Alignments: v NC
:::<<<<<_______>>>>>,{{{{.{{{{{{,{{{{{{{{{{-----{{{-{{{,,<<<--<<~~~~~~>>>>>,,,,,, CS
RF01959 1 AuUCcGguUGAUCCUgcCgGAggcc.accgCuAucGGgguccGauUaAGCCAuGcuAGucgagc*[14]*gcggCguAcaG 88
+ ::G UUGAUC UG C::AG::: A:CGCU :CGG:: ::: +UAA::CAUGC+AGUCGA:C G:GGCG AC+G
gi_545778205_gb_U000 4208152 GAAGAGUUUGAUCAUGGCUCAGAUUgAACGCUGGCGGCA-GGC-CUAACACAUGCAAGUCGAAC*[34]*GUGGCGGACGG 4208258
************************9789***********.555.699***************98...9..89********* PP
v v v v v NC
[[[,,,,,,((((((((--((---(((((((,<<<<----<<<<<<<____>>>>>>>----->>>>,,,,<<<<<<<<-< CS
RF01959 89 CucAGUAACgCGcgGccAAccUAcCCucggGacggggAUAccCcCgGGAAACuGgGggUAAUacccgAUAggggggggcug 169
:U:AGUAA :::GG: AA:CU CC :::GGA: GGGAUA C::C GGAAAC G::G UAAUACC :AUA G
gi_545778205_gb_U000 4208259 GUGAGUAAUGUCUGGG-AAACUGCCUGAUGGAGGGGGAUAACUACUGGAAACGGUAGCUAAUACCGCAUAA--------CG 4208330
****************.689**************************************************9........58 PP
v NC
<______>>>>>>>>>>,,,,,,<<.......____.........>>,)))))))--))))))))))<<<--<-<<<--<< CS
RF01959 170 CUGGAAuGcgcccccccugAAAuGc.......uccg.........gCGCccgaGGAUggggCcgCGcCcgAUcAGGcaGuc 234
: G AA :C + AA + GCC::: GAUG:G:CC::: ::GAU:AG::AGU:
gi_545778205_gb_U000 4208331 UCGCAAGAC--------CAAAGAGGgggaccu----ucgggccucUUGCCAUCGGAUGUGCCCAGAUGGGAUUAGCUAGUA 4208399
888888887........555444446776653....23467777799************9********************* PP
NC
<<<<<<_______>>>>>>>>>>>----->>>>,,<<<<<<<<____>>>>--->>>>]]],<<<<<<__________>>> CS
RF01959 235 GGcgGgGUAAcGGcCcgCCgagCCuauaAgcgGUAcGGGccguGAGAgcgggAGCCCggaGAcGGgcuCUGAGACAaGagc 315
GG:G GGUAACGGC C:CC:A::C+A +A:C::UA:::G ::UGAGAG:: GA C::::A:AC:GG::CUGAGACA G::C
gi_545778205_gb_U000 4208400 GGUGGGGUAACGGCUCACCUAGGCGACGAUCCCUAGCUGGUCUGAGAGGAUGACCAGCCACACUGGAACUGAGACACGGUC 4208480
********************************************************************************* PP
v NC
>>>,<<<<____>>>>,,,}}}}}}-},,,,,<-<<<---<<<<<____>>>>>->>>>,}}}}}}}}},,<<<~~~~~~> CS
RF01959 316 CCgGGCCCUACGGGGCGCAgCaGGCgCGAAAacUccgCAaugCgcGaaAgcGcgAcgggGggaccCCgaGUGcc*[15]*g 405
C:G ::CCUACGGG::GCAGCAG::G:GAA A:U:C:CAAU::GCG AAGC::GA:G::G::A::CCG:GUG:: :
gi_545778205_gb_U000 4208481 CAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGCACAAUGGGCGCAAGCCUGAUGCAGCCAUGCCGCGUGUA*[25]*U 4208580
************************************************************************98...9..7 PP
v v v v NC
>>,,,<<<<<<<~~~~~~>>>>>>--->,,<<<<<<-------<<<<-----<<____>>------->>>>>>>>>>,}}} CS
RF01959 406 gCUuUcccccgg*[ 9]*ccggggGAAgAAGgGgcGGGcAAGaCcGGUGuCAGCCGCCGCGGUAAuACCgGCgcCcCgaGc 489
:CUUUC :C:GG CC:G: GAAGAAG:::C GGC A :C:GUG+CAGC GCCGCGGUAAUAC:G: G:::C+AGC
gi_545778205_gb_U000 4208581 ACUUUCAGCGGG*[41]*CCCGCAGAAGAAGCACC-GGCUAACUCCGUGCCAGCAGCCGCGGUAAUACGGAGGGUGCAAGC 4208695
888888888887...9..899999*********97.7888889************************************** PP
v v v NC
}}}}}}},,,,,,,,,,{{{-----{,[[[[-[-[[[,<<<<<<<-<<<<<<<<<<<----<<<<<<<_____>>>>>>>- CS
RF01959 490 gguggccauuaUUAuUGGGCcUAAAGcGucCGcAgCcGGcccggcAaGucccccgggAAAuCcgcggGCUcAACccgcgGa 570
G:U:::C+ AUUA UGGGC UAAAGCG::CG AG:CGG:::G :AAGUC::::G::AAAU C:C GGCUCAACC G:G A
gi_545778205_gb_U000 4208696 GUUAAUCGGAAUUACUGGGCGUAAAGCGCACGCAGGCGGUUUGUUAAGUCAGAUGUGAAAUCCCCGGGCUCAACCUGGGAA 4208776
****************************************************************************99988 PP
v v NC
-->>>>>>>>>-->>>>>>>>>,,,(((((((((--(((((((<<--<<<<<<<<---<<<______>>>------>>>>> CS
RF01959 571 cgcccgggggauACugccgggCUuGGGgccGgccGAggccggggGUAcucccgGGGUAGggGugAAAccCuaUaAUCCcgg 651
C ::C::::GAUACU: C:::CUUG:G: ::G::GA:G::GG : A:UCC:G :GUAG::GUGAAA::C + A : C:G
gi_545778205_gb_U000 4208777 C-UGCAUCUGAUACUGGCAAGCUUGAGUCUCGUAGAGGGGGGUAGAAUUCCAGGUGUAGCGGUGAAAUGCGUAGAGAUCUG 4208856
8.******************************************************************************* PP
v v v NC
>>>-->>,,,,<--<<____>>>)))))))-))))))-))),,,]]]]--]]]],,,,<<<<<<---<<---<<<<_____ CS
RF01959 652 gagGACcACCacUGGCGAAaGCgcccggccaggcCggacCCGACgGugAGGgaCGAAAGCcgGGGgagCgAAccGGAUUAG 732
GA:GA :ACC :UGGCGAA+GC: CC::C: ::C:: +:C:GACG:U AGG::CGAAAGC::GGGGA:C+AAC:GGAUUAG
gi_545778205_gb_U000 4208857 GAGGAAUACCGGUGGCGAAGGCGGCCCCCUGGACGAAGACUGACGCUCAGGUGCGAAAGCGUGGGGAGCAAACAGGAUUAG 4208937
********************************************************************************* PP
NC
____>>>>--->>>>>>>>,,,,,,,,,,((((((,,<<<<<<<<<<<<<<_____>>>>>>>>>>>>>>,,,<<____>> CS
RF01959 733 AUACCCggGUAGcCCcgGCuGUAAACgaUGcggGcUaggugccgggcgggcuucGagcccgcccggcgccGuAGgGAAGcC 813
AUACCC:GGUAG:CC::GC GUAAACGAUG::G:CU+GG::: G:C U+GAG:C :::CCG AG: AA :C
gi_545778205_gb_U000 4208938 AUACCCUGGUAGUCCACGCCGUAAACGAUGUCGACUUGGAGGU--UGUGCCCUUGAGGCGUG--GCUUCCGGAGCUAACGC 4209014
**************************************98865..56788999999988765..56889************ PP
NC
,,,,,))))))}}}},<<<------<<<<____>>>>---->>>,,,,,,,,{{{{{-{{{{{{{--{{,,{{{{{{{{{{ CS
RF01959 814 GuuAAgCccgCCGCCUggGgAGUACggcCGCAAGgcuGAAACuuAAAGGAAUuGGCgGgGGaGCaCcaCAAcggguGcaGc 894
GUUAAG:C::CCGCCU:GGGAGUACG CCGCAAGG U AAACU:AAA GAAUUG:CGGGGG::C:C ACAA::GGUG:AGC
gi_545778205_gb_U000 4209015 GUUAAGUCGACCGCCUGGGGAGUACGGCCGCAAGGUUAAAACUCAAAUGAAUUGACGGGGGCCCGC-ACAAGCGGUGGAGC 4209094
*****************************************************************8.************** PP
v v v NC
{{{{{{{,,,,<<<<________>>>>,,,,,,,,{{{{{{{.,,,<<<<..<<------<<<<<<<___~~~~~>>>>>> CS
RF01959 895 cuGCGGuUUAAccgGAuUCAACGCcggaaAuCUcACCgGggg.cGACaGc..cgaAUGAagGccaGguUg*[4]*cCuggC 971
:UG:GGUUUAA:::GAU CAACGC:::+AA CU+ACC:GG:: GACA:C CG+A G + C ::G UG C:: G
gi_545778205_gb_U000 4209095 AUGUGGUUUAAUUCGAUGCAACGCGAAGAACCUUACCUGGUCuUGACAUCcaCGGAAGUUUUCAGAGAUG*[9]*CUUCGG 4209179
******************************************5588866545666666665555555555..5..555555 PP
v v NC
>--->>->>>>,,,[[-[[[[--[[[[[[[[[,,,((((((<<<____>>>,,<<<<______>>>>,,)))))),,,,,( CS
RF01959 972 cuGAcgagCuGAGAGGaGGugCAuggCCgcCGuCAGcuCGugCcGUGAgGcGUCCuGUUAAGUCaGGcAaCGagCGAGACC 1052
+ CG+G: GA AGG+G:UGCAUGGC:G CGUCAGCUCGU:::GUGA:::GU ::GUUAAGUC:: CAACGAGCG ACC
gi_545778205_gb_U000 4209180 GAACCGUGA-GACAGGUGCUGCAUGGCUGUCGUCAGCUCGUGUUGUGAAAUGUUGGGUUAAGUCCCGCAACGAGCGCAACC 4209259
555566554.9********************************************************************** PP
NC
(((,<<<<<<<---<<--<<<<<<<____>>>>>>>>>---->>>>>>>,,<<<<<<<<_____>>>>>>>>,,,,,)))) CS
RF01959 1053 CccacccccagUUGCcAucgcggccuuugggccgcggGcAcacugggggGACcgCcggcGcuAAgccgGagGAAGGAggGG 1133
C :A:CC:::GUUGCCA CG: ++G :CGGG AC+C:::GG:GAC:GCC:G:G+UAA:C:GGA:GAAGG : GG
gi_545778205_gb_U000 4209260 CUUAUCCUUUGUUGCCAGCGGU----CCG---GCCGGGAACUCAAAGGAGACUGCCAGUGAUAAACUGGAGGAAGGUGGGG 4209333
*********************7....455...7************************************************ PP
v v NC
,,,,]]]]-]]]---]]]]]]]],,,,}}}}}}},,,}}-}}}}}}}}}},,,<<<<<<<-----<<<--<<--<<<<___ CS
RF01959 1134 GCaACGgcAGGuCAGcaugCCCCGAAucccCcGGGCuaCACGCgggCugCAAUGgccgggACAauGgGuucCgAcccCGAa 1214
ACG CA:GUCA CAUG:CCC A ::CC:GGGCUACAC:CG:GCU:CAAUG:C::: ACAA G:G++:CGA C:CG
gi_545778205_gb_U000 4209334 AUGACGUCAAGUCAUCAUGGCCCUUACGACCAGGGCUACACACGUGCUACAAUGGCGCAUACAAAGAGAAGCGACCUCGCG 4209414
********************************************************************************* PP
v NC
_>>>>-->>---->>>----->>>>>>>,,,,,,<---<<<<<<<<________>>>>>>>>--->,,,,,}}}}},,,,, CS
RF01959 1215 AGgggaaGguAAUCcCuuAAAcccggcCuuAGUugGGAccGaGGgCUGuAACUCGcCCuCggGAAccuGGAauccgUAGUA 1295
AG:G AAG: A C:C UAAA :::G:C+UAGU :GGA::G::G:CUG+AACUCG:C::C::GAA: GGAAUC::UAGUA
gi_545778205_gb_U000 4209415 AGAGCAAGCGGACCUCAUAAAGUGCGUCGUAGUCCGGAUUGGAGUCUGCAACUCGACUCCAUGAAGUCGGAAUCGCUAGUA 4209495
********************************************************************************* PP
v v NC
<<<<<<<<_______>>>>>>>>,,,,,,}}---}}}}}}}}}}-}},,<-<<-<<-<-<<<<<<<<--<<<<<<<<<<<< CS
RF01959 1296 acCGCgcgUCAacAucgcGCGguGAAUAcGuCCCuGCuCCuuGCACaCACcGcCCGUCacgcCacccgAGcggggcccggg 1376
A:CG:G: UCA +AU :C:CG:UGAAUACGU CC:G::CCUUG:ACACACCG:CCGUCAC:CCA :GA::G:::: C:::
gi_545778205_gb_U000 4209496 AUCGUGGAUCAGAAUGCCACGGUGAAUACGUUCCCGGGCCUUGUACACACCGCCCGUCACACCAUGGGAGUGGGUUGCAAA 4209576
******************************************************************************987 PP
v v v v NC
<<<.<<<<<~~~~~~>>>>>>>>>>>>>>>>>>>>-->>>>>>>>-->->>-->>-->,<<<<<<<<<<____>>>>>>>> CS
RF01959 1377 cgc.Ggccc*[14]*gggcCgagcccgggccccgCaAggggGgcgAAGUCGUAgCAAGGcggCCGcaggGGAAccugCGGc 1464
G G:: : : ::C A :::G ::::C::+A: GGG:GAAGUCGUA:CAAGG:::CCG:AGGGGAACCU:CGG:
gi_545778205_gb_U000 4209577 AGAaGUAGG*[22]*CUUACCACUUUGUGAUUCAUGACUGGGGUGAAGUCGUAACAAGGUAACCGUAGGGGAACCUGCGGU 4209673
654144444...6..44444566899******************************************************* PP
NC
>>::::::::::: CS
RF01959 1465 cgGAUCACCUCcu 1477
::GAUCACCUCCU
gi_545778205_gb_U000 4209674 UGGAUCACCUCCU 4209686
************* PP
>> |
