JWS-112 Bumping version of T-Coffee to version 11.00.8cbe486.

[jabaws.git] / binaries / src / tcoffee / example / sproteases_small.fasta

diff --git a/binaries/src/tcoffee/example/sproteases_small.fasta b/binaries/src/tcoffee/example/sproteases_small.fasta
new file mode 100644 (file)
index 0000000..7c905a2
--- /dev/null
+++ b/binaries/src/tcoffee/example/sproteases_small.fasta
@@ -0,0 +1,128 @@
+>sp|Q06606|GRZ2_RAT     Granzyme-like protein 2 precursor (EC 3.4.21.-) (GLP-2) (Granzyme-like protein II) (GLP II) (Mast cell protease X) (rMCP-X) (rMCP-10) - Rattus norvegicus (Rat).
+MFLFLFFLVAILPVNTEGGEIIWGTESKPHSRPYMAFIKFYDSNSEPHHC
+GGFLVAKDIVMTAAHCNGRNIKVTLGAHNIKKQENTQVISVVKAKPHENY
+DRDSHFNDIMLLKLERKAQLNGVVKTIALPRSQDWVKPGQVCTVAGWGRL
+ANCTSSNTLQEVNLEVQKGQKCQDMSEDYNDSIQLCVGNPSEGKATGKGD
+SGGPFVCDGVAQGIVSYRLCTGTLPRVFTRISSFIPWIQKTMKVLQQS
+>sp|P08884|GRAE_MOUSE   Granzyme E precursor (EC 3.4.21.-) (Cytotoxic cell protease 3) (CCP3) (CTL serine protease 2) (D12) (Cytotoxic serine protease 2) (MCSP2) - Mus musculus (Mouse).
+MPPVLILLTLLLPLGAGAEEIIGGHVVKPHSRPYMAFVKSVDIEGNRRYC
+GGFLVQDDFVLTAAHCRNRTMTVTLGAHNIKAKEETQQIIPVAKAIPHPD
+YNATAFFSDIMLLKLESKAKRTKAVRPLKLPRPNARVKPGDVCSVAGWGS
+RSINDTKASARLREAQLVIQEDEECKKRFRHYTETTEICAGDLKKIKTPF
+KGDSGGPLVCDNKAYGLLAYAKNRTISSGVFTKIVHFLPWISRNMKLL
+>sp|P21844|MCPT5_MOUSE  Mast cell protease 5 precursor (EC 3.4.21.-) (MMCP-5) (Mast cell chymase 1) - Mus musculus (Mouse).
+MHLLTLHLLLLLLGSSTKAGEIIGGTECIPHSRPYMAYLEIVTSENYLSA
+CSGFLIRRNFVLTAAHCAGRSITVLLGAHNKTSKEDTWQKLEVEKQFLHP
+KYDENLVVHDIMLLKLKEKAKLTLGVGTLPLSANFNFIPPGRMCRAVGWG
+RTNVNEPASDTLQEVKMRLQEPQACKHFTSFRHNSQLCVGNPKKMQNVYK
+GDSGGPLLCAGIAQGIASYVHRNAKPPAVFTRISHYRPWINKILREN
+>sp|O35205|GRAK_MOUSE   Granzyme K precursor (EC 3.4.21.-) - Mus musculus (Mouse).
+MRFSSWALVSLVAGVYMSSECFHTEIIGGREVQPHSRPFMASIQYRSKHI
+CGGVLIHPQWVLTAAHCYSWFPRGHSPTVVLGAHSLSKNEPMKQTFEIKK
+FIPFSRLQSGSASHDIMLIKLRTAAELNKNVQLLHLGSKNYLRDGTKCQV
+TGWGTTKPDLLTASDTLREVTVTIISRKRCNSQSYYNHKPVITKDMICAG
+DARGQKDSCKGDSGGPLICKGIFHALVSQGYKCGIAKKPGIYTLLTKKYQ
+TWIKSKLAPSRAH
+>sp|Q9Y5K2|KLK4_HUMAN   Kallikrein-4 precursor (EC 3.4.21.-) (Prostase) (Kallikrein-like protein 1) (KLK-L1) (Enamel matrix serine proteinase 1) - Homo sapiens (Human).
+MATAGNPWGWFLGYLILGVAGSLVSGSCSQIINGEDCSPHSQPWQAALVM
+ENELFCSGVLVHPQWVLSAAHCFQNSYTIGLGLHSLEADQEPGSQMVEAS
+LSVRHPEYNRPLLANDLMLIKLDESVSESDTIRSISIASQCPTAGNSCLV
+SGWGLLANGRMPTVLQCVNVSVVSEEVCSKLYDPLYHPSMFCAGGGQDQK
+DSCNGDSGGPLICNGYLQGLVSFGKAPCGQVGVPGVYTNLCKFTEWIEKT
+VQAS
+>sp|Q7YRZ7|GRAA_BOVIN   Granzyme A precursor (EC 3.4.21.78) - Bos taurus (Bovine).
+MNIPFPFSFPPAICLLLIPGVFPVSCEGIIGGNEVAPHTRRYMALIKGLK
+LCAGALIKENWVLTAAHCDLKGNPQVILGAHSTSHKEKLDQVFSIKKAIP
+YPCFDPQTFEGDLQLLQLEGKATMTKAVGILQLPRTEDDVKPHTKCHVAG
+WGSTKKDACQMSNALREANVTVIDRKICNDAQHYNFNPVIDLSMICAGGR
+KGEDDSCEGDSGSPLICDNVFRGVTSFGKCGNPQKPGIYILLTKKHLNWI
+KKTIAGAI
+>sp|Q00871|CTRB1_PENVA  Chymotrypsin BI precursor (EC 3.4.21.1) - Penaeus vannamei (Penoeid shrimp) (European white shrimp).
+MIGKLSLLLVCVAVASGNPAAGKPWHWKSPKPLVDPRIHVNATPRIVGGV
+EATPHSWPHQAALFIDDMYFCGGSLISSEWVLTAAHCMDGAGFVEVVLGA
+HNIRQNEASQVSITSTDFFTHENWNSWLLTNDIALIRLPSPVSLNSNIKT
+VKLPSSDVSVGTTVTPTGWGRPSDSASGISDVLRQVNVPVMTNADCDSVY
+GIVGDGVVCIDGTGGKSTCNGDSGGPLNLNGMTYGITSFGSSAGCEKGYP
+AAFTRVYYYLDWIQQKTGVTP
+>sp|P08246|ELNE_HUMAN   Leukocyte elastase precursor (EC 3.4.21.37) (Elastase-2) (Neutrophil elastase) (PMN elastase) (Bone marrow serine protease) (Medullasin) (Human leukocyte elastase) (HLE) - Homo sapiens (Human).
+MTLGRRLACLFLACVLPALLLGGTALASEIVGGRRARPHAWPFMVSLQLR
+GGHFCGATLIAPNFVMSAAHCVANVNVRAVRVVLGAHNLSRREPTRQVFA
+VQRIFENGYDPVNLLNDIVILQLNGSATINANVQVAQLPAQGRRLGNGVQ
+CLAMGWGLLGRNRGIASVLQELNVTVVTSLCRRSNVCTLVRGRQAGVCFG
+DSGSPLVCNGLIHGIASFVRGGCASGLYPDAFAPVAQFVNWIDSIIQRSE
+DNPCPHPRDPDPASRTH
+>sp|P03953|CFAD_MOUSE   Complement factor D precursor (EC 3.4.21.46) (C3 convertase activator) (Properdin factor D) (Adipsin) (28 kDa protein, adipocyte) - Mus musculus (Mouse).
+MHSSVYFVALVILGAAVCAAQPRGRILGGQEAAAHARPYMASVQVNGTHV
+CGGTLLDEQWVLSAAHCMDGVTDDDSVQVLLGAHSLSAPEPYKRWYDVQS
+VVPHPGSRPDSLEDDLILFKLSQNASLGPHVRPLPLQYEDKEVEPGTLCD
+VAGWGVVTHAGRRPDVLHQLRVSIMNRTTCNLRTYHDGVVTINMMCAESN
+RRDTCRGDSGSPLVCGDAVEGVVTWGSRVCGNGKKPGVYTRVSSYRMWIE
+NITNGNMTS
+>sp|Q91VE3|KLK7_MOUSE   Kallikrein-7 precursor (EC 3.4.21.-) (Stratum corneum chymotryptic enzyme) (Thymopsin) - Mus musculus (Mouse).
+MGVWLLSLITVLLSLALETAGQGERIIDGYKCKEGSHPWQVALLKGNQLH
+CGGVLVDKYWVLTAAHCKMGQYQVQLGSDKIGDQSAQKIKATKSFRHPGY
+STKTHVNDIMLVRLDEPVKMSSKVEAVQLPEHCEPPGTSCTVSGWGTTTS
+PDVTFPSDLMCSDVKLISSRECKKVYKDLLGKTMLCAGIPDSKTNTCNGD
+SGGPLVCNDTLQGLVSWGTYPCGQPNDPGVYTQVCKYKRWVMETMKTHR
+>sp|Q6H321|KLK2_HORSE   Kallikrein-1E2 precursor (EC 3.4.21.35) (Glandular kallikrein) (HPK) - Equus caballus (Horse).
+MWFLVLCLDLSLGETGALPPIQSRIIGGWECEKHSKPWQVAVYHQGHFQC
+GGVLVHPQWVLTAAHCMSDDYQIWLGRHNLSEDEDTAQFHQVSDSFLDPQ
+FDLSLLKKKYLRPYDDISHDLMLLRLAQPARITDAVKILDLPTQEPKLGS
+TCYTSGWGLISTFTNRGSGTLQCVELRLQSNEKCARAYPEKMTEFVLCAT
+HRDDSGSICLGDSGGALICDGVFQGITSWGYSECADFNDNFVFTKVMPHL
+KWIKETIEKNS
+>sp|Q03238|GRAM_RAT     Granzyme M precursor (EC 3.4.21.-) (Met-ase) (Natural killer cell granular protease) (RNK-Met-1) (Fragment) - Rattus norvegicus (Rat).
+LLLLLALKTLWAVGNRFEAQIIGGREAVPHSRPYMVSLQNTKSHMCGGVL
+VHQKWVLTAAHCLSEPLQQLKLVFGLHSLHDPQDPGLTFYIKQAIKHPGY
+NLKYENDLALLKLDGRVKPSKNVKPLALPRKPRDKPAEGSRCSTAGWGIT
+HQRGQLAKSLQELDLRLLDTRMCNNSRFWNGVLTDSMLCLKAGAKGQAPC
+KGDSGGPLVCGKGKVDGILSFSSKNCTDIFKPTVATAVAPYSSWIRKVIG
+RWSPQPLT
+>sp|P20160|CAP7_HUMAN   Azurocidin precursor (Cationic antimicrobial protein CAP37) (Heparin- binding protein) (HBP) - Homo sapiens (Human).
+MTRLTVLALLAGLLASSRAGSSPLLDIVGGRKARPRQFPFLASIQNQGRH
+FCGGALIHARFVMTAASCFQSQNPGVSTVVLGAYDLRRRERQSRQTFSIS
+SMSENGYDPQQNLNDLMLLQLDREANLTSSVTILPLPLQNATVEAGTRCQ
+VAGWGSQRSGGRLSRFPRFVNVTVTPEDQCRPNNVCTGVLTRRGGICNGD
+GGTPLVCEGLAHGVASFSLGPCGRGPDFFTRVALFRDWIDGVLNNPGPGP
+A
+>sp|P07338|CTRB1_RAT    Chymotrypsinogen B precursor (EC 3.4.21.1) [Contains: Chymotrypsin B chain A; Chymotrypsin B chain B; Chymotrypsin B chain C] - Rattus norvegicus (Rat).
+MAFLWLVSCFALVGATFGCGVPTIQPVLTGLSRIVNGEDAIPGSWPWQVS
+LQDKTGFHFCGGSLISEDWVVTAAHCGVKTSDVVVAGEFDQGSDEENIQV
+LKIAQVFKNPKFNMFTVRNDITLLKLATPAQFSETVSAVCLPNVDDDFPP
+GTVCATTGWGKTKYNALKTPEKLQQAALPIVSEADCKKSWGSKITDVMTC
+AGASGVSSCMGDSGGPLVCQKDGVWTLAGIVSWGSGVCSTSTPAVYSRVT
+ALMPWVQQILEAN
+>sp|P00757|KLKB4_MOUSE  Kallikrein 1-related peptidase-like b4 precursor (7S nerve growth factor alpha chain) (Alpha-NGF) - Mus musculus (Mouse).
+MWFLILFLALSLGGIDAAPPVQSQVDCENSQPWHVAVYRFNKYQCGGVLL
+DRNWVLTAAHCYNDKYQVWLGKNNFLEDEPSDQHRLVSKAIPHPDFNMSL
+LNEHTPQPEDDYSNDLMLLRLSKPADITDVVKPITLPTEEPKLGSTCLAS
+GWGSTTPIKFKYPDDLQCVNLKLLPNEDCDKAHEMKVTDAMLCAGEMDGG
+SYTCEHDSGGPLICDGILQGITSWGPEPCGEPTEPSVYTKLIKFSSWIRE
+TMANNP
+>sp|P80015|CAP7_PIG     Azurocidin (Cationic antimicrobial protein CAP37) (Heparin-binding protein) (HBP) - Sus scrofa (Pig).
+IVGGRRAQPQEFPFLASIQKQGRPFCAGALVHPRFVLTAASCFRGKNSGS
+ASVVLGAYDLRQQEQSRQTFSIRSISQNGYDPRQNLNDVLLLQLDREARL
+TPSVALVPLPPQNATVEAGTNCQVAGWGTQRLRRLFSRFPRVLNVTVTSN
+PCLPRDMCIGVFSRRGRISQGDRGTPLVCNGLAQGVASFLRRRFRRSSGF
+FTRVALFRNWIDSVLNNPP
+>sp|P29786|TRY3_AEDAE   Trypsin 3A1 precursor (EC 3.4.21.4) - Aedes aegypti (Yellowfever mosquito).
+MNQFLFVSFCALLDSAKVSAATLSSGRIVGGFQIDIAEVPHQVSLQRSGR
+HFCGGSIISPRWVLTRAHCTTNTDPAAYTIRAGSTDRTNGGIIVKVKSVI
+PHPQYNGDTYNYDFSLLELDESIGFSRSIEAIALPDASETVADGAMCTVS
+GWGDTKNVFEMNTLLRAVNVPSYNQAECAAALVNVVPVTEQMICAGYAAG
+GKDSCQGDSGGPLVSGDKLVGVVSWGKGCALPNLPGVYARVSTVRQWIRE
+VSEV
+>sp|P35037|TRY3_ANOGA   Trypsin-3 precursor (EC 3.4.21.4) - Anopheles gambiae (African malaria mosquito).
+MISNKIAILLAVLVVAVACAQARVAQQHRSVQALPRFLPRPKYDVGHRIV
+GGFEIDVSETPYQVSLQYFNSHRCGGSVLNSKWILTAAHCTVNLQPSSLA
+VRLGSSRHASGGTVVRVARVLEHPNYDDSTIDYDFSLMELESELTFSDVV
+QPVSLPDQDEAVEDGTMTIVSGWGNTQSAAESNAILRAANVPTVNQKECT
+IAYSSSGGITDRMLCAGYKRGGKDACQGDSGGPLVVDGKLVGVVSWGFGC
+AMPGYPGVYARVAVVRDWVRENSGA
+>sp|P00773|ELA1_RAT     Elastase-1 precursor (EC 3.4.21.36) - Rattus norvegicus (Rat).
+MLRFLVFASLVLYGHSTQDFPETNARVVGGAEARRNSWPSQISLQYLSGG
+SWYHTCGGTLIRRNWVMTAAHCVSSQMTFRVVVGDHNLSQNDGTEQYVSV
+QKIMVHPTWNSNNVAAGYDIALLRLAQSVTLNNYVQLAVLPQEGTILANN
+NPCYITGWGRTRTNGQLSQTLQQAYLPSVDYSICSSSSYWGSTVKTTMVC
+AGGDGVRSGCQGDSGGPLHCLVNGQYSVHGVTSFVSSMGCNVSKKPTVFT
+RVSAYISWMNNVIAYT