Guide RNA/mRNA alignment for T. brucei NADH dehydrogenase 9
(ND9,G2,CR2)


       1  UUAAUAUCAA CUUAAUUUUU UUUAUAAACA uuAuAuuAUG uGuAuAuUUU
 
      51  UAuGuuuAuu uCGuuuAuGu uuuuGuuuAA uuUUAuuuuA UUGuuuGuGu
                                               |XXXX| ||:|:X||||
                                               UCUUUU AAUAGUCACA

     101  uGuAGAuGGu GuuUUGuuuG uuuuGuuGAu uGuAGuuuuu uGuuuuuuuA
          ::||X|::|| |||:|:|:|| |||||||||| |:|X:|
          GUAUAUGUCA CAAGAUAGAC AAAACAACUA AUAAUA CR2[179]
 
     151  uuGuuuuGuu AGuuuuuuuu uGuuuuAUUG uAuGuuuuuA uuuuuuAAuu
                                    ||||:: :||:|:|||| :|||:|||||
                                    AAUAGU GUAUAGAAAU GAAAGAUUAA 

     201  uGuGAuuuuu GuuuuuAuAu uGUUGuGAuU UGuuAuuGAu uGAuuuuuGu
          :||||:|||| |||||||||| XXX|               || |:|||:|::|
          GCACUGAAAA CAAAAAUAUA UAUA CR2[157]      UA AUUAAGAGUA

     251  GGuuuuuGuu uuuGuCGuuu uAuGuuGuuG UAuAuuuuAu uuuGuuuGuu
          :||:|:|:|: ||::|||X|| |||
          UCAGAGAUAG AAGUAGCUAA AUA CR2[135]
 
     301  uuuGuGuGuu CGuuuGuGuu uuGuuuuGuG uuGUUUGuuu GUAuuuuuuG
                                                            XX|X
                                                            UUAA

     351  GAuuGuGuuu uAGuuuuAGu uGuuuuuGuU AuGCGuuuuu GuuGuuGGAA
                                  XX|||:|: |::|:|:||| :||:|::||X
                                  UUAAAUAG UGUGUAGAAA UAAUAGUCUA
          :||::|:|:| :||||:||:| |||:|:|||| ||||||||XX XX|
          UUAGUAUAGA GUCAAGAUUA ACAGAGACAA UACGCAAAUU AUA CR2[122]

     401  CGCGAAuGuu uUGAUUUGuu uGGuuuuUAu uuuGuuGGuA AuGAuAuuuu
          |:|||||||| ||:||||:|X |
          GUGCUUACAA AACUAAAUAU A CR2[106]

     451  ACAUCGuuuA uuuGuuGAuu GGuuuuuuGu uGGuuuuuuu uuGuuGAAGu
                     XX|:||:|:| |:|:X:|::: ||:||:|||| ::||||||||
                     UUAUAAUUGA CUAGUGAGUG ACUAAGAAAA GGCAACUUCA

     501  GuuAUCCAuu AuuuGGuuuG uuuGuAuuGu uAuuuuGuGu GuuGGuGGAG
          |||     
          CAAACAUA CR2[75] 

     551  GAGAUAGuAu GuACGuuuAC AAuGuuAuuu uuGuuGuuGC AuACCAAuuU
                           XXX| |||:|||::| :|:|::|||| |:||||||XX
                           UUAA UUAUAAUGGA GAUAGUAACG UGUGGUUAUU
       
     601  UUAuuuGCAu uAuuuuAuAU AAUUUCACCG uUGUAAUUCU AAAUUUC
          ||||:||||| ||||||||||
          AAUAGACGUA AUAAAAUAUA CR2[21]