RID=1168922114-4658-115330397426.BLASTQ1, Contig7

BLASTX 2.2.15 [Oct-15-2006]

Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer, 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. RID: 1168922114-4658-115330397426.BLASTQ1 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF excluding environmental samples 4,458,890 sequences; 1,532,996,420 total letters

If you have any problems or questions with the results of this search
please refer to the BLAST FAQs Taxonomy reports

Query=  Contig7
Length=256

Distribution of 24 Blast Hits on the Query Sequence

                                                                   Score     E
Sequences producing significant alignments:                       (Bits)  Value

gi|115477954|ref|NP_001062572.1|  Os09g0110400 [Oryza sativa (...   126    3e-29 
gi|21593370|gb|AAM65319.1|  DNA-directed RNA polymerase II, th...   120    2e-27 
gi|15226523|ref|NP_179145.1|  RBP36A; DNA binding / DNA-direct...   120    2e-27 
gi|85719360|gb|ABC75365.1|  RNA polymerase, dimerisation [Medicag   118    5e-27
gi|71535027|gb|AAZ32911.1|  DNA-directed RNA polymerase II thi...   116    3e-26
gi|514320|gb|AAB03740.1|  RNA polymerase II third largest subunit   110    1e-24
gi|15226509|ref|NP_179142.1|  RBP36B; DNA binding / DNA-direct...   110    1e-24 
gi|119358805|emb|CAL52099.2|  Rpb3 DNA-directed RNA polymerase...  76.6    2e-14
gi|92888293|gb|ABE89311.1|  RNA polymerase, dimerisation [Medicag  63.2    3e-10
gi|115448387|ref|NP_001047973.1|  Os02g0723600 [Oryza sativa (...  61.6    8e-10 
gi|45736002|dbj|BAD13030.1|  putative RNA polymerase subunit [...  61.6    8e-10 
gi|108707637|gb|ABF95432.1|  RNA polymerase Rpb3/Rpb11 dimeris...  60.8    1e-09
gi|115452445|ref|NP_001049823.1|  Os03g0295400 [Oryza sativa (...  60.8    1e-09 
gi|21592304|gb|AAM64255.1|  RNA polymerase subunit [Arabidopsis t  56.2    3e-08 
gi|42571933|ref|NP_974057.1|  ATRPAC42; DNA binding / DNA-dire...  56.2    3e-08 
gi|15219820|ref|NP_176282.1|  ATRPAC42; DNA binding / DNA-dire...  56.2    3e-08 
gi|514322|gb|AAB00528.1|  RNA polymerase subunit >gi|1586549|prf|  56.2    3e-08 
gi|15219773|ref|NP_176261.1|  ATRPAC43; DNA binding / DNA-dire...  54.7    9e-08 
gi|116058872|emb|CAL54579.1|  RNA polymerase I and III, subuni...  54.3    1e-07
gi|108796892|ref|YP_636190.1|  alpha subunit of RNA polymerase...  31.6    0.86  
gi|115350008|ref|YP_764409.1|  alpha subunit of RNA polymerase...  30.8    1.5   
gi|108773091|ref|YP_636000.1|  alpha subunit of RNA polymerase...  30.8    1.5   
gi|81301|pir||S05342  DNA-directed RNA polymerase (EC 2.7.7.6)...  30.8    1.5  
gi|41179033|ref|NP_958389.1|  RNA polymerase alpha subunit [Ch...  28.1    9.5

Alignments

 

>gi|115477954|ref|NP_001062572.1|  Os09g0110400 [Oryza sativa (japonica cultivar-group)]
 gi|46806365|dbj|BAD17541.1|  putative DNA-directed RNA polymerase II [Oryza sativa (japonica 
cultivar-group)]
 gi|113630805|dbj|BAF24486.1|  Os09g0110400 [Oryza sativa (japonica cultivar-group)]
Length=330

 Score =  126 bits (316),  Expect = 3e-29
 Identities = 64/76 (84%), Positives = 69/76 (90%), Gaps = 0/76 (0%)
 Frame = +3

Query  27   EEMAERVSYQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEV  206
            E  A  VSYQRFP+VRIRELKDDY KFELR+TDAS+ANALRRVM+AEVPT+AIDLVEIEV
Sbjct  2    ERAAGGVSYQRFPRVRIRELKDDYAKFELRDTDASMANALRRVMIAEVPTVAIDLVEIEV  61

Query  207  NSSVLNDEFIAHXXGL  254
            NSSVLNDEFIAH  GL
Sbjct  62   NSSVLNDEFIAHRLGL  77


>gi|21593370|gb|AAM65319.1|  DNA-directed RNA polymerase II, third largest subunit [Arabidopsis 
thaliana]
Length=319

 Score =  120 bits (300),  Expect = 2e-27
 Identities = 58/69 (84%), Positives = 65/69 (94%), Gaps = 0/69 (0%)
 Frame = +3

Query  48   SYQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLND  227
            +YQRFPK++IRELKDDY KFELRETD S+ANALRRVM++EVPT+AIDLVEIEVNSSVLND
Sbjct  5    TYQRFPKIKIRELKDDYAKFELRETDVSMANALRRVMISEVPTVAIDLVEIEVNSSVLND  64

Query  228  EFIAHXXGL  254
            EFIAH  GL
Sbjct  65   EFIAHRLGL  73


>gi|15226523|ref|NP_179145.1|  RBP36A; DNA binding / DNA-directed RNA polymerase [Arabidopsis 
thaliana]
 gi|11134646|sp|Q39211|RPB3A_ARATH  DNA-directed RNA polymerase II 36 kDa polypeptide A (RNA polymerase 
II subunit 3)
 gi|514318|gb|AAB03741.1|  RNA polymerase II third largest subunit
 gi|4544370|gb|AAD22281.1|  DNA-directed RNA polymerase II, third largest subunit [Arabidopsis 
thaliana]
 gi|17381018|gb|AAL36321.1|  putative DNA-directed RNA polymerase II third largest subunit 
[Arabidopsis thaliana]
 gi|20465883|gb|AAM20046.1|  putative DNA-directed RNA polymerase II [Arabidopsis thaliana]
Length=319

 Score =  120 bits (300),  Expect = 2e-27
 Identities = 58/69 (84%), Positives = 65/69 (94%), Gaps = 0/69 (0%)
 Frame = +3

Query  48   SYQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLND  227
            +YQRFPK++IRELKDDY KFELRETD S+ANALRRVM++EVPT+AIDLVEIEVNSSVLND
Sbjct  5    TYQRFPKIKIRELKDDYAKFELRETDVSMANALRRVMISEVPTVAIDLVEIEVNSSVLND  64

Query  228  EFIAHXXGL  254
            EFIAH  GL
Sbjct  65   EFIAHRLGL  73


>gi|85719360|gb|ABC75365.1|  RNA polymerase, dimerisation [Medicago truncatula]
Length=318

 Score =  118 bits (296),  Expect = 5e-27
 Identities = 58/72 (80%), Positives = 66/72 (91%), Gaps = 0/72 (0%)
 Frame = +3

Query  39   ERVSYQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSV  218
            E  SY R P+V+IRELKDDY+KFELR+TDAS+ANALRRVM++EVPT+AIDLVEIEVNSSV
Sbjct  2    EGASYARMPRVKIRELKDDYMKFELRDTDASVANALRRVMISEVPTVAIDLVEIEVNSSV  61

Query  219  LNDEFIAHXXGL  254
            LNDEFIAH  GL
Sbjct  62   LNDEFIAHRLGL  73


>gi|71535027|gb|AAZ32911.1|  DNA-directed RNA polymerase II third largest subunit [Medicago 
sativa]
Length=184

 Score =  116 bits (290),  Expect = 3e-26
 Identities = 56/68 (82%), Positives = 64/68 (94%), Gaps = 0/68 (0%)
 Frame = +3

Query  51   YQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDE  230
            Y R P+V+IRELKDDY+KFELR+TDAS+ANALRRVM++EVPT+AIDLVEIEVNSSVLNDE
Sbjct  1    YARMPRVKIRELKDDYMKFELRDTDASVANALRRVMISEVPTIAIDLVEIEVNSSVLNDE  60

Query  231  FIAHXXGL  254
            FIAH  GL
Sbjct  61   FIAHRLGL  68


>gi|514320|gb|AAB03740.1|  RNA polymerase II third largest subunit
Length=319

 Score =  110 bits (275),  Expect = 1e-24
 Identities = 55/70 (78%), Positives = 62/70 (88%), Gaps = 0/70 (0%)
 Frame = +3

Query  45   VSYQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLN  224
            V+YQRFP V+IRELKDDY KFELRETD S+ANALRRVM++EVPT+AI LV+IEVNSSVLN
Sbjct  4    VTYQRFPTVKIRELKDDYAKFELRETDVSMANALRRVMISEVPTMAIHLVKIEVNSSVLN  63

Query  225  DEFIAHXXGL  254
            DEFIA    L
Sbjct  64   DEFIAQRLSL  73


>gi|15226509|ref|NP_179142.1|  RBP36B; DNA binding / DNA-directed RNA polymerase [Arabidopsis 
thaliana]
 gi|12643753|sp|Q39212|RPB3B_ARATH  DNA-directed RNA polymerase II 36 kDa polypeptide B (RNA polymerase 
II subunit 3)
 gi|4544373|gb|AAD22284.1|  DNA-directed RNA polymerase II, third largest subunit [Arabidopsis 
thaliana]
 gi|28973621|gb|AAO64135.1|  putative DNA-directed RNA polymerase II, third largest subunit 
[Arabidopsis thaliana]
 gi|29824193|gb|AAP04057.1|  putative DNA-directed RNA polymerase II, third largest subunit 
[Arabidopsis thaliana]
 gi|110736768|dbj|BAF00345.1|  DNA-directed RNA polymerase II, third largest subunit [Arabidopsis 
thaliana]
Length=319

 Score =  110 bits (275),  Expect = 1e-24
 Identities = 55/70 (78%), Positives = 62/70 (88%), Gaps = 0/70 (0%)
 Frame = +3

Query  45   VSYQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLN  224
            V+YQRFP V+IRELKDDY KFELRETD S+ANALRRVM++EVPT+AI LV+IEVNSSVLN
Sbjct  4    VTYQRFPTVKIRELKDDYAKFELRETDVSMANALRRVMISEVPTMAIHLVKIEVNSSVLN  63

Query  225  DEFIAHXXGL  254
            DEFIA    L
Sbjct  64   DEFIAQRLSL  73


>gi|119358805|emb|CAL52099.2|  Rpb3 DNA-directed RNA polymerase II subunit 3 (IC) [Ostreococcus 
tauri]
Length=301

 Score = 76.6 bits (187),  Expect = 2e-14
 Identities = 38/62 (61%), Positives = 47/62 (75%), Gaps = 0/62 (0%)
 Frame = +3

Query  69   VRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDEFIAHXX  248
            V +  L+D  + F L+  D S+ANALRRVM+A+VPTLAIDLVE+  NSSVL DEF+AH  
Sbjct  11   VSVTRLEDQSITFSLKGVDVSLANALRRVMIADVPTLAIDLVEVVENSSVLCDEFLAHRL  70

Query  249  GL  254
            GL
Sbjct  71   GL  72


>gi|92888293|gb|ABE89311.1|  RNA polymerase, dimerisation [Medicago truncatula]
Length=399

 Score = 63.2 bits (152),  Expect = 3e-10
 Identities = 29/68 (42%), Positives = 49/68 (72%), Gaps = 1/68 (1%)
 Frame = +3

Query  51   YQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDE  230
            YQ F KV ++ + D+ ++F++   D ++ANA RR+++AEVPT+AI+ V I  N+S++ DE
Sbjct  83   YQNF-KVEVKRITDEEMEFDMIGIDPAVANAFRRILIAEVPTMAIERVYIANNTSLVQDE  141

Query  231  FIAHXXGL  254
             ++H  GL
Sbjct  142  VLSHRLGL  149


>gi|115448387|ref|NP_001047973.1|  Os02g0723600 [Oryza sativa (japonica cultivar-group)]
 gi|113537504|dbj|BAF09887.1|  Os02g0723600 [Oryza sativa (japonica cultivar-group)]
Length=327

 Score = 61.6 bits (148),  Expect = 8e-10
 Identities = 30/63 (47%), Positives = 46/63 (73%), Gaps = 0/63 (0%)
 Frame = +3

Query  66   KVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDEFIAHX  245
            KV I  L +D ++F++   DASIANA RR+++AE+PT+AI+ V +  N+SV+ DE ++H 
Sbjct  71   KVEISRLTEDDMEFDMIGIDASIANAFRRILIAELPTMAIEKVLMVDNTSVIADEVLSHR  130

Query  246  XGL  254
             GL
Sbjct  131  LGL  133


>gi|45736002|dbj|BAD13030.1|  putative RNA polymerase subunit [Oryza sativa (japonica cultivar-group)]
Length=300

 Score = 61.6 bits (148),  Expect = 8e-10
 Identities = 30/63 (47%), Positives = 46/63 (73%), Gaps = 0/63 (0%)
 Frame = +3

Query  66   KVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDEFIAHX  245
            KV I  L +D ++F++   DASIANA RR+++AE+PT+AI+ V +  N+SV+ DE ++H 
Sbjct  71   KVEISRLTEDDMEFDMIGIDASIANAFRRILIAELPTMAIEKVLMVDNTSVIADEVLSHR  130

Query  246  XGL  254
             GL
Sbjct  131  LGL  133


>gi|108707637|gb|ABF95432.1|  RNA polymerase Rpb3/Rpb11 dimerisation domain containing protein, 
expressed [Oryza sativa (japonica cultivar-group)]
Length=352

 Score = 60.8 bits (146),  Expect = 1e-09
 Identities = 29/63 (46%), Positives = 46/63 (73%), Gaps = 0/63 (0%)
 Frame = +3

Query  66   KVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDEFIAHX  245
            KV +  L +D ++F++   DAS+ANA RR+++AEVPT+AI+ V +  N+SV+ DE ++H 
Sbjct  73   KVVVNRLTEDDMEFDMIGIDASMANAFRRILIAEVPTMAIEKVLMADNTSVIADEVLSHR  132

Query  246  XGL  254
             GL
Sbjct  133  LGL  135


>gi|115452445|ref|NP_001049823.1|  Os03g0295400 [Oryza sativa (japonica cultivar-group)]
 gi|108707636|gb|ABF95431.1|  RNA polymerase Rpb3/Rpb11 dimerisation domain containing protein, 
expressed [Oryza sativa (japonica cultivar-group)]
 gi|113548294|dbj|BAF11737.1|  Os03g0295400 [Oryza sativa (japonica cultivar-group)]
Length=379

 Score = 60.8 bits (146),  Expect = 1e-09
 Identities = 29/63 (46%), Positives = 46/63 (73%), Gaps = 0/63 (0%)
 Frame = +3

Query  66   KVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDEFIAHX  245
            KV +  L +D ++F++   DAS+ANA RR+++AEVPT+AI+ V +  N+SV+ DE ++H 
Sbjct  73   KVVVNRLTEDDMEFDMIGIDASMANAFRRILIAEVPTMAIEKVLMADNTSVIADEVLSHR  132

Query  246  XGL  254
             GL
Sbjct  133  LGL  135


>gi|21592304|gb|AAM64255.1|  RNA polymerase subunit [Arabidopsis thaliana]
Length=375

 Score = 56.2 bits (134),  Expect = 3e-08
 Identities = 30/68 (44%), Positives = 45/68 (66%), Gaps = 1/68 (1%)
 Frame = +3

Query  51   YQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDE  230
            Y  F KV +  L    ++F++   DA+ ANA RR+++AEVP++AI+ V I  N+SV+ DE
Sbjct  71   YDNF-KVDVVSLTKTDMEFDMIGIDAAFANAFRRILIAEVPSMAIEKVFIAYNTSVIIDE  129

Query  231  FIAHXXGL  254
             +AH  GL
Sbjct  130  VLAHRMGL  137


>gi|42571933|ref|NP_974057.1|  ATRPAC42; DNA binding / DNA-directed RNA polymerase [Arabidopsis 
thaliana]
Length=302

 Score = 56.2 bits (134),  Expect = 3e-08
 Identities = 30/68 (44%), Positives = 45/68 (66%), Gaps = 1/68 (1%)
 Frame = +3

Query  51   YQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDE  230
            Y  F KV +  L    ++F++   DA+ ANA RR+++AEVP++AI+ V I  N+SV+ DE
Sbjct  71   YDNF-KVDVVSLTKTDMEFDMIGIDAAFANAFRRILIAEVPSMAIEKVLIAYNTSVIIDE  129

Query  231  FIAHXXGL  254
             +AH  GL
Sbjct  130  VLAHRMGL  137


>gi|15219820|ref|NP_176282.1|  ATRPAC42; DNA binding / DNA-directed RNA polymerase [Arabidopsis 
thaliana]
 gi|30696474|ref|NP_849833.1|  ATRPAC42; DNA binding / DNA-directed RNA polymerase [Arabidopsis 
thaliana]
 gi|12323800|gb|AAG51868.1|AC079675_3  RNA polymerase subunit; 10595-12672 [Arabidopsis thaliana]
 gi|110741863|dbj|BAE98873.1|  RNA polymerase subunit [Arabidopsis thaliana]
Length=375

 Score = 56.2 bits (134),  Expect = 3e-08
 Identities = 30/68 (44%), Positives = 45/68 (66%), Gaps = 1/68 (1%)
 Frame = +3

Query  51   YQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDE  230
            Y  F KV +  L    ++F++   DA+ ANA RR+++AEVP++AI+ V I  N+SV+ DE
Sbjct  71   YDNF-KVDVVSLTKTDMEFDMIGIDAAFANAFRRILIAEVPSMAIEKVLIAYNTSVIIDE  129

Query  231  FIAHXXGL  254
             +AH  GL
Sbjct  130  VLAHRMGL  137


>gi|514322|gb|AAB00528.1|  RNA polymerase subunit
 gi|1586549|prf||2204246A  RNA polymerase
Length=375

 Score = 56.2 bits (134),  Expect = 3e-08
 Identities = 30/68 (44%), Positives = 45/68 (66%), Gaps = 1/68 (1%)
 Frame = +3

Query  51   YQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDE  230
            Y  F KV +  L    ++F++   DA+ ANA RR+++AEVP++AI+ V I  N+SV+ DE
Sbjct  71   YDNF-KVDVVSLTKTDMEFDMIGIDAAFANAFRRILIAEVPSMAIEKVLIAYNTSVIIDE  129

Query  231  FIAHXXGL  254
             +AH  GL
Sbjct  130  VLAHRMGL  137


>gi|15219773|ref|NP_176261.1|  ATRPAC43; DNA binding / DNA-directed RNA polymerase [Arabidopsis 
thaliana]
 gi|14423464|gb|AAK62414.1|AF386969_1  RNA polymerase subunit (isoform B) [Arabidopsis thaliana]
 gi|514324|gb|AAB00529.1|  RNA polymerase subunit
 gi|2462755|gb|AAB71974.1|  RNA polymerase subunit (isoform B) [Arabidopsis thaliana]
 gi|24899667|gb|AAN65048.1|  RNA polymerase subunit (isoform B) [Arabidopsis thaliana]
 gi|1586550|prf||2204246B  RNA polymerase
Length=385

 Score = 54.7 bits (130),  Expect = 9e-08
 Identities = 27/63 (42%), Positives = 42/63 (66%), Gaps = 0/63 (0%)
 Frame = +3

Query  66   KVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEIEVNSSVLNDEFIAHX  245
            KV +  L +  + F++    A IANA RR++LAE+P++AI+ V +  N+SV+ DE +AH 
Sbjct  82   KVDVISLTETDMVFDMIGVHAGIANAFRRILLAELPSMAIEKVYVANNTSVIQDEVLAHR  141

Query  246  XGL  254
             GL
Sbjct  142  LGL  144


>gi|116058872|emb|CAL54579.1|  RNA polymerase I and III, subunit RPA40/RPC40 (ISS) [Ostreococcus 
tauri]
Length=382

 Score = 54.3 bits (129),  Expect = 1e-07
 Identities = 29/78 (37%), Positives = 47/78 (60%), Gaps = 0/78 (0%)
 Frame = +3

Query  21   EGEEMAERVSYQRFPKVRIRELKDDYVKFELRETDASIANALRRVMLAEVPTLAIDLVEI  200
            EGE      +++    + I +  ++ V FE+    A+ ANA RR++++EVPT+AI+ V +
Sbjct  57   EGEGAFSVDAFRETFALTITDASEERVVFEMEGCSAAFANAFRRIIISEVPTMAIEKVYM  116

Query  201  EVNSSVLNDEFIAHXXGL  254
              N+SV+ DE  AH  GL
Sbjct  117  INNTSVVPDEVFAHRLGL  134


>gi|108796892|ref|YP_636190.1|  alpha subunit of RNA polymerase [Pseudendoclonium akinetum]
 gi|56159590|gb|AAV80614.1|  alpha subunit of RNA polymerase [Pseudendoclonium akinetum]
Length=577

 Score = 31.6 bits (70),  Expect = 0.86
 Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
 Frame = +3

Query  72   RIRELKDDYVKFELRE----TDASIANALRRVMLAEVPTLAIDLVEI  200
            R+  L   Y +FEL         ++ANALRR +L+++P  +I LVE+
Sbjct  48   RVENLTKFYGRFELGPFAPGQALTVANALRRSLLSQLPGTSITLVEV  94


>gi|115350008|ref|YP_764409.1|  alpha subunit of RNA polymerase [Stigeoclonium helveticum]
 gi|98990222|gb|ABF60189.1|  alpha subunit of RNA polymerase [Stigeoclonium helveticum]
Length=517

 Score = 30.8 bits (68),  Expect = 1.5
 Identities = 15/25 (60%), Positives = 20/25 (80%), Gaps = 0/25 (0%)
 Frame = +3

Query  129  SIANALRRVMLAEVPTLAIDLVEIE  203
            ++ANALRR +L+E+  LAI  VEIE
Sbjct  50   TLANALRRALLSELNGLAITTVEIE  74


>gi|108773091|ref|YP_636000.1|  alpha subunit of RNA polymerase [Scenedesmus obliquus]
 gi|115311625|sp|P19587|RPOA_SCEOB  DNA-directed RNA polymerase alpha chain (PEP) (Plastid-encoded 
RNA polymerase subunit alpha) (RNA polymerase subunit alpha)
 gi|88696657|gb|ABD48283.1|  alpha subunit of RNA polymerase [Scenedesmus obliquus]
Length=478

 Score = 30.8 bits (68),  Expect = 1.5
 Identities = 14/25 (56%), Positives = 20/25 (80%), Gaps = 0/25 (0%)
 Frame = +3

Query  129  SIANALRRVMLAEVPTLAIDLVEIE  203
            ++ANALRR +LAE+  +AI  +EIE
Sbjct  39   TVANALRRTLLAELSNIAITHLEIE  63


>gi|81301|pir||S05342  DNA-directed RNA polymerase (EC 2.7.7.6) alpha chain - green 
alga KS3/2 chloroplast (fragment)
Length=129

 Score = 30.8 bits (68),  Expect = 1.5
 Identities = 14/25 (56%), Positives = 20/25 (80%), Gaps = 0/25 (0%)
 Frame = +3

Query  129  SIANALRRVMLAEVPTLAIDLVEIE  203
            ++ANALRR +LAE+  +AI  +EIE
Sbjct  39   TVANALRRTLLAELSNIAITHLEIE  63


>gi|41179033|ref|NP_958389.1|  RNA polymerase alpha subunit [Chlamydomonas reinhardtii]
 gi|32699675|sp|Q8HUH2|RPOA_CHLRE  DNA-directed RNA polymerase alpha chain (PEP) (Plastid-encoded 
RNA polymerase subunit alpha) (RNA polymerase subunit alpha)
 gi|23307781|gb|AAN17816.1|  RNA polymerase alpha subunit [Chlamydomonas reinhardtii]
 gi|28269756|tpg|DAA00934.1|  TPA_inf: TPA_exp: RNA polymerase alpha subunit [Chlamydomonas 
reinhardtii]
Length=550

 Score = 28.1 bits (61),  Expect = 9.5
 Identities = 13/25 (52%), Positives = 19/25 (76%), Gaps = 0/25 (0%)
 Frame = +3

Query  129  SIANALRRVMLAEVPTLAIDLVEIE  203
            ++AN LRR +L+E+  LAI  +EIE
Sbjct  50   TLANDLRRTLLSELTGLAITSIEIE  74

  Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF excluding 
environmental samples
    Posted date:  Jan 15, 2007  4:53 AM
  Number of letters in database: 101,054,579
  Number of sequences in database:  283,349
Lambda     K      H
   0.281   0.0933    0.243 
Gapped
Lambda     K      H
   0.267   0.0410    0.140 
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 283349
Number of Hits to DB: 110
Number of extensions: 10
Number of successful extensions: 0
Number of sequences better than 10: 0
Number of HSP's better than 10 without gapping: 0
Number of HSP's gapped: 0
Number of HSP's successfully gapped: 0
Length of query: 256
Length of database: 101054579
Length adjustment: 56
Effective length of query: 200
Effective length of database: 85187035
Effective search space: 2470424015
Effective search space used: 2470424015
T: 12
A: 40
X1: 16 (6.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (20.4 bits)
S2: 61 (28.1 bits)