BLASTX 2.0MP-WashU [12-Feb-2001] [linux-i686 01:36:08 31-Jan-2001]
Copyright (C) 1996-2000 Washington University, Saint Louis, Missouri USA.
All Rights Reserved.
Gish, Warren and David J. States (1993). Identification of protein coding
regions by database similarity search. Nat. Genet. 3:266-72.
Notice: statistical significance is estimated under the assumption that the
equivalent of one entire reading frame in the query sequence codes for protein
and that significant alignments will involve only coding reading frames.
Query= gi|142864|gb|M10040.1|BACDNAE B.subtilis dnaE gene encoding DNA
primase, complete cds
(2001 letters)
Translating both strands of query sequence in all 6 reading frames
Database: ecoli.aa
4289 sequences; 1,358,990 total letters.
Searching....10....20....30....40....50....60....70....80....90....100% done
Smallest
Sum
High Probability
Sequences producing High-scoring Segment Pairs: Score P(N) N
gi|1789447|gb|AAC76102.1| (AE000388) DNA biosynthesis; DN... 671 1.1e-74 1
>gi|1789447|gb|AAC76102.1| (AE000388) DNA biosynthesis; DNA primase
[Escherichia coli]
Length = 581
Plus Strand HSPs:
Score = 671 (265.8 bits), Expect = 1.1e-74, P = 1.1e-74
Identities = 151/421 (35%), Positives = 223/421 (52%), Frame = +3
Query: 21 MGNRIPDEIVDQVQKSADIVEVIGDYVQLKKQGRNYFGLCPFHGESTPSFSVSPDKQIFH 200
M RIP ++ + DIV++I V+LKKQG+N+ CPFH E TPSF+V+ +KQ +H
Sbjct: 1 MAGRIPRVFINDLLARTDIVDLIDARVKLKKQGKNFHACCPFHNEKTPSFTVNGEKQFYH 60
Query: 201 CFGCGAGGNVFSFLRQMEGYSFAESVSHLADKYQIDFPDDITVHSGARP---ESSGEQKM 371
CFGCGA GN FL + F E+V LA + ++ P + +G+ P E Q +
Sbjct: 61 CFGCGAHGNAIDFLMNYDKLEFVETVEELAAMHNLEVPFE----AGSGPSQIERHQRQTL 116
Query: 372 AEAHELLKKFYHHLLINTKEGQEALDYLLSRGFTKELINEFQIGYALDSWDFITKFLVKR 551
+ + L FY L A YL RG + E+I F IG+A WD + K
Sbjct: 117 YQLMDGLNTFYQQSL-QQPVATSARQYLEKRGLSHEVIARFAIGFAPPGWDNVLKRFGGN 175
Query: 552 GFSEAQMEKAGLLIRREDGSGYFDRFRNRVMFPIHDHHGAVVAFSGRALGSQQPKYMNSP 731
+ + AG+L+ + G Y DRFR RVMFPI D G V+ F GR LG+ PKY+NSP
Sbjct: 176 PENRQSLIDAGMLVTNDQGRSY-DRFRERVMFPIRDKRGRVIGFGGRVLGNDTPKYLNSP 234
Query: 732 ETPLFHKSKLLYNFYKARLHIRKQERAVLFEGFADVYTAVSSDVKESIATMGTSLTDDHV 911
ET +FHK + LY Y+A+ + R ++ EG+ DV + ++A++GTS T DH+
Sbjct: 235 ETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVVALAQYGINYAVASLGTSTTADHI 294
Query: 912 KILRRNVEEIILCYDSDKAGYEATLKASELL---QKKGCKVRVAMIPDGLDPDDYIKKFG 1082
++L R +I CYD D+AG +A +A E G ++R +PDG DPD ++K G
Sbjct: 295 QLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPDGEDPDTLVRKEG 354
Query: 1083 GEKFKNDIIDASVTVMAFKMQYFRKGKNLSDEGDRLAYIKDVLKEISTLSGSLEQEVYVK 1262
E F+ + + ++ + AF +LS R L IS + G + +Y++
Sbjct: 355 KEAFEARM-EQAMPLSAFLFNSLMPQVDLSTPDGRARLSTLALPLISQVPGETLR-IYLR 412
Query: 1263 Q 1265
Q
Sbjct: 413 Q 413
Parameters:
novalidctxok
nonnegok
gapall
Q=12
R=1
cpus=1
filter=seg
matrix=blosum62
W=3
S2=41
gapS2=68
X=16
gapX=38
hitdist=40
gi
gapL=0.27
gapK=0.047
gapH=0.23
ctxfactor=5.99
E=10
Query ----- As Used ----- ----- Computed ----
Frame MatID Matrix name Lambda K H Lambda K H
+3 0 blosum62 0.318 0.135 0.401 0.324 0.139 0.405
Q=12,R=1 0.270 0.0470 0.230 n/a n/a n/a
+2 0 blosum62 0.318 0.135 0.401 0.365 0.163 0.618
Q=12,R=1 0.270 0.0470 0.230 n/a n/a n/a
+1 0 blosum62 0.318 0.135 0.401 0.356 0.155 0.528
Q=12,R=1 0.270 0.0470 0.230 n/a n/a n/a
-1 0 blosum62 0.318 0.135 0.401 0.350 0.155 0.543
Q=12,R=1 0.270 0.0470 0.230 n/a n/a n/a
-2 0 blosum62 0.318 0.135 0.401 0.350 0.155 0.505
Q=12,R=1 0.270 0.0470 0.230 n/a n/a n/a
-3 0 blosum62 0.318 0.135 0.401 0.358 0.157 0.543
Q=12,R=1 0.270 0.0470 0.230 n/a n/a n/a
Query
Frame MatID Length Eff.Length E S W T X E2 S2
+3 0 666 666 10. 59 3 12 16 0.021 41
38 0.0 59
+2 0 666 666 10. 59 3 12 16 0.021 41
38 0.0 59
+1 0 667 667 10. 59 3 12 16 0.021 41
38 0.0 59
-1 0 667 667 10. 59 3 12 16 0.021 41
38 0.0 59
-2 0 666 666 10. 59 3 12 16 0.021 41
38 0.0 59
-3 0 666 666 10. 59 3 12 16 0.021 41
38 0.0 59
Statistics:
Database: /home/jes12/db/ecoli.aa
Title: ecoli.aa
Posted: 2:52:35 PM EST Nov 18, 2001
Created: 9:46:47 AM EST Nov 18, 2001
Format: XDF-1
# of letters in database: 1,358,990
# of sequences in database: 4289
# of database sequences satisfying E: 1
No. of states in DFA: 600 (64 KB)
Total size of DFA: 655 KB (1283 KB)
Time to generate neighborhood: 0.04u 0.01s 0.05t Elapsed: 00:00:00
No. of threads or processors used: 1
Search cpu time: 0.44u 0.01s 0.45t Elapsed: 00:00:01
Total cpu time: 0.48u 0.02s 0.50t Elapsed: 00:00:01
Start: Sat Apr 20 14:39:05 2002 End: Sat Apr 20 14:39:06 2002