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= 0013.0077.p (137 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311300|ref|YP_003775392.1| integration host factor alpha-s... 202 8e-54 gi|300312982|ref|YP_003777074.1| integration host factor subunit... 69 1e-13 gi|300309668|ref|YP_003773760.1| HU histone family DNA-binding p... 65 2e-12 >gi|300311300|ref|YP_003775392.1| integration host factor alpha-subunit [Herbaspirillum seropedicae SmR1] Length = 104 Score = 202 bits (514), Expect = 8e-54, Method: Compositional matrix adjust. Identities = 97/104 (93%), Positives = 102/104 (98%) Query: 34 LPTLTKAELAELLFEQVGLNKREAKDMVETFFDEIRNALERGEAVKLSGFGNFQLRDKPQ 93 +PTLTKAELAELLFEQVGLNKREAKDMVETFFDEIRNALERGEAVKLSGFGNFQLRDKPQ Sbjct: 1 MPTLTKAELAELLFEQVGLNKREAKDMVETFFDEIRNALERGEAVKLSGFGNFQLRDKPQ 60 Query: 94 RPGRNPKTGEEIPITARRVVTFHASQKLKEMVEVSSGQPLALAV 137 RPGRNPKTGEEIPITARRVVTFHASQKLKEMVE+SSG P+ ++V Sbjct: 61 RPGRNPKTGEEIPITARRVVTFHASQKLKEMVELSSGSPVEMSV 104 >gi|300312982|ref|YP_003777074.1| integration host factor subunit beta [Herbaspirillum seropedicae SmR1] Length = 101 Score = 68.9 bits (167), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 36/98 (36%), Positives = 61/98 (62%), Gaps = 1/98 (1%) Query: 37 LTKAELAELLFEQVG-LNKREAKDMVETFFDEIRNALERGEAVKLSGFGNFQLRDKPQRP 95 +TK+EL L E+ L ++A V+T D + +AL G+ +++ GFG+F L +P R Sbjct: 1 MTKSELIARLAERYPQLVAKDADYAVKTILDAMVDALATGQRIEIRGFGSFALNRRPPRI 60 Query: 96 GRNPKTGEEIPITARRVVTFHASQKLKEMVEVSSGQPL 133 GRNPK+G+++ + +RV F ++L+E V+ GQP+ Sbjct: 61 GRNPKSGDKVMVPEKRVPHFKPGKELRERVDAMVGQPI 98 >gi|300309668|ref|YP_003773760.1| HU histone family DNA-binding protein [Herbaspirillum seropedicae SmR1] Length = 115 Score = 65.1 bits (157), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 34/96 (35%), Positives = 56/96 (58%), Gaps = 1/96 (1%) Query: 30 AEKNLPTLTKAELAELLFEQVGLNKREAKDMVETFFDEIRNALERGEAVKLSGFGNFQLR 89 +E+N + K+EL +++ ++K A+ +++ + I A+ +G+ V+L GFG+F Sbjct: 16 SERNFQ-VNKSELVDVIAADTEISKAAAQRALDSVIENIIKAVTKGDTVQLVGFGSFSTG 74 Query: 90 DKPQRPGRNPKTGEEIPITARRVVTFHASQKLKEMV 125 + R GRNP+TGEEI I A V F A + KE V Sbjct: 75 KRAARTGRNPQTGEEIKIAAATTVKFSAGKAFKEAV 110 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 0.313 0.129 0.342 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: 367,262 Number of extensions: 13539 Number of successful extensions: 51 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 51 Number of HSP's successfully gapped: 3 Length of query: 137 Length of database: 1,619,870 Length adjustment: 76 Effective length of query: 61 Effective length of database: 1,260,010 Effective search space: 76860610 Effective search space used: 76860610 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (21.9 bits) S2: 126 (53.1 bits)