Alignments for a candidate for carA in Dyella japonica UNC79MFTsu3.2

Align Carbamoyl-phosphate synthase small chain; Carbamoyl-phosphate synthetase glutamine chain; EC 6.3.5.5 (characterized)
to candidate N515DRAFT_2714 N515DRAFT_2714 carbamoyl-phosphate synthase small subunit

Query= SwissProt::P0A6F1
         (382 letters)



>FitnessBrowser__Dyella79:N515DRAFT_2714
          Length = 375

 Score =  512 bits (1318), Expect = e-150
 Identities = 249/374 (66%), Positives = 299/374 (79%), Gaps = 3/374 (0%)

Query: 5   ALLVLEDGTQFHGRAIGATGSAVGEVVFNTSMTGYQEILTDPSYSRQIVTLTYPHIGNVG 64
           ALL LEDG+ FHG+A+GATG  VGEVVFNT+MTGYQEILTDPSYSRQIVTLTYPHIGN G
Sbjct: 5   ALLALEDGSVFHGQAVGATGETVGEVVFNTAMTGYQEILTDPSYSRQIVTLTYPHIGNTG 64

Query: 65  TNDADEESSQVHAQGLVIRDLPLIASNFRNTEDLSSYLKRHNIVAIADIDTRKLTRLLRE 124
            N  D ES  VHA GL++RD+P  ASN+R++E L  YLKR  IVAIA IDTR+LTR+LR+
Sbjct: 65  VNAEDAESLAVHAAGLIVRDVPRRASNWRSSESLPDYLKRLGIVAIAGIDTRRLTRILRD 124

Query: 125 KGAQNGCIIAGDNPDAALALEKARAFPGLNGMDLAKEVTTAEAYSWTQGSWTLTGGLPEA 184
           KGA  GCI+AG++ DA  AL KARAFPGLNGMDLAK V+  + Y+W +GS+ L     +A
Sbjct: 125 KGALAGCIVAGEHVDAEAALAKARAFPGLNGMDLAKVVSVTKPYAWKEGSYDLDR---QA 181

Query: 185 KKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMNPDGIFLSNGPGD 244
            ++  L F VVAYD+G K NILR+L  +GC +T+VPAQT A +VL M PDG+FLSNGPGD
Sbjct: 182 FEQPALRFKVVAYDYGVKFNILRLLAAQGCDITVVPAQTPAAEVLAMKPDGVFLSNGPGD 241

Query: 245 PAPCDYAITAIQKFLETDIPVFGICLGHQLLALASGAKTVKMKFGHHGGNHPVKDVEKNV 304
           PA CDYA+ A ++FL+  IP+FGICLGHQ++ LA GAKT+KMKFGHHG NHPVKD +   
Sbjct: 242 PAACDYAVAATREFLDAKIPLFGICLGHQIMGLALGAKTLKMKFGHHGANHPVKDHDDGR 301

Query: 305 VMITAQNHGFAVDEATLPANLRVTHKSLFDGTLQGIHRTDKPAFSFQGHPEASPGPHDAA 364
           V+IT+QNHGFAVD ATLPAN+RVTH SLFDG+LQG   TD+PAF FQGHPEASPGPHD  
Sbjct: 302 VLITSQNHGFAVDPATLPANVRVTHSSLFDGSLQGFALTDRPAFCFQGHPEASPGPHDIG 361

Query: 365 PLFDHFIELIEQYR 378
            LF+ F +L+++ R
Sbjct: 362 YLFERFAQLMQESR 375


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: 502
Number of extensions: 13
Number of successful extensions: 2
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: 375
Length adjustment: 30
Effective length of query: 352
Effective length of database: 345
Effective search space:   121440
Effective search space used:   121440
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 N515DRAFT_2714 N515DRAFT_2714 (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.22872.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.22872.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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