TBLASTN 2.2.17 [Aug-26-2007] 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 composition-based statistics: 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= SPP00000075_1.0 # Protein # Methionine sulfoxide reductase A (MsrA) # Saccharomyces cerevisae # Complete (184 letters) Database: genome.fa 2960 sequences; 20,171,213 total letters Searching..................................................done ***** No hits found ****** TBLASTN 2.2.17 [Aug-26-2007] 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 composition-based statistics: 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= SPP00000076_1.0 # Protein # Selenoprotein O (SelO) # Saccharomyces cerevisae # Complete (688 letters) Database: genome.fa 2960 sequences; 20,171,213 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Plasmodium_yoelii_yoelii_str._17XNL|MALPY01586|2002-09-10|ds-DNA... 30 5.4 Plasmodium_yoelii_yoelii_str._17XNL|MALPY00141|2002-09-10|ds-DNA... 29 9.4 >Plasmodium_yoelii_yoelii_str._17XNL|MALPY01586|2002-09-10|ds- DNA|Plasmodium_yoelii_TIGR Length = 5187 Score = 29.6 bits (65), Expect = 5.4, Method: Composition-based stats. Identities = 19/60 (31%), Positives = 32/60 (53%) Frame = +1 Query: 526 LFGAFDEEYLGMFFNSKQLQQMAETEEAFAAGEKVFDANGELRLLNEKLQEIRNWTQDYL 585 + GAF+ E +G+ F K+L+ ++ + A G+K+ L+ L KL EI + D L Sbjct: 718 ILGAFEAEDVGVEFLLKELKSVSTSTLATKVGDKL----SALKTLISKLYEISEYLNDIL 885 >Plasmodium_yoelii_yoelii_str._17XNL|MALPY00141|2002-09-10|ds- DNA|Plasmodium_yoelii_TIGR Length = 15312 Score = 28.9 bits (63), Expect = 9.4, Method: Composition-based stats. Identities = 15/42 (35%), Positives = 20/42 (47%) Frame = -3 Query: 503 NFFIHLQNYKGPFFIKDKSDTATLFGAFDEEYLGMFFNSKQL 544 +FF H NY FF + ++ F FD L FF+ QL Sbjct: 11245 SFFFHFDNYISSFFFHFDNYISSFFFHFDNYILSFFFSF*QL 11120 TBLASTN 2.2.17 [Aug-26-2007] 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 composition-based statistics: 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= SPP00000077_1.0 # Protein # Selenoprotein R (SelR) # Saccharomyces cerevisae # Complete (165 letters) Database: genome.fa 2960 sequences; 20,171,213 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Plasmodium_yoelii_yoelii_str._17XNL|MALPY01251|2002-09-10|ds-DNA... 30 0.72 >Plasmodium_yoelii_yoelii_str._17XNL|MALPY01251|2002-09-10|ds- DNA|Plasmodium_yoelii_TIGR Length = 8588 Score = 29.6 bits (65), Expect = 0.72, Method: Composition-based stats. Identities = 9/19 (47%), Positives = 14/19 (73%) Frame = +2 Query: 146 SSPWKSPAYSYNVQPAPLI 164 SSP+ +P+Y Y +QP P + Sbjct: 4967 SSPYNNPSYYYMIQPQPFL 5023 Database: genome.fa Posted date: Feb 25, 2008 11:55 AM Number of letters in database: 20,171,213 Number of sequences in database: 2960 Lambda K H 0.317 0.135 0.417 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2960 Number of Hits to DB: 22,891,796 Number of extensions: 357661 Number of successful extensions: 1405 Number of sequences better than 10.0: 14 Number of HSP's gapped: 1400 Number of HSP's successfully gapped: 14 Length of database: 6,723,737 Neighboring words threshold: 13 Window for multiple hits: 40 X1: 15 ( 6.9 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.2 bits) S2: 44 (21.6 bits)