Effective results for Haemophilus pittmaniae HK 85 (eggnog40)

Summary

Number of putative secreted proteins: 66
- Predicted by T4SEpre: 0
- Predicted by EffectiveELD: 26 eukaryotic-like domains, contained in 66 proteins (11 high, 55 medium Z-score)
Predicted protein secretion systems (parentheses indicate weak positive predictions lacking more than 50% of core proteins of a secretion system): None

Protein based results

Putative secreted proteins (weak evidence indicated by parentheses)

Protein	EffectiveT3	EffectiveCCBD	T4SEpre	EffectiveELD	Predotar
1035188.HMPREF9952_0045				(PF00939)	ER; (ER)
1035188.HMPREF9952_2402				(PF16327)	ER
1035188.HMPREF9952_0586				(PF03222)	(ER)
1035188.HMPREF9952_1185				(PF00939)	ER
1035188.HMPREF9952_1184				(PF00939)	ER
1035188.HMPREF9952_2225				PF00687	(mitochondrial)
1035188.HMPREF9952_1144				(PF08496)	ER
1035188.HMPREF9952_1150				PF02987	ER
1035188.HMPREF9952_1834				PF13332	(mitochondrial); (ER)
1035188.HMPREF9952_0013				(PF03767)	ER
1035188.HMPREF9952_2326				(PF03222)	ER
1035188.HMPREF9952_2327				(PF03222)	ER
1035188.HMPREF9952_0990				(PF02033)	(mitochondrial)
1035188.HMPREF9952_2266				(PF06472)	ER
1035188.HMPREF9952_2242				(PF03222)	ER; (ER)
1035188.HMPREF9952_0397				(PF16327)	ER
1035188.HMPREF9952_0396				(PF16327)	ER
1035188.HMPREF9952_0891				(PF06472)	ER
1035188.HMPREF9952_1932				(PF00344)	ER
1035188.HMPREF9952_2387				(PF00939)	ER
1035188.HMPREF9952_0603				(PF00573)	(mitochondrial)
1035188.HMPREF9952_0021				(PF03222)	(ER)
1035188.HMPREF9952_1368				PF13332	(plastid)
1035188.HMPREF9952_0207				PF03414 (PF05704)
1035188.HMPREF9952_0046				(PF00939)
1035188.HMPREF9952_0450				(PF10571)
1035188.HMPREF9952_0740				(PF12949)
1035188.HMPREF9952_0930				(PF02446)
1035188.HMPREF9952_2224				PF00687
1035188.HMPREF9952_1201				(PF09330)	not used
1035188.HMPREF9952_1202				(PF09330)
1035188.HMPREF9952_1533				(PF10063)
1035188.HMPREF9952_0179				(PF06472)
1035188.HMPREF9952_1943				(PF03767)
1035188.HMPREF9952_0018				(PF00318)
1035188.HMPREF9952_0019				(PF00318)	not used
1035188.HMPREF9952_0014				(PF03767)
1035188.HMPREF9952_1493				(PF02547)
1035188.HMPREF9952_1495				(PF02547)
1035188.HMPREF9952_1494				(PF02547)
1035188.HMPREF9952_2218				(PF04127)
1035188.HMPREF9952_2219				(PF04127)
1035188.HMPREF9952_0987				(PF11987)
1035188.HMPREF9952_0988				(PF11987)
1035188.HMPREF9952_0989				(PF02033)	not used
1035188.HMPREF9952_1366				PF13332
1035188.HMPREF9952_1369				PF13332
1035188.HMPREF9952_2470				(PF00939)
1035188.HMPREF9952_1378				PF13332
1035188.HMPREF9952_1379				PF13332
1035188.HMPREF9952_1006				(PF01755)
1035188.HMPREF9952_0349				(PF01755)
1035188.HMPREF9952_1915				(PF04997)
1035188.HMPREF9952_1916				(PF04997)
1035188.HMPREF9952_0892				(PF06472)
1035188.HMPREF9952_0893				(PF06472)
1035188.HMPREF9952_0252				(PF13603)
1035188.HMPREF9952_0253				(PF13603)
1035188.HMPREF9952_1931				(PF00344)
1035188.HMPREF9952_1143				(PF08496)
1035188.HMPREF9952_0609				PF13332	not used
1035188.HMPREF9952_0604				(PF00573)
1035188.HMPREF9952_0858				(PF01755)
1035188.HMPREF9952_1675				(PF02446)
1035188.HMPREF9952_1674				(PF02446)
1035188.HMPREF9952_1676				(PF02446)

Detailed merged results for each protein sequence

• Detailed merged results as table (merge_results.html)
• Detailed merged results as tab delimited file (merge_results.csv)

Individual results for each protein sequence

• EffectiveELD predictions (PROTEINS.ELD.TXT)
• Predotar predictions using animal/human model (Predotar_output_modelANIMAL.TXT)
• Predotar predictions using plant model (Predotar_output_modelPLANT.TXT)

Genome based results

Summary

• Gram negative: YES (FDR = 0.5 %)
• Functional Type III secretion system: NO (FDR = 12.5 %)
• Functional Type IV secretion system: NO (FDR = 7.2 %)
• Functional Type VI secretion system: NO (FDR = 7.7 %)

Individual results for each secretion system

• List of 100 most important COGs/NOGs for prediction of functional Type III secretion system (T3_top100_COGS.xls)
• List of 100 most important COGs/NOGs for prediction of functional Type IV secretion system (T4_top100_COGS.xls)
• List of 100 most important COGs/NOGs for prediction of functional Type VI secretion system (T6_top100_COGS.xls)
• List of COGs assigned to Type III secretion system in KEGG (T3SS_KEGG_cmp.xls)
• List of COGs assigned to Type IV secretion system in KEGG (T4SS_KEGG_cmp.xls)
• List of COGs assigned to Type VI secretion system in KEGG (T6SS_KEGG_cmp.xls)

Parameters:

==========================================================
EFFECTIVE_T3_OLD=selective
EFFECTIVE_T3_NEW=selective
PREDOTAR_ANIMAL_OR_PLANT=a
PROTEINS=INPUT PROTEINS
MODUS=genome
RUN_PREDOTAR=T
RUN_EFFECTIVE_T3=T
RUN_T4SEpre=0.5
RUN_EFFECTIVE_CCBD=T
RUN_EFFECTIVE_ELD=4
CheckM_COMPLETENESS=
RUN_EffectiveS346=T
GENOTYPE=COG Profile
EMAIL=
==========================================================