BLASTP 2.2.25+
Reference:
Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schäffer,
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:
Alejandro A. Schäffer, 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.
Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF
excluding environmental samples from WGS projects
15,229,318 sequences; 5,219,829,388 total letters
Query= Rv3612c
Length=109
Score E
Sequences producing significant alignments: (Bits) Value
gi|15610748|ref|NP_218129.1| hypothetical protein Rv3612c [Mycob... 223 6e-57
gi|339633611|ref|YP_004725253.1| hypothetical protein MAF_36250 ... 192 2e-47
gi|119173335|ref|XP_001239137.1| predicted protein [Coccidioides... 35.4 2.5
>gi|15610748|ref|NP_218129.1| hypothetical protein Rv3612c [Mycobacterium tuberculosis H37Rv]
gi|15843223|ref|NP_338260.1| hypothetical protein MT3715 [Mycobacterium tuberculosis CDC1551]
gi|31794788|ref|NP_857281.1| hypothetical protein Mb3642c [Mycobacterium bovis AF2122/97]
38 more sequence titles
Length=109
Score = 223 bits (569), Expect = 6e-57, Method: Compositional matrix adjust.
Identities = 109/109 (100%), Positives = 109/109 (100%), Gaps = 0/109 (0%)
Query 1 MVAVLTYARQLGFCRSTPPTIPHSRNQLVNKTAGQAAVAESWADRVSPGAVTHATGAMCP 60
MVAVLTYARQLGFCRSTPPTIPHSRNQLVNKTAGQAAVAESWADRVSPGAVTHATGAMCP
Sbjct 1 MVAVLTYARQLGFCRSTPPTIPHSRNQLVNKTAGQAAVAESWADRVSPGAVTHATGAMCP 60
Query 61 TLGAHQFEPNQVRCTACLTRTLSCRIFRRRRELPVVGLASGDPLHPALG 109
TLGAHQFEPNQVRCTACLTRTLSCRIFRRRRELPVVGLASGDPLHPALG
Sbjct 61 TLGAHQFEPNQVRCTACLTRTLSCRIFRRRRELPVVGLASGDPLHPALG 109
>gi|339633611|ref|YP_004725253.1| hypothetical protein MAF_36250 [Mycobacterium africanum GM041182]
gi|339332967|emb|CCC28694.1| conserved hypothetical protein [Mycobacterium africanum GM041182]
Length=93
Score = 192 bits (487), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 93/93 (100%), Positives = 93/93 (100%), Gaps = 0/93 (0%)
Query 1 MVAVLTYARQLGFCRSTPPTIPHSRNQLVNKTAGQAAVAESWADRVSPGAVTHATGAMCP 60
MVAVLTYARQLGFCRSTPPTIPHSRNQLVNKTAGQAAVAESWADRVSPGAVTHATGAMCP
Sbjct 1 MVAVLTYARQLGFCRSTPPTIPHSRNQLVNKTAGQAAVAESWADRVSPGAVTHATGAMCP 60
Query 61 TLGAHQFEPNQVRCTACLTRTLSCRIFRRRREL 93
TLGAHQFEPNQVRCTACLTRTLSCRIFRRRREL
Sbjct 61 TLGAHQFEPNQVRCTACLTRTLSCRIFRRRREL 93
>gi|119173335|ref|XP_001239137.1| predicted protein [Coccidioides immitis RS]
Length=265
Score = 35.4 bits (80), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/56 (29%), Positives = 25/56 (45%), Gaps = 0/56 (0%)
Query 38 VAESWADRVSPGAVTHATGAMCPTLGAHQFEPNQVRCTACLTRTLSCRIFRRRREL 93
V SW D S + + P++ H FE N V C ++R + C + RR+
Sbjct 142 VVPSWVDSKSVLLRVRGSAGVLPSMMRHPFEKNLVNCKGLVSRVIRCLLLSRRKRF 197
Lambda K H
0.323 0.133 0.424
Gapped
Lambda K H
0.267 0.0410 0.140
Effective search space used: 129509500864
Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF
excluding environmental samples from WGS projects
Posted date: Sep 5, 2011 4:36 AM
Number of letters in database: 5,219,829,388
Number of sequences in database: 15,229,318
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40