HHsearch alignment for GI: 254781076 and conserved domain: COG1039
>COG1039 RnhC Ribonuclease HIII [DNA replication, recombination, and repair].
Probab=99.96 E-value=1.3e-29 Score=205.70 Aligned_cols=180 Identities=27% Similarity=0.382 Sum_probs=138.7
Q ss_pred CCEEEEEECCCCCCCCCCEEEEEEEECCCCCC----CCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCHHHHHHH---C
Q ss_conf 94899984278777522255999998701082----3311520289999987552110123078851567998520---4
Q gi|254781076|r 23 MWPVAGIDEVGRGALAGPVVVAAIILDPNNIP----FGINDSKKISHKKREELYEKITSSAIISISSASHQYIDKH---N 95 (209)
Q Consensus 23 ~~~IiGvDEaGRG~~~GPlvvaav~~~~~~~~----~~i~DSK~Ls~~~R~~l~~~i~~~~~~~i~~~~~~eID~~---n 95 (209)
T Consensus 82 ~~~~IGsDEvG~GDyFGpl~v~av~v~~e~~~~L~~lgV~DSKkL~D~kI~~la~~ik~~i~~~~l~l~p~kYNel~~k~ 161 (297)
T COG1039 82 AKNLIGSDEVGKGDYFGPLVVCAVYVSKENLPKLKELGVKDSKKLSDKKIQQLAPIIKPLIPHSVLTLDPKKYNELYKKF 161 (297)
T ss_pred CCCCCCCCCCCCCCCCCCCEEEEEECCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCEEEEECHHHHHHHHHHH
T ss_conf 46314777878887557716899973899979998639853032887889999999997568249997868889999854
Q ss_pred HHHHHHHHHH--HHCC----CCCCCCCCCCCCCCCCCC-----------CCCEEEEEECCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 7999886543--2100----257532110126532246-----------6212268711478652002366665477589
Q gi|254781076|r 96 IHKATLDAIY--HAVE----NLQVIPRSALIDGRSIPE-----------DLPCQAFAVIKGDSISLSIAAASIIAKVTRD 158 (209)
Q Consensus 96 i~~A~~~a~~--~ai~----~l~~~~~~ilIDg~~~~~-----------~~~~~~~~i~KgD~~~~~VaaASIiAKv~RD 158 (209)
T Consensus 162 ~N~n~mkt~lH~~ai~~ll~~~~~~~~~ivIDqFa~~~~~~~yl~k~~~~~~~p~~f~~kaEs~~laVAvASIiA---R~ 238 (297)
T COG1039 162 NNANSMKTFLHNQAIQNLLPQKGAQPEFIVIDQFASSENYKNYLQKETNKFSEPVLFLTKAESKSLAVAVASIIA---RY 238 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHH---HH
T ss_conf 239999999999999999875368973887320136568999988602578996024423354102688899999---99
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCH---HHHHHHHHCC------CCCCCCCCHHHHH
Q ss_conf 999999887779881028999998---9999999828------5830107848886
Q gi|254781076|r 159 RLMRIAHKKYPDYGFDSHVGYPTA---KHQQVIKEKG------PSCIHRLTFRPLR 205 (209)
Q Consensus 159 ~~m~~l~~~~p~Ygf~~nkGYgT~---~H~~ai~~~G------~~~~HR~Sf~~vk 205 (209)
T Consensus 239 ~Fl~~~~~l~~~~gv~LPkGAg~~V~~~a~~i~~k~g~~~L~~~~k~hf~n~~k~~ 294 (297)
T COG1039 239 AFLQSLKQLSRQYGVQLPKGAGPAVDQAAAEIIQKRGFSKLEQVAKLHFKNFQKAL 294 (297)
T ss_pred HHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999959737788746489999999987427999999999998799887