTCTATTATGCAT
         66 ATTGAAGTCTATTATGCAT

                                                                             
      21163 TCAGAGAATTTGACCCAGATTTTGAGTGTTGGCATTCCTATTATACTAAAGGTATAATGGTGCCA
          1 TCAGAGAATTTGACCCAGATTTTGAGTGTTGGCATTCCTATTATACTAAAGGTATAATGGTGCCA

                               
      21228 ATTGAAGTCTATTATGCAT
         66 ATTGAAGTCTATTATGCAT

              
      21247 TC
          1 TC

      21249 CTATTACATA


Statistics
Matches: 86,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  84   86  1.00

ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36


Consensus pattern (84 bp):   
TCAGAGAATTTGACCCAGATTTTGAGTGTTGGCATTCCTATTATACTAAAGGTATAATGGTGCCA
ATTGAAGTCTATTATGCAT

Found at i:22851 original size:32 final size:32

Alignment explanation


    Indices: 22814--22878  Score: 130
    Period size: 32  Copynumber: 2.0  Consensus size: 32

      22804 AGAGATCACC

                                            
      22814 TAGTCATCAATTTTCGAATATTAGTGATTGTG
          1 TAGTCATCAATTTTCGAATATTAGTGATTGTG

                                            
      22846 TAGTCATCAATTTTCGAATATTAGTGATTGTG
          1 TAGTCATCAATTTTCGAATATTAGTGATTGTG

             
      22878 T
          1 T

      22879 TTCTCTTTAC


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  32   33  1.00

ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45


Consensus pattern (32 bp):   
TAGTCATCAATTTTCGAATATTAGTGATTGTG
Done.