Документ взят из кэша поисковой машины. Адрес оригинального документа : http://kodomo.cmm.msu.ru/~vika-chan/projects/blastpack/ihfa_in_pm.blast Дата изменения: Tue Nov 3 01:33:42 2009 Дата индексирования: Tue Nov 24 18:40:02 2009 Кодировка:

TBLASTN 2.2.21 [Jun-14-2009]


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 compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= IHFA_ECOLI P0A6X7 RecName: Full=Integration host factor subunit
alpha; Short=IHF-alpha;
(99 letters)

Database: pm
204 sequences; 2,269,587 total letters

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



Score E
Sequences producing significant alignments: (bits) Value

AE006099 Pasteurella multocida subsp. multocida str. Pm70 sectio... 144 7e-37
AE006118 Pasteurella multocida subsp. multocida str. Pm70 sectio... 67 2e-13
AE006210 Pasteurella multocida subsp. multocida str. Pm70 sectio... 65 8e-13

>AE006099 Pasteurella multocida subsp. multocida str. Pm70 section 66
of 204 of the complete genome.
Length = 11156

Score = 144 bits (364), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 69/97 (71%), Positives = 82/97 (84%)
Frame = -1

Query: 1 MALTKAEMSEYLFDKLGLSKRDAKELVELFFEEIRRALENGEQVKLSGFGNFDLRDKNQR 60
M LTK E+++ L +KL L+KRDAKELVE FFEEIR ALE GE VKLSGFGNF+LRDK+ R
Sbjct: 5798 MTLTKVELADNLIEKLHLNKRDAKELVENFFEEIRVALETGEDVKLSGFGNFELRDKSSR 5619

Query: 61 PGRNPKTGEDIPITARRVVTFRPGQKLKSRVENASPK 97
PGRNPKTGE +P++ARRVV F+PGQKL++RVE PK
Sbjct: 5618 PGRNPKTGESVPVSARRVVAFKPGQKLRARVEKTKPK 5508


>AE006118 Pasteurella multocida subsp. multocida str. Pm70 section 85
of 204 of the complete genome.
Length = 11828

Score = 67.0 bits (162), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 60/91 (65%), Gaps = 1/91 (1%)
Frame = -2

Query: 3 LTKAEMSEYLFDKL-GLSKRDAKELVELFFEEIRRALENGEQVKLSGFGNFDLRDKNQRP 61
+TK+E+ E L K ++ +D + V+ +++ ALE+G+++++ GFG+F L + R
Sbjct: 6637 MTKSELIERLVQKCHAVAAKDVENAVKEILDQMSFALESGKRIEVRGFGSFSLHYRQPRL 6458

Query: 62 GRNPKTGEDIPITARRVVTFRPGQKLKSRVE 92
GRNPKTGE + + A+ V F+ G++L+ RV+
Sbjct: 6457 GRNPKTGEQVKLDAKSVPHFKAGKELRERVD 6365


>AE006210 Pasteurella multocida subsp. multocida str. Pm70 section 177
of 204 of the complete genome.
Length = 13962

Score = 64.7 bits (156), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 51/90 (56%)
Frame = -2

Query: 3 LTKAEMSEYLFDKLGLSKRDAKELVELFFEEIRRALENGEQVKLSGFGNFDLRDKNQRPG 62
+ K ++ + + L+K+ AK +E E I +L+ GE V+L GFG F + + R G
Sbjct: 6869 MNKTDLIDAIASAAELNKKQAKAALEATLEAISGSLKAGEPVQLIGFGTFKVNSRKARTG 6690

Query: 63 RNPKTGEDIPITARRVVTFRPGQKLKSRVE 92
RNP+TG +I I A +V F G+ LK V+
Sbjct: 6689 RNPQTGAEIKIAASKVPAFVAGKALKDAVK 6600


Database: pm
Posted date: Nov 3, 2009 1:13 AM
Number of letters in database: 2,269,587
Number of sequences in database: 204

Lambda K H
0.315 0.135 0.371

Gapped
Lambda K H
0.267 0.0410 0.140


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 204
Number of Hits to DB: 154,914
Number of extensions: 1446
Number of successful extensions: 6
Number of sequences better than 1.0e-03: 3
Number of HSP's gapped: 6
Number of HSP's successfully gapped: 3
Length of query: 99
Length of database: 756,529
Length adjustment: 67
Effective length of query: 32
Effective length of database: 742,861
Effective search space: 23771552
Effective search space used: 23771552
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 41 (20.4 bits)