Silkworm BLAST Result against bee

BLASTP 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= BGIBMGA000486-TA|BGIBMGA000486-PA|IPR013767|PAS fold,
IPR013655|PAS fold-3, IPR000014|PAS
         (699 letters)

Database: bee 
           429 sequences; 140,377 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AF159569-1|AAF70859.1| 1124|Apis mellifera period clock protein ...   339   5e-95
AB050744-1|BAB17753.1|  238|Apis mellifera period protein protein.    231   1e-62
AB086196-1|BAD06465.1|  289|Apis mellifera Period protein.            100   3e-23
AY661557-1|AAT74557.1|  411|Apis mellifera yellow-f-like protein...    27   0.39 
DQ435326-1|ABD92641.1|  132|Apis mellifera OBP9 protein.               27   0.52 
AF069739-1|AAC63272.2|  690|Apis mellifera translation initiatio...    24   4.9  

>AF159569-1|AAF70859.1| 1124|Apis mellifera period clock protein
           protein.
          Length = 1124

 Score =  339 bits (833), Expect = 5e-95
 Identities = 172/405 (42%), Positives = 258/405 (63%), Gaps = 23/405 (5%)

Query: 7   DTEGDKVEDGFSCVISMHDGIVMYTTSSLTATLGFPKDMWIGRSFIDFVHPRDRSTFASQ 66
           D    +  +GF  VISMHDG+V+YTT S+   LG+ KD WIGRSFID+VHP+D++T A Q
Sbjct: 154 DDSISQANEGFCAVISMHDGLVLYTTPSICTALGYLKDAWIGRSFIDYVHPKDKATLADQ 213

Query: 67  ITSGLAVPKTANGTQEKAQSPGNSGSTMVCRIRRY-RGLSTGFGVKE-RVVTFMPFLLKF 124
           I +G+  P+     +E+ +      +++ C +++Y R  +     KE R   ++PF L  
Sbjct: 214 IKNGIVSPQ-----EERPKGINGRRASLFCGLQKYTRSFAHQSINKEARSNLYLPFHLTL 268

Query: 125 TFKNISD----EEGNVIYLVIQATPFFSAFKTSFEILPKVNPFVMRHSANGNLEYLDPES 180
           +F++  D    ++   ++LV+ A P  SA+K   E +   + F  RH+A   L ++DP+ 
Sbjct: 269 SFRDFRDRTTEQQHKAMFLVVTAQPVHSAYKAPEETIIS-SVFTTRHNATCYLSHVDPDV 327

Query: 181 VPYLGYLPQDVQDKDALQLYHPEDLEYLQQVYEVIVK-DGGMPRSKTYRMMTQNGDYIKI 239
           V Y GYLPQD+  +     YHPEDL +++ +YE ++K +G   RSK YR   QNGDY+ +
Sbjct: 328 VQYFGYLPQDMVGRSLFDFYHPEDLPFIKDIYETVIKLEGASFRSKPYRFGIQNGDYVVL 387

Query: 240 ETEWSSFINPWSKKLEFVIGKHYIIEGPENPDVFQSQDPEKH---TKLCDEQIKKSMVFR 296
           ETEWSSFINPW+KKLEFV+G+H I++GP NPD+F+     +H   T + +E +K++ + +
Sbjct: 388 ETEWSSFINPWTKKLEFVVGQHRILKGPANPDIFRVSCATEHSQLTNISEEVLKEAKIIQ 447

Query: 297 ENIVKLMNEALTKPAEVAKQQMSKRCQDLASFMESLMEE---PPKNDEELRLEIQDPDHS 353
           E I  L++E++ + +++ +  +SKRC+DLASFM +L++E   P    + L  + +    S
Sbjct: 448 EEIRTLLDESIQRKSDITELDVSKRCKDLASFMGNLLQETRTPGFGKDVLATDERSFSGS 507

Query: 354 ----YYERDSVMLGGISPHHDYNDSKSSTETPLSYNQLNYNETLQ 394
                 E DSVMLG ISPHH+Y DSKSSTETP SYNQLNYNE ++
Sbjct: 508 RNPLLQEHDSVMLGEISPHHEYYDSKSSTETPPSYNQLNYNENIE 552



 Score = 41.9 bits (94), Expect = 2e-05
 Identities = 62/239 (25%), Positives = 93/239 (38%), Gaps = 35/239 (14%)

Query: 439 LTEFLLTKHNDEMEKELINMHRESRSNSKGERDKTSNETRQKKKEHLARCKASFHPTATS 498
           LTE LL +HN++MEK ++  HRE RS+ K   DK   ++R K  E L            S
Sbjct: 639 LTESLLNRHNEDMEKLMMLKHREFRSSIKAS-DKL-KDSRIKTTEKL------------S 684

Query: 499 TTPVDKEVYKKPHGVKRASKHI-ETETVSHKYHCPSPRASRPRQTTSAAPVQXXXXXXXX 557
           T P       + HG+KR+  H  E ++     H    R S   Q  +             
Sbjct: 685 TDPNTHFQVNQSHGIKRSGSHSWEGDSFKVSKHEEVSRTSTAGQFPTNVATTVTSMSIDQ 744

Query: 558 XXXXXWPPSTNAAGNMNTFILGVGMA---PQMSLISPVP--PMAGMLPLYYTPM------ 606
                   + N    ++  I     A   PQ +    +P  P+  M+P+Y  P+      
Sbjct: 745 STVIQTGANVNLWQPLSVSIPPPPSAQNVPQNTNSQAIPRIPILPMIPVYCVPVPQVNDS 804

Query: 607 ATMAPV-PSTSEAANHQNLHNNPQQYAP-----PPMQCVLYGQPIYGQPMYSSPFVYSP 659
             ++PV    S +   Q    NP  + P       M  V+Y  P+ G P  S+  +Y P
Sbjct: 805 TILSPVREKLSSSQPMQPPQQNPYMFLPVSYMSTTMAGVIY-PPVIGTP--STGMMYKP 860


>AB050744-1|BAB17753.1|  238|Apis mellifera period protein protein.
          Length = 238

 Score =  231 bits (566), Expect = 1e-62
 Identities = 109/238 (45%), Positives = 162/238 (68%), Gaps = 6/238 (2%)

Query: 148 SAFKTSFEILPKVNPFVMRHSANGNLEYLDPESVPYLGYLPQDVQDKDALQLYHPEDLEY 207
           SA+K   E +   + F  RH+A   L ++DP+ V Y GYLPQD+  +     YHPEDL +
Sbjct: 2   SAYKAPEETIIS-SVFTTRHNATCYLSHVDPDVVQYFGYLPQDMVGRSLFDFYHPEDLPF 60

Query: 208 LQQVYEVIVK-DGGMPRSKTYRMMTQNGDYIKIETEWSSFINPWSKKLEFVIGKHYIIEG 266
           ++ +YE ++K +G   RSK YR   QNGDY+ +ETEWSSFINPW+KKLEFV+G+H I++G
Sbjct: 61  IKDIYETVIKLEGASFRSKPYRFGIQNGDYVVLETEWSSFINPWTKKLEFVVGQHRILKG 120

Query: 267 PENPDVFQSQDPEKH---TKLCDEQIKKSMVFRENIVKLMNEALTKPAEVAKQQMSKRCQ 323
           P NPD+F+     +H   T + +E +K++ + +E I  L++E++ + +++ +  +SKRC+
Sbjct: 121 PANPDIFRVSCATEHSQLTNISEEVLKEAKIIQEEIRTLLDESIQRKSDITELDVSKRCK 180

Query: 324 DLASFMESLMEEPPKNDEELRLEIQDPDHSYYERDSVMLGGISPHHDYNDSKSSTETP 381
           DLASFME+L++E  +     +  +   + S+ E DSVMLG ISPHH+Y DSKSSTETP
Sbjct: 181 DLASFMENLLQE-TRTPGFGKDVLATDERSFSEHDSVMLGEISPHHEYYDSKSSTETP 237



 Score = 27.5 bits (58), Expect = 0.39
 Identities = 11/18 (61%), Positives = 13/18 (72%), Gaps = 1/18 (5%)

Query: 42 PKDMWIGRSFIDFVHPRD 59
          P+DM +GRS  DF HP D
Sbjct: 41 PQDM-VGRSLFDFYHPED 57


>AB086196-1|BAD06465.1|  289|Apis mellifera Period protein.
          Length = 289

 Score =  100 bits (240), Expect = 3e-23
 Identities = 51/145 (35%), Positives = 85/145 (58%), Gaps = 11/145 (7%)

Query: 7   DTEGDKVEDGFSCVISMHDGIVMYTTSSLTATLGFPKDMWIGRSFIDFVHPRDRSTFASQ 66
           D    +  +GF  VISMHDG+V+YTT S+   LG+ KD WIGRSFID+VHP+D++T A Q
Sbjct: 149 DDSISQANEGFCAVISMHDGLVLYTTPSICTALGYLKDAWIGRSFIDYVHPKDKATLADQ 208

Query: 67  ITSGLAVPKTANGTQEKAQSPGNSGSTMVCRIRRY-RGLS-TGFGVKERVVTFMPFLLKF 124
           I +G+  P+     +E+ +      +++ C +++Y R  +      + R   ++PF L  
Sbjct: 209 IKNGIVSPQ-----EERPKGINGRRASLFCGLQKYTRSFAHQSINKEARSNLYLPFHLTL 263

Query: 125 TFKNISD----EEGNVIYLVIQATP 145
           +F++  D    ++   ++LV+ A P
Sbjct: 264 SFRDFRDRTTEQQHKAMFLVVTAQP 288


>AY661557-1|AAT74557.1|  411|Apis mellifera yellow-f-like protein
           protein.
          Length = 411

 Score = 27.5 bits (58), Expect = 0.39
 Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 2/79 (2%)

Query: 206 EYLQQVYEVIVKDGGMPRSKTYRMMTQNGDYIKIETEWSSFINPWSKKLEFVIGKHYIIE 265
           E ++ +Y   V +   P       +  NGDYI+ E    + +  W+ K+ F+    +   
Sbjct: 16  EEIKTIYSWNVIEYNFPNDNIRNTLISNGDYIE-ENNMPNGMQIWNDKV-FITIPRWKNG 73

Query: 266 GPENPDVFQSQDPEKHTKL 284
            P N + F   D  +  KL
Sbjct: 74  VPSNLNFFLKNDESESPKL 92


>DQ435326-1|ABD92641.1|  132|Apis mellifera OBP9 protein.
          Length = 132

 Score = 27.1 bits (57), Expect = 0.52
 Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 3/55 (5%)

Query: 450 EMEKELINMHRESRSNSKGERDKTS---NETRQKKKEHLARCKASFHPTATSTTP 501
           +++K L ++ R  + ++K   +K     NE   +K   L +C   FHP    T P
Sbjct: 76  DVQKALRHLPRSMQDSTKKLFNKCKSIQNEDPCEKAYQLVKCYVEFHPEVLQTVP 130


>AF069739-1|AAC63272.2|  690|Apis mellifera translation initiation
           factor 2 protein.
          Length = 690

 Score = 23.8 bits (49), Expect = 4.9
 Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 2/62 (3%)

Query: 428 VGILGDYHHVRLTEFLLTKHNDEMEKELINMHRESRSNSKGERDKTSNETRQKKKEHLAR 487
           V ILG      + + +L   ND++ +E+I   ++ R+    +  K + +  QK ++HL  
Sbjct: 381 VQILGWKELPNVGDEILEVENDKILQEVIKFRQKQRAEILAKEHKAAAD--QKLEKHLIE 438

Query: 488 CK 489
            K
Sbjct: 439 YK 440


  Database: bee
    Posted date:  Oct 5, 2007 11:13 AM
  Number of letters in database: 140,377
  Number of sequences in database:  429
  
Lambda     K      H
   0.315    0.130    0.388 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 216,037
Number of Sequences: 429
Number of extensions: 10043
Number of successful extensions: 35
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 17
Number of HSP's gapped (non-prelim): 10
length of query: 699
length of database: 140,377
effective HSP length: 62
effective length of query: 637
effective length of database: 113,779
effective search space: 72477223
effective search space used: 72477223
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.5 bits)
S2: 47 (23.0 bits)