TBLASTN 2.2.15 [Oct-15-2006]


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= sp|P0A873|TRMD_ECOLI tRNA (guanine-N(1)-)-methyltransferase
OS=Escherichia coli (strain K12) GN=trmD PE=1 SV=1
         (255 letters)

Database: pme 
           204 sequences; 2,269,587 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

embl|AE006168|AE006168 Pasteurella multocida subsp. multocida st...   398   e-112

>embl|AE006168|AE006168 Pasteurella multocida subsp. multocida str.
            Pm70 section 135 of 204 of the complete genome.
          Length = 11367

 Score =  398 bits (1023), Expect = e-112
 Identities = 188/245 (76%), Positives = 217/245 (88%)
 Frame = +1

Query: 1    MWIGIISLFPEMFRAITDYGVTGRAVKNGLLSIQSWSPRDFTHDRHRTVDDRPYGGGPGM 60
            M +GIISLFPEMF+AIT++GVTGRAVK  LL ++ W+PRDFTHD+H+TVDDRPYGGGPGM
Sbjct: 7219 MLVGIISLFPEMFKAITEFGVTGRAVKQNLLQVRCWNPRDFTHDKHKTVDDRPYGGGPGM 7398

Query: 61   LMMVQPLRDAIHXXXXXXXXXXXVIYLSPQGRKLDQAGVSELATNQKLILVCGRYEGIDE 120
            LMMVQPLRDAI            VIYLSPQGRKLDQAGV ELA +QKLIL+CGRYEGIDE
Sbjct: 7399 LMMVQPLRDAIQAAKAEVGEGAKVIYLSPQGRKLDQAGVKELAQHQKLILLCGRYEGIDE 7578

Query: 121  RVIQTEIDEEWSIGDYVLSGGELPAMTLIDSVSRFIPGVLGHEASATEDSFAEGLLDCPH 180
            R+I+TE+DEEWS+GDYVL+GGELPAMTLID+V+RFIPGVLG +ASA EDSFAEGLLDCPH
Sbjct: 7579 RLIETEVDEEWSVGDYVLTGGELPAMTLIDAVARFIPGVLGKQASADEDSFAEGLLDCPH 7758

Query: 181  YTRPEVLEGMEVPPVLLSGNHAEIRRWRLKQSLGRTWLRRPELLENLALTEEQARLLAEF 240
            YTRPEVL+G+ VPPVL+SGNH EIR+WRL+QSL RTWLRRPELLE+LALT+EQ +LL + 
Sbjct: 7759 YTRPEVLDGLAVPPVLMSGNHEEIRKWRLRQSLERTWLRRPELLESLALTDEQRKLLKQI 7938

Query: 241  KTEHA 245
            K EH+
Sbjct: 7939 KAEHS 7953


  Database: pme
    Posted date:  Nov 7, 2008  5:27 PM
  Number of letters in database: 2,269,587
  Number of sequences in database:  204
  
Lambda     K      H
   0.320    0.138    0.420 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 204
Number of Hits to DB: 601,953
Number of extensions: 7626
Number of successful extensions: 34
Number of sequences better than 1.0e-03: 1
Number of HSP's gapped: 34
Number of HSP's successfully gapped: 1
Length of query: 255
Length of database: 756,529
Length adjustment: 80
Effective length of query: 175
Effective length of database: 740,209
Effective search space: 129536575
Effective search space used: 129536575
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)