HHsearch alignment for GI: 254780382 and conserved domain: TIGR02562
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3, Yersinia-type; InterPro: IPR013395 The helicase encoded in many CRISPR-associated (cas) gene clusters is designated Cas3. The Yersinia-type helicase Cas3 proteins differ from the more common Cas3 proteins by being considerably larger, though they still share a number of motifs, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc..
Probab=98.96 E-value=4e-09 Score=77.74 Aligned_cols=118 Identities=18% Similarity=0.260 Sum_probs=68.3
Q ss_pred EEEEECCCCCCCCCCCCCC----CCC-----CCCCCCCCCCCHHHHHHHHHH-------HCC------------------
Q ss_conf 6776213443222222222----233-----222223454203332344442-------013------------------
Q gi|254780382|r 248 GIIFCNQKKNVVNLCHSLE----KQG-----FSVCAIHGNIDQRSRMKILSN-------FKE------------------ 293 (465)
Q Consensus 248 ~iIF~~t~~~~~~l~~~L~----~~g-----~~v~~lhg~l~~~~R~~~~~~-------F~~------------------ 293 (465)
T Consensus 773 GLiR~ANI~~~~~LAq~Ly~~~~~~~fadyqiHlc~YHa~~~L~~Rsy~E~rLD~~L~Rh~~GkkrktGn~~l~q~~ei~ 852 (1153)
T TIGR02562 773 GLIRVANIDPLIRLAQALYALLAEEKFADYQIHLCVYHAQDPLLLRSYIERRLDKLLTRHKPGKKRKTGNEQLFQDDEIE 852 (1153)
T ss_pred EEEEHHCHHHHHHHHHHHHHHCCCCCCCCEEEEEEEHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHCCHHHHH
T ss_conf 61544036789999999874054005771366653031302899999999988775034577642333146531308899
Q ss_pred ---------CCCEEEEEHHHHHHHHCCCCCCEEEEECCCCCHHHHHHHHHCCCCCCCCEEE--EE-EECHHHHHHH--HH
Q ss_conf ---------5523888846646440788765002002467789988752102458885399--99-7788899999--99
Q gi|254780382|r 294 ---------GTIQLMVASDLAARGLDIPDVGHVFNFDVPNRAENYIHRIGRTGRAGRHGKA--FT-LVAKEDIKHI--DA 359 (465)
Q Consensus 294 ---------g~~~vLV~Td~~~~GiDip~v~~VI~~d~P~~~~~y~hR~GR~gR~g~~G~~--i~-~~~~~d~~~~--~~ 359 (465)
T Consensus 853 ~~l~~~~~~~~lFivlatpV~EVGRDHD-YdWAi-~d-pSSmrS~iQlAGRV~RHR~e~~~e~~N~~il~~N~r~~~~rd 929 (1153)
T TIGR02562 853 DLLQNSPAKNHLFIVLATPVEEVGRDHD-YDWAI-AD-PSSMRSIIQLAGRVRRHRLEKVQEQPNIVILQKNYRALERRD 929 (1153)
T ss_pred HHHHCCCCCCCCEEEEECCCEECCCCCC-CCHHH-HC-HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 8863160015864897167123067776-01445-23-245667877316430014675456623001045788887666
Q ss_pred HHHHHCCCC
Q ss_conf 999962312
Q gi|254780382|r 360 IEKLIEKKV 368 (465)
Q Consensus 360 i~~~~~~~~ 368 (465)
T Consensus 930 ~ekrkqqsk 938 (1153)
T TIGR02562 930 IEKRKQQSK 938 (1153)
T ss_pred HHHHHHCCC
T ss_conf 677641057