Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016322.1 Corchorus capsularis cultivar CVL-1 contig16343, 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: 11957
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31


Found at i:6567 original size:17 final size:17

Alignment explanation


    Indices: 6545--6578  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

       6535 GAATTGGCTA

                             
       6545 TGAATTTTTGAAGTTTC
          1 TGAATTTTTGAAGTTTC

                        *    
       6562 TGAATTTTTGAATTTTC
          1 TGAATTTTTGAAGTTTC

       6579 AAGAAGGGTG


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56


Consensus pattern (17 bp):   
TGAATTTTTGAAGTTTC

Found at i:7585 original size:33 final size:33

Alignment explanation


    Indices: 7538--7644  Score: 117
    Period size: 33  Copynumber: 3.2  Consensus size: 33

       7528 CGCCTAGCGA

                                  *           
       7538 TGGCCGGTTG-TGGCCGGACATGTCCAAGTCGCG
          1 TGGCCGG-TGATGGCCGGACATCTCCAAGTCGCG

               *             *       *       
       7571 TGGTCGGTGATGGCCGGGCATCTCCGAGTCGCG
          1 TGGCCGGTGATGGCCGGACATCTCCAAGTCGCG

                     *       * *       *    *
       7604 TGGCCGGTGTTGGCCGGTCTTCTCCAAATCGCA
          1 TGGCCGGTGATGGCCGGACATCTCCAAGTCGCG

                    
       7637 TGGCCGGT
          1 TGGCCGGT

       7645 TACTCGCACC


Statistics
Matches: 62,  Mismatches: 11, Indels: 2
        0.83            0.15        0.03

Matches are distributed among these distances:
  32    2  0.03
  33   60  0.97

ACGTcount: A:0.10, C:0.28, G:0.38, T:0.23


Consensus pattern (33 bp):   
TGGCCGGTGATGGCCGGACATCTCCAAGTCGCG
Done.