HHsearch alignment for GI: 254780619 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=94.16 E-value=0.22 Score=29.76 Aligned_cols=116 Identities=19% Similarity=0.117 Sum_probs=64.1
Q ss_pred CHHHHHHHHHHCCCCCHHHHCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEHHHCCCCCCC--------C--CCHHHHHHH
Q ss_conf 289988885204852000102321135867899999862125765798704430231134--------5--201233000
Q gi|254780619|r 494 GIERIAEEVCEYFPLARISILSSDLEGGGGRLQLQLSAIAKGEIDIIIGTQLVAKGHNFP--------R--MSLVGVVDG 563 (731)
Q Consensus 494 Gte~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~~~~~~~~~~~ilvgTq~i~kg~~fp--------~--v~lv~il~a 563 (731)
T Consensus 482 ~~~~~ae~l~~~l~~-~~l~Qge~~-~~~~l~~~~~~~f~~~~~svLfGT~SfWEGVDvpG~~~~~~~Gd~Ls~VII~rL 559 (636)
T TIGR03117 482 HISAIGQLVELGIPA-EIVIQSEKN-RLASAEQQFLALYANGIQPVLIAAGGAWTGIDLTHKPVSPDKDNLLTDLIITCA 559 (636)
T ss_pred HHHHHHHHHHHCCCC-CEEEECCCC-CHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCEEEEEECC
T ss_conf 999999999722788-658745764-035689999998727899689867764066257886667887774206657569
Q ss_pred HHHHHHHHH-----HHH----------HHHHHHHHHHHHCCCCCC---CCCEEEEEECCCCCHHHHHH
Q ss_conf 344310245-----578----------999998754311025667---88689999329864888999
Q gi|254780619|r 564 DLGLTNADL-----RSS----------ERTFQLLSQVTGRAGRFG---LKSLGLIQAYQPTHPVMQAL 613 (731)
Q Consensus 564 D~~l~~pd~-----ra~----------E~~~qll~qv~gRagr~~---~~g~v~iQt~~p~~~~~~~~ 613 (731)
T Consensus 560 PF~--~p~~p~~~~r~~~~~g~~~~~vp~A~i~lkQG~GRLIRs~d~~D~G~vaiLD~RI~~~~~~~~ 625 (636)
T TIGR03117 560 PFG--LNRSLSMLKRIRKTSVRPWEIINESLMMLRQGLGRLVRHPDMPQNRRIHMLDGRIHWPYMESW 625 (636)
T ss_pred CCC--CCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCEECCCCCCCCEEEEEECCCCCHHHHHHH
T ss_conf 989--998789999997149987777999999997745730314778896589996475532443146