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Table 3 Reconstruction obtained by reduction to ILP for chromosome structures in Rhizobium spp.

From: Chromosome structures: reduction of certain problems with unequal gene content and gene paralogs to integer linear programming

Rhizobium_N324_CP013630 (l) *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE_2 rplY rpoH_1 rpsU_2 rpoE_3 rpsP rplS *rpoH_2 rplU (C)
Rhizobium_phaseoli_straiNN261_CP013580 (l) *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE2 rplY rpoH_1 rpsU_2 rpoE_3 rpsP rplS rpoH_2 rplU (C)
Rhizobium_N324_CP013630 – Rhizobium_phaseoli_N261_CP013580 *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE2 rplY rpoH_1 rpsU_2 rpoE_3 rpsP rplS rpoH_2 rplU (C)
Rhizobium_etli_CP001074 (l) *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE2 rplY rpoE_3 *rpoE_4 rpoH_1 rpsU_2 rpsP rplS rpoH_2 rplU (C)
Rhizobium_etli_CP001074Rhizobium_phaseoli_N261_CP013580 *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE_2 rplY rpoH_1 rpsU_2 rpoE_3 rpsP rplS rpoH_2 rplU (C)
Rhizobium_gallicum_CP006877 (l) *rpsA rpsO rplT rpsT rpoN rpoE_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE_2 rplY rpoH_1 *rpsU_1 rpsU_2 rpsP rplS *rpoH_2 rplU (C)
Rhizobium_etli_CP001074Rhizobium_gallicum_CP006877 *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE2 rplY rpoH_1 rpsU_2 rpsP rplS rpoH_2 rplU (C)
Rhizobium_NXC14_CP021030 (l) *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpoE_3 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE_2 rplY rpoH_1 rpsU_2 rpsP rplS rpoH_2 rplU (C)
Rhizobium_etli_CP001074Rhizobium_NXC14_CP021030 *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoE_2 rplY rpoH_1 rpsU_2 rpsP rplS rpoH_2 rplU (C)
Rhizobium_leguminosarum_AM236080 (l) *rpsA *rpsO rplT rpsT rpoN rpsU_1 *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD *rpoD *rpoZ rpoH_1 rpsU_2 rpoE_3 rplU (C)
Rhizobium_etli_CP001074Rhizobium_leguminosarum_AM236080 *rpsA *rpsO rplT rpsT rpoN rpoE_1 rpsU_1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoH_1 rpsU_2 rpoH_2 rplU (C)
Rhizobium_tropici_CIAT_899_CP004015 (l) *rpsA *rpsO rplT rpsT *rpoN *rplI *rpsR *rpsI *rplM rplK rplA rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rplV rpsC rplP rpsQ rplN rplX rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoH_1 *rpoH_2 rplU (C)
Rhizobium_etli_CP001074Rhizobium_tropici_CIAT_899_CP004015 *rpsA *rpsO rplT rpsT rpoN rpsU1 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD rpoH_1 rpsU_2 rpoH_2 rplU (C)
Rhizobium_IRBG74_HG518322 (l) *rpsO rplT rpsT *rpoN rpoZ *rpsR *rpsF *rpsI *rplM rpsB *rpsD *rplQ *rpoA *rpsK *rpsM *rplO *rpsE *rplR *rplF *rpsH *rpsN *rplE *rplX *rplN *rplP *rpsC *rplV *rpsS *rplB *rplW *rplD *rplC *rpsJ *rpsG *rpsL *rpoC *rpoB *rplL *rplJ *rplA *rplK *rpoD rplY rpoH_1 rpsP rplS *rplU (C) rpsU_1 *rpsU_2 rpsA (L)
Rhizobium_LPU83_HG916852 (l) rpsO rpsA rplT rpsT rpoN rpoZ *rplI *rpsR *rpsF rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ *rpsI *rplM rpsD *rpsB *rpoD rplY rpoH_1 rpsU_1 *rpsU_2 rpsU_3 rpsP rplS rpoH2 *rplU (C)
Rhizobium_IRBG74_HG518322Rhizobium_LPU83_HG916852 rpsO rpsA rplT rpsT rpoN rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsD *rpsB *rpoD rplY rpoH_1 rpsU_1 *rpsU_2 rpsU_3 rpsP rplS rpoH_2 *rplU (C)
Rhizobium_NT26_FO082820 (l) rpsO rpsA rplT *rpoN rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB rpsU_2 *rpsD *rpoD rplY rpoH_1 rpsU_1 rplU rpsP rplS *rpoH_2 (C)
Rhizobium_IRBG74_HG518322Rhizobium_NT26_FO082820 rpsO rpsA rplT rpsT rpoN rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD *rpoD rplY rpoH_1 rpsU_1 rpsP rplS rpoH_2 *rplU (C)
Tree root rpsO rpsA rplT rpsT rpoN rpsU_2 rpoZ *rplI *rpsR *rpsF *rpsI *rplM rplK rplA rplJ rplL rpoB rpoC rpsL rpsG rpsJ rplC rplD rplW rplB rpsS rplV rpsC rplP rpsQ rplN rplX rplE rpsN rpsH rplF rplR rpsE rplO rpsM rpsK rpoA rplQ rpsB *rpsD *rpoD rplY rpoH_1 rpsU_1 rpsP rplS rpoH_2 rplU (C)
  1. For other designations, see Tables 1 and 2