Supplemental text

H. somnus 129Pt	H. ducreyi 35000HP
H. influenzae Rd
Region 1*
conserved hypothetical protein; possible phage-related protein	HS_0423	no	no
phage integrase	HS_0424	no	no
hypothetical protein	HS_0425	no	no
possible phage DNA-polymerase or DNA-primase	HS_0426	no	no
conserved hypothetical protein; possible virulence-associated protein E	HS_0427	no	no
conserved hypothetical protein	HS_0428	no	no
conserved hypothetical protein	HS_0429	no	no
bcgIA bifunctional protein: site-specific DNA-methyltransferase (adenine-specific); restriction enzyme, alpha subunit	HS_0430	maybe HD0293	no
bcgIB restriction enzyme, beta subunit	HS_0431	maybe HD0294	no
bcgIB restriction enzyme, beta subunit, C-terminal	HS_0432	no	no
conserved hypothetical protein	HS_0433	no	no
transposase fragment	HS_0434	no	no
transposase	HS_0486	no	no
HflK protein; phage lambda CII stabilizer; possible CII-specific protease	HS_0487	HD1809	HI0151
HflC protein; protease specific for phage lambda CII repressor	HS_0488	HD1808	HI0150
Region 2
phage integrase intA	HS_0519	no	no
hypothetical	HS_0520	no	no
hypothetical	HS_0521	no	no
conserved hypothetical; possible phage transcriptional regulator	HS_0522	no	no
conserved hypothetical	HS_0523	no	no
hypothetical	HS_0524	no	no
conserved hypothetical	HS_0525	no	no
hypothetical	HS_0526	no	no
hypothetical	HS_0527	no	no
conserved hypothetical	HS_0528	no	no
hypothetical	HS_0529	no	no
hypothetical	HS_0530	no	no
hypothetical	HS_0531	no	no
conserved hypothetical	HS_0532	no	no
phage DNA primase-like protein	HS_0533	no	no
conserved hypothetical	HS_0534	no	no
conserved hypothetical protein; possible transcriptional regulator	HS_0535	no	no
conserved hypothetical	HS_0536	no	no
conserved hypothetical	HS_0537	HD1614	no
conserved hypothetical	HS_0538	no	no
hypothetical	HS_0539	no	no
hypothetical	HS_0540	no	no
conserved hypothetical	HS_0541	no	no
Region 3
phage integrase	HS_0555	no	no
conserved hypothetical, possible restriction endonuclease	HS_0556
phage P1-related protein	HS_0557	no	no
enterobacteria phage P1	HS_0558	no	no
Region 4
hypothetical	HS_1331	no	no
hypothetical	HS_1332	no	no
phage terminase, small subunit	HS_1333	no	no
conserved hypothetical protein; possible terminase small subunit	HS_1334	no	HI1411
conserved hypothetical protein; possible prophage CP4-57 regulatory protein	HS_1335	no	no
hypothetical	HS_1336	no	no
integrase	HS_1337	no	no
Region 5
conserved hypothetical proteins and Haemophilus-specific proteins, uncharacterized	HS_1365 to HS_1371
conserved hypothetical protein; possible phage-related protein	HS_1372	no	no
conserved hypothetical protein; possible phage-related tail fiber protein	HS_1372	no	no
Haemophilus-specific protein, uncharacterized	HS_1373	no	no
Haemophilus-specific protein, uncharacterized	HS_1374	no	no
Haemophilus-specific protein, uncharacterized	HS_1375	no	no
Haemophilus-specific protein, uncharacterized	HS_1376	no	no
conserved hypothetical protein might be a coat protein	HS_1377	no	no
conserved hypothetical protein	HS_1378	no	no
Haemophilus-specific protein, uncharacterized	HS_1379	no	no
possible transcription regulator	HS_1380	no	no
conserved hypothetical protein	HS_1381	no	no
conserved hypothetical protein; possible phage-related protein	HS_1382	no	HI1412
hypothetical protein	HS_1383	no	no
Haemophilus-specific protein, uncharacterized	HS_1384	no	no
conserved hypothetical protein (possible phage terminase)	HS_1385	no	no
conserved hypothetical protein; possible terminase small subunit	HS_1386	no	no
conserved hypothetical protein	HS_1387	no	no
lysozyme, possible phage-related lysozyme	HS_1388	no	no
Haemophilus-specific protein, uncharacterized	HS_1389	no	no
transposase	HS_1390	no	no
transposase	HS_1391	no	no
conserved hypothetical protein	HS_1392	no	no
conserved hypothetical protein	HS_1393	no	HI1421
Bacteriophage Lambda NinG recombination protein	HS_1394	no	no
conserved hypothetical protein	HS_1395	no	no
conserved hypothetical protein	HS_1396	no	no
conserved hypothetical protein	HS_1397	no	no
conserved hypothetical protein; possible prophage antirepressor	HS_1398	no	HI1418
conserved hypothetical protein	HS_1399	no	no
conserved hypothetical protein; possible DNA methylase	HS_1400	no	no
conserved hypothetical protein; possible replication protein P	HS_1401	no	no
conserved hypothetical protein	HS_1402	no	no
conserved hypothetical protein	HS_1403	no	no
conserved hypothetical protein	HS_1404	no	no
conserved hypothetical protein	HS_1405	no	no
conserved hypothetical protein; possible repressor protein	HS_1406	no	no
Haemophilus-specific protein, uncharacterized	HS_1407	no	no