HHsearch alignment for GI: 255764515 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=98.03 E-value=0.00023 Score=44.68 Aligned_cols=84 Identities=15% Similarity=0.197 Sum_probs=53.9
Q ss_pred CCHHHHHHCCCCCEEEEHHHHHHHH---HHHHHC-----CCCC--CC-HHHHHHHHHHHCCCCCCEEEEEHHHCCCCCCC
Q ss_conf 3256654124884034222367888---664100-----0265--33-44589987642458855899844221116220
Q gi|255764515|r 310 KALEVIIEKANAAPIIVAYHFNSDL---ARLQKA-----FPQG--RT-LDKDPCTIQEWNEGKIPLLFAHPASCGHGLNL 378 (458)
Q Consensus 310 ~~l~~il~~~~~~kviif~~~~~~~---~~i~~~-----~~~g--~~-~~~r~~~i~~f~~~~~~vli~s~~~~~~GlnL 378 (458)
T Consensus 460 ~~l~~li~~~~Gr~LvLFTS~r~~~~~ae~l~~~l~~~~l~Qge~~~~~~l~~~~~~~f~~~~~svLfGT-~SfWEGVDv 538 (636)
T TIGR03117 460 LSTAAILRKAQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKNRLASAEQQFLALYANGIQPVLIAA-GGAWTGIDL 538 (636)
T ss_pred HHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCEEEEC-CCCCCCCCC
T ss_conf 9999999870798899704099999999999722788658745764035689999998727899689867-764066257
Q ss_pred CCC---------CCEEEEECCCCCH
Q ss_conf 017---------8599990899898
Q gi|255764515|r 379 QYG---------GNILVFFSLWWDL 394 (458)
Q Consensus 379 ~~a---------~~~iI~~~~~wn~ 394 (458)
T Consensus 539 pG~~~~~~~Gd~Ls~VII~rLPF~~ 563 (636)
T TIGR03117 539 THKPVSPDKDNLLTDLIITCAPFGL 563 (636)
T ss_pred CCCCCCCCCCCCCEEEEEECCCCCC
T ss_conf 8866678877742066575699899