>RLUB_XANCP (Q8P8M6) Ribosomal large subunit pseudouridine synthase B (EC|
           5.4.99.-) (rRNA-uridine isomerase B) (rRNA
           pseudouridylate synthase B)
          Length = 492

 Score = 35.4 bits (80), Expect = 0.097
 Identities = 19/45 (42%), Positives = 27/45 (60%)
 Frame = -3

Query: 527 VRELVQNAGLKVYALKRVRIGRFRLPSDLGIGKMVELKEADIKAL 393
           VR L ++ G +V  LKR R G+  LP +L  G+ VEL +  + AL
Sbjct: 223 VRRLWESQGCQVSRLKRTRYGKVSLPRELLRGQSVELAQEKVDAL 267

>Y554_AQUAE (O66829) Hypothetical RNA pseudouridine synthase aq_554 (EC|
           5.4.99.-) (RNA-uridine isomerase) (RNA pseudouridylate
           synthase)
          Length = 238

 Score = 33.1 bits (74), Expect = 0.48
 Identities = 17/45 (37%), Positives = 25/45 (55%)
 Frame = -3

Query: 527 VRELVQNAGLKVYALKRVRIGRFRLPSDLGIGKMVELKEADIKAL 393
           V+ L +  G  V  LKR R+G  RL  ++  G+  EL E ++K L
Sbjct: 184 VKRLFKAVGHNVVYLKRTRVGNLRLDENMEPGEWRELTEEEVKEL 228

>POL_HTL1C (P14078) Pol polyprotein [Contains: Reverse|
           transcriptase/ribonuclease H (EC 2.7.7.49) (EC 3.1.26.4)
           (RT); Integrase (IN)]
          Length = 896

 Score = 30.0 bits (66), Expect = 4.1
 Identities = 18/69 (26%), Positives = 33/69 (47%)
 Frame = +2

Query: 176 RSSPRVLRMKGMPVEPDRQAPISHL*WHNRRPFKRGVVMPYAGRGICYIHPPTPLSETEP 355
           R+ P+  R + +P +P+R   + HL    R+  + G + PY G G   + P    + T  
Sbjct: 19  RTPPKAPRNQPVPFKPERLQALQHL---VRKALEAGHIEPYTGPGNNPVFPVKKANGTWR 75

Query: 356 MNSDVHSTS 382
              D+ +T+
Sbjct: 76  FIHDLRATN 84

>POL_HTL1A (P03362) Pol polyprotein [Contains: Reverse|
           transcriptase/ribonuclease H (EC 2.7.7.49) (EC 3.1.26.4)
           (RT); Integrase (IN)]
          Length = 896

 Score = 30.0 bits (66), Expect = 4.1
 Identities = 18/69 (26%), Positives = 33/69 (47%)
 Frame = +2

Query: 176 RSSPRVLRMKGMPVEPDRQAPISHL*WHNRRPFKRGVVMPYAGRGICYIHPPTPLSETEP 355
           R+ P+  R + +P +P+R   + HL    R+  + G + PY G G   + P    + T  
Sbjct: 19  RTPPKAPRNQPVPFKPERLQALQHL---VRKALEAGHIEPYTGPGNNPVFPVKKANGTWR 75

Query: 356 MNSDVHSTS 382
              D+ +T+
Sbjct: 76  FIHDLRATN 84

>YQ38_CAEEL (Q09459) Hypothetical protein C09G5.8|
          Length = 1531

 Score = 30.0 bits (66), Expect = 4.1
 Identities = 11/33 (33%), Positives = 17/33 (51%)
 Frame = -3

Query: 221 VQQACLSFEEHGGCFAEEHGSVCWSFGICSARL 123
           ++  C+ FE    CF +EHG  C      +AR+
Sbjct: 114 IETICIDFEHFSHCFIQEHGKYCGYRSEITARM 146


  Database: uniprot_sprot.fasta
    Posted date:  May 25, 2006  5:36 PM
  Number of letters in database: 80,573,946
  Number of sequences in database:  219,361
  
Lambda     K      H
   0.318    0.135    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 70,574,723
Number of Sequences: 219361
Number of extensions: 1346085
Number of successful extensions: 3261
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 3222
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 3261
length of database: 80,573,946
effective HSP length: 105
effective length of database: 57,541,041
effective search space used: 4027872870
frameshift window, decay const: 50,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)