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= Rv3424c
Length=120
Score E
Sequences producing significant alignments: (Bits) Value
gi|15610560|ref|NP_217941.1| hypothetical protein Rv3424c [Mycob... 244 4e-63
gi|289747253|ref|ZP_06506631.1| conserved hypothetical protein [... 242 1e-62
gi|289752152|ref|ZP_06511530.1| conserved hypothetical protein [... 154 4e-36
>gi|15610560|ref|NP_217941.1| hypothetical protein Rv3424c [Mycobacterium tuberculosis H37Rv]
gi|15843021|ref|NP_338058.1| hypothetical protein MT3532.2 [Mycobacterium tuberculosis CDC1551]
gi|31794605|ref|NP_857098.1| hypothetical protein Mb3458c [Mycobacterium bovis AF2122/97]
47 more sequence titles
Length=120
Score = 244 bits (622), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 120/120 (100%), Positives = 120/120 (100%), Gaps = 0/120 (0%)
Query 1 MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP 60
MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP
Sbjct 1 MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP 60
Query 61 RHGLSRVVQCLGGCENKRHAYFRSISKTPHIRARGVPSVCAVRTVGVDGAKRPPKPIPVQ 120
RHGLSRVVQCLGGCENKRHAYFRSISKTPHIRARGVPSVCAVRTVGVDGAKRPPKPIPVQ
Sbjct 61 RHGLSRVVQCLGGCENKRHAYFRSISKTPHIRARGVPSVCAVRTVGVDGAKRPPKPIPVQ 120
>gi|289747253|ref|ZP_06506631.1| conserved hypothetical protein [Mycobacterium tuberculosis 02_1987]
gi|289687781|gb|EFD55269.1| conserved hypothetical protein [Mycobacterium tuberculosis 02_1987]
gi|326905267|gb|EGE52200.1| hypothetical protein TBPG_03208 [Mycobacterium tuberculosis W-148]
Length=120
Score = 242 bits (618), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 119/120 (99%), Positives = 119/120 (99%), Gaps = 0/120 (0%)
Query 1 MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP 60
MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP
Sbjct 1 MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP 60
Query 61 RHGLSRVVQCLGGCENKRHAYFRSISKTPHIRARGVPSVCAVRTVGVDGAKRPPKPIPVQ 120
RHGLSRVVQCLGGCENKRHAYFRSISKTPHIRARG PSVCAVRTVGVDGAKRPPKPIPVQ
Sbjct 61 RHGLSRVVQCLGGCENKRHAYFRSISKTPHIRARGAPSVCAVRTVGVDGAKRPPKPIPVQ 120
>gi|289752152|ref|ZP_06511530.1| conserved hypothetical protein [Mycobacterium tuberculosis T92]
gi|289692739|gb|EFD60168.1| conserved hypothetical protein [Mycobacterium tuberculosis T92]
Length=106
Score = 154 bits (389), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 83/102 (82%), Positives = 87/102 (86%), Gaps = 5/102 (4%)
Query 1 MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP 60
MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP
Sbjct 1 MPNPVTMLYGRKADLVILPHVLAEERPHPYSTPGRKRGAQIALTTGIDALASFAPQIVNP 60
Query 61 RHGLSRVVQCLGGCENKRHAYFRSISKTPHIRARGVPSVCAV 102
RHGLSRVVQCLG + K F + S+ HIRA+G CAV
Sbjct 61 RHGLSRVVQCLGVVKIKDTLPF-APSQNTHIRAKG----CAV 97
Lambda K H
0.321 0.138 0.429
Gapped
Lambda K H
0.267 0.0410 0.140
Effective search space used: 128530997826
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