/usr/share/doc/t-coffee-examples/sample_aln5.aln is in t-coffee-examples 10.00.r1613-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 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------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
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