Alignments for a candidate for carA in Azospirillum brasilense Sp245

Align Carbamoyl-phosphate synthase small chain; Carbamoyl-phosphate synthetase glutamine chain; EC 6.3.5.5 (characterized)
to candidate AZOBR_RS10920 AZOBR_RS10920 carbamoyl phosphate synthase small subunit

Query= SwissProt::P0A6F1
         (382 letters)



>FitnessBrowser__azobra:AZOBR_RS10920
          Length = 391

 Score =  406 bits (1043), Expect = e-118
 Identities = 206/377 (54%), Positives = 260/377 (68%), Gaps = 10/377 (2%)

Query: 4   SALLVLEDGTQFHGRAIGATGSAVGEVVFNTSMTGYQEILTDPSYSRQIVTLTYPHIGNV 63
           + +LVL DGT F GR IGA G +VGEV FNTSMTGYQEILTDPSY+ QI+T T+PHIGN 
Sbjct: 15  TGVLVLADGTVFKGRGIGAVGDSVGEVCFNTSMTGYQEILTDPSYAGQIITFTFPHIGNT 74

Query: 64  GTNDADEESSQVHAQGLVIRDLPLIASNFRNTEDLSSYLKRHNIVAIADIDTRKLTRLLR 123
           G N  D E+    A+GL++R      SN+R T  L  +LK + +V +A +DTR+LTR +R
Sbjct: 75  GANPEDIETVTPAARGLILRADVTDPSNWRATRHLDDWLKSYGLVGLAGVDTRRLTRRIR 134

Query: 124 EKGAQNGCIIAGDNPDAALALE----KARAFPGLNGMDLAKEVTTAEAYSWTQGSWTLTG 179
           + GA NG  +    PD    L+    KA+ +PGL GMDLAK+V+  + Y W +G+WTL  
Sbjct: 135 DLGAPNG--VVAHAPDGKFDLDALVAKAKGWPGLEGMDLAKDVSCRQTYGWDEGAWTLGA 192

Query: 180 GLPEAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMNPDGIFLS 239
           G      ++   FHVVA DFGAKRNILR L   GC++T+VP   + EDV++  PDG+FLS
Sbjct: 193 GYAT---QESPRFHVVAIDFGAKRNILRCLAAAGCKVTVVPGTATVEDVMRHKPDGVFLS 249

Query: 240 NGPGDPAPC-DYAITAIQKFLETDIPVFGICLGHQLLALASGAKTVKMKFGHHGGNHPVK 298
           NGPGDPA   +YA+  I+  L+T +P+FGICLGHQ+L+LA GAKT KM  GH G NHPVK
Sbjct: 250 NGPGDPAATGEYAVPTIKGLLDTGLPMFGICLGHQMLSLALGAKTKKMPLGHRGANHPVK 309

Query: 299 DVEKNVVMITAQNHGFAVDEATLPANLRVTHKSLFDGTLQGIHRTDKPAFSFQGHPEASP 358
           D+    V IT+QNHGF V E TLPA+  VTH SLFDGT +GI   +KP FS Q HPEASP
Sbjct: 310 DLASGRVEITSQNHGFVVMEETLPADAEVTHVSLFDGTNEGIRLKNKPVFSVQYHPEASP 369

Query: 359 GPHDAAPLFDHFIELIE 375
           GP D+  LFD F+ L++
Sbjct: 370 GPQDSHYLFDRFVALMD 386


Lambda     K      H
   0.318    0.135    0.400 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 491
Number of extensions: 16
Number of successful extensions: 4
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 382
Length of database: 391
Length adjustment: 30
Effective length of query: 352
Effective length of database: 361
Effective search space:   127072
Effective search space used:   127072
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)

Align candidate AZOBR_RS10920 AZOBR_RS10920 (carbamoyl phosphate synthase small subunit)
to HMM TIGR01368 (carA: carbamoyl-phosphate synthase, small subunit (EC 6.3.5.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.16395.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.16395.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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