HHsearch alignment for GI: 254780456 and conserved domain: COG2996

>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only].
Probab=99.63  E-value=2.7e-13  Score=97.85  Aligned_cols=213  Identities=24%  Similarity=0.253  Sum_probs=151.8

Q ss_pred             CCCCCEEEEEEEEECCCEEEEEECCCC-EEEEECCCCCCCCCCCCCCCEECCCCEEEEEEEEEECCCCEEEEEEECCCCC
Q ss_conf             048966589999815966999851420-0000011110111355742100378457999998621550478752034543
Q gi|254780456|r  280 YVEGSKVSGVVTNLTDYGVFVELQSGI-EGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALIN  358 (576)
Q Consensus       280 ~~~G~~v~g~V~~v~~~G~~V~l~~~v-~G~i~~sels~~~~~~~~~~~~~~G~~v~~~Vl~id~~~~~i~lS~k~~~~~  358 (576)
T Consensus         3 ~~iG~~~~l~V~~~~~~g~fL~~~~~~~~ilL~k~~~~--------~~e~evGdev~vFiY-~D~~~-rl~aTt~----~   68 (287)
T COG2996           3 IKIGQINSLEVVEFSDFGYFLDAGEDGTTILLPKSEPE--------EDELEVGDEVTVFIY-VDSED-RLIATTR----E   68 (287)
T ss_pred             CCCCCEEEEEEEEEECEEEEEECCCCCEEEECCCCCCC--------CCCCCCCCEEEEEEE-ECCCC-CEEHEEE----C
T ss_conf             54440689999985221489966888607862566776--------785113768999999-88877-6301010----4


Q ss_pred             CCCCCCCCCCCCCCEEEEEEEEE-EEEEEEEECCCCEEEEEHHHHHCCCCCHHHHHHHCCCCCCEEEEEECCCCCCCCCC
Q ss_conf             21000001222221369999985-01699970688413540055300122001234211123422688521565455320
Q gi|254780456|r  359 PWEEFSKSHPPGTEVEGEVKNKT-DFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDIVKAVVLDIDVGKERISL  437 (576)
Q Consensus       359 p~~~~~~~~~~G~~v~g~V~~v~-~~g~~V~l~~~i~g~i~~~dls~~~~~~~~~~~~k~G~~i~~~Vl~id~~~~~i~L  437 (576)
T Consensus        69 p------~~tvg~~g~~~Vv~v~~~lGaFlD~Gl~KDl~vp~~elp~~~-----~~wpq~Gd~l~v~l~-~Dkk~-Ri~g  135 (287)
T COG2996          69 P------KATVGEYGWLKVVEVNKDLGAFLDWGLPKDLLVPLDELPTLK-----SLWPQKGDKLLVYLY-VDKKG-RIWG  135 (287)
T ss_pred             C------EEEECCEEEEEEEEECCCCCEEEECCCCCCEEEEHHHCCCCC-----CCCCCCCCEEEEEEE-ECCCC-CEEE
T ss_conf             1------374053237999987377515896598700361625364431-----237787989999999-85678-4777


Q ss_pred             CHHHHHCCCCCCHHHHCCCC---CCCEEEEEEEEEECCEEEEEECCCCCEEEEEEHHHCCHHHHCCCHHHCCCCCEEEEE
Q ss_conf             11322101110000110047---898799999997089089996177984999997471821210420110689879999
Q gi|254780456|r  438 GVKQLSGSAPDVVDSVSSLR---KNDVVSCEVISVSEGGIEVSLIDHKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDAC  514 (576)
Q Consensus       438 S~K~l~~~~~~~~~~~~~~~---~G~iv~g~V~~v~~~G~~V~l~~~~gv~G~i~~s~is~~~~~~~~~~~~vG~~v~~~  514 (576)
T Consensus       136 ~~a~--~~~l~--~l~~~~~~~l~nq~v~~tVYr~~~~G~fv~~--e~~~~GfIh~sEr--------~~~prlG~~l~~r  201 (287)
T COG2996         136 TLAI--EKILE--NLATPAYNNLKNQEVDATVYRLLESGTFVIT--ENGYLGFIHKSER--------FAEPRLGERLTAR  201 (287)
T ss_pred             EECC--HHHHH--HCCCCCCHHHHCCEEEEEEEEEECCCEEEEE--CCCEEEEECCHHH--------CCCCCCCCEEEEE
T ss_conf             7331--55787--6177211145437610599998214239997--1876899860660--------0666677557889


Q ss_pred             EEEECCCCCEEEEEEHHHHH
Q ss_conf             99970576869987036557
Q gi|254780456|r  515 VVNVSKKDGKVSLSIKALEI  534 (576)
Q Consensus       515 Vi~id~~~~ri~LS~k~~~~  534 (576)
T Consensus       202 Vi~~re-Dg~lnLSl~p~~~  220 (287)
T COG2996         202 VIGVRE-DGKLNLSLRPRAH  220 (287)
T ss_pred             EEEECC-CCEEECCCCCCCH
T ss_conf             999824-8745022156317