Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023141.1 Corchorus olitorius cultivar O-4 contig23174, 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: 14581
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:9234 original size:38 final size:39

Alignment explanation


    Indices: 9186--9265  Score: 126
    Period size: 38  Copynumber: 2.1  Consensus size: 39

       9176 CCAAGCCGAA

                       *             *             
       9186 AAACGCCCCTTTATGGATACAAACCGAACCCGAAACTAC
          1 AAACGCCCCTTAATGGATACAAACCAAACCCGAAACTAC

                          *                        
       9225 AAAC-CCCCTTAATTGATACAAACCAAACCCGAAACTAC
          1 AAACGCCCCTTAATGGATACAAACCAAACCCGAAACTAC

               
       9263 AAA
          1 AAA

       9266 GATTGGACCG


Statistics
Matches: 38,  Mismatches: 3, Indels: 1
        0.90            0.07        0.02

Matches are distributed among these distances:
  38   34  0.89
  39    4  0.11

ACGTcount: A:0.44, C:0.33, G:0.09, T:0.15


Consensus pattern (39 bp):   
AAACGCCCCTTAATGGATACAAACCAAACCCGAAACTAC

Found at i:11345 original size:27 final size:27

Alignment explanation


    Indices: 11269--11347  Score: 115
    Period size: 27  Copynumber: 2.9  Consensus size: 27

      11259 AAGTGAACCT

                                  *     
      11269 AAAATGACCAAAATGCCCCT-GATCGTA
          1 AAAATGACCAAAATGCCCCTAGGT-GTA

            *         *                
      11296 CAAATGACCAGAATGCCCCTAGGTGTA
          1 AAAATGACCAAAATGCCCCTAGGTGTA

                                     
      11323 AAAATGACCAAAATGCCCCTAGGTG
          1 AAAATGACCAAAATGCCCCTAGGTG

      11348 ACCCTAATGC


Statistics
Matches: 46,  Mismatches: 5, Indels: 2
        0.87            0.09        0.04

Matches are distributed among these distances:
  27   44  0.96
  28    2  0.04

ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18


Consensus pattern (27 bp):   
AAAATGACCAAAATGCCCCTAGGTGTA
Done.