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= NV060447.seq
         (686 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAC26A3.08 |smb1|smb|Sm snRNP core protein Smb1|Schizosaccharom...    44   3e-05
SPCC1840.10 |lsm8||U6 snRNP-associated protein Lsm8 |Schizosacch...    33   0.029
SPBC9B6.05c |lsm3||U6 snRNP-associated protein Lsm3|Schizosaccha...    31   0.12 
SPBC20F10.09 |lsm5||U6 snRNP-associated protein Lsm5|Schizosacch...    30   0.27 
SPCC285.12 |lsm7||U6 snRNP-associated protein Lsm7|Schizosacchar...    29   0.63 
SPBC11G11.06c |sme1||Sm snRNP core protein Sme1|Schizosaccharomy...    27   2.5  
SPAC2C4.03c |smd2|cwf9|Sm snRNP core protein Smd2|Schizosaccharo...    26   4.4  
SPAC1687.18c |ssl3||cohesin loading factor Ssl3|Schizosaccharomy...    26   5.9  

>SPAC26A3.08 |smb1|smb|Sm snRNP core protein
           Smb1|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 147

 Score = 43.6 bits (98), Expect = 3e-05
 Identities = 18/39 (46%), Positives = 25/39 (64%)
 Frame = +3

Query: 138 KMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLILGDCE 254
           KM   +N+ + V  +D RTF+G   AFD  MNL+L DC+
Sbjct: 5   KMVSLLNHSLNVTTKDGRTFVGQLLAFDGFMNLVLSDCQ 43



 Score = 36.7 bits (81), Expect = 0.003
 Identities = 19/38 (50%), Positives = 27/38 (71%), Gaps = 1/38 (2%)
 Frame = +2

Query: 251 RKFRKIKSKN-SKTADREEKRTLGFVLLRGENIVSLTI 361
           +++R IK +N    +  EEKR LG V+LRGE IVSL++
Sbjct: 43  QEYRHIKKQNVPSNSVYEEKRMLGLVILRGEFIVSLSV 80


>SPCC1840.10 |lsm8||U6 snRNP-associated protein Lsm8
           |Schizosaccharomyces pombe|chr 3|||Manual
          Length = 94

 Score = 33.5 bits (73), Expect = 0.029
 Identities = 15/29 (51%), Positives = 18/29 (62%)
 Frame = +3

Query: 162 RVRVILQDSRTFIGTFKAFDKHMNLILGD 248
           RV+VI  D R  +G+ K FD   NLIL D
Sbjct: 10  RVQVITNDGRVVLGSLKGFDHTTNLILSD 38


>SPBC9B6.05c |lsm3||U6 snRNP-associated protein
           Lsm3|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 93

 Score = 31.5 bits (68), Expect = 0.12
 Identities = 13/30 (43%), Positives = 19/30 (63%)
 Frame = +3

Query: 165 VRVILQDSRTFIGTFKAFDKHMNLILGDCE 254
           V V L+  R   G   A+D+H+N++LGD E
Sbjct: 22  VYVKLRGDRELNGRLHAYDEHLNMVLGDAE 51


>SPBC20F10.09 |lsm5||U6 snRNP-associated protein
           Lsm5|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 80

 Score = 30.3 bits (65), Expect = 0.27
 Identities = 15/44 (34%), Positives = 24/44 (54%)
 Frame = +3

Query: 117 MTIGKNNKMQQHINYRVRVILQDSRTFIGTFKAFDKHMNLILGD 248
           MTI     + + I   + VI++  R F GT   FD ++N++L D
Sbjct: 3   MTILPLELIDKCIGSNLWVIMKSEREFAGTLVGFDDYVNIVLKD 46


>SPCC285.12 |lsm7||U6 snRNP-associated protein
           Lsm7|Schizosaccharomyces pombe|chr 3|||Manual
          Length = 113

 Score = 29.1 bits (62), Expect = 0.63
 Identities = 12/38 (31%), Positives = 20/38 (52%)
 Frame = +3

Query: 141 MQQHINYRVRVILQDSRTFIGTFKAFDKHMNLILGDCE 254
           + ++ + R++      R   G  K FD+ MNL+L D E
Sbjct: 28  LSRYQDQRIQATFTGGRQITGILKGFDQLMNLVLDDVE 65


>SPBC11G11.06c |sme1||Sm snRNP core protein Sme1|Schizosaccharomyces
           pombe|chr 2|||Manual
          Length = 84

 Score = 27.1 bits (57), Expect = 2.5
 Identities = 13/46 (28%), Positives = 21/46 (45%)
 Frame = +3

Query: 141 MQQHINYRVRVILQDSRTFIGTFKAFDKHMNLILGDCENSEKLNLK 278
           +QQH    + +  Q      G  + FD+ MN++L D    +  N K
Sbjct: 20  LQQHTPVSIWLFEQTDIRLQGQIRGFDEFMNIVLDDAVQVDAKNNK 65


>SPAC2C4.03c |smd2|cwf9|Sm snRNP core protein
           Smd2|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 115

 Score = 26.2 bits (55), Expect = 4.4
 Identities = 11/45 (24%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
 Frame = +3

Query: 114 KMTIGKNNKMQQHINYRVRVIL--QDSRTFIGTFKAFDKHMNLIL 242
           + + G  + +QQ +    +V++  ++++  +   KAFD+H N++L
Sbjct: 24  EFSAGPLSVLQQAVKNHDQVLINCRNNKKLLARVKAFDRHSNMVL 68


>SPAC1687.18c |ssl3||cohesin loading factor Ssl3|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 559

 Score = 25.8 bits (54), Expect = 5.9
 Identities = 10/27 (37%), Positives = 17/27 (62%)
 Frame = +3

Query: 243 GDCENSEKLNLKIVKLQTEKKKELWVL 323
           G  E++EK+ +  ++L  + K ELW L
Sbjct: 493 GKLEHAEKMAISALELAKKSKDELWCL 519


  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: 2,343,452
Number of Sequences: 5004
Number of extensions: 41899
Number of successful extensions: 102
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 99
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): 102
length of database: 2,362,478
effective HSP length: 70
effective length of database: 2,012,198
effective search space used: 317927284
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)