TBLASTN 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.
Reference: Gish, W. (1996-2000) http://blast.wustl.edu
Notice: statistical significance is estimated under the assumption that the
equivalent of one entire reading frame of the database codes for protein and
that significant alignments will involve only coding reading frames.
Query= gi|142865|gb|AAA22406.1| DNA primase
(603 letters)
Database: ecoli.nt
400 sequences; 4,662,239 total letters.
Searching....10....20....30....40....50....60....70....80....90....100% done
Smallest
Sum
Reading High Probability
Sequences producing High-scoring Segment Pairs: Frame Score P(N) N
gi|1789441|gb|AE000388.1|AE000388 Escherichia coli K-1... +2 671 1.4e-73 1
>gi|1789441|gb|AE000388.1|AE000388 Escherichia coli K-12 MG1655 section 278 of
400 of the complete genome
Length = 10,334
Plus Strand HSPs:
Score = 671 (265.8 bits), Expect = 1.4e-73, P = 1.4e-73
Identities = 151/421 (35%), Positives = 223/421 (52%), Frame = +2
Query: 1 MGNRIPDEIVDQVQKSADIVEVIGDYVQLKKQGRNYFGLCPFHGESTPSFSVSPDKQIFH 60
M RIP ++ + DIV++I V+LKKQG+N+ CPFH E TPSF+V+ +KQ +H
Sbjct: 4778 MAGRIPRVFINDLLARTDIVDLIDARVKLKKQGKNFHACCPFHNEKTPSFTVNGEKQFYH 4957
Query: 61 CFGCGAGGNVFSFLRQMEGYSFAESVSHLADKYQIDFPDDITVHSGARP---ESSGEQKM 117
CFGCGA GN FL + F E+V LA + ++ P + +G+ P E Q +
Sbjct: 4958 CFGCGAHGNAIDFLMNYDKLEFVETVEELAAMHNLEVPFE----AGSGPSQIERHQRQTL 5125
Query: 118 AEAHELLKKFYHHLLINTKEGQEALDYLLSRGFTKELINEFQIGYALDSWDFITKFLVKR 177
+ + L FY L A YL RG + E+I F IG+A WD + K
Sbjct: 5126 YQLMDGLNTFYQQSL-QQPVATSARQYLEKRGLSHEVIARFAIGFAPPGWDNVLKRFGGN 5302
Query: 178 GFSEAQMEKAGLLIRREDGSGYFDRFRNRVMFPIHDHHGAVVAFSGRALGSQQPKYMNSP 237
+ + AG+L+ + G Y DRFR RVMFPI D G V+ F GR LG+ PKY+NSP
Sbjct: 5303 PENRQSLIDAGMLVTNDQGRSY-DRFRERVMFPIRDKRGRVIGFGGRVLGNDTPKYLNSP 5479
Query: 238 ETPLFHKSKLLYNFYKARLHIRKQERAVLFEGFADVYTAVSSDVKESIATMGTSLTDDHV 297
ET +FHK + LY Y+A+ + R ++ EG+ DV + ++A++GTS T DH+
Sbjct: 5480 ETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVVALAQYGINYAVASLGTSTTADHI 5659
Query: 298 KILRRNVEEIILCYDSDKAGYEATLKASELL---QKKGCKVRVAMIPDGLDPDDYIKKFG 354
++L R +I CYD D+AG +A +A E G ++R +PDG DPD ++K G
Sbjct: 5660 QLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPDGEDPDTLVRKEG 5839
Query: 355 GEKFKNDIIDASVTVMAFKMQYFRKGKNLSDEGDRLAYIKDVLKEISTLSGSLEQEVYVK 414
E F+ + + ++ + AF +LS R L IS + G + +Y++
Sbjct: 5840 KEAFEARM-EQAMPLSAFLFNSLMPQVDLSTPDGRARLSTLALPLISQVPGETLR-IYLR 6013
Query: 415 Q 415
Q
Sbjct: 6014 Q 6016
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=6.00
E=10
Query ----- As Used ----- ----- Computed ----
Frame MatID Matrix name Lambda K H Lambda K H
+0 0 blosum62 0.320 0.136 0.387 same same same
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
+0 0 603 603 10. 59 3 13 16 0.020 41
38 0.0 59
Statistics:
Database: /home/jes12/db/ecoli.nt
Title: ecoli.nt
Posted: 3:16:20 PM EST Nov 18, 2001
Created: 10:10:31 AM EST Nov 18, 2001
Format: XDF-1
# of letters in database: 4,662,239
# of sequences in database: 400
# of database sequences satisfying E: 1
No. of states in DFA: 538 (57 KB)
Total size of DFA: 76 KB (1061 KB)
Time to generate neighborhood: 0.00u 0.01s 0.01t Elapsed: 00:00:00
No. of threads or processors used: 1
Search cpu time: 0.46u 0.01s 0.47t Elapsed: 00:00:01
Total cpu time: 0.46u 0.03s 0.49t Elapsed: 00:00:03
Start: Sat Apr 20 18:21:51 2002 End: Sat Apr 20 18:21:54 2002