From: Genome-wide characterization of simple sequence repeats in cucumber (Cucumis sativus L.)
 | Cucumber | Microsatellite density (SSR/Mbp) |  |  | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sequence type | Count | Rel. freq. (%) | Mean repeat number | Density (SSR/Mb) | Mt | Gm | Pt | At | Vv | Oz | Sb | All species mean | T-test statistics ( T , P )§ |
   SSR type |  |  |  |  |  |  |  |  |  |  |  |  |  |
Genomic | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
   Dinucleotide | 29,651 | 26.5 | 9.6 | 146.0 | 61.5 | 74.6 | 132.6 | 78.7 | 117.2 | 100.1 | 51.6 | 95.3* | (2.57, 0.022) |
   Trinucleotide | 28,645 | 25.6 | 4.9 | 141.1 | 97.0 | 103.1 | 132.2 | 146.6 | 115.8 | 220.1 | 108.5 | 133.0* | (2.27, 0.039) |
   Tetranucleotide | 33,348 | 29.8 | 3.2 | 164.2 | 102.8 | 97.5 | 144.9 | 93.2 | 171.3 | 132.7 | 105.4 | 126.5* | (2.86, 0.013) |
   Pentanucleotide | 11,038 | 9.8 | 3.2 | 54.4 | 40.0 | 27.2 | 62.1 | 32.0 | 58.0 | 45.8 | 22.5 | 42.8 | n.s. |
   Hexanucleotide | 6,290 | 5.6 | 3.3 | 31.0 | 14.4 | 16.8 | 26.9 | 13.6 | 29.3 | 27.4 | 27.5 | 23.4 | n.s. |
   Heptanucleotide | 2,337 | 2.1 | 3.3 | 11.5 | 2.5 | 7.1 | 7.3 | 5.8 | 12.4 | 2.5 | 1.9 | 6.3 | n.s. |
   Octanucleotide | 764 | 0.7 | 3.2 | 3.8 | 0.3 | 0.4 | 1.0 | 0.7 | 2.8 | 0.8 | 0.2 | 1.2 | n.s. |
   Total/mean | 112,073 | 100 | 5.3 | 551.9 | 318.4 | 326.7 | 508.3 | 370.5 | 506.9 | 529.4 | 317.6 | 428.5 | n.s. |
   Total seq. (Mbp)‡ |  |  |  | 203.1 | 109.5 | 242.8 | 307.8 | 119.2 | 303.1 | 370.8 | 738.5 |  |  |
   GC content (%) |  |  |  | 32.3 | 35.2 | 36.6 | 33.3 | 36.0 | 34.4 | 43.6 | 43.9 |  |  |
EST-clustered †|  |  |  |  |  |  |  |  |  |  |  |  |  |
   Dinucleotide | 1,413/2,305 | 16.3/14.8 | 7.6/8.3 | 75.0/54.8 | 36.6 | 81.1 | 86.6 | 47.8 | 40.7 | 57.9 | 52.1 | 59.7 |  |
   Trinucleotide | 3,685/7,560 | 42.6/48.5 | 4.9/5.0 | 195.5/179.7 | 160.0 | 179.9 | 177.4 | 231.8 | 108.4 | 485.7 | 366.3 | 238.1 |  |
   Tetranucleotide | 1,892/2,916 | 21.9/18.7 | 3.2/3.3 | 100.4/69.3 | 74.5 | 81.2 | 91.6 | 50.9 | 53.3 | 107.3 | 125.5 | 85.6 |  |
   Pentanucleotide | 807/978 | 9.3/6.3 | 3.3/3.4 | 42.8/23.3 | 25.9 | 27.5 | 30.2 | 12.4 | 17.4 | 41.6 | 44.1 | 30.2 |  |
   Hexanucleotide | 635/1,519 | 7.3/9.7 | 3.3/3.4 | 33.7/36.1 | 25.9 | 29.2 | 34.1 | 13.4 | 22.1 | 44.6 | 56.5 | 32.4 |  |
   Heptanucleotide | 162/230 | 1.9/1.5 | 3.3/3.3 | 8.6/5.5 | 1.7 | 3.6 | 4.0 | 0.9 | 4.2 | 1.9 | 1.4 | 3.3 |  |
   Octanucleotide | 52/95 | 0.6/0.6 | 3.3/3.2 | 2.8/2.3 | 0.2 | 0.4 | 0.8 | 0.7 | 1.0 | 0.2 | 0.2 | 0.8 |  |
   Total/mean | 8,646/15,603 | 100/100 | 4.7/4.7 | 458.7/370.9 | 324.9 | 403.0 | 424.7 | 357.8 | 247.3 | 739.3 | 646.1 | 450.2 |  |
   Total seq. (Mbp)‡ |  |  |  | 18.8/42.1 | 51.9 | 51.3 | 67.6 | 74.8 | 81.4 | 158.2 | 32.4 |  |  |
   GC content (%) |  |  |  | 39.5/41.4 | 39.6 | 41.5 | 42.4 | 42.7 | 43.9 | 51.5 | 52.0 |  |  |
EST-bulked | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â |
   Dinucleotide | 3,515 | 12.9 | 7.5 | 55.2 |  |  |  |  |  |  |  |  |  |
   Trinucleotide | 12,151 | 44.6 | 4.8 | 190.9 |  |  |  |  |  |  |  |  |  |
   Tetranucleotide | 5,798 | 21.3 | 3.2 | 91.1 |  |  |  |  |  |  |  |  |  |
   Pentanucleotide | 3,037 | 11.1 | 3.2 | 47.7 |  |  |  |  |  |  |  |  |  |
   Hexanucleotide | 2,155 | 7.9 | 3.2 | 33.9 |  |  |  |  |  |  |  |  |  |
   Heptanucleotide | 447 | 1.6 | 3.6 | 7.0 |  |  |  |  |  |  |  |  |  |
   Octanucleotide | 155 | 0.6 | 3.2 | 2.4 |  |  |  |  |  |  |  |  |  |
   Total/mean | 27,258 | 100 | 4.5 | 428.2 |  |  |  |  |  |  |  |  |  |
   Total seq. (Mbp)‡ |  |  |  | 63.7 |  |  |  |  |  |  |  |  |  |
   GC content (%) |  |  |  | 40.3 |  |  |  |  |  |  |  |  |  |