Alignments: NC
::::::::<<<<<_______>>>>>,{{{{-{{{{{{,{{{{{{{{{----{{{-{{{,,<<<--<<<<<-....<<<<<<<_ CS
RF00177 1 uuuauggAGaGuuUGAUCcUggCuCAGggcGaaCGCuGGCGGcgcGcuUaAcaCAuGCAAGuCGagcccca....cggggccu 79
++++UG+AGAGUUUGAUC UGGCUCAG:::GAACGCUGGCGGC::GC+UAACACAUGCAAGUCGA:C:::A ::G:::
gi_545778205_gb_U000 223771 AAAUUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAACGGUAacagGAAGAAGC 223853
**********************************************************************9999999999999 PP
v v v NC
___>>>>>>>...->>->>>>>>,,,,,,[[[,,,,,,((((((((--((---(((((((,<<<<----<<<<<<<____>>> CS
RF00177 80 uaaggccccg...agggggcGgCGaAcGGGuGAGUAAcgCGcgggcAAccUacCcccgggugcgGgAUAccccccgGAAAcgg 159
U++:::C:: +::G:G:GGCG ACGGGUGAGUAA+::::GGG A:CU+CC :::GG+G GGGAUA C::C:GGAAAC:G
gi_545778205_gb_U000 223854 UUGCUUCUUUgcuGACGAGUGGCGGACGGGUGAGUAAUGUCUGGGA-AACUGCCUGAUGGAGGGGGAUAACUACUGGAAACGG 223935
99999999999999********************************.9*********************************** PP
v v v NC
>>>>----->>>>,,,,,<<<<<<<<<<____>>>>>>>>>>,,,,<<<..........._____>>>,)))))))--))))) CS
RF00177 160 ggggUAAUACcgcAUaaugccccggcccguaugggccggggcuAAAGgc...........auuuagcCGcccgggGAugggcc 231
::G UAAUACC CAUAA ::CG+A+G:: AAA::: ++:::GCC::: GAUG: CC
gi_545778205_gb_U000 223936 UAGCUAAUACCGCAUAAC-------GUCGCAAGAC-------CAAAGAGggggaccuucgGGCCUCUUGCCAUCGGAUGUGCC 224004
******************.......9********9.......******99****99877655556****************** PP
NC
)))))<<<--<-<<<--<<<<<<<<_______>>>>>>>>>>>----->>>>,,<<<<<<<<____>>>>--->>>>]]],<< CS
RF00177 232 cgCGccccAUcAGcuAGuuGGuggGGUAAuGGCccaCCaaggCgAuGAggggUAGccGgccuGAGAgggcGauCggCCaCAcu 314
C:::::::AU:AGCUAGU:GGUG:GGUAA GGC:CACC:AGGCGA+GA::::UAGC:G::CUGAGAGG::GA C:GCCACACU
gi_545778205_gb_U000 224005 CAGAUGGGAUUAGCUAGUAGGUGGGGUAACGGCUCACCUAGGCGACGAUCCCUAGCUGGUCUGAGAGGAUGACCAGCCACACU 224087
*********************************************************************************** PP
NC
<<<<__________>>>>>>,<<<<____>>>>,,,}}}}}}-},,,,,<-<<<---<<<<<____>>>>>->>>>,}}-}}} CS
RF00177 315 GGgaCUGAGAcACGgcCCagACuCCUACGGGaGGCAGCaGugggGAAUauUgcgCAAugGgcGaAAgcCugAcgcaGCgAcgC 397
GG:ACUGAGACACGG:CCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGC:CAAUGGGCG AAGCCUGA:GCAGC:A:GC
gi_545778205_gb_U000 224088 GGAACUGAGACACGGUCCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGCACAAUGGGCGCAAGCCUGAUGCAGCCAUGC 224170
*********************************************************************************** PP
v NC
}}},,<<<<------<<<<____>>>>----->>>>,,,<<<<<<<---<-----<<<___........______>>>----- CS
RF00177 398 CGCGUGgggGAuGAAggccUUcGggccGUAAAcccCUuUcccggGgGAagAaaaaccgaua........uuuuaucgguuuGA 472
CGCGUG:::GA+GAA::CCUUCGGG::GUAAA:::CUUUC ::GGGGA GAA ::G++A UU+ C::+UUGA
gi_545778205_gb_U000 224171 CGCGUGUAUGAAGAAGGCCUUCGGGUUGUAAAGUACUUUCAGCGGGGAGGAAG-GGAGUAAaguuaauaCCUUUGCUCAUUGA 224252
**************************************************998.7888888899988754445558999**** PP
v NC
>---->>>>>>--->,,<<<<<------<<<<<-----<<____>>------->>>>>>>>>>,}}}}}}}}}},,,,,,,,, CS
RF00177 473 cggUAcCccgggAagAAGcccCGGCUAAcuccGUGCCAGCAGCCGCGGUAAuACggagGgggCaaGCGuugccCGGAaUuAuU 555
CG UACCC:: GAAGAAGC:CCGGCUAACUCCGUGCCAGCAGCCGCGGUAAUACGGAGGG:GCAAGCGUU:::CGGAAUUA+U
gi_545778205_gb_U000 224253 CGUUACCCGCAGAAGAAGCACCGGCUAACUCCGUGCCAGCAGCCGCGGUAAUACGGAGGGUGCAAGCGUUAAUCGGAAUUACU 224335
*********************************************************************************** PP
v v v NC
,{{{-----{,[[[[-[-[[[,<<<<<<<-<<<<<<<<<<<----<<<<<<<_____>>>>>>>-->>>>>>>>>-->>>>>> CS
RF00177 556 GGGcGUAAAGgGcgcGcAgGcGGcccggcAaGucgggcgcgAAAucccgcgGCUcAACcgcgggaucgcgcccgaaACugccg 638
GGGCGUAAAG GC:CG AGGCGG:::G::AAGUC:G::G::AAAU CC: GGCUCAACC :GG A+::C::C:GA+ACU::C:
gi_545778205_gb_U000 224336 GGGCGUAAAGCGCACGCAGGCGGUUUGUUAAGUCAGAUGUGAAAUCCCCGGGCUCAACCUGGGAACUGCAUCUGAUACUGGCA 224418
*********************************************************************************** PP
v v NC
>>>,,,(((((((((--(((((((<<--<<<<<<<<---<<<______>>>------>>>>>>>>-->>,,,,<--<<____> CS
RF00177 639 ggCUuGaGuccggccGAgGggggcggAAcucccgguGUAGcgGUGAAAugCGUAGAuaucgggagGAacACCacugGCGAAGG 721
::CUUGAGU ::G::GAGGGGGG::GAA:UCC:GGUGUAGCGGUGAAAUGCGUAGA AUC:GGA:GAA:ACC+ UGGCGAAGG
gi_545778205_gb_U000 224419 AGCUUGAGUCUCGUAGAGGGGGGUAGAAUUCCAGGUGUAGCGGUGAAAUGCGUAGAGAUCUGGAGGAAUACCGGUGGCGAAGG 224501
*********************************************************************************** PP
v v v NC
>>)))))))-))))))-))),,,]]]]--]]]],,,,<<<<<<---<<---<<<<_________>>>>--->>>>>>>>,,,, CS
RF00177 722 CggccccCuGggccgguaCuGACgCugAggcgCGAAAGCguGGGgAgCaAAcgGGAUUAGAUACCCcgGUAGuCCacGCcgUA 804
C :CCCCCUG::C:: ACUGACGCU AGG:GCGAAAGCGUGGGGAGCAAAC:GGAUUAGAUACCC:GGUAGUCCACGCCGUA
gi_545778205_gb_U000 224502 CGGCCCCCUGGACGAAGACUGACGCUCAGGUGCGAAAGCGUGGGGAGCAAACAGGAUUAGAUACCCUGGUAGUCCACGCCGUA 224584
*********************************************************************************** PP
NC
,,,,,,((((((,,<<<<<<<<<<<<_____>>>>>>>>>>>>,,,<<____>>,,,,,))))))}}}},<<<------<<<< CS
RF00177 805 AACGAUGggcgCUAGgcgccggggggauuaaccccccggcgcCgaAGcuAAcgCauUAAGcgccCCgCCUGgGGAgUACggcC 887
AACGAUG::::CU GG::: : G:: UU A::C : :::CCG AGCUAACGC+UUAAG::::CCGCCUGGGGAGUACG:CC
gi_545778205_gb_U000 224585 AACGAUGUCGACUUGGAGGUUGUGCCCUUGAGGCGUGGCUUCCGGAGCUAACGCGUUAAGUCGACCGCCUGGGGAGUACGGCC 224667
*********************************************************************************** PP
NC
____>>>>---->>>,,,,,,,,{{{{{-{{{{{{{-{{,,{{{{{{{{{{{{{{{{{,,,,<<<<________>>>>,,,,, CS
RF00177 888 GCAAGgcugAAACuCAAAGGAAUuGaCgGgGgCCCGCaCAAGCGguGgagcauGuGGuUUAAuuCGAuGcaAcgCGaaGAACC 970
GCAAGG:U+AAACUCAAA GAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAUGCAACGCGAAGAACC
gi_545778205_gb_U000 224668 GCAAGGUUAAAACUCAAAUGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAUGCAACGCGAAGAACC 224750
*********************************************************************************** PP
vv vv v v NC
,,,{{{{{{{,,,,,((((((((,,<<<<<<<____>>>>>>>,<<<<____>>>>)))))-))),[[-[[[[--[[[[[[[[ CS
RF00177 971 UUACCcgggcUUGAcgugccgggaaccccccgGAaAcgggggguccccuuaaggggcccggacacAGGUGcugCAuGgcuGuC 1053
UUACC:GG:CUUGAC:U:C:::GAAC :CC:GA A:GG: G+: CCUU +GG :C:::GA:A:AGGUGCUGCAUGGCUGUC
gi_545778205_gb_U000 224751 UUACCUGGUCUUGACAUCCACAGAACUUUCCAGAGAUGGAUUGGUGCCUUCGGGAACUGUGAGACAGGUGCUGCAUGGCUGUC 224833
*********************************************************************************** PP
NC
[,,,((((((<<<____>>>,,<<<<______>>>>,,)))))),,,,,((((,<<<<<<<---<<--<<<______>>>>>- CS
RF00177 1054 GUCAGCuCGuguCGUGAGauGUcgGGUUAAGUCCcgcAaCGaGCGCAACCCccgccccuagUUgCcAucgguuuauuccggGc 1136
GUCAGCUCGUGU:GUGA:AUGU:GGGUUAAGUCCC:CAACGAGCGCAACCC::+:C :U:GUUGCCA+CGG U ++CCGGG+
gi_545778205_gb_U000 224834 GUCAGCUCGUGUUGUGAAAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUAUCUUUUGUUGCCAGCGG-UCCGGCCGGGA 224915
***********************************************************************.88899****** PP
NC
--->>>>>>>,,<<<<<<<<_____>>>>>>>>,,,,,)))),,,,]]]]-]]]---]]]]]]]],,,,}}}}}}},,,}}-} CS
RF00177 1137 ACUcuaggggGACcgCCggcGauAAgccGGagGAAGGuggGGAuGACGuCAaguCauCauggCCCUUAugcccgGGGCuaCAC 1219
ACUC:A: G:GAC:GCC:G:GAUAA:C:GGA:GAAGGU::GGAUGACGUCAAGUCAUCAUGGCCCUUA+G:CC:GGGCUACAC
gi_545778205_gb_U000 224916 ACUCAAAGGAGACUGCCAGUGAUAAACUGGAGGAAGGUGGGGAUGACGUCAAGUCAUCAUGGCCCUUACGACCAGGGCUACAC 224998
*********************************************************************************** PP
NC
}}}}}}}}},,,<<<<<<<-----<<<--<<---<<<____>>>--->>---->>>----->>>>>>>,,,,,,<---<<<<< CS
RF00177 1220 aCgugcuaCAAUGgccggcACAaaggGuaGCaAagccGcGAggcggAGCuAAUCccauAAAgccggcCucAGUUCGGAcuGga 1302
ACGUGCUACAAUG:C::::ACAAAG:G+AGC+A ::CGCGAG:: +AGC A C:CAUAAA::::G:C +AGU CGGA:UGGA
gi_545778205_gb_U000 224999 ACGUGCUACAAUGGCGCAUACAAAGAGAAGCGACCUCGCGAGAGCAAGCGGACCUCAUAAAGUGCGUCGUAGUCCGGAUUGGA 225081
*********************************************************************************** PP
NC
<<<________>>>>>>>>--->,,,,,}}}}},,,,,<<<<<<<<_______>>>>>>>>,,,,,,}}---}}}}}}}}}}- CS
RF00177 1303 GgCUGcAAcUCGcCucCagGAAGuuGGAauCGCUAGUAaucGcggcUCAGcAugccgCgguGAAUACGuUCcCGGGcCuuGuA 1385
G:CUGCAACUCG:CUCCA:GAAGU+GGAAUCGCUAGUAAUCG:GG:UCAG AU:CC:CGGUGAAUACGUUCCCGGGCCUUGUA
gi_545778205_gb_U000 225082 GUCUGCAACUCGACUCCAUGAAGUCGGAAUCGCUAGUAAUCGUGGAUCAGAAUGCCACGGUGAAUACGUUCCCGGGCCUUGUA 225164
*********************************************************************************** PP
NC
}},,<-<<-<<---<<<<<<<<--<<<<<<<<<<<<----<<<<<<-<<<<--<<____>>->>>>>>>>>>--->>>>>>>> CS
RF00177 1386 CaCACCGcCCGUCAcgcCacggaAgccggccccgcCcGAAGccgccgcgccAAccuuaaggaggcgggcggCuAaGgcggggc 1468
CACACCGCCCGUCAC:CCA::G+A::::::::C::: GAAG:::::+::::AACCUU GGA:::::::::C A :::G::::
gi_545778205_gb_U000 225165 CACACCGCCCGUCACACCAUGGGAGUGGGUUGCAAAAGAAGUAGGUAGCUUAACCUUCGGGAGGGCGCUUACCACUUUGUGAU 225247
*********************************************************************************** PP
NC
>>>>-->>>>>>>>---->>-->>-->,<<<<<<<<<<____>>>>>>>>>>::::::::::::: CS
RF00177 1469 cggcgAccggGgcgAAGUCGUAaCAAGGuagCcguaccGGAAggugcgGcugGAUcAccUcCUUu 1533
::::GAC::GGG:GAAGUCGUAACAAGGUA:CCGUA::GGAA::UGCGG:UGGAUCACCUCCUU
gi_545778205_gb_U000 225248 UCAUGACUGGGGUGAAGUCGUAACAAGGUAACCGUAGGGGAACCUGCGGUUGGAUCACCUCCUUA 225312
***************************************************************** PP
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