HHsearch alignment for GI: 254780947 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=94.34 E-value=0.45 Score=26.98 Aligned_cols=103 Identities=12% Similarity=0.140 Sum_probs=70.4
Q ss_pred CCCCCCCCEEEEEEECCHHHHHHHHHHHHHH-----CCEEEEEECCCCCHHHHHHHHHHHCCCCCEEEEECCCCHHH-HH
Q ss_conf 1578877537999857978989999989871-----88599982644692889999986165464888613467478-99
Q gi|254780947|r 803 MPPINRIACRTSISIFDPLVVRETLMREYYR-----GGQSFYVCPRLSDLEKCYTFLQSEVPELKIAMAHGQMSPKN-LE 876 (1187)
Q Consensus 803 tpP~~R~~v~T~v~~~~~~~i~~ai~rEl~R-----gGQvf~v~nrv~~i~~~~~~l~~l~p~~~i~vaHGqm~~~~-le 876 (1187)
T Consensus 434 l~p~~~d~~~~~~~~e~~~~~~~~l~~~l~~li~~~~Gr~LvLFTS~r~~~~~ae~l~~~l~~-~~l~Qge~~~~~~l~~ 512 (636)
T TIGR03117 434 LRPVGKDEQGDANLQEAERTWLENVSLSTAAILRKAQGGTLVLTTAFSHISAIGQLVELGIPA-EIVIQSEKNRLASAEQ 512 (636)
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHCCCC-CEEEECCCCCHHHHHH
T ss_conf 798777776531000356668999999999999870798899704099999999999722788-6587457640356899
Q ss_pred HHHHHHHCCCCCEEEECCCEECCCCCCCCC
Q ss_conf 999999638875797610200363322332
Q gi|254780947|r 877 DKMNAFYEGQYDVLLSTSIVESGLDLPKAN 906 (1187)
Q Consensus 877 ~~m~~F~~~~~dvLv~TtIiEsGlDip~aN 906 (1187)
T Consensus 513 ~~~~~f~~~~~svLfGT~SfWEGVDvpG~~ 542 (636)
T TIGR03117 513 QFLALYANGIQPVLIAAGGAWTGIDLTHKP 542 (636)
T ss_pred HHHHHHHCCCCCEEEECCCCCCCCCCCCCC
T ss_conf 999987278996898677640662578866