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= ce--1651
         (600 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC17G6.16c |ysh1||mRNA cleavage and polyadenylation specificit...    89   3e-19
SPCC777.06c |||hydrolase |Schizosaccharomyces pombe|chr 3|||Manual     30   0.22 
SPBC1709.15c |cft2||cleavage factor two Cft2/polyadenylation fac...    28   1.2  
SPBC4C3.05c |nuc1|rpa1|DNA-directed RNA polymerase I complex lar...    25   6.4  
SPAC22A12.01c |pso2|snm1, SPAC56F8.17c, snm1|DNA 5' exonuclease ...    25   6.4  
SPBC13G1.02 |||mannose-1-phosphate guanyltransferase |Schizosacc...    25   6.4  
SPBC32F12.07c |||ubiquitin-protein ligase E3 |Schizosaccharomyce...    25   8.5  
SPAC1D4.10 |||tRNA endonuclease|Schizosaccharomyces pombe|chr 1|...    25   8.5  

>SPAC17G6.16c |ysh1||mRNA cleavage and polyadenylation specificity
           factor complex subunit Ysh1|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 775

 Score = 89.4 bits (212), Expect = 3e-19
 Identities = 42/96 (43%), Positives = 57/96 (59%)
 Frame = +3

Query: 240 LGAGQDVGRSCILLTMGGKNIMLDCGMHMGYNDERRFPDFSYIVPEGPITSQIDCVIISH 419
           LGAG +VGRSC ++   GK +MLD G+H  Y      P F          S +D ++ISH
Sbjct: 42  LGAGNEVGRSCHVIQYKGKTVMLDAGVHPAYTGLSALPFFDEFD-----LSTVDVLLISH 96

Query: 420 FHLDHCGALPYMSEMIGYTGPIYMTHPTKAIAPILL 527
           FHLDH  +LPY+ +   + G ++MTHPTKA+   LL
Sbjct: 97  FHLDHVASLPYVMQKTNFRGRVFMTHPTKAVCKWLL 132


>SPCC777.06c |||hydrolase |Schizosaccharomyces pombe|chr 3|||Manual
          Length = 301

 Score = 30.3 bits (65), Expect = 0.22
 Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 4/74 (5%)
 Frame = +3

Query: 294 KNIMLDCGMHMGYNDERRFPDFSYIVPEGPITSQIDCVIISHFHLDHCGALPYMSE-MIG 470
           KNI++DCG H   +  + F +             +D VI++H H D    +  + E  +G
Sbjct: 66  KNILIDCGKHFYVSALKHFVEHK--------IRYLDAVILTHDHADAINGMDDLREWTLG 117

Query: 471 YTGP---IYMTHPT 503
           +  P   IY+T  T
Sbjct: 118 FLQPSVKIYLTERT 131


>SPBC1709.15c |cft2||cleavage factor two Cft2/polyadenylation factor
           CPSF-73 |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 797

 Score = 27.9 bits (59), Expect = 1.2
 Identities = 27/73 (36%), Positives = 34/73 (46%), Gaps = 1/73 (1%)
 Frame = +3

Query: 288 GGKNIMLDCGMHMGYNDERRFPDFSYIVPEGPITSQIDCVIISHFHLDHCGALPYMSEMI 467
           G  +I LD G+H+ Y D     D S   PE P   Q D +++SH  L H G L Y     
Sbjct: 14  GTSHIELD-GIHI-YIDPGS--DDSLKHPEVP--EQPDLILLSHSDLAHIGGLVYAYYKY 67

Query: 468 GYTGP-IYMTHPT 503
            +    IY T PT
Sbjct: 68  DWKNAYIYATLPT 80


>SPBC4C3.05c |nuc1|rpa1|DNA-directed RNA polymerase I complex large
           subunit Nuc1 |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 1689

 Score = 25.4 bits (53), Expect = 6.4
 Identities = 12/34 (35%), Positives = 16/34 (47%)
 Frame = -2

Query: 551 ELGTGPPLEKDWCYGFSRVCHVNRAGITNHFGHI 450
           +L  GP L+   C      CH++      HFGHI
Sbjct: 51  DLALGPYLKNSVC----ATCHLDERYCPGHFGHI 80


>SPAC22A12.01c |pso2|snm1, SPAC56F8.17c, snm1|DNA 5' exonuclease
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 560

 Score = 25.4 bits (53), Expect = 6.4
 Identities = 13/36 (36%), Positives = 18/36 (50%)
 Frame = +3

Query: 396 IDCVIISHFHLDHCGALPYMSEMIGYTGPIYMTHPT 503
           ++   +SHFH DH G L    +     GPIY +  T
Sbjct: 208 VEAYFLSHFHSDHYGGLTPKWK----HGPIYCSEVT 239


>SPBC13G1.02 |||mannose-1-phosphate guanyltransferase
           |Schizosaccharomyces pombe|chr 2|||Manual
          Length = 414

 Score = 25.4 bits (53), Expect = 6.4
 Identities = 9/31 (29%), Positives = 15/31 (48%)
 Frame = +3

Query: 399 DCVIISHFHLDHCGALPYMSEMIGYTGPIYM 491
           DC++     + +C  LP+    +G  G I M
Sbjct: 384 DCIVHDEVRVQNCLVLPHKEIKVGLVGEIVM 414


>SPBC32F12.07c |||ubiquitin-protein ligase E3 |Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 340

 Score = 25.0 bits (52), Expect = 8.5
 Identities = 10/35 (28%), Positives = 14/35 (40%)
 Frame = -2

Query: 536 PPLEKDWCYGFSRVCHVNRAGITNHFGHIGQCTAV 432
           PP EK W      + H   AG+      +G C  +
Sbjct: 72  PPKEKSWAVNVLGIGHSLEAGLAQVTFGVGSCLGI 106


>SPAC1D4.10 |||tRNA endonuclease|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 809

 Score = 25.0 bits (52), Expect = 8.5
 Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
 Frame = +3

Query: 294 KNIMLDCGMHMGYNDERRFPD-FSYIVPEGPITSQIDCVIISHFHLDH 434
           KNI+LDCG        R++ D   Y +      + +  + ISH H DH
Sbjct: 538 KNILLDCGEGTLGRLSRQYGDNLKYEI------ASLRWIYISHMHADH 579


  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: 2,572,609
Number of Sequences: 5004
Number of extensions: 55357
Number of successful extensions: 117
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 114
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): 116
length of database: 2,362,478
effective HSP length: 69
effective length of database: 2,017,202
effective search space used: 262236260
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)