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Table 2 Details of the regions of difference (RD) of lengths greater than 500 bp in the sequenced strains from Uruguay, as well as deletions found in PE/PPE-coding genes. Each RD is defined by an ID, and all deletions show the number of ORFs that cover, starting and ending coordinates, length, strains presenting these deletions and spoligotypes associated with them. Marked in bold are the RDs with more robust association to a given spoligotype

From: Whole genome sequencing of the monomorphic pathogen Mycobacterium bovis reveals local differentiation of cattle clinical isolates

ID Genes covered Start End Length Strains (MbURU-) Spoligotypes associated
Previously described RD3 14, Mb 1598-Mb1611c 1,764,652 1,773,872 9221 001, 002, 003, 005, 007, 0010, 012, 014, 016 SB0145, SB0130
  RDbov145a 2, Mb0026-Mb0027 29,475 30,078 604 001, 003, 005, 014, 016, 019, 020 SBO145
  RDbovI 31 5, Mb0677c-Mb0681c 756,105 757,654 1550 010 X
  RDbov145b 1, serA2 824,054 824,599 546 001, 003, 005, 014, 016, 019, 020 SB0145
  RDbov145c 2, Mb0930-Mb0931 1,009,480 1,010,927 1448 001, 003, 005, 014, 016, 019, 020 SB0145
  RDbovI 072 7, Mb1908-Mb1914c 2,116,213 2,122,816 6604 006 SB1072
  RDbovI 32 1, rmlB2 3,832,661 3,833,913 1253 007 X
  RDbov133 2, bisC-Mb1478c 1,616,260 1,619,455 3196 012 X
  RDbov134 1, Mb3756 4,115,825 4,116,744 920 012 X
  RDbov130a 1, Mb3923c 4,310,701 4,311,694 994 002, 007, 010, 012, 017, 018 SB0130
PE/PPE 1, PE_PGRS19 1,189,852 1,190,034 183 001, 003, 005, 014, 016, 019, 020 SB0145
1, PE_PGRS20 1,192,321 1,192,742 422 001, 003, 005, 014, 016, 019, 020 SB0145
1, PE_PGRS24 1,486,342 1,486,528 187 001, 003, 005, 014, 016, 019, 020 SB0145
1, PPE30 2,033,505 2,033,624 120 002, 007, 010, 012, 017, 018 SB0130
1, PE_PGRS42d 2,762,816 2,762,980 165 004, 008, 009, 011, 013, 015, 021, 022, 023 SB0140, SB0274
1, PE_PGRS50b 3,691,479 3,691,697 219 004, 006, 008, 009, 011, 013, 015, 021, 022, 023 SB0140, SB0274, SB1072
1, PE_PGRS50b 3,694,231 3,694,311 81 006 SB1072
1, PE_PGRS51 3,733,072 3,733,247 176 001, 003, 005, 014, 016, 019, 020 SB1045