HHsearch alignment for GI: 254780129 and conserved domain: TIGR01587

>TIGR01587 cas3_core CRISPR-associated helicase Cas3; InterPro: IPR006474 This entry represents a highly conserved core region of the Cas3 sequences. The proteins are found in association with CRISPR repeat elements in a broad range of bacteria and Archaea . Cas3 appears to be a helicase, containing a DEAD/DEAH box region and conserved C-terminal domain. Some but not all members have an N-terminal HD domain region (IPR006674 from INTERPRO), these sequences are not included within this group..
Probab=98.49  E-value=4.4e-07  Score=59.81  Aligned_cols=140  Identities=16%  Similarity=0.176  Sum_probs=73.6

Q ss_pred             CEEEECCCCCHHHHHHHHHHH----HHHCCCCCEEEEECCCCCHHHHHHHHHH----HCCCCCCEEEEEEC------CCC
Q ss_conf             199968999889999999999----9740899489972331013788999985----15534606998611------210
Q gi|254780129|r   22 CALWASMGSGKTVSVLFALST----IKILDPRPVLIIAPLRVAQYVWKDEVER----WSAFSDMTVSSLIG------SER   87 (220)
Q Consensus        22 ~~l~~~~G~GKT~~ai~~~~~----~~~~~~~~~LIi~P~s~~~~~W~~e~~~----~~~~~~~~~~~~~~------~~~   87 (220)
T Consensus         2 ~v~~APTG~GKTe~aL~~A~~sah~~k~~~~~~~I~alP~r~~~na~~~r~~~sash~Fg~P~~-~~~~~ssrfnh~~~~   80 (424)
T TIGR01587         2 LVIEAPTGYGKTEAALLWALKSAHLIKKQKADKVIFALPTRVTINAMYRRLKESASHLFGSPEL-VLLLHSSRFNHLASS   80 (424)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCEEEECCHHHHHHHHHHHHHHHHHHHCCCCCC-CCCCCCCHHHHHHHH
T ss_conf             6886178998789999999863666422444010122026888999999999867754178543-233455226789999


Q ss_pred             CCCCCC-----------------CC-----CCCEEEECHHHHHCCCCCC----CC-------CCCCCCCCCCHHHCCCCC
Q ss_conf             112234-----------------56-----7662786566731000000----00-------247200002512201365
Q gi|254780129|r   88 QRIKAL-----------------NT-----PAHLYIINFENIPWLVKMK----LD-------HWDFATIVVDESTKLKSF  134 (220)
Q Consensus        88 ~~~~~~-----------------~~-----~~~~~i~~~~~l~~~~~~~----~~-------~~~~~~iIiDEaH~~kn~  134 (220)
T Consensus        81 ik~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~pi~~~T~d~~~~~~~~~ssGs~~~~~~~~~~~~~S~~i~DE~h~y~~~  160 (424)
T TIGR01587        81 IKLRKIKEKGDSEELEKLVKLYIHSNKKLFLKPITVCTIDQVLKSVFGESSGSFGHYEITLASIANSLIIFDEVHAYEEY  160 (424)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHCCCCHHEEECCCCCCCHHHHHEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99877630478279999998522421210131788534122000000553445205688887777676562536777642


Q ss_pred             CCCCHHH-HHHHHHHHHHCCCCEEEEECCCCCC
Q ss_conf             4332036-9999999851379879983165324
Q gi|254780129|r  135 RTHQGTK-QTRALGKVAFSKVKRFIELTGTPSP  166 (220)
Q Consensus       135 ~~~~~~k-~~k~l~~~~~~~~~~~l~LTgTPi~  166 (220)
T Consensus       161 ~---~~~~~l~~L~~~~~~~~~~~~lMsAT-lP  189 (424)
T TIGR01587       161 T---LALTILAALEVLKIDNDVKILLMSAT-LP  189 (424)
T ss_pred             H---HHHHHHHHHHHHHHHCCCCEEEEECC-CC
T ss_conf             5---55569999999998738988998405-67