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
Blomia tropicalis 24
Gallus gallus 18
Actinidia deliciosa 21
Bos taurus 25
Canis lupus familiaris 8
Apis mellifera 15
Dermatophagoides pteronyssinus 74
Brassica rapa 4
Betula pendula 70
Glycine max 43
Hevea brasiliensis 41
Hordeum vulgare subsp. vulgare 5
Hordeum vulgare 5
Ricinus communis 1
Solanum tuberosum 12
Triticum aestivum 93
Triticum turgidum subsp. durum 4
Corylus avellana 26
Helianthus annuus 3
Bertholletia excelsa 2
Ambrosia artemisiifolia 38
Poa pratensis 7
Ambrosia artemisiifolia (elatior) 2
Ambrosia trifida 1
Staphylococcus aureus 6
Chironomus thummi thummi 15
Lolium perenne 13
Apis dorsata 2
Dermatophagoides microceras 1
Rattus norvegicus 3
Aspergillus oryzae 3
Carica papaya 2
Gadus callarias 1
Merluccius merluccius 2
Pontastacus leptodactylus 1
Bacillus licheniformis 2
Dolichovespula maculata 5
Dolichovespula arenaria 1
Polistes annularis 3
Vespula vulgaris 8
Felis catus 12
Zea mays 31
Triticum urartu 1
Mus musculus domesticus 1
Dermatophagoides farinae 71
Oryza sativa (japonica cultivar-group) 18
Candida albicans 3
Arachis hypogaea 44
Alnus glutinosa 2
Bacillus lentus 1
Aspergillus niger 3
Mus musculus 2
Betula sp. 2
Myrmecia pilosula 25
Agrostis alba 3
Anthoxanthum odoratum 3
Schedonorus arundinaceus 3
Phleum pratense 67
Equus caballus 8
Carpinus betulus 19
Phalaris aquatica 6
Holcus lanatus 7
Cynodon dactylon 14
Vitis sp. 3
Davidiella tassiana 11
Cryptomeria japonica 24
Ambrosia psilostachya 5
Blattella germanica 27
Solenopsis invicta 5
Vespa crabro 3
Polistes fuscatus 1
Vespula flavopilosa 1
Vespula germanica 5
Vespula maculifrons 4
Vespula pensylvanica 1
Vespula squamosa 2
Vespula vidua 1
Aedes aegypti 26
Lepidoglyphus destructor 21
Metapenaeus ensis 1
Syringa vulgaris 4
Canis familiaris 6
Aspergillus fumigatus 31
Parietaria judaica 12
Malus domestica 6
Glycine soja 1
Cucumis melo 4
Malus x domestica 48
Secale cereale 7
Penicillium chrysogenum 6
Vigna radiata var. radiata 1
Sinapis alba 14
Dactylis glomerata 8
Prunus avium 10
Alternaria alternata 19
Ascaris suum 3
Oryza sativa 3
Bacillus sp. 1
Malassezia sympodialis 9
Parietaria officinalis 8
Salmo salar 7
Daucus carota 18
Apium graveolens 5
Castanea sativa 6
Olea europaea 84
Chamaecyparis obtusa 4
Periplaneta americana 29
Juglans regia 6
Solanum lycopersicum 2
Brassica napus 4
Tyrophagus putrescentiae 13
Homarus americanus 2
Prunus armeniaca 5
Ascaris lumbricoides 14
Schistosoma japonicum 2
Solanum lycopersicum (Lycopersicon esculentum) 9
Mercurialis annua 1
Panulirus stimpsoni 1
Persea americana 1
Pyrus communis 7
Ligustrum vulgare 2
Prunus persica 13
Malassezia furfur 4
Crassostrea virginica 1
Euroglyphus maynei 4
Juniperus ashei 3
Vigna radiata 4
Helix aspersa 1
Coprinus comatus 1
Penicillium citrinum 9
Sesamum indicum 10
Juniperus oxycedrus 2
Strongyloides stercoralis 1
Trichophyton rubrum 2
Anisakis simplex 32
Musa acuminata AAA Group 2
Solenopsis richteri 2
Vespa mandarinia 1
Glycyphagus domesticus 3
Cupressus arizonica 5
Charybdis feriatus 1
Chironomus kiiensis 1
Pisum sativum 4
Apis cerana 1
Solenopsis geminata 2
Cupressus sempervirens 11
Juniperus virginiana 3
Glossina morsitans morsitans 4
Prunus domestica 1
Haliotis diversicolor 1
Perna viridis 1
Chlamys nobilis 1
Oryctolagus cuniculus 2
Penicillium oxalicum 1
Betula platyphylla 3
Apis cerana cerana 1
Mesocricetus auratus 3
Musa acuminata 4
Plantago lanceolata 5
Bombus terrestris 2
Gadus morhua 6
Theragra chalcogramma 2
Curvularia lunata 3
Crassostrea gigas 2
Triatoma protracta 1
Litchi chinensis 2
Plodia interpunctella 2
Capsicum annuum 2
Fagopyrum esculentum 13
Cyprinus carpio 2
Fragaria x ananassa 13
Periplaneta fuliginosa 1
Fusarium culmorum 3
Lepisma saccharina 2
Rana esculenta 2
Rana sp. CH-2001 2
Phoenix dactylifera 1
Manihot esculenta 2
Anacardium occidentale 4
Chenopodium album 4
Trichophyton schoenleinii 2
Arthroderma benhamiae 3
Prunus dulcis 9
Epicoccum nigrum 1
Salsola kali 10
Polistes gallicus 2
Artemisia vulgaris 13
Platanus x acerifolia 4
Sarcoptes scabiei type hominis 7
Penaeus monodon 6
Hevea brasiliensis subsp. brasiliensis 1
Carya illinoinensis 4
Scomber japonicus 1
Lens culinaris 3
Rhodotorula mucilaginosa 2
Polistes dominulus 6
Juglans nigra 3
Brassica juncea 1
Brassica rapa subsp. rapa 2
Cavia porcellus 3
Humulus japonicus 2
Fraxinus excelsior 5
Humulus scandens 2
Juniperus rigida 2
Onchocerca volvulus 1
Suidasia medanensis 1
Fenneropenaeus chinensis 2
Bombus pennsylvanicus 2
Lates calcarifer 2
Stemphylium vesicarium 1
Stemphylium callistephi 1
Citrus sinensis 5
Polistes exclamans 1
Myrmecia banksi 1
Citrus limon 1
Morus bombycis 2
Cucumis melo var. reticulatus 1
Nicotiana tabacum 2
Argas reflexus 2
Crocus sativus 1
Penicillium brevicompactum 1
Ziziphus mauritiana 1
Aspergillus fumigatus Af293 5
Actinidia chinensis 7
Farfantepenaeus aztecus 1
Lilium longiflorum 1
Aspergillus flavus 1
Ananas comosus 2
Trachurus japonicus 1
Bombyx mori 3
Sepia esculenta 1
Sepioteuthis lessoniana 1
Todarodes pacificus 1
Ommastrephes bartramii 1
Octopus vulgaris 1
Dermatophagoides siboney 1
Lupinus albus 8
Rubus idaeus 2
Pistacia vera 6
Fagopyrum tataricum 3
Litopenaeus vannamei 4
Sus scrofa 2
Acarus siro 2
Portunus sanguinolentus 1
Caryota mitis 1
Balanus rostratus 1
Marsupenaeus japonicus 1
Paralithodes camtschaticus 2
Erimacrus isenbeckii 2
Eriocheir sinensis 2
Cladosporium cladosporioides 2
Lupinus angustifolius 15
Scylla serrata 2
Portunus trituberculatus 1
Stemphylium sp. CID1012 1
Sinonovacula constricta 1
Euphausia superba 1
Euphausia pacifica 1
Oratosquilla oratoria 1
Platanus orientalis 2
Polybia paulista 6
Quercus alba 3
Paspalum notatum 9
Pachycondyla chinensis 1
Cucumis melo var. inodorus 1
Forcipomyia taiwana 2
Prunus dulcis x Prunus persica 7
Sardinops sagax 1
Cochliobolus lunatus 1
Lepidorhombus whiffiagonis 1
Fagus sylvatica 3
Arthroderma vanbreuseghemii 1
Venerupis philippinarum 1
Haliotis discus discus 2
Batillus cornutus 1
Neptunea polycostata 1
Scapharca broughtonii 1
Fulvia mutica 1
Pseudocardium sachalinensis 1
Tresus keenae 1
Solen strictus 1
Xiphias gladius 1
Procambarus clarkii 4
Amaranthus retroflexus 3
Protortonia cacti 1
Crangon crangon 6
Sebastes marinus 2
Clupea harengus 3
Stachybotrys chartarum 2
Scomber scombrus 1
Salvelinus fontinalis 2
Oncorhynchus mykiss 5
Morus nigra 1
Macrobrachium rosenbergii 2
Phaseolus vulgaris 2
Solenopsis saevissima 1
Thunnus albacares 4
Aspergillus versicolor 1
Oncorhynchus keta 1
Coffea arabica 3
Ostrya carpinifolia 1
Thaumetopoea pityocampa 5
Schizophyllum commune H4-8 1
Tabanus yao 3
Macruronus magellanicus 3
Merluccius australis australis 1
Merluccius australis polylepis 2
Merluccius gayi 2
Merluccius paradoxus 3
Merluccius productus 2
Merluccius bilinearis 3
Merluccius capensis 1
Merluccius polli 2
Macruronus novaezelandiae 1
Chionoecetes opilio 2
Pandalus borealis 1
Vespa magnifica 2
Evynnis japonica 2
Amphioctopus fangsiao 2
Fenneropenaeus merguiensis 2
Lycium barbarum 1
Penicillium crustosum 1
Scylla paramamosain 2
Oreochromis mossambicus 1
Actinidia eriantha 3
Actinidia arguta 3
Manilkara zapota 3
Anisakis pegreffii 4
Portunus pelagicus 1
Malassezia sympodialis ATCC 42132 5
Sarcoptes scabiei type suis 1
Phodopus sungorus 3
Apium graveolens Rapaceum Group 1
Punica granatum 5
Cannabis sativa 1
Vespa affinis 2
Apis mellifera carnica 4
Morus alba var. atropurpurea 1
Fusarium proliferatum 2
Prosopis juliflora 1
Catharanthus roseus 1
Aspergillus fumigatus var. RP-2014 2
Sorghum halepense 4
Rhizopus oryzae 1
Pinus pinea 2
Bassia scoparia 2
Brassica oleracea var. oleracea 1
Bos grunniens mutus 1
Beta vulgaris 4
Protobothrops flavoviridis 1
Cicer arietinum 1
Citrullus lanatus 1
Protobothrops mucrosquamatus 3
Fragaria x ananassa subsp. ananassa 3
Oryza sativa Japonica Group 17
Parthenium hysterophorus 1
Acacia farnesiana 1
Prosopis Juliflora 1
Mangifera indica 7
Kali turgidum 1
Oryza sativa Indica Group 1
Liposcelis bostrychophila 2
Dermatophagoides farinae 1
Thaumetopoea solitaria 1
Stegastes partitus 1
Gloydius brevicaudus 1
Sarcoptes scabiei 2
Penaeus chinensis 1
Vachellia farnesiana 1
Artemisia annua 1
Artemisia argyi 2
Artemisia capillaris 1
Artemisia gmelinii 1
Artemisia lavandulifolia 1
Artemisia sieversiana 1
Quercus mongolica 2
Rastrelliger kanagurta 1
anisakis pegreffii 1
Malassezia globosa CBS 7966 1
Polistes dominula 1
Prunus mume 1
Triticum turgidum 1
Trichophyton tonsurans 1
Coptotermes formosanus 1
Mustelus griseus 3
Lathyrus sativus 1
Urochloa mutica 3
Fusarium lateritium 2
Echinococcus granulosus 1
Hesperocyparis arizonica 1
Triplochiton scleroxylon 1
Candida boidinii 1
Pandalus eous 1
Cladosporium herbarum 1
Phaseolus mungo 1
Foeniculum vulgare 5
Penaeus latisulcatus 1
Cocos nucifera 3
Equus asinus 1
Ulocladium botrytis 2
Lupinus luteus 3
Dioscorea polystachya 1
Stemphylium botryosum 1
Fagopyrum esculemtum 1