HHsearch alignment for GI: 254780945 and conserved domain: TIGR03117

>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=97.28  E-value=0.0046  Score=43.58  Aligned_cols=165  Identities=18%  Similarity=0.205  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHHC-CCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEECCCCCCC-HHHHHHHHHHHHCCCEEEEE
Q ss_conf             268999976310-3873899971201221112101466666668663710312014699-89999999997559869999
Q gi|254780945|r  469 DEVIERLKVVLS-EGKKAYWICPQIEEKKESNFRSVVERFNSLHEHFTSSIAIIHGRMS-DIDKESVMDSFKNGTCKLLI  546 (700)
Q Consensus       469 ~~~~~~i~~~l~-~g~q~y~VcPlIeese~~~~~~~~~~~~~l~~~~~~~v~~lHGkm~-~~ek~~~m~~F~~g~~~iLv  546 (700)
T Consensus       456 ~~l~~~l~~li~~~~Gr~LvLFTS--------~r~~~~~ae~l~~~l~~~~l~Qge~~~~~~l~~~~~~~f~~~~~svLf  527 (636)
T TIGR03117       456 ENVSLSTAAILRKAQGGTLVLTTA--------FSHISAIGQLVELGIPAEIVIQSEKNRLASAEQQFLALYANGIQPVLI  527 (636)
T ss_pred             HHHHHHHHHHHHHCCCCEEEEECC--------HHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCEEE
T ss_conf             999999999998707988997040--------999999999997227886587457640356899999987278996898


Q ss_pred             ECHHHHCCCCCCCCCE---------EEEECHHHCCHHHHHHHHHCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHCHH
Q ss_conf             8003410468887658---------9985852547468877301166789835999970888998799999999841425
Q gi|254780945|r  547 ATTVIEVGIDVVDASI---------IIIENAEHFGLAQLHQLRGRVGRGEEISSCILLYHPPLSKNSYTRLSVLKNTEDG  617 (700)
Q Consensus       547 aTtviEVGvdvpna~~---------mvI~~aerfGLsqLHQLRGRVGRg~~~s~c~l~~~~~~~~~~~~Rl~~l~~~~dG  617 (700)
T Consensus       528 GT~SfWEGVDvpG~~~~~~~Gd~Ls~VII~rLPF~~p-------------------------~~p~~~~r~~--~~~g~~  580 (636)
T TIGR03117       528 AAGGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGLN-------------------------RSLSMLKRIR--KTSVRP  580 (636)
T ss_pred             ECCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCC-------------------------CCHHHHHHHH--HCCCCH
T ss_conf             6776406625788666788777420665756998999-------------------------8789999997--149987


Q ss_pred             HH-HHHHHHHHC-CCCCCCCCH-HCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89-999998520-630002600-0698744000388759999999999999998
Q gi|254780945|r  618 FL-IAEEDLKQR-KEGEILGIK-QSGMPKFLIAQPELHDSLLEIARKDAKHILT  668 (700)
Q Consensus       618 f~-iAe~Dl~lR-G~G~~~G~~-QsG~~~~~~~d~~~d~~ll~~a~~~a~~~~~  668 (700)
T Consensus       581 ~~~vp~A~i~lkQG~GRLIRs~d~~D~G~vaiLD~RI~~~~~~~~~~~~~~~~~  634 (636)
T TIGR03117       581 WEIINESLMMLRQGLGRLVRHPDMPQNRRIHMLDGRIHWPYMESWQESVKTILD  634 (636)
T ss_pred             HHHHHHHHHHHHHHCCCEECCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHCC
T ss_conf             777999999997745730314778896589996475532443146677998604