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=93.72 E-value=0.66 Score=26.68 Aligned_cols=80 Identities=21% Similarity=0.292 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHHHHHHHH--HHCCEEEEEHHHHHHHHHHHHHHHHCC---CCCCE
Q ss_conf 9999999998410013430788621442236999999733444--305458861279999999986211014---57865
Q gi|254780945|r 277 QESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVE--AGGQAVIMAPIGILAQQHYEFIKKYTQ---NTQII 351 (700)
Q Consensus 277 Q~~ai~eI~~Dl~~~~pM~RLLQGDVGSGKTiVA~~A~l~~~~--~G~Q~alMaPTEILA~QH~~~~~~~~~---~~~i~ 351 (700)
T Consensus 2 ~~~~~~~~~~a~~~~~v~--lVEAGTGTGKSLAYLvPAl~~a~~~~g~rVVISTaT~aLQeQL~~kd~pl~~~~l~~~~~ 79 (636)
T TIGR03117 2 QALFYLNCLTSLRQKRIG--MLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGLAGPVQ 79 (636)
T ss_pred CHHHHHHHHHHHHCCCEE--EEECCCCCCHHHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCCCCE
T ss_conf 005999899986038489--998999710889999999999985799988997987999999976656599997599962
Q ss_pred EEEEECC
Q ss_conf 8996246
Q gi|254780945|r 352 VEIITGN 358 (700)
Q Consensus 352 v~lLtg~ 358 (700)
T Consensus 80 ~allKGR 86 (636)
T TIGR03117 80 AGFFPGS 86 (636)
T ss_pred EEEEECH
T ss_conf 8998772