--- EXPERIMENT NOTES
--- EXPERIMENT PROPERTIES
#Fri Nov 27 18:54:56 GMT 2020
codeml.models=0 1 2 3 7 8
mrbayes.mpich=
mrbayes.ngen=1000000
tcoffee.alignMethod=MUSCLE
tcoffee.params=
tcoffee.maxSeqs=0
codeml.bin=codeml
mrbayes.tburnin=2500
codeml.dir=/usr/bin/
input.sequences=
mrbayes.pburnin=2500
mrbayes.bin=mb
tcoffee.bin=t_coffee
mrbayes.dir=/opt/mrbayes_3.2.2/src
tcoffee.dir=
tcoffee.minScore=3
input.fasta=
input.names=
mrbayes.params=
codeml.params=
--- PSRF SUMMARY
Estimated marginal likelihoods for runs sampled in files
"/data/14_chinensisF_box_results/Muscle/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/data/14_chinensisF_box_results/Muscle/allfiles/mrbayes/input.fasta.fasta.mrb.run2.p":
(Use the harmonic mean for Bayes factor comparisons of models)
(Values are saved to the file /data/14_chinensisF_box_results/Muscle/allfiles/mrbayes/input.fasta.fasta.mrb.lstat)
Run Arithmetic mean Harmonic mean
--------------------------------------
1 -16154.70 -16170.26
2 -16153.35 -16170.12
--------------------------------------
TOTAL -16153.81 -16170.19
--------------------------------------
Model parameter summaries over the runs sampled in files
"/data/14_chinensisF_box_results/Muscle/allfiles/mrbayes/input.fasta.fasta.mrb.run1.p" and "/data/14_chinensisF_box_results/Muscle/allfiles/mrbayes/input.fasta.fasta.mrb.run2.p":
Summaries are based on a total of 3002 samples from 2 runs.
Each run produced 2001 samples of which 1501 samples were included.
Parameter summaries saved to file "/data/14_chinensisF_box_results/Muscle/allfiles/mrbayes/input.fasta.fasta.mrb.pstat".
95% HPD Interval
--------------------
Parameter Mean Variance Lower Upper Median min ESS* avg ESS PSRF+
------------------------------------------------------------------------------------------------------
TL{all} 4.828005 0.020328 4.558574 5.117780 4.825326 1264.12 1382.56 1.000
r(A<->C){all} 0.141636 0.000097 0.122858 0.161245 0.141586 885.72 898.01 1.000
r(A<->G){all} 0.260340 0.000169 0.235220 0.285249 0.260207 753.31 778.59 1.001
r(A<->T){all} 0.108632 0.000053 0.094680 0.122935 0.108519 1112.91 1148.01 1.000
r(C<->G){all} 0.161374 0.000125 0.139094 0.182122 0.161395 682.10 775.50 1.000
r(C<->T){all} 0.244971 0.000151 0.222628 0.270091 0.244758 863.65 878.43 1.001
r(G<->T){all} 0.083047 0.000051 0.069028 0.096911 0.082861 963.05 1020.84 1.001
pi(A){all} 0.286487 0.000059 0.270769 0.300724 0.286459 752.93 808.69 1.000
pi(C){all} 0.184927 0.000038 0.172744 0.196798 0.184896 747.96 767.37 1.001
pi(G){all} 0.218478 0.000050 0.204502 0.232092 0.218268 817.87 872.48 1.000
pi(T){all} 0.310108 0.000069 0.293498 0.325894 0.309912 904.38 1052.51 1.000
alpha{1,2} 1.363420 0.021079 1.090982 1.647462 1.348588 997.47 1106.28 1.000
alpha{3} 4.681634 0.681732 3.312281 6.492241 4.601259 1449.92 1475.46 1.000
pinvar{all} 0.023269 0.000157 0.001170 0.046502 0.022239 772.44 907.16 1.000
------------------------------------------------------------------------------------------------------
* Convergence diagnostic (ESS = Estimated Sample Size); min and avg values
correspond to minimal and average ESS among runs.
ESS value below 100 may indicate that the parameter is undersampled.
+ Convergence diagnostic (PSRF = Potential Scale Reduction Factor; Gelman
and Rubin, 1992) should approach 1.0 as runs converge.
Setting sumt conformat to Simple
--- CODEML SUMMARY
Model 1: NearlyNeutral -7699.732033
Model 2: PositiveSelection -7692.990556
Model 0: one-ratio -7842.927958
Model 3: discrete -7673.668478
Model 7: beta -7688.744247
Model 8: beta&w>1 -7675.730305
Model 0 vs 1 286.39185
Model 2 vs 1 13.482954000000973
Additional information for M1 vs M2:
Naive Empirical Bayes (NEB) analysis
Positively selected sites (*: P>95%; **: P>99%)
(amino acids refer to 1st sequence: Rchinensis_NC_037090F_box_minus3)
Pr(w>1) post mean +- SE for w
48 S 0.796 2.122
57 R 0.764 2.077
62 D 0.871 2.227
85 H 0.704 1.992
95 S 0.823 2.160
124 N 0.528 1.744
128 P 0.721 2.017
130 G 0.657 1.925
131 T 0.691 1.974
148 D 0.903 2.273
174 M 0.582 1.820
178 F 0.816 2.150
179 T 0.592 1.834
190 I 0.869 2.224
211 Y 0.944 2.330
226 W 0.786 2.108
Bayes Empirical Bayes (BEB) analysis (Yang, Wong & Nielsen 2005. Mol. Biol. Evol. 22:1107-1118)
Positively selected sites (*: P>95%; **: P>99%)
(amino acids refer to 1st sequence: Rchinensis_NC_037090F_box_minus3)
Pr(w>1) post mean +- SE for w
48 S 0.760 2.207 +- 0.743
57 R 0.711 2.115 +- 0.758
62 D 0.843 2.347 +- 0.677
85 H 0.687 2.112 +- 0.838
95 S 0.795 2.272 +- 0.738
128 P 0.683 2.083 +- 0.790
130 G 0.644 2.043 +- 0.852
131 T 0.654 2.041 +- 0.819
148 D 0.901 2.464 +- 0.651
174 M 0.537 1.846 +- 0.826
178 F 0.790 2.265 +- 0.738
179 T 0.561 1.897 +- 0.849
190 I 0.845 2.352 +- 0.676
211 Y 0.944 2.532 +- 0.578
226 W 0.757 2.208 +- 0.758
Model 8 vs 7 26.027883999999176
Additional information for M7 vs M8:
Naive Empirical Bayes (NEB) analysis
Positively selected sites (*: P>95%; **: P>99%)
(amino acids refer to 1st sequence: Rchinensis_NC_037090F_box_minus3)
Pr(w>1) post mean +- SE for w
48 S 0.938 1.605
54 C 0.708 1.405
56 L 0.571 1.278
57 R 0.922 1.591
59 I 0.621 1.326
60 N 0.662 1.367
62 D 0.964* 1.627
64 K 0.670 1.370
74 S 0.746 1.435
85 H 0.885 1.559
92 L 0.676 1.376
95 S 0.947 1.613
108 L 0.785 1.474
124 N 0.863 1.541
128 P 0.897 1.569
129 N 0.604 1.308
130 G 0.866 1.543
131 T 0.895 1.568
148 D 0.958* 1.622
150 G 0.660 1.362
174 M 0.854 1.533
178 F 0.940 1.606
179 T 0.838 1.519
190 I 0.960* 1.624
194 S 0.656 1.353
211 Y 0.973* 1.635
225 H 0.541 1.255
226 W 0.933 1.601
Bayes Empirical Bayes (BEB) analysis (Yang, Wong & Nielsen 2005. Mol. Biol. Evol. 22:1107-1118)
Positively selected sites (*: P>95%; **: P>99%)
(amino acids refer to 1st sequence: Rchinensis_NC_037090F_box_minus3)
Pr(w>1) post mean +- SE for w
48 S 0.928 1.465 +- 0.207
51 C 0.553 1.170 +- 0.385
54 C 0.742 1.325 +- 0.315
56 L 0.631 1.237 +- 0.359
57 R 0.913 1.453 +- 0.219
59 I 0.674 1.271 +- 0.344
60 N 0.715 1.305 +- 0.321
62 D 0.955* 1.485 +- 0.180
64 K 0.711 1.299 +- 0.330
74 S 0.763 1.337 +- 0.315
85 H 0.877 1.429 +- 0.253
90 F 0.521 1.159 +- 0.369
92 L 0.716 1.304 +- 0.328
95 S 0.939 1.473 +- 0.196
107 V 0.542 1.171 +- 0.372
108 L 0.802 1.370 +- 0.288
124 N 0.864 1.416 +- 0.247
126 C 0.506 1.137 +- 0.382
128 P 0.888 1.435 +- 0.243
129 N 0.646 1.249 +- 0.359
130 G 0.860 1.415 +- 0.268
131 T 0.888 1.436 +- 0.239
147 V 0.570 1.187 +- 0.376
148 D 0.947 1.480 +- 0.193
150 G 0.701 1.294 +- 0.334
174 M 0.853 1.409 +- 0.264
178 F 0.930 1.467 +- 0.207
179 T 0.838 1.399 +- 0.276
190 I 0.950* 1.482 +- 0.186
194 S 0.693 1.282 +- 0.344
206 L 0.524 1.148 +- 0.386
211 Y 0.963* 1.491 +- 0.177
225 H 0.617 1.229 +- 0.356
226 W 0.924 1.462 +- 0.211
>C1
MSEEIMVSILSILPPKSVMRFKCVRKSWYSLINNSSFIAKHLSNTMCNKH
STSILCKSCVLRDINTDEKEVVCSLISLSSNSNNDEHHIHSAVEDIHIPL
SFGVTTRGQFKGDEVLLAVSIIGHCDGIICLVASLNIVLWNPAIKEFKIL
PNQCLPNGTLNSMAFGYDPKSKDYKFLNIVDPSEETLGEHRIVYDFPRIE
VYTLSTDSWREMKTYSLETETTMFLCFTKLYFNGFCYWIGCEKQKDFMDY
FDRDDEEWVRQVIHSFDMSTEVFDHILLPNSLYLYEPLALYFNMHVILWN
ESIALFGLYHWRSooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooo
>C2
MAGCKLPRVMVVQILSRMPPKSLMRFKCVHKSWNSLISSRHVVAKHLQFH
NHLSSSTTILLRRPVIWRTETKNEEIVFSLLTLRNENNGDEDNLDYDIED
IHFPPSIGLKTRAQFIENPGPTYECADIVGHCGGIICLSLYAAGDLVLYN
PAIKEFKVIPEPCLPRPRQFYFRCDAFGYDPKSEDYILVNVASYGENRYD
DDRLVIEPLRAEMYTLGTNSWREINIHNLETETTMFRPNHFQVYFKGNCY
GLAEEIKKEFISSFDSLEEYYIREVIVWFNTSDRVFHSALTPDCLYRYPA
HDFNLTVWNNCVALFGYNRCGSKPFEIWVMGESDGFTCSWIKHLSVDITE
SPQPLVLWESNQSLLVSPRIRVALYSFATKTFKYLPLCAAEHFDAIPFVN
SIVPLNRDLVSVNISooooooooooooooooooooooooooooooooooo
ooooooooooooooo
>C3
MAEFCKMPEEMVVPILSRLLPKSLMRFKCIHKSWHSLINSPQFISKHLHF
HNNLSSSTTILLKRPVMRRTDTLNEKIVCSFLNLHNANDGDEDNLHYDIK
DLEFQPSMGLNTRGQFIEIPNEYYYNCAYIIGQCDGIFCLTLYAAKDLVL
YNPAIKEFKFLPESCLQDKNIGSVGFGYDPKSEDYILVSVVSYGHGEQYY
NDDRLVIDPMRAEVYTMSTDCWREIKIHNLETETTFFWPRHFQVYFKGNC
YWLAHEKRKEFITLYDRLEEYYIWEAIVCFDTANRIFHNILVPDCLYEFP
MHDLDLAVWHDSIALFGFYRGGSRPFEIWVMDNFDGLNSSWVKQLSVDIA
KSPIPLALWERNKILLVFTHTQIALYSFVTETYQYLPLYGASFFRLFLMW
IVoooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooo
>C4
MVEFCKISEEIVMQILSRTPPKSLMRFKCIQKSWNSMINDPQFAAKHLHF
YNNPSSSTAFLVKRPVILRSETSNENVVLSYLRLETYTNGDDEDLHFVVE
DIICPPFKGLKARGQFIELPRRDDSVYIISHCDGIIFLTLYTGDLFLYNP
AIKEFKIILASCCHDCCWSTVGFGYDLKCKDYIILEIACYGETNYNDPQR
LVVDPPIAAVYTLGIDSWREIKTDHLQTEDTYFWPTAFDLYSKGIFYLFG
YEEKKEFLDDMERCEETNKQVMILYDTRDELFHIAMLPDSFNEPACGVHD
IHVALLNKSIALYGFSIFESIHSIQIWVTDDIRGAQEYSWTKYLSLNPVD
NVRRSLAFWKIDEVLMIAKDGRVVLCNLLTGKLKYFPIHGLHLGDDIQGI
VCVDSIVPLNGRELSRHooooooooooooooooooooooooooooooooo
ooooooooooooooo
>C5
MSEFSKFPEEMALHILSRMPPKSLMRFKCVRKSWYVLINNPSFVAKHLYN
SLHNKQSTCIFCKRYVFRDIATKDVESVVSLITFSDDDVGDTNHEHISHS
VIQDIDLPLSMSGIPKNHLNEPELLGAVYITGHCDGIICLVHGEIVLWNP
AIKQFKILPKPLLTNGIVNSIGFGYDARSKDYKVFSFPTHDEDRSSERDF
NYPPHVEVYSLSTDLWTEINADHLETETTNLYPEFFQMYFKGIWYWTGSE
QQKEFMVVYDSMDEEWVRQLIIVFDMNDEVFEDILFPYSLYGPMIPYLEM
RVIVWNESVALFGQYRFGYADDAFGLWVMDDIVKGSWTKQLTLEVVVGTR
MTLEMWKSDEILMVANDNRIFSYNIRTEEIKYLPIESTHPTFSAAIVCIN
SIVPVIHGRQQAoooooooooooooooooooooooooooooooooooooo
ooooooooooooooo
>C6
MANFSKLYSSEDLVEQILSGLPPKSLMRFKCVCDLWCNLIKSPSFVAKHL
SGSMRASSMPVLFKRPVPRDKENNIMDEKGVENDDDDVGTLLWSLNLCNE
DDNDYLLSTVLEELNVPLPAPLKLKHSSDLTIAGHCDGIICLKLFTGNVI
LCNPAMKEFKLLPKSFLLLCNDDFDDLWSLSYELRYYTEQLGFGYDPEGK
DYKVLRFVIYDESCYWFKAEVYTMDSNSWREIKTEYNNIIQFVNWSSDQP
IYFNGICYWQVSGSRGEFILSFDMGNELFHEILNPDLPDKCGVVRLAVWK
EFISLFTYQEEIVVPPSYDMWVMMDDLGDGKGSWTKYFTIGPVEGDKWPL
LFWKGDQLLMESNDGQIVLYNIGTQILKYLPIHFIRDLYYSQELVYVNSI
VSINGGNVLEDIHISAFYGNGKFYSINKGDVIDISAFYGITSoooooooo
ooooooooooooooo
>C7
MAELICKMPEEMTLQFLSRLPPKSLMRFKCIHKSWYALINNPKFIDKHLH
LYNKDSYTCFLLKRSVVARTQSIKEEILFSFLYVPNDNDDEDSHPHCVVE
DIYFPTAMGLKTKGHNIELPGSYGGETIYILGHCDGIICLVYHSGGLVFY
NPSIREFKIIPPSCLTESFSCVGGFGYDPKCKDYKVVNIVPSGEDSYDHN
QRLVIYPPRAEVYTLSTDSWRQIKIDYLETETTSFWPDIYQMCYKGVFYW
LGHEQDKEYLCYYDRLSSPSIRDVILLYDTGEEVFRTRLLPDSFKDLGLH
ALSMSLTMWNGSIALFGFSYWGPDIESFKIWMMDDFGSWTKHLTYETIMG
IYLSLVLWRSDDVLMVANDGRIVSYSLSRDRVKYFPIQGVWGTYQAFVCV
NSNSIVSVKGGNKVESRDIQTSNVLLoooooooooooooooooooooooo
ooooooooooooooo
>C8
MAELSKFAEEIMVEIMSRLPPKSLMRFKCVRRSWNALINNPNFAAKHLAS
SKRTLLSSSSTTIIFRHFLIADLNPDEMEMILSLYNFCNDFDGCFLEDIH
FPHSMGLECRRKFHEPGSTFGISCYCDGIICLADYGQKPNIVLCNPAIKE
FKLLSESQLALSSPTFRKTAAVGFGCDLMLKNYKVVRLINSGWRYRDDQD
TVIPHLYAEVYNLRTDSWKEIKIDGLLKENKIVVPDSNAQTKGLCSKGIL
YWCAMEEEKVLEVTCDGDDEQKEIDMHACIISFNVGDESFHVINIGSYDD
HCCLIDGVLGLWKESIALCVRGWTTLDIWVMDDFGGGKGSWTKYLAIEPV
VKITSQFALFGKSDEQFVLVACDDSVVIFYDICTNKFNYLPLNGVLLHHT
QVVEYASSIVSVKECNKLDMEAoooooooooooooooooooooooooooo
ooooooooooooooo
>C9
MENFSKLSEEMVVRILSRLPPKSLIRFRCVRKLWYNVINSPNFVAKNLTT
SKHNKFSSSTCILAKHTVLKDSNIKDRNEILEVLRDNSIETKKILLSLCN
LCNDNDGDDPNLNYVVDDFTVPLPLGLLPFSLEIAGHCDGIICLNNSFLD
DIVLCNPATKESKLLPKSCLLLPPRHPNDYDEIESDVNAVGFGYDSKAQE
YKVVRIVSFITGVHKPLPSKAEVYTIGTNSWREIKDQTESHVFWAASFKL
FLKGFYFWWASICPPEQEIILSFDMNEELFHDIYIPESVRHDIVRCNRGL
AVWKESIALLAYGGDSGAQSFDIWVIDDFGVFKSSWIKYLTIGPLEGISI
PLIFWKSNEFLMAATDGRLVSYNLSTQMFKYLPIHGVEDPPYIQAVVYVN
SIVSVHASNKLEGINNSSoooooooooooooooooooooooooooooooo
ooooooooooooooo
>C10
MGKLCKLSEEMVGQFLSRLPPKALMRFKCIHKSWYNLITSPSFIAKNLSN
SKNNKFASTTRILFKRTVLKDIKDKNEIFYVLRDNNNDRRYIFLSLLDLC
NDNDGDDQNLHSVVDDLIVPLPFSICPFSLQIAGHCDGLICLVNIVNEEV
ALCNPAIKEFKFLPRSSLLLPRRHPEDDDGIESDVNAVGFGYDSKTQDYK
IVRVITYITGIAYTLPSKAEVYTLSSHSWREIKIDKECHVFWTPSFEIHF
RGIYYWSALTYPTPGADKEAIFAFDMSEETFEEIPIPDGICARDGIIKFL
AVWKESVALISCIGDGPKSFDIWVMDDSSGIKGSWTKHLVIGPIECEIPL
VFWKSDELLLVISDGRVVSYHLGNKTIKYLPIHGVEDPQYIHAVVCVNSM
ISVKKTKGoooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooo
>C11
MMQSSKLAEEIVVQFMSRLPPKALMRFKCIRKSWYNLINSPSFVAQNLSY
SMNNKFTSSTCILSKHTVLKDGNITDRNEILDILTYGNNDKQQILLSLLN
LCNDHNGDDQELFSVIKDNFIVPFPFDKCSLSLKIAGHCDGIICLVNVED
VALCNPSIKEFNHLPKSCLLLPPKNWDDYENEDDYYEALESESNAVGFGY
DSKANVYKVVRIVQFTSGYVFTSHPSRVEVYTLGANCWREIKADVLVSTV
CWSPSFEMYFKGIYYWDAYSYLTPRQYKDGILAFDMSDELFYLIYHPETT
REFNKSLAVWKESIALITYEGDAPKCFDLWLNEDSSCFKGLWTKYFTIGP
VEVEIPLVFWKSNEILMVNADKHIVSYNLDTQTLKCLPMHGVEDPEYIYA
IIYVSSIISVNRDNKLECTTTSIooooooooooooooooooooooooooo
ooooooooooooooo
>C12
MTEFCKIPEAMGLQILSRLPPKSLMRFKCVHKSWHTLMKDPNFVAKHLSN
SMHDNFCRTTGVLFKRENFKDTGTAERQSESLLSLINFCNANGDGEHDIH
CLVEDVTKGQFSGFEVLESAWIIGHCHGIICLRNATKIILWNPAIREVKV
TSPYVPDENLSDLGIGYDPKSDTYKVVHISYGTQEEYGDGHILIDRPKTE
VYTLGTDSWRQIMTGCLETETTHFWFQDFHMYFNGFCYWNGREQLKEYQN
FYDLQEEHHIRPVIISFDMGDEVFHNMLLPDFVYETYMWSYVLRLMAWNE
SVAIFGLDHGITSHESWGLWVMDDFGGVTGSWIKQFSFVSAVGFLDTPLQ
IWKSDEILIVSKERRVVSYNLDTEQYKYLPIHSMDSDYFEAVVYMNSIVS
VNGSKToooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooo
>C13
MALEKDSEIAELTESGKNIAQDVVEQILSTLPPKSLMRFKCVSKWWYHLI
TSPRFVAKHLSISKHNRPSTCALIKSLVSNDAEAQEPEMVFSLLNFSYEN
DNNAGGALSTNLSSVEDLTIPTRVVESLRIIGHCDGIVCLALIDYQQRLA
KPSQVCLWNPAIQQFKFLPEEPFLPDWSKVPHSRMVQEFAYLRPISLLNG
ETMGFGYDPKSKDYKVIDIGFSDSKFYGDPECYGGHVIVYPPKAVVYTLQ
TDSWREIKTFSLERETSYLWPDTFQLYLKGVCYWLGYEQQKEFLCLFQTH
QEEEERIARAIISFDTSDEVFHDIMLPHGLLEFYGFDNFLTLHLTEWNES
VALFSLLFEDEHKATMWVMDAKGAWTKQLTFEYVDYFPYSLPRKILAFWK
SNEIFGVGENGSIVCYNLNTKIVKHLPIRSVPDYFPPSRDTFYPFCCIAY
VNSVVPIMNHVREHI
>C14
MTLEFGKTIDEDVVEQILSTLPPKSLKRFQCVSNRWHALITTPRFVAKHL
SISRHNNLSTSVLMKRKVHEDTNSDETQEFFSFLHFRNDEDNDVDGVHDE
HSFLSSIQEFHIPFSTGVKTWAEALIIIGHCNGIICLAQAVSGEVIICNP
AIHEYKLLPPSPYLPDSDWPYSAIFRFRDGLGFGYDPNFNEYKIVNIGFP
APELSTPDGYNIYNPPKAAVYTLGTDAWRKIKTDTLETETTILWPQIFQM
HFKDMCFWLAPEQHKELDVLDEDEEQFIREVIVMFDTGDELFHNIMLPDE
FDYPSKNYFVPNLLVWKDSVALLGIQISQFSSYGIWVIDEFGGHNGGAWT
KHITFELPVEPLIFWKSDRVLLNDPNDTDYRGLILDYNLDTKKLKNLPVQ
SERSDSSAIVYVSSIVSVLGGSKPKNKDNSTPNVoooooooooooooooo
ooooooooooooooo
CLUSTAL FORMAT for T-COFFEE Version_10.00.r1613 [http://www.tcoffee.org] [MODE: ], CPU=0.00 sec, SCORE=99, Nseq=14, Len=587
C1 -----------M---------SEEIMVSILSILPPKSVMRFKCVRKSWYS
C2 -----------MAG--CKL--PRVMVVQILSRMPPKSLMRFKCVHKSWNS
C3 -----------MAEF-CKM--PEEMVVPILSRLLPKSLMRFKCIHKSWHS
C4 -----------MVEF-CKI--SEEIVMQILSRTPPKSLMRFKCIQKSWNS
C5 -----------MSEF-SKF--PEEMALHILSRMPPKSLMRFKCVRKSWYV
C6 -----------MANF-SKLYSSEDLVEQILSGLPPKSLMRFKCVCDLWCN
C7 -----------MAELICKM--PEEMTLQFLSRLPPKSLMRFKCIHKSWYA
C8 -----------MAEL-SKF--AEEIMVEIMSRLPPKSLMRFKCVRRSWNA
C9 -----------MENF-SKL--SEEMVVRILSRLPPKSLIRFRCVRKLWYN
C10 -----------MGKL-CKL--SEEMVGQFLSRLPPKALMRFKCIHKSWYN
C11 -----------MMQS-SKL--AEEIVVQFMSRLPPKALMRFKCIRKSWYN
C12 -----------MTEF-CKI--PEAMGLQILSRLPPKSLMRFKCVHKSWHT
C13 MALEKDSEIAELTESGKNI--AQDVVEQILSTLPPKSLMRFKCVSKWWYH
C14 ----------MTLEFGKTI--DEDVVEQILSTLPPKSLKRFQCVSNRWHA
. : ::* **:: **:*: *
C1 LINNSSFIAKHLSNTMCNK--HS---TSILCKSCVLRDINTDEK------
C2 LISSRHVVAKHLQ--FHNHLSSS---TTILLRRPVIWRTETKNE------
C3 LINSPQFISKHLH--FHNNLSSS---TTILLKRPVMRRTDTLNE------
C4 MINDPQFAAKHLH--FYNNP---SSSTAFLVKRPVILRSETSNE------
C5 LINNPSFVAKHLYNSLHNK--QS---TCIFCKRYVFRDIATKDV------
C6 LIKSPSFVAKHLSGSMR-A--SS---MPVLFKRPVPRDKENNIM---DEK
C7 LINNPKFIDKHLH--LYNK-DSY---TCFLLKRSVVARTQSIKE------
C8 LINNPNFAAKHLASSKRTLL--SSSSTTIIFRHFLIADLNPDEM------
C9 VINSPNFVAKNLTTSKHNKFSSS---TCILAKHTVLKDSNIKDRNEILEV
C10 LITSPSFIAKNLSNSKNNKFAST---TRILFKRTVLKDIKDKNE--IFYV
C11 LINSPSFVAQNLSYSMNNKFTSS---TCILSKHTVLKDGNITDRNEILDI
C12 LMKDPNFVAKHLSNSMHDNFCRT---TGVLFKRENFKDTGTAER------
C13 LITSPRFVAKHLSISKHNR--PS---TCALIKSLVSNDAEAQEP------
C14 LITTPRFVAKHLSISRHNN--LS---TSVLMKRKVHEDTNSDET------
::. . ::* : :
C1 ---------EVVCSLISLSSNSNND-----EHH-IHSAV-EDIHIPLSFG
C2 ---------EIVFSLLTLRNENNGD-----EDN-LDYDI-EDIHFPPSIG
C3 ---------KIVCSFLNLHNANDGD-----EDN-LHYDI-KDLEFQPSMG
C4 ---------NVVLSYLRLETYTNGD-----DED-LHFVV-EDIICPPFKG
C5 ---------ESVVSLITFSDDDVGDTN---HEHISHSVI-QDIDLPLSMS
C6 GVENDDDDVGTLLWSLNLCNEDDND-------YLLSTVL-EELNVPLPAP
C7 ---------EILFSFLYVPNDNDDE-----DSH-PHCVV-EDIYFPTAMG
C8 ---------EMILSLYNFCNDFDG------------CFL-EDIHFPHSMG
C9 LRDNSIETKKILLSLCNLCNDNDGD-----DPN-LNYVV-DDFTVPLPLG
C10 LRDNNNDRRYIFLSLLDLCNDNDGD-----DQN-LHSVV-DDLIVPLPFS
C11 LTYGNNDKQQILLSLLNLCNDHNGD-----DQE-LFSVIKDNFIVPFPFD
C12 -------QSESLLSLINFCNANGDG-----EHD-IHCLV-EDVTKGQFSG
C13 ---------EMVFSLLNFSYENDNNAGGALSTN-LSSV--EDLTIPTRVV
C14 ---------QEFFSFLHFRNDEDNDVDGVHDEHSFLSSI-QEFHIPFSTG
. . . .:.
C1 VTTRGQFKGDEVL---LAVSIIGHCDGIICLV-AS---------LNIVLW
C2 LKTRAQFIENPGP-TYECADIVGHCGGIICLS-LY-------AAGDLVLY
C3 LNTRGQFIEIPNEYYYNCAYIIGQCDGIFCLT-LY-------AAKDLVLY
C4 LKARGQFIELPRR--DDSVYIISHCDGIIFLTL---------YTGDLFLY
C5 GIPKNHLNEPELL---GAVYITGHCDGIICLV-H----------GEIVLW
C6 LKLKHS----------SDLTIAGHCDGIICLKL---------FTGNVILC
C7 LKTKGHNIELPGSYGGETIYILGHCDGIICLVYHS---------GGLVFY
C8 LECRRKFHEPG-----STFGISCYCDGIICLADYG-------QKPNIVLC
C9 LLP-------------FSLEIAGHCDGIICLN-NS-------FLDDIVLC
C10 ICP-------------FSLQIAGHCDGLICLV-NI-------VNEEVALC
C11 KCS-------------LSLKIAGHCDGIICLV-NV---------EDVALC
C12 FEVL------------ESAWIIGHCHGIICLR-NA---------TKIILW
C13 ----------------ESLRIIGHCDGIVCLAL-IDYQQRLAKPSQVCLW
C14 VKTWA-----------EALIIIGHCNGIICLAQ--------AVSGEVIIC
* * *:. * : :
C1 NPAIKEFKILPN-QCL-------------------PNGTL---------N
C2 NPAIKEFKVIPE-PCLPRPRQFY------------FRCDA----------
C3 NPAIKEFKFLPE-SCL-------------------QDKNI---------G
C4 NPAIKEFKIILA-SCC-------------------HDCCW---------S
C5 NPAIKQFKILPK-PLL-------------------TNGIV---------N
C6 NPAMKEFKLLPK-SFLLLCNDDFDDLWS-------LSYELRYYT-----E
C7 NPSIREFKIIPP-SCL-------------------TESF----------S
C8 NPAIKEFKLLSE-SQLALSSPT-------------FRKT----------A
C9 NPATKESKLLPK-SCLLLPPRHPNDYDE-------IESDV---------N
C10 NPAIKEFKFLPR-SSLLLPRRHPEDDDG-------IESDV---------N
C11 NPSIKEFNHLPK-SCLLLPPKNWDDYENEDDYYEALESES---------N
C12 NPAIREVKV-TS-PYV-------------------PDENL---------S
C13 NPAIQQFKFLPEEPFLPDWSKVPHSRMVQEFAYLRPISLLNG-------E
C14 NPAIHEYKLLPPSPYL-------------------PDSDWPYSAIFRFRD
**: :: :
C1 SMA-FGYDPKSKDYKFLNIVDPSE-ETLGE----HRIVYDFP-RIEVYTL
C2 ----FGYDPKSEDYILVNVASYGE-NRYDD-----DRLVIEPLRAEMYTL
C3 SVG-FGYDPKSEDYILVSVVSYGHGEQYYN----DDRLVIDPMRAEVYTM
C4 TVG-FGYDLKCKDYIILEIACYGE-TNYND----PQRLVVDPPIAAVYTL
C5 SIG-FGYDARSKDYKVFSFPTHDE-DRSSE------RDFNYPPHVEVYSL
C6 QLG-FGYDPEGKDYKVLRFVIYDE-SCYWF-------------KAEVYTM
C7 CVGGFGYDPKCKDYKVVNIVPSGE-DSYDH----NQRLVIYPPRAEVYTL
C8 AVG-FGCDLMLKNYKVVRLINSGW--RYRD----DQDTVIPHLYAEVYNL
C9 AVG-FGYDSKAQEYKVVRIVS------FIT----G-VHKPLPSKAEVYTI
C10 AVG-FGYDSKTQDYKIVRVIT------YIT----G-IAYTLPSKAEVYTL
C11 AVG-FGYDSKANVYKVVRIVQ------FTS----GYVFTSHPSRVEVYTL
C12 DLG-IGYDPKSDTYKVVHISYGTQ-EEYGD----GHILIDRP-KTEVYTL
C13 TMG-FGYDPKSKDYKVIDIGFSDS-KFYGDPECYGGHVIVYPPKAVVYTL
C14 GLG-FGYDPNFNEYKIVNIGFPAP-ELSTP----DGYNIYNPPKAAVYTL
:* * . * .. . :*.:
C1 STDSWREMKTYSLETETTMFLCFTK-----LYFNGFCYWIGCEKQKDFMD
C2 GTNSWREINIHNLETETTMFRPNHFQ----VYFKGNCYGLAEEIKKEFIS
C3 STDCWREIKIHNLETETTFFWPRHFQ----VYFKGNCYWLAHEKRKEFIT
C4 GIDSWREIKTDHLQTEDTYFWPTAFD----LYSKGIFYLFGYEEKKEFLD
C5 STDLWTEINADHLETETTNLYPEFFQ----MYFKGIWYWTGSEQQKEFMV
C6 DSNSWREIKTEYNNIIQFVNWSSDQP----IYFNGICYWQVSGSRGEF--
C7 STDSWRQIKIDYLETETTSFWPDIYQ----MCYKGVFYWLGHEQDKEYLC
C8 RTDSWKEIKIDGLLKENKIVVPDSNAQTKGLCSKGILYWCAMEEEKVLEV
C9 GTNSWREIKDQ-T--ESHVFWAASFK----LFLKGFYFWWA---------
C10 SSHSWREIKID-K--ECHVFWTPSFE----IHFRGIYYWSA---------
C11 GANCWREIKADVL--VSTVCWSPSFE----MYFKGIYYWDA---------
C12 GTDSWRQIMTGCLETETTHFWFQDFH----MYFNGFCYWNGREQLKEYQN
C13 QTDSWREIKTFSLERETSYLWPDTFQ----LYLKGVCYWLGYEQQKEFLC
C14 GTDAWRKIKTDTLETETTILWPQIFQ----MHFKDMCFWLAPEQHKE-LD
. * :: : .. :
C1 YFDRDDEEW---VRQVIHSFDMSTEVFDHILLPNSLYLYEPLALYFNMHV
C2 SFDSLEEYY---IREVIVWFNTSDRVFHSALTPDCLY----RYPAHDFNL
C3 LYDRLEEYY---IWEAIVCFDTANRIFHNILVPDCLY----EFPMHDLDL
C4 DMERCEETN----KQVMILYDTRDELFHIAMLPDSFN--EPACGVHDIHV
C5 VYDSMDEEW---VRQLIIVFDMNDEVFEDILFPYSLY--GPMIPYLEMRV
C6 ----------------ILSFDMGNELFHEILNPDL----PDKCGVV--RL
C7 YYDRLSSPS---IRDVILLYDTGEEVFRTRLLPDSFK--DLGLHALSMSL
C8 TCDGDDEQKEIDMHACIISFNVGDESFHVINIGSY----DDHCCLIDGVL
C9 --SICPPEQ-----EIILSFDMNEELFHDIYIPESV---RHDIVRCNRGL
C10 -LTYPTPGA---DKEAIFAFDMSEETFEEIPIPDGICA-RDGIIKF---L
C11 -YSYLTPRQ---YKDGILAFDMSDELFYLIYHPETTR-------EFNKSL
C12 FYDLQEEHH---IRPVIISFDMGDEVFHNMLLPDFVY--ETYMWSYVLRL
C13 LFQTHQEEEE-RIARAIISFDTSDEVFHDIMLPHGLLEFYGFDNFLTLHL
C14 VLDEDEEQF---IREVIVMFDTGDELFHNIMLPDEFD--YPSKNYFVPNL
: :: . * :
C1 ILWNESIALFGLYHWRSooooooooo-oooooooo-oooooooooooooo
C2 TVWNNCVALFGYNRCGS--KPFEIWV-MGESDGFT-CSWIKHLSV--DIT
C3 AVWHDSIALFGFYRGGS--RPFEIWV-MDNFDGLN-SSWVKQLSV--DIA
C4 ALLNKSIALYGFSIFES-IHSIQIWV-TDDIRGAQEYSWTKYLSL-NPVD
C5 IVWNESVALFGQYRFGYADDAFGLWV-MDDI--VK-GSWTKQLTL-EVVV
C6 AVWKEFISLFTYQEEIVVPPSYDMWVMMDDLGDGK-GSWTKYFTI-GPVE
C7 TMWNGSIALFGFSYWGPDIESFKIWM-MDDF-----GSWTKHLTY-ETIM
C8 GLWKESIAL-CVRGW----TTLDIWV-MDDFGGGK-GSWTKYLAI-EPVV
C9 AVWKESIALLAY-GGDSGAQSFDIWV-IDDFGVFK-SSWIKYLTI-GPLE
C10 AVWKESVALISCIGDGP--KSFDIWV-MDDSSGIK-GSWTKHLVI-GPIE
C11 AVWKESIALITYEGDAP--KCFDLWL-NEDSSCFK-GLWTKYFTI-GPVE
C12 MAWNESVAIFGLDHGITSHESWGLWV-MDDFGGVT-GSWIKQFSFVSAVG
C13 TEWNESVALFSLLFEDE--HKATMWV-MDAK-----GAWTKQLTF-EYVD
C14 LVWKDSVALLGIQISQF--SSYGIWV-IDEFGGHNGGAWTKHITFELPVE
: :::
C1 oooooo-----ooooooo--ooooooo-----oooooooooooooooooo
C2 ESPQPL-----VLWESNQ--SLLVSPR-----IRVALYSFATKTFKYLPL
C3 KSPIPL-----ALWERNK--ILLVFTH-----TQIALYSFVTETYQYLPL
C4 NVRRSL-----AFWKIDE--VLMIAKD-----GRVVLCNLLTGKLKYFPI
C5 GTRMTL-----EMWKSDE--ILMVAND-----NRIFSYNIRTEEIKYLPI
C6 GDKWPL-----LFWKGDQ--LLMESND-----GQIVLYNIGTQILKYLPI
C7 GIYLSL-----VLWRSDD--VLMVAND-----GRIVSYSLSRDRVKYFPI
C8 KITSQFA----LFGKSDEQFVLVACDD-----SVVIFYDICTNKFNYLPL
C9 GISIPL-----IFWKSNE--FLMAATD-----GRLVSYNLSTQMFKYLPI
C10 -CEIPL-----VFWKSDE--LLLVISD-----GRVVSYHLGNKTIKYLPI
C11 -VEIPL-----VFWKSNE--ILMVNAD-----KHIVSYNLDTQTLKCLPM
C12 FLDTPL-----QIWKSDE--ILIVSKE-----RRVVSYNLDTEQYKYLPI
C13 YFPYSLPRKILAFWKSNE--IFGVGEN-----GSIVCYNLNTKIVKHLPI
C14 ----PL-----IFWKSDR--VLLNDPNDTDYRGLILDYNLDTKKLKNLPV
C1 ooooooooooooooo--ooooooooooooooooooooooooooooooooo
C2 CA---AEHFDAIPFV--NSIVPLNRDLVSVNISooooooooooooooooo
C3 YG---ASFFRL--FL--MWIVooooooooooooooooooooooooooooo
C4 HGLHLGDDIQGIVCV--DSIVPLNGRELSRHooooooooooooooooooo
C5 EST-HPTFSAAIVCI--NSIVPVIHGRQQAoooooooooooooooooooo
C6 HFIRDLYYSQELVYV--NSIVSINGGNVLEDIHISAFYGNGKFYSINKGD
C7 QG--VWGTYQAFVCVNSNSIVSVKGGNKVESRDIQTSNVLLooooooooo
C8 NGV-LLHHTQVVEYA--SSIVSVKECNKLDMEAooooooooooooooooo
C9 HGVEDPPYIQAVVYV--NSIVSVHASNKLEGINNSSoooooooooooooo
C10 HGVEDPQYIHAVVCV--NSMISVKKTKGoooooooooooooooooooooo
C11 HGVEDPEYIYAIIYV--SSIISVNRDNKLECTTTSIoooooooooooooo
C12 HSM-DSDYFEAVVYM--NSIVSVNGSKToooooooooooooooooooooo
C13 RS--VPDYF-------------------PPSRDTFYPFCCIAYVNSVVPI
C14 QS--ERSDSSAIVYV--SSIVSVLGGSKPKNKDNSTPNVooooooooooo
C1 ooooooooooooooooooooooooooooooooooo--
C2 ooooooooooooooooooooooooooooooooo----
C3 oooooooooooooooooooooooooooooooooo---
C4 ooooooooooooooooooooooooooooo--------
C5 ooooooooooooooooooooooooooooooooo----
C6 VIDISAFYGITSooooooooooooooooooooooo--
C7 oooooooooooooooooooooooooooooo-------
C8 oooooooooooooooooooooooooo-----------
C9 ooooooooooooooooooooooooooooooooo----
C10 ooooooooooooooooooooooooooooooooooo--
C11 oooooooooooooooooooooooooooo---------
C12 ooooooooooooooooooooooooooooooooooooo
C13 MNHVREHI-----------------------------
C14 oooooooooooooooooooo-----------------
PROGRAM: T-COFFEE Version_10.00.r1613 (2013-10-22 15:49:09 - Revision 1613 - Build 432)
-full_log S [0]
-genepred_score S [0] nsd
-run_name S [0]
-mem_mode S [0] mem
-extend D [1] 1
-extend_mode S [0] very_fast_triplet
-max_n_pair D [0] 10
-seq_name_for_quadruplet S [0] all
-compact S [0] default
-clean S [0] no
-do_self FL [0] 0
-do_normalise D [0] 1000
-template_file S [0]
-setenv S [0] 0
-template_mode S [0]
-flip D [0] 0
-remove_template_file D [0] 0
-profile_template_file S [0]
-in S [0]
-seq S [0]
-aln S [0]
-method_limits S [0]
-method S [0]
-lib S [0]
-profile S [0]
-profile1 S [0]
-profile2 S [0]
-pdb S [0]
-relax_lib D [0] 1
-filter_lib D [0] 0
-shrink_lib D [0] 0
-out_lib W_F [0] no
-out_lib_mode S [0] primary
-lib_only D [0] 0
-outseqweight W_F [0] no
-dpa FL [0] 0
-seq_source S [0] ANY
-cosmetic_penalty D [0] 0
-gapopen D [0] 0
-gapext D [0] 0
-fgapopen D [0] 0
-fgapext D [0] 0
-nomatch D [0] 0
-newtree W_F [0] default
-tree W_F [0] NO
-usetree R_F [0]
-tree_mode S [0] nj
-distance_matrix_mode S [0] ktup
-distance_matrix_sim_mode S [0] idmat_sim1
-quicktree FL [0] 0
-outfile W_F [0] default
-maximise FL [1] 1
-output S [1] score_ascii html score_ascii
-len D [0] 0
-infile R_F [1] input.prot.fasta.muscle_rs_0_0.fasta.aln
-matrix S [0] default
-tg_mode D [0] 1
-profile_mode S [0] cw_profile_profile
-profile_comparison S [0] profile
-dp_mode S [0] linked_pair_wise
-ktuple D [0] 1
-ndiag D [0] 0
-diag_threshold D [0] 0
-diag_mode D [0] 0
-sim_matrix S [0] vasiliky
-transform S [0]
-extend_seq FL [0] 0
-outorder S [0] input
-inorder S [0] aligned
-seqnos S [0] off
-case S [0] keep
-cpu D [0] 0
-maxnseq D [0] 1000
-maxlen D [0] -1
-sample_dp D [0] 0
-weight S [0] default
-seq_weight S [0] no
-align FL [1] 1
-mocca FL [0] 0
-domain FL [0] 0
-start D [0] 0
-len D [0] 0
-scale D [0] 0
-mocca_interactive FL [0] 0
-method_evaluate_mode S [0] default
-evaluate_mode S [1] t_coffee_fast
-get_type FL [0] 0
-clean_aln D [0] 0
-clean_threshold D [1] 1
-clean_iteration D [1] 1
-clean_evaluate_mode S [0] t_coffee_fast
-extend_matrix FL [0] 0
-prot_min_sim D [40] 40
-prot_max_sim D [90] 90
-prot_min_cov D [40] 40
-pdb_type S [0] d
-pdb_min_sim D [35] 35
-pdb_max_sim D [100] 100
-pdb_min_cov D [50] 50
-pdb_blast_server W_F [0] EBI
-blast W_F [0]
-blast_server W_F [0] EBI
-pdb_db W_F [0] pdb
-protein_db W_F [0] uniprot
-method_log W_F [0] no
-struc_to_use S [0]
-cache W_F [0] use
-align_pdb_param_file W_F [0] no
-align_pdb_hasch_mode W_F [0] hasch_ca_trace_bubble
-external_aligner S [0] NO
-msa_mode S [0] tree
-master S [0] no
-blast_nseq D [0] 0
-lalign_n_top D [0] 10
-iterate D [1] 0
-trim D [0] 0
-split D [0] 0
-trimfile S [0] default
-split D [0] 0
-split_nseq_thres D [0] 0
-split_score_thres D [0] 0
-check_pdb_status D [0] 0
-clean_seq_name D [0] 0
-seq_to_keep S [0]
-dpa_master_aln S [0]
-dpa_maxnseq D [0] 0
-dpa_min_score1 D [0]
-dpa_min_score2 D [0]
-dpa_keep_tmpfile FL [0] 0
-dpa_debug D [0] 0
-multi_core S [0] templates_jobs_relax_msa_evaluate
-n_core D [0] 0
-max_n_proc D [0] 0
-lib_list S [0]
-prune_lib_mode S [0] 5
-tip S [0] none
-rna_lib S [0]
-no_warning D [0] 0
-run_local_script D [0] 0
-plugins S [0] default
-proxy S [0] unset
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries S [0]
-dump S [0] no
-display D [0] 100
INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 14 SEQUENCES [PROTEIN]
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C1 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C10 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C11 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C12 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C13 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C14 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C2 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C3 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C4 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C5 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C6 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C7 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C8 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C9 Length 465 type PROTEIN Struct Unchecked
Multi Core Mode: 72 processors:
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries S [0]
-dump S [0] no
-display D [0] 100
INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 14 SEQUENCES [PROTEIN]
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C1 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C10 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C11 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C12 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C13 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C14 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C2 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C3 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C4 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C5 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C6 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C7 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C8 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C9 Length 465 type PROTEIN Struct Unchecked
Multi Core Mode: 72 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries S [0]
-dump S [0] no
-display D [0] 100
INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 14 SEQUENCES [PROTEIN]
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C1 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C10 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C11 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C12 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C13 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C14 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C2 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C3 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C4 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C5 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C6 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C7 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C8 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C9 Length 465 type PROTEIN Struct Unchecked
Multi Core Mode: 72 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries S [0]
-dump S [0] no
-display D [0] 100
INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 14 SEQUENCES [PROTEIN]
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C1 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C10 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C11 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C12 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C13 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C14 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C2 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C3 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C4 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C5 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C6 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C7 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C8 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C9 Length 465 type PROTEIN Struct Unchecked
Multi Core Mode: 72 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries S [0]
-dump S [0] no
-display D [0] 100
INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 14 SEQUENCES [PROTEIN]
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C1 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C10 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C11 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C12 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C13 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C14 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C2 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C3 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C4 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C5 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C6 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C7 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C8 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C9 Length 465 type PROTEIN Struct Unchecked
Multi Core Mode: 72 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries S [0]
-dump S [0] no
-display D [0] 100
INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 14 SEQUENCES [PROTEIN]
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C1 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C10 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C11 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C12 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C13 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C14 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C2 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C3 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C4 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C5 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C6 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C7 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C8 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C9 Length 465 type PROTEIN Struct Unchecked
Multi Core Mode: 72 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries S [0]
-dump S [0] no
-display D [0] 100
INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 14 SEQUENCES [PROTEIN]
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C1 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C10 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C11 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C12 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C13 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C14 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C2 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C3 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C4 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C5 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C6 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C7 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C8 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C9 Length 465 type PROTEIN Struct Unchecked
Multi Core Mode: 72 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries S [0]
-dump S [0] no
-display D [0] 100
INPUT FILES
Input File (S) input.prot.fasta.muscle_rs_0_0.fasta.aln Format clustal_aln
Input File (M) proba_pair
Identify Master Sequences [no]:
Master Sequences Identified
INPUT SEQUENCES: 14 SEQUENCES [PROTEIN]
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C1 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C10 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C11 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C12 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C13 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C14 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C2 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C3 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C4 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C5 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C6 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C7 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C8 Length 465 type PROTEIN Struct Unchecked
Input File input.prot.fasta.muscle_rs_0_0.fasta.aln Seq C9 Length 465 type PROTEIN Struct Unchecked
Multi Core Mode: 72 processors:
--- Process Method/Library/Aln Sinput.prot.fasta.muscle_rs_0_0.fasta.aln
-email S [0]
-clean_overaln D [0] 0
-overaln_param S [0]
-overaln_mode S [0]
-overaln_model S [0]
-overaln_threshold D [0] 0
-overaln_target D [0] 0
-overaln_P1 D [0] 0
-overaln_P2 D [0] 0
-overaln_P3 D [0] 0
-overaln_P4 D [0] 0
-exon_boundaries 