BLASTP 2.2.4 [Aug-26-2002]
Reference:
Altschul, Stephen F., 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.
Query= my own sequence
(313 letters)
Database: c:\bioinfo-adv\blast\data\ecoli.aa
4289 sequences; 1,358,990 total letters
Score E
Sequences producing significant alignments: (bits) Value
gb|AAC73170.1| (AE000116) probable ATP-dependent RNA helica... 491 e-140
gb|AAC76590.1| (AE000434) xylose binding protein transport ... 26 3.9
>gb|AAC73170.1| (AE000116) probable ATP-dependent RNA helicase [Escherichia coli]
Length = 968
Score = 491 bits (1265), Expect = e-140
Identities = 272/367 (74%), Positives = 272/367 (74%), Gaps = 78/367 (21%)
Query: 4 DEAHHLVWSEDAPSREYQAIEQLAEHVPLHEHLLDVDEAGVLLLTATPEQLGMESHFARL 63
DEAHHLVWSEDAPSREYQAIEQLAEHVP GVLLLTATPEQLGMESHFARL
Sbjct: 280 DEAHHLVWSEDAPSREYQAIEQLAEHVP-----------GVLLLTATPEQLGMESHFARL 328
Query: 64 RLLDPNRFHDFAQFVEEQKNYRPVADAV---------------------------PLLQA 96
RLLDPNRFHDFAQFVEEQKNYRPVADAV PLLQA
Sbjct: 329 RLLDPNRFHDFAQFVEEQKNYRPVADAVAMLLAGNKLSNDELNMLGEMIGEQDIEPLLQA 388
Query: 97 ANSDSEDA--------SMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIKLPLPTQYQTAI 148
ANSDSEDA SMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIKLPLPTQYQTAI
Sbjct: 389 ANSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIKLPLPTQYQTAI 448
Query: 149 KVSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTS-------- 200
KVSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTS
Sbjct: 449 KVSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHRSQKVLV 508
Query: 201 --AKAATALQLEQVL--------XXXXXXXXXXXXXXXXXWFAEEDTGAQVLLCSEIGSE 250
AKAATALQLEQVL WFAEEDTGAQVLLCSEIGSE
Sbjct: 509 ICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSE 568
Query: 251 GRNFQFASHMVMFDLPFNPDLLEQGARKSAEDRARIGRLDRIGQAHDIQIHVPYLE---- 306
GRNFQFASHMVMFDLPFNPDLLEQ RIGRLDRIGQAHDIQIHVPYLE
Sbjct: 569 GRNFQFASHMVMFDLPFNPDLLEQ----------RIGRLDRIGQAHDIQIHVPYLEKTAQ 618
Query: 307 SVLVRWY 313
SVLVRWY
Sbjct: 619 SVLVRWY 625
>gb|AAC76590.1| (AE000434) xylose binding protein transport system [Escherichia
coli]
Length = 330
Score = 25.8 bits (55), Expect = 3.9
Identities = 16/76 (21%), Positives = 35/76 (46%), Gaps = 6/76 (7%)
Query: 235 EDTGAQVLLCSEIGSEGRNFQFASHM------VMFDLPFNPDLLEQGARKSAEDRARIGR 288
E GA+V + S G+E +M V+ +P+N +L +++ ++ ++
Sbjct: 52 ESLGAKVFVQSANGNEETQMSQIENMINRGVDVLVIIPYNGQVLSNVVKEAKQEGIKVLA 111
Query: 289 LDRIGQAHDIQIHVPY 304
DR+ DI ++ +
Sbjct: 112 YDRMINDADIDFYISF 127
Database: c:\bioinfo-adv\blast\data\ecoli.aa
Posted date: Oct 25, 2002 8:30 AM
Number of letters in database: 1,358,990
Number of sequences in database: 4289
Lambda K H
0.320 0.135 0.406
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 803,680
Number of Sequences: 4289
Number of extensions: 31501
Number of successful extensions: 60
Number of sequences better than 5.0: 2
Number of HSP's better than 5.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 51
Number of HSP's gapped (non-prelim): 2
length of query: 313
length of database: 1,358,990
effective HSP length: 84
effective length of query: 229
effective length of database: 998,714
effective search space: 228705506
effective search space used: 228705506
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)