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Table 1 Summary results assembly, annotation and mapping

From: Draft genomes of Shigella strains used by the STOPENTERICS consortium

Name in the study True name, country of infection, year of isolation Sample run accession Sample accession De novo assembly genomic size Contigs number Average Contigs Length N50 CDS detected Reference used for mapping Number of SNPs detected % of reference mapped
Ss_53G Korea, 2000 ERS387232 ERR477376 4,698,814 402 11,688.59 29,856 4,495 Ss 53G 2 92.86
Ss_53G_p Korea, 2000 ERS387243 ERR477387 4,832,559 406 11,902.85 28,177 4,655 Ss 53G 2 92.80
Ss_25931 Unknown ERS387235 ERR477379 4,799,852 426 11,267.26 27,765 4,578 Ss 53G 630 89.51
Sf 1a_Sh07.3008 Sh07-3008, Cameroon, 2007 ERS445026 ERR573382 4,139,080 265 15,619.17 34,771 4,044 Sf 2a 2457T 3,459 86.58
Sf 1b_Sh04.7434 Sh04-7432, Tunisia, 2004 ERS445024 ERR573380 4,402,078 314 14,019.36 34,552 4,342 Sf 2a 2457T 2,935 87.63
Sf 1b_Sh04.9462 Sh04-9462, Cameroon, 2004 ERS445025 ERR573381 4,272,358 280 15,258.42 34,756 4,206 Sf 2a 2457T 3,207 87.36
Sf 2a_2457T Japan, 1954 ERS387233 ERR477377 4,681,429 344 13,608.81 35,441 4,583 Sf 2a 2457T 195 93.72
Sf 2a_2457T_p Japan, 1954 ERS387242 ERR477386 4,697,211 343 13,694.49 35,151 4,605 Sf 2a 2457T 192 93.88
Sf 3a_6865_1 Unknown ERS387236 ERR477380 4,665,099 335 13,925.67 35,495 4,550 Sf 2a 2457T 7,543 86.79
Sf 3a_6865_2 Unknown ERS445023 ERR573379 4,704,030 330 14,254.64 35,991 4,580 Sf 2a 2457T 7,708 87.08
Sf 5a_M90T Unknown <1980 ERS387234 ERR477378 4,486,899 327 13,721.40 32,160 4,391 Sf 5a M90T 25 97.82
Sf 6_Sh10.5302_1 201005302, Madagascar, 2010 ERS387237 ERR477381 4,414,146 446 9,897.19 22,838 4,269 Sb Sb227 4,408 89.30
Sf 6_Sh10.5302_2 201005302, Madagascar, 2010 ERS445029 ERR573385 4,351,336 426 10,214.4 22,774 4,168 Sb Sb227 4,406 89.10
Sf 6_Sh10.3933 201003933, Nigeria, 2010 ERS387238 ERR477382 4,508,368 433 10,411.94 23,090 4,386 Sb Sb227 4,456 89.33
Sf 6_Sh10.8537 201008537, Egypt, 2010 ERS387239 ERR477383 4,524,547 425 10,645.99 23,238 4,398 Sb Sb227 4,451 89.77
Sf 6_Sh10.6306 201006306, India, 2010 ERS387240 ERR477384 4,481,178 439 10,207.69 23,066 4,367 Sb Sb227 4,467 89.44
Sf 6_Sh10.6237 201006237, Mexico, 2010 ERS387241 ERR477385 4,528,968 434 10,435.41 24,012 4,397 Sb Sb227 4,389 89.39
Sf 6_NCDC.2924-71 NCDC 2924-71, Unknown, 1971 ERS445027 ERR573383 4,392,208 413 10,634.89 22,784 4,246 Sb Sb227 4,288 89.66
Sf 6_Sc544 Unknown, <1977 ERS445028 ERR573384 4,430,667 415 10,676.31 22,494 4,302 Sb Sb227 4,296 88.82
Sf 6_Sh11.10088 201110088, France (Reunion Island), 2011 ERS445030 ERR573386 4,547,256 423 10,750.01 23,991 4,428 Sb Sb227 4,483 89.88