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= rbmnc15c14
         (594 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SPAPB8E5.06c |rpl302|rpl3-2, rpl3-b|60S ribosomal protein L3|Sch...   237   7e-64
SPAC17A5.03 |rpl301|rpl3-1, rpl3|60S ribosomal protein L3 |Schiz...   237   7e-64
SPBC685.09 |orc2|orp2|origin recognition complex subunit Orc2|Sc...    29   0.51 
SPAC17A2.10c |||sequence orphan|Schizosaccharomyces pombe|chr 1|...    27   1.6  
SPAC26H5.12 |rpo41||mitochondrial DNA-directed RNA polymerase|Sc...    27   2.1  
SPBC21.02 |||TLDc domain protein 2|Schizosaccharomyces pombe|chr...    27   2.7  
SPAC16A10.01 |||DUF1212 family protein|Schizosaccharomyces pombe...    26   4.8  
SPAC22F8.07c |rtf1||replication termination factor Rtf1|Schizosa...    25   6.3  
SPCC1223.01 ||SPCC285.18|ubiquitin-protein ligase E3 |Schizosacc...    25   8.3  
SPCC1620.12c |||GTPase activating protein |Schizosaccharomyces p...    25   8.3  

>SPAPB8E5.06c |rpl302|rpl3-2, rpl3-b|60S ribosomal protein
           L3|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 388

 Score =  237 bits (581), Expect = 7e-64
 Identities = 115/183 (62%), Positives = 135/183 (73%)
 Frame = -2

Query: 593 QDEMIDCIXXXXXXXXXXXTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVSFTVARAGQK 414
           Q+EMID I           T+RW TK+LPRKTH+GLRKVACIGAWHP+ V +TVARAG  
Sbjct: 211 QNEMIDVIGVTRGKGNEGTTARWGTKRLPRKTHRGLRKVACIGAWHPANVQWTVARAGNA 270

Query: 413 GYHHRTEMNKKIYRIGQGIHKKDGKVIKNNASTEYDLSEKSITPMGGFPHYGEVNNDFVM 234
           GY HRT++N KIYRIG G    D K    NAST++D +EK ITPMGGF  YG V NDFVM
Sbjct: 271 GYMHRTQLNSKIYRIGAG---DDAK----NASTDFDATEKRITPMGGFVRYGVVENDFVM 323

Query: 233 IKGCCMGPKKRIITLRKSLRVHTKRAALEKINLKFIDTSSKFGHGRFQTPADKAAFMGTL 54
           + G   GP KR++TLRKSL  HT R ALE ++LK+IDT+SKFGHGRFQTPA+   F+GTL
Sbjct: 324 LNGATPGPVKRVLTLRKSLLTHTSRKALEPVSLKWIDTASKFGHGRFQTPAEAKQFLGTL 383

Query: 53  KKD 45
           KKD
Sbjct: 384 KKD 386


>SPAC17A5.03 |rpl301|rpl3-1, rpl3|60S ribosomal protein L3
           |Schizosaccharomyces pombe|chr 1|||Manual
          Length = 388

 Score =  237 bits (581), Expect = 7e-64
 Identities = 115/183 (62%), Positives = 135/183 (73%)
 Frame = -2

Query: 593 QDEMIDCIXXXXXXXXXXXTSRWHTKKLPRKTHKGLRKVACIGAWHPSRVSFTVARAGQK 414
           Q+EMID I           T+RW TK+LPRKTH+GLRKVACIGAWHP+ V +TVARAG  
Sbjct: 211 QNEMIDVIGVTRGKGNEGTTARWGTKRLPRKTHRGLRKVACIGAWHPANVQWTVARAGNA 270

Query: 413 GYHHRTEMNKKIYRIGQGIHKKDGKVIKNNASTEYDLSEKSITPMGGFPHYGEVNNDFVM 234
           GY HRT++N KIYRIG G    D K    NAST++D +EK ITPMGGF  YG V NDFVM
Sbjct: 271 GYMHRTQLNSKIYRIGAG---DDAK----NASTDFDATEKRITPMGGFVRYGVVENDFVM 323

Query: 233 IKGCCMGPKKRIITLRKSLRVHTKRAALEKINLKFIDTSSKFGHGRFQTPADKAAFMGTL 54
           + G   GP KR++TLRKSL  HT R ALE ++LK+IDT+SKFGHGRFQTPA+   F+GTL
Sbjct: 324 LNGATPGPVKRVLTLRKSLLTHTSRKALEPVSLKWIDTASKFGHGRFQTPAEAKQFLGTL 383

Query: 53  KKD 45
           KKD
Sbjct: 384 KKD 386


>SPBC685.09 |orc2|orp2|origin recognition complex subunit
           Orc2|Schizosaccharomyces pombe|chr 2|||Manual
          Length = 535

 Score = 29.1 bits (62), Expect = 0.51
 Identities = 11/33 (33%), Positives = 21/33 (63%)
 Frame = +3

Query: 336 NFAILFVDSLSNTIDFLVHFSTVMITFLTSTSY 434
           NFA+L+  SL ++ +F++H +T    +   T+Y
Sbjct: 377 NFALLWDTSLESSFNFVMHDATTFARYYNETTY 409


>SPAC17A2.10c |||sequence orphan|Schizosaccharomyces pombe|chr
           1|||Manual
          Length = 230

 Score = 27.5 bits (58), Expect = 1.6
 Identities = 13/41 (31%), Positives = 22/41 (53%)
 Frame = +3

Query: 303 QIILSRCIVFNNFAILFVDSLSNTIDFLVHFSTVMITFLTS 425
           ++ L RC++   F +LF  S S +  FL   S + I + +S
Sbjct: 109 ELSLFRCLLLFFFFLLFFLSFSFSFSFLFFLSQIFIVYFSS 149


>SPAC26H5.12 |rpo41||mitochondrial DNA-directed RNA
           polymerase|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 1120

 Score = 27.1 bits (57), Expect = 2.1
 Identities = 13/38 (34%), Positives = 19/38 (50%)
 Frame = -3

Query: 133 NSLTPRPSSVMVDSRRRLTRLHSWVHSRRIVFAKKLRL 20
           NS+ PR   +    R+ L  L +  HS+R  F  KL +
Sbjct: 614 NSINPRDKVIWHTRRKELAALKTGAHSQRCDFNYKLEI 651


>SPBC21.02 |||TLDc domain protein 2|Schizosaccharomyces pombe|chr
           2|||Manual
          Length = 511

 Score = 26.6 bits (56), Expect = 2.7
 Identities = 10/20 (50%), Positives = 13/20 (65%)
 Frame = -1

Query: 66  HGYTQEGSYSRRSCGYHNPS 7
           HGY+   +  R+ C YHNPS
Sbjct: 307 HGYSMY-ALERKMCNYHNPS 325


>SPAC16A10.01 |||DUF1212 family protein|Schizosaccharomyces
           pombe|chr 1|||Manual
          Length = 830

 Score = 25.8 bits (54), Expect = 4.8
 Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
 Frame = +3

Query: 288 NGFLRQIILSRCIVFNNFAI-LFVDSLSNTIDFLVHFSTVMITF 416
           N FL  +  SRC V  N+ I + V S    ++F++     M+ +
Sbjct: 366 NSFLHNMGYSRCYVDENYHITIHVSSYERRVEFMLAVCEAMMLY 409


>SPAC22F8.07c |rtf1||replication termination factor
           Rtf1|Schizosaccharomyces pombe|chr 1|||Manual
          Length = 466

 Score = 25.4 bits (53), Expect = 6.3
 Identities = 14/42 (33%), Positives = 19/42 (45%)
 Frame = +3

Query: 348 LFVDSLSNTIDFLVHFSTVMITFLTSTSYSERHPRRMPSSNA 473
           LF+D LS   D L+H   ++ +    T  S  H      SNA
Sbjct: 421 LFIDGLSTFSDTLIHLHKMLNSSPEETYISNLHDSYTAFSNA 462


>SPCC1223.01 ||SPCC285.18|ubiquitin-protein ligase E3
           |Schizosaccharomyces pombe|chr 3|||Manual
          Length = 732

 Score = 25.0 bits (52), Expect = 8.3
 Identities = 18/75 (24%), Positives = 33/75 (44%)
 Frame = +3

Query: 60  THECSLVSRRLESTMTELGRGVNEFEVDLF*CSPLCMHTQRLSKSNDTLFRSHAATLDHH 239
           THE +L S++  +   E+G   ++ E+  F   P C         +D LF+ H     H 
Sbjct: 212 THEHTLFSKKGLTKHNEVGDQGSDLEITGFKGHPKCEFCNTHFYDDDELFK-HCRE-KHE 269

Query: 240 KVVVYFTIMGETSHR 284
           +  +   + G  +H+
Sbjct: 270 RCYICDQVAGRPTHQ 284


>SPCC1620.12c |||GTPase activating protein |Schizosaccharomyces
           pombe|chr 3|||Manual
          Length = 595

 Score = 25.0 bits (52), Expect = 8.3
 Identities = 15/54 (27%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
 Frame = +3

Query: 207 FRSHAATLDHHKVVVYFTIMGETSHRCNGFLRQI-ILSRCIVFNNFAILFVDSL 365
           F S +++LD     + +  +G+ +      L++I + S CI++ + A  F DSL
Sbjct: 294 FISQSSSLDESLFALVWGCLGDLAPSVAISLQRIKVSSLCILYPSLACCFADSL 347


  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: 2,550,846
Number of Sequences: 5004
Number of extensions: 53418
Number of successful extensions: 134
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 128
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): 132
length of database: 2,362,478
effective HSP length: 69
effective length of database: 2,017,202
effective search space used: 258201856
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)