HHsearch alignment for GI: 254780277 and conserved domain: PHA00452
>PHA00452 T3/T7-like RNA polymerase.
Probab=92.50 E-value=0.81 Score=24.56 Aligned_cols=142 Identities=15% Similarity=0.258 Sum_probs=77.1
Q ss_pred HHHHHHHHHHHHHCCCHHHHHHHC-------CCC-------HHHHHHHH-----HHHHHHCH---HHHHHHHHHHHHHHH
Q ss_conf 863025135644077703567881-------999-------89999999-----99999888---899999999999998
Q gi|254780277|r 798 RRHAKTINFSIIYGISPFRLATQL-------RIP-------RSEAADYI-----KRYFHRFP---GIHEYIEKTKNFVRQ 855 (976)
Q Consensus 798 R~~aK~infgi~YG~~~~~La~~l-------~is-------~~eA~~~i-----~~yf~~~p---~v~~~~~~~~~~a~~ 855 (976)
T Consensus 581 Rk~vK~~vMT~~Yg~t~~g~~~qi~~~l~~~~~~~~~~~~~~~~~~~yla~~i~~ai~~~~~~a~~im~wl~~~a~~~~~ 660 (816)
T PHA00452 581 RSVTKRPVMTLPYGSTRFGFRDQVREDLVQPAIDEGKGAMFTNQAAGYMAKLIWDAISETVPAAVEAMNWLQQAAKLLAK 660 (816)
T ss_pred HHHHCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 76632531675206610008999999997305566743034789999999999999999977099999999999999971
Q ss_pred CC----C-------------------EEC-CCCCEECC-C-CCCCCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Q ss_conf 49----8-------------------882-77876018-9-875883788877878770--1345653899999999999
Q gi|254780277|r 856 NG----Y-------------------VET-IFGRRIHY-D-EINSPKSSIRNINERAAI--NAPIQGSAADITRRAMISV 907 (976)
Q Consensus 856 ~g----y-------------------v~T-~~GRrr~~-p-~i~s~~~~~r~~aeR~a~--N~~iQGsaAdi~k~am~~i 907 (976)
T Consensus 661 ~~~~v~W~TP~G~pV~Q~Y~~~~~~~v~t~l~g~~~~~~~~~~~~~~~~kq----~~a~~PNfIHSlDashm~~t~-~-- 733 (816)
T PHA00452 661 EVKDLHWTTPTGFPVWQEYRKTETKRVRLRLMGSARIQLTVNTDEIDARKH----ASGIAPNFVHSLDASHLRLTV-V-- 733 (816)
T ss_pred CCCCCEEECCCCCEEEEECCCCCCEEEEEEECCEEEEEECCCCCCCCHHHH----HCCCCCHHHHHHHHHHHHHHH-H--
T ss_conf 699728989999989877378884689987415279983378898897787----243794888889999999999-9--
Q ss_pred HHHHHHCCCCEEEEEEECCEEEEECCHHHHHHHHHHHHHHHHHCC
Q ss_conf 999986599818999726389995598799999999999965101
Q gi|254780277|r 908 HKSLEDHKLATKMLLQIHDELVFEVPEEEITTASQIIVHSMEKAC 952 (976)
Q Consensus 908 ~~~~~~~~~~~~~ilqVHDElv~ev~~~~~~~~~~~~~~~Me~~~ 952 (976)
T Consensus 734 --~~~~~gi~~--fa~VHDsf--~tha~dv~~m~~~lRe~Fv~ly 772 (816)
T PHA00452 734 --ACAEKGIES--FAVIHDSF--GTHAADADNLFKAVRETMVKMY 772 (816)
T ss_pred --HHHHCCCCC--EEEEECCC--CCCCCCHHHHHHHHHHHHHHHH
T ss_conf --999839962--78863278--8771589999999999999996