BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.0544.p (118 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309912|ref|YP_003774004.1| hypothetical protein Hsero_0577... 208 1e-55 gi|300312436|ref|YP_003776528.1| hypothetical protein Hsero_3136... 92 8e-21 gi|300309793|ref|YP_003773885.1| hypothetical protein Hsero_0452... 77 3e-16 >gi|300309912|ref|YP_003774004.1| hypothetical protein Hsero_0577 [Herbaspirillum seropedicae SmR1] Length = 122 Score = 208 bits (529), Expect = 1e-55, Method: Compositional matrix adjust. Identities = 96/118 (81%), Positives = 106/118 (89%) Query: 1 MGVGLFTYFNQPTYGRCESFTKDLRGGKKDFHGAVYEVKLCGADITNGTKIRLQVFDRSG 60 +G GL + QPTYGRCESFTKDL GG+K FHGA+Y++KLCGADI NGTKIRLQVF RSG Sbjct: 5 IGFGLCAHLAQPTYGRCESFTKDLNGGEKIFHGAMYDIKLCGADIKNGTKIRLQVFGRSG 64 Query: 61 DLVAQRYFSYYLNSATERDLAEGTDSIIYFDSARESPMQSISMPPTKWDWISARLPLF 118 DL+A+RYFSYY+NSATERDL EG DSIIYFDSARESPMQSIS+PPTKWDWI ARLPLF Sbjct: 65 DLLAERYFSYYVNSATERDLTEGVDSIIYFDSARESPMQSISIPPTKWDWIRARLPLF 122 >gi|300312436|ref|YP_003776528.1| hypothetical protein Hsero_3136 [Herbaspirillum seropedicae SmR1] Length = 198 Score = 92.4 bits (228), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 52/127 (40%), Positives = 74/127 (58%), Gaps = 9/127 (7%) Query: 1 MGVGLFTYFNQPTYGRCESFTK--DLRGGKKDFHGAVYEVKLCG--ADITNGT--KIRLQ 54 + +GL +F +P YGRC+ + + L GG K +G Y ++CG + +GT KI L+ Sbjct: 72 LALGLIIHFTRPHYGRCDFYNRPDTLDGGVKLLNGTSYRFQMCGTGGNDQDGTDDKIELK 131 Query: 55 VFDRSGDLVAQRYFS--YYLNSATERDLAEGTDSIIYFDSARESPMQS-ISMPPTKWDWI 111 VF+ G L+A+RYFS +Y + L DS+ Y D S + +S+PPTKWDWI Sbjct: 132 VFNDQGTLLARRYFSVNWYAGKGFHQPLTYENDSVRYIDVTENSEYEKRLSIPPTKWDWI 191 Query: 112 SARLPLF 118 ARLPLF Sbjct: 192 RARLPLF 198 >gi|300309793|ref|YP_003773885.1| hypothetical protein Hsero_0452 [Herbaspirillum seropedicae SmR1] Length = 230 Score = 77.4 bits (189), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 41/111 (36%), Positives = 59/111 (53%), Gaps = 4/111 (3%) Query: 12 PTYGRCESFTKDLRGGKKDFHGAVYEVKLCGADITNG---TKIRLQVFDRSGDLVAQRYF 68 P Y CE++T+ L GG + + G + V+LCGA ++RL+++D SGDL A RYF Sbjct: 119 PQYRDCETYTQKLNGGVRQYRGLSFRVELCGAGPRESDRLDRVRLRIYDESGDLRAVRYF 178 Query: 69 SYYLNSATERDLAEGTDSIIYFDSARESPM-QSISMPPTKWDWISARLPLF 118 L D + YFD+ E + I+MPPT DW+ R+PL Sbjct: 179 GVQWGRDFPALLEYSRDHLSYFDAGDEEDFARVIAMPPTLADWVQTRIPLL 229 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.322 0.138 0.428 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 368,366 Number of extensions: 12638 Number of successful extensions: 35 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 31 Number of HSP's successfully gapped: 3 Length of query: 118 Length of database: 1,619,870 Length adjustment: 74 Effective length of query: 44 Effective length of database: 1,269,480 Effective search space: 55857120 Effective search space used: 55857120 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 124 (52.4 bits)