HHsearch alignment for GI: 254780867 and conserved domain: CHL00011
>CHL00011 ndhD NADH dehydrogenase subunit 4.
Probab=100.00 E-value=0 Score=566.54 Aligned_cols=399 Identities=18% Similarity=0.276 Sum_probs=329.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 76410079999999999999999999999632100224206679999999999873146102212457778877776653
Q gi|254780867|r 69 AYISDRFSYFIKAILLMSSIIIFIKMFSCIYVKPFSCFEFPVIMLMAVLGMLCMISANDMISFYMSLELQSFALYVLIAM 148 (478)
Q Consensus 69 ~~~~D~~s~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~f~~l~l~~~~g~~~~~~s~~l~~~~v~~E~~~i~~~~LI~~ 148 (478)
T Consensus 79 ~lgiDgLs~~lvlLt~~i~~l~---~l~s~~~~~-~~~~f~~l~L~~~~~~~G~~~s~dl~~~yvf~E~~~i~sy~LI~~ 154 (500)
T CHL00011 79 RLGIDGLSIGLILLTGFITTLA---TLAAWPVTR-NSRLFHFLMLAMYSGQIGLFSSQDLLLFFLMWELELIPVYLLLSM 154 (500)
T ss_pred EEEHHHHHHHHHHHHHHHHHHH---HHHCCCCCC-CCCHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 8731687899999999999999---984043246-754999999999999999999753999999999999878751110
Q ss_pred HHCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHC---CCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 2000134455555401462046799889885300---1000001222211101343100001222211234444432110
Q gi|254780867|r 149 NRKSVFSIEAALKYFVLGAFSSAFLLYGISFIYG---FTGCTGFSQIATSLFIGHRSFVLIVGVVLILVGLFFKMALVPF 225 (478)
Q Consensus 149 ~~~~~~~~~aa~ky~~~~~~g~~~ll~g~~~~y~---~~gs~~~~~l~~~~~~~~~~~~~~~~~~ll~~g~~~K~~~fPf 225 (478)
T Consensus 155 ~g~~~-~~~aa~k~~l~t~~gs~~lL~gi~~l~~~~~~~~t~~~~~l~~~~~~---~~~~~~~~~~~ligf~vK~~~fP~ 230 (500)
T CHL00011 155 WGGKK-RLYSATKFILYTAGGSIFLLIGVLGMGLYGSNEPTLNFETLANQSYP---VALEILFYIGFLIAFAVKLPIIPL 230 (500)
T ss_pred CCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCC---HHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf 48889-99999999999988899999999999999854488899999844563---259999999999999985284546
Q ss_pred CHHHHHHHHHHCCCCCCCCCCCEECCCCCCCCCCCCCCCC-CCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 0012101221001233332100000232111112440001-122210000012221022220000012445443564211
Q gi|254780867|r 226 HMWIPDVYEGSPMFMTAFLATIPKFATTMALCRITSVFWP-MLSGLLPIFMCVSIGSMVLGSVVAIRQKDLKRLMAYSSI 304 (478)
Q Consensus 226 H~Wlp~a~~~ap~~~salls~~~~~~~~~~l~r~~~~~~~-~~~~~~~~l~~~g~~t~i~g~~~al~q~d~KrllAySsi 304 (478)
T Consensus 231 H~WlPda~~~ap~~~s~llsg~~~k~g~y~l~R~~~~~~~~~~~~~~~~l~~lg~it~i~g~~~Al~Q~d~KrllAYSsi 310 (500)
T CHL00011 231 HTWLPDTHGEAHYSTCMLLAGILLKMGAYGLIRINMELLPHAHSLFSPWLVIVGAIQIIYAASTSLGQRNLKKRIAYSSV 310 (500)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 01167777789839999999999998887779850001423789999999999999999999999997017888898417
Q ss_pred CCCCCCCCCCCCH-HHHHHHHHHHHCCCCCHHCCCCHHHHHHHHHCCCCCCCCHHHCCCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 1244211111121-577888864300232010011000026787408764550210466523211478999986530366
Q gi|254780867|r 305 GHAGYALIGFSTG-MLGIVAMVRYMVIYLIMMIGFFSCILSLRRKDGNNIQNISDLAGLSRQDIFLTCALTIFLFSLAGI 383 (478)
Q Consensus 305 ~q~G~i~~~l~~~-~~~~~~~~~~~~~~~~~~~~lf~~~~~~~~~~~~~~~~i~~l~gl~~~~P~~~~~~~i~~lsl~Gl 383 (478)
T Consensus 311 s~~G~i~lg~~~~~~~g~~ga~~~~~~H~~~k~~LFl~~g~i~~~~g--t~~i~~lgGl~~~~P~~a~~~~i~~la~~G~ 388 (500)
T CHL00011 311 SHMGFIIIGIGSITDTGLNGAILQMISHGFIGAALFFLAGTSYDRIR--LLYLDEMGGIAIPMPKIFTMFSSFSMASLAL 388 (500)
T ss_pred HHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CEEHHCCCCHHHHCHHHHHHHHHHHHHHCCC
T ss_conf 44889999998706889999899999999999999999999998158--7751403780766649999999999998168
Q ss_pred CHHHHHHHHHHHHHHHHHCCHHH------HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-----CCCCCCHHHHHHH
Q ss_conf 50000675999999999628499------999999999999999999999996499877865-----5673321899999
Q gi|254780867|r 384 PPFAGFFGKYFLLISAVKREFYV------LAIVALLSSVISAYYYLRVISIMWFDQSTECVV-----VVAKEMRLFIFGS 452 (478)
Q Consensus 384 Pp~~GF~sK~~i~~~~~~~~~~~------~~~~~~~~s~~s~~y~~~~~~~~f~~~~~~~~~-----~~~~~~~~~~~~~ 452 (478)
T Consensus 389 P~~~GF~~k~~i~~g~~~~~~~~~~~~~~~~~i~~~g~il~a~Y~l~~~~~~f~g~~~~~~~~~~~~d~~~~e~~~~~~l 468 (500)
T CHL00011 389 PGMSGFVAELIVFFGIITSQKYLLMFKILITFVMAIGMILTPIYLLSMLRQMFYGYKLFNVPNSYFFDSGPRELFISICL 468 (500)
T ss_pred CCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 75253889999999999716432578999999999999999999999999997799887665335668988899999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 9999999999767658999998751
Q gi|254780867|r 453 ILFVTGYFLIENILNSSIMKIVMSL 477 (478)
Q Consensus 453 ~~~~~~~~~~~~~~~~~~~~~~~~l 477 (478)
T Consensus 469 ~~~~i~~Gl~P~~~l~~~~~~v~~l 493 (500)
T CHL00011 469 LLPVIGIGIYPDFVLSLSVDKVEAI 493 (500)
T ss_pred HHHHHHHHHCCHHHHHHHHHHHHHH
T ss_conf 9999999837599999899999999