SRP RNA alignment (SRPDB, February 29, 2000)

-Bacte.AQU.AEO.
TRE.PAL.
THE.MAR.
CLA.PNE.
CLA.TRA.
PRO.SPE.
SYN.SPE.
TRE.PAL.
BOR.BUR.
ZYM.MOB.
CAU.CRE.
LEG.PNE.
PSE.AER.
NEI.GON.
NEI.MEN.
HEL.PY-A
HEL.PY-B
ESC.COL.
YER.PES.
HAE.DUC.
HAE.INF.
RIC.PRO.
STR.COE.
MIC.LUT.
MYC.GEN.
MYC.PNE.
URE.URE.
MYC.CAP.
MYC.MYC.
MYC.TUB.
MYC.LEP.
LIS.MON.
BAC.SUB.
BAC.POL.
BAC.AMY.
BAC.STE.
BAC.CIR.
BAC.SPH.
BAC.CER.
BAC.THU.
BAC.MEG.
BAC.PUM.
BAC.BRE.
BRE.BRE.
BAC.ALC.
BAC.MAC.
STR.MUT.
CLO.PER.
Archaea
MET.JAN.
MET.VOL.
MET.FER.
MET.THE.
MET.ACE.
HAL.HAL.
ARC.FUL.
PYR.ABY.
PYR.HOR.
THE.CEL.
PYR.OCC.
AER.PER.
SUL.SO-A
SUL.SO-B

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----+---------+---------+---------+---------+---------+---------+---------+--------1111111-----22---333----->>>>>---333------4444------<<<<<------------4444-22
-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ug-gGUugaUGAgc--gUGAAGccuUCGcucgguuGGau-uuuuCUUCAuugcuacucuuggCUu-GC
--nuUGCCGUGcua-aGCg-gGGagg--uAGCGG-ugcCCugua--CCUGc-a-auCCGCUcu-ag-------CAGG-GC
--uuUGCCGUGcua-aGCgggGGagg--uAGCGG-ugcCCugua--CCUGc-a-auCCGCUcu-ag-------CAGG-GC
--uuUGCCGUGcua-aGCg-gGGagg--uAGCGG-ugcCCugua--CCUGc-a-auCCGCUcu-ag-------CAGG-GC
-----nCCGUGcua-aGCg-gGGagg--uAGCGG-ugcCCugua--CUCGc-a-auCCGCUcu-ag-------CGAG-GC
--uuUGCCGUGcua-aGCgggGGagg--uAGCGG-ugcCCugua--CUCGc-a-auCCGCUcu-ag-------CGAG-GC
--uuUGCCGUGcua-aGCg-gGGagg--uAGCGG-ugcCCugua--CCUGc-a-auCCGCUcu-ag-------CAGG-GC
--uuUGCCGUGcua-aGCgggGGagg--uAGCGG-ugcCCuaua--CUcGc-a-auCCGCUcu-ag-------C-AG-GC
--uuUGCCGUGcua-aGCg-gGGagg--uAGCGG-ugcCCuaua--CUcGc-a-auCCGCUcu-ag-------C-AG-GC
--uuUGCCGUGcua-aGCg-gGGagg--uAGCGG-ugcCCugua--CUcGc-a-auCCGCUcu-ag-------C-AG-GC
--uuUGCCGUGcua-aGCg-gGGagg--uAGCGG-ugcCCugua--CUcGc-a-auCCGCUcu-ag-------C-AG-GC
--ucUACCGUGcua-gACg-gGGagg--uaGCGG-ugcCCuguaa-CcuGc-a-auCCGCaau-agc------CcaG-GU
----UACCGUGcua-gACg-gGGagg--uUGCGG-ugcCCuguaa-CcuGc-a-auCCGCAau-ag-------CcaGgGU
--uuUGCCGUGcua-aGcg-gGGagg--uAGCGG-ugcCCugua--CUcGc-a-auCCGCUau-ag-------CaGG-cU
--uuUGCCGUGcua-aGCaggcGagg--uAGCGG-ugcCccaua--CCcgc-a-auCCGCUcu-ag-------gaGG-GC
------------------------------------------------------------------------------------GCCGUGcua-gAUg-gGGag--uuAGCGG-ugcCCuguaa-CCUGc-a-auCCGCUac-ag-------CAGG-AU
11111111111-----222--33333--->>>>>-33333------4444------<<<<<------------4444222
GGUGUGCAUGGcua-gGCC-gGGGGG-uuGGGCG-UCCCCuguaa-CCCGa-a-auCGCCCuuaug-------CGGGGGC
--------UGGcua-gGCU-gGGAGG-uuAGGCG-UCUCCuguaa-CUUGa-a-auCGCCU-u-ug-------CGAGAGC
--------AGGcua-gGCC-gGGGGG-uuAGGGG-UCCCCuguaa-GCGCa-a-auCCCCUauaug-------GCGCGGC
-------UGGGcua-gACC-gGAGGG-uuAGGGG-UCCUCuguaa-GCGCa-a-auCCCCUauacg-------GCGCGGU
----UGAUGAGcua-gUCC-gGGUAG-ccCGGCG-UUACCuguaa-CCCGa-a-auCGCCGauaug-------CGGGGGA
--------GGAcua-gGCC-gGGCGG-uuUGGCU-CCGCCcgaca-CCCGugagacAGUCAuc-ag-------CGGGGGC
-----GGUGGGcua-gGCC-gGGGGG-uuCGGCG-UCCCCuguaa-CCCGa-a-acCGCCGauacg-------CGGGGGC
--------------------------------CG-uccccuguaa-CCGGa-a-acCGccgauaug-------CCGGggc
--GGCGGCGGGcua-gGCC-gGGGGG-uuCGGCG-UCCCCuguaa-CCGGa-a-acCGCCGauaug-------CCGGGGC
--GGCGGCGGGcua-gGCC-gGGGGG-uuCGGCG-UCCCCuguaa-CCGGa-a-acCGUCGauacg-------CCGGGGC
--------CGGguaggGCC--GGGGG-cuCGCCC-UCCCCcgagc-CCCGa-a-auGGGCGuaaug-------CGGGGGC
CGCCCCCAGCCau--gGGg---------gCCCCG------aaggc-gCcac-g---CGGGGgccag-------aaGaaCC
---AUGGUCAGguaggGUG-gAGGGU-cuCGCCA-GCCCUuaua--CCCAc-a---UGGCGcaacg-------UGGGCAC
---GGGGUCAGggaggGUG-gGGGau-cuCGCCaaucCCUauua--CCCGc-a-a--GGCGuaaug-------CGGGCAC

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----+---------+---------+---------+---------+---------+---------+---------+----Eukaryot. ----------------222--33333---------33333------4444-----------------------4444222
ZEA.MA-A ----------------nCC-gAGCUC-uguagcgaGAGCUuguaa-CCCG--------------ag-------CGGGGGc
ZEA.MA-B ----------------nCC-gAGCUC-uguagcgaGAGCUuguaa-CCCG--------------ag-------CGGGGGc
ZEA.MA-C ----------------nCC-gAGCUC-uguagcgaGAGCUuguaa-CCCG--------------ag-------CGGGGGc
ZEA.MA-D ----------------nCC-gAGCUC-uguagcgaGAGCUuguaa-CCCG--------------ag-------CGGGGGc
ZEA.MA-E ----------------nCC-gAGCUC-uguagcgaGAGCUuguaa-CCCG--------------ag-------CGGGGGc
ZEA.MA-F ----------------nCC-gAGCUC-uguagcgaGAGCUuguaa-CCUa--------------ag-------cGGGGGc
ZEA.MA-G ----------------nCC-gAGCUC-uguagcgaGAGCUuguaa-CCCG--------------ag-------CGGGGGc
ZEA.MA-H ----------------nCC-gAGCuC-uguagcgaGuGCUuguaa-CCCG--------------ag-------CGGGGGc
ORY.SAT. ----------------GCC-gcgaaU-uc--gcg-Gcg---------CCG--------------ag-------CGGgGGC
TRI.AE-A ----------------nCC-gAGCUC-aguugcgaGAGCUuguaa-CCCG--------------ag-------UGGGGGc
TRI.AE-B ----------------nCC-gAGCU--aguugcgggAGCUuguca-CCCA--------------ug-------UGGGGGc
TRI.AE-C -------------------------------------------------------------------------------ARA.TH-A ----------------GUC-gAGCUA-aguaacaaUAGCUuguaa-CCCA--------------ug-------UGGGGAC
ARA.TH-B ----------------GUC-gAGCUa-aguaacaugAGCUuguaa-CCCA--------------ug-------UGGGGAC
HUM.JA-A ---------------------GGCCU-agcaacguGGGCCuguaa-CCCA--------------ag-------UGGGggc
HUM.JA-B ---------------------GGCCU-agcaacguGGGCCuguaa-CCCA--------------ag-------UGGGggc
HUM.LU-A ----------------GCC--GGUCUuagcaacguGGGCCuguaa-CCCA--------------ag-------UGGGGGC
HUM.LU-B ---------------------GGCCUuagcaacguGGGCCuguaa-CCCA--------------ag-------UGGGggc
HUM.LU-C ---------------------GGuCUuagcaacuuGGuCCuguaa-CCCA--------------ag-------UGGGggc
HUM.LU-D ----------------GaC-gGGCUU-agcaacguGGGCCuguaa-CCCA--------------ag-------UGGGGgC
LYC.ES-A ----------------GgC-gAGCUU-aguaacguGGGCUuguaa-UCCA--------------ag-------UGGAGaC
LYC.ES-B ----------------GUC-gAGCUU-aguaauguGGGCUuguaa-CCCA--------------aa-------UGGGGGC
LYC.ES-C ----------------GCC-gAGCUC-aguagcguGGGCUuguaa-CUCA--------------ag-------UGAGGGC
LYC.ES-D -------------------------------------------------------------------------------LYC.ES-E ----------------GUC-gAGCUU-aguaacguGGGCUuguaa-CCCA--------------ag-------UGGGGAU
LYC.ES-F ----------------GCC-gAGCUU-uguaacguGGGCUuguaa-CCCG--------------ag-------UGGGGGC
LYC.ES-G ----------------GCC-gAGCUU-aguaauguGGGCUuguaa-CCCA--------------aa-------UGGGGGC
LYC.ES-H ----------------GUU-gAGCUU-aguaacguGGGCUuguaa-UCCA--------------ag-------UGGAGAC
LYC.ES-I ----------------GCC-gAGCUU-aguaauguGGGCUuguaa-CCCA--------------aa-------UGGGGGC
LYC.ES-J ----------------GUC-gAGCUU-aguaacguGGGCUuguaa-UCCA--------------ag-------UGGAGAC
LYC.ES-K ----------------GUU-gAGCUU-aguaacguGGGCUuguaa-UCCA--------------ag-------UGGAGAC
LYC.ES-L -------------------------------------------------------------------------------LYC.ES-M ------------------------------------------------CA--------------ag-------UGGGgau
LYC.ES-N ----------------GUU-gAGCUU-aguaacguGGGCUuguaa-CCCA--------------ag-------UGGGGAU
LYC.ES-O ----------------GcC-gAGCUU-aguaacguGGGCUuguaa-CCCA--------------ag-------UGGGGaU
CIN.HYB. ----------------ACC-gGGCUu-gguaacgcuAGUCuauaa-CUCA--------------ag-------UGAGGGU
PER.AME. ----------------------GaUC-cguaacgcGAgCuuauaa-CUCG--------------ag-------CGGGggc
COL.BLU. -----------------CC-gaaCCu-cauuaccuuGGccuguuacCCCA--------------agu------UGGGGGu
CRY.MOR. -------------------------------------------------------------------------------GYN.AUR. ----------------ACC-gGGCuu-ggcaacgcuuGCCuauaa-CUCA--------------ag-------UGAGGGU
BEN.HIS. ----------------GCC-gAGCUC-agcaguguGAGCUugcaa-YUCG--------------aa-------CGGGGGC
YAR.LI-A ----------------CUU-----------agc-------uguaa-UGGCa-----------uuu-------uGUCGGAG
YAR.LI-B ------------------------------agc-------uguaa-UGGCa-----------uuu-------uGUCGgag
SCH.POM. ---------------cGC----------------------uguaa-----------------ug--------------GC
TET.THE. ----------------GCCagGGUAg----ca---aUACCugugu--------------cuauaugu----------GGC
TET.ROS. ----------------GCCagGGUAg----ca---aUGCCuguga--------------ccucgugu----------GGC
TRY.BR-A ----------------AGCcgGAGCG----cau--UGCUCuguaa-CCU------------ucg----------GGGGCU
TRY.BR-B ----------------AGCcgGAGCG----cau--UGCUCuguaa-CCU------------ucg----------GGGGCU
LEP.COL. ----------------AGCcgGAGC-----c-u--uGCUCuguaa-CCU------------ucg----------GGGGCU
DRO.MEL. ----------------GACugGAAG--guuggcag-CUUCuguaa--UCA---------cgcuucug------UGAgGUC
CAE.EL-A ----------------ACC-gAGCGU-cguggcggGCGCUuguga-GUCA----------gcuucu-------UGACGGU
CAE.EL-B ----------------ACC-gAGCGU-cguggcggGCGCUuguga-GUCA----------gcuucu-------UGACGGU
CAE.EL-C ----------------ACC-gAGCGU-cguggcggGCGCUuguga-GUCA----------gcuucu-------UGACGGU
CAE.EL-D ----------------ACC-gAGCGU-cguggcggGCGCUuguga-GUCA----------gcuucu-------UGACGGU
FUG.RUB. ----------------GCC-gGGUAC-gguggcgcGUGCCuguaa-UCCaa---------gcuacu-------gGGAGGC
XEN.LAE. ----------------GCC-gGGCGC-uguggcguGUGCCuguaa-UCCA----------gcuacu-------UGGAGGC
RAT.RAT. ----------------GCC-gGGCGc-gguggcgcaCGCCuguag-UCCC---------agcuacuc------GGGAGGC
MUS.MU-A ----------------GCC---------------------uguag-UUCC---------agcuacuc------GGGAGGC
MUS.MU-B --------------gaGCC-gGGUGU-gguggcgcACACCuuuaa-UCCC---------agc-acuc------GGGAGGC
CAN.SPE. ----------------GCC-gGGCGC-gguggcgcGCGCCuguag-UCCC---------agcuacuc------GGGAGGC
HOM.SA-A ----------------GCC-gGGCGC-gguggcgcGUGCCuguag-UCCC---------agcuacuc------GGGAGGC
HOM.SA-B ----------------GCC-gGGCGC-gguggcgcGUGCCuguag-UCCC---------agcuacuc------GGGAGGC
HOM.SA-C ----------------GUC-aGGCAU-aguggugcAUGCCugugg-UCCu---------ggcuacuc------cGGAGGC

-Bacte.AQU.AEO.
TRE.PAL.
THE.MAR.
CLA.PNE.
CLA.TRA.
PRO.SPE.
SYN.SPE.
TRE.PAL.
BOR.BUR.
ZYM.MOB.
CAU.CRE.
LEG.PNE.
PSE.AER.
NEI.GON.
NEI.MEN.
HEL.PY-A
HEL.PY-B
ESC.COL.
YER.PES.
HAE.DUC.
HAE.INF.
RIC.PRO.
STR.COE.
MIC.LUT.
MYC.GEN.
MYC.PNE.
URE.URE.
MYC.CAP.
MYC.MYC.
MYC.TUB.
MYC.LEP.
LIS.MON.
BAC.SUB.
BAC.POL.
BAC.AMY.
BAC.STE.
BAC.CIR.
BAC.SPH.
BAC.CER.
BAC.THU.
BAC.MEG.
BAC.PUM.
BAC.BRE.
BRE.BRE.
BAC.ALC.
BAC.MAC.
STR.MUT.
CLO.PER.
Archaea
MET.JAN.
MET.VOL.
MET.FER.
MET.THE.
MET.ACE.
HAL.HAL.
ARC.FUL.
PYR.ABY.
PYR.HOR.
THE.CEL.
PYR.OCC.
AER.PER.
SUL.SO-A
SUL.SO-B

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----+---------+---------+---------+---------+---------+---------+---------+------------555555----555555---------5555555555----------55555555-555----------55555
-------------------------------------------------------------------------------------------------------------------------------------------a-GCC----------CCCGG
----------------------------------------------------------GUA-AGU----------UGGGG
----------------------------------------------------------GUA-AGU----------UGGGG
----------------------------------------------------------GUA-AGC----------UGGGG
----------------------------------------------------------------------------cucg
---------------------------------------------------------------GG----------CUCGG
----------------------------------------------------------------------------cCGG
---------------------------------UGGGUUCGAAucccauu----cucuccg-AUU----------CCUAG
-------------------------------------------------------------------------------g
---------------------------------------------------------------------------GGAGA
--------------------------------------------------------GGUGA-CUC----------UAuuG
--------------------------------------------------------GGUGG-CCC----------UGUCG
----------------------------------------------------------------G----------CGGGU
---------------------------------------------------------------GG----------CGGGU
----------------------------------------------------------CUC-UUA----------UUUAG
------------------------------------------------------------C-UUA----------UUUGG
------------------------------------------------------GGGGGCU-CUG----------UUGGU
------------------------------------------------------GGAGGCC-CUG----------UUGGU
-------------------------------------------------------GGGGUA-UUA----------UUGGU
------------------------------------------------------GGAAACC-UUC----------UCGGU
---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G
-------------------------------------------------------------------------------A
----------------------------------------------------------------------------------------------------------------------------------------------------uuauaauAUAU
------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GGuG
-------------------------------------------------------------------------------G
agg-aauuCCUCAUuugaGGCAUcg--------UAAUUGUUUGguc--ug--cCCUUGAcA-agUuggug-ugaaGGUUG
c-g-aaucCCUUCUc-gaGGUUCGu--------UUACUUUAAGgcc--ug--cCUUAAGUA-agUggugu-ugacGUUUG
c-g-aaucCCUUCUc-gaGGUUCGu--------UUACUUUAAGgcc--ug--cCUUAAGUA-agUggugu-ugacGUUUG
c-g-aaucCCUUCUc-gaGGUUCGu--------UUACUUUAAGgcc--ug--cCUUAAGUA-agUggugu-ugacGUUUG
u-g-aaucCCUUCUc-gaGGUUAGu--------CUGUUgUGAGgcc--ug--uCUCAAGUA-agUggugu-ugacGUCUG
u-g-aauuCCUUUcu-gaGGCUGGu--------auCCUGUAgGguc--ug--cCUUAAGUA-agUggugu-ugacGUCCG
c-g-aaucCCUUCUc-gaGGUUCGu--------UUACUUUAAGgcc--ug--cCUUAAGUA-agUggugu-ugacGUUUG
c-g-aaucCCcUCUc-gaGGUUAUg--------uUGCUGUAAgguc--ug--cCUUAAGUA-agUggugu-ugacGUUUG
c-g-aaucCCcUCUc-gaGGUUaUg--------UuGCUGUAAGguc--ug--cCuUAAGUA-agUggugu-ugacGUUUG
c-g-aauuCCUUCUu-gaGGUUAGc--------UCAUCUUAGGgcc--ug--cCUUAAGUA-agUggugu-ugacGUUUG
c-g-aaucCCUUCUc-gaGGUUCGu--------UUACUUCAAGguc--ug--cCUUAAAUA-agUggugu-ugacGUCUG
gug-aauuCCUAUCc-uaGGUuuU---------CUUAUgUGAGg-c--ugccgUUgAUGGc-GGCggugu-ugagGAGCG
gug-aauuCCUAUCc-uaGGUUuU---------CUUAUgUGAGg-c--ugccgUUgAUGGc-GGCggugu-ugagGAGCG
--g-aaucCCUUCUa-gaGGUUuU---------GUCACCgUAGgcu-cug--cCCUaAGUA-agUggugu-ugacGUUgG
c-g-aaucCCUUCUc-gaGGUUCGu--------UUACUgUAAGguc--ug--cCUUAAGUA-agUggcgu-ugacGUCUG
-------------------------------------------------------------------------------c-g-aaguCCUCaua-gaGGCucUa---------ACUUGUGGAguc--ug--cCCUAUGUA-agUggugu-ugagAGUUG
------55555555---55555555-------55555555555----------555555555555----------55555
c-g-aaaaCUUGGGggcGGCAUGUCc----ucCAGUCCUUCCU----------UCCCAGAcUCCUcgau---gagGUCUC
c-g-aaaaCUUGGGggcGGCAuAAGu----ucCCAAAUUUCAU----------UCUUAAUUAGUAuguc---gacGUUUC
c-g-aaGCCCAGGAGgcGGCAAGACc-----gCCAGACAUCGG---------cCUGAGGGUUAaAcaau---gaaGCCUC
c-g-aaGUUCAGGGgacGGCuGAUCg-----aCUGUUUAUCGG---------cCCUGCUGAUUGGuguc---gaaGCCUC
c-g-aaGCCaauGGaagaUGcGUCa------aaGGGAUUcCAG---------cCUGuGAUCUCaacuga---gaaACCCC
c-g-aacac-CGGGcgcGUCCGaCc-------gcCgCGGUCGG---------cCCCGGaaGCCaacgug---gaaGCCUC
c-g-aaGCC-gaGGggaGGCCUGUCa-------aGCGGGCGGCag-------cGGUUCCAGGCACcgca---gagUCCUC
c-g-aaGCCCGAGGggcGGuuCCCg-------aaGCCGCCUCCgg------aaGCCAGGGCCgAacgau---gagUCCUC
c-g-aaGCCCGAGGggcGGuuCCCg-------aaGCCGCCUCUgg------aaGCCAGGGCCgAacgau---gagUCCUC
c-g-aaGCCCGGGGggcGGuuCCCg-------aaGCCGUUCCCg------gaaGCCGGGGCaCaacggu---gauCCCUC
caguaaCCCGCACGuc-GGCCGUAGu------GGUCCAGGGCA--------gaCCCGGCCG-acCcau----ga-CcCCC
c-g--ccCCCAGAG--cUUG-AAGC-------AGGCCAGcaaG--------ggCCUGCAGGGUacaau----ga-aCCCc
caguaaCUCCUAUGc-uAUAAUaC--------cUGCUCUUCGAg--------aUCCCAGUCUaaCuau----ga-UcAUC
caguaaCUCCUACC-cuAUGGUgU-------cuCCUAUCUGUAg--------gUCCCAGUggaGcgau----ga-agcCU

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----+---------+---------+---------+---------+---------+---------+---------+----Eukaryot. ------55555555----555555---55555555--555555555-555---555555555555---------555555
ZEA.MA-A --auuaAGGUGGUGugaaUGCUUu-gcGAuGgcu---UUCUGggcc-cUg---GGCUCG-u-uGUgacacuggcCGGCUU
ZEA.MA-B --auuaAGGUGGcGcggaUGCUuu-gcGAuGgu----uUCUGggcc--Ug---GGCUCG-u-uGUgacucuagcCGGCUU
ZEA.MA-C --auuaAGGUGGUGuggaUGCUUg-g-Uaccgu----GUCUuUgcc--ug---GGUUCAUggugUgccuuug-uUGGCCU
ZEA.MA-D --auuaAGGUGGUGcggaUuCUUu-gcGAuGgcu---UUCUGggcc--cg---GGCUCGcuauGUgccuuuggcCGGCCU
ZEA.MA-E --auuaAGGUGGUGcggaUUCUUu-gcGAuGgcu---UUCUGggcc--cg---GGCUCGcuauGUgccuuuggcCGGCCU
ZEA.MA-F --auuaAGGUGGUGuggaUGUUUc-cuGAcGga----UUCUGggcc--Ug---GGCUUG-uauGUgccacuggcCGGCCU
ZEA.MA-G --auuaAGGUGGUGcggaUuCUUu-gcGAuGgcu---UUCUGggcc--cg---GGCUCGcuauGUgccuuuggcCGGCCU
ZEA.MA-H --aauaagguaguguggaugucaa-uugu-ggu----gcaugugcc--Ug---GGUCUA--guGCuacaaacugUGGacC
ORY.SAT. --aauaAGGUGGuGcggaUGCCuggucGuuugc----UcUuUgGcc--ug---GGCCuGugguUcgcu-cuaugCGGCCC
TRI.AE-A --auuaaaguGaUGugaacGCUGu-ugUA-Gcg----CUGCGggcc--Ug---GUCUGG--guGUgcuacug-cUGGCCC
TRI.AE-B --auugAGGcGGUGuggaUGCUug--gUGcGgu----uUGuuggcc--ug---GGCUUGUgaugUaaccuug-cUGGCCU
TRI.AE-C ------------------------------------------------------------------------ggUGGUCU
ARA.TH-A --auuaAGAUGGUGg-gaCAc-UG--gUUcGGu----UCcuCggAU--cg---GUUCUGAugugGgcauguuucUGAGCU
ARA.TH-B --auuuAGAUGGUGg-aaCAc-UG--gUUcGGg----UCcaCggGc--cg---GUUCUGUuguUGgcauguuucUGGGCU
HUM.JA-A --auguGGGAGAUGg-gacu-UUG--gGUcaGc----ccauuggAU--cg---GGUCCAGuguUAgcugcuugcUGGUCU
HUM.JA-B --auguGGGAAAUGg-gaCU-UUA--guUCGGc----CcauuggAU--cg---GaUCCAGuguUAgcugcuugcUGGgCU
HUM.LU-A --auguGGGAAAUGg-gaCU-UUG--gGUCAac----CUAGUggAU--cg---GGUCCAGuguUAgcugcuuacUGGUCU
HUM.LU-B --auguGGGAAAUGg-aaCa-UUG--gGUCAGc----CCAGUggAU--cg---GGuCCAGuguUAgcugcuuacUGGUCU
HUM.LU-C --auguGGGAAAUGg-aaCU-UUG--gGUCAac----CCAGUggun--cg---GGncCAGugcuagcugcuuacCcGgCU
HUM.LU-D --auguGGGAAAUGg-gaCU-UUG--gGUCAac----CUAGUggAU--cg---GGUCCAGuguUAgcugcuuacUGGUCU
LYC.ES-A --aucaAaGUGGUUg-aaUA-UUG--gGCuUua----CCAgaaGgU--Ug---GGCUUGGUg--GgcuuaguucUGGCCU
LYC.ES-B --auuaAuGUGGUGg-aaUG-UUG--gGCuGua----CCAgauGgU--Ug---GGCUUGGug--GgcuaauuucUGACUU
LYC.ES-C --aucaGUGUGGUGg-aaUG-UUG--aACAugc----CCAgaaggU--ag---GGCUUGUgu--GacaauucucUGGCcU
LYC.ES-D -------------------------------------------------------------------uag-uucUGGCCU
LYC.ES-E --guuaAgGUGGUGg-aaUA-UUG--gGCuGuc----CCAgauggc--UG---GGCUUGGug-GGcuaau-uucUGGcCU
LYC.ES-F --aacaAuGUGGUGg-aaUG-UUG--gGUccau----CUugaUgga--UG---GGCUUGAag-GGcuaauguucUGGCCU
LYC.ES-G --auuaAuGUGGUGg-aaUG-UUG--gGCuGua----CCAgauggu--UG---GGCUUGGug-GGcuaau-uucUGGcCU
LYC.ES-H --aucaAAGugGuUg-aaUa-UUG--gGCuGua----CCAgauggu--UG---GGCUUGGUg-GGcuaau-uucUGACUU
LYC.ES-I --auuaAuGUGGUGg-aaUG-UUG--gGCuGua----CCAgauggu--UG---GGCUUGGug-GGcuaau-uucUGACUU
LYC.ES-J --aucaAaGUGGUUg-aaUA-UUG--gGCuuua----CCAgaaggu--UG---GGCUUGGUg-GGcuuag-uucUGGCCU
LYC.ES-K --aucaAaGUGGUUg-aaUA-UUG--gGCuuua----CCAgaaggu--UG---GGCUUGGUg-GGcuuag-uucUGGCCU
LYC.ES-L --------------------GUUG--gGUuGac----CCAgaUgGu--UG---GGUUCGgUa-GGcuuauagucUGGCCU
LYC.ES-M --guuaAGGUGGugg-aaUA-UUG--gGCuGuc----CCAgauggc--UG---GGCUUGGUg-GGcuaau-uucUGGCCU
LYC.ES-N --guuaAuGUGGuGg-aaUG-UUG--gGCuGua----CCAgauggu--UG---GGCUUGGug-GGcuaau-uucUGACUU
LYC.ES-O --guuaAGGUGGuGg-aaUA-UUG--gGCuGuc----CCAgauggc--UG---GGCUUGGug-GGcuaau-uucUGGcCU
CIN.HYB. --aucaAAGUGGuUg-aaCU-UUg--aGCUuggc---UUAGcuagu--ug---GGUCUGu-aGACaccgc-accUGGCUU
PER.AME. --uauaaagguggug-uggaacg---agcugacucgaccugccggg-uug---ggccag---ggacugcggugcuggcuc
COL.BLU. --cuuuaagguuauu-ugaukuukggccuaugcuacckgcckggcucugguccugcuua------------uucuggccc
CRY.MOR. --aaagugguuggac-uuugucuuggancagnugguuggguncgcccgcgcagc-----------------acccggccc
GYN.AUR. --aagaaaaaggguuggaauugaaaggg---------------------------------------------------BEN.HIS. --aucaagg-ugguug-gagguuggacagnacacagagcagggcauuucgagacaca----------------------YAR.LI-A ---ugguaAAUCGUcuucUUGUu---gUGcgUUCgaguCuUGggcu-cuG---CAcuUgGC-CAU---------UUGGUU
YAR.LI-B ---ugguaAaUCGccuucUUGUu---gUGCgUUCgaguUcUGgacu-cuG---CAcuggGC-UAC---------UUUGUU
SCH.POM. -------uUGGUCGaa--GUGUUUa-gUACUcCCAau--agUGCAU-GUU---CgGUGguc-ucGgguu---cgAGUCUC
TET.THE. --au-aaacAAUGUa---GGUUg----UGAUAGaUagGauAUGAga-GuUu-gaugaGACAGUUugcu----aaGAGUGU
TET.ROS. --au-aaacAaUGua---GUUA-----GAAUAGuCagAGuAUGAga-GuUu-gaugaGACAGUUugcu----aaGAGUGU
TRY.BR-A -----gaucCCGCUu--aGCGGg----GACGUcUU--GGacaaGCG-gGGg--UUCUG--u-UGCguu----gaCUUGGU
TRY.BR-B -----gAucCCGCUu--aGCGGg----GACGUcUU--GGacaaGCG-gGGg--UUCUG--u-UGCguu----gaCUUGGU
LEP.COL. ----uucaccAcGUg--aACAGg----GAgCugUC-uGGaccaGCa-UAGgg-UGcUuGC--GGCguu----gaCGuGGU
DRO.MEL. ------uGAUUGUGg-gaUGGCCu-gaGGcUGGGaucuaCUGcguA-gCGg--acCAG--cUCAUguu----gaCGGaAC
CAE.EL-A -----aGAUAAGUGuggaUGGAGu-gaGAGGAGGa-gucCUGUGUA--UG---ucGUuG-UCuACguc----gacCGAGC
CAE.EL-B -----aGAUAAGUGuggaUGGAGu-gaGAGGAGGa-gucCUGUGUA--UG---uCGUuG-UCAACguc----gacCGAGC
CAE.EL-C -----aGAUGAGUGuggaUGGAGu-gaGAGGAGGa-gucCUGUGUA--UG---uCGUuG-UCAACguc----gacCGAGC
CAE.EL-D -----aGAUAAGUGuggaUGGAGu-gaGAGGAGGa-gucCUGUGUA--UG---ucGUcG-UCuACguc----gacCGAGC
FUG.RUB. -----uGAGGCUGGcggaUCGCUu-gaGCUCAGGa-guucUGGGC---UU---cAGCGg-aCUAUguc----gauCGGGU
XEN.LAE. -----uuGGGCUGUcggaUCGCUu-gaGUcCAGGa-guuCUGggC---ug---CACUGa-GCUAUguc----gauCGGGU
RAT.RAT. -----uGAGGacaGaggaUCGCUu-gaGUCCAGGa-guuCUGGGc---ug---UAGUGc-GCUAUgcc----gauCGGGU
MUS.MU-A -----ugagacaggaggaucgcuu-gaguccaaga-guucugggc---ug---uagugc-gcuaugcc----gaucgggu
MUS.MU-B -----aGAGGCAGGcggaUUUCU--gaGUUCgaGgccagCcuggUc-uacaaa--------------------------CAN.SPE. -----uGAGGCaGGaggaUCGCUu-gaGCcCAGGa-guuCUGGGc---ug---CAGUGc-GCUAUgcc----gauCGGGU
HOM.SA-A -----uGAGGCuGGaggaUCGCUu-gaGUcCAGGa-guuCUGGGc---ug---UAGUGc-GCUAUgcc----gauCGGGU
HOM.SA-B -----uGAGGUGGGaggaUCGCUu-gaGCcCAGGa-guuCUGGGc---ug---UAGUGc-GCUAUgcc----gaugGGGU
HOM.SA-C -----ugaGgUGGGaggaUCACUu-gaGCCaAGGa-cuuCUGGGc---ug---UAGcac-GCUAUgcu----gauCAaGU

-Bacte.AQU.AEO.
TRE.PAL.
THE.MAR.
CLA.PNE.
CLA.TRA.
PRO.SPE.
SYN.SPE.
TRE.PAL.
BOR.BUR.
ZYM.MOB.
CAU.CRE.
LEG.PNE.
PSE.AER.
NEI.GON.
NEI.MEN.
HEL.PY-A
HEL.PY-B
ESC.COL.
YER.PES.
HAE.DUC.
HAE.INF.
RIC.PRO.
STR.COE.
MIC.LUT.
MYC.GEN.
MYC.PNE.
URE.URE.
MYC.CAP.
MYC.MYC.
MYC.TUB.
MYC.LEP.
LIS.MON.
BAC.SUB.
BAC.POL.
BAC.AMY.
BAC.STE.
BAC.CIR.
BAC.SPH.
BAC.CER.
BAC.THU.
BAC.MEG.
BAC.PUM.
BAC.BRE.
BRE.BRE.
BAC.ALC.
BAC.MAC.
STR.MUT.
CLO.PER.
Archaea
MET.JAN.
MET.VOL.
MET.FER.
MET.THE.
MET.ACE.
HAL.HAL.
ARC.FUL.
PYR.ABY.
PYR.HOR.
THE.CEL.
PYR.OCC.
AER.PER.
SUL.SO-A
SUL.SO-B

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----+---------+---------+---------+---------+---------+---------+---------+----5555-55555-555555555--------------------------------------------------------------G-CCCUG-CGGCGGGA------------------------------------------------------------U--C-CAGCG-CGgCGGGCC-----------------------------------------------------------G-cC-UUUUAaGaGAAGGA------------------------------------------------------------G-cC-UUUUAaGaGAAGGA------------------------------------------------------------A-cC-UCUUAaGaUGAGAG------------------------------------------------------------g-cc-uUUCG-CgGUUUUA------------------------------------------------------------A--c-UCAUG-CgAUUACA------------------------------------------------------------G----gC-CGcCcaCGAAaUa----------------------------------------------------------G-ac-cCGUA-CUAUCAAG------------------------------------------------------------u----cGG-G-CggacgGuGc----------------------------------------------------------U----cGGCG-CgGacGGaGu----------------------------------------------------------GuCc-CCUCG-CG-aCGaua-----------------------------------------------------------GuCc-CCCCG-CA-ACGAUu-----------------------------------------------------------Cu---CCCCG-CA-UGGCaa-----------------------------------------------------------Cu---CCCCG-CA-UGGCaa-----------------------------------------------------------A--c-CUAuG-CA-AUAGGAu----------------------------------------------------------A--c-CUAuG-CA-AUAGGAc----------------------------------------------------------U--c-UCCCG-CA-ACGCua-----------------------------------------------------------U--c-UCCCG-CA-ACACUa-----------------------------------------------------------u----UCUCG-CA-gCAGAA-----------------------------------------------------------c----UCUCG-CA-ACGGU-------------------------------------------------------------GCU-AGUAGuGG-gCAUuG------------------------------------------------------------CCC-UCACG-CGgCGCUA------------------------------------------------------------GCCC-cUACG-UGgUGUCA------------------------------------------------------------GAAC-CAUCA-CAUCAUUa-------------------------------------------------------------AGC-CGUCA-CAUCAUUA------------------------------------------------------------AUGU-CAUUA-CAAUAuuA-------------------------------------------------------------AGC-CGCGA-UAAGAAUA--------------------------------------------------------------GC-CGCGA-UAAGAAUA------------------------------------------------------------GACC-CCGCG-CGgCGuCua-----------------------------------------------------------GACC-CCGCG-CGgCGuCua-----------------------------------------------------------GGuC-UUGCG-CAAUGGGAA-----------------------------------------------------------GGUC-CUGCG-CAAUGGGA------------------------------------------------------------GGUC-CUGCG-CAAUGGGA------------------------------------------------------------GGUC-CUGCG-CAAUGGGA------------------------------------------------------------GgUC-CCGCG-CAAUGGGA------------------------------------------------------------GGUC-CUGCG-CAAUGGGa------------------------------------------------------------GGuC-CUGCG-CAAUGGGA------------------------------------------------------------GgUc-CUgCG-CAACGGGA------------------------------------------------------------GgUC-CUGCG-CAACGGGA------------------------------------------------------------GGUC-CUAcG-CAAUGGGA------------------------------------------------------------GGUC-CUGCG-CAAUGGGA------------------------------------------------------------GGUC-CUGUG-CAACGCGA------------------------------------------------------------GGUC-CUGUG-CAACGCGA-------------------------------------------------------------GUU-CUACG-CAACGAAA------------------------------------------------------------GGUC-CUGCG-CAAUGGGA------------------------------------------------------------------gGaG-CAACAGCU------------------------------------------------------------Ggcc-CCACG-CAAUGGAA------------------------------------------------------------5555-55555-555-5555--------66666-------6666666666----666-6666666--66666--------GUCC-CGUGGgGCUcGGCG------guGGGGG-------aGCAUCUCCUguagGGG-AGAUGUaacCCCCU-----uu-a
GUCC-UUUGGgGUaaGAuG------guAAGAG-------acuCUCUUUCuuaaGAA-AGAGucaaaCUCUU--u--uc-g
GuCC-CACAGgGCC-AcCG------guGGCGA-------GGGUCCAGCUggagGGC-UGGACCUaaUCGCC--u--uu-g
GucC-CGCAGgAUC-AGUG------guGAUGG-------gGCCCUGACUggagGGU-CAGGGUaaaCCAUC--u--ua-g
GUCC-UGCuugGAU-GaUG------caGGUAUg------uGGACUUGcUggaaAaC-AGGUCC-ucAUACC--c--ua-a
GUCC-GUCGGgGAC-GGCG------guCCGCG-------gcGuGCGCCCgcagGGG-CGUuCcgu-CGUGG--u--uc-g
GUCC-CGGAGgGCC-GGCG------guUAUGGc------CGGGCuGCCCggagGGG-CuGUCCG--CCAUA--u--ua-g
GUCC-CGCGGgGUG-CcCG------guGGGGG-------aGGCACGGCUgaagGGC-CGUGCUaa-CCCCC--u--uu-a
GUCC-CGCGGgGUG-CcCG------guGGGGG-------aGGCACGGCUgaagGGC-CGUGCUaa-CCCCC--u--uu-g
GUCC-CACGGgGCC-GGCG------guGGGCG-------gGGUCCGGCUggagGGC-CGGGCUaa-CGCCC--u--uu-g
GUCC-CGCGGgGCC-GGCG------gcGCGGa-------GCC-CCCUCCggagGGA-GGGaGGCu-aCCGCcc---uu-a
gUCC-CGCGGgGCC-GGCG------gaGGCGG-------gCGGCCaGCCggagGGC-cGGCCGaagCCGCC-----gu-a
GcCC-GACGGgGCG-aGAUa-----guCGUGGg------UUCCCUUUCUggagGGA-GAGGGAAuuCCACG-----uu-g
GcCC-AGCGGgGCU-uGGCg-----guCAUGGg------CUUUCUCUCCggagGGA-GAGAAAGuaCCAUG-----auag

165
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----+---------+---------+---------+---------+---------+---------+---------+----Eukaryot. 5-5--55555---555-55555----666666-----666666666666----666-666666666666666-77---77
ZEA.MA-A GcCcaUCCCA-agUUG-GuAGU---gUCUGgu-----GGGGGCUCuAGCgaaaGCUuuGGGUCUCU-gCAGAcCU-ggAG
ZEA.MA-B GcCcaUCCCA-agUUG-GuAGU---gUCUGac-----GGGG-CUCuAGCgaaaGCUuuGGGuCUCU-gCAGAcCU-acAG
ZEA.MA-C GcCcgUUCCA-agUUG-GUAGU---ggCCGuu-----GGAAGCUUGGGCguagGCCcUGGGCUUCC-uUGGacCU-auAG
ZEA.MA-D GcCcgUCCCA-agUUG-GuAGU---ggCUGGc-----GGAGGCUuuAGCggaaGCU-uuGGUCUCU-CCAGacCU-gaAG
ZEA.MA-E GcCcgUCCCA-agUUG-GuAGU---ggCUGGc-----GGAGGCUuuAGCggaaGCU-uuGGUCUCU-CCAGacCU-gaAG
ZEA.MA-F GcCcgUUCCA-agUUG-GuuGU---ggCUGGu-----GGGG-CUCGGGCgaagGCC-UGGGcCUCU-UUAGacCU-gaAG
ZEA.MA-G GcCcgUCCCA-agUUG-GuAGU---ggCUGGc-----GGAGGCUuuAGCggaaGCU-uuGGUCUCU-CCAGacCU-gaAG
ZEA.MA-H AcCcaUUCCA-agUUGcGUaGU---ggGUUuc-----GGAUGcCuuGGCgaaaGCU-uuG-CAUCC-cAACa-CU-aaAG
ORY.SAT. GcccgUUCCA-agUUGcGuAGC---gUGUAug-----GGGCGCcCUGGCgaaaGCU-AGaGCGUCC-cUGCAcCU-agAG
TRI.AE-A GcCcgUUCCA-agUUGcGuAGU---gGACCGcc----UGGGGCUUAuGCgaaaGC--UGGGUCUCA-CGGUC-CAuaaUG
TRI.AE-B GcCcgUUCCA-agUUG-GuAGU---gGgCUG------GGuGGcUGGGGCgaaaGCU-UCGcCUuCU-CAGgC-CU-uaAG
TRI.AE-C GcCcgUUCCA-agUUGaGuAGU---gGACCGc----uUGGGGCCUAuGCgaaaGU--UGGGCCUCA-CGGUC-CAuaaUG
ARA.TH-A GcCcaGUCCA-agCUG-UGAGU----AAUUaG----uguUGAGUUGAGCgaagGCU-UGGCUCAugCaGGUU-CU-agAG
ARA.TH-B GcCcaGUCCA-agCUG-UGAGU----AAGaCG-----UgUGuGUCAAGCgaagGCU-UGGCuCAaACGgCUU-CU-aaAG
HUM.JA-A GcCcaUUCCA-agCCG-AGAGU---uGGGCUG-----UGUGAUCUgGGCgaagGCU-gGGGUCGCACAGCUC-CU-aaAG
HUM.JA-B GcCcaUUCCA-agCCG-AGAGU---uGAGCUG-----ugUGAGCCGGACgaagGUC-UGGCUUGguCAGCUC-CU-aaAG
HUM.LU-A GcCcaUUCCA-agCCG-GGAGU---uGGgcUG-----aGUGACCUGGgCgaagGgC-UGGGUUGCgCAcgUC-CU-agAG
HUM.LU-B GcCcaUUCCA-agCCG-GGAGU---uGGGCUG-----aGUGACCUGGGCgaagGCC-UGGGUUGCgCAGCUC-CU-agAG
HUM.LU-C GcCcaUUCCA-agCCG-GGAGg---uGGGcUG-----aGgGaCcugGGCgaagGCU-nnnGgngCgCA-CUC-cU-agAc
HUM.LU-D GcccaUUCCA-agCCG-GGAGU---uGGGCUG-----aGUGACCUgGGCgaagGCU--GGGUUGCgCAGCUC-CU-agAG
LYC.ES-A GcCcugUCCA-agCAC-AGAGU---uGGAUCu-----cGAGGCCCAaAUgaaaAUa-UGGGCUUCuuGAUUC-CU-aaAG
LYC.ES-B GcCcuaUCCA-agCUU-AGAGU---uGGAUCA-----uGUGGcCCAaUUgaagAAa-UGGaCUACuUGAUUC-gU-aaAg
LYC.ES-C GcCcugUCCA-agCAa-AGAGU---uGGGUCU-----uGUGGgCCAAGCgaagGCU-UGGgCUGCuGGGCUC-CU-aaAG
LYC.ES-D GcCcugUCCA-agCAC-AGAGU---aGGAUCA-----cGAGGCCCAaAUgaaaAUa-UGGGCUUCuUGAUUC-CU-aaAG
LYC.ES-E GcCcuaUCCA-agUAC-AGAGU---uGGAUCa-----uGUGGUCCAaUUgaaaGAa-UGGGCUACuaGAUUC-CU-aaAG
LYC.ES-F GcCcugUCCA-agCAC-AGAGU---uGGGUCA-----AGUGGuCUAUACgaaaGUA-UAG-CCACUUGGCCU-UU-agAG
LYC.ES-G GcCcuaUCCA-agCAC-AGAGU---uGGAUCa-----uGUGGUCCAaUUgaaaGAa-UGGGCUACuaGAUUC-CU-aaAG
LYC.ES-H GcCcuaUCCA-agCuU-AGAGU---uGGAUCA-----uGUGGcCCAaUUgaagAAa-UGGaCUACuUGAUUC-gU-aaAg
LYC.ES-I GcCcuaUCCA-agCUU-AGAGU---uGGAUCA-----uGUGGcCCAaUUgaagAAa-UGGaCUACuUGAUUC-gU-aaAg
LYC.ES-J GcCcugUCCA-agCAC-AGAGU---uGGAUCA-----cGAGGCCCAaAUgaaaAUa-UGGGCUUCuUGAUUC-CU-aaAG
LYC.ES-K GcCcugUCCA-agCAC-AGAGU---aGGAUCA-----cGAGGCCCAaAUgaaaAUa-UGGGCUUCuUGAUUC-CU-aaAG
LYC.ES-L GcCcucUCCA-agCAU-GGAGU---uGGAUCA-----cGUGGCUUAGUCgaaaGACcUGGGUUGCuUGAUUC-CU-aaAG
LYC.ES-M GcCcugUCCA-agCAC-AGAGU---uGGAUCA-----cGAGGCCCAaAUgaaaAUa-UGGGCUUCuUGAUUC-CU-aaAG
LYC.ES-N GcCcuaUCCA-agCUU-AGAGU---uGGAUCA-----uGUGGcCCAaUUgaagAAa-UGGaCUACuUGAUUC-gU-aaAg
LYC.ES-O GcCcuaUCCA-agCAC-AGAGU---uGGAUCa-----uGUGGUCCAaUUgaaaGAa-UGGGCUACuaGAUUC-CU-aaAG
CIN.HYB. GcCcgUUCCA-agUCG-AGAGu---gGGUUCA-----UGUUuCCUGAGCgaagGCU-CGGGuGAUGUGAGCU-UU-agAA
PER.AME. gcccguucca-agucg-gguag---ugGGCCA----uGuGG-CUUGGGCgaagGCC-UGGGuUUcUUGGCC--------COL.BLU. gcccguucca-agccg-ggagu---uGGCCca----uguGG-UUUAUGCgaagGUA-UAGGcUUcgguGGUUcc-----CRY.MOR. gnncauunca-agccg-agagg----ccggnn----ang----------------------------------------GYN.AUR. -------------------------------------------------------------------------------BEN.HIS. -------------------------------------------------------------------------------YAR.LI-A GuCcuUuCCG-aaUuC-UGCGGuugaUGGGc-----gUCUCG-GuCUGAguaaUCG-GcUuUGAGAuuUCCGuUCuaaGA
YAR.LI-B GuCcuUuCCG-aaUuC-UGCGGuugaUGGGc-----gUCUCG-GuCUGAguaaUCG-GcUuUGAGAuuUCCGuUCuaaGA
SCH.POM. GcUu-UCGau-ccCUC-GAuc----uGCCAc-----gUcUgUuCGAAGAguagUCU-UCGuG-GcAacUGGCaGUuaaAC
TET.THE. GcCcgcUCCA-aaCAA-UGAG----uUGCUa-----uGGUGGuaaCCUAguaaUAG-GacuCCACCagGGCA-UUaaaGA
TET.ROS. GcCcgUUCCA-aaCAG-UGAG----uUGCUa-----uGGUGGAaaCCUAguaaUAG-GacUUCACCagGGCA-UUaaaGA
TRY.BR-A GuU-cUgcuugguuGc-GUGU----cGGUGU-----uGAGGuCGCCaCUguagAGa-GGCGuUCUC-GCGCCgUU-aaAG
TRY.BR-B GuU-cUGCuugguuGc-GUGU----cGGUGU-----uGAGGuCGCCaCUguagAGa-GGCGuUCUC-GCGCCgUU-aaAG
LEP.COL. GcU-CUGCuuggcUGu-GUGU----cGGAGGccuccgGGUGC-CCCCUUgcagAAG-GGGcGCGCCcCCUCCgUU-aaAG
DRO.MEL. GuCcgCACUA-agCUU-GCCA----uCAAUa-----uGGGUGCCAUGGAggagUCC-GUGGCAUUCagGUUGgCU-aaGG
CAE.EL-A GuCcguGCCA-agCGC-UACG----uCACCa-----gGGGaUAACUGUCggaaGGC-GGUUAgUCCcgGGUG-CauaagG
CAE.EL-B GuCcguGCCA-agCGC-UGCG----uCACCa-----gGGGaUGACUGUCggaaGAU-GGUCAgUCCcgGGUG-CauaagG
CAE.EL-C GuCcguGCCA-agCGC-UGCG----uCACCa-----gGGGaUGACUGUCggaaGAU-GGUCAgUCCcgGGUG-CauaagG
CAE.EL-D GuCcguGCCA-agCGC-UACG----uCACCa-----gGGGaUAACUGUCggaaGGC-GGUUAgUCCcgGGUG-CauaagG
FUG.RUB. GuCcgUACUA-aguuC-GGUA----uCGAUa-----uGGUGcUCCUGGGggagCCC-GGGAuCACCagGUCG-CCuaaGG
XEN.LAE. GuCcgCACUA-aguUC-GGUA----uCAAUa-----uGGUGuUCCuGGGggagCCU-cGGAuCACCagGUUGcUCuaaGG
RAT.RAT. GuCcgCACUA-aguUC-GGCA----uCAAUa-----uGGUGacCUCCCGggagCGG-GGGacCACCagGUUG-CCuaaGG
MUS.MU-A guccgcacua-aguuc-ggca----aCAAUa-----uGGUGacCUCCCGggagCGG-GGGacCACCaaGUUG-c-----MUS.MU-B -------------------------------------------------------------------------------CAN.SPE. GuCcgCACUA-aguUC-GGCA----uCAAUa-----uGGUGacCUCCCGggagCGG-GGGacCACCagGUUG-CCuaaGG
HOM.SA-A GuCcgCACUA-aguUC-GGCA----uCAAUa-----uGGUGacCUCCCGggagCGG-GGGacCACCagGUUG-CCuaaGG
HOM.SA-B GuCcgCACUA-aguUC-GGCA----uCAAUa-----uGGUGacCUCCCGggagCGG-GGGacCACCagGUUG-CCuaaGG
HOM.SA-C GuCcaCACUA-aguUC-AGCA----uCuAUa-----ugGUGacCUCCCaggggcGG-GGGacCACgagGUuG-cCuaaGa

-Bacte.AQU.AEO.
TRE.PAL.
THE.MAR.
CLA.PNE.
CLA.TRA.
PRO.SPE.
SYN.SPE.
TRE.PAL.
BOR.BUR.
ZYM.MOB.
CAU.CRE.
LEG.PNE.
PSE.AER.
NEI.GON.
NEI.MEN.
HEL.PY-A
HEL.PY-B
ESC.COL.
YER.PES.
HAE.DUC.
HAE.INF.
RIC.PRO.
STR.COE.
MIC.LUT.
MYC.GEN.
MYC.PNE.
URE.URE.
MYC.CAP.
MYC.MYC.
MYC.TUB.
MYC.LEP.
LIS.MON.
BAC.SUB.
BAC.POL.
BAC.AMY.
BAC.STE.
BAC.CIR.
BAC.SPH.
BAC.CER.
BAC.THU.
BAC.MEG.
BAC.PUM.
BAC.BRE.
BRE.BRE.
BAC.ALC.
BAC.MAC.
STR.MUT.
CLO.PER.
Archaea
MET.JAN.
MET.VOL.
MET.FER.
MET.THE.
MET.ACE.
HAL.HAL.
ARC.FUL.
PYR.ABY.
PYR.HOR.
THE.CEL.
PYR.OCC.
AER.PER.
SUL.SO-A
SUL.SO-B

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305
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----+---------+---------+---------+---------+---------+---------+---------+------88888-------888-----888------888-----888---88-888--55555-55-55--55555555---55-caGGGU-gaacu-CCCccaggCCCgaa--aGGGagcaaGGGuaaGC-CCgccgUCCC-GUgCG--CAGGGU--------aGGCGU-gaacc-GGGucaggUCCgga--aGGAagcagCCCuaaGC-GCCucGGUCC-GggCG-cCGCUGGgaa--GC-acCUgC-gaauc-GGGucaggACUgga--aGGUagcagCCCuaaGg-AGaguuUUCU-UUugC--UAAAAGaauguUC-acCUgC-gaauc-GGGucaggACUgga--aGGUagcagCCCuaaGg-AGaguuUUCU-UUugC--UAAAAGaauguUC-acuUCU-gaacc-GGGucaggAUCgga--aGGUagcagCCCuaaGG-AuaggcCUUU-UGugC--UAGGAG--uuuUC-acgCCC-aaacc-UGGucaggAUCgga--aGGUagcagCCAcaaGG-GaugcuUGAG-GCagG--CGAG----------acgCCC-aaauc-UUGucaggACCgga--aGGUagcagCAAuaaGG-GaugcuUGUG-GUagG--CGUGAac----UC-uCCCCC-aaacc-CCGcuaggUCCgga--aGGAagcaaCGGu-aGG-GGGacGcUUC-G-guG--CGcGa------UC-uAUUGCugaauc-CCGucaggACUgga--aGGUagcagCGGuaaGC-GAUuuuUUUG-AUgAG--UACGuaag-u-CU-ugUCGc-caacc-CGGucaggUCCgga--aGGAagcagCCGu-aaC-GAauuUuUau-c-ggG-uCgUUccggc-----cCUCGc-caacc-UGGucaggGCCgag--aGGCagcagCCAc-aaC-GAGauCaCCu-cUggG-uCGUCugccg--GU-gAUUGU-gaacc-CCGucaggCCCgga--aGGGagcagCGGu-aGC-AGUugaugCG-g-gCG-cCGGGGuGugg-CU-aCCCGU-caacc-UGGucaggUCCgga--aGGAagcagCCAc-aGC-GGGaacAUCG-U-gUG-cCGGGGuGugg-CU-aUCGGA-acacc-GGGucaggGGCgga--aGCCagcagCCCa-cUC-CGAug-cGCC-A-gUG-cCGGGGguuu--GG-aUCGGA-acacc-GGGucaggGGCgga--aGCCagcagCCCa-cUC-CGGug-cGCC-A-gUG-cCGGGGguuu--GG-uUUAGG-guaac-GCUucaggGUAgga--aUACagcagAGUc-cCC-UAAuuUCUUG-U-gUG-cCuUAGcca---UC-uUUAGG-guaac-GCUucaggGUAgga--aUACagcagAGUc-cCC-UAAuuUCUUG-U-gUG-cCuUAGcca---UC-cUCUGU-uuacc-aGGucaggUCCgga--aGGAagcagCCaa-gGC-AGAugacGCG-U-gUG-cCGGGAugu---AG-aCUUGU-gaacu-CGGucaggUCCgga--aGGAagcagCCGc-aGC-AGGcgaGGUG-U-gUG-cCGGGAugu---AG-uUCAGC-uuacu-uAGucagggCCgga--aGGaagcagCUug-gGU-UGAauUUCUG-g-gUG-cCGGGA-guc---G-gUCUGGuuuacu-cGGucaggUCCgga--aGGAagcagCCaaagUC-GGAauuACUG-U-gUG-cCGAGAaga---aG-cUCUUGcuuagu-UGGucaggUCUgaa--aAGAagcagCCAgggUA-AGAuuCuGUG-g-gUC-aUUACUAGU------uCUGACugaacu-CCCccaggGCCgga--aGGCagcaaGGGuagGU-CGGcucUGGC-GggUG--CGUGGGGG------uCUCGCugaacuuCCCccaggACCgga--aGGUagcaaGGGuagGU-GGGcucUGGC-AggUG--CGUGaGGGgucUUc
--GAGUC-gaauc-AUGucaggCCAgaa--aUGGagcagCAUuaaGA-CUUgu-cAGU-GAgUG--UGAUGGUU---UU--cGGUC-gaauc-GUGucaggCCAgaa--aUGGagcagCAUuaaGA-CUauu-UAAU-GAgUG--UGAUGGUU-------aGUaGcgaacc-UUGucaggCCAgag--aUGGagcagCAAuagCa-AUaucuUuuU-AUgUG--UGAUGACA---UA-acaUCU-gaau--gAGuuaggACCgga--aGGUagcagCUauaaGG-Aaaag-UGUU-CUgUA--UUGCGGUU------acaUCU-gaac--gAGuuaggACCgga--aGGUagcagCUauaaGG-Aaaag-UGUU-CUgUA--UUGCGGU-------uCCUGU-gaacu-CCCccaggGCUgga--aGGCagcaaGGGucaAC-GGGcucuGuC-GggUG--CGCGGGGU---CC-uCCUGU-gaacu-CCCcuaggGCCgga--aGGCagcaaGGGucaAU-GGGcucuGuC-GggUG--CGCGGGGU---CC-ccUUGU-gaacc-AUGucaggUCCgga--aGGAagcagCAUuaaGC-AGug-UUCUC-AUgUG-cCGCGAGuC-gcCU-aUUCAU-gaacc-AUGucaggUCCgga--aGGAagcagCAUuaaGU-GAAaccUCUC-AUgUG-cCGCAGGGUugcCU-aUUCAU-gaacc-AUGucaggUCCgga--aGGAagcagCAUuaaGU-GAAaccUCUC-AUgUG-cCGCAGGGUugcCU-aUUCAU-gaacc-AUGucaggUCCgga--aGGAagcagCAUuaaGU-GAAaccUCUC-AUgUG-cCGCAGGGUugcCU-uUCCGU-gaacc-CUGucaggUCCgga--aGGAagcagCAGuuaGC-GGAugcUCCC-AUgUG-cCGCGGGGgcgcCU-aUCCAU-gaacc-AUGucaggUCCgga--aGGAagcagCAUuaaGU-GGAcaccCCC-AUgUG-cCGCAGGGUuacCU-aUUCAU-gaacc-AUGucaggUCCgga--aGGAagcagCAUuaaGU-GAAaccUCUC-AUgUG-cCGCAGGuUgccUU--cCCGU-gaacc-UUGucaggUCCgga--aGGAagcagCAAuaaGC-GGu-cuUCUC-GUgUG-cCG-AG-AgugcCU-cCCCGU-gaacc-UUGucaggUCCgga--aGGAagcagCAAuaaGC-GGGucuUCUC-GUgUG-cCGCAGGAgugcCU-aUCUGU-gaacc-CUGucaggUCCgga--aGGAagcagCAGuaaGC-AGAaccUCUC-AUgUG-cCaUGGGGUcgcCU-aUUCAU-gaacc-AUGucaggUCCgga--aGGAagcagCAUuaaGU-GAAaccUCUC-AUgUG-cCGCAGGGUugcCU-acCCAU-gaacc-UGGucaggUCCgga--aGGAagcagCCAuaaGU-GGaucaUCGC-GUgUG-cCGCAGGGUagcCU-acCCAU-gaacc-UGGucaggUCCgga--aGGAagcagCCAuaaGU-GGaucaUCGC-GUgUG-cCGCAGGGUagcCU-acCCAC-gaacc-CUGucaggUCCgga--aGGAagcagCAGuaaGU-GGccccUUUC-GUgUG-cCGUAGAGUcgc-U-aUUCAU-gaacc-AUGucaggUCCgga--aGGAagcagCAUuaaGU-GAAaccUCUC-AUgUG-cCGCAGGGUugcCU-uugCGU-gaagc-GGGucaggGGAgga--aUCCagcagCCCuaaGC-GauguaAGCU-GUgUG-cUcU-----------acCUGU-gaacc-UCGucaggUCCgga--aGGAagcagCGAuaaGC-AGucauUUUC-AUgUG-cCGUGGauacguCU--88888-------888-----888------888-----888---88-888---55-5-55-55--55555555---55-cCUGCC-gaacc-CCGccaggCCCgga--aGGGagcaaCGGu-aGG-CAG-gaCG-U-CG-GCgcUCACGGGGgugCG-uAuUUC-gaaac-CCGccaggCCCgga--aGGGagcaaCGGu-aGA-AuU-uaCu-U-Cg-ACgcUCAAGGGGuagCG-cUGCGG-g-aac-GGGucaggCCCgga--aGGGagcagCCCu-aCC-GCA-gaCGga-UG-GUgcUUGUGGGucaaCG-uCAUGG-g-aac-GGGucaggCCUgga--aAGGagcagCCCu-aCC-AUG-gaCAgC-UG-AUgcUUGCGGauuaaCG-cUGCGG-aaacc-GGUcgaggCCCgga--aGGGagcagACUc-aCU-GUG-ggCAac-CG-UCgcuuGCGGGGucgCG-aCGGUG-gcaac-CCGccaggCACgga--aGUGagcagCGGa-cCA-CCG-aaCGcC-CG-UCgcUCGACGGGucgCG-cCGGGG-ggaac-GGCccaggCCCgga--aGGGagcagGCUa-aCC-CCG-gaCGaC-CG-GCgcUUCCGGGGgugCG-gGCCCC-aaacc-CCGcaaggCCCgga--aGGGagcagCGGu-aGG-GGC-caCGga-GC-ACgcUCGCGGGGgugCG-gGCCCC-aaacc-CCGcaaggCCCgga--aGGGagcagCGGu-aGG-GGC-caCGga-GC-ACgcUCGCGGGGgugCG-cCCGCC-gaacc-CCGucaggCCCgga--aGGGagcagCGGu-aGG-CGG-gaCGuU-CG-GCgcUCGUGGGGuagCG-cCGGGG-gaacc-AGGccaggCCCgga--aGGGagcaaCCUa-aCC-CCG-gaCGcC-CG-GCguUCGCGGGGccaCG-gCCGGG-gccaccCGGcgaggCCCgga--aGGGagcagCCGa-cCC-CGG--cCGaC-CG-GCguUCGCGGGGggaac-aCCGGG-ggaac-CGGccaggCCCgga--aGGGagcaaCCGu-gCC-CGG-cuAU-C--C-GCguUCGUCGGucucCG--CUGGG-ggaau-CGGcgaggCCCgga--aGGGagcagCCGu-gCC-UGG-acGC-C--A-GCguUCGCUGGucaaCA-

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----+---------+---------+---------+---------+---------+---------+---------+----Eukaryot. --88888-------888-----888------888-----888---88-888--55555-555----55555-5----55ZEA.MA-A -cGGCAG-gaaug-gCGuaaggCUGgcuucaCAGagcagCGaucaCU-GCC-gACUcC-CAAcg-gUGGGAgGauaaCGa
ZEA.MA-B -cGGCAG-gaaug-gCGuaaggCUGgcuucaCAGagcagCGaucaCUcGCC-cACUuC-CAAcg-gUGGGAgGauaaCAZEA.MA-C -uGGCAG-gaacg-gCGugaggCUGucuucaCAGagcagCGaucaCU-GCC-gGCUAU-UAAcg-gUGGAAgGauaaCAZEA.MA-D -uGGCAG-gaaug-gCGugaggCUGgcuucaCAGagcagCGaucaCUcGCC-cGCUuC-CAAcg-gUGGGAgGauaaCAZEA.MA-E -uGGCAG-gaaug-gCGugaggCUGgcuucaCAGagcagCGaucaCUcGCC-gGCUuC-CAAcg-gUGGGAgGauaaCGZEA.MA-F -cGGCAG-gcaug-gCGugaggCUGgcuucaCAGagcagCGaucaCUcGCC-cGCuuC-CAAcg-gUGGGAgGauaaCAZEA.MA-G -uGGCAG-gaaug-gCGugaggCUGgcuucaCAGagcagCGaucaCU-GCC-cGCUuC-CAAcg-gUGGGAgGauaaCGZEA.MA-H -uGGCGG-acauu-gCGugaggCUGgcuucaUAGagcagCGaguaCC-GCC-cGCcAC-CAGcg-gUGGAAgGauaaUGORY.SAT. -uGGCGG-guauu-gCGugaggCUGguuucaCAGagcagCGaguaCC-GCC-cGCUuC-CAAcg-gUGGAAggauuaCGTRI.AE-A -uGGCAG-gcaca-gCGugaggCUGgcuucaCAGagcagCGacaaCU-GCC-cGCUuC-CAAcg-gUGGAAgGauaaUGTRI.AE-B -uGGCAG-gcacc-aCGuuaggCUGguuucaCAGagcagCGacaaCU-GCC--GCUuC-CAAcg-gUGGAAgGauaaCATRI.AE-C -uGGCAG-gcacc-gCGugaggCUGgcuucaCAGagcagCGacaaCU-GCC-cGCUuC-CAAcg-gUGGAAgGauaaCGARA.TH-A ucGGAGG-guaau-gCGugaggCUGgcuucaCAGagcagCGacuaCU-UCC-cGCUUA-CAGca-gUGGACgGaucaCGARA.TH-B uuGGAGG-guaau-gCGugaggCUGguuucaCAGagcagCGacuaCU-UCC-cGCUUA-CAGca-gUGGACgGaucaCAHUM.JA-A -aGGAGG-gcaau-gCGugaggCUGguuucaCAGagcagCGaccaCC-UCC-cGCUCU-CGGca-gUGGAAgGauaaCGHUM.JA-B -cGGAGG-gcaau-gCGugaggCUGguuucaCAGagcagCGacaaCC-UCC-cGCUCU-CGGca-gUGGAAgGauaaCGHUM.LU-A -uGGAGG-gcaau-gCGugaggCUGgcuucaCAGagcagCGacuaCC-UCC-cGCUCU-CGGca-gUGGAAgGauaaCGHUM.LU-B -uGGAGG-gcaau-gCGugaggCUGguuucaCAGagcagCGacuaCC-UCC-cGCUCC-CGGca-gUGGAAgGauaaCGHUM.LU-C -uGGAGG-gcaau-gCGugaggCUGgcuucaCAGagcagCGacuaCC-UCC-cgCUCU-CGGca-gUGGAAgGauaaCGHUM.LU-D -uGGAGG-gcaau-gCGugaggCUGgcuucaCAGagcagCGacuaCC-UCC-cGCUCU-CGGca-gUGGAAgGauaaCGLYC.ES-A -uGGGGC-ggacc-gCAugaggCUGgcuucaCAGagcagUGaac-GC-UCC-cGCUCU-GUGca-gUGGAagGauaaUGLYC.ES-B -uGGGGC-ggaau-gCGugaggCUGguuucaCAGagcaaCGauaaGU-UUC-cGCUCU-AAGcg-gUGGAagGauaaCGLYC.ES-C -uGGGGU-ggacu-gCGugaggCUGguuucaCAGagcaaCGaauaGC-UCC-cGCUCU-gUGca-gUGGAagGauaaCGLYC.ES-D -cGGGGC-ggacc-gCAugaggCUGgcuucaCAGagcagUGaacaGC-UCC-cGCUCU-GUGca-gUGGAagGauaaUGLYC.ES-E -uGGGGU-ggacc--CGugaggCUGguuucaCAGagcaaCGaaaaAC-UUC-cGCUUU-GUGca-gUGGAagGauaaCGLYC.ES-F -uGGGAU-ggacu-gCGugaggCUGguuucaCAGagcaaCGacuaGU-CCC-cGCUCU-GUGca-gUGGAagGaucaCGLYC.ES-G -uGGGGU-ggacc-gCGugaggCUGguuucaCAGagcaaCGaaaaAC-UUC-cGCUUU-GUGca-gUGGAagGauaaCGLYC.ES-H -uGGGGC-ggaau-gCGugaggCUGguuucaCAGagcagUGaacaGC-UCC-cGCUCU-GuGca-gUGGAagGauaaUGLYC.ES-I -uGGGgC-ggaau-gCGugaggCUGguuucaCAGagcaaCGauaaG--UUU-cGCUCU-AAGcg-gUGGAagGauaaCGLYC.ES-J -uGGGGC-ggacc-gCAugaggCUGgcuucaCAGagcagUGaacaGC-UCC-cGCUCU-GUGca-gUGGAagGauaaUGLYC.ES-K -cGGGGC-ggacc-gCAugaggCUGgcuucaCAGagcagUGaacaGC-UCC-cGCUCU-GUGca-gUGGAagGauaaUGLYC.ES-L -uGGGGU-ggacu-gCGugaggCUGguuucaCAGagcaaCGaacaGC-UUC-cGCUCU-GUGca-gUGGAagGauaaCGLYC.ES-M -uGGGGC-ggacc-gCAugaggCUGgcuucaCAGagcagUGaacaGC-UCC-cGCUCU-GUGca-gUGGAagGauaaUGLYC.ES-N -uGGGgC-ggaau-gCGugaggCUGguuucaCAGagcaaCGauaaG--UUU-cGCUCU-AAGcg-gUGGAagGauaaCGLYC.ES-O -uGGGGU-ggacc-gCGugaggCUGguuucaCAGagcaaCGaaaaAC-UUC-cGCUUU-GUGca-gUGGAagGauaaCGCIN.HYB. ucGGGGG-gcaau-gCGuuaggCUGguuucaCAGagcugCGaaaaCC-UCU-acCUCU-CGAcu-gUGGAAgGauuaCAPER.AME. -------------------------------------------------------------------------------COL.BLU. -------------------------------------------------------------------------------CRY.MOR. -------------------------------------------------------------------------------GYN.AUR. -------------------------------------------------------------------------------BEN.HIS. -------------------------------------------------------------------------------YAR.LI-A -uUAACU-gggaa-aCUucaguGGAgca--aUCCagcagAGauccAG-UUG--CCGUGgGuAug-gCGGuGgGaucgCAYAR.LI-B -uUAACU-gggau-aCUucaguGGAgca--aUCCagcagAGauccAG-UUG--CCGUGgGuAug-gCGGuGgGauagCASCH.POM. -cguGUA-guacc-GAUggaggUUGgaa--aCAAugcacAUCac-UA-Ccg-ggucUU-GGGca-gugCGAuAgcgaUGTET.THE. -gcUAAG-gaaac-gCCucaggCUGgca--aCAGaacagGGaaaaCU-UGc-cgCUUG-UUGug-gUGGAagGauaaCATET.ROS. -gcUGAG-gaacc-gCCucaggCUGgca--aCAGaacagGGaaaaCU-UGc-cgCUUA-UUGug-gUGGAAgGauaaCATRY.BR-A --UgGGG-ggaac-GGGucaggCCGgug--aCGGagcagCCCac-CU-U-G--cGCACguUccc-guucgAgAagcaCATRY.BR-B --UgGGG-ggaac-GGGucaggCCGgug--aCGGagcagCCCac-CU-U-G--cGCACguUccc-guuGCAgAagcaCALEP.COL. --uaGAG--gaau-GGGucaggCCGgca--aCGGagcagCCCac-CU-Cgc-gcACGU-cUGcc-guuGCAGAaccaCADRO.MEL. -aGGGAU-gaacc-gGGccaggGGUgaa--aACCagcagCCaagaGU-UCC-cgUGGU-AGGca-gUAGUGgGauagCGCAE.EL-A -aGUCGU-ggau--gGUucaggACCgaa--aGGUagcagACaaaaGC-GAC-cgCGUG-GUGca-gUGGCcgGaccgCGCAE.EL-B -aGUGGU-ggau--gGUucaggACCgaa--aGGUagcagACaaaaGC-CAC-cgCGCG-GUGca-gUGGCcgGacugCGCAE.EL-C -aGUGGU-ggau--gGUucaggACCgaa--aGGUagcagACaaaaGC-CAC-cgCGCG-GUGca-gUGGCcgGacagCGCAE.EL-D -aGUCGU-ggau--gGUucaggACCgaa--aGGUagcagACaaaaGC-GAC-cgCGUG-GUGca-gUGGCcgGaccgCGFUG.RUB. -aGGGGU-gcccc-GGCccaggUCGgaa--aCGAagcagGUCaaaGC-CCC-cgUGCC-Gcuca-gUAGUGgGaucgCGXEN.LAE. -aGGGGU-gaacc-GGCccaggUCGgaa--aCGGagcagGUCaaaAC-CCC-cgUGCC-GAuca-gUAGUGgGaucgCGRAT.RAT. -aGGGGU-gaacc-GGCccaggUCGgaa--aCGGagcagGUCaaaAC-UCC-cgUGCU-GAuca-gUAGUGgGaucgCGMUS.MU-A -------------------------------------------------------------------------------MUS.MU-B -------------------------------------------------------------------------------CAN.SPE. -aGGGGU-gaacc-GGCccaggUCGgaa--aCGGagcagGUCaaaAC-UCC-cgUGCU-GAuca-gUAGUGgGaucgCGHOM.SA-A -aGGGGU-gaacc-GGCccaggUCGgaa--aCGGagcagGUCaaaAC-UCC-cgUGCU-GAuca-gUAGUGgGaucgCGHOM.SA-B -aGGGGU-gaacc-GGCccaggUCGgaa--aCGGagcagGUCaaaAC-UCC-cgUGCU-GAuca-gUAGUGgGaucgCGHOM.SA-C -aaGGGU-gaacu-GGCccaggUUGgaa--aCGGagcagGUCaaaAC-UCc-cgUGCU-GAuca-gUAGUGgGaucuUG-

-Bacte.AQU.AEO.
TRE.PAL.
THE.MAR.
CLA.PNE.
CLA.TRA.
PRO.SPE.
SYN.SPE.
TRE.PAL.
BOR.BUR.
ZYM.MOB.
CAU.CRE.
LEG.PNE.
PSE.AER.
NEI.GON.
NEI.MEN.
HEL.PY-A
HEL.PY-B
ESC.COL.
YER.PES.
HAE.DUC.
HAE.INF.
RIC.PRO.
STR.COE.
MIC.LUT.
MYC.GEN.
MYC.PNE.
URE.URE.
MYC.CAP.
MYC.MYC.
MYC.TUB.
MYC.LEP.
LIS.MON.
BAC.SUB.
BAC.POL.
BAC.AMY.
BAC.STE.
BAC.CIR.
BAC.SPH.
BAC.CER.
BAC.THU.
BAC.MEG.
BAC.PUM.
BAC.BRE.
BRE.BRE.
BAC.ALC.
BAC.MAC.
STR.MUT.
CLO.PER.
Archaea
MET.JAN.
MET.VOL.
MET.FER.
MET.THE.
MET.ACE.
HAL.HAL.
ARC.FUL.
PYR.ABY.
PYR.HOR.
THE.CEL.
PYR.OCC.
AER.PER.
SUL.SO-A
SUL.SO-B

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----+---------+---------+---------+---------+---------+---------+---------+----5555------555-55555555--------55555--55555------------555555----555555--------11
-------------------------------------------------------------------------------CGGG------GGC-gcuu-------------------------------------------------------------UCCA------ACU-UACuc------------------------------------------------------------UCCA------ACU-UACuc------------------------------------------------------------UCUG------GCU-UAC---------------------------------------------------------------------------------------------------------------------------------------------CGGG------CU-------------------------------------------------------------------CGcc------ccgg-----------------------------------------------------------------UAGGuuu---AAU-----------------UUUGA--ACCCA--aaugcaa-uguuuugcuuu-----------------------------------------------------------------------------------------------CUCCaccucauuu-uccucgaaau-u-----------------------------------------------------cuUA------GAG-UCGCCgcc---------------------------------------------------------GGCG------GGG-CCGCCucc---------------------------------------------------------UCCG------C--------------------------------------------------------------------CCCG------CC-------------------------------------------------------------------UGAA------UAG-GAG--------------------------------------------------------------UGAA------UAG-G----------------------------------------------------------------CUGG------CAG-GGCCCCCacc-------------------------------------------------------CUGG------CAG-GGCCUCC----------------------------------------------------------CUGG------UAA-UACCCC-accuuuu--u-ggua-aaagguaauaccg-----------------------------CUGG------GAA-GGUUUCCgcc---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------acguuu---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------UAUuaa----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CC-----------------------------------------------------------------------------------------------------------------------------------------------------------GGCCcgagcuAac-UaUCAGGGu-aac--gCAGAU--GAUUG------------cAUGUCg-auGUGAGG------ugcg
GGGCcgagcuAac-UGCUUAAGu-aac--gCUUAG--GGUAG------------CGAAUCg-acAGAAGG------ugCA
GGGCcgagcuAac-UGCUUAAGu-aac--gCUUAG--GGUAG------------CGAAUCg-acAGAAGG------ugCA
GGGCcgagcuAac-UGCUUAAGu-aac--gCUUAG--GGUAG------------CGAAUCg-acAGAAGG------ugCA
GGGCugagccAac-UGCUUGAGc-aac--gCUCGg--GGCAG------------CUAAUCg-acAGAAGG------ugCA
GGACugagcuAac-UACUUAAGu-aac--gCUUAU--GGGug------------CCAGUCg-acaGAAGG------ugCA
GGGCcgagcuAac-UGCUUAAGu-aac--gCUUAG--GGUAG------------CGAAUCg-acAGAAGG------ugCA
GAACcgagcuAac-UGCUUGAGu-aac--g-UUAU--GGUAc------------GUAAUCg-acAGAaGG------ugCA
GAACcgagcuAac-UGCUUGcGu-aac--gCUUAU--GGCuA-----------cGcAAUCg-acAGAaGG------ugCA
GAACcgagcuAac-UGCUUAAGu-aac--gCCUGG--GGUGG------------CUAAUCg-acAGAAGG------ugCA
GGGCcgagcuAac-UGUUUAAGu-aac--gCUUGG--GGUAG------------CGAAUCg-acAGAAGG------ugCA
GCUCugagcuGCU-aCCAUaAGu-aac--gCUCGg--AUAAG-----------gAuuAUCg-aaGaUAGG------ugCA
GCUCugagcuGCU-aCCAUaAGu-aac--gCUCGg--AUAAG-----------gAuuAUCg-aaGaUAGG------ugCA
gGGCcgagcuAac-UGCUcAGGu-aac--gCUAgG--GUGGC------------AuGAUCg-acAGAAGG------ugCA
GGGCugagcuAac-UGCUUAAGu-aac--gCUUAg--GGUAG------------CGAAUCg-acAGAAGG------agCA
-------------------------------------------------------------------------------GGCUugagcuAac-UGCAUAGGu-aac--gUUCAU--AAGUu-----------AuuGUCg-aaguGAGG-------ugCA
5555------555555555555--------55555--555555----------55555555---55555555------11
GGACggaga-AGGAaUCUGGGGg-cg----AGGGA--GGACUGg-------agGACAUGCCcacCCCAAGga----agCC
GGGCugag--UACUAAUUAAGGc-aaa---AUGAG--AUUUGGu--------gCUUuUGUCcacCCCAAGga----agCC
GGGUggagucUaUAACCCUCAGa-uca---CCGGU--GUCUGGu--------gGUCUUGUCcacUCCUGGGCg---ugCC
GGGUggag--CCAGUCAGCGGGa-uca---CCGGU--AAAUGGa--------aGGUCuGUCaacCCCUGAACg---ugCC
GGGUggag--aaGAGAUUcCAGu-cua---CUGaA--AUCUCc---------caGAUaCAacgacCugcGGUg---ugCU
GGGUggag--aaGGCgaCCGGGa-cuac--CCGGC--CGgGa----------acGcCGGGCuaccCCGa---c---ugUC
GGGAggag--GUGCCUGGGGCUu-caa---GCCGC--CCGUa----------aGGCAGGUC-gaCCcgaGGCg---ugCC
GGGAugag--gUaGGCCCUGGUg-aaa---GGAGG--CGGUgg----------aGGGuuCCcacCCUCGGGCg---ugcc
GGGAugag--gUaGGCCCUGGUg-aaa---GGAGG--CGGUgg----------aGGGuuCCcaCCCUCGGGCg---ugCC
GGGGugag--c-GaGCCCCGGUg-gaa---GGGGA--CGGUgg----------aGGGucCCcacCCCCGGGCg---cgCC
GG-Gugag--GcaaCGGCCGGGc-ccc--cUGCCC--UGGGCC---------cCUACGGCU-ggcGUGCGGGg----gCC
GGGgggag--aaGCCCUGCAGGg-uaa---CccuC--UGGCCU----------GCUU-CAAa--cUCUGGGag-cgggGG
AU-Aggag--G-aAGACUGGGGg-uaaaucUCGGG--GAGUA-----------aGgGUUAU-ggcAUAGGGGa----gCU
Gc-cagag---UgaaACUGGGGu-aaac-cUAUAG--AUAGG-----------uAgGCCAU-ggGGUAGGGGg----uCU

325
335
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375
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----+---------+---------+---------+---------+---------+---------+---------+----Eukaryot. 55555-----555555555555--5555555------55555-55555555----555555---55555555-------ZEA.MA-A AGCCGcugc-ACu--uUGAGCCu-aAcucag-gcu--CAGAA-----CcUCa-cu-AAGCAaacCACCAUCUuu-----ZEA.MA-B AGCCGcugc-ACu--uUGAGCCc-aAcacag-acc--CAGAu-----CcUCu-cu-uAGCAaacCaCCAUCUuu-----ZEA.MA-C GGCCAcugc-Agc--AUGGGCUc-gcuuaaG-gcc--uAGAC-----uucAuacuaAAGCAgacCACCAUUUuu-----ZEA.MA-D GGCCGcugc-ACu--uCGAGCCc-aacucag-gcc--CAGAG-----CcUCa-cu-AAGcAgacCACCAUCUu------ZEA.MA-E GGCCGcugc-ACu--uCGAGCCc-aacucag-gcc--CAGAG-----CcUCa-cu-AAGCAgacCACCAUCUuu-----ZEA.MA-F GGCCGcugc-AUu--gCAAGCCc-aAcucgg-u-c--CAGAG-----CcUCa-uu-AAACAgacCACCAUCUuu-----ZEA.MA-G GGCCGcugc-ACu--uCGAGCCc-aacucag-gcc--CAGAG-----CcUCa-cu-AAGcAgacCACCAUCUuu-----ZEA.MA-H agUCGcuau-GCu--aUAGGCCc-aAu----------------------------------------------------ORY.SAT. GGCCGcugc-aGc--cCuGGCCc-gcuucCg-gcc-cAuGuG-----ccuUc-ca-uGGCAgacCCCCAUCUuu-----TRI.AE-A GGCCGcugc-ACu--cCUAGGCc-aAu-ugg-gcc-uCGCAG-----CcUA--cucCAGCagacCAcC-----------TRI.AE-B GGCCGcugc-Agc--AUGGGCCc-gcucugg-gcc-uccUAc-----CcCG--ccauAGCAgacCACCaUCUuu-----TRI.AE-C GGCCGcugc-acu--ccuaggcc-gcu-ugg-gcc-ucguag-----ccua--cuccagc-gaccaccauc--------ARA.TH-A GUUUAgcgu-Cgc--UCAGAACc-acuAUg--gcc-uGcuGG----UCcGAu-cuCAuaUGaacCACCAUUUu------ARA.TH-B GUUUAgcgu-CGc--UCAGAACc-acuaUg--gcc-uGcuGG----UCcGAu-cuCAuaUGaacCACCAUUU-------HUM.JA-A GGUCGgugc-UAc--UUGGGCC--accAUg--guc-acugca----UgcACu-cuUAAucagacCAUCUCUUuu-----HUM.JA-B GgCCGgugc-UGc--UUGGAcCc-accAUg-guuc-acugaG----CUGAcu-cuUAAuAGgacCAUUUCUUuu-----HUM.LU-A GGCCGgugc-UAc--CUGGGUCc-accAUg-cuuc--ACUAGg---cUGACu-cuUAAuAGgacCAUUUCUUuu-----HUM.LU-B GGCCGgugc-UAc--UUGGuCC--accAUg--uuc--ACUGGu--cCUGACu-cuUAAucGgacCAUUUCCUuu-----HUM.LU-C GgCcGgugc-gcc--UUGagCCa-acacug--uuc-aACUGGg---cUGACu-cuUAAuAGgacCAUUUCUUuu-----HUM.LU-D GGCCGgugc-UAc--CUGGAUCc-accAUg-cuuc--ACUGGg---cUGACu-cuUAAuAGgacCAUUUCUUuu-----LYC.ES-A GGUCGgugu-Cuu-AUCAAGUUc-aGuAaC--gcc-uaaUGGg----UuGCu-c-CAA-UAaacAACCACcUuu-----LYC.ES-B AGUCGgugu-Ucu--CUGAGUCc-aGuAaU--gcc-ugaUGGg----CuGCu-c-UAAuUAaacCACCACuUuu-----LYC.ES-C aGCCAgugu-Cau--AUAAGUUc-aacGaa-uguc-ugaUGGg----cUGUu-c-UAGuUAaacUACCACAUuu-----LYC.ES-D GGUCGgugu-cuu-aucaaguuc-agu-aa-cgcc-uaauggg----uugcu-c-caacuaaaccaccacuuuu-----LYC.ES-E GaCCGgugc-CUu--CCAAGUUc-CAuuaa-ugcc-ugaUGGg----CuGUu-c-UAGuUAaacUACCACaUuuu----LYC.ES-F GGCUAgugc-UCu--UUGAGUCc-UAacaaAaacc-ugauAGg----uuGC--c-UAAuUAaacCAUCACuUuu-----LYC.ES-G GaCCGgugc-CUu--CCAAGUUc-CAuuaa-ugcc-ugaUGGg----CuGCu-c-CAAuUAaacCACCACuUuu-----LYC.ES-H GGUCGgugu-CUu-AUCAAGUU--CAguaa-cgcc-uaaUGGg----UuGCu-c-CAAuaAacaAcCacCUUuu-----LYC.ES-I AGUCGgugu-UCu--CUGAGUC--CAguaa-cgcc-ugaUGGg----UuGCu-c-CAAuUAaacCACCAUuUuu-----LYC.ES-J GGUCGgugu-CUu-AUCAAGUU--CAguaa-cgcc-uaaUGGg----uuGCu-c-CAA-UAaacAACCACcUuu-----LYC.ES-K GGUCGgugu-CUu-AUCAAGUU--CAguaa-cgcc-uaaUGGg----uuGCu-c-CAA-UAaacAACCACcUuu-----LYC.ES-L GGUCAgug--CUc-AgCGAGUC--CAguUaAcgcccugaUGGg----CuGCu-c-CAACuaaaccaccacuuu------LYC.ES-M GGUCGgugu-CUu-AUCAAGUU--CAguaa-cgcc-uaaUGGg----UuGCu-c-CAA-UAaacaACCACCUuu-----LYC.ES-N AGUCGgugu-UCu--CUGAGUC--CAguaa-cgcc-ugaUGGg----UuGCu-c-CAAuUAaacCACCAUuUuu-----LYC.ES-O GaCCGgugc-CUu--CCAAGUUc-CAuuaa-ugcc-ugaUGGg----CuGCu-c-CAAuUAaacCACCACUUu------CIN.HYB. AGCCGgagu-GUC--uUAGGCUc-auauaac-cag--cCUGGc----uAGCc-c--AAcAGgacAcCCAUUU-------PER.AME. -------------------------------------------------------------------------------COL.BLU. -------------------------------------------------------------------------------CRY.MOR. -------------------------------------------------------------------------------GYN.AUR. -------------------------------------------------------------------------------BEN.HIS. -------------------------------------------------------------------------------YAR.LI-A ACCAA-----GUG-GU-AuaUG--U------------UAuG---GAAgaUAuuu---ACGAu-cACGAUU---------YAR.LI-B ACAAA-----GUG-GU-auaUG--U------------UAuG---GAAgGUAuuu---GCAAu-caCGAcUcuc------SCH.POM. GGAUU--ca-Ccuu---CGCaG--GAUGUGC------A-----UGGaAGUA---uAAACACaa-CGGUCGuu-------TET.THE. UACUC--au-uAACUGUCaa----AcUaaUC-----gGUucU-A-CUAUCA-----aAGCCag-ACAUU----------TET.ROS. UACUC--au-uAACUGUCaa----GcUaaUC-----gGUuCU-G-CUAUUC-----UGAUCag-acAcU----------TRY.BR-A CCGAG--ga-GCAuc-uCAGGAcuUUgCGC---------cCC-AA-GUGUC-----gUCGCga-GGCGG----------TRY.BR-B CCGAG--ga-GCAuc-uCAGGAcuUUgCGC---------cCC-AA-GUGUC-----gUCGCga-GGCGGuuU-------LEP.COL. CCGCG--ga-GCCu-GUcAuCAc-CUGcGC---------cCCaGG-cGaUC------CUGUga-AGCUuu---------DRO.MEL. UaCCG--ga-GUGGa--CUGc---CG-Uuau------CAG----CCCAaCCgauauGGUUGgacCACAAUCuuu-----CAE.EL-A CUUGu--ga-GUuGA-C-ACa---CA-UACG------CAG----CCUUCUCgauacCUUCAgacCACUUAUCauuu---CAE.EL-B CUUGu--ga-GUUGA-C-ACG---UA-UACA------CAG----CCUUCUCaauacCUUCAgacCACUUGUUuuu----CAE.EL-C CUUGu--ga-GUUGA-C-ACG---UA-UACA------CAG----CCUUCUCaauacCUUCAgacCACUUGUCacu----CAE.EL-D CUUGu--aa-GUuGA-C-ACa---CA-UACA------CAG----CCUUCUCgauacCUUCAgacCACUUAUCauuu---FUG.RUB. CCCGu--ga-AUAGa--CGCU---GU-aGUU------CAa----CCUGAGUaacacAGCGGgacUCAGUCUUu------XEN.LAE. CCUGu--ga-AUAGC--CGGUG----caGaa------CAG----CCUGaACaacacAGCGAgacACAGUUCu-------RAT.RAT. CCUGu--ga-AUAGC--CACUG----cacUC------CAG----CCUGGGCaacauAGCGAgacCccgUCUCuu-----MUS.MU-A -------------------------------------------------------------------------------MUS.MU-B ------------gug--agcuc----caGga------caG----CcaGGGCuacacAGAGAaacCCUGUCUC-------CAN.SPE. CCUGu--ga-AUAGC--CACUG----cacUC------CAG----CCUGuGCaacauAGCGAgacCCcGUCUCu------HOM.SA-A CCUGu--ga-AUAGC--CACUG----cacUC------CAG----CCUGuGCaacauAGCGAgacCCcGUCUCuu-----HOM.SA-B CCUgu--ga-AUAGC--CACUG----cacUC------CAG----CCUGaGCaacauAGCGAgacCCCGUCUCu------HOM.SA-C CcUGu--ga-AUACU--caCUG----ugcUC------CAG----CCUgGGCaacacAGUGAgacCCUGaU----------

-Bacte.AQU.AEO.
TRE.PAL.
THE.MAR.
CLA.PNE.
CLA.TRA.
PRO.SPE.
SYN.SPE.
TRE.PAL.
BOR.BUR.
ZYM.MOB.
CAU.CRE.
LEG.PNE.
PSE.AER.
NEI.GON.
NEI.MEN.
HEL.PY-A
HEL.PY-B
ESC.COL.
YER.PES.
HAE.DUC.
HAE.INF.
RIC.PRO.
STR.COE.
MIC.LUT.
MYC.GEN.
MYC.PNE.
URE.URE.
MYC.CAP.
MYC.MYC.
MYC.TUB.
MYC.LEP.
LIS.MON.
BAC.SUB.
BAC.POL.
BAC.AMY.
BAC.STE.
BAC.CIR.
BAC.SPH.
BAC.CER.
BAC.THU.
BAC.MEG.
BAC.PUM.
BAC.BRE.
BRE.BRE.
BAC.ALC.
BAC.MAC.
STR.MUT.
CLO.PER.
Archaea
MET.JAN.
MET.VOL.
MET.FER.
MET.THE.
MET.ACE.
HAL.HAL.
ARC.FUL.
PYR.ABY.
PYR.HOR.
THE.CEL.
PYR.OCC.
AER.PER.
SUL.SO-A
SUL.SO-B

405
415
----+---------+11-111------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------cg-aca-cuaa----CG-GUA---------CG-GUA---------CG-GUA---------CG-Gcu---------CG-GUA---------CG-GUA---------CG-GUA---------CG-GUA---------CG-GUA---------CG-GUA---------CG-GUA---------CG-GUA---------CG-GUA---------CG-GUA------------------------CG-GUu---------11-1111111-----AU-GCACACCacuuuu
A--------------U--------------CA-------------CA-UCA---------Ca-c-----------CA-CC----------cg-ccgccgcuag--CG-CCGCC-------CG-CCGCC-------Gc-------------CUcGGGGGCGggcc-GA-CCAU--------GG-CCCCau-------

405
415
----+---------+Eukaryot. ---------------ZEA.MA-A ---------------ZEA.MA-B ---------------ZEA.MA-C ---------------ZEA.MA-D ---------------ZEA.MA-E ---------------ZEA.MA-F ---------------ZEA.MA-G ---------------ZEA.MA-H ---------------ORY.SAT. ---------------TRI.AE-A ---------------TRI.AE-B ---------------TRI.AE-C ---------------ARA.TH-A ---------------ARA.TH-B ---------------HUM.JA-A ---------------HUM.JA-B ---------------HUM.LU-A ---------------HUM.LU-B ---------------HUM.LU-C ---------------HUM.LU-D ---------------LYC.ES-A ---------------LYC.ES-B ---------------LYC.ES-C ---------------LYC.ES-D ---------------LYC.ES-E ---------------LYC.ES-F ---------------LYC.ES-G ---------------LYC.ES-H ---------------LYC.ES-I ---------------LYC.ES-J ---------------LYC.ES-K ---------------LYC.ES-L ---------------LYC.ES-M ---------------LYC.ES-N ---------------LYC.ES-O ---------------CIN.HYB. ---------------PER.AME. ---------------COL.BLU. ---------------CRY.MOR. ---------------GYN.AUR. ---------------BEN.HIS. ---------------YAR.LI-A ---------------YAR.LI-B ---------------SCH.POM. ---------------TET.THE. ---------------TET.ROS. ---------------TRY.BR-A ---------------TRY.BR-B ---------------LEP.COL. ---------------DRO.MEL. ---------------CAE.EL-A ---------------CAE.EL-B ---------------CAE.EL-C ---------------CAE.EL-D ---------------FUG.RUB. ---------------XEN.LAE. ---------------RAT.RAT. ---------------MUS.MU-A ---------------MUS.MU-B ---------------CAN.SPE. ---------------HOM.SA-A ---------------HOM.SA-B ---------------HOM.SA-C ----------------