Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014553.1 Corchorus olitorius cultivar O-4 contig14586, 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, 828

Length: 1381
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33


Found at i:1188 original size:32 final size:32

Alignment explanation


    Indices: 1152--1329  Score: 232
    Period size: 32  Copynumber: 5.5  Consensus size: 32

       1142 GTGTGGAAAG

                                             
       1152 AAAACGCCCTTATTTAGCGGCGAT-TAAAGAAC
          1 AAAACGCCCTTATTTAGCGGCG-TCTAAAGAAC

                              *  *          
       1184 AAAACGCCCTTATTTAGCAGCATCTAAAGAAC
          1 AAAACGCCCTTATTTAGCGGCGTCTAAAGAAC

                            *         *     
       1216 AAAACGCCCTTATTTAACGGCGTCTAGAGAAC
          1 AAAACGCCCTTATTTAGCGGCGTCTAAAGAAC

                            *         * *   
       1248 AAAACGCCCTTATTTAACGGCGTCTAGACAAC
          1 AAAACGCCCTTATTTAGCGGCGTCTAAAGAAC

                              *      **     
       1280 AAAACGCCCTTATTTAGCAGCGTCTTTAGAAC
          1 AAAACGCCCTTATTTAGCGGCGTCTAAAGAAC

                              
       1312 AAAACGCCGCTATATTTA
          1 AAAACGCC-CT-TATTTA

       1330 ACTGCTTTTA


Statistics
Matches: 131,  Mismatches: 12, Indels: 4
        0.89            0.08        0.03

Matches are distributed among these distances:
  31    1  0.01
  32  122  0.93
  33    2  0.02
  34    6  0.05

ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24


Consensus pattern (32 bp):   
AAAACGCCCTTATTTAGCGGCGTCTAAAGAAC

Found at i:1289 original size:96 final size:98

Alignment explanation


    Indices: 1152--1331  Score: 276
    Period size: 96  Copynumber: 1.9  Consensus size: 98

       1142 GTGTGGAAAG

                            *           *                                    
       1152 AAAACGCCCTTATTTAGCGGCGATTAAAGAACAAAACGCCCTTATTTAGCAGCATCTAAAGAACA
          1 AAAACGCCCTTATTTAACGGCGATTAAACAACAAAACGCCCTTATTTAGCAGCATCTAAAGAACA

                                             
       1217 AAACGCC-CT-TATTTAACGGCGTCTAGAGAAC
         66 AAACGCCGCTATATTTAACGGCGTCTAGAGAAC

                                       *                          *   **     
       1248 AAAACGCCCTTATTTAACGGCG-TCTAGACAACAAAACGCCCTTATTTAGCAGCGTCTTTAGAAC
          1 AAAACGCCCTTATTTAACGGCGAT-TAAACAACAAAACGCCCTTATTTAGCAGCATCTAAAGAAC

                                
       1312 AAAACGCCGCTATATTTAAC
         65 AAAACGCCGCTATATTTAAC

       1332 TGCTTTTAAA


Statistics
Matches: 75,  Mismatches: 6, Indels: 4
        0.88            0.07        0.05

Matches are distributed among these distances:
  95    1  0.01
  96   64  0.85
  97    2  0.03
  98    8  0.11

ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23


Consensus pattern (98 bp):   
AAAACGCCCTTATTTAACGGCGATTAAACAACAAAACGCCCTTATTTAGCAGCATCTAAAGAACA
AAACGCCGCTATATTTAACGGCGTCTAGAGAAC
Done.