BLASTP 2.2.22 [Sep-27-2009] 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. Reference for composition-based statistics starting in round 2: Schaffer, Alejandro A., L. Aravind, Thomas L. Madden, Sergei Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005. Query= gi|254780994|ref|YP_003065407.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter asiaticus str. psy62] (53 letters) Database: nr 14,124,377 sequences; 4,842,793,630 total letters Searching..................................................done Results from round 1 >gi|254780994|ref|YP_003065407.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter asiaticus str. psy62] gi|254040671|gb|ACT57467.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter asiaticus str. psy62] Length = 53 Score = 110 bits (274), Expect = 8e-23, Method: Compositional matrix adjust. Identities = 53/53 (100%), Positives = 53/53 (100%) Query: 1 MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL 53 MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL Sbjct: 1 MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL 53 >gi|332159094|ref|YP_004424373.1| hypothetical protein PNA2_1454 [Pyrococcus sp. NA2] gi|331034557|gb|AEC52369.1| hypothetical protein PNA2_1454 [Pyrococcus sp. NA2] Length = 393 Score = 35.4 bits (80), Expect = 2.8, Method: Compositional matrix adjust. Identities = 22/51 (43%), Positives = 30/51 (58%), Gaps = 4/51 (7%) Query: 2 NGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYA 52 + I ++H+RD +K FS EV YT +LED + G GEG+L GI A Sbjct: 109 HSKIMMIHQRDPGLAKAFS---EVGYTDILEDGKVRSGKGEGML-IGILLA 155 Searching..................................................done Results from round 2 CONVERGED! >gi|254780994|ref|YP_003065407.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter asiaticus str. psy62] gi|254040671|gb|ACT57467.1| hypothetical protein CLIBASIA_04475 [Candidatus Liberibacter asiaticus str. psy62] Length = 53 Score = 106 bits (264), Expect = 1e-21, Method: Composition-based stats. Identities = 53/53 (100%), Positives = 53/53 (100%) Query: 1 MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL 53 MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL Sbjct: 1 MNGDIFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYAL 53 >gi|332159094|ref|YP_004424373.1| hypothetical protein PNA2_1454 [Pyrococcus sp. NA2] gi|331034557|gb|AEC52369.1| hypothetical protein PNA2_1454 [Pyrococcus sp. NA2] Length = 393 Score = 35.7 bits (81), Expect = 2.4, Method: Composition-based stats. Identities = 22/48 (45%), Positives = 29/48 (60%), Gaps = 4/48 (8%) Query: 5 IFLVHRRDEMDSKNFSKAIEVRYTRLLEDNPILIGMGEGILFCGIFYA 52 I ++H+RD +K FS EV YT +LED + G GEG+L GI A Sbjct: 112 IMMIHQRDPGLAKAFS---EVGYTDILEDGKVRSGKGEGMLI-GILLA 155 Database: nr Posted date: May 22, 2011 12:22 AM Number of letters in database: 999,999,966 Number of sequences in database: 2,987,313 Database: /data/usr2/db/fasta/nr.01 Posted date: May 22, 2011 12:30 AM Number of letters in database: 999,999,796 Number of sequences in database: 2,903,041 Database: /data/usr2/db/fasta/nr.02 Posted date: May 22, 2011 12:36 AM Number of letters in database: 999,999,281 Number of sequences in database: 2,904,016 Database: /data/usr2/db/fasta/nr.03 Posted date: May 22, 2011 12:41 AM Number of letters in database: 999,999,960 Number of sequences in database: 2,935,328 Database: /data/usr2/db/fasta/nr.04 Posted date: May 22, 2011 12:46 AM Number of letters in database: 842,794,627 Number of sequences in database: 2,394,679 Lambda K H 0.329 0.149 0.445 Lambda K H 0.267 0.0473 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 1,322,269,114 Number of Sequences: 14124377 Number of extensions: 48435659 Number of successful extensions: 141232 Number of sequences better than 10.0: 2 Number of HSP's better than 10.0 without gapping: 2 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 141229 Number of HSP's gapped (non-prelim): 4 length of query: 53 length of database: 4,842,793,630 effective HSP length: 26 effective length of query: 27 effective length of database: 4,475,559,828 effective search space: 120840115356 effective search space used: 120840115356 T: 11 A: 40 X1: 16 ( 7.6 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 76 (33.7 bits)