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= Rv2644c
Length=105
Score E
Sequences producing significant alignments: (Bits) Value
gi|15609781|ref|NP_217160.1| hypothetical protein Rv2644c [Mycob... 216 1e-54
gi|340627665|ref|YP_004746117.1| hypothetical protein MCAN_26901... 214 3e-54
gi|258654538|ref|YP_003203694.1| transcription elongation factor... 34.7 4.9
>gi|15609781|ref|NP_217160.1| hypothetical protein Rv2644c [Mycobacterium tuberculosis H37Rv]
gi|31793830|ref|NP_856323.1| hypothetical protein Mb2677c [Mycobacterium bovis AF2122/97]
gi|121638533|ref|YP_978757.1| hypothetical protein BCG_2671c [Mycobacterium bovis BCG str.
Pasteur 1173P2]
20 more sequence titles
Length=105
Score = 216 bits (550), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 105/105 (100%), Positives = 105/105 (100%), Gaps = 0/105 (0%)
Query 1 MSPRRTSGGVVPVDRYRIDEGLIVVLVFAGRDERRRTVCFADKFGCVHIGNPDLYRPQTS 60
MSPRRTSGGVVPVDRYRIDEGLIVVLVFAGRDERRRTVCFADKFGCVHIGNPDLYRPQTS
Sbjct 1 MSPRRTSGGVVPVDRYRIDEGLIVVLVFAGRDERRRTVCFADKFGCVHIGNPDLYRPQTS 60
Query 61 LPQPLPISSHAISGSRFVETTNRADQQEPIGPNRAELFDQALHAG 105
LPQPLPISSHAISGSRFVETTNRADQQEPIGPNRAELFDQALHAG
Sbjct 61 LPQPLPISSHAISGSRFVETTNRADQQEPIGPNRAELFDQALHAG 105
>gi|340627665|ref|YP_004746117.1| hypothetical protein MCAN_26901 [Mycobacterium canettii CIPT
140010059]
gi|340005855|emb|CCC45021.1| hypothetical protein MCAN_26901 [Mycobacterium canettii CIPT
140010059]
Length=105
Score = 214 bits (546), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 104/105 (99%), Positives = 104/105 (99%), Gaps = 0/105 (0%)
Query 1 MSPRRTSGGVVPVDRYRIDEGLIVVLVFAGRDERRRTVCFADKFGCVHIGNPDLYRPQTS 60
MSPRRTSGGVVPVDRYRIDEGLIVVLVFAGRDERRRTVCFADKFGCVHIGNPDLYRPQTS
Sbjct 1 MSPRRTSGGVVPVDRYRIDEGLIVVLVFAGRDERRRTVCFADKFGCVHIGNPDLYRPQTS 60
Query 61 LPQPLPISSHAISGSRFVETTNRADQQEPIGPNRAELFDQALHAG 105
LPQPLPISSHAISGSRFVETTNRADQQEPIGPNRAELFDQALH G
Sbjct 61 LPQPLPISSHAISGSRFVETTNRADQQEPIGPNRAELFDQALHTG 105
>gi|258654538|ref|YP_003203694.1| transcription elongation factor GreA [Nakamurella multipartita
DSM 44233]
gi|258557763|gb|ACV80705.1| transcription elongation factor GreA [Nakamurella multipartita
DSM 44233]
Length=163
Score = 34.7 bits (78), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/57 (30%), Positives = 30/57 (53%), Gaps = 1/57 (1%)
Query 9 GVVPVDRYRIDEGLIVVLVFAGRDERRRTVCFADKFGCVHIGNPDLYRPQTSLPQPL 65
GV P D ++ G++V + + G D+ + T + VH G+ +Y PQ+ L Q +
Sbjct 77 GVAPADDGVVEPGMVVTIAYDGDDDDKETFLLGSREEGVH-GSMPVYSPQSPLGQAI 132
Lambda K H
0.322 0.140 0.425
Gapped
Lambda K H
0.267 0.0410 0.140
Effective search space used: 131458853568
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