
seed used = 140007913

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


CODONML (in paml 3.14, January 2004)    H:\users\mt269\runpaml\NEWdna80\b2283.phy   Model: One dN/dS ratio 
Codon frequencies: F3x4
Site-class models:  PositiveSelection

ns = 6  	ls = 908
# site patterns = 144
   22   20    5   18   10    7   26   27   23   45   22    8   12   31    4
   34   45    7    4    5   27    2   13    8   12   29    1   28   19   33
   25    6   11    8   41   11   20   17    1    1   11    2    1    2   17
    1    3    5    6    1   23   14    1    1    1   11    1    1    1    1
    1    2    1    1    6    1    3   11    1    5    1    1    2    2    2
    1    1    1    1    1    1    1    1    1    2    1    2    2    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    2    1    1    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       
K12                   ATG GCT ACA ATT CAT GTA GAC GGC AAA GAA TAC GAG GTC AAC GGA GCG CTG TGT TCT CTT GAT CCT TTT TGC TGG CCG AGT GGT CGC CAG GTG AAG CAA ACG CGT TCC ACC TTC AGC TTG CAC CCG GAG ACT AGC ACC AAT TTG GGG CCA ATC GCC TGT ACA GAT GTT TAC GGT CAC TTT CCC GGT GAA TAC CTC AAG CCA GCA GCG TCG GTG GAA TAC GTG TAT ACT GCT GTC GCG GCA CGT GCT GCG AAC GCG ACC ACT TTA GCC TCT GCA ATC AGC GCA GCC TTA GAG GCG GTC GTC CTG GGC GGT TTG CAC TCT ATC GCA GAT ATT GTA TCT GCT GTG ATC AAC GGC CCT AAA AGC TTA CAC CTG CAT CCG GCA CCG CGT AGC TTC CGC GGC AAT GGT TAT TCA AGC GGT GTG AGT ACG ACG GCC GGA 
S2457T                ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ... ... ... ... ... ... ... ... ... ... ... ..T ..A ... ... ..A ..C ... ... ... ... ... ... ... ... ... ... ... ... ..T ..C ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..A ... ... ..G ..T ... ... ..T ... ... ... ..C ... ... .A. ... ... A.. ... ..T ... ..T ... ... ... ... T.. ... .C. ..G ... ..C ..G ..C T.. ..A ..T ..T ..T ..G ... ... C.G ... T.. ... ..A ..G ... ... ... ... ... ... ..C ... ..C ... ... ... ... ... ... ... ... ... 
Shig4337              ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ... ... ... ... ... ... ... ... ... ... ... ..T ..A ... ... ..A ..C ... ... ... ... ... ... ... ... ... ... ... ... ..T ..C ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..A ... ... ..G ..T ... ... ..T ... ... ... ..C ... ... .A. ... ... A.. ... ..T ... ..T ... ... ... ... T.. ... .C. ..G ... ..C ..G ..C T.. ..A ..T ..T ..T ..G ... ... C.G ... T.. ... ..A ..G ... ... ... ... ... ... ..C ... ..C ... ... ... ... ... ... ... ... ... 
CFT073                ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ... ... ... ... ... ... ... ... ... ... ... ..T ..A ... ..A ..A ..C ... ..T ... ... ... ... ... ... ... ..G ..C ... ... ... ... ..C ... ..C ..G ..T ... ..A ... ... ..A ... ..C ..G ..T ..A ... ..G ..A ..T ... ..G ..C ..G ... ... ... ... ... ... ..T ... ... ..T ... ..T A.T GCT ..A ..T ..G ... ... ..T ..A C.. ... ..C .C. ..G ..C ... ..G ... ... ... ... ... ... ..G C.. ... C.G ..T ... ..C ... ... ... ..C ..T ..T ..T ... ..C A.. ..C ... ... ..G ... ... .T. ... T.. ..G 
O157                  ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ... ... ... ... ... ... ... ... ... ... ... ..T ..A ... ... ..A ..C ... ... ... ... ... ..G ... ... ..C ... ... ... ..T ..C ..T ... ... ..C ..G ..T ... ..A ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ..G ... ..T ..T ... ... ... ... ... ..G ..T ... ..G ... ... ... ..T ... ... T.. ..T ..A C.. ... ... .C. ..G ..C ..C ..G ..C ... ..A ..T ..T ..T ..G ... ..T C.G ... T.. ... ... ..G ..A ... ... ... ... ..T ... ... ..C ... T.T ... ..A ... ... ..T ..T ..G 
EDL933                ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ... ... ... ... ... ... ... ... ... ... ... ..T ..A ... ... ..A ..C ... ... ... ... ... ..G ... ... ..C ... ... ... ..T ..C ..T ... ... ..C ..G ..T ... ..A ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ..G ... ..T ..T ... ... ... ... ... ..G ..T ... ..G ... ... ... ..T ... ... T.. ..T ..A C.. ... ... .C. ..G ..C ..C ..G ..C ... ..A ..T ..T ..T ..G ... ..T C.G ... T.. ... ... ..G ..A ... ... ... ... ..T ... ... ..C ... T.T ... ..A ... ... ..T ..T ..G 

Codon usage in sequences
--------------------------------------------------------------------------------------------------------------
Phe TTT 14 14 14 14 14 14 | Ser TCT  7  6  6  6  6  6 | Tyr TAT  3  3  3  5  4  4 | Cys TGT  8  8  8  8  8  8
    TTC 18 18 18 18 18 18 |     TCC 11 13 13 13 12 12 |     TAC 26 27 27 24 25 25 |     TGC  8  8  8  8  9  9
Leu TTA  4  3  3  3  4  4 |     TCA  1  1  1  1  1  1 | *** TAA  0  0  0  0  0  0 | *** TGA  0  0  0  0  0  0
    TTG  7  7  7  5  7  7 |     TCG  5  5  5  5  5  5 |     TAG  0  0  0  0  0  0 | Trp TGG 12 12 12 12 12 12
--------------------------------------------------------------------------------------------------------------
Leu CTT  5  5  5  5  5  5 | Pro CCT  3  2  2  2  2  2 | His CAT 11 11 11 12 12 12 | Arg CGT 43 43 43 42 42 42
    CTC  6  6  6  6  6  6 |     CCC  1  1  1  1  1  1 |     CAC 15 14 14 14 14 14 |     CGC 20 20 20 21 21 21
    CTA  0  0  0  0  0  0 |     CCA  4  5  5  6  4  4 | Gln CAA 11 11 11 12 11 11 |     CGA  0  0  0  0  0  0
    CTG 47 47 47 49 47 47 |     CCG 33 33 33 32 34 34 |     CAG 33 33 33 33 33 33 |     CGG  0  0  0  0  0  0
--------------------------------------------------------------------------------------------------------------
Ile ATT 19 19 19 20 20 20 | Thr ACT  5  4  4  4  4  4 | Asn AAT  4  5  5  3  7  7 | Ser AGT  2  2  2  4  3  3
    ATC 26 25 25 24 24 24 |     ACC 22 24 24 24 25 25 |     AAC 34 34 34 35 31 31 |     AGC 22 21 21 21 20 20
    ATA  0  1  1  0  0  0 |     ACA  6  6  6  5  6  6 | Lys AAA 24 24 24 24 25 25 | Arg AGA  0  0  0  0  0  0
Met ATG 22 22 22 23 22 22 |     ACG 10 10 10 11  9  9 |     AAG  7  7  7  6  6  6 |     AGG  0  0  0  0  0  0
--------------------------------------------------------------------------------------------------------------
Val GTT 11 12 12 12 11 11 | Ala GCT 23 23 23 26 26 26 | Asp GAT 29 29 29 27 28 28 | Gly GGT 34 34 34 30 33 33
    GTC 15 14 14 14 15 15 |     GCC 18 18 18 14 17 17 |     GAC 26 26 26 28 27 27 |     GGC 30 30 30 31 30 30
    GTA  8  9  9  9 10 10 |     GCA 16 15 15 15 12 12 | Glu GAA 47 48 48 47 47 47 |     GGA  5  5  5  5  5  5
    GTG 31 30 30 30 29 29 |     GCG 40 40 40 41 42 42 |     GAG 10  9  9 10 10 10 |     GGG  6  6  6  8  7  7
--------------------------------------------------------------------------------------------------------------

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

#1: K12            
position  1:    T:0.13656    C:0.25551    A:0.22357    G:0.38436
position  2:    T:0.25661    C:0.22577    A:0.30837    G:0.20925
position  3:    T:0.24339    C:0.32819    A:0.13877    G:0.28965

#2: S2457T         
position  1:    T:0.13767    C:0.25441    A:0.22467    G:0.38326
position  2:    T:0.25551    C:0.22687    A:0.30947    G:0.20815
position  3:    T:0.24229    C:0.32930    A:0.14097    G:0.28744

#3: Shig4337       
position  1:    T:0.13767    C:0.25441    A:0.22467    G:0.38326
position  2:    T:0.25551    C:0.22687    A:0.30947    G:0.20815
position  3:    T:0.24229    C:0.32930    A:0.14097    G:0.28744

#4: CFT073         
position  1:    T:0.13436    C:0.25881    A:0.22467    G:0.38216
position  2:    T:0.25551    C:0.22687    A:0.30837    G:0.20925
position  3:    T:0.24229    C:0.32599    A:0.13987    G:0.29185

#5: O157           
position  1:    T:0.13767    C:0.25551    A:0.22247    G:0.38436
position  2:    T:0.25551    C:0.22687    A:0.30837    G:0.20925
position  3:    T:0.24780    C:0.32489    A:0.13767    G:0.28965

#6: EDL933         
position  1:    T:0.13767    C:0.25551    A:0.22247    G:0.38436
position  2:    T:0.25551    C:0.22687    A:0.30837    G:0.20925
position  3:    T:0.24780    C:0.32489    A:0.13767    G:0.28965

Sums of codon usage counts
------------------------------------------------------------------------------
Phe F TTT      84 | Ser S TCT      37 | Tyr Y TAT      22 | Cys C TGT      48
      TTC     108 |       TCC      74 |       TAC     154 |       TGC      50
Leu L TTA      21 |       TCA       6 | *** * TAA       0 | *** * TGA       0
      TTG      40 |       TCG      30 |       TAG       0 | Trp W TGG      72
------------------------------------------------------------------------------
Leu L CTT      30 | Pro P CCT      13 | His H CAT      69 | Arg R CGT     255
      CTC      36 |       CCC       6 |       CAC      85 |       CGC     123
      CTA       0 |       CCA      28 | Gln Q CAA      67 |       CGA       0
      CTG     284 |       CCG     199 |       CAG     198 |       CGG       0
------------------------------------------------------------------------------
Ile I ATT     117 | Thr T ACT      25 | Asn N AAT      31 | Ser S AGT      16
      ATC     148 |       ACC     144 |       AAC     199 |       AGC     125
      ATA       2 |       ACA      35 | Lys K AAA     146 | Arg R AGA       0
Met M ATG     133 |       ACG      59 |       AAG      39 |       AGG       0
------------------------------------------------------------------------------
Val V GTT      69 | Ala A GCT     147 | Asp D GAT     170 | Gly G GGT     198
      GTC      87 |       GCC     102 |       GAC     160 |       GGC     181
      GTA      55 |       GCA      85 | Glu E GAA     284 |       GGA      30
      GTG     179 |       GCG     245 |       GAG      58 |       GGG      40
------------------------------------------------------------------------------


Codon position x base (3x4) table, overall

position  1:    T:0.13693    C:0.25569    A:0.22375    G:0.38363
position  2:    T:0.25569    C:0.22669    A:0.30874    G:0.20888
position  3:    T:0.24431    C:0.32709    A:0.13932    G:0.28928

Codon frequencies under model, for use in evolver:
  0.00874710  0.01171099  0.00498802  0.01035720
  0.00775497  0.01038268  0.00442225  0.00918244
  0.01056182  0.01414062  0.00000000  0.00000000
  0.00714587  0.00956720  0.00000000  0.00846123
  0.01633339  0.02186785  0.00931408  0.01933991
  0.01448079  0.01938750  0.00825764  0.01714630
  0.01972201  0.02640468  0.01124644  0.02335229
  0.01334343  0.01786476  0.00760906  0.01579958
  0.01429318  0.01913633  0.00815066  0.01692416
  0.01267199  0.01696580  0.00722618  0.01500455
  0.01725853  0.02310646  0.00984164  0.02043535
  0.01167670  0.01563327  0.00665861  0.01382605
  0.02450595  0.03280962  0.01397447  0.02901681
  0.02172638  0.02908821  0.01238942  0.02572560
  0.02959010  0.03961650  0.01687369  0.03503681
  0.02001994  0.02680355  0.01141633  0.02370505



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               0.0466 (0.0024 0.0520)
Shig4337             0.0466 (0.0024 0.0520)-1.0000 (0.0000 0.0000)
CFT073               0.0418 (0.0040 0.0968) 0.0473 (0.0049 0.1026) 0.0473 (0.0049 0.1026)
O157                 0.0111 (0.0010 0.0870) 0.0439 (0.0024 0.0552) 0.0439 (0.0024 0.0552) 0.0410 (0.0040 0.0985)
EDL933               0.0111 (0.0010 0.0870) 0.0439 (0.0024 0.0552) 0.0439 (0.0024 0.0552) 0.0410 (0.0040 0.0985)-1.0000 (0.0000 0.0000)


TREE #  1:  ((1, (2, 3)), (4, (5, 6)));   MP score: 115
This is a rooted tree.  Please check!
lnL(ntime: 10  np: 15):  -4286.638820     +0.000000
   7..8     8..1     8..9     9..2     9..3     7..10   10..4    10..11   11..5    11..6  
  0.00344  0.03295  0.01510  0.00000  0.00000  0.01158  0.06685  0.02416  0.00000  0.00000  6.17954  0.99887  0.00000  0.03902 60.51323
Note: Branch length is defined as number of nucleotide substitutions per codon (not per neucleotide site).

tree length =   0.15409

((1: 0.032947, (2: 0.000004, 3: 0.000004): 0.015097): 0.003439, (4: 0.066848, (5: 0.000004, 6: 0.000004): 0.024158): 0.011580);

((K12: 0.032947, (S2457T: 0.000004, Shig4337: 0.000004): 0.015097): 0.003439, (CFT073: 0.066848, (O157: 0.000004, EDL933: 0.000004): 0.024158): 0.011580);

Detailed output identifying parameters

kappa (ts/tv) =  6.17954


dN/dS for site classes (K=3)

p:   0.99887  0.00000  0.00113
w:   0.03902  1.00000 60.51323

dN & dS for each branch

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

   7..8       0.003    819.6   1904.4   0.1071   0.0003   0.0031    2.5    0.6
   8..1       0.033    819.6   1904.4   0.1071   0.0031   0.0292   24.0    6.0
   8..9       0.015    819.6   1904.4   0.1071   0.0014   0.0134   11.0    2.7
   9..2       0.000    819.6   1904.4   0.1071   0.0000   0.0000    0.0    0.0
   9..3       0.000    819.6   1904.4   0.1071   0.0000   0.0000    0.0    0.0
   7..10      0.012    819.6   1904.4   0.1071   0.0011   0.0103    8.4    2.1
  10..4       0.067    819.6   1904.4   0.1071   0.0064   0.0593   48.6   12.1
  10..11      0.024    819.6   1904.4   0.1071   0.0023   0.0214   17.6    4.4
  11..5       0.000    819.6   1904.4   0.1071   0.0000   0.0000    0.0    0.0
  11..6       0.000    819.6   1904.4   0.1071   0.0000   0.0000    0.0    0.0


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

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

   507 L      1.000**       60.513


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

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

   507 L      0.804         1.508 +- 0.440



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:   0.904  0.084  0.010  0.002  0.000  0.000  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
