HHsearch alignment of GI: 254780995 and MMDB domain: 1vyb_A_
>1vyb_A (A:) ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens}
Probab=98.25 E-value=2.6e-06 Score=53.59 Aligned_cols=103 Identities=14% Similarity=0.123 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCCCH---------HHHHCCCCCC---CHHHCCCCCCCCCCCCC--CC
Q ss_conf 9999999999851169988999614777688310027---------8763265541---00002576768710388--75
Q gi|254780995|r 5 QGEWLKKWADQKIKTGIPFVIAGDFNRKINSIGDTDD---------FWQKMDPDGL---LIRFPQEKESTCNVIKR--NK 70 (125)
Q Consensus 5 Q~~~L~~~i~~~~~~~~pvIi~GDFN~~~~~~~~~~~---------~~~~l~~~~~---~~~~~~~~~~~~~~~~~--~~ 70 (125)
+...+............+.+..||+|........... .......... ...........+++... ..
T Consensus 122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 201 (238)
T 1vyb_A 122 PRFIKQVLSDLQRDLDSHTLIMGDFNTPLSTLDRSTRQKVNKDTQELNSALHQADLIDIYRTLHPKSTEYTFFSAPHHTY 201 (238)
T ss_dssp HHHHHHHHHHTTTTCCTTEEEEEECSSCSSGGGBTTCCCCCHHHHHHHHHHHHTTEEEHHHHHCTTCCCCSEEETTTTEE
T ss_pred HHHHHHHHHHHHCCCHHHEEEHHHHCCCCCHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
T ss_conf 78887777655202401114074533566344314532211457899999987566665543114565444005889977
Q ss_pred CCCCCCCCCCHHHHCCCCCCCEEEEECCCCCCCCCCCCCCCCCEEEEEE
Q ss_conf 5433355210121002573211543024741125867887564999996
Q gi|254780995|r 71 SSLDYFVIDRDNKNFLIDNSFSIVSYDQSDLDTRRSKLSTHCPLTIEYD 119 (125)
Q Consensus 71 ~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SDH~PV~~~l~ 119 (125)
..+||++++..+.. ++..+.+ ....+|||+||+++|+
T Consensus 202 ~rID~i~~s~~~~~-------~~~~~~v-----~~~~~SDH~pv~~~l~ 238 (238)
T 1vyb_A 202 SKIDHIVGSKALLS-------KCKRTEI-----ITNYLSDHSAIKLELR 238 (238)
T ss_dssp ECCEEEEEEGGGGG-------GEEEEEE-----ECCSSSSSCEEEEEEC
T ss_pred CEEEEEEECHHHHH-------HCCEEEE-----CCCCCCCCCCEEEEEC
T ss_conf 61689998628973-------2618998-----9897998234899949