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Table 1 Genome properties. Reads were either mapped to the Cryptosporidium parvum IowaII reference genome or assembled de novo using Spades

From: Cryptosporidium as a testbed for single cell genome characterization of unicellular eukaryotes

  Total sequence (Mbp) Read length
(bp)
Mapped reads (%) Fraction of genome covered (%) Sequencing coverage
(X-fold +/− SD)
De Novo Genome Assembly Statistics MDA statistics
Size (% of reference) Longest contig (bp) NG50 Ct (h)a Effic-iencyb Yield (AU)c
Cell 1 920 2 × 300 99.8 % 94.7 % 90.3 ± 157 91.8 % 225 980 57 459 2.3 70 0.85
Cell 2 1366 2 × 300 99.9 % 93.8 % 127 ± 225 90.7 % 227 055 64 805 3.0 65 0.74
Cell 3 2013 2 × 300 99.8 % 87.8 % 169 ± 540 80.6 % 147 412 20 114 3.0 123 1.69
Cell 4 341 2 × 300 99.6 % 69.4 % 30.6 ± 79.4 60.0 % 67 943 1 513 2.8 99 0.69
Cell 5 1218 2 × 300 99.8 % 74.9 % 105 ± 307 66.3 % 119 204 4 309 3.3 91 0.56
Cell 6 1460 2 × 300 99.9 % 68.4 % 111 ± 509 57.1 % 73 330 1 398 2.3 97 2.17
Cell 7 1470 2 × 300 99.8 % 78.8 % 90.3 ± 304 67.6 % 203 151 5 364 2.8 102 0.60
Cell 8 1460 2 × 300 99.8 % 85.5 % 112 ± 284 77.5 % 117 185 11 229 2.3 192 1.52
Cell 9 1360 2 × 300 99.8 % 94.9 % 118 ± 194 91.6 % 547 655 65 774 3.3 44 0.50
Cell 10 1877 2 × 300 99.8 % 66.9 % 115 ± 767 49.6 % 57 954 687 3.5 72 0.60
Meta-genome 6273 2 × 250 84.2 % 97.8 % 535 ± 829 94.4 % 95 102 7 076 N.A. N.A. N.A.
  1. aThe number of hours to reach above the background fluorescence threshold
  2. bThe exponential amplification of DNA in the exponential amplification phase where a value of 100 % represents a doubling in DNA concentration every 15 min
  3. cThe total DNA fluorescence (arbitrary fluorescence units) at the end of the 16 h MD