Bombyx BLAST Result against spombe

BLASTX 2.2.12 [Aug-07-2005]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
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.

Query= fdpeP18_F_E12
         (1355 letters)

Database: spombe 
           5004 sequences; 2,362,478 total letters

Searching..................................................done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPCC1322.11 |rpl2302|rpl23-2|60S ribosomal protein L23|Schizosac...   159   1e-39
SPAC3G9.03 |rpl2301|rpl23-1|60S ribosomal protein L23|Schizosacc...   159   1e-39
SPBC887.07 |mrpl38||mitochondrial ribosomal protein subunit L38|...    47   7e-06

>SPCC1322.11 |rpl2302|rpl23-2|60S ribosomal protein
           L23|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 139

 Score =  159 bits (385), Expect = 1e-39
 Identities = 70/84 (83%), Positives = 80/84 (95%)
 Frame = +3

Query: 207 RLNRLPAAGSGDMIVATVKKGKPELRKKVMPAVVIRQRKPFRRRDGVFIYFEDNAGVIVN 386
           RLNRLPAA  GDM++ATVKKGKP+LRKK+MPA+V+RQRK +RR+DGV++YFEDNAGVIVN
Sbjct: 47  RLNRLPAASCGDMVLATVKKGKPDLRKKIMPAIVVRQRKAWRRKDGVYLYFEDNAGVIVN 106

Query: 387 NKGEMKGSAITGPVAKECADLWPR 458
            KGEMKGSAITGPVAKECADLWPR
Sbjct: 107 PKGEMKGSAITGPVAKECADLWPR 130



 Score = 38.7 bits (86), Expect = 0.002
 Identities = 14/21 (66%), Positives = 20/21 (95%)
 Frame = +2

Query: 134 AVINCADNTGAKNLYVIAVQG 196
           A++NCADN+GAKNLY+++V G
Sbjct: 23  AIMNCADNSGAKNLYIVSVFG 43



 Score = 30.7 bits (66), Expect = 0.48
 Identities = 11/18 (61%), Positives = 16/18 (88%)
 Frame = +1

Query: 73  RGRGGSAGAKFRISLGLP 126
           RGRG ++G K+R++LGLP
Sbjct: 3   RGRGAASGTKYRMTLGLP 20


>SPAC3G9.03 |rpl2301|rpl23-1|60S ribosomal protein
           L23|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 139

 Score =  159 bits (385), Expect = 1e-39
 Identities = 70/84 (83%), Positives = 80/84 (95%)
 Frame = +3

Query: 207 RLNRLPAAGSGDMIVATVKKGKPELRKKVMPAVVIRQRKPFRRRDGVFIYFEDNAGVIVN 386
           RLNRLPAA  GDM++ATVKKGKP+LRKK+MPA+V+RQRK +RR+DGV++YFEDNAGVIVN
Sbjct: 47  RLNRLPAASCGDMVLATVKKGKPDLRKKIMPAIVVRQRKAWRRKDGVYLYFEDNAGVIVN 106

Query: 387 NKGEMKGSAITGPVAKECADLWPR 458
            KGEMKGSAITGPVAKECADLWPR
Sbjct: 107 PKGEMKGSAITGPVAKECADLWPR 130



 Score = 38.7 bits (86), Expect = 0.002
 Identities = 14/21 (66%), Positives = 20/21 (95%)
 Frame = +2

Query: 134 AVINCADNTGAKNLYVIAVQG 196
           A++NCADN+GAKNLY+++V G
Sbjct: 23  AIMNCADNSGAKNLYIVSVFG 43



 Score = 30.7 bits (66), Expect = 0.48
 Identities = 11/18 (61%), Positives = 16/18 (88%)
 Frame = +1

Query: 73  RGRGGSAGAKFRISLGLP 126
           RGRG ++G K+R++LGLP
Sbjct: 3   RGRGAASGTKYRMTLGLP 20


>SPBC887.07 |mrpl38||mitochondrial ribosomal protein subunit
           L38|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 126

 Score = 46.8 bits (106), Expect = 7e-06
 Identities = 28/79 (35%), Positives = 41/79 (51%), Gaps = 9/79 (11%)
 Frame = +3

Query: 228 AGSGDMIVATVKKGKPEL---------RKKVMPAVVIRQRKPFRRRDGVFIYFEDNAGVI 380
           A  GD +V  VKK +            R  +  A+++R + P RR DG ++ F+DNA V+
Sbjct: 31  ASLGDEVVVVVKKARSGSSVTAANKVKRGDIHHAIIVRTKSPVRRPDGRYVRFDDNACVL 90

Query: 381 VNNKGEMKGSAITGPVAKE 437
           VN + E  G+ I   VA E
Sbjct: 91  VNKECEPLGTRILSVVANE 109


  Database: spombe
    Posted date:  Oct 4, 2007 10:57 AM
  Number of letters in database: 2,362,478
  Number of sequences in database:  5004
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 4,169,532
Number of Sequences: 5004
Number of extensions: 76802
Number of successful extensions: 186
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 179
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): 186
length of database: 2,362,478
effective HSP length: 75
effective length of database: 1,987,178
effective search space used: 747178928
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)