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Table 1 Genomic features and Predicted insertion sequence elements of S. flexneri (FC906) and S. sonnei (FC1653) by hybrid assembly approach

From: Complete genome analysis of clinical Shigella strains reveals plasmid pSS1653 with resistance determinants: a triumph of hybrid approach

  S. flexneri (FC906) S. sonnei (FC1653)
Genomic features
 Length 4,655,489 bp 4,807,231 bp
 Coverage 278× 174×
 Contigs 1 (chromosome) 4 (1 chromosome, 3 plasmid)
 Total genes 4770 4932
 Total CDS 4637 4806
 Total pseudo genes 735 857
 tRNAs 104 95
 rRNAs 22 22
 GC content 50.8 51.0
 Virulence factor (VFDB) 66 57
 Resistance (CARD) 90 86
 Sequence type 245 152
IS family ORFs distributiona Different IS Total IS ORFs distributiona Different IS Total IS
Insertion sequence elements predicted using ISsaga
 IS4_ssgr_IS4 [2/42/0/0] 1 44 [1/85/0/0] 1 86
 ISL3 [0/1/0/3] 4 4 [0/0/0/1] 1 1
 ISNCY_ssgr_ISPlu15 [4/0/0/0] 4 4 [2/1/0/2] 5 5
 IS4_ssgr_IS50 [0/0/0/1] 1 1 [0/0/0/1] 1 1
 IS3_ssgr_IS3 [45/126/0/0] 4 105 [26/132/0/1] 1 94
 IS1 [107/14/0/0] 2 114 [119/60/0/0] 2 172
 IS66 [6/22/0/0] 2 14 [3/3/0/0] 1 2
 IS3_ssgr_IS150 [2/3/0/0] 1 3 [0/1/0/0] 1 1
 IS200_IS605 [0/6/0/0] 2 6 [0/4/0/0] 2 4
 IS91 [0/11/0/0] 3 11 [1/0/0/0] 1 1
 IS3_ssgr_IS2 [22/52/0/0] 1 44 [26/46/0/0] 2 45
 IS3_ssgr_IS51 [19/31/0/1] 2 32 [5/6/0/1] 2 7
 IS110_ssgr_IS1111 [1/0/0/0] 1 1 [5/11/0/0] 2 16
 IS110 [3/2/0/0] 1 5 [1/13/0/0] 1 14
 ISAs1 [2/5/0/0] 1 7
 IS21 [13/68/0/0] 2 50
 IS630 [1/28/0/0] 1 29
 IS256 [0/1/0/0] 1 1
 Tn3 [1/0/0/0] 1 1
 IS4_ssgr_IS10 [1/0/0/0] 1 1
  1. aComplete/partial/pseudogene/unknown