The idea behind this exercise is that you see that you can get a better alignment
when the things that you align look more like each other.
The first alignment will probably look like:
s26 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MTPSISWSLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFALRLYRELVHQSNTSNIFFSPVSIATAFAMLS--------LGSKGDTHTQILEG-----------LQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGN-----------GLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVK--KLDQDTVFALAN--YILFKGKWKQPFDPENTEEAEFHVDESTTVKVPMMTLSGMLDVHHCS------MLSSWVLLMDYAGNTTAVFLLP---------------DDGKMQHLEQTLN-KELISQFLLNRRRSDAQIHIPRLSISGNYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSKAVHKAVLTIDETGTEAAAATVLQVATYS----------MPPIVRFD--HPFLFIIFEEHTQSPIFVGKVVDPTHK----- s27 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MTPSISWCLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLS--------LGSKGDTHTQILEG-----------LQFNLTQTSEADIHNSFQHLLQTLNRPDSELQLSTGN-----------GLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVK--KLEQDTVFVLAN--YILFKGKWKKPFDPENTKQAEFHVDESTTVKVPMMTLSGMLDVHHCS------TLSSWVLLMDYAGNATAVFLLP---------------DDGKMQHLEQTLN-KELISKFLLNRRRRLAQIHIPRLSISGNYNLETLMSPLGITRIFNSGADLSGITEENAPLKLSQAVHKAVLTIDETGTEAAAATVLQGGFLS----------MPPILHFN--RPFLFIIFEEHSQSPLFVGKVVDPTHK----- s20 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MTPSISWGLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLS--------LGSKGDTHTQILEG-----------LQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGN-----------GLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVK--KLDQDTVFALAN--YILFKGKWKKPFDPENTEEAEFHVDESTTVKVPMMTLSGMLHVHHCS------TLSSWVLLMDYAGNATAVFLLP---------------DDGKMQHLEQTLS-KELISKFLLNRRRRLAQIHFPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSQAVHKAVLTIDETGTEAAAVTVLQMVPMS----------MPPILRFD--HPFLFIIFEEHTQSPIFLGKVVDPTHK----- s24 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MTPSISWGLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLS--------LGSKGDTHTQILEG-----------LQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGN-----------GLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVK--KLDQDTVFALAN--YILFKGKWKKPFDPENTEEAEFHVDESTTVKVPMMTLSGMLDVHHCS------TLSSWVLLMDYAGNATAVFLLP---------------DDGKMQHLEQTLS-KELISKFLLKRPRRLAQIHFPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSQAVHKAVLTMDETGTEAAAATVLLAVPYS----------MPPIVRFD--HPFLFIIFEEHTQSPLFVGKVVDPTHK----- s22 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MTPSISWGLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLS--------LGSKGDTHTQILEG-----------LQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGN-----------GLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVK--ELDQDTVFALGN--YILFKGKWKKPFDPENTEEAEFHVDKSTTVKVPMMTLSGMLDVHHCS------TLSSWVLLMDYAGNASAVFLLP---------------EDGKMQHLEQTLN-KELISKILLNRRRRLVQIHIPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSKAVHKAVLTIDETGTEAAAATVFEAVPMS----------MPPILRFD--HPFLFIIFEEHTQSPIFVGKVVDPTHK----- s12 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MTPSISWGLLLLAGLFCLVPSFLAED-----VQETDTSRRDSV----PASHDTPYNL-ELSISLYRELGHKSTTSNIFFSQVSIATAFAMLS--------LGEKGDTHTQILEG-----------LQFNLTQTSEADIHKAFQHLLQTLNRPDSELQLSTGN-----------GSLLNNDLKLVEKFLEEAKNNYHSEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVK--DPDEDTVFALAN--YILFKGKWKKPFDPKHTEEAEFHVDTVTTVKVPMMTLTGMLDVHHCS------TLSSWVLLMDYLGNRTAVFLLP---------------DDGKMQHLEQTLN-KELISKFLLNRHRRLAQVHLPRLSLSGNYTLNTLMSHLGITRIFNNGADLSGITEENAPLKLSKAADKAVLTMDETGTEAAAATVLQAVPMS----------MPPILNFN--KPFIFIIVEEHTQSPLFVGKVVDPTRK----- s15 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MAPSISRGLLLLAALCCLAPSFLAED-----AQETDTSQQDQS----PTYRKISSNLADFAFSLYRELVHQSNTSNIFFSPMSITTAFAMLS--------LGSKGDTRKQILEG-----------LEFNLTQIPEADIHKAFHHLLQTLNRPDSELQLNTGN-----------GLFVNKNLKLVEKFLEEVKNNYHSEAFSVNFADSEEAKKVINDYVEKGTQGKIVDLMK--QLDEDTVFALVN--YIFFKGKWKRPFNPEHTRDADFHVDKSTTVKVPMMNRLGMFDMHYCS------TLSSWVLMMDYLGNATAIFLLP---------------DDGKMQHLEQTLT-KDLISRFLLNRQTRSAILYFPKLSISGTYNLKTLLSSLGITRVFNNDADLSGITED-APLKLSQAVHKAVLTLDERGTEAAGATVVEAVPMS----------LPPQVKFD--HPFIFMIVESETQSPLFVGKVIDPTR------ s2 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SAIPRGLLLLAGLCCLVFGIMAED-----AQVAQGPSQQ-----------IPRSLAHFAHSMYRVLTQQSNTSNIFFSPVSIATALAMVS--------LGAKGDTHTQILWG-----------LEFNLTEIAEADIHDGFQNLLHTLNRPHSEHELTTGN-----------GLFLDQKLKLKEKFSEDVKTLYHAEAFPTNFSNPKEAEKQINAYVEKGTQGKIVDLVK--DLSADTVLALVN--YIFFRGKWEKPFDVKHTTQEDFLVDMNTTVNVPMMKRQGMYKAFHCS------TIQSWVLLLDYEGNVTTLFLLP---------------DKGKMQHLEETLT-PELIFKFARKTERMFANVHLPKLSISGTYDLKEVLGHLGITNVFSGAADLSGITED-MPLKISKGLHKALLTIDEKGTEAAGATELEITPHS----------VPQDLFFN--KPFLFLIIDHSTDTPLFVGKVMDPTKK----- s4 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MPSAIPRGLLLLAGLCCLVFGIMAED-----AQVAQGPSQQ-----------IPRSLAHFAHSMYRVLTQQSNTSNIFFSPVSIATALAMVS--------VGAKGDTHTQILRG-----------LEFNLTEIAEADIHNGFQNLLHTLNRPHSEHQLTTGN-----------GLFLDQKLKLKEKFSEDVKTLYHAEAFPTNFSNPKEAEKQINAYVEKGTQGKIVDLVK--DLSADTVLALVN--YIFFRGKWEKPFDVKHTTQEDFHVDTSTTVKVPMMKREGKYKAFHCS------TIQSWVLLLDYEGNVTALFLLP---------------EEGKMQHLEETLT-PELIFKFARKTERMFANVHLPKLSISGTYDLKEVLGHLGITNVFSDAADLSGVTED-IPLKISKGLHKALLTIDEKGTEAAGATMMEFMPMS----------LPEDLSFN--KPFLFLIIDHSTDTPLFVGKVMDPTKK----- s3 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MPPSVSRALLLLAGLGCLLPGFLADE-----AQETAVSSHEQDH---PACHRIAPSLAEFALSLYREVAHESNTTNIFFSPVSIALAFAMLS--------LGAKGDTHTQVLEG-----------LKFNLTETAEAQIHDGFRHLLHTVNRPDSELQLAARN-----------ALVVHENLKLQHKFLEDAKNLYQSEAFLVDFRDPEQAKTKINSHVEKGTRGKIVDLVQ--ELDARTLLALVN--YVFFKGKWEKPFEPENTKEEDFHVNATTTVRVPMMSRLGRYDLFHCS------TLASTVLRMDYKGNATALFLLP---------------DEGKLQHLEDTLT-TELITKFLAKSSLRSVTVHFPKLSISGTYDLKPLLGKLGITQVFSDNADLSGITEQ-EPLKASQALHKAVLTIDERGTEAAGATYMEIIPMS----------LPDSITLD--RPFLFVIYSHEIKSPLFVGKVVDPTQH----- s6 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAFSIYHHLAHQSNTSNIFFSPVSIASAFAMLS--------LGAKGNTHTEILKG-----------LGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGN-----------GLFINESAKLVDTFLEDVKNLYHSEAFSINFRDAEEAKKKINDYVEKGSHGKIVELVK--VLDPNTVFALVN--YISFKGKWEKPFEMKHTTERDFHVDEQTTVKVPMMNRLGMFDLHYCD------KLASWVLLLDYVGNVTACFILP---------------DLGKLQQLEDKLN-NELLAKFLEKKYASSANLHLPKLSISETYDLKSVLGDVGITEVFSDRADLSGITKE-QPLKVSKALHKAALTIDEKGTEAVGSTFLEAIPMS----------LPPDVEFN--RPFLCILYDRNTKSPLFVGKVVNPTQA----- s7 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAFSIYHHLAHQSNTSNIFFSPVSIASAFAMLS--------LGAKGNTHTEILKG-----------LGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGN-----------GLFINESAKLVDTFLEDVKNLYHSEAFSINFRDAEEAKKKINDYVEKGSHGKIVELVK--VLDPNTVFALVN--YISFKGKWEKPFEMKHTTERDFHVDEQTTVKVPMMNRLGMFDLHYCD------KLASWVLLLDYVGNVTACFILP---------------DLGKLQQLEDKLN-NELLAKFLEKKYASSANLHLPKLSISETYDLKSVLGDVGITEVFSDRADLSGITKE-QPLKVSKALHKAALTIDEKGTEAVGSTFLEAIPMS----------LPPDVEFN--RPFLCILYDRNTKSPLFVGKVVNPTQA----- s16 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MALSITRGLLLLAALCCLAPTSLAGVLQGHAVQET-----DDTAHQEAACHKIAPNLANFAFSIYHKLAHQSNTSNIFFSPVSIASAFAMLS--------LGAKGNTHTEILEG-----------LGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGN-----------GLFINESAKLVDTFLEDVKNLHHSKAFSINFRDAEEAKKKINDYVEKGSHGKIVDLVK--DLDQDTVFALVN--YISFKGKWEKPFEVEHTTERDFHVNEQTTVKVPMMNRLGMFDLHYCD------KLASWVLLLDYVGNVTACFILP---------------DLGKLQQLEDKLN-NELLAKFLEKKYASSANLHLPKLSISETYDLKTVLGELGINRVFSNGADLSGITEE-QPLMVSKALHKAALTIDEKGTEAAGATFLEAIPMS----------LPPDVEFN--RPFLCILYDRNTKSPLFVGKVVNPTQA----- s14 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MASSSTWGLLLLAGLCCLVPISLAEGLQGHAVQETDVPRHDHEQHQEAACHRIAPNLADFAFSLYRQVARQSNTSNIFLSPVTIARAFAMLS--------LGTKGATHAEILEG-----------LQFNLTEKAEAEIHEGFQHLLHTLNQPDNQLQLTTGN-----------GLFIDEKAKLVPKFLEDVKNLYHSEAFSINFRDTEEAKKCINDYVEKGSQGKIVDLVD--ELDKDTVFALVN--YIFFKGKWEKPFEVEQTTEEDFHVDEETTVKVPMMNRLGMFDLHHCD------KLSSWVLLMDYVATATAFFILP---------------DQGKLHQLEDMLT-KEIRAKFLEKRYPSSANLHLPKLTISGTYDLKSLLGNLGITKVFSDEADLSGVTEE-QPLKLSKALHRAVLTIDEKGTEATGATILEAIPMS----------IPPNVKFN--KPFLFLIYDTKTKAVLFMGKVMNPTQK----- s10 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MPSSVSWGILLLAGLCCLVPVSLAEDPQGDAAQKTDTSHHDQD---HPTFNKITPNLAEFAFSLYRQLAHQSNSTNIFFSPVSIATAFAMLS--------LGTKADTHDEILEG-----------LNFNLTEIPEAQIHEGFQELLRTLNQPDSQLQLTTGN-----------GLFLSEGLKLVDKFLEDVKKLYHSEAFTVNFGDTEEAKKQINDYVEKGTQGKIVDLVK--ELDRDTVFALVN--YIFFKGKWERPFEVKDTEEEDFHVDQVTTVKVPMMKRLGMFNIQHCK------KLSSWVLLMKYLGNATAIFFLP---------------DEGKLQHLENELT-HDIITKFLENEDRRSASLHLPKLSITGTYDLKSVLGQLGITKVFSNGADLSGVTEE-APLKLSKAVHKAVLTIDEKGTEAAGAMFLEAIPMS----------IPPEVKFN--KPFVFLMIEQNTKSPLFMGKVVNPTQK----- s13 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LLLAGLCCLLPGSLAEDPQGDAAQKTDTPPHDQN---HPTLNKITPSLAEFAFSLYRQLAHQSNSTNIFFSPVSIATAFAMLS--------LGTKADTHSEILEG-----------LNFNLTEIPEAQVHEGFQELLRTLNKPDSQLQLTTGN-----------GLFLNKSLKVVDKFLEDVKNLYHSEAFSVNFEDTEEAKKQINNYVEKGTQGKVVDLVK--ELDRDTVFALVN--YIFFKGKWERPFEVEATEEEDFHVDQATTVKVPMMRRLGMFNIYHCE------KLSSWVLLMKYLGNATAIFFLP---------------DEGKLQHLENELT-HDIITKFLENENRRSANLHLPKLAITGTYDLKTVLGHLGITKVFSNGADLSGVTED-APLKLSKAVHKAVLTIDEKGTEAAGAMFLEAIPMS----------IPPEVKFN--KPFVFLMIEQNTKSPLFIGKVVNPTQK----- s17 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MPFSVSWGVLLLAGLCCLVPSSLVEDPQGDAAQKTDTSHHDQGDWEDLACQKISYNVTDLAFDLYKSWLIYHN-QHVLVTPTSVAMAFRMLS--------LGTKADTRTEILEG-----------LNVNLTETPEAKIHECFQQVLQALSRPDTRLQLTTGS-----------SLFVNKSMKLVDTFLEDTKKLYHSEASSINFRDTEEAKEQINNYVEKRTGRKVVDLVK--HLKKDTSLALVD--YISFHGKWKDKFKAERIMVEGFHVDDKTIIRVPMINHLGRFDIHRDR------ELSSWVLAQHYVGNATAFFILP---------------DPKKMWQLEEKLT-YSHLENIQRAFDIRSINLHFPKLSISGTYKLKRVPRNLGITKIFSNEADLSGVSQE-APLKLSKAVHVAVLTIDEKGTEATGAPHLEEKAWS----------KYQTVMFN--RPFLVIIKEYITNFPLFIGKVVNPTQK----- s9 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MMPSTLSLCLMLAGLCSLVTSHLTEE-----IQASNDTENEYS-----STRRISPYMTDFSIDFYRLLVSKSNTTNIFFSPISIYTAFTLLA--------LGAKSATRDQILTG-----------LRFNRTEISEEHIFEGFQQLLNTFNLPENELQLTTSN-----------GLFIDKNLKLVAKFLEDSKRLYASDTFSTNFEDNMAAKKQINDYVEKETQGKIVDLIQ--NLDSNVVFVLVN--CIFFKGKWEKPFMTELTTECPFHVDSKTTVPVQTMRRLGMFNVFYDQ------DLSCWVLKMKYMGNATALFILP---------------DTGKIEKVENALN-KMLFHKWTRNLKRRAISLYFPKVSISGNYDLK-ILRELGITDVFGSNADLSGITEE-TNLKLSQAVHKAVVNIDEKGTEASGATFAEGIPMS----------IPPTVEFL--RPFIFIILEENTKSVLFMGKVMNPTGN----- s8 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MP-----ATCLLHTMLTLP-----------------------------------------SPSTRNLRSIQMPRARTFSSPSRYRNGFEHAG--------CRCQGSTLSQIYSS-----------LGY--SGLQASQVNEGYEHLIHMLGHSREAMQLEAGA-----------GVAIREGFKVVDQFLKDVQHYYNSEAFSVDFSKPEIAAEEINQFIAKKTNDKITNMVK--DLDSDTVMMLIN--YMYFRGKWDKPFDAQLTHKADFKVDEDTTVQVDMMKRTGRYDIYQDP------VNQTTVMMVPYKGNTSMMIIFP---------------DDGKMKELEESIS-RHHLKNWHDKLFRSSVDLFMPKFSITATSKLKGILEDMGVTDAFGDTADLSGLTEE-VKVKVSQVVHKAVLSVDEKGTEAAAATTIEIMPMS----------LPDTVILN--RPFLVLIVEDTTKSILFMGKITNPTE------ s19 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQGDAVP------------------ETSATKDDNEXPEMIPMS----------LPPELEIN--KPFILIIYDDNTKSPLFV-------------- s21 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQGXAVQ------------------ETDADKDDEE--EIMPIS----------LPPDLKFN--RPFILIIYDRNTKSPLFV-------------- s23 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQGDAVP------------------EEXATK-DDN--EHPQTL----------LLTNVEFNX-RPFVLIIYDRNTKSPLFVG------------- s25 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQGTAVQ------------------ERSAKASDEE--EAIRTL----------LLTNVEFN--RPFVLSIYDR---------------------- s11 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EELPDSKDR---------------AXPLSASKXISPYMKEAIPMS----------IPPVIDFN--KPFLIIXY------------------------ s5 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MKTIICLFTIAIAAMAAVTNLSNVLK----------------------------NGNDNFTARMFTEVVKNNPGKSIVLSAFSVLPPLAQLA--------LASDGETHEELLKA-----------IGFPDDDAIRTEFASKSRDLRSIKG-----VELKMAN-----------KVYVHDGGKLDENFAVVSRDVFNSDVQNIDFSKNTVAAKSINDWVEENTNNRIKDLVNPDSLSSATAAVLVN--AIYFKGAWSSKFDERLTSDRDFYVSKDKTIKVPMMYKRGDYKYGESA------VLNAQLIEIPYKGDQSSLIVVLPK-------------DKDGITQLQEALKDPKTLETAQQSMYSTEVDLYLPKFKIETETNLKDVLSNMNVNKIFNNDAQITRLLKG-ESLSVSEAIQKAFIEINEEGAEAAAANAFTMTRSSK-------VYVRPPIVFNANKPFYYALQVDG--VIMFNGIFIN--------- s18 MKKDREAQLCLFSALLAFLPFASLLNGNSKYMVLVPSQLYTETPEKICLHLYHLNETVTVTASLISQRGTRKLFDELVVDKDLFHCVSFTIPRLPSSEEEESLDINIEGAKHKFSERRVVLVKNKESVVFVQTDKPMYKPGQSVKFRVVSMDKNLHPLNELFPLAYIEDPKMNRIMQWQDVKTENGLKQLSFSLSAEPIQGPYKIVILKQSGVKEEHSFTVMEFVLPRFGVDVKVPNAISVYDEIINVTACATYTYGKPVPGHVKISLCHGNPTFSSETKSGCKEEDSRLDNNGCSTQEVNITEFQLKENYLKMHQAFHVNATVTEEGTGSEFSGSGRIEVERTRNKFLFLKADSHFRHGIPFFVKVRLVDIKGDPIPNEQVLIKARDAGYTNATTTDQHGLAKFSIDTNGISDYSLNIKVYHKEESSCIHSSCTAERHAEAHHTAYAVYSLSKSYIYLDTEAGVLPCNQIHTVQAHFILKGQVLGVLQQIVFHYLVMAQGSILQTGNHTHQVEPGESQVQGNFALEIPVEFSMVPVAKMLIYTILPDGEVIADSVKFQVEKCLRNKVHLSFSPSQSLPASQTHMRVTASPQSLCGLRAVDQSVLLQKPEAELSPSLIYDLPGMQDSNFIASSNDPFEDEDYCLMYQPIAREKDVYRYVRETGLMAFTNLKIKLPTYCNTDYDMVPLAVPAVALDSSTDRGMYESLPVVAVKSPLPQEPPRKDPPPKDPVIETIRNYFPETWIWDLVTVNSSGVTELEMTVPDTITEWKAGALCLSNDTGLGLSSVASFQAFQPFFVELTMPYSVIRGEAFTLKATVLNYLPTSLPMAVLLEASPDFTAVPVENNQDSYCLGANGRHTSSWLVTPKSLGNVNFSVSAEARQSPGPCGSEVATVPETGRKDTVVKVLIVEPEGIKKEHTFSSLLCASDAELSETLSLLLPPTVVKDSARAHFSVMGDILSSAIKNTQNLIQMPYGCGEQNMVLFAPNIYVLKYLNETQQLTEKIKSKALGYLRAGYQRELNYKHKDGSYSAFGDHNGQGQGNTWLTAFVLKSFAQARAFIFIDESHITDAFTWLSKQQKDSGCFRSSGSLLNNAMKGGVDDEITLSAYITMALLESSLPDTDPVVSKALSCLESSWENIEQGGNGSFVYTKALMAYAFALAGNQEKRNEILKSLDKEAIKEDNSIHWERPQKPTKSEGYLYTPQASSAEVEMSAYVVLARLTAQPAPSPEDLALSMGTIKWLTKQQNSYGGFSSTQDTVVALDALSKYGAATFSKSQKTPSVTVQSSGSFSQKFQVDKSNRLLLQQVSLPYIPGNYTVSVSGEGCVYAQTTLRYNVPLEKQQPAFALKVQTVPLTCNNPKGQNSFQISLEISYMGSRPASNMVIADVKMLSGFIPLKPTVKKLERLGHVSRTEVTTNNVLLYLDQVTNQTLSFSFIIQQDIPVKNLQPAIVKVYDYYETDEVAFAEYSSPCSSDDQNV s1 --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
You see that you are mainly being confused by s18. If I reduce S18 to
>s18 GCFRSSGSLLNNAMKGGVDDEITLSAYITMALLESSLPDTDPVVSKALSCLESSWENIEQ GGNGSFVYTKALMAYAFALAGNQEKRNEILKSLDKEAIKEDNSIHWERPQKPTKSEGYLY TPQASSAEVEMSAYVVLARLTAQPAPSPEDLALSMGTIKWLTKQQNSYGGFSSTQDTVVA LDALSKYGAATFSKSQKTPSVTVQSSGSFSQKFQVDKSNRLLLQQVSLPYIPGNYTVSVS GEGCVYAQTTLRYNVPLEKQQPAFALKVQTVPLTCNNPKGQNSFQISLEISYMGSRPASN MVIADVKMLSGFIPLKPTVKKLERLGHVSRTEVTTNNVLLYLDQVTNQTLSFSFIIQQDI PVKNLQPAIVKVYDYYETDEVAFAEYSSPCSSDDQNV |
You get the following alignment. Please realize that the alignment of S18 also changed dramatically. Its alignment was so poor...
s10 MPSSVSWGILLLAGLCCLVPVSLAEDPQGDAAQKTDT---SHHDQDHPTFNKITPNLAEFAFSLYRQLAHQSNSTNIFFSPVSIATAFAMLSLGTKADTHDEILEGLNFNLTEIPEAQIHEGFQELLRTLNQPDSQLQLTTGNGLFLSEGLKLVDKFLEDVKKLYHSEAFTVNFGDTEEAKKQINDYVEKGTQGKIVDLVK--ELDRDTVFALVNYIFFKGKWERPFEVKDTEEEDFHVDQVTTVKVPMMKRLGMFNIQHCKKLSSWVLLMKYLGNATAIFFLP--DEGKLQHLENELT-HDIITKFLENEDRRSASLHLPKLSITGTYDLKSVLGQLGITKVFSNGADLSGVTEE-APLKLSKAVHKAVLTIDEKGTEAAGAMFLEAIPMS---IPPEVKFN--KPFVFLMIEQNTKSPLFMGKVVNPTQK----- s13 ---------LLLAGLCCLLPGSLAEDPQGDAAQKTDT---PPHDQNHPTLNKITPSLAEFAFSLYRQLAHQSNSTNIFFSPVSIATAFAMLSLGTKADTHSEILEGLNFNLTEIPEAQVHEGFQELLRTLNKPDSQLQLTTGNGLFLNKSLKVVDKFLEDVKNLYHSEAFSVNFEDTEEAKKQINNYVEKGTQGKVVDLVK--ELDRDTVFALVNYIFFKGKWERPFEVEATEEEDFHVDQATTVKVPMMRRLGMFNIYHCEKLSSWVLLMKYLGNATAIFFLP--DEGKLQHLENELT-HDIITKFLENENRRSANLHLPKLAITGTYDLKTVLGHLGITKVFSNGADLSGVTED-APLKLSKAVHKAVLTIDEKGTEAAGAMFLEAIPMS---IPPEVKFN--KPFVFLMIEQNTKSPLFIGKVVNPTQK----- s6 MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAFSIYHHLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILKGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLYHSEAFSINFRDAEEAKKKINDYVEKGSHGKIVELVK--VLDPNTVFALVNYISFKGKWEKPFEMKHTTERDFHVDEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILP--DLGKLQQLEDKLN-NELLAKFLEKKYASSANLHLPKLSISETYDLKSVLGDVGITEVFSDRADLSGITKE-QPLKVSKALHKAALTIDEKGTEAVGSTFLEAIPMS---LPPDVEFN--RPFLCILYDRNTKSPLFVGKVVNPTQA----- s7 MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAFSIYHHLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILKGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLYHSEAFSINFRDAEEAKKKINDYVEKGSHGKIVELVK--VLDPNTVFALVNYISFKGKWEKPFEMKHTTERDFHVDEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILP--DLGKLQQLEDKLN-NELLAKFLEKKYASSANLHLPKLSISETYDLKSVLGDVGITEVFSDRADLSGITKE-QPLKVSKALHKAALTIDEKGTEAVGSTFLEAIPMS---LPPDVEFN--RPFLCILYDRNTKSPLFVGKVVNPTQA----- s16 MALSITRGLLLLAALCCLAPTSLAGVLQGHAVQET-----DDTAHQEAACHKIAPNLANFAFSIYHKLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILEGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLHHSKAFSINFRDAEEAKKKINDYVEKGSHGKIVDLVK--DLDQDTVFALVNYISFKGKWEKPFEVEHTTERDFHVNEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILP--DLGKLQQLEDKLN-NELLAKFLEKKYASSANLHLPKLSISETYDLKTVLGELGINRVFSNGADLSGITEE-QPLMVSKALHKAALTIDEKGTEAAGATFLEAIPMS---LPPDVEFN--RPFLCILYDRNTKSPLFVGKVVNPTQA----- s14 MASSSTWGLLLLAGLCCLVPISLAEGLQGHAVQETDVPRHDHEQHQEAACHRIAPNLADFAFSLYRQVARQSNTSNIFLSPVTIARAFAMLSLGTKGATHAEILEGLQFNLTEKAEAEIHEGFQHLLHTLNQPDNQLQLTTGNGLFIDEKAKLVPKFLEDVKNLYHSEAFSINFRDTEEAKKCINDYVEKGSQGKIVDLVD--ELDKDTVFALVNYIFFKGKWEKPFEVEQTTEEDFHVDEETTVKVPMMNRLGMFDLHHCDKLSSWVLLMDYVATATAFFILP--DQGKLHQLEDMLT-KEIRAKFLEKRYPSSANLHLPKLTISGTYDLKSLLGNLGITKVFSDEADLSGVTEE-QPLKLSKALHRAVLTIDEKGTEATGATILEAIPMS---IPPNVKFN--KPFLFLIYDTKTKAVLFMGKVMNPTQK----- s2 --SAIPRGLLLLAGLCCLVFGIMAEDAQVAQGPSQQ----------------IPRSLAHFAHSMYRVLTQQSNTSNIFFSPVSIATALAMVSLGAKGDTHTQILWGLEFNLTEIAEADIHDGFQNLLHTLNRPHSEHELTTGNGLFLDQKLKLKEKFSEDVKTLYHAEAFPTNFSNPKEAEKQINAYVEKGTQGKIVDLVK--DLSADTVLALVNYIFFRGKWEKPFDVKHTTQEDFLVDMNTTVNVPMMKRQGMYKAFHCSTIQSWVLLLDYEGNVTTLFLLP--DKGKMQHLEETLT-PELIFKFARKTERMFANVHLPKLSISGTYDLKEVLGHLGITNVFSGAADLSGITED-MPLKISKGLHKALLTIDEKGTEAAGATELEITPHS---VPQDLFFN--KPFLFLIIDHSTDTPLFVGKVMDPTKK----- s4 MPSAIPRGLLLLAGLCCLVFGIMAEDAQVAQGPSQQ----------------IPRSLAHFAHSMYRVLTQQSNTSNIFFSPVSIATALAMVSVGAKGDTHTQILRGLEFNLTEIAEADIHNGFQNLLHTLNRPHSEHQLTTGNGLFLDQKLKLKEKFSEDVKTLYHAEAFPTNFSNPKEAEKQINAYVEKGTQGKIVDLVK--DLSADTVLALVNYIFFRGKWEKPFDVKHTTQEDFHVDTSTTVKVPMMKREGKYKAFHCSTIQSWVLLLDYEGNVTALFLLP--EEGKMQHLEETLT-PELIFKFARKTERMFANVHLPKLSISGTYDLKEVLGHLGITNVFSDAADLSGVTED-IPLKISKGLHKALLTIDEKGTEAAGATMMEFMPMS---LPEDLSFN--KPFLFLIIDHSTDTPLFVGKVMDPTKK----- s3 MPPSVSRALLLLAGLGCLLPGFLADEAQETAVSSHEQDH--------PACHRIAPSLAEFALSLYREVAHESNTTNIFFSPVSIALAFAMLSLGAKGDTHTQVLEGLKFNLTETAEAQIHDGFRHLLHTVNRPDSELQLAARNALVVHENLKLQHKFLEDAKNLYQSEAFLVDFRDPEQAKTKINSHVEKGTRGKIVDLVQ--ELDARTLLALVNYVFFKGKWEKPFEPENTKEEDFHVNATTTVRVPMMSRLGRYDLFHCSTLASTVLRMDYKGNATALFLLP--DEGKLQHLEDTLT-TELITKFLAKSSLRSVTVHFPKLSISGTYDLKPLLGKLGITQVFSDNADLSGITEQ-EPLKASQALHKAVLTIDERGTEAAGATYMEIIPMS---LPDSITLD--RPFLFVIYSHEIKSPLFVGKVVDPTQH----- s20 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVK--KLDQDTVFALANYILFKGKWKKPFDPENTEEAEFHVDESTTVKVPMMTLSGMLHVHHCSTLSSWVLLMDYAGNATAVFLLP--DDGKMQHLEQTLS-KELISKFLLNRRRRLAQIHFPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSQAVHKAVLTIDETGTEAAAVTVLQMVPMS---MPPILRFD--HPFLFIIFEEHTQSPIFLGKVVDPTHK----- s24 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVK--KLDQDTVFALANYILFKGKWKKPFDPENTEEAEFHVDESTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNATAVFLLP--DDGKMQHLEQTLS-KELISKFLLKRPRRLAQIHFPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSQAVHKAVLTMDETGTEAAAATVLLAVPYS---MPPIVRFD--HPFLFIIFEEHTQSPLFVGKVVDPTHK----- s26 MTPSISWSLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFALRLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVK--KLDQDTVFALANYILFKGKWKQPFDPENTEEAEFHVDESTTVKVPMMTLSGMLDVHHCSMLSSWVLLMDYAGNTTAVFLLP--DDGKMQHLEQTLN-KELISQFLLNRRRSDAQIHIPRLSISGNYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSKAVHKAVLTIDETGTEAAAATVLQVATYS---MPPIVRFD--HPFLFIIFEEHTQSPIFVGKVVDPTHK----- s22 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVK--ELDQDTVFALGNYILFKGKWKKPFDPENTEEAEFHVDKSTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNASAVFLLP--EDGKMQHLEQTLN-KELISKILLNRRRRLVQIHIPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSKAVHKAVLTIDETGTEAAAATVFEAVPMS---MPPILRFD--HPFLFIIFEEHTQSPIFVGKVVDPTHK----- s27 MTPSISWCLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHNSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVK--KLEQDTVFVLANYILFKGKWKKPFDPENTKQAEFHVDESTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNATAVFLLP--DDGKMQHLEQTLN-KELISKFLLNRRRRLAQIHIPRLSISGNYNLETLMSPLGITRIFNSGADLSGITEENAPLKLSQAVHKAVLTIDETGTEAAAATVLQGGFLS---MPPILHFN--RPFLFIIFEEHSQSPLFVGKVVDPTHK----- s12 MTPSISWGLLLLAGLFCLVPSFLAEDVQETDTSRRDSV---------PASHDTPYNL-ELSISLYRELGHKSTTSNIFFSQVSIATAFAMLSLGEKGDTHTQILEGLQFNLTQTSEADIHKAFQHLLQTLNRPDSELQLSTGNGSLLNNDLKLVEKFLEEAKNNYHSEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVK--DPDEDTVFALANYILFKGKWKKPFDPKHTEEAEFHVDTVTTVKVPMMTLTGMLDVHHCSTLSSWVLLMDYLGNRTAVFLLP--DDGKMQHLEQTLN-KELISKFLLNRHRRLAQVHLPRLSLSGNYTLNTLMSHLGITRIFNNGADLSGITEENAPLKLSKAADKAVLTMDETGTEAAAATVLQAVPMS---MPPILNFN--KPFIFIIVEEHTQSPLFVGKVVDPTRK----- s15 MAPSISRGLLLLAALCCLAPSFLAEDAQETDTSQQDQS---------PTYRKISSNLADFAFSLYRELVHQSNTSNIFFSPMSITTAFAMLSLGSKGDTRKQILEGLEFNLTQIPEADIHKAFHHLLQTLNRPDSELQLNTGNGLFVNKNLKLVEKFLEEVKNNYHSEAFSVNFADSEEAKKVINDYVEKGTQGKIVDLMK--QLDEDTVFALVNYIFFKGKWKRPFNPEHTRDADFHVDKSTTVKVPMMNRLGMFDMHYCSTLSSWVLMMDYLGNATAIFLLP--DDGKMQHLEQTLT-KDLISRFLLNRQTRSAILYFPKLSISGTYNLKTLLSSLGITRVFNNDADLSGITED-APLKLSQAVHKAVLTLDERGTEAAGATVVEAVPMS---LPPQVKFD--HPFIFMIVESETQSPLFVGKVIDPTR------ s17 MPFSVSWGVLLLAGLCCLVPSSLVEDPQGDAAQKTDTSHHDQGDWEDLACQKISYNVTDLAFDLYKSWLIYHN-QHVLVTPTSVAMAFRMLSLGTKADTRTEILEGLNVNLTETPEAKIHECFQQVLQALSRPDTRLQLTTGSSLFVNKSMKLVDTFLEDTKKLYHSEASSINFRDTEEAKEQINNYVEKRTGRKVVDLVK--HLKKDTSLALVDYISFHGKWKDKFKAERIMVEGFHVDDKTIIRVPMINHLGRFDIHRDRELSSWVLAQHYVGNATAFFILP--DPKKMWQLEEKLT-YSHLENIQRAFDIRSINLHFPKLSISGTYKLKRVPRNLGITKIFSNEADLSGVSQE-APLKLSKAVHVAVLTIDEKGTEATGAPHLEEKAWS---KYQTVMFN--RPFLVIIKEYITNFPLFIGKVVNPTQK----- s9 MMPSTLSLCLMLAGLCSLVTSHLTEEIQASNDTENEYS----------STRRISPYMTDFSIDFYRLLVSKSNTTNIFFSPISIYTAFTLLALGAKSATRDQILTGLRFNRTEISEEHIFEGFQQLLNTFNLPENELQLTTSNGLFIDKNLKLVAKFLEDSKRLYASDTFSTNFEDNMAAKKQINDYVEKETQGKIVDLIQ--NLDSNVVFVLVNCIFFKGKWEKPFMTELTTECPFHVDSKTTVPVQTMRRLGMFNVFYDQDLSCWVLKMKYMGNATALFILP--DTGKIEKVENALN-KMLFHKWTRNLKRRAISLYFPKVSISGNYDLK-ILRELGITDVFGSNADLSGITEE-TNLKLSQAVHKAVVNIDEKGTEASGATFAEGIPMS---IPPTVEFL--RPFIFIILEENTKSVLFMGKVMNPTGN----- s8 ------------MPATCLLHTMLTLPSPSTR------------------------NLRSIQMPRARTFS----------SPSRYRNGFEHAGCRCQGSTLSQIYSSLGY--SGLQASQVNEGYEHLIHMLGHSREAMQLEAGAGVAIREGFKVVDQFLKDVQHYYNSEAFSVDFSKPEIAAEEINQFIAKKTNDKITNMVK--DLDSDTVMMLINYMYFRGKWDKPFDAQLTHKADFKVDEDTTVQVDMMKRTGRYDIYQDPVNQTTVMMVPYKGNTSMMIIFP--DDGKMKELEESIS-RHHLKNWHDKLFRSSVDLFMPKFSITATSKLKGILEDMGVTDAFGDTADLSGLTEE-VKVKVSQVVHKAVLSVDEKGTEAAAATTIEIMPMS---LPDTVILN--RPFLVLIVEDTTKSILFMGKITNPTE------ s19 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQG------------------DAVPETSATKDDNEXPEMIPMS---LPPELEIN--KPFILIIYDDNTKSPLFV-------------- s21 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQG------------------XAVQETDADKDDEE--EIMPIS---LPPDLKFN--RPFILIIYDRNTKSPLFV-------------- s23 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQG------------------DAVPEEXATK-DDN--EHPQTL---LLTNVEFNX-RPFVLIIYDRNTKSPLFVG------------- s25 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQG------------------TAVQERSAKASDEE--EAIRTL---LLTNVEFN--RPFVLSIYDR---------------------- s11 -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EELPDSKDR---------------AXPLSASKXISPYMKEAIPMS---IPPVIDFN--KPFLIIXY------------------------ s5 -----------MKTIICLFTIAIAAMAAVTNLSNVLKN-----------------GNDNFTARMFTEVVKNNPGKSIVLSAFSVLPPLAQLALASDGETHEELLKAIGFPDDDAIRTEFASKSRDLRSIKG-----VELKMANKVYVHDGGKLDENFAVVSRDVFNSDVQNIDFSKNTVAAKSINDWVEENTNNRIKDLVNPDSLSSATAAVLVNAIYFKGAWSSKFDERLTSDRDFYVSKDKTIKVPMMYKRGDYKYGESAVLNAQLIEIPYKGDQSSLIVVLPKDKDGITQLQEALKDPKTLETAQQSMYSTEVDLYLPKFKIETETNLKDVLSNMNVNKIFNNDAQITRLLKG-ESLSVSEAIQKAFIEINEEGAEAAAANAFTMTRSSKVYVRPPIVFNANKPFYYALQVDG--VIMFNGIFIN--------- s18 -GCFRSSGSLLNNAMKGGVDDEITLSAYITMALLESSLP------------DTDPVVSKALSCLESSWENIEQGGNGSFVYTKALMAYAFALAGNQ-EKRNEILKSLDKEAIKEDNSIHWERPQ----KPTKSEGYLYTPQASSAEVEMSAYVVLARLT-AQPAPSPEDLALSMGTIKWLTKQQNSYGGFSS-------------TQDTVVALDALSKYGAATFSKSQKTPSVTVQSSGSFSQKFQVDKSNRLLLQQVSLPYIPGNYTVSVSGEGCVYAQTTLRYNVPLEKQQPAFALKVQTVPLTCNNPKGQNSFQISLEISYMGSRPASNMVIADVKMLSGFIPLKPTVKKLER-------LGHVSRTEVTTNNVLLYLDQVTNQTLSFS-FIIQQDIPVKNLQPAIVKVYDYYETDEVAFAEYSSPCSSDDQNV s1 -----MLRVLHRAASALVMATVIGLAPAVAFALAEPTS---------------TPQAPIAAYKPRSNEILWDGYGVPHIYGVDAPSAFYGYGWAQARSQGDNILR------------------------LYGEARGKGAEYWGPDYEQTTVWLLTNGVPERAQQWYAQQSPDFRANLDAFAAGINAYAQQNPDDISPDVRQVLPVSGADVVAHAHRLMNFLYVASPGRTLGEGDPPDLADQGS---------------------NSWAVAPGKTANGNALLLQN-----------------PHLSWTTDYFTYYEAHLVTPDFEIYGATQIGLPVIRFAFNQRMGITNTVNGMVG----------------ATNYRLTLQDGGYLYDGQVRP---------FE--RPQASYRLRQADGTT----------------- |
If you make a phylogenetic tree, you see that the sequences 1, 5, 11, and 18 are furthest away from the rest of all sequences (this might be different based on the phase of the moon and the software you use). So with those 4 sequences removed we get:
s6 MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAFSIYHHLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILKGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLYHSEAFSINFRDAEEAKKKINDYVEKGSHGKIVELVKVLDPNTVFALVNYISFKGKWEKPFEMKHTTERDFHVDEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILPDLGKLQQLEDKLNNELLAKFLEKKYASSANLHLPKLSISETYDLKSVLGDVGITEVFSDRADLSGITKE-QPLKVSKALHKAALTIDEKGTEAVGSTFLEAIPMSLPPDVEFN-RPFLCILYDRNTKSPLFVGKVVNPTQA s7 MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAFSIYHHLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILKGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLYHSEAFSINFRDAEEAKKKINDYVEKGSHGKIVELVKVLDPNTVFALVNYISFKGKWEKPFEMKHTTERDFHVDEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILPDLGKLQQLEDKLNNELLAKFLEKKYASSANLHLPKLSISETYDLKSVLGDVGITEVFSDRADLSGITKE-QPLKVSKALHKAALTIDEKGTEAVGSTFLEAIPMSLPPDVEFN-RPFLCILYDRNTKSPLFVGKVVNPTQA s16 MALSITRGLLLLAALCCLAPTSLAGVLQGHAVQET-----DDTAHQEAACHKIAPNLANFAFSIYHKLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILEGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLHHSKAFSINFRDAEEAKKKINDYVEKGSHGKIVDLVKDLDQDTVFALVNYISFKGKWEKPFEVEHTTERDFHVNEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILPDLGKLQQLEDKLNNELLAKFLEKKYASSANLHLPKLSISETYDLKTVLGELGINRVFSNGADLSGITEE-QPLMVSKALHKAALTIDEKGTEAAGATFLEAIPMSLPPDVEFN-RPFLCILYDRNTKSPLFVGKVVNPTQA s14 MASSSTWGLLLLAGLCCLVPISLAEGLQGHAVQETDVPRHDHEQHQEAACHRIAPNLADFAFSLYRQVARQSNTSNIFLSPVTIARAFAMLSLGTKGATHAEILEGLQFNLTEKAEAEIHEGFQHLLHTLNQPDNQLQLTTGNGLFIDEKAKLVPKFLEDVKNLYHSEAFSINFRDTEEAKKCINDYVEKGSQGKIVDLVDELDKDTVFALVNYIFFKGKWEKPFEVEQTTEEDFHVDEETTVKVPMMNRLGMFDLHHCDKLSSWVLLMDYVATATAFFILPDQGKLHQLEDMLTKEIRAKFLEKRYPSSANLHLPKLTISGTYDLKSLLGNLGITKVFSDEADLSGVTEE-QPLKLSKALHRAVLTIDEKGTEATGATILEAIPMSIPPNVKFN-KPFLFLIYDTKTKAVLFMGKVMNPTQK s2 --SAIPRGLLLLAGLCCLVFGIMAED-----AQVAQGPSQQ-----------IPRSLAHFAHSMYRVLTQQSNTSNIFFSPVSIATALAMVSLGAKGDTHTQILWGLEFNLTEIAEADIHDGFQNLLHTLNRPHSEHELTTGNGLFLDQKLKLKEKFSEDVKTLYHAEAFPTNFSNPKEAEKQINAYVEKGTQGKIVDLVKDLSADTVLALVNYIFFRGKWEKPFDVKHTTQEDFLVDMNTTVNVPMMKRQGMYKAFHCSTIQSWVLLLDYEGNVTTLFLLPDKGKMQHLEETLTPELIFKFARKTERMFANVHLPKLSISGTYDLKEVLGHLGITNVFSGAADLSGITED-MPLKISKGLHKALLTIDEKGTEAAGATELEITPHSVPQDLFFN-KPFLFLIIDHSTDTPLFVGKVMDPTKK s4 MPSAIPRGLLLLAGLCCLVFGIMAED-----AQVAQGPSQQ-----------IPRSLAHFAHSMYRVLTQQSNTSNIFFSPVSIATALAMVSVGAKGDTHTQILRGLEFNLTEIAEADIHNGFQNLLHTLNRPHSEHQLTTGNGLFLDQKLKLKEKFSEDVKTLYHAEAFPTNFSNPKEAEKQINAYVEKGTQGKIVDLVKDLSADTVLALVNYIFFRGKWEKPFDVKHTTQEDFHVDTSTTVKVPMMKREGKYKAFHCSTIQSWVLLLDYEGNVTALFLLPEEGKMQHLEETLTPELIFKFARKTERMFANVHLPKLSISGTYDLKEVLGHLGITNVFSDAADLSGVTED-IPLKISKGLHKALLTIDEKGTEAAGATMMEFMPMSLPEDLSFN-KPFLFLIIDHSTDTPLFVGKVMDPTKK s3 MPPSVSRALLLLAGLGCLLPGFLADE-----AQETAVSSHEQDH---PACHRIAPSLAEFALSLYREVAHESNTTNIFFSPVSIALAFAMLSLGAKGDTHTQVLEGLKFNLTETAEAQIHDGFRHLLHTVNRPDSELQLAARNALVVHENLKLQHKFLEDAKNLYQSEAFLVDFRDPEQAKTKINSHVEKGTRGKIVDLVQELDARTLLALVNYVFFKGKWEKPFEPENTKEEDFHVNATTTVRVPMMSRLGRYDLFHCSTLASTVLRMDYKGNATALFLLPDEGKLQHLEDTLTTELITKFLAKSSLRSVTVHFPKLSISGTYDLKPLLGKLGITQVFSDNADLSGITEQ-EPLKASQALHKAVLTIDERGTEAAGATYMEIIPMSLPDSITLD-RPFLFVIYSHEIKSPLFVGKVVDPTQH s26 MTPSISWSLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFALRLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVKKLDQDTVFALANYILFKGKWKQPFDPENTEEAEFHVDESTTVKVPMMTLSGMLDVHHCSMLSSWVLLMDYAGNTTAVFLLPDDGKMQHLEQTLNKELISQFLLNRRRSDAQIHIPRLSISGNYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSKAVHKAVLTIDETGTEAAAATVLQVATYSMPPIVRFD-HPFLFIIFEEHTQSPIFVGKVVDPTHK s27 MTPSISWCLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHNSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVKKLEQDTVFVLANYILFKGKWKKPFDPENTKQAEFHVDESTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNATAVFLLPDDGKMQHLEQTLNKELISKFLLNRRRRLAQIHIPRLSISGNYNLETLMSPLGITRIFNSGADLSGITEENAPLKLSQAVHKAVLTIDETGTEAAAATVLQGGFLSMPPILHFN-RPFLFIIFEEHSQSPLFVGKVVDPTHK s20 MTPSISWGLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVKKLDQDTVFALANYILFKGKWKKPFDPENTEEAEFHVDESTTVKVPMMTLSGMLHVHHCSTLSSWVLLMDYAGNATAVFLLPDDGKMQHLEQTLSKELISKFLLNRRRRLAQIHFPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSQAVHKAVLTIDETGTEAAAVTVLQMVPMSMPPILRFD-HPFLFIIFEEHTQSPIFLGKVVDPTHK s24 MTPSISWGLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVKKLDQDTVFALANYILFKGKWKKPFDPENTEEAEFHVDESTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNATAVFLLPDDGKMQHLEQTLSKELISKFLLKRPRRLAQIHFPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSQAVHKAVLTMDETGTEAAAATVLLAVPYSMPPIVRFD-HPFLFIIFEEHTQSPLFVGKVVDPTHK s22 MTPSISWGLLLLAGLCCLVPSFLAED-----VQETDTSQKDQS----PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVKELDQDTVFALGNYILFKGKWKKPFDPENTEEAEFHVDKSTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNASAVFLLPEDGKMQHLEQTLNKELISKILLNRRRRLVQIHIPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSKAVHKAVLTIDETGTEAAAATVFEAVPMSMPPILRFD-HPFLFIIFEEHTQSPIFVGKVVDPTHK s12 MTPSISWGLLLLAGLFCLVPSFLAED-----VQETDTSRRDSV----PASHDTPYNL-ELSISLYRELGHKSTTSNIFFSQVSIATAFAMLSLGEKGDTHTQILEGLQFNLTQTSEADIHKAFQHLLQTLNRPDSELQLSTGNGSLLNNDLKLVEKFLEEAKNNYHSEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVKDPDEDTVFALANYILFKGKWKKPFDPKHTEEAEFHVDTVTTVKVPMMTLTGMLDVHHCSTLSSWVLLMDYLGNRTAVFLLPDDGKMQHLEQTLNKELISKFLLNRHRRLAQVHLPRLSLSGNYTLNTLMSHLGITRIFNNGADLSGITEENAPLKLSKAADKAVLTMDETGTEAAAATVLQAVPMSMPPILNFN-KPFIFIIVEEHTQSPLFVGKVVDPTRK s15 MAPSISRGLLLLAALCCLAPSFLAED-----AQETDTSQQDQS----PTYRKISSNLADFAFSLYRELVHQSNTSNIFFSPMSITTAFAMLSLGSKGDTRKQILEGLEFNLTQIPEADIHKAFHHLLQTLNRPDSELQLNTGNGLFVNKNLKLVEKFLEEVKNNYHSEAFSVNFADSEEAKKVINDYVEKGTQGKIVDLMKQLDEDTVFALVNYIFFKGKWKRPFNPEHTRDADFHVDKSTTVKVPMMNRLGMFDMHYCSTLSSWVLMMDYLGNATAIFLLPDDGKMQHLEQTLTKDLISRFLLNRQTRSAILYFPKLSISGTYNLKTLLSSLGITRVFNNDADLSGITED-APLKLSQAVHKAVLTLDERGTEAAGATVVEAVPMSLPPQVKFD-HPFIFMIVESETQSPLFVGKVIDPTR- s9 MMPSTLSLCLMLAGLCSLVTSHLTEE-----IQASNDTENEYS-----STRRISPYMTDFSIDFYRLLVSKSNTTNIFFSPISIYTAFTLLALGAKSATRDQILTGLRFNRTEISEEHIFEGFQQLLNTFNLPENELQLTTSNGLFIDKNLKLVAKFLEDSKRLYASDTFSTNFEDNMAAKKQINDYVEKETQGKIVDLIQNLDSNVVFVLVNCIFFKGKWEKPFMTELTTECPFHVDSKTTVPVQTMRRLGMFNVFYDQDLSCWVLKMKYMGNATALFILPDTGKIEKVENALNKMLFHKWTRNLKRRAISLYFPKVSISGNYDLK-ILRELGITDVFGSNADLSGITEE-TNLKLSQAVHKAVVNIDEKGTEASGATFAEGIPMSIPPTVEFL-RPFIFIILEENTKSVLFMGKVMNPTGN s10 MPSSVSWGILLLAGLCCLVPVSLAEDPQGDAAQKTDTSHHDQD---HPTFNKITPNLAEFAFSLYRQLAHQSNSTNIFFSPVSIATAFAMLSLGTKADTHDEILEGLNFNLTEIPEAQIHEGFQELLRTLNQPDSQLQLTTGNGLFLSEGLKLVDKFLEDVKKLYHSEAFTVNFGDTEEAKKQINDYVEKGTQGKIVDLVKELDRDTVFALVNYIFFKGKWERPFEVKDTEEEDFHVDQVTTVKVPMMKRLGMFNIQHCKKLSSWVLLMKYLGNATAIFFLPDEGKLQHLENELTHDIITKFLENEDRRSASLHLPKLSITGTYDLKSVLGQLGITKVFSNGADLSGVTEE-APLKLSKAVHKAVLTIDEKGTEAAGAMFLEAIPMSIPPEVKFN-KPFVFLMIEQNTKSPLFMGKVVNPTQK s13 ---------LLLAGLCCLLPGSLAEDPQGDAAQKTDTPPHDQN---HPTLNKITPSLAEFAFSLYRQLAHQSNSTNIFFSPVSIATAFAMLSLGTKADTHSEILEGLNFNLTEIPEAQVHEGFQELLRTLNKPDSQLQLTTGNGLFLNKSLKVVDKFLEDVKNLYHSEAFSVNFEDTEEAKKQINNYVEKGTQGKVVDLVKELDRDTVFALVNYIFFKGKWERPFEVEATEEEDFHVDQATTVKVPMMRRLGMFNIYHCEKLSSWVLLMKYLGNATAIFFLPDEGKLQHLENELTHDIITKFLENENRRSANLHLPKLAITGTYDLKTVLGHLGITKVFSNGADLSGVTED-APLKLSKAVHKAVLTIDEKGTEAAGAMFLEAIPMSIPPEVKFN-KPFVFLMIEQNTKSPLFIGKVVNPTQK s17 MPFSVSWGVLLLAGLCCLVPSSLVEDPQGDAAQKTDTSHHDQGDWEDLACQKISYNVTDLAFDLYKSWLIYHN-QHVLVTPTSVAMAFRMLSLGTKADTRTEILEGLNVNLTETPEAKIHECFQQVLQALSRPDTRLQLTTGSSLFVNKSMKLVDTFLEDTKKLYHSEASSINFRDTEEAKEQINNYVEKRTGRKVVDLVKHLKKDTSLALVDYISFHGKWKDKFKAERIMVEGFHVDDKTIIRVPMINHLGRFDIHRDRELSSWVLAQHYVGNATAFFILPDPKKMWQLEEKLTYSHLENIQRAFDIRSINLHFPKLSISGTYKLKRVPRNLGITKIFSNEADLSGVSQE-APLKLSKAVHVAVLTIDEKGTEATGAPHLEEKAWSKYQTVMFN-RPFLVIIKEYITNFPLFIGKVVNPTQK s8 MP-----ATCLLHTMLTLP-----------------------------------------SPSTRNLRSIQMPRARTFSSPSRYRNGFEHAGCRCQGSTLSQIYSSLGY--SGLQASQVNEGYEHLIHMLGHSREAMQLEAGAGVAIREGFKVVDQFLKDVQHYYNSEAFSVDFSKPEIAAEEINQFIAKKTNDKITNMVKDLDSDTVMMLINYMYFRGKWDKPFDAQLTHKADFKVDEDTTVQVDMMKRTGRYDIYQDPVNQTTVMMVPYKGNTSMMIIFPDDGKMKELEESISRHHLKNWHDKLFRSSVDLFMPKFSITATSKLKGILEDMGVTDAFGDTADLSGLTEE-VKVKVSQVVHKAVLSVDEKGTEAAAATTIEIMPMSLPDTVILN-RPFLVLIVEDTTKSILFMGKITNPTE- s23 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQGDAVP-----------------EEXATK-DDNEHPQTL---LLTNVEFNXRPFVLIIYDRNTKSPLFVG-------- s25 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQGTAVQ-----------------ERSAKASDEEEAIRTL---LLTNVEFN-RPFVLSIYDR----------------- s19 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQGDAVP-----------------ETSATK-DDNEXPEMIPMSLPPELEIN-KPFILIIYDDNTKSPLFV--------- s21 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EDLQGXAVQ-----------------ETDADK-DDEEEIMPIS--LPPDLKFN-RPFILIIYDRNTKSPLFV---------
Now you see that the bottom 4 sequences are muuuuch shorter than the rest. If you look more careful, you also see that these 4 contain residues of type X. This normally is indicative of very poor sequencing (probably done with very very little material or a long long time ago). Look in the tree and you see that S8 is also far away from the rest. So leaving those (8, 19, 21, 23, 25) out gives us:
s10 MPSSVSWGILLLAGLCCLVPVSLAEDPQGDAAQKTDTS---HHDQDHPTFNKITPNLAEFAFSLYRQLAHQSNSTNIFFSPVSIATAFAMLSLGTKADTHDEILEGLNFNLTEIPEAQIHEGFQELLRTLNQPDSQLQLTTGNGLFLSEGLKLVDKFLEDVKKLYHSEAFTVNFGDTEEAKKQINDYVEKGTQGKIVDLVKELDRDTVFALVNYIFFKGKWERPFEVKDTEEEDFHVDQVTTVKVPMMKRLGMFNIQHCKKLSSWVLLMKYLGNATAIFFLPDEGKLQHLENELTHDIITKFLENEDRRSASLHLPKLSITGTYDLKSVLGQLGITKVFSNGADLSGVTEE-APLKLSKAVHKAVLTIDEKGTEAAGAMFLEAIPMSIPPEVKFNKPFVFLMIEQNTKSPLFMGKVVNPTQK s13 ---------LLLAGLCCLLPGSLAEDPQGDAAQKTDTP---PHDQNHPTLNKITPSLAEFAFSLYRQLAHQSNSTNIFFSPVSIATAFAMLSLGTKADTHSEILEGLNFNLTEIPEAQVHEGFQELLRTLNKPDSQLQLTTGNGLFLNKSLKVVDKFLEDVKNLYHSEAFSVNFEDTEEAKKQINNYVEKGTQGKVVDLVKELDRDTVFALVNYIFFKGKWERPFEVEATEEEDFHVDQATTVKVPMMRRLGMFNIYHCEKLSSWVLLMKYLGNATAIFFLPDEGKLQHLENELTHDIITKFLENENRRSANLHLPKLAITGTYDLKTVLGHLGITKVFSNGADLSGVTED-APLKLSKAVHKAVLTIDEKGTEAAGAMFLEAIPMSIPPEVKFNKPFVFLMIEQNTKSPLFIGKVVNPTQK s6 MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAFSIYHHLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILKGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLYHSEAFSINFRDAEEAKKKINDYVEKGSHGKIVELVKVLDPNTVFALVNYISFKGKWEKPFEMKHTTERDFHVDEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILPDLGKLQQLEDKLNNELLAKFLEKKYASSANLHLPKLSISETYDLKSVLGDVGITEVFSDRADLSGITKE-QPLKVSKALHKAALTIDEKGTEAVGSTFLEAIPMSLPPDVEFNRPFLCILYDRNTKSPLFVGKVVNPTQA s7 MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAFSIYHHLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILKGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLYHSEAFSINFRDAEEAKKKINDYVEKGSHGKIVELVKVLDPNTVFALVNYISFKGKWEKPFEMKHTTERDFHVDEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILPDLGKLQQLEDKLNNELLAKFLEKKYASSANLHLPKLSISETYDLKSVLGDVGITEVFSDRADLSGITKE-QPLKVSKALHKAALTIDEKGTEAVGSTFLEAIPMSLPPDVEFNRPFLCILYDRNTKSPLFVGKVVNPTQA s16 MALSITRGLLLLAALCCLAPTSLAGVLQGHAVQET-----DDTAHQEAACHKIAPNLANFAFSIYHKLAHQSNTSNIFFSPVSIASAFAMLSLGAKGNTHTEILEGLGFNLTELAEAEIHKGFQHLLHTLNQPNHQLQLTTGNGLFINESAKLVDTFLEDVKNLHHSKAFSINFRDAEEAKKKINDYVEKGSHGKIVDLVKDLDQDTVFALVNYISFKGKWEKPFEVEHTTERDFHVNEQTTVKVPMMNRLGMFDLHYCDKLASWVLLLDYVGNVTACFILPDLGKLQQLEDKLNNELLAKFLEKKYASSANLHLPKLSISETYDLKTVLGELGINRVFSNGADLSGITEE-QPLMVSKALHKAALTIDEKGTEAAGATFLEAIPMSLPPDVEFNRPFLCILYDRNTKSPLFVGKVVNPTQA s14 MASSSTWGLLLLAGLCCLVPISLAEGLQGHAVQETDVPRHDHEQHQEAACHRIAPNLADFAFSLYRQVARQSNTSNIFLSPVTIARAFAMLSLGTKGATHAEILEGLQFNLTEKAEAEIHEGFQHLLHTLNQPDNQLQLTTGNGLFIDEKAKLVPKFLEDVKNLYHSEAFSINFRDTEEAKKCINDYVEKGSQGKIVDLVDELDKDTVFALVNYIFFKGKWEKPFEVEQTTEEDFHVDEETTVKVPMMNRLGMFDLHHCDKLSSWVLLMDYVATATAFFILPDQGKLHQLEDMLTKEIRAKFLEKRYPSSANLHLPKLTISGTYDLKSLLGNLGITKVFSDEADLSGVTEE-QPLKLSKALHRAVLTIDEKGTEATGATILEAIPMSIPPNVKFNKPFLFLIYDTKTKAVLFMGKVMNPTQK s2 --SAIPRGLLLLAGLCCLVFGIMAEDAQVAQGPSQQ----------------IPRSLAHFAHSMYRVLTQQSNTSNIFFSPVSIATALAMVSLGAKGDTHTQILWGLEFNLTEIAEADIHDGFQNLLHTLNRPHSEHELTTGNGLFLDQKLKLKEKFSEDVKTLYHAEAFPTNFSNPKEAEKQINAYVEKGTQGKIVDLVKDLSADTVLALVNYIFFRGKWEKPFDVKHTTQEDFLVDMNTTVNVPMMKRQGMYKAFHCSTIQSWVLLLDYEGNVTTLFLLPDKGKMQHLEETLTPELIFKFARKTERMFANVHLPKLSISGTYDLKEVLGHLGITNVFSGAADLSGITED-MPLKISKGLHKALLTIDEKGTEAAGATELEITPHSVPQDLFFNKPFLFLIIDHSTDTPLFVGKVMDPTKK s4 MPSAIPRGLLLLAGLCCLVFGIMAEDAQVAQGPSQQ----------------IPRSLAHFAHSMYRVLTQQSNTSNIFFSPVSIATALAMVSVGAKGDTHTQILRGLEFNLTEIAEADIHNGFQNLLHTLNRPHSEHQLTTGNGLFLDQKLKLKEKFSEDVKTLYHAEAFPTNFSNPKEAEKQINAYVEKGTQGKIVDLVKDLSADTVLALVNYIFFRGKWEKPFDVKHTTQEDFHVDTSTTVKVPMMKREGKYKAFHCSTIQSWVLLLDYEGNVTALFLLPEEGKMQHLEETLTPELIFKFARKTERMFANVHLPKLSISGTYDLKEVLGHLGITNVFSDAADLSGVTED-IPLKISKGLHKALLTIDEKGTEAAGATMMEFMPMSLPEDLSFNKPFLFLIIDHSTDTPLFVGKVMDPTKK s3 MPPSVSRALLLLAGLGCLLPGFLADEAQETAVSSHEQDH--------PACHRIAPSLAEFALSLYREVAHESNTTNIFFSPVSIALAFAMLSLGAKGDTHTQVLEGLKFNLTETAEAQIHDGFRHLLHTVNRPDSELQLAARNALVVHENLKLQHKFLEDAKNLYQSEAFLVDFRDPEQAKTKINSHVEKGTRGKIVDLVQELDARTLLALVNYVFFKGKWEKPFEPENTKEEDFHVNATTTVRVPMMSRLGRYDLFHCSTLASTVLRMDYKGNATALFLLPDEGKLQHLEDTLTTELITKFLAKSSLRSVTVHFPKLSISGTYDLKPLLGKLGITQVFSDNADLSGITEQ-EPLKASQALHKAVLTIDERGTEAAGATYMEIIPMSLPDSITLDRPFLFVIYSHEIKSPLFVGKVVDPTQH s26 MTPSISWSLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFALRLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVKKLDQDTVFALANYILFKGKWKQPFDPENTEEAEFHVDESTTVKVPMMTLSGMLDVHHCSMLSSWVLLMDYAGNTTAVFLLPDDGKMQHLEQTLNKELISQFLLNRRRSDAQIHIPRLSISGNYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSKAVHKAVLTIDETGTEAAAATVLQVATYSMPPIVRFDHPFLFIIFEEHTQSPIFVGKVVDPTHK s27 MTPSISWCLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHNSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVKKLEQDTVFVLANYILFKGKWKKPFDPENTKQAEFHVDESTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNATAVFLLPDDGKMQHLEQTLNKELISKFLLNRRRRLAQIHIPRLSISGNYNLETLMSPLGITRIFNSGADLSGITEENAPLKLSQAVHKAVLTIDETGTEAAAATVLQGGFLSMPPILHFNRPFLFIIFEEHSQSPLFVGKVVDPTHK s20 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVKKLDQDTVFALANYILFKGKWKKPFDPENTEEAEFHVDESTTVKVPMMTLSGMLHVHHCSTLSSWVLLMDYAGNATAVFLLPDDGKMQHLEQTLSKELISKFLLNRRRRLAQIHFPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSQAVHKAVLTIDETGTEAAAVTVLQMVPMSMPPILRFDHPFLFIIFEEHTQSPIFLGKVVDPTHK s24 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVKKLDQDTVFALANYILFKGKWKKPFDPENTEEAEFHVDESTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNATAVFLLPDDGKMQHLEQTLSKELISKFLLKRPRRLAQIHFPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSQAVHKAVLTMDETGTEAAAATVLLAVPYSMPPIVRFDHPFLFIIFEEHTQSPLFVGKVVDPTHK s22 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAISLYRELVHQSNTSNIFFSPVSIATAFAMLSLGSKGDTHTQILEGLQFNLTQTSEADIHKSFQHLLQTLNRPDSELQLSTGNGLFVNNDLKLVEKFLEEAKNHYQAEVFSVNFAESEEAKKVINDFVEKGTQGKIVEAVKELDQDTVFALGNYILFKGKWKKPFDPENTEEAEFHVDKSTTVKVPMMTLSGMLDVHHCSTLSSWVLLMDYAGNASAVFLLPEDGKMQHLEQTLNKELISKILLNRRRRLVQIHIPRLSISGEYNLKTLMSPLGITRIFNNGADLSGITEENAPLKLSKAVHKAVLTIDETGTEAAAATVFEAVPMSMPPILRFDHPFLFIIFEEHTQSPIFVGKVVDPTHK s12 MTPSISWGLLLLAGLFCLVPSFLAEDVQETDTSRRDSV---------PASHDTPYNL-ELSISLYRELGHKSTTSNIFFSQVSIATAFAMLSLGEKGDTHTQILEGLQFNLTQTSEADIHKAFQHLLQTLNRPDSELQLSTGNGSLLNNDLKLVEKFLEEAKNNYHSEVFSVNFAESEEAKKVINDFVEKGTQGKIAEAVKDPDEDTVFALANYILFKGKWKKPFDPKHTEEAEFHVDTVTTVKVPMMTLTGMLDVHHCSTLSSWVLLMDYLGNRTAVFLLPDDGKMQHLEQTLNKELISKFLLNRHRRLAQVHLPRLSLSGNYTLNTLMSHLGITRIFNNGADLSGITEENAPLKLSKAADKAVLTMDETGTEAAAATVLQAVPMSMPPILNFNKPFIFIIVEEHTQSPLFVGKVVDPTRK s15 MAPSISRGLLLLAALCCLAPSFLAEDAQETDTSQQDQS---------PTYRKISSNLADFAFSLYRELVHQSNTSNIFFSPMSITTAFAMLSLGSKGDTRKQILEGLEFNLTQIPEADIHKAFHHLLQTLNRPDSELQLNTGNGLFVNKNLKLVEKFLEEVKNNYHSEAFSVNFADSEEAKKVINDYVEKGTQGKIVDLMKQLDEDTVFALVNYIFFKGKWKRPFNPEHTRDADFHVDKSTTVKVPMMNRLGMFDMHYCSTLSSWVLMMDYLGNATAIFLLPDDGKMQHLEQTLTKDLISRFLLNRQTRSAILYFPKLSISGTYNLKTLLSSLGITRVFNNDADLSGITED-APLKLSQAVHKAVLTLDERGTEAAGATVVEAVPMSLPPQVKFDHPFIFMIVESETQSPLFVGKVIDPTR- s9 MMPSTLSLCLMLAGLCSLVTSHLTEEIQASNDTENEYS----------STRRISPYMTDFSIDFYRLLVSKSNTTNIFFSPISIYTAFTLLALGAKSATRDQILTGLRFNRTEISEEHIFEGFQQLLNTFNLPENELQLTTSNGLFIDKNLKLVAKFLEDSKRLYASDTFSTNFEDNMAAKKQINDYVEKETQGKIVDLIQNLDSNVVFVLVNCIFFKGKWEKPFMTELTTECPFHVDSKTTVPVQTMRRLGMFNVFYDQDLSCWVLKMKYMGNATALFILPDTGKIEKVENALNKMLFHKWTRNLKRRAISLYFPKVSISGNYDLK-ILRELGITDVFGSNADLSGITEE-TNLKLSQAVHKAVVNIDEKGTEASGATFAEGIPMSIPPTVEFLRPFIFIILEENTKSVLFMGKVMNPTGN s17 MPFSVSWGVLLLAGLCCLVPSSLVEDPQGDAAQKTDTSHHDQGDWEDLACQKISYNVTDLAFDLYKSWLIYHN-QHVLVTPTSVAMAFRMLSLGTKADTRTEILEGLNVNLTETPEAKIHECFQQVLQALSRPDTRLQLTTGSSLFVNKSMKLVDTFLEDTKKLYHSEASSINFRDTEEAKEQINNYVEKRTGRKVVDLVKHLKKDTSLALVDYISFHGKWKDKFKAERIMVEGFHVDDKTIIRVPMINHLGRFDIHRDRELSSWVLAQHYVGNATAFFILPDPKKMWQLEEKLTYSHLENIQRAFDIRSINLHFPKLSISGTYKLKRVPRNLGITKIFSNEADLSGVSQE-APLKLSKAVHVAVLTIDEKGTEATGAPHLEEKAWSKYQTVMFNRPFLVIIKEYITNFPLFIGKVVNPTQK
Funny enough, this also converts the two gaps around residue 30 into one big gap (which generally is more plausible). Again you see what the alignment order can do/cause. The beginning of the alignment now looks like:
s10 MPSSVSWGILLLAGLCCLVPVSLAEDPQGDAAQKTDTS---HHDQDHPTFNKITPNLAEFAF s13 ---------LLLAGLCCLLPGSLAEDPQGDAAQKTDTP---PHDQNHPTLNKITPSLAEFAF s6 MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAF s7 MALSITRGLLLLAALCCLAPISLAGVLQGHAVQET-----DDTSHQEAACHKIAPNLANFAF s16 MALSITRGLLLLAALCCLAPTSLAGVLQGHAVQET-----DDTAHQEAACHKIAPNLANFAF s14 MASSSTWGLLLLAGLCCLVPISLAEGLQGHAVQETDVPRHDHEQHQEAACHRIAPNLADFAF s2 --SAIPRGLLLLAGLCCLVFGIMAEDAQVAQGPSQQ----------------IPRSLAHFAH s4 MPSAIPRGLLLLAGLCCLVFGIMAEDAQVAQGPSQQ----------------IPRSLAHFAH s3 MPPSVSRALLLLAGLGCLLPGFLADEAQETAVSSHEQDH--------PACHRIAPSLAEFAL s26 MTPSISWSLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAL s27 MTPSISWCLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAI s20 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAI s24 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAI s22 MTPSISWGLLLLAGLCCLVPSFLAEDVQETDTSQKDQS---------PASHEIATNLGDFAI s15 MAPSISRGLLLLAALCCLAPSFLAEDAQETDTSQQDQS---------PTYRKISSNLADFAF s9 MMPSTLSLCLMLAGLCSLVTSHLTEEIQASNDTENEYS----------STRRISPYMTDFSI s17 MPFSVSWGVLLLAGLCCLVPSSLVEDPQGDAAQKTDTSHHDQGDWEDLACQKISYNVTDLAF
I spot a series of problems.
KT-DTS ETDDTS
But the rest of the alignment looks brilliant now, except the one partial gap near the C-terminal end where one could argue that the 5 Qs should be aligned with the N. Against that would ague that there would then be gaps at three different positions and that is also not too good. So, in a way we don't know yet what to do around the gaps. The solutions would be looking at the structure.