Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008309.1 Corchorus capsularis cultivar CVL-1 contig08330, 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: 17453
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34


Found at i:6690 original size:2 final size:2

Alignment explanation


    Indices: 6685--6712  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

       6675 AAAAAAAATT

                                                     
       6685 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       6713 CACTAAATGT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:9896 original size:78 final size:78

Alignment explanation


    Indices: 9806--9957  Score: 243
    Period size: 78  Copynumber: 1.9  Consensus size: 78

       9796 GTCTTTCCAG

                 *           *                 *                             
       9806 AAATATAATAGTTATAAGGATATTAGATTTAATTATATAAAAATAGAGTTTTTAGTTAAGTAAAA
          1 AAATAAAATAGTTATAAAGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTAAGTAAAA

                          
       9871 -TAGTAAAAAGGTA
         66 CTA-TAAAAAGGTA

                                     *                               *       
       9884 AAATAAAATAGTTATAAAGATATTATATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAA
          1 AAATAAAATAGTTATAAAGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTAAGTAAAA

                     
       9949 CTATAAAAA
         66 CTATAAAAA

       9958 CCTAAACAAT


Statistics
Matches: 68,  Mismatches: 5, Indels: 2
        0.91            0.07        0.03

Matches are distributed among these distances:
  78   66  0.97
  79    2  0.03

ACGTcount: A:0.52, C:0.01, G:0.12, T:0.36


Consensus pattern (78 bp):   
AAATAAAATAGTTATAAAGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTAAGTAAAA
CTATAAAAAGGTA
Done.