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JWS-112 Bumping version of T-Coffee to version 11.00.8cbe486.
[jabaws.git] / binaries / src / tcoffee / example / sample_aln5.aln
diff --git a/binaries/src/tcoffee/example/sample_aln5.aln b/binaries/src/tcoffee/example/sample_aln5.aln
new file mode 100644 (file)
index 0000000..5358ba6
--- /dev/null
+++ b/binaries/src/tcoffee/example/sample_aln5.aln
@@ -0,0 +1,14 @@
+CLUSTAL
+
+s22   ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ARVDQT----PRSVTKETG-ESLTINCVLRDASY--ALGSTCWYRKKSGEGNE---ESI--S-------KGGRYVET--V-NSG-SKSFSLRINDLTVEDGGTYRCGLG----VAGGYCDYALCSSRYAECGDGTAVTVN------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s23   -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GDQVEQS----PSALSLHEG-TDSALRCNFT---T--TMRSVQWFRQN-SRGSL---ISL--FYLASGTKENGRLKSA--FDSER-ARYSTLHIRDAQLEDSGTYFCAAEASSGSW------------QLIFGSGTQLTV-M-PVT-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s24   ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RVLQVDIV----PSQGEISVG-ESKFFLCQVA---GDAKDKDISWFSPN-----G---EKL--S------PNQQRISVV--WND---DDSSTLTIYNANIDDAGIYKCVVTAEDG--------------TQSEA-TVNVKI-F-QKLMFK-NAPTPQEFKEG--EDAVIVCDVVSSLPPTIIWKHKGRDV-ILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRILARGEINFKDIQVIVRVLQVDIVPSQGEISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYNANIDDAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRILARGEINFKDIQVIVRVLQVDIVPSQGEISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYNANIDDAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRILARGEINFKDIQVIVRVLQVDIVPSQGEISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYNANIDDAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRILARGEINFKDIQVIV
+s25   LPVDKYPVLKDQPAEVLFREN---NPTVLECIIEGNDQGVKYSWKKDGKSYNWQ-EHNAALRKDEGSLVFLRPQ-ASDEGHYQCFAETPAGVASSRVISFRKTYLIASPAKTH-EKTPIEGRPFQLDCVLPNAYPKPLITWKK---RLSGADPNADVTDFDRRITAG-PDGNLYFTIVTKEDVSDIYKYVCTAKNAAVDEEVVLVEYEIKGVTKDNSGYKGEPVPQYV----SKDMMAKAG-DVTMIYCMYG---S-NPMGYPNYFKNG-----K---DVN--G------NPEDRITRHNRTS------GKRLLFKTTLPEDEGVYTCEVDNGVG--------------KPQKH-SLKLTV-V-SAPKYEQKPEKVIVVKQG--QDVTIPCKVTGLPAPNVVWSHNAKPL-S---GGRATVT-DSGLVIKGVKNGDKGYYGCRATN--EHGDKYFETLVQVN--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s26   --RSYGPVFEEQPAHTLFPEGSAEEKVTLTCRA-RANPPATYRWKMNGTELKMGPDSRYRLV--AGDLVISNPVKAKDAGSYQCVATNARGTVVSREASLRFGFLQEFSAEERDPVKITEGWGVMFTCSPPPHYPALSYRWLLNEFPN--------FIPADGRRFVSQTTGNLYIAKTEASDLGN--YSCFATSHIDFITKSVFSKFSQLSLAAED-ARQYAPSIKAK----FPADTYALTGQMVTLECFAF---G-NPVPQIKWRKLD-----GSQTSKW--L------S-----------S------EPLLHIQNVDFEDEGTYECEAENIK---------------GRDTY-QGRIII-H-AQPDWLDVI---TDTEADIGSDLRWSCVASGKPRPAVRWLRDGQPLAS---QNRIEVS-GGELRFSKLVLEDSGMYQCVAEN--KHG-TVYASAELTVQA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s27   -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ISGMSGRKASGSSPTSPINANKVENEDAFLEEVAEEKPHVKPYFTKT----ILDMEVVEG-SAARFDCKVE---G-YPDPEVMWFKDD-----N---PVK--E------S--RHFQID--YDEEG---NCSLTISEVCGDDDAKYTCKAVNS-L--------------GEATC-TAELLV-E-TMGKEGEGEGEGEEDEEEEEE-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s28   MTTQAPTFTQPLQSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLPGVQISFSDGR-----------------------------------------------------------------------------------------------------------------------AKLTIPAVTKANSGRYSLKATNGSGQATSTAELLVKAETAPPNFVQR----LQSMTVRQG-SQVRLQVRVT---G-IPTPVVKFYRDG-----A---EIQ--S------S--LDFQIS--QE-GD---LYSLLIAEAYPEDSGTYSVNATNS-V--------------GRATS-TAELLV-Q-GETREEF---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s29   -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GSSGSSGTDVSSWIVYPSG--KVYVAAVRL-ERVVLTCELC---R--PWAEVRWTKDG-----E---EVV--E------S--PALLLQKEDT------VRRLVLPAVQLEDSGEYLCEID-------------------DESA-SFTVTV-T-EPPVRI-IYSGPSSG-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s30   ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MHHHHHHSSRILTK----PRSMTVYEG-ESARFSCDTD---G-EPVPTVTWLRKG-----Q---VLS--T------S--ARHQVT--TTK-Y---KSTFEISSVQASDEGNYSVVVENS-E--------------GKQEA-EFTLTI-QK----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s31   ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LKPKILTA----SRKIKIKAG-FTHNLEVDFI---G-APDPTATWTVGDSG---A---ALA--P----------ELLVD--AKS-S---TTSIFFPSAKRADSGNYKLKVKNE-L--------------GEDEA-IFEVIVQ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s32   WNIHGKES--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CDVQLYIKR---QSEHSILAG-DPFELECPVK---YCANRPHVTWCKLNGTT--C---VKL--E----------DRQTS--WKEEKNISFFILHFEPVLPNDNGSYRCSANFQSN--------------LIESH-STTLYV-T-DVKHHHHHHHH-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
+s33   ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MNSNNKRAPYWTNTEKMEKRLHAVPAA-NTVKFRCPAG---G-NPMPTMRWLKNG-----K---EFKQEH------R--IGGYKV--RNQ-H---WSLIMESV-VPSDKGNYTCVVENE-Y--------------GSINH-TYHLDVV------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------