>P48011:RPAB4_SCHPO DNA-directed RNA polymerases I, II, and III subunit RPABC4 -|
           Schizosaccharomyces pombe (Fission yeast)
          Length = 63
 Score = 75.1 bits (183), Expect = 1e-13
 Identities = 29/54 (53%), Positives = 44/54 (81%)
 Frame = +2

Query: 41  SSMDPQQPEPVSYLCGDCGAENTLKTGDVIQCRECGYRILYKKRTRRIVQYEAR 202
           ++ +P +P  + YLC DCGA NT++  +VI+CRECG+R++YK RT+R+VQ+EAR
Sbjct: 10  TAFNPPRPATMIYLCADCGARNTIQAKEVIRCRECGHRVMYKMRTKRMVQFEAR 63

>Q63871:RPAB4_MOUSE DNA-directed RNA polymerases I, II, and III subunit RPABC4 - Mus|
           musculus (Mouse)
          Length = 58

 Score = 72.8 bits (177), Expect = 6e-13
 Identities = 28/52 (53%), Positives = 42/52 (80%)
 Frame = +2

Query: 47  MDPQQPEPVSYLCGDCGAENTLKTGDVIQCRECGYRILYKKRTRRIVQYEAR 202
           + P + +P+ Y+CG+C  EN +K+ D I+CRECGYRI+YKKRT+R+V ++AR
Sbjct: 7   VQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58

>P53803:RPAB4_HUMAN DNA-directed RNA polymerases I, II, and III subunit RPABC4 - Homo|
           sapiens (Human)
          Length = 58

 Score = 72.8 bits (177), Expect = 6e-13
 Identities = 28/52 (53%), Positives = 42/52 (80%)
 Frame = +2

Query: 47  MDPQQPEPVSYLCGDCGAENTLKTGDVIQCRECGYRILYKKRTRRIVQYEAR 202
           + P + +P+ Y+CG+C  EN +K+ D I+CRECGYRI+YKKRT+R+V ++AR
Sbjct: 7   VQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58

>Q3ZBC0:RPAB4_BOVIN DNA-directed RNA polymerases I, II, and III subunit RPABC4 - Bos|
           taurus (Bovine)
          Length = 58

 Score = 72.8 bits (177), Expect = 6e-13
 Identities = 28/52 (53%), Positives = 42/52 (80%)
 Frame = +2

Query: 47  MDPQQPEPVSYLCGDCGAENTLKTGDVIQCRECGYRILYKKRTRRIVQYEAR 202
           + P + +P+ Y+CG+C  EN +K+ D I+CRECGYRI+YKKRT+R+V ++AR
Sbjct: 7   VQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58

>P40422:RPAB4_YEAST DNA-directed RNA polymerases I, II, and III subunit RPABC4 -|
           Saccharomyces cerevisiae (Baker's yeast)
          Length = 70

 Score = 55.5 bits (132), Expect = 1e-07
 Identities = 20/44 (45%), Positives = 34/44 (77%)
 Frame = +2

Query: 71  VSYLCGDCGAENTLKTGDVIQCRECGYRILYKKRTRRIVQYEAR 202
           + Y+C +C ++ +L   D ++C++CG+RIL K RT+R+VQ+EAR
Sbjct: 27  LKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR 70

>O30180:RPOP_ARCFU DNA-directed RNA polymerase subunit P - Archaeoglobus fulgidus|
          Length = 46

 Score = 34.3 bits (77), Expect = 0.24
 Identities = 17/35 (48%), Positives = 22/35 (62%), Gaps = 1/35 (2%)
 Frame = +2

Query: 71  VSYLCGDCGAENTLKTG-DVIQCRECGYRILYKKR 172
           +SY+C  CGAE  + T   ++QC  CG RIL K R
Sbjct: 1   MSYVCLICGAEVDIDTEKSLVQCTNCGGRILIKPR 35

>Q4JAE8:RPOP_SULAC DNA-directed RNA polymerase subunit P - Sulfolobus acidocaldarius|
          Length = 48

 Score = 33.9 bits (76), Expect = 0.31
 Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 5/43 (11%)
 Frame = +2

Query: 77  YLCGDCGAE---NTLKTGDVIQCRECGYRILY--KKRTRRIVQ 190
           Y CG C  E   + LKT   ++C  CGYRI+Y  +K T +IV+
Sbjct: 4   YRCGKCWKELDDDQLKTLPGVRCPYCGYRIIYMVRKPTVKIVK 46

>Q8TYC4:RPOP_METKA DNA-directed RNA polymerase subunit P - Methanopyrus kandleri|
          Length = 51

 Score = 33.1 bits (74), Expect = 0.52
 Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
 Frame = +2

Query: 59  QPEPVSYLCGDCGAENTLKTG-DVIQCRECGYRILYKKRTRRIVQYEAR 202
           + E   Y+C  CG +  L    D I+C  CG+R++ K R     +Y+AR
Sbjct: 3   EEEKYEYICMRCGKKVRLDINEDPIRCTHCGFRLVMKPRHPVPRRYKAR 51

>Q5JDM8:RPOP_PYRKO DNA-directed RNA polymerase subunit P - Pyrococcus kodakaraensis|
           (Thermococcus kodakaraensis)
          Length = 49

 Score = 32.3 bits (72), Expect = 0.89
 Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
 Frame = +2

Query: 77  YLCGDCG--AENTLKTGDVIQCRECGYRILYKKRTR 178
           Y C  CG   E  L T   ++C  CG +ILYK R R
Sbjct: 6   YRCAKCGKEVELDLATAREVRCPYCGSKILYKPRPR 41

>Q9HSG9:RPOP_HALSA DNA-directed RNA polymerase subunit P - Halobacterium salinarium|
           (Halobacterium halobium)
          Length = 44

 Score = 32.0 bits (71), Expect = 1.2
 Identities = 13/38 (34%), Positives = 22/38 (57%)
 Frame = +2

Query: 71  VSYLCGDCGAENTLKTGDVIQCRECGYRILYKKRTRRI 184
           +SY C  C  +  L     ++C  CG+R+L K+R+R +
Sbjct: 1   MSYKCSRCKRDVELDEYGGVRCPYCGHRVLLKERSRDV 38

>Q5V1M2:RPOP_HALMA DNA-directed RNA polymerase subunit P - Haloarcula marismortui|
           (Halobacterium marismortui)
          Length = 44

 Score = 32.0 bits (71), Expect = 1.2
 Identities = 13/35 (37%), Positives = 21/35 (60%)
 Frame = +2

Query: 71  VSYLCGDCGAENTLKTGDVIQCRECGYRILYKKRT 175
           +SY C  C  + TL     ++C  CG+R+L K+R+
Sbjct: 1   MSYKCSRCKRDVTLDEYGGVRCPYCGHRVLLKERS 35

>Q4KLI1:ZKSC1_RAT Zinc finger protein with KRAB and SCAN domains 1 - Rattus|
           norvegicus (Rat)
          Length = 562

 Score = 31.2 bits (69), Expect = 2.0
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
 Frame = +1

Query: 133 VPRVWVPHPLQEAHPQDCSIRSSLKTKEQAS------FAVSSCLERWEC 261
           +P   VP P  E +P+D ++ S+L T +  +       AVS  LE W C
Sbjct: 194 LPATHVPAPQHEGNPRDQAMASALLTADSQAMVKIEDMAVSLILEEWGC 242

>Q8BGS3:ZKSC1_MOUSE Zinc finger protein with KRAB and SCAN domains 1 - Mus musculus|
           (Mouse)
          Length = 561

 Score = 30.8 bits (68), Expect = 2.6
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
 Frame = +1

Query: 133 VPRVWVPHPLQEAHPQDCSIRSSLKTKEQAS------FAVSSCLERWEC 261
           +P   VP P  E +P+D ++ S+L T +  +       AVS  LE W C
Sbjct: 193 LPATHVPAPHHEGNPRDQAMASALLTADSQAMVKIEDMAVSLILEEWGC 241

>O74105:RPOP_PYRHO DNA-directed RNA polymerase subunit P - Pyrococcus horikoshii|
          Length = 49

 Score = 30.8 bits (68), Expect = 2.6
 Identities = 18/41 (43%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
 Frame = +2

Query: 62  PEPVSYLCGDCGAENTL--KTGDVIQCRECGYRILYKKRTR 178
           PE V Y C  CG E  L   T   ++C  CG +ILYK R +
Sbjct: 2   PEAV-YRCAKCGREVKLDLSTTRDLRCPYCGSKILYKPRPK 41

>Q8ZTH0:RL40_PYRAE 50S ribosomal protein L40e - Pyrobaculum aerophilum|
          Length = 53

 Score = 30.8 bits (68), Expect = 2.6
 Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 6/54 (11%)
 Frame = +2

Query: 38  PSSMDPQQPEPVSY------LCGDCGAENTLKTGDVIQCRECGYRILYKKRTRR 181
           P ++DP++   V        +C +CGA+N     D ++CR C  R L  KR R+
Sbjct: 2   PITLDPEKLAIVMKHRFQYKICRECGAKNP---PDAVKCRRCRSRNLRPKRFRK 52

>Q5QZ53:UBIG_IDILO 3-demethylubiquinone-9 3-methyltransferase - Idiomarina loihiensis|
          Length = 243

 Score = 30.0 bits (66), Expect = 4.4
 Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
 Frame = +1

Query: 154 HPLQEAHPQD--CSIRSSLKTKEQASFAVSSCLERWECVP*DKATMEKC 294
           H L+     D  C    +L  ++ ASF V +CLE  E VP  KA ++ C
Sbjct: 98  HALESGRQIDYQCIAIETLADQQPASFDVVTCLEMLEHVPDPKAIVKAC 146

>Q975R9:RPOP_SULTO DNA-directed RNA polymerase subunit P - Sulfolobus tokodaii|
          Length = 48

 Score = 29.6 bits (65), Expect = 5.8
 Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 5/43 (11%)
 Frame = +2

Query: 77  YLCGDCGAE---NTLKTGDVIQCRECGYRILY--KKRTRRIVQ 190
           Y CG+C  E     L+    ++C  CGY+I+Y  +K T ++V+
Sbjct: 4   YRCGNCWREFDDEQLRALPGVRCPYCGYKIIYMVRKPTVKVVK 46

>Q5R670:ZKSC1_PONPY Zinc finger protein with KRAB and SCAN domains 1 - Pongo pygmaeus|
           (Orangutan)
          Length = 563

 Score = 29.3 bits (64), Expect = 7.6
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
 Frame = +1

Query: 133 VPRVWVPHPLQEAHPQDCSIRSSLKTKEQAS------FAVSSCLERWEC 261
           +P   +P P  E  P+D ++ S+L T +  +       AVS  LE W C
Sbjct: 195 LPAAHIPAPPHEGSPRDQAMASALFTADSQAMVKIEDMAVSLILEEWGC 243

>P17029:ZKSC1_HUMAN Zinc finger protein with KRAB and SCAN domains 1 - Homo sapiens|
           (Human)
          Length = 563

 Score = 29.3 bits (64), Expect = 7.6
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
 Frame = +1

Query: 133 VPRVWVPHPLQEAHPQDCSIRSSLKTKEQAS------FAVSSCLERWEC 261
           +P   +P P  E  P+D ++ S+L T +  +       AVS  LE W C
Sbjct: 195 LPAAHIPAPPHEGSPRDQAMASALFTADSQAMVKIEDMAVSLILEEWGC 243

>P39814:TOP1_BACSU DNA topoisomerase 1 - Bacillus subtilis|
          Length = 691

 Score = 28.9 bits (63), Expect = 9.9
 Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 3/33 (9%)
 Frame = +2

Query: 65  EPVSYLCGDCG---AENTLKTGDVIQCRECGYR 154
           +P+   C  CG    E  LK G  +QC EC Y+
Sbjct: 654 KPIERKCPKCGKMLVEKKLKKGIQVQCVECDYK 686

>Q8HYB7:PERT_CANFA Thyroid peroxidase precursor - Canis familiaris (Dog)|
          Length = 933

 Score = 28.9 bits (63), Expect = 9.9
 Identities = 11/23 (47%), Positives = 15/23 (65%)
 Frame = +2

Query: 92  CGAENTLKTGDVIQCRECGYRIL 160
           CG  ++L  GDV+ C E G R+L
Sbjct: 739 CGLPDSLDNGDVVLCGEAGRRVL 761


  Database: uniprot_sprot.fasta.out
    Posted date:  Jul 19, 2007  5:58 PM
  Number of letters in database: 100,686,439
  Number of sequences in database:  274,295
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 274295
Number of Hits to DB: 82,662,267
Number of extensions: 1728722
Number of successful extensions: 4807
Number of sequences better than 10.0: 21
Number of HSP's gapped: 4802
Number of HSP's successfully gapped: 21
Length of query: 166
Length of database: 100,686,439
Length adjustment: 105
Effective length of query: 61
Effective length of database: 71,885,464
Effective search space: 4385013304
Effective search space used: 4385013304
Neighboring words threshold: 12
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)