HHsearch alignment for GI: 254781066 and conserved domain: COG1190
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis].
Probab=100.00 E-value=0 Score=728.12 Aligned_cols=340 Identities=31% Similarity=0.518 Sum_probs=316.4
Q ss_pred CCCCCCCCCC--CHHHCCCHHH-----------HHHHHHHHHHHHHHHHHHCCCEEEECCCEECCCCCCCCCCCEEEECC
Q ss_conf 9988987478--8312615489-----------99999999999999999879889847821056898544541241024
Q gi|254781066|r 1 MHQIPSQPWW--NRDFHYRRRP-----------FLLKRNMIQSSLREYFVENQFIEIDSMSLQYSPGNETHIRAFSTELI 67 (355)
Q Consensus 1 ~~~~p~~~~~--~~~~~~r~R~-----------~l~~Rs~i~~~iR~ff~~~gF~EV~TPiL~~~~~g~~~~~~f~t~~~ 67 (355)
T Consensus 146 L~pLPeK~hgL~D~E~RyR~RylDLi~N~e~r~~f~~Rs~ii~~iR~fl~~~gFlEVETP~lq~i~GGA~-ArPF~Th-- 222 (502)
T COG1190 146 LRPLPEKFHGLTDKEIRYRQRYLDLIVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQPIPGGAA-ARPFITH-- 222 (502)
T ss_pred CCCCCHHHCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCC-CCCCEEE--
T ss_conf 7779745437863888999888898659999999999999999999999877975841600035578732-2650122--
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEECEEECCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 78867832000028589999898744688999886424567775448430020001157765787775578887766641
Q gi|254781066|r 68 IQDHIRKPLYLQTSPEFSCKKLLAAGEEKIFCFAHAWRNGEQGCLHQPEFTMLEWYRAHESYEQLMKDCMNIIRCAAEVA 147 (355)
Q Consensus 68 ~~~~~~~~~yL~~SPql~lK~ll~~G~~rvyqig~~FRaE~~~~rHlpEFtmLE~e~af~d~~dlm~~~E~li~~~~~~~ 147 (355)
T Consensus 223 -hNald~dlyLRIApELyLKRliVGG~erVfEIgr~FRNEGid~tHNPEFTmlE~Y~AYaDy~D~m~ltE~Li~~~a~~v 301 (502)
T COG1190 223 -HNALDMDLYLRIAPELYLKRLIVGGFERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYEDLMDLTEELIKELAKEV 301 (502)
T ss_pred -ECCCCCCEEEEECCHHHHHHHHHCCCHHHEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf -0236775687624189999887537214223055200378766648423568999998579999999999999999995
Q ss_pred C-CCEECCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCC--CCHHHHHHHHHHC
Q ss_conf 8-830002234332467732078888656660876532345556232799999999768877876--5347898766430
Q gi|254781066|r 148 N-QKIFSFQNVNCNPFSEPEYITVAEAFARYANIDLGTTLDNPDQPDRHLLYLQAQQAGIRVAHD--DTWSDIFSRILIE 224 (355)
Q Consensus 148 ~-~~~~~~~~~~~~~~~~~~~i~~~e~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~l~~~ 224 (355)
T Consensus 302 ~gt~~v~y~~~~id~~~pf~ri~m~dal~e~~g~~~~------~~~~~e~~~~~ak~~~i~~~~~~~~~~g~ll~~lFe~ 375 (502)
T COG1190 302 NGTTKVTYGGQEIDFSKPFKRITMVDALKEYLGVDFD------DLFDDEEAKELAKKHGIEVEKYGTWGLGHLLNELFEE 375 (502)
T ss_pred CCCEEEEECCEEEECCCCEEEEEHHHHHHHHHCCCCC------CCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 4973787899767548972256648999987186655------4588799999999808975765553678999999987
Q ss_pred EECCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCEEEECCEECCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCCCH
Q ss_conf 03622376754432576888864136787783633022022367122564021069999999999999999728885301
Q gi|254781066|r 225 KIEPNLGINCCTILDRYPAPESALANIYPADPRFTKRFELYACNIELCNACDELLDPIEQRHRFEKEMQEKKKIYNETYP 304 (355)
Q Consensus 225 ~ie~~l~~~~pvfi~~yP~~~~plak~~~~~~~va~rfdl~i~G~El~ng~~El~d~~~q~~rf~~q~~~k~~~~~e~~~ 304 (355)
T Consensus 376 ~vE~~l--iqPTFv~d~P~eiSPLak~~~~~p~~teRFElfi~g~EiaNaysELNDP~dQ~~RF~~Q~~~k~~Gddea~~ 453 (502)
T COG1190 376 LVEAKL--IQPTFVTDHPVEISPLAKRHRSNPGLTERFELFIGGKEIANAYSELNDPVDQRERFEAQVEEKEAGDDEAME 453 (502)
T ss_pred HHHHHH--CCCCEEECCCCCCCCCCCCCCCCCCHHHHHEEEECCEEEEECCCHHCCHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 765641--488246168543686656798886513221013545876311222069999999999999998729930011
Q ss_pred HHHHHHHHHC-CCCCCCEEECCHHHHHHHHHCCCCHHHHCCCCCCCCCC
Q ss_conf 0189999861-88963245315999989981559713111585648743
Q gi|254781066|r 305 IDEDFLACLT-EMPQSSGIAMGFDRLVMLVTGANNINEVIWTPFSQSNQ 352 (355)
Q Consensus 305 ~D~~fl~al~-G~PPhgG~glGidRLvm~l~g~~~Irdvi~FP~~r~~~ 352 (355)
T Consensus 454 ~Dedfv~ALeyGmPPTgG~GiGIDRLvMllT~~~sIRdVilFP~mr~~~ 502 (502)
T COG1190 454 LDEDFVEALEYGMPPTGGLGIGIDRLVMLLTNSPSIRDVILFPAMRPEK 502 (502)
T ss_pred CCHHHHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCHHHEECCCCCCCCC
T ss_conf 5799999986699998875125777777773998554222156557889