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COMPare Analysis of Sequences with Software



The COMprehensive Protein Allergen REsource (COMPARE) database is a peer-reviewed, publicly accessible, database of allergen amino acid sequences. A key feature of the COMPARE allergen database is its capability in aiding an assessment of potential allergy health hazards, by using comparative sequence software.

COMPARE is now equipped with a comparative sequence search software as a built-in feature: COMPASS (COMPare Analysis of Sequences with Software), incorporating the open source FASTA software package (FASTA v36). In this tool page, COMPARE users can conduct website-based, real-time use of the COMPARE database to produce amino acid sequence alignments (between two or more amino acid sequences). The tool is oriented to regulatory safety review of novel foods and feeds, and implementation of criteria to help establish whether relevant alignments have occurred. The criteria are oriented to identifying amino acid sequence alignments that might be observed for any sequence compared with the COMPARE database.

COMPASS Intended use:
The intended use of the built-in COMPASS tool is to provide users the possibility of assessing the degree of shared sequence similarity between an amino acid sequence of interest ("query sequence") and allergen sequences within the COMPARE database. To this end, the user can perform three different types of sequence searches, using either default parameters or manually adjusted parameters.

The selection of search features available on the database tool was informed by FAO/WHO (2001) and CODEX Alimentarius guidelines on the testing of genetically modified plants for allergenicity (2003,2009). Users are highly encouraged to consult those guidelines for full details.

Search options in COMPASS:
Users can choose to perform three independent types of sequence comparisons:

NOTE: Guidance for "input parameters" and/or "output criteria" is provided in each search page by clicking in the blue question marks.

FAO/WHO (2001) has recommended that IgE cross-reactivity between a particular protein and allergen be considered when there is greater than 35% identity over a sliding "window" of 80 amino acids. The 35% identity threshold was based on data indicating protein cross-reactivity occurring between Bet v 1 and vegetable proteins at approximately 40% protein identity (Scheurer et al., 1999). The 80 amino acid window was selected to represent the size of a 'typical' protein domain.

Additional educational materials regarding the use of bioinformatics for risk assessment, FASTA, E-value, criteria for significance, the sliding window search process, as well as all references cited, are available in the "About" page (top left tab).

Quick Check: is your source organism in COMPARE?

Genus Species # of sequences
Acacia farnesiana 1
Acarus siro 2
Actinidia arguta 3
Actinidia chinensis 6
Actinidia deliciosa 17
Actinidia eriantha 3
Aedes aegypti 6
Agrostis alba 3
Alnus glutinosa 2
Alternaria alternata 20
Amaranthus retroflexus 2
Ambrosia artemisiifolia 37
Ambrosia artemisiifolia (elatior) 2
Ambrosia psilostachya 5
Ambrosia trifida 1
Amphioctopus fangsiao 2
Anacardium occidentale 4
Ananas comosus 2
Anisakis pegreffii 4
Anisakis simplex 32
Anthoxanthum odoratum 3
Apis cerana 1
Apis cerana cerana 1
Apis dorsata 2
Apis mellifera 14
Apis mellifera carnica 4
Apium graveolens 5
Apium graveolens Rapaceum Group 1
Arachis hypogaea 43
Argas reflexus 2
Artemisia vulgaris 12
Arthroderma benhamiae 3
Arthroderma vanbreuseghemii 1
Ascaris lumbricoides 11
Ascaris suum 4
Aspergillus flavus 1
Aspergillus fumigatus 28
Aspergillus fumigatus Af293 2
Aspergillus fumigatus var. RP-2014 2
Aspergillus niger 3
Aspergillus oryzae 3
Aspergillus versicolor 1
Bacillus lentus 1
Bacillus licheniformis 2
Bacillus sp. 1
Balanus rostratus 1
Bassia scoparia 1
Batillus cornutus 1
Bertholletia excelsa 2
Beta vulgaris 1
Betula pendula 74
Betula platyphylla 3
Betula sp. 2
Blattella germanica 25
Blomia tropicalis 23
Bombus pennsylvanicus 2
Bombus terrestris 2
Bombyx mori 3
Bos grunniens mutus 1
Bos taurus 25
Brassica juncea 1
Brassica napus 4
Brassica oleracea var. oleracea 1
Brassica rapa 3
Brassica rapa subsp. rapa 2
Candida albicans 3
Canis familiaris 11
Canis lupus familiaris 1
Cannabis sativa 1
Capsicum annuum 2
Carica papaya 1
Carpinus betulus 20
Carya illinoinensis 4
Caryota mitis 1
Castanea sativa 6
Catharanthus roseus 1
Cavia porcellus 3
Chamaecyparis obtusa 3
Charybdis feriatus 1
Chenopodium album 4
Chionoecetes opilio 1
Chironomus kiiensis 1
Chironomus thummi thummi 15
Cicer arietinum 1
Citrullus lanatus 1
Citrus limon 1
Citrus sinensis 4
Cladosporium cladosporioides 2
Clupea harengus 3
Cochliobolus lunatus 3
Coffea arabica 3
Coprinus comatus 1
Corylus avellana 25
Crangon crangon 6
Crassostrea gigas 2
Crassostrea virginica 1
Crocus sativus 1
Cryptomeria japonica 23
Cucumis melo 4
Cucumis melo var. inodorus 1
Cucumis melo var. reticulatus 1
Cupressus arizonica 5
Cupressus sempervirens 8
Cynodon dactylon 14
Cyprinus carpio 2
Dactylis glomerata 8
Daucus carota 18
Davidiella tassiana 11
Dermatophagoides farinae 66
Dermatophagoides microceras 1
Dermatophagoides pteronyssinus 70
Dermatophagoides siboney 1
Dolichovespula arenaria 1
Dolichovespula maculata 5
Epicoccum nigrum 1
Equus caballus 7
Erimacrus isenbeckii 2
Eriocheir sinensis 1
Euphausia pacifica 1
Euphausia superba 1
Euroglyphus maynei 4
Evynnis japonica 2
Fagopyrum esculentum 9
Fagopyrum tataricum 3
Fagus sylvatica 3
Farfantepenaeus aztecus 1
Felis catus 12
Fenneropenaeus chinensis 2
Fenneropenaeus merguiensis 2
Forcipomyia taiwana 2
Fragaria x ananassa 15
Fraxinus excelsior 5
Fulvia mutica 1
Fusarium culmorum 3
Fusarium proliferatum 2
Gadus callarias 1
Gadus morhua 6
Gallus gallus 16
Glossina morsitans morsitans 4
Gloydius brevicaudus 1
Glycine max 41
Glycine soja 1
Glycyphagus domesticus 3
Haliotis discus discus 2
Haliotis diversicolor 1
Helianthus annuus 3
Helix aspersa 1
Hevea brasiliensis 41
Hevea brasiliensis subsp. brasiliensis 1
Holcus lanatus 7
Homarus americanus 2
Hordeum vulgare 6
Hordeum vulgare subsp. vulgare 5
Humulus japonicus 1
Humulus scandens 2
Juglans nigra 3
Juglans regia 5
Juniperus ashei 3
Juniperus oxycedrus 2
Juniperus rigida 2
Juniperus virginiana 3
Lates calcarifer 2
Lens culinaris 3
Lepidoglyphus destructor 21
Lepidorhombus whiffiagonis 1
Lepisma saccharina 2
Ligustrum vulgare 2
Lilium longiflorum 1
Liposcelis bostrychophila 2
Litchi chinensis 2
Litopenaeus vannamei 4
Lolium perenne 13
Lupinus albus 2
Lupinus angustifolius 9
Lycium barbarum 1
Macrobrachium rosenbergii 2
Macruronus magellanicus 3
Macruronus novaezelandiae 1
Malassezia furfur 3
Malassezia sympodialis 9
Malassezia sympodialis ATCC 42132 5
Malus x domestica 53
Mangifera indica 1
Manihot esculenta 2
Manilkara zapota 3
Marsupenaeus japonicus 1
Mercurialis annua 1
Merluccius australis australis 1
Merluccius australis polylepis 2
Merluccius bilinearis 3
Merluccius capensis 1
Merluccius gayi 2
Merluccius merluccius 2
Merluccius paradoxus 3
Merluccius polli 2
Merluccius productus 2
Mesocricetus auratus 2
Metapenaeus ensis 1
Mimachlamys nobilis 1
Morus alba var. atropurpurea 1
Morus bombycis 2
Morus nigra 1
Mus musculus 2
Mus musculus domesticus 1
Musa acuminata 4
Musa acuminata AAA Group 1
Myrmecia banksi 1
Myrmecia pilosula 4
Neptunea polycostata 1
Nicotiana tabacum 2
Octopus vulgaris 1
Olea europaea 73
Ommastrephes bartramii 1
Onchocerca volvulus 1
Oncorhynchus keta 1
Oncorhynchus mykiss 2
Oratosquilla oratoria 1
Oreochromis mossambicus 1
Oryctolagus cuniculus 2
Oryza sativa 3
Oryza sativa (japonica cultivar-group) 18
Oryza sativa Indica Group 1
Oryza sativa Japonica Group 13
Ostrya carpinifolia 1
Pachycondyla chinensis 1
Pandalus borealis 1
Panulirus stimpsoni 1
Paralithodes camtschaticus 2
Parietaria judaica 11
Parietaria officinalis 8
Parthenium hysterophorus 1
Paspalum notatum 9
Penaeus monodon 5
Penicillium brevicompactum 1
Penicillium chrysogenum 6
Penicillium citrinum 9
Penicillium crustosum 1
Penicillium oxalicum 1
Periplaneta americana 29
Periplaneta fuliginosa 1
Perna viridis 1
Persea americana 1
Phalaris aquatica 6
Phaseolus vulgaris 2
Phleum pratense 68
Phodopus sungorus 1
Phoenix dactylifera 1
Pinus pinea 1
Pistacia vera 6
Pisum sativum 4
Plantago lanceolata 5
Platanus orientalis 2
Platanus x acerifolia 4
Plodia interpunctella 2
Poa pratensis 8
Polistes annularis 3
Polistes dominulus 6
Polistes exclamans 1
Polistes fuscatus 1
Polistes gallicus 2
Polybia paulista 6
Pontastacus leptodactylus 1
Portunus pelagicus 1
Portunus sanguinolentus 1
Portunus trituberculatus 1
Procambarus clarkii 3
Prosopis Juliflora 1
Prosopis juliflora 1
Protobothrops flavoviridis 1
Protobothrops mucrosquamatus 3
Protortonia cacti 1
Prunus armeniaca 5
Prunus avium 10
Prunus domestica 1
Prunus dulcis 7
Prunus dulcis x Prunus persica 7
Prunus persica 13
Pseudocardium sachalinensis 1
Punica granatum 4
Pyrus communis 7
Quercus alba 3
Rana esculenta 2
Rana sp. CH-2001 2
Rattus norvegicus 3
Rhizopus oryzae 1
Rhodotorula mucilaginosa 2
Ricinus communis 1
Rubus idaeus 2
Salmo salar 7
Salsola kali 11
Salvelinus fontinalis 2
Sarcoptes scabiei 1
Sarcoptes scabiei type hominis 7
Sarcoptes scabiei type suis 1
Sardinops sagax 1
Scapharca broughtonii 1
Schedonorus arundinaceus 3
Schistosoma japonicum 2
Schizophyllum commune H4-8 1
Scleronephthya gracillima 1
Scomber japonicus 1
Scomber scombrus 1
Scylla paramamosain 2
Scylla serrata 1
Sebastes marinus 2
Secale cereale 7
Sepia esculenta 1
Sepioteuthis lessoniana 1
Sesamum indicum 10
Sinapis alba 10
Sinonovacula constricta 1
Solanum lycopersicum 1
Solanum lycopersicum (Lycopersicon esculentum) 10
Solanum tuberosum 11
Solen strictus 1
Solenopsis geminata 2
Solenopsis invicta 9
Solenopsis richteri 2
Solenopsis saevissima 1
Sorghum halepense 4
Stachybotrys chartarum 1
Staphylococcus aureus 5
Stegastes partitus 1
Stemphylium callistephi 1
Stemphylium sp. CID1012 1
Stemphylium vesicarium 1
Strongyloides stercoralis 1
Suidasia medanensis 1
Sus scrofa 2
Syringa vulgaris 4
Tabanus yao 3
Thaumetopoea pityocampa 2
Thaumetopoea solitaria 1
Theragra chalcogramma 2
Thunnus albacares 4
Todarodes pacificus 1
Trachurus japonicus 1
Tresus keenae 1
Triatoma protracta 1
Trichophyton rubrum 2
Trichophyton schoenleinii 2
Triticum aestivum 89
Triticum turgidum subsp. durum 4
Triticum urartu 1
Tyrophagus putrescentiae 10
Venerupis philippinarum 1
Vespa affinis 2
Vespa crabro 3
Vespa magnifica 2
Vespa mandarinia 1
Vespula flavopilosa 1
Vespula germanica 5
Vespula maculifrons 4
Vespula pensylvanica 1
Vespula squamosa 2
Vespula vidua 1
Vespula vulgaris 8
Vigna radiata 4
Vigna radiata var. radiata 1
Vitis sp. 3
Xiphias gladius 1
Zea mays 30
Ziziphus mauritiana 1