Alignments: NC
{{{{{{{{,,,,,,{{{{{{{{{{-----{{{,,{{{{{{{{{{{[[,,,,,((((<<<________>>>,,,,,<<<<<<<--<<<_______>>>--- CS
RF02541 1 ggucaagcuauuAAggGCgcgcGGuGGAUGCCUuGGcgccgggaggCGAuGAgGGaCGcGguaagCugCGAuAAGCcccGgggAGccGcaAacAggCuuu 100
GGU:AAGC A UAA::G::C:CGGUGGAUGCC UGGC:::::GAGGCGAUGA:GGACG:G UAA CU:CGAUAAGC::CGG: AG::G +A A::C UU
rrlA 1 GGUUAAGCGACUAAGCGUACACGGUGGAUGCCCUGGCAGUCAGAGGCGAUGAAGGACGUGCUAAUCUGCGAUAAGCGUCGGUAAGGUGAUAUGAACCGUU 100
*************************************************************************************************888 PP
NC
-.->>>>>>>,,,)))),,,<<<____>>><<<<<<<______>>>>>>>,<<<<<<<<<_________>>>>>>>>>,]],,,<<<<<<-----<<___ CS
RF02541 101 G.AccCgggGAUuuCCcAAUgGGGaAACCcgcccgggguaauacccgggcAcccccggccGAAuacAUAggccgggggaGcaAACccgGgGAAcUGaAAC 199
A:CCG::GAUUUCC:AAUGGGGAAACCC:::::G: ++ :C:::::A:C:::::C:GAAU CAUA:G:::::G:+GC+AACC:GGGGAACUGAAAC
rrlA 101 AuAACCGGCGAUUUCCGAAUGGGGAAACCCAGUGUGU--UUCGACACACUAUCAUUAACUGAAUCCAUAGGUUAAUGAGGCGAACCGGGGGAACUGAAAC 198
77***********************************..6778********************************************************* PP
NC
_>>------>>>>>->,,,,,,,,,<<____>>,,{<<<<<-----<<_____>>---->>>>>,,[[[[,,,,<<<<<<<________>>>>>>>,,,, CS
RF02541 200 AuCUaAGUAcCcggAGGAAAAGAAAgcAAaagcgAuuCCccuAGUAGcGGCGAgCGAAaggGGaauaGcCcAAACcggggguuauuguucccccgGGGUu 299
AUCUAAGUACCC:GAGGAAAAGAAA:CAA G:GAUUCCCC AGUAGCGGCGAGCGAA+GGGGA AGCCCA
rrlA 199 AUCUAAGUACCCCGAGGAAAAGAAAUCAACCGAGAUUCCCCCAGUAGCGGCGAGCGAACGGGGAGCAGCCCA---------------------------- 270
**********************************************************************98............................ PP
v v NC
,,(((-(((((-------(((((((((((((-(((,,,<<<<<______>>>>>,,<___>,<<<_______>>>,,,)))---)))))))))))))--) CS
RF02541 300 gugGGacccccaaauuaagagccccccggcuAgccGAAcggccUGGAAaggccgaCCauAGagGGUGAuAGuCCcGUAggcgaAagccggggggcucuug 399
:::C + +A+:AG: ::::: :UAG::GAA :G:CUGGAAAG:C: +C:AUA:AGGGUGA AG+CCCGUA::C AAA: ::::: :CU:U
rrlA 271 ------GAGCCUG--AAUCAGUGUGUGUGUUAGUGGAAGCGUCUGGAAAGGCGUGCGAUACAGGGUGACAGCCCCGUACACAAAAAUGCACAUGCUGUGA 362
......9999988..899*********************************************************************************9 PP
NC
))))---))),,,,,<<<<<<<<<_______>>>>>>>>>,,,,,,<<<<<______>>>>>,,]]]],,},,}}-}}}}}}}-}},,,,,,,,,,,,,, CS
RF02541 400 gggguauCCcgAGUAgggCggggcAcGuGaAgccccGcccGAAuaugggggGACCAccccccAAGgCuAAaUAcuccccggcgACCGAUAGuGaAcuAGU 499
G:::+AU GAGUA:G:C:GG::ACGUG ::CC:G:C:GAAUAUGG:GGGACCA+CC:CCAAGGCUAAAUACUCC:::::GACCGAUAGUGAAC AGU
rrlA 363 GCUCGAU---GAGUAGGGCGGGACACGUGGUAUCCUGUCUGAAUAUGGGGGGACCAUCCUCCAAGGCUAAAUACUCCUGACUGACCGAUAGUGAACCAGU 459
9999998...****************************************************************************************** PP
NC
,<<____>>,,,,}},,,,,,,,,<<<<_____>>>>,,,,,,,,,,,,,}-----}}}}}}}}}},,,,,{,<<<<<<<<<<<________>>>>>>>> CS
RF02541 500 ACCGUGAGGGAAAGGUGAAAAGaACCCcggugAgGGGAGUGAAAuAGaaCCUGAAACCgcgcGCccACAAgcaGucGcggcccgauuuuaaucgggccgC 599
ACCGUGAGGGAAAGG GAAAAGAACCCCGG+GAGGGGAGUGAAA AGAACCUGAAACCG:G::C::ACAAGCAGU G:::C:CG UUA+ CG:G:::C
rrlA 460 ACCGUGAGGGAAAGGCGAAAAGAACCCCGGCGAGGGGAGUGAAAAAGAACCUGAAACCGUGUACGUACAAGCAGUGGGAGCACG--CUUAGGCGUGUGAC 557
************************************************************************************..667777******** PP
v v NC
>>>,,<<<<________>>>>{{{{{{,,,,(((((((((((((,,<<<<--<<<_____>>>-->>>>,,,<<____>>,<<<<<_____>>>>>,,,, CS
RF02541 600 ggCGUcCcUUUUGuAuAAgGggcCggCGAgUugccgcgcgcggCaAGguUAAgccugauaggcGuAgcCGuAGcGAAAgCGcGuCcgAAuAgGgCgauuA 699
GCGU C:UUUUGUAUAA:G G:C:GCGA UU::: :::G::GCAAGGUUAA:C +AUA G:G+AGCCG+AG:GAAA:CG:GUC:+AA :GGC:+U+A
rrlA 558 UGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACC-GAAUA-GGGGAGCCGAAGGGAAACCGAGUCUUAACUGGGCGUUAA 655
*****************************************************9.67777.99************************************* PP
NC
))))))))))))),,[[-[---[[[[[[,,,((((((((((((,<<<<---<<<<<<<____>>>>>>>---->>>>,,,<<<-<<<<<________>>> CS
RF02541 700 GucgcgcgcggcaGACcCGAAACcggGuGAuCuaccCauggcCAGGguGAAgccgggcUAAagcccgguGGAGgcCCGAACccacgcccGUUGAAAAggg 799
GU::C::: :::AGACCCGAAACC:GGUGAUC A:CCAUG :CAGG:UGAAG::: G:UAA+:C :::UGGAGG:CCGAACC:AC::::GUUGAAAA:::
rrlA 656 GUUGCAGGGUAUAGACCCGAAACCCGGUGAUCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUAAUGUUGAAAAAUU 755
**************************************************************************************************** PP
NC
>>>>>,,)-))))))))))),<<<_____>>>,,,,,,]]]]]]------]-]],,[[[[[[,,,,<<<<<____>>>>>,<<<<<<<<--<<<<<<<<< CS
RF02541 800 cgggGAUGAgcuguGgguaGgGGcGAAAggCCAAUCaAaCccgGaGAUAGCUgGUUCUCccCGAAAugccuUuAGgggcaGCgucgggcgaucccccccg 899
:G:GGAUGA: UGUGG:U GGGG:GAAAG:CCAAUCAAACC:GGAGAUAGCUGGUUCUCCCCGAAA::::UUUAGG::::GC:UCG:G:++UC::C:CCG
rrlA 756 AGCGGAUGACUUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAGAUAGCUGGUUCUCCCCGAAAGCUAUUUAGGUAGCGCCUCGUGAAUUCAUCUCCG 855
**************************************************************************************************** PP
v v NC
<<----<<<---<<<-<<<<---<<<<<<<____.>>>>>->>--->>>>->>>-->>->---->>>>>>>.>>>-->>>>>>>>->,,,<<<<<<<<<< CS
RF02541 900 gcGGUAgaGCACuggaugggcuAgGgggccuaaa.ggccuACcaAacccaaccaAACuccGAAUgccgggg.gggaaagcccggcAGucAgaccgcgggc 997
G GGUAGAGCACUG +U:GGC+AGGG:G:C + + G:C:UACCAA CC:A CAAACU CGAAU CCGG:G ::G++A:C:CGG:AG+CA:AC::CGGG:
rrlA 856 GGGGUAGAGCACUGUUUCGGCAAGGGGGUCAUCCcGACUUACCAACCCGAUGCAAACUGCGAAUACCGGAGaAUGUUAUCACGGGAGACACACGGCGGGU 955
******************************99989************************************99*************************** PP
vv NC
______>>>>>>>>>>,,,,<<<______>>>,,,((((-(((---(((------(-((((((-----------(((-((((((((((-------((((( CS
RF02541 998 GaUAAgguccgcggucgAgAGGGaAAcAaCCCAGAcCgcCagcUAAGGuCCCuAAgugcggGcUAAGUGggAAAGGcuGuggggccgCuaAgACAaCcaG 1097
G+UAA :UCCG::GU:+AGAGGGAAACAACCCAGACCGCCAGCUAAGGUCCC+AAGU:::GG:UAAGUGGGAAA:G:UGU:GG ::C AGACA:CCAG
rrlA 956 GCUAACGUCCGUCGUGAAGAGGGAAACAACCCAGACCGCCAGCUAAGGUCCCAAAGUCAUGGUUAAGUGGGAAACGAUGUGGGAAGGCCCAGACAGCCAG 1055
**************************************************************************************************** PP
vv NC
,<<<--<<<_________>>>-->>><___><---<<______>>->,)))))---)))))))))))))--------------------))))))))))- CS
RF02541 1098 GAgGUUGGCUUAGAAGCAGCCAUCcUuuAAaGAguGCGUAAuAGCUCACugGuCaAGcggccccgCgCCGAaAAUguaaCGGGGCUcAAgCccgccaCCG 1197
GA:GUUGGCUUAGAAGCAGCCAUC:UUUAAAGA++GCGUAAUAGCUCACUGG:C+AG:: CC:GC:C:GAA AUGUAACGGGGCU AA:CC:::CACCG
rrlA 1056 GAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCUCACUGGUCGAGUCGGCCUGCGCGGAAGAUGUAACGGGGCU-AAACCAUGCACCG 1154
**************************************************************************************.************* PP
vv vv NC
--)))))))<<<<<<<<_____>>>>>>>>,,,,]]]]]]<-<<<<<<<.<<<------<<<<<<<<____>>>>>>>>--->>>>>>>>>>-->,,,,, CS
RF02541 1198 AAgcugcGggcucgcgguuuaaccgcgagcGGUAGggGAGCguuccgcc.cgcgguGAAggcgccccGuaAggggcgccGGAgcgggcggaaGuGAgaAU 1296
AAGCUGCGG:: C ::: U++ ::: G ::GGUAGGGGAGCGUUC:G ::C+GUGAA:G: ::C:GU+A:G:: :C:GGAG:: C:GAAGUG GAAU
rrlA 1155 AAGCUGCGGCAGCGACACUAUGUGUUGUUGGGUAGGGGAGCGUUCUGUAaGCCUGUGAAGGUGUGCUGUGAGGCAUGCUGGAGGUAUCAGAAGUGCGAAU 1254
***********************************************9999************************************************* PP
v NC
}}}}}}{{-----{{,,,,,<<<<<<_______>>>>>>{{{{,,,,{{{{,,{{,,,<<<<<<---<<_____>>->>>>>>,,,,,,[[[[,<<---< CS
RF02541 1297 GccGgcacgAGUAgCGAuAAgggggGUGAGAAuCcccccCGCCGaAAgcCcAAGGuUUCCuggguAAgGuUaaUCcgcccaGGGUuAGuCGggaCCUAAG 1396
GC:G:CA:+AGUA:CGAUAA:G:GGGUGA AA CCC:C:CGCCG AAG:CCAAGG UUCCUG :+AA:GUUAAUC:G: CAGGGU AGUCG: +CCUAAG
rrlA 1255 GCUGACAUAAGUAACGAUAAAGCGGGUGAAAAGCCCGCUCGCCGGAAGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUGAGUCGACCCCUAAG 1354
**************************************************************************************************** PP
v NC
<<-<-<<<____>>>->->>>--->>,,,<<<<<________>>>>>,,(((((((((((-----((--((((((---((((--(((--(((((<<<<<< CS
RF02541 1397 gcGaGGccGAaAggCGuAgcCGAUGGaaAgcgGGUuAAuAuUCCcgcaCcgcccggggccuuuaagcgacGgggcGACgcagaaggcuaggcgcgcgggc 1496
:CGAGGCCGAAAGGCGUAG:CGAUGG+AA:C:GGUUAAUAUUCC:G:AC::: :G:::C: GCGA:G:GG GACG:AGAAGGCUA:G::::C:GG:
rrlA 1355 GCGAGGCCGAAAGGCGUAGUCGAUGGGAAACAGGUUAAUAUUCCUGUACUUGGUGUUACU-----GCGAAGGGGGGACGGAGAAGGCUAUGUUGGCCGGG 1449
************************************************************.....*********************************** PP
vv vv NC
__________>>>>>><<--<<<<---<<<.-<<<<<<<-<<_____>>>>>>>>>---.>>>--->>>>--->>,<<<<<<<____>>>>>>>,,)))) CS
RF02541 1497 uguuGGaagugcccgcccaagcccuuaggc.uggggggcAGguAAAucCgccccccaau.gccgaggggcgaugggccgccgcuuaagcggcggaggcgc 1594
G+ GG++GU:CC:G:::AA:C::+UA:GC + :::::CAGG+AAAUCCG::::: A+ GC:GAG::G:GAU:: :C:CU+ +G:G: AG:::C
rrlA 1450 CGACGGUUGUCCCGGUUUAAGCGUGUAGGCuGGUUUUCCAGGCAAAUCCGGAAAAUCAAgGCUGAGGCGUGAUGACGAGGCACUACGGUGCUGAAGCAAC 1549
******************************999999999**********99999998888**************************************** PP
v v NC
)---)))---))))--------))))))--))---.)))))))))))]]]],,}},,,,,<<______>>,}}}},<<<<_____>>>>,,}}}},,{{{ CS
RF02541 1595 cgaagccaugcugcCaaGAAAAgcccCgaagcuaa.ggccccgggcgccCGUACCguAAACCGACACAGGUgGgcagGgaGAGaAucCcaAGGCGcucGg 1693
:+A+GCC UGCU:CCA GAAAA CC:C:AAGC++ :G:::C: ::: :CGUACC +AAACCGACACAGGUGG:CAGG:AGAGAAU:CCAAGGCGCU:G:
rrlA 1550 AAAUGCCCUGCUUCCAGGAAAAGCCUCUAAGCAUCaGGUAACAUCAAAUCGUACCCCAAACCGACACAGGUGGUCAGGUAGAGAAUACCAAGGCGCUUGA 1649
*********************************989**************************************************************** PP
vv vv NC
{----{{{{{{{{-{{{,,,,,,,,,,,,,,<<<<<---<<____>>---->>>>><<<<<<................<<<<<<____>>>>>>...>>> CS
RF02541 1694 GagAAcccuggucAAGgAACUCGGCAAAaUagcccCGUAccUUcGggAgAAGgggcgCCccc................ccgggcguaagcccgg...ggg 1774
GAGAAC:C:GGU:AAGGAACU GGCAAAAU+G::CCGUA:CUUCGG:AGAAGG::C:C:::: G::CGU G::C :::
rrlA 1650 GAGAACUCGGGUGAAGGAACUAGGCAAAAUGGUGCCGUAACUUCGGGAGAAGGCACGCUGAUauguaggugaagcgacUUGCUCGU-GGAGCU-gaaAUC 1747
**************************************************************997776666666555444444433.244444.488*** PP
NC
>>><___>,,,,,,,[[[[[[[[[,,<<<_________>>>,,<<<<<<<<<--<<<<____>>>>-->-->>>>>>>>,,((((,<<<--<<<<<<<-- CS
RF02541 1775 GGccGCAgagAauaGGcccgggCGACUGuUUAccAAAAaCACAggccucugCuAagucGuAAgacgAuGUAuaggggcuGAcGCCUGCCCGGUgCcgGAA 1874
:G:CG AGA A AG::::: :C:ACUGUUUA++AAAAACACAG::CU:UGC+AA::CG+AAG::GA+GUAUA:GG::UGACGCCUGCCCGGUGCCGGAA
rrlA 1748 AGUCGAAGAUACCAGCUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCAAACACGAAAGUGGACGUAUACGGUGUGACGCCUGCCCGGUGCCGGAA 1847
**************************************************************************************************** PP
vv vv vv vv NC
<<<---<<-<<<<<<<--<<.____.>>--->>>>>>>->>--->>>>>>>>-->>>>><<<<<<_______>>>>>><___>,,,,,<---------<< CS
RF02541 1875 GGuUAAgggccgggGuuAgc.GcaA.gcgAAgCcccggAccgAAgCCCcgGuAAACGGCGgCCGUAACUAUAACGGuCCUAAGGUAGCGAAAUUCCUUGu 1972
GGUUAA G :G:GUUAGC GCAA GCGAAGC:C: A GAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGU
rrlA 1848 GGUUAAUUGAUGGGGUUAGCcGCAAgGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGU 1947
*******************99888889************************************************************************* PP
NC
<<<<_____>>>>>>>,,,,,,,,,)))),,,]]-]]]]]]],,,,}}}-}}}}}}}}-}}}}}}----}}},,,,<<<<<________>>>>>,,{{{{ CS
RF02541 1973 CGGgUAAGUuCCGaCCuGCACGAAuGGCgUAACGAcccgggCgCUGuCUCgaccagggaCcCgGcGAAAguguAgUgccgGUgAAGAUGCcggcUaCcCg 2072
CGGGUAAGUUCCGACCUGCACGAAUGGCGUAA:GA: :::::GCUGUCUC:ACC:G:GAC:C:G:GAAA:UG+A U: C:GUGAAGAUGC:G :UACCC:
rrlA 1948 CGGGUAAGUUCCGACCUGCACGAAUGGCGUAAUGAUGGCCAGGCUGUCUCCACCCGAGACUCAGUGAAAUUGAACUCGCUGUGAAGAUGCAGUGUACCCG 2047
**************************************************************************************************** PP
v NC
{{{{-{{{-{{,,,,,,{{{{-{{{{{{{,((((---(((((((,,<<<<<<<<<<<<<<<<<<---------<<<<<--<<<------<<<<<<<<___ CS
RF02541 2073 CggcugGACgGAAAGACCCCGUGgAcCUUUACUguAgccuggcauUGgcccccggcgcggcccGUguAGgAUAgGuGGGAGgCuuuGAAgccggggcgcu 2172
CGGC+:GACGGAAAGACCCCGUG:ACCUUUACU:UAGC::G:CA UG::C::::: : :: ::GUGUAGGAUAGGUGGGAGGCUUUGAA:::::G:CGC+
rrlA 2048 CGGCAAGACGGAAAGACCCCGUGAACCUUUACUAUAGCUUGACACUGAACAUUGAGCCUUGAUGUGUAGGAUAGGUGGGAGGCUUUGAAGUGUGGACGCC 2147
**************************************************************************************************** PP
v NC
_>>>>>>>>--->>>------------>>>>>>>>>>>>>>>>>>>>>>>,,,<<<-<<<<<<_____>>>>>>>>>,,,,,)))))))----)))),,< CS
RF02541 2173 AgccccggcGGAGcCaacguUGAaAUACCaCcCgggccgcgccgggggcCUAACccagccccguaAuccggggcggGGACagugccagguGGGcAGUUUG 2272
AG:C:::::GGAGCC+AC UUGAAAUACCACCC:: :: : :::::G::CUAAC::+ :CCCGUAAUCCGGG: ::GGACAGUG:C::GUGGG:AGUUUG
rrlA 2148 AGUCUGCAUGGAGCCGACCUUGAAAUACCACCCUUUAAUGUUUGAUGUUCUAACGUUGACCCGUAAUCCGGGUUGCGGACAGUGUCUGGUGGGUAGUUUG 2247
**************************************************************************************************** PP
NC
<<<_____>>>><<<<<<___________>>>>>>{,[[,,,,((((((<<-<<<<<<_______>>>>>>--->><<______>>,,,,)))))),,,, CS
RF02541 2273 aCuGGGGCgGuCgCCUCCuAAAgaGUAACGGAGGcGcgCaAAGGuuccCUCAgcgcGguuGGaAAcCgcgcguaGAGcGcAAaggCAuAAGggagCuUgA 2372
ACUGGGGCGGUC:CCUCCUAAAGAGUAACGGAGG:GC:C+AAGGUU::CU:A:C::G:U+GGA A:C::G:G +:AG:GCAA+G:CAUAAG::AGCUUGA
rrlA 2248 ACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAGUGCAAUGGCAUAAGCCAGCUUGA 2347
**************************************************************************************************** PP
NC
<<<<<<<<<______>>>>>>>>>,<<<____>>>,]],,,,,,,,,,<<<<<<<-<<________>>>>>>>>>,,,,,},,,,,,}}}}}--}}}}}} CS
RF02541 2373 CuGcccGacugACAaguCgggCaGaggCGAAAGccGGccuUAGUGAUCCggcGGcuccgagUGGaAgggCCgucGCUCAACGGAUAAAAGgUACcCCGGG 2472
CUGC::G::UGAC ::C::GCAG+:GCGAAAGC:GG:C+UAGUGAUCCGG:GG:UC:GA+UGGAA:G:CC:UCGCUCAACGGAUAAAAGGUAC:CCGGG
rrlA 2348 CUGCGAGCGUGACGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGG 2447
**************************************************************************************************** PP
NC
,,,,,,,,<<<-<<<<<<<<---<<_______>>--->>>>>>>-->>>>,,,,,,,,,,(((((((((((,,<<-<<<<<<______>>>>>>--->>, CS
RF02541 2473 GAUAACAGGCugAucccccCCAAGaGUuCAuAuCGACGggggggUUUgGCACCUCGAUGUCgGCUCauCgCAUCCUGGGgCuGgAGuAgGuCCCAAGGGU 2572
GAUAACAGGCUGAU:CC:CCCAAGAGUUCAUAUCGACGG:GG:GUUUGGCACCUCGAUGUCGGCUCAUC:CAUCCUGGGGCUG+AGUAGGUCCCAAGGGU
rrlA 2448 GAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCAAGGGU 2547
**************************************************************************************************** PP
NC
<<<<<_____>>>>>,,,,,)))))--)--))))-),,,,,<<<<<<<____>>>->>>>,,,,}}--}}}}}}}}}}},,,,((((((((--((((,,< CS
RF02541 2573 ucGGCUGUUCGCCgaUUAAAGcGguACGuGAGCuGGGUUcAGaaCGUCGUGAGACAGuuCGGUCCcUAUCcgccGcGgGcGuaGGaggccUGAggGgauc 2672
::GGCUGUUCGCC::UUAAAG:GGUACG+GAGCUGGGUU+AGAACGUCGUGAGACAGUUCGGUCCCUAUC:GCCG:GGGCG +GGAG::CUGAGGGG +C
rrlA 2548 AUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGGCGCUGGAGAACUGAGGGGGGC 2647
**************************************************************************************************** PP
NC
<<<<<<_______________>>>>>>><<<<<<---<<<----<<<<<<<<<<<____>>>>>>-->>>>>---->>>->>>>>>,,<<<----<<<<< CS
RF02541 2673 cgccccUAGUACGAGAGGACCggggcgggCggaCCucugGUGuacCgGuuGucgcGCcAgcggCauugCcGgGUAGCcauGuccGcaaggGAUAAcCGCU 2772
::C:CCUAGUACGAGAGGACCGG:G::G:CG:A:C+CU:GUGU C:GGUUGUC::GCCA::GGCA UGCC:GGUAGC:A+:U:CG:AA :GAUAA::GCU
rrlA 2648 UGCUCCUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGUUCGGGUUGUCAUGCCAAUGGCACUGCCCGGUAGCUAAAUGCGGAAGAGAUAAGUGCU 2747
**************************************************************************************************** PP
vv vv NC
___________>>>>>---->>>,))))------)))))))),,<<<...._____>>>.,(--((((<<<<<_______>>>>>,,,,<<<<<<<<<<< CS
RF02541 2773 GAAaGCAUCUAAGCGgGAAgCccacCccAAGAuaAggccuCCcucgg....uaaauccg.uuaAGgccccuggaAGAcuAccaggUuGAuaGgccggcgG 2867
GAAAGCAUCUAAGC::GAA+C: CCCC AGAU AG::CUCCCU::: U A +::: U AAGG C:U:GAAGAC AC:A:GUUGAUAGGCCGG G
rrlA 2748 GAAAGCAUCUAAGCACGAAACUUGCCCCGAGAUGAGUUCUCCCUGACuccuUGAGAGUCcUGAAGGAACGUUGAAGACGACGACGUUGAUAGGCCGGGUG 2847
***********************************************988656677999789************************************** PP
vv vv NC
--<--<<<<<____>>>>>>--->>>->>>>>->>>,,,))))-),,,}}}}}}}}:: CS
RF02541 2868 UGcAAgcgcgGuAAcgcgcguAGCcgAccgguACuaAUaggcCgauaggcuugaccuu 2925
UG:AA:CGC:G+ A:GCG:: AGC ACCGGUACUAAU CCG AGGCUU:ACCUU
rrlA 2848 UGUAAGCGCAGCGAUGCGUUGAGCUAACCGGUACUAAUGAACCGUGAGGCUUAACCUU 2905
********************************************************** PP
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