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
