Alignments for a candidate for hisA in Synechococcus elongatus PCC 7942

Align 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (characterized)
to candidate Synpcc7942_1829 Synpcc7942_1829 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase

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



>FitnessBrowser__SynE:Synpcc7942_1829
          Length = 256

 Score =  230 bits (587), Expect = 2e-65
 Identities = 119/237 (50%), Positives = 159/237 (67%), Gaps = 2/237 (0%)

Query: 1   MLLIPAIDLKDGQCVRLKQGDMDQATIFSEEPAAMARHWVDRGARRLHLVDLNGAFAGKP 60
           M +IPAIDL  GQCVRL QGD DQA ++ ++P  MA  W + GA+RLHLVDL+GA  G P
Sbjct: 1   MDVIPAIDLLGGQCVRLFQGDYDQAEVYGKDPVGMALRWAEAGAQRLHLVDLDGAKEGSP 60

Query: 61  KNEDAIRAIIEEVGGEIPVQLGGGIRDLNTIERYLDDGLSYVIIGTAAVKNPGFLQDACT 120
            N +AI  I + +   IPVQ+GGG+RD +T+ R LD G+   I+GT AV+ P  ++    
Sbjct: 61  VNAEAIATIAQRLS--IPVQVGGGLRDRDTVARLLDSGVERAILGTVAVERPALVEALAG 118

Query: 121 AFGGHIIVGLDAKDGKVATDGWSKLTGHEVADLARKFEDYGCESIIYTDIGRDGMLQGIN 180
            F G I VG+DA+ GKVAT GW + +G     LA++  D G  ++I TDIGRDG LQG N
Sbjct: 119 EFPGQIAVGIDARSGKVATRGWLEDSGLTAVALAQQMADLGACALICTDIGRDGTLQGPN 178

Query: 181 IEATVRLARAVKIPVIASGGLSNLTDIESLCEVEDEGIEGVICGRAIYSGDLDFAAA 237
           +E    +A AV IPVIASGG+ +LTD+ SL  +E +G+ GVI G+A+Y+G +D   A
Sbjct: 179 LEELRAIAAAVSIPVIASGGVGSLTDLLSLLPLEAQGVSGVIVGKALYTGAVDLQEA 235



 Score = 33.9 bits (76), Expect = 3e-06
 Identities = 30/93 (32%), Positives = 41/93 (44%), Gaps = 5/93 (5%)

Query: 34  AMARHWVDRGARRLHLVDLNGAFAGKPKNEDAIRAIIEEVGGEIPVQLGGGIRDLNTIER 93
           A+A+   D GA  L   D+      +  N + +RAI   V   IPV   GG+  L  +  
Sbjct: 150 ALAQQMADLGACALICTDIGRDGTLQGPNLEELRAIAAAVS--IPVIASGGVGSLTDLLS 207

Query: 94  YLD---DGLSYVIIGTAAVKNPGFLQDACTAFG 123
            L     G+S VI+G A       LQ+A  A G
Sbjct: 208 LLPLEAQGVSGVIVGKALYTGAVDLQEALRAIG 240


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: 246
Number of extensions: 15
Number of successful extensions: 4
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 2
Number of HSP's successfully gapped: 2
Length of query: 250
Length of database: 256
Length adjustment: 24
Effective length of query: 226
Effective length of database: 232
Effective search space:    52432
Effective search space used:    52432
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 Synpcc7942_1829 Synpcc7942_1829 (1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase)
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.7359.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.7359.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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