Alignments for a candidate for hisA in Desulfovibrio vulgaris Miyazaki F

Align 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (characterized)
to candidate 8502414 DvMF_3120 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase (RefSeq)

Query= reanno::BFirm:BPHYT_RS17685
         (250 letters)



>FitnessBrowser__Miya:8502414
          Length = 243

 Score =  225 bits (573), Expect = 7e-64
 Identities = 116/238 (48%), Positives = 157/238 (65%), Gaps = 3/238 (1%)

Query: 1   MLLIPAIDLKDGQCVRLKQGDMDQATIFSEEPAAMARHWVDRGARRLHLVDLNGAFAGKP 60
           M+L PA+D+KDG+CVRL+QG  D  T+FS++PAAMARHW D+GA+ LH++DL+GAF+G P
Sbjct: 1   MILFPAVDIKDGRCVRLRQGRADAETVFSDDPAAMARHWQDQGAKWLHVIDLDGAFSGMP 60

Query: 61  KNEDAIRAIIEEVGGEIPVQLGGGIRDLNTIERYLDDGLSYVIIGTAAVKNPGFLQDACT 120
            N + IR I  ++   +PVQLGGGIRD  T + YLD G+  +IIGT A++ P      C 
Sbjct: 61  ANFELIRRICADLS--VPVQLGGGIRDEATAKAYLDAGVERLIIGTVALEEPDLYARLCA 118

Query: 121 AFGGHIIVGLDAKDGKVATDGWSKLTGHEVADLARKFEDYGCESIIYTDIGRDGMLQGIN 180
            F G I V LDA+ G++ T GW   +G  V D+  +    G   +IYTDI RDGM  G+N
Sbjct: 119 TFPGRIGVSLDAEGGRLKTKGWVADSGLTVDDVLPRLLAAGTAFVIYTDIDRDGMQTGVN 178

Query: 181 IEATVRLARAVKIPVIASGGLSNLTDIESLCEVE-DEGIEGVICGRAIYSGDLDFAAA 237
           + A  RLA    +PVIA+GG++ L D+ +L  +     +EG I GRAIY+G LD  AA
Sbjct: 179 LSALERLAGMCPVPVIAAGGVATLEDVRALYPMTLTSSVEGAITGRAIYTGTLDLHAA 236


Lambda     K      H
   0.319    0.140    0.410 

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: 249
Number of extensions: 12
Number of successful extensions: 3
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: 250
Length of database: 243
Length adjustment: 24
Effective length of query: 226
Effective length of database: 219
Effective search space:    49494
Effective search space used:    49494
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)

Align candidate 8502414 DvMF_3120 (1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase (RefSeq))
to HMM TIGR00007 (hisA: 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase (EC 5.3.1.16))

Software error:

../bin/blast/fastacmd -i /tmp/list.23826.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.23826.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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