
seed used = 140016129

K12                                  ATG AGC TAC CCG TCG CTG TTC GCC CCG CTG GAT TTA GGT TTT ACC ACG TTA AAA AAC CGC GTG TTG ATG GGC TCA ATG CAC ACC GGG CTG GAG GAA TAC CCG GAC GGT GCC GAG CGG CTG GCA GCG TTT TAT GCC GAA CGC GCC CGT CAC GGC GTG GCG CTG ATT GTC AGC GGC GGC ATT GCA CCA GAT TTA ACA GGC GTT GGC ATG GAA GGT GGC GCA ATG CTC AAC GAC GCC AGC CAG ATC CCA CAC CAT CGC ACC ATT ACC GAA GCG GTA CAT CAG GAA GGC GGC AAA ATA GCC CTG CAA ATT TTG CAT ACC GGG CGC TAC AGC TAC CAA CCG CAT CTG GTC GCC CCG TCC GCA TTG CAG GCC CCC ATC AAC CGT TTC GTG CCC CAT GAG TTA AGC CAT GAA GAG ATC CTG CAA CTG ATC GAC AAT TTC GCC CGC TGC GCG CAA CTG GCG CGG GAG GCA GGA TAC GAC GGT GTA GAG GTG ATG GGT TCC GAA GGG TAT TTG ATC AAC GAA TTT CTG ACG CTG CGC ACC AAT CAG CGT AGT GAC CAG TGG GGC GGC GAT TAC CGC AAC CGG ATG CGA TTT GCC GTA GAA GTA GTG CGT GCG GTG CGC GAA CGC GTC GGC AAC GAC TTC ATT ATT ATC TAC CGA CTG TCG ATG CTC GAC CTG GTC GAA GAC GGC GGG ACT TTT GCC GAA ACG GTA GAG CTG GCG CAG GCC ATT GAA GCG GCG GGC GCG ACC ATT ATC AAC ACC GGC ATT GGC TGG CAT GAA GCA CGT ATT CCG ACC ATT GCC ACG CCC GTG CCG CGC GGC GCA TTT AGC TGG GTC ACG CGC AAA CTG AAA GGC CAC GTC TCG CTG CCG CTG GTA ACC ACC AAC CGG ATT AAC GAT CCG CAG GTT GCC GAC GAT ATT CTC TCG CGC GGC GAT GCC GAT ATG GTA TCG ATG GCG CGA CCG TTT CTT GCT GAT GCG GAG CTG CTG TCA AAA GCG CAA TCG GGA CGA GCC GAT GAG ATC AAC ACT TGT ATT GGC TGC AAT CAG GCC TGT CTC GAT CAA ATC TTC GTT GGC AAA GTC ACC TCG TGC CTG GTG AAT CCT CGC GCC TGC CAC GAA ACC AAA ATG CCA ATC CTT CCC GCC GTG CAG AAA AAA AAT CTG GCG GTG GTC GGT GCG GGA CCT GCT GGG CTG GCG TTT GCC ATT AAC GCG GCG GCG CGT GGG CAT CAG GTA ACA TTG TTT GAC GCT CAT AGC GAG ATT GGC GGG CAG TTT AAT ATC GCC AAA CAG ATC CCC GGC AAA GAG GAG TTT TAC GAA ACG CTG CGC TAT TAC CGC CGG ATG ATC GAA GTG ACG GGC GTG ACG CTA AAA CTC AAT CAC ACC GTG ACG GCG GAT CAG TTA CAG GCT TTC GAT GAA ACG ATC CTC GCC AGT GGG ATC GTG CCG CGC ACT CCG CCC ATC GAC GGG ATC GAT CAT CCG AAG GTA TTG AGT TAT CTC GAT GTA CTG CGC GAC AAA GCG CCG GTT GGC AAC AAA GTT GCC ATC ATC GGT TGT GGC GGG ATT GGT TTT GAT ACG GCG ATG TAT TTA AGT CAG CCG GGC GAA TCC ACC AGC CAG AAT ATC GCC GGG TTC TGT AAT GAA TGG GGG ATC GAC AGT AGC CTA CAA CAG GCT GGT GGC TTA AGC CCG CAG GGA ATG CAG ATC CCC CGT AGC CCA CGG CAG ATT GTG ATG CTC CAG CGC AAA GCC AGC AAA CCA GGA CAG GGG TTA GGC AAA ACC ACC GGC TGG ATC CAT CGC ACC ACC CTG CTC TCG CGG GGT GTG AAA ATG ATC CCA GGC GTA AGT TAT CAG AAG ATT GAC GAT GAC GGG CTG CAT GTG GTG ATC AAC GGC GAA ACG CAG GTA TTA GCA GTG GAC AAT GTG GTG ATC TGC GCA GGG CAA GAG CCA AAC CGC GCG CTG GCG CAA CCG CTG ATT GAT AGC GGG AAA ACG GTG CAT TTA ATT GGC GGC TGC GAT GTG GCT ATG GAG CTG GAC GCA CGA CGG GCA ATT GCC CAG GGA ACA CGG CTG GCG CTG GAG ATT 
S2457T                               ATG AGC TAC CCG TCG CTG TTC GCC CCG CTG GAT TTA GGT TTT ACC ACG TTA AAA AAC CGC GTG TTG ATG GGT TCA ATG CAC ACC GGG CTG GAG GAA TAC CCG GAC GGT GCT GAA CGG CTG GCT GCG TTT TAT GCC GAA CGC GCC CGT CAC GGC GTG GCG CTG ATT GTC AGC GGC GGC ATT GCA CCA GAT TTA ACA GGC GTT GGC ATG GAA GGT GGC GCA ATG CTC AAC GAC GCC AGC CAG ATC CCA CAC CAT CGC ACC ATT ACC GAA GCC GTA CAT CAG GAA GGC GGC AAA ATC GCC CTG CAA ATT TTG CAT ACC GGG CGC TAC AGC TAC CAA CCG CAT CTG GTC GCA CCG TCC GCA TTG CAG GCC CCC ATC AAC CGT TTC GTT CCT CAC GAA CTC ACC CAT GAA GAG ATC CTG CAA CTG ATC GAC GAT TTC GCC CGC TGC GCG CAA CTG GCG CGG GAG GCC GGA TAC GAT GGC GTC GAA GTG ATG GGC TCT GAA GGG TAT TTG ATC AAC GAA TTT CTG ACG CTG CGC ACC AAT CAG CGT AGT GAC CAG TGG GGC GGC GAT TAC CGC AAC CGG ATG CGA TTT GCC GTA GAA GTA GTG CGT ACG GTG CGC GAA CGC GTC GGC AAC GAC TTC ATT ATT ATT TAC CGG TTG TCG ATG CTC GAC CTA GTC GAA GGC GGC GGC ACT TTT GCC GAA ACG GTA GAA CTG GCG CAG GCC ATT GAA GCG GCG GGC GCG ACC ATT ATC AAC ACC GGA ATA GGC TGG CAC GAA GCG CGG ATT CCG ACC ATC GCC ACG CCC GTG CCG CGC GGC GCA TTT AGC TGG GTC ACG CGC AAA CTG AAA GGC CAC GTC TCG CTG CCG CTG GTA ACC ACC AAC CGG ATT AAC GAT CCG CAG GTT GCC GAC GAT ATT CTC TCG CGC GGC GAT GCC GAT ATA GTA TCG ATG GCG CGA CCG TTT CTC GCG GAT GCG GAA CTG CTG TCA AAA GCG CAA TCA GGG CGA GCC GAT GAG ATC AAC ACT TGT ATT GGC TGC AAC CAG GGC TGC CTC GAT CAG ATC TTC GTT GGC AAA GTC ACC TCG TGC CTG GTG AAT CCT CGC GCC TGC CAC GAA ACC AAA ATG CCA ATC CTT CCC GCC GTG CAG AAA AAA AAT CTG GCG GTG GTC GGC GCT GGA CCT GCT GGG CTG GCG TTT GCC ATT AAC GCG GCG GCG CGT GGG CAT CAG GTA ACA TTG TTT GAT GCG CAC AGC GAG ATC GGC GGG CAG TTT AAT ATC GCC AAA CAG ATC CCC GGC AAA GAG GAG TTT TAC GAA ACG CTG CGC TAC TAC CGC CGG ATG ATC GAA GTG ACG GGC GTG ACG CTG AAA CTC AAT CAC ACC GTG ACG GCG GAT CAG TTA CAG GCG TTC GAT GAA ACG ATC CTC GCC AGT GGG ATC GTG CCG CGT GTT CCG CCT ATC GAC GGG ATC GAT CAT CCG AAG GTA TTG AGT TAT CTC GAT GTA CTG CGC GAC AAA GCG CCG GTA GGC AAC AAG GTT GCC ATC ATC GGT TGT GGC GGG ATT GGT TTT GAT ACG GCG ATG TAT TTA AGT CAG CCG GGC GAA TCC ACC AGC CAG AAT ATC GCC AGG TTC TGT AAT GAG TGG GGG ATC GAC AGC AGC CTA CAA CAG GCT GGT GGC TTA AGC CCG CAG GGA ATG CAG ATC CCG CGT AGC CCA CGG CAA ATT GTG ATG CTC CAG CGC AAA GCC AGC AAA CCG GGA CAG GGG TTA GGC AAA ACC ACC GGC TGG ATC CAT CGC ACC ACC CTG CTC TCG CGG GGT GTG AAA ATG ATC CCA GGC GTA AGT TAT CAG AAG ATT GAC GAT GAC GGG CTG CAT GTG GTG ATC AAC GGC GAA ACG CAG GTA TTA GCA GTG GAC AAT GTG GTG ATC TGC GCA GGG CAA GAG CCA AAC CGC GCG CTG GCG CAA CCG CTG ATT GAT AGC GGG AAA ACT GTG CAT TTA ATT GGC GGC TGC GAT GTG GCT ATG GAG CTG GAC GCA CGA CGG GCA ATT GCC CAG GGA ACA CGG CTG GCG CTG GAG ATT 
Shig4337                             ATG AGC TAC CCG TCG CTG TTC GCC CCG CTG GAT TTA GGT TTT ACC ACG TTA AAA AAC CGC GTG TTG ATG GGT TCA ATG CAC ACC GGG CTG GAG GAA TAC CCG GAC GGT GCT GAA CGG CTG GCT GCG TTT TAT GCC GAA CGC GCC CGT CAC GGC GTG GCG CTG ATT GTC AGC GGC GGC ATT GCA CCA GAT TTA ACA GGC GTT GGC ATG GAA GGT GGC GCA ATG CTC AAC GAC GCC AGC CAG ATC CCA CAC CAT CGC ACC ATT ACC GAA GCC GTA CAT CAG GAA GGC GGC AAA ATC GCC CTG CAA ATT TTG CAT ACC GGG CGC TAC AGC TAC CAA CCG CAT CTG GTC GCA CCG TCC GCA TTG CAG GCC CCC ATC AAC CGT TTC GTT CCT CAC GAA CTC ACC CAT GAA GAG ATC CTG CAA CTG ATC GAC GAT TTC GCC CGC TGC GCG CAA CTG GCG CGG GAG GCC GGA TAC GAT GGC GTC GAA GTG ATG GGC TCT GAA GGG TAT TTG ATC AAC GAA TTT CTG ACG CTG CGC ACC AAT CAG CGT AGT GAC CAG TGG GGC GGC GAT TAC CGC AAC CGG ATG CGA TTT GCC GTA GAA GTA GTG CGT ACG GTG CGC GAA CGC GTC GGC AAC GAC TTC ATT ATT ATT TAC CGG TTG TCG ATG CTC GAC CTA GTC GAA GGC GGC GGC ACT TTT GCC GAA ACG GTA GAA CTG GCG CAG GCC ATT GAA GCG GCG GGC GCG ACC ATT ATC AAC ACC GGA ATA GGC TGG CAC GAA GCG CGG ATT CCG ACC ATC GCC ACG CCC GTG CCG CGC GGC GCA TTT AGC TGG GTC ACG CGC AAA CTG AAA GGC CAC GTC TCG CTG CCG CTG GTA ACC ACC AAC CGG ATT AAC GAT CCG CAG GTT GCC GAC GAT ATT CTC TCG CGC GGC GAT GCC GAT ATA GTA TCG ATG GCG CGA CCG TTT CTC GCG GAT GCG GAA CTG CTG TCA AAA GCG CAA TCA GGG CGA GCC GAT GAG ATC AAC ACT TGT ATT GGC TGC AAC CAG GGC TGC CTC GAT CAG ATC TTC GTT GGC AAA GTC ACC TCG TGC CTG GTG AAT CCT CGC GCC TGC CAC GAA ACC AAA ATG CCA ATC CTT CCC GCC GTG CAG AAA AAA AAT CTG GCG GTG GTC GGC GCT GGA CCT GCT GGG CTG GCG TTT GCC ATT AAC GCG GCG GCG CGT GGG CAT CAG GTA ACA TTG TTT GAT GCG CAC AGC GAG ATC GGC GGG CAG TTT AAT ATC GCC AAA CAG ATC CCC GGC AAA GAG GAG TTT TAC GAA ACG CTG CGC TAC TAC CGC CGG ATG ATC GAA GTG ACG GGC GTG ACG CTG AAA CTC AAT CAC ACC GTG ACG GCG GAT CAG TTA CAG GCG TTC GAT GAA ACG ATC CTC GCC AGT GGG ATC GTG CCG CGT GTT CCG CCT ATC GAC GGG ATC GAT CAT CCG AAG GTA TTG AGT TAT CTC GAT GTA CTG CGC GAC AAA GCG CCG GTA GGC AAC AAG GTT GCC ATC ATC GGT TGT GGC GGG ATT GGT TTT GAT ACG GCG ATG TAT TTA AGT CAG CCG GGC GAA TCC ACC AGC CAG AAT ATC GCC AGG TTC TGT AAT GAG TGG GGG ATC GAC AGC AGC CTA CAA CAG GCT GGT GGC TTA AGC CCG CAG GGA ATG CAG ATC CCG CGT AGC CCA CGG CAA ATT GTG ATG CTC CAG CGC AAA GCC AGC AAA CCG GGA CAG GGG TTA GGC AAA ACC ACC GGC TGG ATC CAT CGC ACC ACC CTG CTC TCG CGG GGT GTG AAA ATG ATC CCA GGC GTA AGT TAT CAG AAG ATT GAC GAT GAC GGG CTG CAT GTG GTG ATC AAC GGC GAA ACG CAG GTA TTA GCA GTG GAC AAT GTG GTG ATC TGC GCA GGG CAA GAG CCA AAC CGC GCG CTG GCG CAA CCG CTG ATT GAT AGC GGG AAA ACT GTG CAT TTA ATT GGC GGC TGC GAT GTG GCT ATG GAG CTG GAC GCA CGA CGG GCA ATT GCC CAG GGA ACA CGG CTG GCG CTG GAG ATT 
CFT073                               ATG AGC TAC CCG TCG CTG TTC GCC CCG CTG GAT TTA GGT TTT ACC ACG TTA AAA AAC CGC GTG TTG ATG GGT TCA ATG CAC ACC GGG CTG GAG GAA TAC CCG GAC GGC GCT GAA CGG CTG GCA GCG TTT TAT GCC GAA CGC GCC CGT CAC GGC GTG GCG TTG ATT GTC AGC GGC GGT ATC GCA CCA GAT TTA ACA GGC GTT GGC ATG GAA GGC GGT GCA ATG CTC AAT GAC GCC AGC CAG ATC CCA CAC CAT CGC ACC ATT ACC GAA GCC GTA CAT CAG GAA GGC GGC AAA ATC GCC CTG CAA ATT TTG CAT ACC GGG CGC TAC AGC TAC CAA CCG CAT CTG GTC GCT CCC TCC GCA TTG CAG GCC CCC ATC AAC CGT TTC GTT CCT CAC GAA CTC ACC CAT GAA GAG ATC CTG CAA CTG ATC GAC GAT TTC GCC CAC TGC GCG CAA TTG GCA CGG GAG GCA GGA TAC GAC GGT GTA GAG GTG ATG GGG TCC GAA GGG TAT TTG ATC AAC GAA TTT CTG ACG CTG CGC ACC AAT CAG CGT AGT GAC CAG TGG GGC GGC GAT TAC CGC AAC CGG ATG CGG TTT GCC GTA GAA GTA GTG CGT GCG GTG CGC GAA CGT GTC GGC AAC GAC TTC ATT ATT ATC TAC CGA CTG TCG ATG CTC GAC CTG GTC GAA GGC GGC GGT ACT TTT GCC GAA ATG GTA GAG CTG GCG CAG GCC ATT GAA GCG GCG GGC GCG ACC ATT ATC AAC ACC GGC ATT GGC TGG CAT GAA GCA CGT ATT CCG ACC ATT GCC ACG CCC GTG CCG CGC GGT GCC TTT AGC TGG GTC ACG CGC AAA CTG AAA GGC CAC GTT TCG CTG CCG CTG GTG ACC ACC AAC CGG ATT AAC GAT CCG CAG GTT GCC GAC GAT ATT CTC TCG CGC GGC GAT GCC GAT ATG GTA TCG ATG GCG CGA CCG TTT CTT GCT GAT GCG GAA CTG CTG TCA AAA GCG CAA TCG GGA CGA GCC GAT GAG ATC AAC ACT TGT ATT GGC TGC AAC CAG GCC TGT CTC GAT CAG ATC TTC GTT GGC AAA GTC ACC TCG TGC CTG GTG AAT CCT CGC GCC TGC CAT GAA ACC AAA ATG CCA ATC CTT CCT GCC GTG CAG AAA AAA AAT CTG GCG GTG GTC GGT GCG GGA CCT GCT GGG CTG GCG TTT GCC ATT AAC GCG GCG GCG CGT GGG CAT CAG GTA ACA TTG TTT GAT GCG CAC AGC GAG ATC GGC GGG CAG TTT AAT ATC GCC AAA CAG ATC CCC GGC AAA GAG GAG TTT TAC GAA ACG CAG CGC TAT TAC CGC CGG ATG ATC GAA GTG ACG GGT GTG ACG CTA AAA CTC AAT CAC ACC GTG ACA GCG GAT CAG TTA CAG GCG TTC GAT GAA ACG ATC CTC GCC AGT GGG ATC GTG CCG CGC GTT CCG CCT ATC GAC GGG ATC GAT CAT CCG AAT GTA TTG AGT TAT CTC GAT GTA CTG CGC GAC AAA GCG CCG GTG GGC AAC AAA GTT GCC ATC ATC GGT TGT GGC GGA ATT GGT TTT GAT ACG GCG ATG TAT TTA AGT CAG CCG GGC GAA TCC ACC AGC CAG AAT ATC GCC GGG TTC TGT AAT GAG TGG GGA ATC GAC AGT AGC CTG CAA CAG GCC GGA GGT TTG AGT CCG CAA GGC ATG CAG ATC CCC CGT AGC CCA CGG CAG ATT GTG ATG CTC CAG CGC AAA GCC AGC AAA CCA GGA CAA GGG TTA GGC AAA ACC ACC GGC TGG ATC CAT CGC ACC ACC CTG CTC TCA CGC GGC GTG AAA ATG ATC CCA GGC GTA AGT TAC CAG AAG ATC GAC GAT GAC GGG CTG CAT GTA GTG ATC AAC GGC GAA ACG CAG GTA TTA GCA GTG GAC AAT GTG GTG ATC TGC GCG GGG CAG GAG CCA AAC CGC GCA TTG GCG CAA CCG CTG ATT GAT AGT GGG AAA ACT GTG CAT TTA ATT GGC GGC TGC GAT GTA GCT ATG GAG CTG GAC GCA CGG CGG GCA ATT GCC CAG GGA ACA CGG CTG GCG CTA GAG ATT 
O157                                 ATG AGC TAC CCG TCG CTG TTC GCC CCG CTG GAT TTA GGT TTT ACC ACG TTA AAA AAC CGC GTG TTG ATG GGT TCA ATG CAC ACC GGG CTG GAG GAA TAC CCG GAC GGT GCT GAA CGG CTG GCA GCG TTT TAT GCC GAA CGC GCC CGT CAC GGC GTG GCG CTG ATT GTT AGC GGC GGC ATT GCA CCA GAT TTA ACA GGC GTT GGC ATG GAA GGC GGC GCA ATG CTC AAT GAC GCC AGC CAG ATC CCA CAC CAT CGC ACC ATT ACC GAA GCG GTA CAT CAG GAA GGC GGC AAA ATA GCC CTG CAA ATT TTG CAT ACC GGG CGC TAC AGC TAC CAA CCG CAT CTG GTC GCA CCG TCC GCA TTG CAG GCC CCC ATC AAC CGT TTC GTT CCT CAT GAA CTC ACC CAT GAA GAG ATC CTG CAA CTG ATC GAC GAT TTC GCC CGC TGC GCG CAA CTG GCA CGG GAG GCA GGA TAC GAC GGT GTA GAG GTA ATG GGT TCC GAA GGG TAT TTG ATC AAC GAA TTT CTG ACG CTG CGC ACC AAT CAG CGC AGT GAC CAG TGG GGC GGC GAT TAC CAC AAC CGG ATG CGG TTT GCC GTT GAA GTG GTG AGT GCG GTA CGC GAA CGC GTT GGC AAC GAC TTC ATT ATT ATC TAC CGA CTG TCG ATG CTC GAC CTG GTC GAA GGC GGC GGG ACT TTT GCC GAA ACG GTA GAG CTG GCG CAG GCC ATT GAA GCG GCG GGC GCG ACC ATT ATC AAC ACC GGC ATT GGC TGG CAT GAA GCG CGT ATT CCG ACC ATC GCC ACG CCC GTG CCA CGC GGC GCA TTT AGC TGG GTC ACG CGC AAA CTG AAA GGT CAC GTC TCG CTG CCG CTG GTG ACC ACC AAC CGG ATT AAC GAT CCG CAG GTT GCC GAC GAT ATT CTC TCG CGC GGC GAT GCC GAT ATG GTA TCG ATG GCG CGA CCG TTT CTT GCG GAT GCG GAA CTG CTG TCA AAA GCG CAA TCA GGG CGA GCC GAT GAG ATC AAC ACC TGC ATT GGC TGC AAC CAG GCG TGT CTC GAT CAG ATC TTC GTT GGC AAG GTC ACC TCG TGT CTG GTG AAT CCT CGC GCC TGC CAT GAA ACC AAA ATG CCG ATC CTT CCC GCC ATG CAG AAA AAA AAT CTG GCG GTG GTC GGT GCG GGA CCT GCT GGG CTG GCG TTT GCC ATT AAC GCG GCG GCG CGT GGT CAT CAG GTA ACG TTG TTT GAC GCG CAC AGT GAG ATC GGC GGG CAG TTT AAT ATC GCC AAA CAG ATC CCC GGC AAA GAG GAG TTT TAC GAA ACG CTG CGC TAT TAC CGC CGG ATG ATC GAA GTG ACG GGC GTG ACG CTA AAA CTC AAT CAC ACC GTG ACG GCG GAT CAG TTA CAG GCG TTC GAT GAA ACG ATC CTC GCC AGT GGG ATC GTG CCG CGC ACT CCG CCC ATC GAC GGG ATC GAT CAT CCG AAG GTA TTG AGT TAT CTC GAT GTA CTG CGC GAC AAA GCG CCG GTG GGC AAC AAA GTT GCC ATC ATC GGT TGT GGC GGG ATT GGT TTT GAT ACG GCG ATG TAT TTA AGT CAG CCG GGC GAA TCC ACC AGC CAG AAT ATC GCC GGG TTC TGT AAT GAA TGG GGG ATC GAC AGC AGC CTA CAA CAG GCT GGT GGC TTA AGC CCG CAG GGA ATG CAG ATC CCG CGT AGC CCA CGG CAG ATT GTG ATG CTC CAG CGC AAA GCC AGC AAA CCG GGA CAG GGG TTA GGC AAA ACC ACC GGC TGG ATC CAT CGC ACC ACC CTG CTC TCG CGG GGT GTG AAA ATG ATC CCA GGC GTA AGT TAT CAG AAG ATT GAC GAT GAC GGG CTG CAT GTG GTG ATC AAC GGC GAA ACG CAG GTA TTA GCA GTG GAC AAT GTG GTG ATC TGC GCA GGG CAA GAG CCA AAC CGC GCA TTG GCG CAG CCG CTG ATT GAT AGC GGG AAA ACG GTG CAT TTA ATT GGC GGC TGC GAT GTG GCT ATG GAG CTG GAC GCA CGA CGG GCA ATT GCC CAG GGA ACA CGG CTG GCG CTG GAG ATT 
EDL933                               ATG AGC TAC CCG TCG CTG TTC GCC CCG CTG GAT TTA GGT TTT ACC ACG TTA AAA AAC CGC GTG TTG ATG GGT TCA ATG CAC ACC GGG CTG GAG GAA TAC CCG GAC GGT GCT GAA CGG CTG GCA GCG TTT TAT GCC GAA CGC GCC CGT CAC GGC GTG GCG CTG ATT GTT AGC GGC GGC ATT GCA CCA GAT TTA ACA GGC GTT GGC ATG GAA GGC GGC GCA ATG CTC AAT GAC GCC AGC CAG ATC CCA CAC CAT CGC ACC ATT ACC GAA GCG GTA CAT CAG GAA GGC GGC AAA ATA GCC CTG CAA ATT TTG CAT ACC GGG CGC TAC AGC TAC CAA CCG CAT CTG GTC GCA CCG TCC GCA TTG CAG GCC CCC ATC AAC CGT TTC GTT CCT CAT GAA CTC ACC CAT GAA GAG ATC CTG CAA CTG ATC GAC GAT TTC GCC CGC TGC GCG CAA CTG GCA CGG GAG GCA GGA TAC GAC GGT GTA GAG GTA ATG GGT TCC GAA GGG TAT TTG ATC AAC GAA TTT CTG ACG CTG CGC ACC AAT CAG CGC AGT GAC CAG TGG GGC GGC GAT TAC CAC AAC CGG ATG CGG TTT GCC GTT GAA GTG GTG AGT GCG GTA CGC GAA CGC GTT GGC AAC GAC TTC ATT ATT ATC TAC CGA CTG TCG ATG CTC GAC CTG GTC GAA GGC GGC GGG ACT TTT GCC GAA ACG GTA GAG CTG GCG CAG GCC ATT GAA GCG GCG GGC GCG ACC ATT ATC AAC ACC GGC ATT GGC TGG CAT GAA GCG CGT ATT CCG ACC ATC GCC ACG CCC GTG CCA CGC GGC GCA TTT AGC TGG GTC ACG CGC AAA CTG AAA GGT CAC GTC TCG CTG CCG CTG GTG ACC ACC AAC CGG ATT AAC GAT CCG CAG GTT GCC GAC GAT ATT CTC TCG CGC GGC GAT GCC GAT ATG GTA TCG ATG GCG CGA CCG TTT CTT GCG GAT GCG GAA CTG CTG TCA AAA GCG CAA TCA GGG CGA GCC GAT GAG ATC AAC ACC TGC ATT GGC TGC AAC CAG GCG TGT CTC GAT CAG ATC TTC GTT GGC AAG GTC ACC TCG TGT CTG GTG AAT CCT CGC GCC TGC CAT GAA ACC AAA ATG CCG ATC CTT CCC GCC ATG CAG AAA AAA AAT CTG GCG GTG GTC GGT GCG GGA CCT GCT GGG CTG GCG TTT GCC ATT AAC GCG GCG GCG CGT GGT CAT CAG GTA ACG TTG TTT GAC GCG CAC AGT GAG ATC GGC GGG CAG TTT AAT ATC GCC AAA CAG ATC CCC GGC AAA GAG GAG TTT TAC GAA ACG CTG CGC TAT TAC CGC CGG ATG ATC GAA GTG ACG GGC GTG ACG CTA AAA CTC AAT CAC ACC GTG ACG GCG GAT CAG TTA CAG GCG TTC GAT GAA ACG ATC CTC GCC AGT GGG ATC GTG CCG CGC ACT CCG CCC ATC GAC GGG ATC GAT CAT CCG AAG GTA TTG AGT TAT CTC GAT GTA CTG CGC GAC AAA GCG CCG GTG GGC AAC AAA GTT GCC ATC ATC GGT TGT GGC GGG ATT GGT TTT GAT ACG GCG ATG TAT TTA AGT CAG CCG GGC GAA TCC ACC AGC CAG AAT ATC GCC GGG TTC TGT AAT GAA TGG GGG ATC GAC AGC AGC CTA CAA CAG GCT GGT GGC TTA AGC CCG CAG GGA ATG CAG ATC CCG CGT AGC CCA CGG CAG ATT GTG ATG CTC CAG CGC AAA GCC AGC AAA CCG GGA CAG GGG TTA GGC AAA ACC ACC GGC TGG ATC CAT CGC ACC ACC CTG CTC TCG CGG GGT GTG AAA ATG ATC CCA GGC GTA AGT TAT CAG AAG ATT GAC GAT GAC GGG CTG CAT GTG GTG ATC AAC GGC GAA ACG CAG GTA TTA GCA GTG GAC AAT GTG GTG ATC TGC GCA GGG CAA GAG CCA AAC CGC GCA TTG GCG CAG CCG CTG ATT GAT AGC GGG AAA ACG GTG CAT TTA ATT GGC GGC TGC GAT GTG GCT ATG GAG CTG GAC GCA CGA CGG GCA ATT GCC CAG GGA ACA CGG CTG GCG CTG GAG ATT 


CODONML (in paml 3.14, January 2004)    H:\users\mt269\runpaml\NEWdna80\b3081.phy   Model: One dN/dS ratio 
Codon frequencies: F3x4
Site-class models:  PositiveSelection

ns = 6  	ls = 672
# site patterns = 173
   16    9    9   15    6   25    7   23   18    8    3   12   19   10   17
   13   16   17    6    1    2    5   11   10   20   14    2    1    3    8
    1   20    4    4   26    2   18    2    5    2    6    5    2    4    1
    9    1   22   25   10    1    8    1    6    5    1    1    2    3    1
    1    1    1    1    1    1    5    2    1    4    1    2    1    2    2
    1    1    8    1    5    5    1    1    1    1    1    1    1    1    1
    1    1    1    1    1    1    1    1    1    1    1    1    1    1    1
    1    1    1    2    1    1    1    1    1    1    1    1    1    1    1
    1    2    1    1    1    1    1    1    2    1    1    1    2    1    1
    1    1    1    1    1    1    1    1    1    1    1    2    2    1    1
    1    1    1    1    1    2    2    1    1    1    1    1    1    1    1
    2    1    1    1    1    1    1    1

1       
K12                   ATG AGC TAC CCG TCG CTG TTC GCC GAT TTA GGT TTT ACC ACG AAA AAC CGC GTG TTG GGC TCA CAC GGG GAG GAA GAC GGT GCC GAG CGG GCA GCG TAT CGT GGC CTG ATT GTC GGC ATT GCA CCA ACA GTT GGT CTC AAC CAG ATC CAT GCG GTA ATA CAA GTC GCC CCG TCC CCC GTG CCC CAT TTA AGC AAT CGC TGC GCG GCA GGA GAC GGT GTA GAG GTG GGT TCC AAT CGT AGT TGG CGC CGA GTA GTA CGT GCG CGC ATC CGA CTG CTG GAC GGG ACT ACG GGC ATT CAT GCA CGT ATT CCG GCA GGC GTC GTA ATG CGA CTT GCT TCG GGA ACT TGT AAT GCC TGT CAA AAA TGC CCT CAC CCA CTT CCC GTG GCG GCT GGG ACA GAC GCT CAT AGC ATT CTG TAT CTA ACG CGC ACT CCC AAG GTT AAA TGT GGG GGG GAA AGT CTA GCT GGT TTA AGC CAG GGA CCC CAG CCA TCG CGG TAT AAG GTG GCA CAA CTG CAA ACG CGA CTG 
S2457T                ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ... ..T ..A ... ..T ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ... ..C ... ... ..A ... ... ... ..T ..T ..C C.C .C. G.. ... ... ... ..C ... ..T ..C ..C ..A ... ..C ..T ... ... ... ... ... ... ... ... ... A.. ... ..T ..G T.. ..A .G. ..C ... ... ..A ..A ..C ..G ..G ..C ... ... ... ... ... ..A ... ..C ..G ..A ..G ... ... ..C .G. ..C ..G ... ... ... ... ... ... ... ... ..T ... ... ... ..T ..G ..C ... ..C ... ..C ..G ... ..T GT. ..T ... ..A ..G ... ... A.. ..G ..C ... ... ... ... ... ... ... ..G ..A ..G ... ... ... ... ... ... ... ... ... ..T ... ... 
Shig4337              ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ... ..T ..A ... ..T ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ... ..C ... ... ..A ... ... ... ..T ..T ..C C.C .C. G.. ... ... ... ..C ... ..T ..C ..C ..A ... ..C ..T ... ... ... ... ... ... ... ... ... A.. ... ..T ..G T.. ..A .G. ..C ... ... ..A ..A ..C ..G ..G ..C ... ... ... ... ... ..A ... ..C ..G ..A ..G ... ... ..C .G. ..C ..G ... ... ... ... ... ... ... ... ..T ... ... ... ..T ..G ..C ... ..C ... ..C ..G ... ..T GT. ..T ... ..A ..G ... ... A.. ..G ..C ... ... ... ... ... ... ... ..G ..A ..G ... ... ... ... ... ... ... ... ... ..T ... ... 
CFT073                ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ..C ..T ..A ... ... ... ... ... ... T.. ... ... ..T ..C ... ... ... ... ..C ... ..T ... ... ... ..C ... ..C ... ... ..T ..C ... ... ..T ..T ..C C.C .C. G.. .A. ... ..A ... ... ... ... ... ... ... ..G ... ... ... ... ... ... ..G ... ... ... ... ..T ... ... ... ... .G. ..T ... .T. ... ... ... ... ... ... ... ..C ... ..T ..G ... ... ... ... ... ... ... ... ..C ... ... ..G ... ... ... ..T ... ... ..T ... ... ... ... ... ..T ..G ..C ... ..C .A. ... ... ..A ... GT. ..T ..T ..G ... ... ..A ... ..G ... ..G ..C ..A ..G ..T ..A ..C ... ... ... ..A ..C ..C ... ..A ..G ..G T.. ... ..T ..G ..A 
O157                  ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ... ..T ..A ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ..C ... ..T ... ... ... ... ... ... ... ... ..A ... ... ... ..T ..T ... C.C .C. G.. ... ... ..A ... ... ... ... ... ... ..A ... ... ... ..C ... ... .A. ..G ..T ..G A.. ... ... ... ... ... ... .G. ... ... ... ... ... ... ..G ... ..C ..A ... ..T ... ..G ... ... ... ..G ..A ..G ..C ..C ..C ..G ... ..G ..G ..T ... ..T ..G ... ... A.. ... ... ..T ..G ... ..G ..C ..T ..C ... ... ... ... ... ... ... ... ..G ... ... ... ... ... ..C ... ... ... ... ... ... ... ..G ... ..G ... ... ... ... ... ... ... T.. ..G ... ... ... 
EDL933                ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ... ..T ..A ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ..C ... ..T ... ... ... ... ... ... ... ... ..A ... ... ... ..T ..T ... C.C .C. G.. ... ... ..A ... ... ... ... ... ... ..A ... ... ... ..C ... ... .A. ..G ..T ..G A.. ... ... ... ... ... ... .G. ... ... ... ... ... ... ..G ... ..C ..A ... ..T ... ..G ... ... ... ..G ..A ..G ..C ..C ..C ..G ... ..G ..G ..T ... ..T ..G ... ... A.. ... ... ..T ..G ... ..G ..C ..T ..C ... ... ... ... ... ... ... ... ..G ... ... ... ... ... ..C ... ... ... ... ... ... ... ..G ... ..G ... ... ... ... ... ... ... T.. ..G ... ... ... 

Codon usage in sequences
--------------------------------------------------------------------------------------------------------------
Phe TTT 12 12 12 12 12 12 | Ser TCT  0  1  1  0  0  0 | Tyr TAT  6  5  5  5  6  6 | Cys TGT  4  3  3  4  4  4
    TTC  7  7  7  7  7  7 |     TCC  3  2  2  3  3  3 |     TAC  9 10 10 10  9  9 |     TGC  6  7  7  6  6  6
Leu TTA 10  9  9  8  9  9 |     TCA  2  3  3  3  3  3 | *** TAA  0  0  0  0  0  0 | *** TGA  0  0  0  0  0  0
    TTG  6  7  7 10  7  7 |     TCG  8  7  7  7  7  7 |     TAG  0  0  0  0  0  0 | Trp TGG  5  5  5  5  5  5
--------------------------------------------------------------------------------------------------------------
Leu CTT  2  1  1  2  2  2 | Pro CCT  2  4  4  5  3  3 | His CAT 13 10 10 12 13 13 | Arg CGT  7  7  7  8  5  5
    CTC  9 11 11 10 10 10 |     CCC  7  4  4  5  5  5 |     CAC  6  9  9  8  7  7 |     CGC 20 19 19 19 20 20
    CTA  2  2  2  2  2  2 |     CCA  7  6  6  7  6  6 | Gln CAA  9  9  9  9  7  7 |     CGA  5  4  4  3  4  4
    CTG 32 31 31 28 31 31 |     CCG 17 19 19 16 19 19 |     CAG 25 25 25 26 27 27 |     CGG  9 11 11 10 10 10
--------------------------------------------------------------------------------------------------------------
Ile ATT 23 21 21 20 21 21 | Thr ACT  3  3  3  3  2  2 | Asn AAT 10  8  8 10  9  9 | Ser AGT  6  5  5  8  7  7
    ATC 26 28 28 30 28 28 |     ACC 19 20 20 20 21 21 |     AAC 14 15 15 14 14 14 |     AGC 13 13 13 10 12 12
    ATA  1  2  2  0  1  1 |     ACA  3  3  3  4  2  2 | Lys AAA 19 18 18 19 18 18 | Arg AGA  0  0  0  0  0  0
Met ATG 17 16 16 18 18 18 |     ACG 13 13 13 10 14 14 |     AAG  2  3  3  1  3  3 |     AGG  0  1  1  0  0  0
--------------------------------------------------------------------------------------------------------------
Val GTT  5  6  6  7  8  8 | Ala GCT  6  6  6  5  4  4 | Asp GAT 18 21 21 20 19 19 | Gly GGT 10  8  8 12 12 12
    GTC  8  9  9  7  6  6 |     GCC 26 25 25 27 23 23 |     GAC 17 14 14 15 16 16 |     GGC 34 38 38 33 34 34
    GTA 12 12 12 13 11 11 |     GCA 11  9  9 11 13 13 | Glu GAA 21 25 25 23 24 24 |     GGA  6  6  6  8  5  5
    GTG 23 22 22 22 22 22 |     GCG 25 26 26 25 28 28 |     GAG 15 11 11 13 12 12 |     GGG 16 15 15 14 16 16
--------------------------------------------------------------------------------------------------------------

Codon position x base (3x4) table for each sequence.

#1: K12            
position  1:    T:0.11607    C:0.25595    A:0.25149    G:0.37649
position  2:    T:0.29018    C:0.22619    A:0.27381    G:0.20982
position  3:    T:0.18899    C:0.33333    A:0.16071    G:0.31696

#2: S2457T         
position  1:    T:0.11607    C:0.25595    A:0.25149    G:0.37649
position  2:    T:0.29167    C:0.22470    A:0.27232    G:0.21131
position  3:    T:0.18006    C:0.34375    A:0.16071    G:0.31548

#3: Shig4337       
position  1:    T:0.11607    C:0.25595    A:0.25149    G:0.37649
position  2:    T:0.29167    C:0.22470    A:0.27232    G:0.21131
position  3:    T:0.18006    C:0.34375    A:0.16071    G:0.31548

#4: CFT073         
position  1:    T:0.11905    C:0.25298    A:0.24851    G:0.37946
position  2:    T:0.29167    C:0.22470    A:0.27530    G:0.20833
position  3:    T:0.19792    C:0.33333    A:0.16369    G:0.30506

#5: O157           
position  1:    T:0.11607    C:0.25446    A:0.25298    G:0.37649
position  2:    T:0.29018    C:0.22768    A:0.27381    G:0.20833
position  3:    T:0.18899    C:0.32887    A:0.15625    G:0.32589

#6: EDL933         
position  1:    T:0.11607    C:0.25446    A:0.25298    G:0.37649
position  2:    T:0.29018    C:0.22768    A:0.27381    G:0.20833
position  3:    T:0.18899    C:0.32887    A:0.15625    G:0.32589

Sums of codon usage counts
------------------------------------------------------------------------------
Phe F TTT      72 | Ser S TCT       2 | Tyr Y TAT      33 | Cys C TGT      22
      TTC      42 |       TCC      16 |       TAC      57 |       TGC      38
Leu L TTA      54 |       TCA      17 | *** * TAA       0 | *** * TGA       0
      TTG      44 |       TCG      43 |       TAG       0 | Trp W TGG      30
------------------------------------------------------------------------------
Leu L CTT      10 | Pro P CCT      21 | His H CAT      71 | Arg R CGT      39
      CTC      61 |       CCC      30 |       CAC      46 |       CGC     117
      CTA      12 |       CCA      38 | Gln Q CAA      50 |       CGA      24
      CTG     184 |       CCG     109 |       CAG     155 |       CGG      61
------------------------------------------------------------------------------
Ile I ATT     127 | Thr T ACT      16 | Asn N AAT      54 | Ser S AGT      38
      ATC     168 |       ACC     121 |       AAC      86 |       AGC      73
      ATA       7 |       ACA      17 | Lys K AAA     110 | Arg R AGA       0
Met M ATG     103 |       ACG      77 |       AAG      15 |       AGG       2
------------------------------------------------------------------------------
Val V GTT      40 | Ala A GCT      31 | Asp D GAT     118 | Gly G GGT      62
      GTC      45 |       GCC     149 |       GAC      92 |       GGC     211
      GTA      71 |       GCA      66 | Glu E GAA     142 |       GGA      36
      GTG     133 |       GCG     158 |       GAG      74 |       GGG      92
------------------------------------------------------------------------------


Codon position x base (3x4) table, overall

position  1:    T:0.11657    C:0.25496    A:0.25149    G:0.37698
position  2:    T:0.29092    C:0.22594    A:0.27356    G:0.20957
position  3:    T:0.18750    C:0.33532    A:0.15972    G:0.31746

Codon frequencies under model, for use in evolver:
  0.00648246  0.01159296  0.00552209  0.01097559
  0.00503454  0.00900357  0.00428868  0.00852409
  0.00609561  0.01090114  0.00000000  0.00000000
  0.00466980  0.00835128  0.00000000  0.00790654
  0.01417865  0.02535652  0.01207811  0.02400618
  0.01101172  0.01969292  0.00938035  0.01864418
  0.01333252  0.02384335  0.01135733  0.02257358
  0.01021394  0.01826621  0.00870077  0.01729345
  0.01398555  0.02501120  0.01191362  0.02367924
  0.01086176  0.01942473  0.00925261  0.01839027
  0.01315095  0.02351863  0.01120266  0.02226616
  0.01007484  0.01801745  0.00858227  0.01705794
  0.02096454  0.03749214  0.01785868  0.03549551
  0.01628192  0.02911793  0.01386978  0.02756727
  0.01971346  0.03525475  0.01679294  0.03337728
  0.01510233  0.02700840  0.01286495  0.02557008



Nei & Gojobori 1986. dN/dS (dN, dS)
(Note: This matrix is not used in later m.l. analysis.
Use runmode = -2 for ML pairwise comparison.)

K12                 
S2457T               0.0535 (0.0067 0.1244)
Shig4337             0.0535 (0.0067 0.1244)-1.0000 (0.0000 0.0000)
CFT073               0.0432 (0.0066 0.1538) 0.0290 (0.0053 0.1833) 0.0290 (0.0053 0.1833)
O157                 0.0428 (0.0046 0.1086) 0.0446 (0.0060 0.1340) 0.0446 (0.0060 0.1340) 0.0364 (0.0060 0.1639)
EDL933               0.0428 (0.0046 0.1086) 0.0446 (0.0060 0.1340) 0.0446 (0.0060 0.1340) 0.0364 (0.0060 0.1639)-1.0000 (0.0000 0.0000)


TREE #  1:  ((1, (2, 3)), (4, (5, 6)));   MP score: 157
This is a rooted tree.  Please check!
lnL(ntime: 10  np: 15):  -3461.990398     +0.000000
   7..8     8..1     8..9     9..2     9..3     7..10   10..4    10..11   11..5    11..6  
  0.00877  0.04270  0.07228  0.00000  0.00000  0.00000  0.09193  0.04791  0.00000  0.00000  4.23931  0.99838  0.00000  0.03565 11.57491
Note: Branch length is defined as number of nucleotide substitutions per codon (not per neucleotide site).

tree length =   0.26360

((1: 0.042700, (2: 0.000004, 3: 0.000004): 0.072281): 0.008769, (4: 0.091927, (5: 0.000004, 6: 0.000004): 0.047907): 0.000000);

((K12: 0.042700, (S2457T: 0.000004, Shig4337: 0.000004): 0.072281): 0.008769, (CFT073: 0.091927, (O157: 0.000004, EDL933: 0.000004): 0.047907): 0.000000);

Detailed output identifying parameters

kappa (ts/tv) =  4.23931


dN/dS for site classes (K=3)

p:   0.99838  0.00000  0.00162
w:   0.03565  1.00000 11.57491

dN & dS for each branch

 branch           t        S        N    dN/dS       dN       dS   S*dS   N*dN

   7..8       0.009    567.2   1448.8   0.0544   0.0005   0.0091    5.2    0.7
   8..1       0.043    567.2   1448.8   0.0544   0.0024   0.0444   25.2    3.5
   8..9       0.072    567.2   1448.8   0.0544   0.0041   0.0752   42.6    5.9
   9..2       0.000    567.2   1448.8   0.0544   0.0000   0.0000    0.0    0.0
   9..3       0.000    567.2   1448.8   0.0544   0.0000   0.0000    0.0    0.0
   7..10      0.000    567.2   1448.8   0.0544   0.0000   0.0000    0.0    0.0
  10..4       0.092    567.2   1448.8   0.0544   0.0052   0.0956   54.2    7.5
  10..11      0.048    567.2   1448.8   0.0544   0.0027   0.0498   28.3    3.9
  11..5       0.000    567.2   1448.8   0.0544   0.0000   0.0000    0.0    0.0
  11..6       0.000    567.2   1448.8   0.0544   0.0000   0.0000    0.0    0.0


Positively selected sites (*: P>95%; **: P>99%)

            Pr(w>1)     post mean +- SE for w

   470 T      1.000**       11.575


Bayes Empirical Bayes (BEB) analysis
Positively selected sites (*: P>95%; **: P>99%)

            Pr(w>1)     post mean +- SE for w

   470 T      0.818         1.519 +- 0.514



The grid (see ternary graph for p0-p1)

w0:   0.050  0.150  0.250  0.350  0.450  0.550  0.650  0.750  0.850  0.950
w2:   1.500  2.500  3.500  4.500  5.500  6.500  7.500  8.500  9.500 10.500


Posterior on the grid

w0:   1.000  0.000  0.000  0.000  0.000  0.000  0.000  0.000  0.000  0.000
w2:   0.914  0.069  0.011  0.003  0.001  0.001  0.000  0.000  0.000  0.000

Posterior for p0-p1 (see the ternary graph)

 0.000
 0.000 0.000 0.000
 0.000 0.000 0.000 0.000 0.000
 0.000 0.000 0.000 0.000 0.000 0.000 0.000
 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000
 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000
 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000
 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000
 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000
 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 1.000

sum of density on p0-p1 =   1.000000
