TBLASTN 2.2.10 [Oct-19-2004]


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.

Query= ASSY_ECOLI 
         (447 letters)

Database: pa 
           529 sequences; 6,296,083 total letters

Searching..done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE004773|AE004773 Pseudomonas aeruginosa PAO1, section 334 ...   121   2e-28
embl|AE004520|AE004520 Pseudomonas aeruginosa PAO1, section 81 o...    28   2.8  
embl|AE004694|AE004694 Pseudomonas aeruginosa PAO1, section 255 ...    28   3.7  
embl|AE004442|AE004442 Pseudomonas aeruginosa PAO1, section 3 of...    27   6.2  
embl|AE004726|AE004726 Pseudomonas aeruginosa PAO1, section 287 ...    27   8.1  

>embl|AE004773|AE004773 Pseudomonas aeruginosa PAO1, section 334 of
            529 of the complete genome.
          Length = 10822

 Score =  121 bits (304), Expect = 2e-28
 Identities = 105/409 (25%), Positives = 189/409 (46%), Gaps = 10/409 (2%)
 Frame = -2

Query: 12   QRIGIAFSGGLDTSAALLWMRQK-GAVPYAYTANLGQPDEEDYDAIPRRAMEYGAENARL 70
            +++ +A+SGGLDTS  L W++         +TA+LGQ +E +      RAM  G +   +
Sbjct: 1902 KKVVLAYSGGLDTSVILKWLQDTYNCEVVTFTADLGQGEEVEPARAKARAM--GVKEIYI 1729

Query: 71   IDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGS 130
             D R++ V + +  +      NT     Y   T + R +    L+    E G +    G+
Sbjct: 1728 DDLREEFVRDFVYPMFRA---NTVYEGEYLLGTSIARPLIAKRLIEIANETGADAISHGA 1558

Query: 131  TYKGNDIERFYRYGLLTNAELQIYKPWLDTDFIDELGGRHEMSEFMIACGFDYKMSVEKA 190
            T KGND  RF          +++  PW + D +     R ++ ++    G   +   +K 
Sbjct: 1557 TGKGNDQVRFELGAYALKPGVKVIAPWREWDLLS----REKLMDYAEKHGIPIERHGKKK 1390

Query: 191  --YSTDSNMLGATHEAKDLEYLNSSVKIVNPIMGVKFWDESVKIPAEEVTVRFEQGHPVA 248
              YS D+N+L  ++E   LE  ++  +    +       E+       + + + +G  VA
Sbjct: 1389 SPYSMDANLLHISYEGGVLE--DTWTEHEEDMWKWTASPENAPDTPTYIELTYRKGDIVA 1216

Query: 249  LNGKTFSDDVEMMLEANRIGGRHGLGMSDQIENRIIEAKSRGIYEAPGMALLHIAYERLL 308
            ++GK  +   E++ E NR+GG +G+G  D +ENR +  KSRG YE PG  ++  A+  + 
Sbjct: 1215 IDGKDMTP-AEVLTELNRVGGINGIGRLDIVENRYVGMKSRGCYETPGGTIMLKAHRAI- 1042

Query: 309  TGIHNEDTIEQYHAHGR-----QLGRLLYQGRWFDSQALMLRDSLQRWVASQ--ITGEVT 361
                   T+++  AH +     +   L+Y G W+  + LML+  +    ASQ  + G V 
Sbjct: 1041 ----ESITLDREVAHLKDELMPKYASLIYTGYWWSPERLMLQQMID---ASQVNVNGVVR 883

Query: 362  LELRRGNDYSILNTVSENLTYKPERLTMEKGDSVFSPDDRIGQLTMRNL 410
            L+L +GN   ++   S++  +     T E+    ++  D  G + +  L
Sbjct: 882  LKLYKGN-VVVVGRKSDDSLFDANIATFEEDGGAYNQADAAGFIKLNAL 739


>embl|AE004520|AE004520 Pseudomonas aeruginosa PAO1, section 81 of 529
            of the complete genome.
          Length = 12217

 Score = 28.1 bits (61), Expect = 2.8
 Identities = 14/35 (40%), Positives = 22/35 (62%)
 Frame = -2

Query: 272  GLGMSDQIENRIIEAKSRGIYEAPGMALLHIAYER 306
            GLG+   +ENR++  +  G+ EA G  LLH+  +R
Sbjct: 7914 GLGLVT-LENRLLALRRLGLGEALGQHLLHLGIDR 7813


>embl|AE004694|AE004694 Pseudomonas aeruginosa PAO1, section 255 of
            529 of the complete genome.
          Length = 11017

 Score = 27.7 bits (60), Expect = 3.7
 Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
 Frame = +3

Query: 233  PAEEVTVRFEQGHPVALNGKTFSDDVE-MMLEANRIGGRHGLGMSDQIENRIIEAKSRGI 291
            PAE  TV  E+   V  + +   D+VE ++ +A R+G  H  G+       +++A+  G 
Sbjct: 1611 PAEHATVAEEEEQQVEHDAEA-DDEVEGVLADAERLGRHHLAGLHRHRGELLLQAREIGQ 1787

Query: 292  YEA 294
             EA
Sbjct: 1788 VEA 1796


>embl|AE004442|AE004442 Pseudomonas aeruginosa PAO1, section 3 of 529
            of the complete genome.
          Length = 10141

 Score = 26.9 bits (58), Expect = 6.2
 Identities = 13/42 (30%), Positives = 25/42 (59%), Gaps = 4/42 (9%)
 Frame = -3

Query: 247  VALNGKTFSDDVEMMLEANRIGGRHGL----GMSDQIENRII 284
            +A+   T  DD+E  ++A+R+G R GL     ++ Q+E  ++
Sbjct: 4163 LAILAATHPDDLERAVDAHRLGNRIGLLDQRSLAQQVEPAVL 4038


>embl|AE004726|AE004726 Pseudomonas aeruginosa PAO1, section 287 of
            529 of the complete genome.
          Length = 10681

 Score = 26.6 bits (57), Expect = 8.1
 Identities = 15/34 (44%), Positives = 23/34 (67%), Gaps = 2/34 (5%)
 Frame = -1

Query: 243  QGHP--VALNGKTFSDDVEMMLEANRIGGRHGLG 274
            +G P  +A+ GKT    V++M EANR+G ++G G
Sbjct: 7180 EGFPDRMAVEGKTA---VDVMYEANRLGQKNGKG 7088


  Database: pa
    Posted date:  Nov 14, 2006  2:54 PM
  Number of letters in database: 6,296,083
  Number of sequences in database:  529
  
Lambda     K      H
   0.317    0.135    0.397 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,341,288
Number of Sequences: 529
Number of extensions: 51290
Number of successful extensions: 259
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 49
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 204
Number of HSP's gapped (non-prelim): 95
length of query: 447
length of database: 2,098,694
effective HSP length: 92
effective length of query: 355
effective length of database: 2,050,026
effective search space: 727759230
effective search space used: 727759230
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)