Tool based examples

Multiple Sequence Alignment Nucleotide Sequence example in FASTA format

>ENA|BAA20512|BAA20512.1 Cyprinus carpio (common carp) alpha-globin 
ATGAGTCTCTCTGATAAGGACAAGGCTGCTGTGAAAGCCCTATGGGCTAAGATCAGCCCC
AAAGCCGATGATATCGGCGCTGAAGCTCTCGGCAGAATGCTGACCGTCTACCCTCAGACC
AAGACCTACTTCGCTCACTGGGATGACCTGAGCCCTGGGTCCGGTCCTGTGAAGAAGCAT
GGCAAGGTTATCATGGGTGCAGTGGCCGATGCCGTTTCAAAAATAGACGACCTTGTGGGA
GGTCTGGCCTCCCTGAGCGAACTTCATGCTTCCAAGCTGCGTGTTGACCCGGCCAACTTC
AAGATCCTCGCACACAATGTCATCGTGGTCATCGGCATGCTCTTCCCTGGAGACTTCCCC
CCAGAGGTTCACATGTCAGTTGACAAGTTTTTCCAGAACTTGGCTCTGGCTCTCTCTGAG
AAGTACCGCTAA
>ENA|CAA23748|CAA23748.1 Homo sapiens (human) alpha globin 
ATGGTGCTGTCTCCTGCCGACAAGACCAACGTCAAGGCCGCCTGGGGTAAGGTCGGCGCG
CACGCTGGCGAGTATGGTGCGGAGGCCCTGGAGAGGATGTTCCTGTCCTTCCCCACCACC
AAGACCTACTTCCCGCACTTCGACCTGAGCCACGGCTCTGCCCAAGTTAAGGGCCACGGC
AAGAAGGTGGCCGACGCGCTGACCAACGCCGTGGCGCACGTGGACGACATGCCCAACGCG
CTGTCCGCCCTGAGCGACCTGCACGCGCACAAGCTTCGGGTGGACCCGGTCAACTTCAAG
CTCCTAAGCCACTGCCTGCTGGTGACCCTGGCCGCCCACCTCCCCGCCGAGTTCACCCCT
GCGGTGCACGCTTCCCTGGACAAGTTCCTGGCTTCTGTGAGCACCGTGCTGACCTCCAAA
TACCGTTAA
>ENA|CAA24095|CAA24095.1 Mus musculus (house mouse) alpha-globin 
ATGGTGCTCTCTGGGGAAGACAAAAGCAACATCAAGGCTGCCTGGGGGAAGATTGGTGGC
CATGGTGCTGAATATGGAGCTGAAGCCCTGGAAAGGATGTTTGCTAGCTTCCCCACCACC
AAGACCTACTTTCCTCACTTTGATGTAAGCCACGGCTCTGCCCAGGTCAAGGGTCACGGC
AAGAAGGTCGCCGATGCGCTGGCCAGTGCTGCAGGCCACCTCGATGACCTGCCCGGTGCC
TTGTCTGCTCTGAGCGACCTGCATGCCCACAAGCTGCGTGTGGATCCCGTCAACTTCAAG
CTCCTGAGCCACTGCCTGCTGGTGACCTTGGCTAGCCACCACCCTGCCGATTTCACCCCC
GCGGTACATGCCTCTCTGGACAAATTCCTTGCCTCTGTGAGCACCGTGCTGACCTCCAAG
TACCGTTAA
>ENA|CAA28435|CAA28435.1 Capra hircus (goat) alpha-globin 
ATGTCTCTGACCAGGACTGAGAGGACCATCATCCTGTCCCTGTGGAGCAAGATCTCCACA
CAGGCAGACGTCATTGGCACCGAGACCCTGGAGAGGCTCTTCTCCTGCTACCCGCAGGCC
AAGACCTACTTCCCGCACTTCGACCTGCACTCGGGCTCCGCGCAGCTGCGCGCGCACGGC
TCCAAGGTGGTGGCCGCCGTGGGCGACGCGGTCAAGAGCATCGACAACGTGACGAGCGCG
CTGTCCAAGCTGAGCGAGCTGCACGCCTACGTGCTGCGCGTGGACCCGGTCAACTTCAAG
TTCCTGTCCCACTGCCTGCTGGTCACGTTGGCCTCGCACTTCCCCGCCGACTTCACGGCC
GACGCGCACGCCGCCTGGGACAAGTTCCTGTCCATCGTGTCCGGCGTCCTGACGGAGAAG
TACCGCTGA

MView protein input in Clustal w/o Numbers format

tr|O13169|O13169_CYPCA      MSLSDKDKAAVKALWAKISPKADDIGAEALGRMLTVYPQTKTYFAHWDDLSPGSGPVKKH
 sp|P69905|HBA_HUMAN         MVLSPADKTNVKAAWGKVGAHAGEYGAEALERMFLSFPTTKTYFPHFD-LSHGSAQVKGH
 sp|P01942|HBA_MOUSE         MVLSGEDKSNIKAAWGKIGGHGAEYGAEALERMFASFPTTKTYFPHFD-VSHGSAQVKGH
 sp|P13786|HBAZ_CAPHI        MSLTRTERTIILSLWSKISTQADVIGTETLERLFSCYPQAKTYFPHFD-LHSGSAQLRAH
                             * *:  ::: : : *.*:. :.   *:*:* *::  :* :**** *:* :  **. :: *

 tr|O13169|O13169_CYPCA      GKVIMGAVADAVSKIDDLVGGLASLSELHASKLRVDPANFKILAHNVIVVIGMLFPGDFP
 sp|P69905|HBA_HUMAN         GKKVADALTNAVAHVDDMPNALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHLPAEFT
 sp|P01942|HBA_MOUSE         GKKVADALASAAGHLDDLPGALSALSDLHAHKLRVDPVNFKLLSHCLLVTLASHHPADFT
 sp|P13786|HBAZ_CAPHI        GSKVVAAVGDAVKSIDNVTSALSKLSELHAYVLRVDPVNFKFLSHCLLVTLASHFPADFT
                             *. :  *: .*.  :*:: ..*: **:***  *****.***:*:* ::*.:.   *.:* 

 tr|O13169|O13169_CYPCA      PEVHMSVDKFFQNLALALSEKYR
 sp|P69905|HBA_HUMAN         PAVHASLDKFLASVSTVLTSKYR
 sp|P01942|HBA_MOUSE         PAVHASLDKFLASVSTVLTSKYR
 sp|P13786|HBAZ_CAPHI        ADAHAAWDKFLSIVSGVLTEKYR
                               .* : ***:  :: .*:.***

Pairwise Sequence Alignment Protein Sequence example in FASTA format

>sp|P15208|INSR_MOUSE Insulin receptor OS=Mus musculus OX=10090 GN=Insr PE=1 SV=2
MGFGRGCETTAVPLLVAVAALLVGTAGHLYPGEVCPGMDIRNNLTRLHELENCSVIEGHL
QILLMFKTRPEDFRDLSFPKLIMITDYLLLFRVYGLESLKDLFPNLTVIRGSRLFFNYAL
VIFEMVHLKELGLYNLMNITRGSVRIEKNNELCYLATIDWSRILDSVEDNYIVLNKDDNE
ECGDVCPGTAKGKTNCPATVINGQFVERCWTHSHCQKVCPTICKSHGCTAEGLCCHKECL
GNCSEPDDPTKCVACRNFYLDGQCVETCPPPYYHFQDWRCVNFSFCQDLHFKCRNSRKPG
CHQYVIHNNKCIPECPSGYTMNSSNLMCTPCLGPCPKVCQILEGEKTIDSVTSAQELRGC
TVINGSLIINIRGGNNLAAELEANLGLIEEISGFLKIRRSYALVSLSFFRKLHLIRGETL
EIGNYSFYALDNQNLRQLWDWSKHNLTITQGKLFFHYNPKLCLSEIHKMEEVSGTKGRQE
RNDIALKTNGDQASCENELLKFSFIRTSFDKILLRWEPYWPPDFRDLLGFMLFYKEAPYQ
NVTEFDGQDACGSNSWTVVDIDPPQRSNDPKSQTPSHPGWLMRGLKPWTQYAIFVKTLVT
FSDERRTYGAKSDIIYVQTDATNPSVPLDPISVSNSSSQIILKWKPPSDPNGNITHYLVY
WERQAEDSELFELDYCLKGLKLPSRTWSPPFESDDSQKHNQSEYDDSASECCSCPKTDSQ
ILKELEESSFRKTFEDYLHNVVFVPRPSRKRRSLEEVGNVTATTLTLPDFPNVSSTIVPT
SQEEHRPFEKVVNKESLVISGLRHFTGYRIELQACNQDSPDERCSVAAYVSARTMPEAKA
DDIVGPVTHEIFENNVVHLMWQEPKEPNGLIVLYEVSYRRYGDEELHLCVSRKHFALERG
CRLRGLSPGNYSVRVRATSLAGNGSWTEPTYFYVTDYLDVPSNIAKIIIGPLIFVFLFSV
VIGSIYLFLRKRQPDGPMGPLYASSNPEYLSASDVFPSSVYVPDEWEVPREKITLLRELG
QGSFGMVYEGNAKDIIKGEAETRVAVKTVNESASLRERIEFLNEASVMKGFTCHHVVRLL
GVVSKGQPTLVVMELMAHGDLKSHLRSLRPDAENNPGRPPPTLQEMIQMTAEIADGMAYL
NAKKFVHRDLAARNCMVAHDFTVKIGDFGMTRDIYETDYYRKGGKGLLPVRWMSPESLKD
GVFTASSDMWSFGVVLWEITSLAEQPYQGLSNEQVLKFVMDGGYLDPPDNCPERLTDLMR
MCWQFNPKMRPTFLEIVNLLKDDLHPSFPEVSFFYSEENKAPESEELEMEFEDMENVPLD
RSSHCQREEAGGREGGSSLSIKRTYDEHIPYTHMNGGKKNGRVLTLPRSNPS
>sp|P06213|INSR_HUMAN Insulin receptor OS=Homo sapiens OX=9606 GN=INSR PE=1 SV=4
MATGGRRGAAAAPLLVAVAALLLGAAGHLYPGEVCPGMDIRNNLTRLHELENCSVIEGHL
QILLMFKTRPEDFRDLSFPKLIMITDYLLLFRVYGLESLKDLFPNLTVIRGSRLFFNYAL
VIFEMVHLKELGLYNLMNITRGSVRIEKNNELCYLATIDWSRILDSVEDNYIVLNKDDNE
ECGDICPGTAKGKTNCPATVINGQFVERCWTHSHCQKVCPTICKSHGCTAEGLCCHSECL
GNCSQPDDPTKCVACRNFYLDGRCVETCPPPYYHFQDWRCVNFSFCQDLHHKCKNSRRQG
CHQYVIHNNKCIPECPSGYTMNSSNLLCTPCLGPCPKVCHLLEGEKTIDSVTSAQELRGC
TVINGSLIINIRGGNNLAAELEANLGLIEEISGYLKIRRSYALVSLSFFRKLRLIRGETL
EIGNYSFYALDNQNLRQLWDWSKHNLTITQGKLFFHYNPKLCLSEIHKMEEVSGTKGRQE
RNDIALKTNGDQASCENELLKFSYIRTSFDKILLRWEPYWPPDFRDLLGFMLFYKEAPYQ
NVTEFDGQDACGSNSWTVVDIDPPLRSNDPKSQNHPGWLMRGLKPWTQYAIFVKTLVTFS
DERRTYGAKSDIIYVQTDATNPSVPLDPISVSNSSSQIILKWKPPSDPNGNITHYLVFWE
RQAEDSELFELDYCLKGLKLPSRTWSPPFESEDSQKHNQSEYEDSAGECCSCPKTDSQIL
KELEESSFRKTFEDYLHNVVFVPRKTSSGTGAEDPRPSRKRRSLGDVGNVTVAVPTVAAF
PNTSSTSVPTSPEEHRPFEKVVNKESLVISGLRHFTGYRIELQACNQDTPEERCSVAAYV
SARTMPEAKADDIVGPVTHEIFENNVVHLMWQEPKEPNGLIVLYEVSYRRYGDEELHLCV
SRKHFALERGCRLRGLSPGNYSVRIRATSLAGNGSWTEPTYFYVTDYLDVPSNIAKIIIG
PLIFVFLFSVVIGSIYLFLRKRQPDGPLGPLYASSNPEYLSASDVFPCSVYVPDEWEVSR
EKITLLRELGQGSFGMVYEGNARDIIKGEAETRVAVKTVNESASLRERIEFLNEASVMKG
FTCHHVVRLLGVVSKGQPTLVVMELMAHGDLKSYLRSLRPEAENNPGRPPPTLQEMIQMA
AEIADGMAYLNAKKFVHRDLAARNCMVAHDFTVKIGDFGMTRDIYETDYYRKGGKGLLPV
RWMAPESLKDGVFTTSSDMWSFGVVLWEITSLAEQPYQGLSNEQVLKFVMDGGYLDQPDN
CPERVTDLMRMCWQFNPKMRPTFLEIVNLLKDDLHPSFPEVSFFHSEENKAPESEELEME
FEDMENVPLDRSSHCQREEAGGRDGGSSLGFKRSYEEHIPYTHMNGGKKNGRILTLPRSN
PS