Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014573.1 Corchorus olitorius cultivar O-4 contig14606, 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: 14549
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35


Found at i:5141 original size:21 final size:21

Alignment explanation


    Indices: 5115--5156  Score: 84
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       5105 TTTGTGGCTT

                                 
       5115 TTCAACTACTTGGCATTGCAC
          1 TTCAACTACTTGGCATTGCAC

                                 
       5136 TTCAACTACTTGGCATTGCAC
          1 TTCAACTACTTGGCATTGCAC

       5157 AATTGTTGTT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33


Consensus pattern (21 bp):   
TTCAACTACTTGGCATTGCAC

Found at i:5303 original size:3 final size:3

Alignment explanation


    Indices: 5276--5320  Score: 54
    Period size: 3  Copynumber: 15.0  Consensus size: 3

       5266 TTTGCAGCCT

                 *        *       *   *                                
       5276 CAG CGG CAG CAA CAG CAA CAA CAG CAG CAG CAG CAG CAG CAG CAG
          1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG

       5321 GACCAGCAAG


Statistics
Matches: 36,  Mismatches: 6, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
   3   36  1.00

ACGTcount: A:0.38, C:0.33, G:0.29, T:0.00


Consensus pattern (3 bp):   
CAG

Found at i:13095 original size:15 final size:15

Alignment explanation


    Indices: 13075--13104  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

      13065 TTATTTTATT

                    *      
      13075 TAATAATTTAATTAA
          1 TAATAATTAAATTAA

                           
      13090 TAATAATTAAATTAA
          1 TAATAATTAAATTAA

      13105 AAAAAAGGGA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43


Consensus pattern (15 bp):   
TAATAATTAAATTAA
Done.