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
rrlD 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
rrlD 101 AuAACCGGCGAUUUCCGAAUGGGGAAACCCAGUGUGU--UUCGACACACUAUCAUUAACUGAAUCCAUAGGUUAAUGAGGCGAACCGGGGGAACUGAAAC 198
77***********************************..6778********************************************************* PP
NC
_>>------>>>>>->,,,,,,,,,<<____>>,,{<<<<<-----<<_____>>---->>>>>,,[[[[,,,,<<<<<<<________>>>>>>>,,,, CS
RF02541 200 AuCUaAGUAcCcggAGGAAAAGAAAgcAAaagcgAuuCCccuAGUAGcGGCGAgCGAAaggGGaauaGcCcAAACcggggguuauuguucccccgGGGUu 299
AUCUAAGUACCC:GAGGAAAAGAAA:CAA G:GAUUCCCC AGUAGCGGCGAGCGAA+GGGGA AGCCCA
rrlD 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
rrlD 271 ------GAGCCUG--AAUCAGUGUGUGUGUUAGUGGAAGCGUCUGGAAAGGCGCGCGAUACAGGGUGACAGCCCCGUACACAAAAAUGCACAUGCUGUGA 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
rrlD 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
rrlD 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
rrlD 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:::
rrlD 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
rrlD 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:
rrlD 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
rrlD 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
rrlD 1056 GAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCUCACUGGUCGAGUCGGCCUGCGCGGAAGAUGUAACGGGGCU-AAACCAUGCACCG 1154
**************************************************************************************.************* PP
vv vv NC
--)))))))<<<<<<<<._____>>>>>>>>,,,,]]]]]]<-<<<<<<<.<<<------<<<<<<<<____>>>>>>>>--->>>>>>>>>>-->,,,, CS
RF02541 1198 AAgcugcGggcucgcgg.uuuaaccgcgagcGGUAGggGAGCguuccgcc.cgcgguGAAggcgccccGuaAggggcgccGGAgcgggcggaaGuGAgaA 1295
AAGCUGCGG:: C ::G UU++ C:: G ::GGUAGGGGAGCGUUC:G ::C+G GAA:G: ::C:GU+A:G:: :C:GGAG:: C:GAAGUG GAA
rrlD 1155 AAGCUGCGGCAGCGACGcUUAUGCGUUGUUGGGUAGGGGAGCGUUCUGUAaGCCUGCGAAGGUGUGCUGUGAGGCAUGCUGGAGGUAUCAGAAGUGCGAA 1254
*****************888899*************************9999************************************************ PP
v NC
,}}}}}}{{-----{{,,,,,<<<<<<_______>>>>>>{{{{,,,,{{{{,,{{,,,<<<<<<---<<_____>>->>>>>>,,,,,,[[[[,<<--- CS
RF02541 1296 UGccGgcacgAGUAgCGAuAAgggggGUGAGAAuCcccccCGCCGaAAgcCcAAGGuUUCCuggguAAgGuUaaUCcgcccaGGGUuAGuCGggaCCUAA 1395
UGC:G:CA:+AGUA:CGAUAA:G:GGGUGA AA CCC:C:CGCCG AAG:CCAAGG UUCCUG :+AA:GUUAAUC:G: CAGGGU AGUCG: +CCUAA
rrlD 1255 UGCUGACAUAAGUAACGAUAAAGCGGGUGAAAAGCCCGCUCGCCGGAAGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUGAGUCGACCCCUAA 1354
**************************************************************************************************** PP
v NC
<<<-<-<<<____>>>->->>>--->>,,,<<<<<________>>>>>,,(((((((((((-----((--((((((---((((--(((--(((((<<<<< CS
RF02541 1396 GgcGaGGccGAaAggCGuAgcCGAUGGaaAgcgGGUuAAuAuUCCcgcaCcgcccggggccuuuaagcgacGgggcGACgcagaaggcuaggcgcgcggg 1495
G:CGAGGCCGAAAGGCGUAG:CGAUGG+AA:C:GGUUAAUAUUCC:G:AC::: :G:::C: GCGA:G:GG GACG:AGAAGGCUA:G::::C:GG
rrlD 1355 GGCGAGGCCGAAAGGCGUAGUCGAUGGGAAACAGGUUAAUAUUCCUGUACUUGGUGUUACU-----GCGAAGGGGGGACGGAGAAGGCUAUGUUGGCCGG 1449
*************************************************************.....********************************** PP
vv vv NC
<__________>>>>>><<--<<<<---<<<.-<<<<<<<-<<_____>>>>>>>>>---.>>>--->>>>--->>,<<<<<<<____>>>>>>>,,))) CS
RF02541 1496 cuguuGGaagugcccgcccaagcccuuaggc.uggggggcAGguAAAucCgccccccaau.gccgaggggcgaugggccgccgcuuaagcggcggaggcg 1593
: G+ GG++GU:CC:G:::AA:C::+UA:GC + :::::CAGG+AAAUCCG::::: A+ GC:GAG::G:GAU:: :C:CU+ +G:G: AG:::
rrlD 1450 GCGACGGUUGUCCCGGUUUAAGCGUGUAGGCuGGUUUUCCAGGCAAAUCCGGAAAAUCAAgGCUGAGGCGUGAUGACGAGGCACUACGGUGCUGAAGCAA 1549
*******************************999999999**********99999998888*************************************** PP
v v NC
))---)))---))))--------))))))--))---.)))))))))))]]]],,}},,,,,<<______>>,}}}},<<<<_____>>>>,,}}}},,{{ CS
RF02541 1594 ccgaagccaugcugcCaaGAAAAgcccCgaagcuaa.ggccccgggcgccCGUACCguAAACCGACACAGGUgGgcagGgaGAGaAucCcaAGGCGcucG 1692
C:+A+GCC UGCU:CCA GAAAA CC:C:AAGC++ :G:::C: ::: :CGUACC +AAACCGACACAGGUGG:CAGG:AGAGAAU:CCAAGGCGCU:G
rrlD 1550 CAAAUGCCCUGCUUCCAGGAAAAGCCUCUAAGCAUCaGGUAACAUCAAAUCGUACCCCAAACCGACACAGGUGGUCAGGUAGAGAAUACCAAGGCGCUUG 1649
**********************************989*************************************************************** PP
vv vv NC
{{----{{{{{{{{-{{{,,,,,,,,,,,,,,<<<<<---<<____>>---->>>>><<<<<<................<<<<<<____>>>>>>...>> CS
RF02541 1693 gGagAAcccuggucAAGgAACUCGGCAAAaUagcccCGUAccUUcGggAgAAGgggcgCCccc................ccgggcguaagcccgg...gg 1773
:GAGAAC:C:GGU:AAGGAACU GGCAAAAU+G::CCGUA:CUUCGG:AGAAGG::C:C:::: G::CGU G::C ::
rrlD 1650 AGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGUGCCGUAACUUCGGGAGAAGGCACGCUGAUauguaggugaagcgacUUGCUCGU-GGAGCU-gaaAU 1747
***************************************************************997776666666555444444433.244444.488** PP
NC
>>>><___>,,,,,,,[[[[[[[[[,,<<<_________>>>,,<<<<<<<<<--<<<<____>>>>-->-->>>>>>>>,,((((,<<<--<<<<<<<- CS
RF02541 1774 gGGccGCAgagAauaGGcccgggCGACUGuUUAccAAAAaCACAggccucugCuAagucGuAAgacgAuGUAuaggggcuGAcGCCUGCCCGGUgCcgGA 1873
::G:CG AGA A AG::::: :C:ACUGUUUA++AAAAACACAG::CU:UGC+AA::CG+AAG::GA+GUAUA:GG::UGACGCCUGCCCGGUGCCGGA
rrlD 1748 CAGUCGAAGAUACCAGCUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCAAACACGAAAGUGGACGUAUACGGUGUGACGCCUGCCCGGUGCCGGA 1847
**************************************************************************************************** PP
vv vv vv vv NC
-<<<---<<-<<<<<<<--<<____>>--->>>>>>>->>--->>>>>>>>-->>>>><<<<<<_______>>>>>><___>,,,,,<-.--------<< CS
RF02541 1874 AGGuUAAgggccgggGuuAgcGcaAgcgAAgCcccggAccgAAgCCCcgGuAAACGGCGgCCGUAACUAUAACGGuCCUAAGGUAGCGA.AAUUCCUUGu 1972
AGGUUAA G :G:GUUAGCGCAAGCGAAGC:C: A GAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGA AAUUCCUUGU
rrlD 1848 AGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAaAAUUCCUUGU 1947
****************************************************************************************725799****** PP
NC
<<<<_____>>>>>>>,,,,,,,,,)))),,,]]-]]]]]]],,,,}}}-}}}}}}}}-}}}}}}----}}},,,,<<<<<________>>>>>,,{{{{ CS
RF02541 1973 CGGgUAAGUuCCGaCCuGCACGAAuGGCgUAACGAcccgggCgCUGuCUCgaccagggaCcCgGcGAAAguguAgUgccgGUgAAGAUGCcggcUaCcCg 2072
CGGGUAAGUUCCGACCUGCACGAAUGGCGUAA:GA: :::::GCUGUCUC:ACC:G:GAC:C:G:GAAA:UG+A U: C:GUGAAGAUGC:G :UACCC:
rrlD 1948 CGGGUAAGUUCCGACCUGCACGAAUGGCGUAAUGAUGGCCAGGCUGUCUCCACCCGAGACUCAGUGAAAUUGAACUCGCUGUGAAGAUGCAGUGUACCCG 2047
**************************************************************************************************** PP
v NC
{{{{-{{{-{{,,,,,,{{{{-{{{{{{{,((((---(((((((,,<<<<<<<<<<<<<<<<<<---------<<<<<--<<<------<<<<<<<<___ CS
RF02541 2073 CggcugGACgGAAAGACCCCGUGgAcCUUUACUguAgccuggcauUGgcccccggcgcggcccGUguAGgAUAgGuGGGAGgCuuuGAAgccggggcgcu 2172
CGGC+:GACGGAAAGACCCCGUG:ACCUUUACU:UAGC::G:CA UG::C::::: : :: ::GUGUAGGAUAGGUGGGAGGCUU+GAA:::::G:CGC+
rrlD 2048 CGGCAAGACGGAAAGACCCCGUGAACCUUUACUAUAGCUUGACACUGAACAUUGAGCCUUGAUGUGUAGGAUAGGUGGGAGGCUUAGAAGUGUGGACGCC 2147
**************************************************************************************************** PP
v NC
_>>>>>>>>--->>>------------>>>>>>>>>>>>>>>>>>>>>>>,,,<<<-<<<<<<_____>>>>>>>>>,,,,,)))))))----)))),,< CS
RF02541 2173 AgccccggcGGAGcCaacguUGAaAUACCaCcCgggccgcgccgggggcCUAACccagccccguaAuccggggcggGGACagugccagguGGGcAGUUUG 2272
AG:C:::::GGAGCC+AC UUGAAAUACCACCC:: :: : :::::G::CUAAC::+ :CCCGUAAUCCGGG: ::GGACAGUG:C::GUGGG:AGUUUG
rrlD 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
rrlD 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
rrlD 2348 CUGCGAGCGUGACGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGG 2447
**************************************************************************************************** PP
NC
,,,,,,,,<<<-<<<<<<<<---<<_______>>--->>>>>>>-->>>>,,,,,,,,,,(((((((((((,,<<-<<<<<<______>>>>>>.--->> CS
RF02541 2473 GAUAACAGGCugAucccccCCAAGaGUuCAuAuCGACGggggggUUUgGCACCUCGAUGUCgGCUCauCgCAUCCUGGGgCuGgAGuAgGuCCC.AAGGG 2571
GAUAACAGGCUGAU:CC:CCCAAGAGUUCAUAUCGACGG:GG:GUUUGGCACCUCGAUGUCGGCUCAUC:CAUCCUGGGGCUG+AGUAGGUCCC AAGGG
rrlD 2448 GAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCcAAGGG 2547
******************************************************************************************987659**** PP
v v NC
,<<<<<_____>>>>>,,,,,)))))--)--))))-),,,,,<<<<<<<____>>>->>>>,,,,}}--}}}}}}}}}}},,,,((((((((--((((,, CS
RF02541 2572 UucGGCUGUUCGCCgaUUAAAGcGguACGuGAGCuGGGUUcAGaaCGUCGUGAGACAGuuCGGUCCcUAUCcgccGcGgGcGuaGGaggccUGAggGgau 2671
U::G CUGUUCGCC::UUAAAG:GGUACG+GAGCUGGGUU+AGAACGUCGUGAGACAGUUCGGUCCCUAUC:GCCG:GGGCG +GGAG::CUGAGGGG +
rrlD 2548 UAUG-CUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGGCGCUGGAGAACUGAGGGGGG 2646
***5.*********************************************************************************************** PP
v v NC
<<<<<<<_______________>>>>>>><<<<<<---<<<----<<<<<<<<<<<____>>>>>>-->>>>>---->>>->>>>>>,,<<<----<<<< CS
RF02541 2672 ccgccccUAGUACGAGAGGACCggggcgggCggaCCucugGUGuacCgGuuGucgcGCcAgcggCauugCcGgGUAGCcauGuccGcaaggGAUAAcCGC 2771
C::C:CCUAGUACGAGAGGACCGG:G::G:CG:A:C+CU:GUGU C:GGUUGUC::GCCA::G CA UGCC:GGUAGC:A+:U:CG:AA :GAUAA::GC
rrlD 2647 CUGCUCCUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGUUCGGGUUGUCAUGCCAAUG-CACUGCCCGGUAGCUAAAUGCGGAAGAGAUAAGUGC 2745
*************************************************************95.************************************ PP
vv vv NC
<___________>>>>>---->>>,))))------)))))))),,<<<...._____>>>.,(--((((<<<<<_______>>>>>,,,,<<<<<<<<<< CS
RF02541 2772 UGAAaGCAUCUAAGCGgGAAgCccacCccAAGAuaAggccuCCcucgg....uaaauccg.uuaAGgccccuggaAGAcuAccaggUuGAuaGgccggcg 2866
UGAAAGCAUCUAAGC::GAA+C: CCCC AGAU AG::CUCCCU::: UAA ::: U AAGG C:U:GAAGAC AC:A:GUUGAUAGGCCGG
rrlD 2746 UGAAAGCAUCUAAGCACGAAACUUGCCCCGAGAUGAGUUCUCCCUGACccuuUAAGGGUCcUGAAGGAACGUUGAAGACGACGACGUUGAUAGGCCGGGU 2845
**********************************************99998655666999789************************************* PP
vv vv NC
<--<--<<<<<____>>>>>>--->>>->>>>>->>>,,,))))-),,,}}}}}}}}:: CS
RF02541 2867 GUGcAAgcgcgGuAAcgcgcguAGCcgAccgguACuaAUaggcCgauaggcuugaccuu 2925
GUG:AA:CGC:G+ A:GCG:: AGC ACCGGUACUAAU CCG AGGCUU:ACCUU
rrlD 2846 GUGUAAGCGCAGCGAUGCGUUGAGCUAACCGGUACUAAUGAACCGUGAGGCUUAACCUU 2904
*********************************************************** PP
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