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BLASTN 2.2.15 [Oct-15-2006]


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.

Query= V00339 V00339.1 E. coli operon rpoBC coding for the beta- and
beta'-subunits of RNA polymerase (genes rpoC and rpoB), and genes
rplL, rlpJ, rplA, and rplK coding for 50S ribosomal subunit proteins
L7/L12, L10, L1, and L11, respectively. (Map position 89-90 min.)
(366 letters)

Database: all
884 sequences; 12,243,887 total letters

Searching..................................................done



Score E
Sequences producing significant alignments: (bits) Value

AE008894 AE006468 |AE008894| Salmonella typhimurium LT2, section... 412 e-115
embl|AE006211|AE006211 Pasteurella multocida subsp. multocida st... 70 4e-12

>AE008894 AE006468 |AE008894| Salmonella typhimurium LT2, section 198
of 220 of the complete genome.
Length = 23650

Score = 412 bits (208), Expect = e-115
Identities = 229/236 (97%)
Strand = Plus / Plus


Query: 131 gcccggttgaagctgctgaagaaaaaactgaattcgacgtaattctgaaagctgctggcg 190
|||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 2366 gcccggctgaagctgctgaagaaaaaactgaattcgacgtaattctgaaagctgctggcg 2425


Query: 191 ctaacaaagttgctgttatcaaagcagtacgtggcgcaactggcctgggtctgaaagaag 250
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 2426 ctaacaaagttgctgttatcaaagcagtacgtggcgcaactggcctgggtctgaaagaag 2485


Query: 251 ctaaagacttggtagaatctgcaccggctgctctgaaagaaggcgtgagcaaagacgacg 310
|||||||| ||||||||||||| ||||| |||||||||||||||||||||||||| ||||
Sbjct: 2486 ctaaagacctggtagaatctgctccggccgctctgaaagaaggcgtgagcaaagatgacg 2545


Query: 311 cagaagcactgaaaaaagctctggaagaagctggcgctgaagttgaagttaaataa 366
| ||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 2546 ctgaagcactgaaaaaatctctggaagaagctggcgctgaagttgaagttaaataa 2601



Score = 163 bits (82), Expect = 4e-40
Identities = 97/102 (95%)
Strand = Plus / Plus


Query: 1 atgtctatcactaaagatcaaatcattgaagcagttgcagctatgtctgtaatggacgtt 60
||||||||||||||||||||||||||||||||||| | |||||||| ||||||||||||
Sbjct: 2236 atgtctatcactaaagatcaaatcattgaagcagtatccgctatgtccgtaatggacgtt 2295


Query: 61 gtagaactgatctctgcaatggaagaaaaattcggtgtttcc 102
||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 2296 gtagaactgatttctgcaatggaagaaaaattcggtgtttcc 2337


>embl|AE006211|AE006211 Pasteurella multocida subsp. multocida str.
Pm70 section 178 of 204 of the complete genome.
Length = 10859

Score = 69.9 bits (35), Expect = 4e-12
Identities = 110/135 (81%)
Strand = Plus / Minus


Query: 138 tgaagctgctgaagaaaaaactgaattcgacgtaattctgaaagctgctggcgctaacaa 197
|||||| |||||||| |||||||||||||||||| | || || || || || |||||
Sbjct: 4617 tgaagcagctgaagagaaaactgaattcgacgtagtacttgcaggcgcaggtgcgaacaa 4558


Query: 198 agttgctgttatcaaagcagtacgtggcgcaactggcctgggtctgaaagaagctaaaga 257
|||||| || |||||||| |||||||| |||||||| | || | |||||||| |||||
Sbjct: 4557 agttgcagtaatcaaagcggtacgtggtgcaactggtttaggcttaaaagaagcgaaaga 4498


Query: 258 cttggtagaatctgc 272
||| || ||||||||
Sbjct: 4497 cttagttgaatctgc 4483



Score = 42.1 bits (21), Expect = 9e-04
Identities = 36/41 (87%)
Strand = Plus / Minus


Query: 61 gtagaactgatctctgcaatggaagaaaaattcggtgtttc 101
|||||| | ||| |||| |||||||||||||| ||||||||
Sbjct: 4697 gtagaattaatcgctgcgatggaagaaaaatttggtgtttc 4657


Database: all
Posted date: Oct 28, 2008 10:42 PM
Number of letters in database: 12,243,887
Number of sequences in database: 884

Lambda K H
1.37 0.711 1.31

Gapped
Lambda K H
1.37 0.711 1.31


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 884
Number of Hits to DB: 47,271
Number of extensions: 3044
Number of successful extensions: 68
Number of sequences better than 1.0e-03: 2
Number of HSP's gapped: 68
Number of HSP's successfully gapped: 5
Length of query: 366
Length of database: 12,243,887
Length adjustment: 16
Effective length of query: 350
Effective length of database: 12,229,743
Effective search space: 4280410050
Effective search space used: 4280410050
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 25 (49.6 bits)
S1: 14 (28.2 bits)
S2: 21 (42.1 bits)