HHsearch alignment for GI: 254780270 and conserved domain: TIGR02858

>TIGR02858 spore_III_AA stage III sporulation protein AA; InterPro: IPR014217 Proteins in this entry include the stage III sporulation protein AA that is encoded by one of several genes in the spoIIIA locus. This protein is only found in species that are capable of endospore formation..
Probab=97.39  E-value=0.0013  Score=46.27  Aligned_cols=131  Identities=28%  Similarity=0.453  Sum_probs=95.2

Q ss_pred             CCCCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCCC-
Q ss_conf             3221068899877665201168999999999999842444673599860565650279999997708824998618888-
Q gi|254780270|r  325 KTKKNLDFAIRILDQDHFGLEKVKERIIEYLAVQMRVIKNKGLILCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVY-  403 (820)
Q Consensus       325 ~~~~dl~~a~~iLd~~hyGl~~vK~rile~lav~~~~~~~~g~il~l~gppgvGKts~~~sia~al~r~f~~islgg~~-  403 (820)
T Consensus        94 v~S~NiRIaRE~~G~A--------~~~~~yL----~d~~~~~~NTLiIsPPq~GKTTlLRDlaR~~StG~~~~~~~g~KV  161 (282)
T TIGR02858        94 VASLNIRIAREVLGAA--------DKILPYL----VDRNGRVLNTLIISPPQCGKTTLLRDLARILSTGISKLGLKGKKV  161 (282)
T ss_pred             CCCCCEEEEEECCCCC--------HHHHHHH----HCCCCCEEEEEEECCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCE
T ss_conf             4642133020005775--------6668877----305894467888868898851048889888607854246899746


Q ss_pred             ---CH-HHHCCC----------CCC-CCCCCCHHHHHHHHHC-CCCCE-EEEEECHHHHHHHCCCCHHHHHHHHCCCCCC
Q ss_conf             ---88-883563----------200-1456712899999832-78873-9999331554231177115566554060016
Q gi|254780270|r  404 ---DE-ADIRGH----------RRT-YIGSMPGRIIQSLKRA-KRSNP-LLLLDEIDKMGSDLRGDPSAALLEVLDPAQN  466 (820)
Q Consensus       404 ---d~-~~i~gh----------~~t-y~ga~pg~ii~~l~~~-~~~np-v~~ldeidk~~~~~~gdp~~allevldp~qn  466 (820)
T Consensus       162 givDERSEIAgC~~GvPQ~~vG~RtDVLD~CP--KAEGmMM~iRSMSP~Viv~DEIGr~-ED-----~~Al~eA~n----  229 (282)
T TIGR02858       162 GIVDERSEIAGCVNGVPQLDVGIRTDVLDGCP--KAEGMMMLIRSMSPDVIVVDEIGRE-ED-----VEALLEALN----  229 (282)
T ss_pred             EEEECCHHHHHHCCCCCCCCCCCCEEECCCCC--HHHHHHHHHHCCCCCEEEEECCCCH-HH-----HHHHHHHHC----
T ss_conf             99843246565458824144676067517885--3789999997069857998148895-33-----899999861----


Q ss_pred             CCEEEEECCCCCCCCCEEEEEECCCCC
Q ss_conf             813320103523644279999348655
Q gi|254780270|r  467 SSFVDHYLEVEYDLSDVMFIMTANTLN  493 (820)
Q Consensus       467 ~~f~d~y~~~~~dls~v~fi~tan~~~  493 (820)
T Consensus       230 --------------aGV~~I~TaHg~~  242 (282)
T TIGR02858       230 --------------AGVSVIATAHGRD  242 (282)
T ss_pred             --------------CCCEEEEEECCCC
T ss_conf             --------------6756887640488