
seed used = 140008481

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


CODONML (in paml 3.14, January 2004)    H:\users\mt269\runpaml\NEWdna80\b2233.phy   Model: One dN/dS ratio 
Codon frequencies: F3x4
Site-class models:  PositiveSelection

ns = 4  	ls = 1252
# site patterns = 417
   16    4    1   13    1    2    7    3    7   25    8    8    1    3   10
    9   17    8    9    4    9   22   26    1    4   17    1    1   57    1
    2   29    3    1   11    1    1    1   14   23    1   13   40    1    2
    1   16    3    1    1   14    8    4   22   11    1    1   33    5    5
    2    3    5    5    1    1    1   19    1    1    1    3    2    2    5
    5   23    2    2    1   14    1    2   10    9    1    1   21    1    1
    6    2    1    1    2    5    8    5    1    1    1    3    5    9    1
    2    1    1   10    1    2    1    9    1    1    1    4    4    1    4
    5    2    1    1    1   10    2    1    6    1    6    1    2    1    1
    3    1    2    1    1    4    2    1    1    1    6    1   17    1    1
    2    4    1    1    1    1    1    1    1    2    1    1    1    1    1
    2    1    1    2    1    2    2    1    3    4    1    1    1    1    1
    2    2    2    1    8    1    1    2    2    2    4    2    1    1    1
    3    1    1    1    1    1    1    1    1    1    1    1    3    1    1
    6    1    1    1    1    1    1    2    1    1    1    1    2    1    1
    1    1    1    1    1    2    1    1    2    4    2    1    1    1    1
    1    1    1    1    1    1    2    1    1    7    1    2    1    1    1
    4    1    1    1    1    1    1    1    1    1    1    1    1    1    1
    2    1    1    1    2    1    1    1    1    1    1    1    3    1    1
    1    1    1    1    1    1    1    1    3    1    1    1    1    1    1
    1    1    1    1    1    1    1    1    1    1    1    1    1    1    2
    1    1    1    6    1    1    2    1    2    1    1    1    1    1    1
    1    1    1    1    1    1    5    1    2    1    1    1    1    1    1
    1    1    1    1    1    1    1    1   10    1    1    1    1    1    1
    1    1    1    1    1    2    2    1    1    2    1    1    1    1    4
    1    3    1    1    1    2    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

K12                                  ATG CGG ATT ATC TTT CTA CGC AAG GAG TAT TTA TCT TTA CTC CCG TCA ATT GCA CTT TTC GCT AAC GGT GTC GCG GCG GTC ACT GAT TCA TGC CAG GGA GTC AAA AGT TGT CAG GCC AGC AGG CAA GGC ATT ACG GAC TGG AGT ATC GCT GGG CTG GTT TTT TCG GAT ACC AAT AAC GGG GCC GTA TTG CAA CAA GGA GCG GAA TCA CTA TTA CCA GAA ACT GGA ACT CTG GCC AAT ACC GTT ACA GGA AAC GGC GCC ATA ACG CTG ACT GAT TTT TCC GGT GTC GGC GGT GGC TCT ACT GTC CGT GTC ACT ATG CGC GAT GGC ACC ATT GAC GTT AGT GTT ATT GAT ACA TAC GGG GCA ATC GTT ACC AAT AGC GAC AGC AAG CAT CCT GGT TAT ATA GTA GCC ACA ACT ATA AAT GTG ACG GCT CCC AGC AGC CAG GGA GTG TTA GTC GAG AAT GCA GGA GAT GGT CCT TCC TCT GGT CTC TTA GAA GTT ACC GAT GAC GGA GTT ATT GAG GCT ATT GCT ACC GGG TTA ACC ACA TCC GAT CTG GTA CTT GAT GAC CAG ATT GAA GAA GTT AAC TCC CAT TGC GAC TAC ATA ATT GAT CAG TAT CAG AAT GCT CTA TCG ACC ACT GTG CAC GCA TTG ACG CAG ACT TTA GCT CAG AGT ATC GCT CTC ATT TAC GTG GCA CTA GTC GTT GAT GAT GGT GCG GTG CTT GAA GAC GCG CTT ACC CTC TTA GTG TCC CAG AGC GGC ACA TAC AAC CTT GTC AGC CAG GTG GTA CTT GCA GGT GGC GAC AAT TTG --- --- GGG AAA GTC AGC GGG CAG GTA AGT GCA AAT AGT TAT TTG ACA ACA GCC TCC CTG ATG GAT CAC TAT CGC CAG AAG CAA GAA AGC GTG GAG ATT ACC TCC GAC ACG CGT TCA GAT GCG GCA GGC CAC GGA CGT GTG GCA GCG GCA AGC CAT CAG GGT ACA ACG GCT ACC ACA ACG CAG TCG GTA CGT GTC GAA ACC CTG AAA GTT GCT CTT CCT GCT TCG TCA CTG GTT GAT GGG GCA ACG TTC GTT GCG CAG ATT TCC ACT GAC ATC ACG CGC ACT TCC GTC GCC TCA CTA AAC GGC GGG TTG ACA AAC TCG GTA ATG ACT TCC CCC GCA CGA ACG CCA TCG CCA CCC CCG CCT CTT ATG GCA CGT GAT GCG ACG AAT GCC ACA TTT AAT CAA AGC CTG CAA TCC CAA GAA ACA CAC GAG CGT CAT ATA TCG GGC GTG GTC GTG TCC CGC GGC 
CFT073                               ... ... ... ... .C. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... .C. ..A ... ... .T. ... ... ... ... ... A.. ... .AC ... ... ... ... ... ... ... .A. .T. ... ... ..C ... ..G ... T.. A.. ... ... .G. G.. ... ..T ..C ..A ... ... ..G ..C A.T ..T ... A.G A.. .C. ... C.. ..A ..G ..C ... ..T G.. T.G ... .GT ..C ..T ..T ..T ..C ... A.A G.G A.. ..C GA. A.. ..T ..A ..C ..G G.C ..C .C. ... ... ... G.A .A. ..C ..T ... ..C ... ..C ... .A. GC. A.. ... ..T ..C ..C ..T ... ..G .G. .CG ..T .A. .CA ... .T. ..A A.A ... A.T T.. ..C TA. ..T .GC ACC ..A T.C ..G .AT GA. ..A AAT ... A.G A.T ..A ..C T.G .AC C.. TCG G.G A.G G.A ..G A.. CAT .TG .C. GAA A.C .C. .AT ..A ..A AGC ..G C.. ..C ..G ..A G.C GTG GAG G.G ..G T.A ..C ..C ..C .CG AGT ..C C.G ..G ..G G.T GAG ..C ..T AG. .TT G.C .C. .T. ..T .C. G.. T.. ..A ..G AAT ..A ..G ... ... T.. ..A ..C GCT .T. ..G ..A ... G.. TCG .AA T.G G.A ..T C.C A.. T.. ..G ..G ..A ... AAC ..C ..A T.G .CG A.T CA. T.A CGG A.G C.. ..A A.. G.T G.. .AT .GC ... ..T ..G A.. G.G A.T ..C ..T A.C AGC A.. ... ..T G.. ..A GAT GCC A.C C.G A.T G.G CA. .GC ... .CG ..G ..C G.. ... C.C .AT ..G ... ... ..T GAA ..C AGT ..C ..T TCA CCC ... C.C ..T .AA ..T G.G ..G A.T ..T ..T ..C ..G .C. A.A A.. ..T ..G ..C A.G A.A CAC .AT .GG .C. ..A .T. .TA ..G .GT .GC ..T ..T G.. AC. ..T ... ... ..G ..C ..G ..A ... .CG .AG A.. ... .T. ..T ... ... ..G ..A .AC .GT GTT ..T .AA CAA .GT .CC ..T GA. ... ..A ..T ..A ..G AA. CAG ..G ..G ..G .G. ... ..T C.. G.. G.. ..A .C. T.. G.C C.. ... A.. ... .AT A.G C.. ..G ..A ... ..C T.. G.. ..T ..C CG. .TA GAT ... ... ..C .A. ... ..G ... ... ... ... ... ..C GTG ... ..A .A. AG. .CG G.. ... .C. A.A ..T ..G ... ... 
O157                                 ... ... G.. ... ... ... ... ... ... ... ... ... C.. ... ... ... ... ... ... ... ... ... ... ... ... ... .C. .T. ... .T. ... ... ... A.. ... ... ... ..C ... ... ... ... ... ... ... .T. ... ... ..T ..C ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ... ... ... A.. T.. .C. ... ... ... ... ... ... ... ... ... ... T.. ... ... ... ..A ... ... ... ..G ... ... ..T ... ... ... ... ... ... ..C A.. ... ... ... G.. ... ..C ..T ... ..C ..T A.C ... .A. G.. A.C ... ... ..C ... ... ..C ..A ... ... ... ... ... ... ... ... ... ... A.. ... ... ... ... ... .C. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... A.. ..C ... ... ..A ... ..C ... ..C .C. ... T.. ... ... ... ... ... ... ..A ... .C. ... ... ... ..T ... ..G ... ..G ..G ... .C. ... ... ... ... ... ... ... ... G.. ... ... A.. ... ... ... ..T ... ... ..A ... ... ... ... ... ... ... ... ..C ..A A.. G.. A.. --- --- ... ... A.. G.T ... ... ..C ..C ... G.C CAA ..C C.C ... ..G ..T ... ... ... T.. ..T ... ... ... ... .C. ... ... ... ... ... ..T G.. A.T ..T ..C ..T ACA A.. A.T .AG ..T ..G ... ... ... ... ... ... ... ... ... ... ... ..G ... ... ... ... ..A ..G A.A ..A ..G ..G ... C.. ... ..G T.C ... ... ... ..G ..A ..C ..C ... ... ... ... ... ... ... .C. ... ... ... ... ... ... ... ... ... ... ... ..G ... T.. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... .A. ... ..C ... ... ... ... ... ... .G. ..G ..C ... ..G ..G .A. T.. ..G ..T ..T ... GTG ..T ..A ... ... ... ... .C. ... ... ..T ..G ..T ..T 
EDL933                               ... ... G.. ... ... ... ... ... ... ... ... ... C.. ... ... ... ... ... ... ... ... ... ... ... ... ... .C. .T. ... .T. ... ... ... A.. ... ... ... ..C ... ... ... ... ... ... ... .T. ... ... ..T ..C ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ... ... ... A.. T.. .C. ... ... ... ... ... ... ... ... ... ... T.. ... ... ... ..A ... ... ... ..G ... ... ..T ... ... ... ... ... ... ..C A.. ... ... ... G.. ... ..C ..T ... ..C ..T A.C ... .A. G.. A.C ... ... ..C ... ... ..C ..A ... ... ... ... ... ... ... ... ... ... A.. ... ... ... ... ... .C. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... A.. ..C ... ... ..A ... ..C ... ..C .C. ... T.. ... ... ... ... ... ... ..A ... .C. ... ... ... ..T ... ..G ... ..G ..G ... .C. ... ... ... ... ... ... ... ... G.. ... ... A.. ... ... ... ..T ... ... ..A ... ... ... ... ... ... ... ... ..C ..A A.. G.. A.. --- --- ... ... A.. G.T ... ... ..C ..C ... G.C CAA ..C C.C ... ..G ..T ... ... ... T.. ..T ... ... ... ... .C. ... ... ... ... ... ..T G.. A.T ..T ..C ..T ACA A.. A.T .AG ..T ..G ... ... ... ... ... ... ... ... ... ... ... ..G ... ... ... ... ..A ..G A.A ..A ..G ..G ... C.. ... ..G T.C ... ... ... ..G ..A ..C ..C ... ... ... ... ... ... ... .C. ... ... ... ... ... ... ... ... ... ... ... ..G ... T.. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... .A. ... ..C ... ... ... ... ... ... .G. ..G ..C ... ..G ..G .A. T.. ..G ..T ..T ... GTG ..T ..A ... ... ... ... .C. ... ... ..T ..G ..T ..T 



Codon usage in sequences
--------------------------------------------------------------------------------------
Phe TTT 26 25 26 26 | Ser TCT 10 14 13 13 | Tyr TAT 29 34 29 29 | Cys TGT  1  2  1  1
    TTC  5  6  6  6 |     TCC 14  7 11 11 |     TAC 13  8 14 14 |     TGC  3  2  4  4
Leu TTA 15 15 15 15 |     TCA 14 16 14 14 | *** TAA  0  0  0  0 | *** TGA  0  0  0  0
    TTG 10 19  9  9 |     TCG 19 18 19 19 |     TAG  0  0  0  0 | Trp TGG 16 16 16 16
--------------------------------------------------------------------------------------
Leu CTT 18 12 16 16 | Pro CCT  8  5  8  8 | His CAT  9 10 13 13 | Arg CGT  8  7  7  7
    CTC  7  6  9  9 |     CCC  6  7  6  6 |     CAC  9 13  7  7 |     CGC 12 11 12 12
    CTA  6  4  6  6 |     CCA  6  4  7  7 | Gln CAA 23 26 22 22 |     CGA  3  4  3  3
    CTG 38 32 37 37 |     CCG 11 15 10 10 |     CAG 48 45 48 48 |     CGG  4  5  4  4
--------------------------------------------------------------------------------------
Ile ATT 29 35 27 27 | Thr ACT 25 16 25 25 | Asn AAT 46 66 48 48 | Ser AGT 16 21 15 15
    ATC 21 22 24 24 |     ACC 27 26 27 27 |     AAC 42 34 39 39 |     AGC 38 37 37 37
    ATA  7  8  8  8 |     ACA 22 18 21 21 | Lys AAA 13 13 13 13 | Arg AGA  0  0  1  1
Met ATG 20 20 21 21 |     ACG 36 44 39 39 |     AAG  5  3  7  7 |     AGG  1  2  1  1
--------------------------------------------------------------------------------------
Val GTT 33 23 30 30 | Ala GCT 24 18 22 22 | Asp GAT 87 84 85 85 | Gly GGT 47 43 50 50
    GTC 18 15 17 17 |     GCC 23 32 25 25 |     GAC 31 30 29 29 |     GGC 66 64 61 61
    GTA 10 16  8  8 |     GCA 24 20 23 23 | Glu GAA 30 31 31 31 |     GGA 15 15 15 15
    GTG 33 31 34 34 |     GCG 29 33 34 34 |     GAG 14 15 14 14 |     GGG 27 29 27 27
--------------------------------------------------------------------------------------

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

#1: K12            
position  1:    T:0.14000    C:0.17280    A:0.27840    G:0.40880
position  2:    T:0.23680    C:0.23840    A:0.31920    G:0.20560
position  3:    T:0.33280    C:0.26800    A:0.15040    G:0.24880

#2: CFT073         
position  1:    T:0.14537    C:0.16454    A:0.29153    G:0.39856
position  2:    T:0.23083    C:0.23403    A:0.32907    G:0.20607
position  3:    T:0.33147    C:0.25559    A:0.15176    G:0.26118

#3: O157           
position  1:    T:0.14160    C:0.17200    A:0.28240    G:0.40400
position  2:    T:0.23440    C:0.24320    A:0.31920    G:0.20320
position  3:    T:0.33200    C:0.26240    A:0.14960    G:0.25600

#4: EDL933         
position  1:    T:0.14160    C:0.17200    A:0.28240    G:0.40400
position  2:    T:0.23440    C:0.24320    A:0.31920    G:0.20320
position  3:    T:0.33200    C:0.26240    A:0.14960    G:0.25600

Sums of codon usage counts
------------------------------------------------------------------------------
Phe F TTT     103 | Ser S TCT      50 | Tyr Y TAT     121 | Cys C TGT       5
      TTC      23 |       TCC      43 |       TAC      49 |       TGC      13
Leu L TTA      60 |       TCA      58 | *** * TAA       0 | *** * TGA       0
      TTG      47 |       TCG      75 |       TAG       0 | Trp W TGG      64
------------------------------------------------------------------------------
Leu L CTT      62 | Pro P CCT      29 | His H CAT      45 | Arg R CGT      29
      CTC      31 |       CCC      25 |       CAC      36 |       CGC      47
      CTA      22 |       CCA      24 | Gln Q CAA      93 |       CGA      13
      CTG     144 |       CCG      46 |       CAG     189 |       CGG      17
------------------------------------------------------------------------------
Ile I ATT     118 | Thr T ACT      91 | Asn N AAT     208 | Ser S AGT      67
      ATC      91 |       ACC     107 |       AAC     154 |       AGC     149
      ATA      31 |       ACA      82 | Lys K AAA      52 | Arg R AGA       2
Met M ATG      82 |       ACG     158 |       AAG      22 |       AGG       5
------------------------------------------------------------------------------
Val V GTT     116 | Ala A GCT      86 | Asp D GAT     341 | Gly G GGT     190
      GTC      67 |       GCC     105 |       GAC     119 |       GGC     252
      GTA      42 |       GCA      90 | Glu E GAA     123 |       GGA      60
      GTG     132 |       GCG     130 |       GAG      57 |       GGG     110
------------------------------------------------------------------------------

(Ambiguity data are not used in the counts.)


Codon position x base (3x4) table, overall

position  1:    T:0.14214    C:0.17033    A:0.28369    G:0.40384
position  2:    T:0.23411    C:0.23970    A:0.32167    G:0.20452
position  3:    T:0.33207    C:0.26210    A:0.15034    G:0.25550

Codon frequencies under model, for use in evolver:
  0.01130936  0.00892629  0.00512019  0.00870160
  0.01157978  0.00913973  0.00524262  0.00890967
  0.01553950  0.01226507  0.00000000  0.00000000
  0.00987999  0.00779812  0.00000000  0.00760183
  0.01355214  0.01069648  0.00613559  0.01042724
  0.01387619  0.01095225  0.00628230  0.01067656
  0.01862118  0.01469739  0.00843054  0.01432743
  0.01183932  0.00934458  0.00536012  0.00910936
  0.02257100  0.01781492  0.01021878  0.01736649
  0.02311070  0.01824089  0.01046312  0.01778174
  0.03101344  0.02447840  0.01404100  0.02386224
  0.01971830  0.01556333  0.00892725  0.01517158
  0.03213067  0.02536021  0.01454682  0.02472185
  0.03289895  0.02596660  0.01489465  0.02531298
  0.04414880  0.03484592  0.01998790  0.03396879
  0.02806974  0.02215499  0.01270828  0.02159731



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

K12                 
CFT073               0.1817 (0.1094 0.6022)
O157                 0.2142 (0.0210 0.0979) 0.1888 (0.1127 0.5973)
EDL933               0.2142 (0.0210 0.0979) 0.1888 (0.1127 0.5973)-1.0000 (0.0000 0.0000)


TREE #  1:  (1, (2, (3, 4)));   MP score: -1
This is a rooted tree.  Please check!
lnL(ntime:  6  np: 11):  -7817.969249     +0.000000
   5..1     5..6     6..2     6..7     7..3     7..4  
  0.08839  0.21858  4.52895  0.40065  0.00000  0.00000  2.14511  0.80258  0.19434  0.05059 999.00000
Note: Branch length is defined as number of nucleotide substitutions per codon (not per neucleotide site).

tree length =   5.23658

(1: 0.088393, (2: 4.528948, (3: 0.000004, 4: 0.000004): 0.400652): 0.218582);

(K12: 0.088393, (CFT073: 4.528948, (O157: 0.000004, EDL933: 0.000004): 0.400652): 0.218582);

Detailed output identifying parameters

kappa (ts/tv) =  2.14511


dN/dS for site classes (K=3)

p:   0.80258  0.19434  0.00308
w:   0.05059  1.00000999.00000

dN & dS for each branch

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

   5..1       0.088    985.2   2770.8   3.3106   0.0361   0.0109   10.7   99.9
   5..6       0.219    985.2   2770.8   3.3106   0.0892   0.0269   26.5  247.1
   6..2       4.529    985.2   2770.8   3.3106   1.8479   0.5582  549.9 5120.3
   6..7       0.401    985.2   2770.8   3.3106   0.1635   0.0494   48.6  453.0
   7..3       0.000    985.2   2770.8   3.3106   0.0000   0.0000    0.0    0.0
   7..4       0.000    985.2   2770.8   3.3106   0.0000   0.0000    0.0    0.0


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

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

   570 S      0.950         948.681
   621 D      0.861         860.381
  1103 T      0.679         678.791


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

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

   106 T      0.633         2.140 +- 1.354
   248 V      0.520         1.855 +- 1.255
   282 G      0.509         1.812 +- 1.211
   295 L      0.641         2.126 +- 1.375
   299 T      0.521         1.825 +- 1.179
   350 Q      0.560         1.919 +- 1.218
   363 S      0.605         2.043 +- 1.290
   400 S      0.558         1.936 +- 1.268
   413 Q      0.562         1.931 +- 1.239
   435 I      0.608         2.071 +- 1.330
   482 T      0.759         2.414 +- 1.352
   535 A      0.533         1.869 +- 1.234
   570 S      0.838         2.578 +- 1.326
   598 Q      0.564         1.951 +- 1.274
   604 K      0.583         1.980 +- 1.256
   621 D      0.674         2.249 +- 1.385
   638 A      0.580         1.988 +- 1.280
   750 V      0.560         1.927 +- 1.239
  1103 T      0.662         2.204 +- 1.359



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:   0.299  0.309  0.244  0.101  0.033  0.010  0.003  0.001  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 0.010 0.765
 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 0.215 0.010 0.000

sum of density on p0-p1 =   1.000000
