Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021523.1 Corchorus olitorius cultivar O-4 contig21556, 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: 5755
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35


Found at i:2249 original size:36 final size:36

Alignment explanation


    Indices: 2202--2271  Score: 106
    Period size: 36  Copynumber: 1.9  Consensus size: 36

       2192 GAGATTTTGG

                         *                       
       2202 AGAAATATGATAATCAAAAT-TACAAAAAATGTAATA
          1 AGAAATATGATAACCAAAATCT-CAAAAAATGTAATA

                                       *      
       2238 AGAAATATGATAACCAAAATCTCAAAAGATGTAA
          1 AGAAATATGATAACCAAAATCTCAAAAAATGTAA

       2272 GGTTATTGAA


Statistics
Matches: 31,  Mismatches: 2, Indels: 2
        0.89            0.06        0.06

Matches are distributed among these distances:
  36   30  0.97
  37    1  0.03

ACGTcount: A:0.59, C:0.09, G:0.10, T:0.23


Consensus pattern (36 bp):   
AGAAATATGATAACCAAAATCTCAAAAAATGTAATA

Found at i:5479 original size:25 final size:24

Alignment explanation


    Indices: 5443--5489  Score: 85
    Period size: 25  Copynumber: 1.9  Consensus size: 24

       5433 AATACTTACA

                                    
       5443 TTAATTAAATTCTTAGGTATTTTT
          1 TTAATTAAATTCTTAGGTATTTTT

                                   
       5467 TTAATTCAAATTCTTAGGTATTT
          1 TTAATT-AAATTCTTAGGTATTT

       5490 GTGCAAACGT


Statistics
Matches: 22,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  24    6  0.27
  25   16  0.73

ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55


Consensus pattern (24 bp):   
TTAATTAAATTCTTAGGTATTTTT
Done.