HHsearch alignment for GI: 254780784 and conserved domain: COG0557
>COG0557 VacB Exoribonuclease R [Transcription].
Probab=98.01 E-value=3.5e-05 Score=60.86 Aligned_cols=196 Identities=21% Similarity=0.266 Sum_probs=108.4
Q ss_pred ECCCCCCCCCCCCEEEEECCCCCEEEECCCCC---CCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCC--CCCCCCCCCCE
Q ss_conf 31442201365510010055651244324536---55688999999999999999999999843566--74332244875
Q gi|254780784|r 478 DISGDEDHLGHMDFKVAGTDSGITAMQMDMKI---GGISENIMVMALQQAKRGRLHILNEMSKVLSE--SRLQLGEFTPR 552 (699)
Q Consensus 478 DI~G~ED~~GdMDFKvaGT~~GiTa~QmDiK~---~gi~~~il~~al~~A~~gr~~il~~m~~~~~~--~~~~~~~~ap~ 552 (699)
T Consensus 479 k~~~l~~~l~~lg~~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~---------~~~lRsm~~a~Ys~~~~~HfgL~~~~ 549 (706)
T COG0557 479 KLQSLREFLQNLGLVLPLGGSKPQPQDYQILLETVKGRPLEAVLQ---------TLLLRSMKQAEYSPDNVGHFGLALDY 549 (706)
T ss_pred HHHHHHHHHHHCCEEECCCCCCCCHHHHHHHHHHCCCCHHHHHHH---------HHHHHHHCCCCCCCCCCCCEECCCCC
T ss_conf 899999999966811047877568799999976303762799999---------99986430063688887760114342
Q ss_pred EEEEEECCCCEEEEECCCCHHHHHHHHHHC-CEEEEEC--CEE----E-EEEECCHHHHHHHHHHHHHHC---CCCCCCC
Q ss_conf 799997711500003786077998999868-8899808--808----9-999689899999999999852---4754686
Q gi|254780784|r 553 VEIMAIPPDQIRNVIGMGGKVIRGIVEQTG-AKVNIDD--DGT----V-KIASSSLAEIEAAREMIRSIT---DVPEVNK 621 (699)
Q Consensus 553 ~~~~~i~~~ki~~~iG~gG~~ik~i~~~~~-~~i~i~d--~g~----v-~i~~~~~~~~~~a~~~i~~~~---~~~e~g~ 621 (699)
T Consensus 550 YtHFTSPIRRY~DLi-----vHR~L~~~l~~~~~~~~~~~~~~l~~i~~~~s~~er~a~~aer~~~~~~~~~~m~~~vg~ 624 (706)
T COG0557 550 YTHFTSPIRRYPDLI-----VHRQLKALLSGEPIPEKKTSEEELDELAAHISSAERRAQEAERDVIDLLKAEYMKKRVGE 624 (706)
T ss_pred HHHCCCHHHHHHHHH-----HHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 221077465243799-----999999984468887453258899999885188999999988889999999999861587
Q ss_pred EEEEEEEEEEECCEEEECCC-CCCEEEEEEECCCC-----------CCCCHHHHCCCCCEEEEEEEEECC-CCCEEEEE
Q ss_conf 78999999941536998287-97104886631444-----------547855603259889999997868-99866687
Q gi|254780784|r 622 IYKGQVVKVMDFGAFVHFCG-ARDGLVHISQLSTE-----------RVAKTSDVVKEGDTVWVKLLDFDD-RGKIKLSM 687 (699)
Q Consensus 622 ~y~~~v~~i~~fGafve~~~-g~~gl~HiS~l~~~-----------~v~~~~d~~~~Gd~i~vk~~~~d~-~g~i~lSr 687 (699)
T Consensus 625 ~f~g~V~~v~~~g~~V~l~~~~ieglV~~s~L~~d~y~~~~~~~~l~~~~~~~~~~lgd~v~v~v~~v~~~~~~i~~~~ 703 (706)
T COG0557 625 EFDGVVTGVTSFGFFVELPELGLEGLVHISSLPDDYYHFDERGQALVGEKSGKVYRLGDEVKVKVTSVDLDERKIDFEL 703 (706)
T ss_pred EEEEEEEEEECCCEEEEECCCCEEEEEECCCCCCCEEECCHHHHHHHCCCCCCCCCCCCEEEEEEEEECCCCCCEEEEE
T ss_conf 6889999873275799962754033476355886103023011232035566542338869999998705656135885