HHsearch alignment for GI: 254780214 and conserved domain: COG1236

>COG1236 YSH1 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis].
Probab=99.49  E-value=1.2e-13  Score=104.44  Aligned_cols=187  Identities=21%  Similarity=0.185  Sum_probs=101.0

Q ss_pred             EEEEEEEECCCCCEECCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCEEEEEECCCCHHHH--HHHC--CCCCCCEEE
Q ss_conf             599998541789651337887877778767744430699993367789718999879841566--7522--334205999
Q gi|254780214|r    5 YHFTILGCGASLGVPRITGDWGACDPTNPKNRRTRSSLKISRVSERGSNTTVIVDTGPDFYMQ--VLRE--QVLSIDAVL   80 (271)
Q Consensus         5 m~l~~LGtg~s~g~P~~~c~c~~C~~~~~~~~R~~~s~~i~~~~~~~~~~~iLiD~G~d~r~q--l~~~--~i~~Id~I~   80 (271)
T Consensus         1 ~~~~~~g~~~ev---------------------g~s~~~l~~-----~~~~il~D~G~~~~~~~~~~p~~~~~~~vDavl   54 (427)
T COG1236           1 MTLRFLGAAREV---------------------GRSCVLLET-----GGTRILLDCGLFPGDPSPERPLLPPFPKVDAVL   54 (427)
T ss_pred             CCEECCCCCCCC---------------------CCEEEEEEE-----CCCEEEECCCCCCCCCCCCCCCCCCCCCCCEEE
T ss_conf             914534655787---------------------754689874-----797699658988576765576788888767799


Q ss_pred             EECCCHHHHHHCCHHHHHHHCCCCEEEEEECCEEEEEECCCCCCCCCCCCCCCCCCCCCCC-----CCCCCCCCCCEECC
Q ss_conf             9743524220111024333178211101311202321002222101366775310012321-----12344333420115
Q gi|254780214|r   81 YTHPHADHIHGIDGLRGYFLKQKRPIDVYAAPDCMKHLFESFRYCFKALDDRTYPPIVNPI-----VIENNDVPICMKSA  155 (271)
Q Consensus        81 iTH~H~DHi~Gl~~Lr~~~~~~~~~i~vy~~~~~~~~l~~~~~y~f~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~  155 (271)
T Consensus        55 lTHaHlDH~g~lp~l----~~~~~~~~v~aT~~T~~l~~~~l~d~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~yg~~~~  129 (427)
T COG1236          55 LTHAHLDHIGALPYL----VRNGFEGPVYATPPTAALLKVLLGDSLKLAEG-PDKPPYSEEDVERVPDLIRPLPYGEPVE  129 (427)
T ss_pred             EECCCHHHHCCCHHH----HHHCCCCCEEECHHHHHHHHHHHHCCCCCCCC-CCCCCCCHHHHHHHHHCEEEECCCCEEE
T ss_conf             600652432346788----76312786575351899999873111010357-7777654345665552227705898178


Q ss_pred             CCCEEEEEEEEECCCEECCCCCC----CCEEEECCCCCCHHHHHHH---HCCHHEEEEECCCCCCCCCCCCHHHHHH
Q ss_conf             87489999995077621123346----8625303233001678886---2221102530233576887579999999
Q gi|254780214|r  156 GGVIEAIPILQQHGRISSLGFRF----GNVAYCTDVNAFPAESLEK---LQNLDFLIIDALKNGLHSSHFSLSESLK  225 (271)
Q Consensus       156 ~~~i~i~~~~~~Hg~~~~~Gyri----~~~~Y~~Dt~~~~e~~~~~---l~~~D~lI~d~l~~~~~~~H~~~~ea~~  225 (271)
T Consensus       130 v~~~~v~~~~AGHil-Gsa~~~le~~~~~ilytGD~~~~~~~l~~~a~~~~~~DvLI~EsTYg~--~~~~~r~~~e~  203 (427)
T COG1236         130 VGGVKVTFYNAGHIL-GSAAILLEVDGGRILYTGDVKRRKDRLLNGAELPPCIDVLIVESTYGD--RLHPNRDEVER  203 (427)
T ss_pred             ECCEEEEEECCCCCC-CEEEEEEEECCCEEEEEECCCCCCCCCCCCCCCCCCCCEEEEECCCCC--CCCCCHHHHHH
T ss_conf             652899997179741-027999996894799982367777877777677888878998065588--77888789999