cov    pid   1 [        .         .         .         .         :         .         .         . 80 
 1 148807318      100.0% 100.0%     MRL----------------------------------------------------------VFATKDLAVA-----GRSF    
 2 Q11N03_CHESB    93.2%  15.1%     M------------------------------------GVRGKVEQL------------VDNVIAASSITIQERRSAEGLD    
 3 Q11N80_CHESB    92.7%  16.6%     MPGGGLEPVPRQKLRRRLGGPLPQLFFTDLSALRRSVTVNGATYEL-----------SSDEIAAADSI---------GLI    
 4 C5C753_MICLC    91.2%  19.1%     MQDA----------QSSLGS--------------RGLTLRNDACSR-----------TDRGLLVQRVLSP-------VDA    
 5 K9VV23_9CYAN    89.4%  18.6%     MP-----------------------------------------------------------ITLQKGIDP-------ATQ    
 6 A5N8Z9_CLOK5    92.7%  17.3%     MGE----------------------------------------WI----------------EMRVEALIT-------GKG    
 7 R4KB11_CLOPA    92.5%  15.1%     M--------------------------------------------------------------EVVKVRT-------EDN    
 8 Q0S139_RHOJR    89.9%  16.9%     MGA-------------VLVA--------------YGLAVRPP------------------------------------GG    
 9 B1MGK7_MYCA9    92.7%  16.1%     M---------------ILST--------------PARAVRSSSWIEPDPAGRHKQAGSGSAVARTQRITL-------TGR    
10 D4J609_9FIRM    90.6%  13.2%     M------------------------------------------------------------IYKVETI---------KDG    
   consensus/100%                   M...............................................................................    
   consensus/90%                    M..................................................................l............    
   consensus/80%                    M.............................................................hh.ptl.........ttt    
   consensus/70%                    M............................................................lhtspsl.........tst    

                     cov    pid  81          .         1         .         .         .         .         :         . 160
 1 148807318      100.0% 100.0%     EGFPLLVGA-DGWPVEPA-QSFLWHTLVESGEALSALTWEAYGRRLFDYFAFLEANGL---AWNEES------QADGLSV    
 2 Q11N03_CHESB    93.2%  15.1%     AHVPLILRD-GALYDPDV-DRFFLDLPLNGVR--SRHSLRAYGYDVTVWLRFLADARD-KTVWKA--------DREDVEA    
 3 Q11N80_CHESB    92.7%  16.6%     EGMPFILGS-DGTYDHHL-NRFLRSCPTMGVR--SMNSLRAYARDIIVWMRFLEERQNGKSVWSA--------DRDDIAA    
 4 C5C753_MICLC    91.2%  19.1%     VESWTVLGD-DGAPVAPI-ERYL-AYLTQIER--SSNTVKAYAHDLKDWFVFLGVQGL---GWREV-------RLENVAE    
 5 K9VV23_9CYAN    89.4%  18.6%     DIIWLVLDE-NYQVIEPI-QRYL-TFLCGI-K--SPNTVESYGYSLKAWWEFLQSKNL---DWKEV-------KLTNLED    
 6 A5N8Z9_CLOK5    92.7%  17.3%     KERYMLVDD-KGEPVEVV-LKYI-RYKDNAGA--ARNTLRAYCYHLKLFFQFLDQESL---DYRDI-------GLDEMAS    
 7 R4KB11_CLOPA    92.5%  15.1%     KERYYVAED-SGLPIEPI-LKFI-RFKDNTDY--ARNTLRMYCQHLKLYFEYLEERKL---DFKKV-------TIDDISL    
 8 Q0S139_RHOJR    89.9%  16.9%     SRTWTVVDA-SYRTVDPV-EEWL-ESHRTL-W--SPNTVRGYATALAQWWTFLEQRDE-VGKWRDV-------GVPAVTG    
 9 B1MGK7_MYCA9    92.7%  16.1%     AHTYTVLGQ-DHLPIAPV-TEYL-QFLRDDQA--SPNTLRAYAAGLAAWWNLLEETNT---GWTDV-------TTALFGE    
10 D4J609_9FIRM    90.6%  13.2%     TEKYFFIRNLETMSIEELPSKYL-MHKIKCKR--SPNTVKRTAFSICYYMKYMAEKEM---ELTEVYQLDYEKQTEHFVE    
   consensus/100%                   ....hhhtt.th.....h..pah...........u..ohc.hs.tlh.ah.hht.tt.....hpt........th..h..    
   consensus/90%                    tth.hlltt.ph...t.l..cal.th..t..h..u.polctYshtlh.ahtaLttpt.....apt........thttht.    
   consensus/80%                    tth.hllts.sthsltsl.pcal.phhhph.t..S.NTl+uYuhplt.ahpaLtppp....sapc........phpthst    
   consensus/70%                    pchahllss.sshslcsl.p+aL.phhpps.t..S.NTl+uYuhsLthaapFLpppph...sWp-l.......ph-slst    

                     cov    pid 161          .         .         .         2         .         .         .         . 240
 1 148807318      100.0% 100.0%     LSRYRD-------------WSSGELELDPSTLNKRLNLIVRFYQWAKQR-DLIAALPFGERR----VRAT-PHSGFLSHV    
 2 Q11N03_CHESB    93.2%  15.1%     FHRARR-------------RAEPGSRISAASWNRSVAAIDKLYEWGVRE-ELLSSSPFSHRE--VWRRNR-TRGQGQIVV    
 3 Q11N80_CHESB    92.7%  16.6%     FHEARR-------------LSEPPFRISASSWNRMIAALDKLYRWAVDE-KIIAAAPFTYRQ--LWSRAS-TSGAVIAVA    
 4 C5C753_MICLC    91.2%  19.1%     FVAWLRRPPQLRD-GTVPVLPSVEHHCTESTVNRKLSALSAFYQHAAR--HGVDLGELLRAWQPAGGRGS-GWKPFLHHI    
 5 K9VV23_9CYAN    89.4%  18.6%     FVYWLR----VGDISKIVSMQPIQAKRSERSINLAVTAVTTFYEYHIAH-HSVDSKTFDRL---IITRGT-TRRGFLDGI    
 6 A5N8Z9_CLOK5    92.7%  17.3%     FMRWLQNP--YGS-LKVSPIALATSTRTAQTINIVLSTVIGFYDYIMRH-EDYSVQLSVRLKRQISGSHR-GFKNFLYHI    
 7 R4KB11_CLOPA    92.5%  15.1%     FVNWLQNP--YRS-IKITLLKPTNSVRSARTINMIINTVLSFYDYILRN-EEYSNKISERLKKFITVPSR-NFKGFLYGI    
 8 Q0S139_RHOJR    89.9%  16.9%     FLSWLR----NGRTVERS-LVPQEQVPGASTLEARLAALMSFYRWQEAV-FGVPVA--GRLM--RGAPRRMPARGLLAHL    
 9 B1MGK7_MYCA9    92.7%  16.1%     FLTYLR----TGDLPGTSRIGPPAVWLSAASVQQRAAAVLSFYRYHAHA-HNLDAP-YQRLYGTLGKPGRARYIPLLAGV    
10 D4J609_9FIRM    90.6%  13.2%     FLYWLK----AGN--HTEQTAGEKKCPNEGTCNAYLKDVFRFYLFIEAEYEQYGSLKTLSYNQIIAVNQV-GVKKVL---    
   consensus/100%                   h..hhp.............h.......s.tohp..ht.l.thY.a..t....hs......h.......t......h....    
   consensus/90%                    Fh.hhp.............h...t.h.sttohphhlssl.thYpah.t..c.hss....ph...h.h.tp.sht.hl.hh    
   consensus/80%                    Fhtahc.............hs..t.hhsttohNhhlssl.pFYpahhtt.c.hss....ch...hhs.tp.shtshL.hl    
   consensus/70%                    FhpaL+.....tp..th..hsssptphosuolNthlsslhpFYcathpp.ctlsst.ht+h...lhspsp.shpshLhtl    

                     cov    pid 241          :         .         .         .         .         3         .         . 320
 1 148807318      100.0% 100.0%     ---ARPNAESTKPSVMVRERKRLTKFLTKDQAKVCLALD--------------------ADPSHRILFHLMVRTGLRSCE    
 2 Q11N03_CHESB    93.2%  15.1%     RNDAFER----------RVKRSDIRFVTLEDFRRFRDVGLRGLAPDGAERPGARD---RNGLRNALFAEMLVVTGLRLEE    
 3 Q11N80_CHESB    92.7%  16.6%     VNCSKES----------GARNGDMRFLDLPRYLVFRDVGLRGRLPDGREDPTRRG---RNGERNALFAELLITTGLRLQE    
 4 C5C753_MICLC    91.2%  19.1%     ---SKGKPQARR-AIVLSAQSKLPRVLSAAEVQTILDAC--------------------DHLRDRFLFAVLFDTGMRIGE    
 5 K9VV23_9CYAN    89.4%  18.6%     ---SKSKPTRQK-LVKLKEPKKFPGCLTDEQIEILVNSC--------------------HRLRDKFLILLLNGTGIRIGE    
 6 A5N8Z9_CLOK5    92.7%  17.3%     ---NKDRSYDRK-ILKLKAPKSKPKTISKEKVGILMDAC--------------------SNIRDKFLIQLLWESSIRIGE    
 7 R4KB11_CLOPA    92.5%  15.1%     ---AYEKKKLSSNILKLKVPKFRPRIISKEDIEKLVRAC--------------------NNYRDKFLLTLLYETGMRIGE    
 8 Q0S139_RHOJR    89.9%  16.9%     DARAAARPSSLVRVRRGHRGTGRPPLLLPGQIQAILNGCAV------FDSATGEW---VGNLRDRFLFALLAETGMRLGE    
 9 B1MGK7_MYCA9    92.7%  16.1%     -GRPVRKPRPIYRVR--GGNTSRTPVLLPEQVRTILDLCAV------QDR-SGQWSGSPAALRDRLLFALLAETGMRMGE    
10 D4J609_9FIRM    90.6%  13.2%     ------RNHSFK--AYLKEEEHRGRTAKENQIITILQAC--------------------TNRRDQLLLLMLAETGYRIGE    
   consensus/100%                   ......p..........t..p....hh...ph.hhht.s....................tt.ppthhh.hh..ouhR.tE    
   consensus/90%                    ...sh.p..........t..pt...hl..tph.hhhphs....................st.Rsthhh.hLhtTGhRhtE    
   consensus/80%                    ...sht+.......h..pt.pthsthlp.tphthhhsss....................sshRcphLhtlLhpTGhRlsE    
   consensus/70%                    ...uht+sp..h..hhh+ttppcs+hls.pplphllssC....................sshRD+hLhtLLhcTGhRlGE    

                     cov    pid 321          .         .         :         .         .         .         .         4 400
 1 148807318      100.0% 100.0%     ARTFPFKYVFNPRLKKGLRP-GQMISVALEPSDMHLKY-GRPRTIDVPWSLMEEMWSYTLH------EREVRKAAGNG--    
 2 Q11N03_CHESB    93.2%  15.1%     ASFLLA---FEVDALPTSG--SAIRQTWFNLPAGLTKG-ERGRAILVPDGLLQRLRTYIR--------VERAHAAAKFKA    
 3 Q11N80_CHESB    92.7%  16.6%     ASSLLL---NELPTLDTCLD-STARSLPFRLAAATAKG-SRGRDIRMPIRLIGQLHDYVR--------IERDNALGRARR    
 4 C5C753_MICLC    91.2%  19.1%     ALGLRH---EDIAAAESQ---ITVQRR-VNDNGARSKS-CAPRTVPVSAELVRLYADYLH--------LEYDDLDSDY--    
 5 K9VV23_9CYAN    89.4%  18.6%     LLGLQH---EDI--GDGNDYFIYVRKR-RHSHNVRAKG--QERTIPVIPELLQMYNNYLI--------YEYPEVESNY--    
 6 A5N8Z9_CLOK5    92.7%  17.3%     ALALWL---EDFQIDAGK---IHIRDRGELSNHAEIKTVCSPRTIDVSSDLMNFYMDYIA-------EYHTDEVDTNH--    
 7 R4KB11_CLOPA    92.5%  15.1%     ALSLWI---EDIDVSDMI---IDLKDRGQLENNAEIKTVSSPRKIDVSQDLADMFMEYIA-------EYHTEEVETNH--    
 8 Q0S139_RHOJR    89.9%  16.9%     ALGLRI---SDFVMGRGGTPFVEIVPRHDNANGARVKM-MRPRRVYVGADLERLFADYLTHIACRATELGLPLRVESP--    
 9 B1MGK7_MYCA9    92.7%  16.1%     ALTLRH---HDVHIGAGGTPWVEVVPRQDHPAGVRVKG--GHRRIYVGDDLEALYSAYVWHLVDTGAHEHVPDLDTHF--    
10 D4J609_9FIRM    90.6%  13.2%     LLGVKY--VKDIDYRNHM---IRVCFREDNENEARAKN-AEYRSAKISNDTFEFLMDYLA-------KYRKILQHQDY--    
   consensus/100%                   h..h.h....p............h..h.....th..K...t.Rth.h..th.t.h.tYhh.........th....tp...    
   consensus/90%                    h.sl.h....-h.h.tt.....thh.h....stsphK...t.Rpl.ls.pL.t.h.sYlh........hch..h.tph..    
   consensus/80%                    AhsLhh...p-h.htts....hplh.p..p.ssschKs..p.Rpl.Vs.cLhphhhsYlh........hch.phtsph..    
   consensus/70%                    ALuLhh...pDlthtsst...lplppR..p.ssucsKs.tpsRsI.Vss-LhphhhsYlt........hchschtssa..    

                     cov    pid 401          .         .         .         .         :         .         .         . 480
 1 148807318      100.0% 100.0%     -------------------------------RA----------------------------TALVLTREGRQYTKDSIVD    
 2 Q11N03_CHESB    93.2%  15.1%     RQGWGSMERPIFVRRPVVGSTNVA--LADG-RTVPLEI--FSPAERERLVICDPDNAPIEPAVLWLTEVGQPVCPNSWEV    
 3 Q11N80_CHESB    92.7%  16.6%     SGRIRRTRSPI----PVVECEHRALRLNDGDRAVRMSVDQMTPAERTRLVEA-TTGAPLA---PWLTEDGLPMPMASWEA    
 4 C5C753_MICLC    91.2%  19.1%     ----------VFVN-------------------------------------------------LWGRPHGHPLTYTAVYD    
 5 K9VV23_9CYAN    89.4%  18.6%     ----------VFVN-------------------------------------------------IWEGEIGMPMKQAVINT    
 6 A5N8Z9_CLOK5    92.7%  17.3%     ----------VFIK-------------------------------------------------FSGENKYQPLEYQDVVS    
 7 R4KB11_CLOPA    92.5%  15.1%     ----------VFIK-------------------------------------------------ISGDNKNKAMNYVDANN    
 8 Q0S139_RHOJR    89.9%  16.9%     ----------LLVN-------------------------------------------------LFRPPFLSSLREGTVRD    
 9 B1MGK7_MYCA9    92.7%  16.1%     ----------VFVN-------------------------------------------------LAGGQLYAPTRPETVYA    
10 D4J609_9FIRM    90.6%  13.2%     ----------LFVN-------------------------------------------------IMGENIGKPLRVDSVYD    
   consensus/100%                   ........................................................................h...sh.s    
   consensus/90%                    ..........l....................................................h.ht..h.shp.tsh.s    
   consensus/80%                    ..........lhlp.................................................lhhtphhtshp.ssh.s    
   consensus/70%                    ..........lFlp.................................................lhtsphspPhp.ssl.s    

                     cov    pid 481          .         5         .         .         .         .         :         . 560
 1 148807318      100.0% 100.0%     VMKAYERKC---G---FYVRAHMLRHTYGTYTLLALRKS-----------------RDFKGEPLLYVRDRMGHSDVQTTM    
 2 Q11N03_CHESB    93.2%  15.1%     AFARACRRCRANGF-PINISPHQLRHTFAVHMLAMLIQRQLEGAASAISAGPAEGYRRLLGDPLQQVQRLLGHASLETTS    
 3 Q11N80_CHESB    92.7%  16.6%     VFTRASERCRRFGFDDMHVTPHMLRHSFAVHMLTLLLREQVGWVISERSRHLGSAYRRMIGDPLLKLQRLMGHSRIESTY    
 4 C5C753_MICLC    91.2%  19.1%     LVKRLRRRT---G---IDFDPHWYRHTAATRML-------------------------RDGVPIEVVSKLLGHADITTTT    
 5 K9VV23_9CYAN    89.4%  18.6%     MFARLSKKT---G---IKVHPHLFRHSYATRLL-------------------------KNNCSPDRVKYLLGHSSIQTTL    
 6 A5N8Z9_CLOK5    92.7%  17.3%     LFNRLKSKT---G---IDVSPHILRHTSLTELR-------------------------RAGWRDEHLMKRAGHAHVQTTM    
 7 R4KB11_CLOPA    92.5%  15.1%     LFRKLAKKT---E---IHVTPHMFRHSSLTVLR-------------------------MAGWQPEMLRIRAGHKNIYTTL    
 8 Q0S139_RHOJR    89.9%  16.9%     KTNALRRRGI--G--VEGWSPHWFRHSHATALL-------------------------LAGTPEWVVSRRLGHAHVQTTL    
 9 B1MGK7_MYCA9    92.7%  16.1%     KVRSISHNAK--GAVPKDWSPHWMRHTHATALL-------------------------LSGVPPHVVMRRLGHQDIQTTL    
10 D4J609_9FIRM    90.6%  13.2%     MLDRMEKKT---G---VKITPHMLRHYFANMRK-------------------------QAGWELEMISQALGHKHLDTTI    
   consensus/100%                   hhtthtpps...t.....hpsH.hRH..hs.hh...........................s.....l..hhGHtpl.oT.    
   consensus/90%                    hhtthpc+s...G...hthpPHhhRHo.hshhh.........................h.G....hl..hhGHtplpTTh    
   consensus/80%                    hhpphp++s...G...hphsPHhhRHohushhh.........................htG....hlpphhGHtplpTTh    
   consensus/70%                    hhp+hp++s...G...hcloPHhhRHoaATthL.........................hsGhs.phlpchhGHuclpTTh    

                     cov    pid 561          .         .         .   ] 594
 1 148807318      100.0% 100.0%     VYL-HLINQLEAQSVLAHEDEIDMMFMAVSTPSI    
 2 Q11N03_CHESB    93.2%  15.1%     LYLDHIATR---ADTVDTAVAELLALLPSGSRL-    
 3 Q11N80_CHESB    92.7%  16.6%     IYLDHLADS---QEIVDAAVGNLGLDVTSGEPAP    
 4 C5C753_MICLC    91.2%  19.1%     AVYGHLSAE-DARKALEEAGWFTGREVRL-----    
 5 K9VV23_9CYAN    89.4%  18.6%     DVYSHVIAETDLRVIIEEENNYRE----------    
 6 A5N8Z9_CLOK5    92.7%  17.3%     QMYIHPSDE-DIRKDWEKAEEKMRLKKVRINE--    
 7 R4KB11_CLOPA    92.5%  15.1%     NTYIHPSDD-EIRKEFEKTKPNLNLDIYNEGDNK    
 8 Q0S139_RHOJR    89.9%  16.9%     DLYGWVREDEALRAAANWRSYAAGWQVTE-----    
 9 B1MGK7_MYCA9    92.7%  16.1%     STYGWVTEDAEMRSVAEWRNFVAGWKGLHDDPH-    
10 D4J609_9FIRM    90.6%  13.2%     KYLDWLDDE-LIEASNEFYAQHTAIYGAERLLE-    
   consensus/100%                   .hh.a..tp...t...t.................    
   consensus/90%                    .hh.a..tp...pt.hp.t...h.h.h.......    
   consensus/80%                    .hh.altsc..hpt.h-hts..hth.hh......    
   consensus/70%                    thhsHlss-.thcpsh-tts.hhth.hhp.....