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Dicty_cDB
Contig List | Clone List | cDNA Library List
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U09216-1
Contig ID Contig-U09216-1
Contig update 2002. 9.13
Contig sequence 
>Contig-U09216-1 (Contig-U09216-1Q) /CSM_Contig/Contig-U09216-1Q.Seq.d
GTATATACATTTTTTATATTTTTTTATCTTCAAACTTTTTTTTATTTAAA
ACAAAACAGCTTAAAACTATTAAATCATAATTTTGTAAAAATAAATATTT
AATTAAAAAAAAAAAAAAAAAAAAAAAAAAAATAAATAAGTAAATAGC--
--------ATAATAATAATAATAGACGTGAAAAAGATCGTGATAGTAATC
GTGAATCAAATAAGGATAAAGATCATGGAAGAAAGAAAAAGAATAAATCT
AAAAGATCTTCACCAACCAATTCATCTCCAGAGAATTCCCCATCACCAAA
ATCATCTCCACCATCACCATCCATAGCAATAACACAAAATAATAACAATA
ACAACAATAACAATAGTAATAGTAATAATAATAATAATAGTTCACCATCT
TCTTTTTCAAAATCACCATCTTATCCAAAGAAATATCAAAAGCCAAATAT
AATACCAACTGACAAGATAAAAGAAAAGATTAACCAAACTGATGACCACC
ACTCTAACAAAGAATTTTCAATGATTCACGATAGTGAAGATGATAAAAAA
GAGTCTTCAATGACACAACCTCCATCACCAAAGAAAACATCATCATCTTC
ATCATCATCTTCATCATCTTCTTCATCATCTGCATCACAAACACAAACAC
AATCACCATCTCTACCATCAACCCAATTGCCAACTACCACA
Gap gap included
Contig length 681
Chromosome number (1..6, M) 5
Chromosome length 5062330
Start point 3326301
End point 3325619
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 2
Link to clone list U09216
List of clone(s) 

est1=SLG783F,1,149
est2=SLG783Z,150,683
Translated Amino Acid sequence 
yihflyffifklffi*nkta*ny*iiil*k*ifn*kkkkkkkknk*VNS---

---NNNNRREKDRDSNRESNKDKDHGRKKKNKSKRSSPTNSSPENSPSPKSSPPSPSIAI
TQNNNNNNNNNSNSNNNNNSSPSSFSKSPSYPKKYQKPNIIPTDKIKEKINQTDDHHSNK
EFSMIHDSEDDKKESSMTQPPSPKKTSSSSSSSSSSSSSSASQTQTQSPSLPSTQLPTTT
Translated Amino Acid sequence (All Frames) 
Frame A:
vytffiffylqtffylkqnslkllnhnfvkini*lkkkkkkkkk*isk*---

---iiiiidvkkivivivnqirikimeerkrinlkdlhqpihlqriphhqnhlhhhhp*q
*hkiitittitiviviiiiivhhllfqnhhliqrniksqi*yqltr*kkrltklmtttlt
knfq*ftivkmikkslq*hnlhhqrkhhhlhhhlhhllhhlhhkhkhnhhlyhqpncqlp

Frame B:
yihflyffifklffi*nkta*ny*iiil*k*ifn*kkkkkkkknk*VNS---

---*****t*krs***s*ik*g*rswkkeke*i*kiftnqfisrefpitkiistitihsn
ntk**q*qq*q*********ftifffkitilskeiskakyntn*qdkrkd*pn**ppl*q
rifndsr**r**krvfndttsitkeniiifiiifiiffiicitntntitistinpianyh

Frame C:
iyifyiflssnfflfktkqlktiks*fcknkylikkkkkkkkkink*i---

---NNNNRREKDRDSNRESNKDKDHGRKKKNKSKRSSPTNSSPENSPSPKSSPPSPSIAI
TQNNNNNNNNNSNSNNNNNSSPSSFSKSPSYPKKYQKPNIIPTDKIKEKINQTDDHHSNK
EFSMIHDSEDDKKESSMTQPPSPKKTSSSSSSSSSSSSSSASQTQTQSPSLPSTQLPTTT
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U09216-1 (Contig-U09216-1Q)
/CSM_Contig/Contig-U09216-1Q.Seq.d
         (691 letters)

Database: CSM
           6905 sequences; 5,674,871 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U09216-1 (Contig-U09216-1Q) /CSM_Contig/Conti...   392  e-109
Contig-U12335-1 (Contig-U12335-1Q) /CSM_Contig/Conti...    40  0.003
Contig-U11327-1 (Contig-U11327-1Q) /CSM_Contig/Conti...    38  0.012
Contig-U14238-1 (Contig-U14238-1Q) /CSM_Contig/Conti...    36  0.048
Contig-U12074-1 (Contig-U12074-1Q) /CSM_Contig/Conti...    36  0.048
Contig-U11739-1 (Contig-U11739-1Q) /CSM_Contig/Conti...    36  0.048
Contig-U05016-1 (Contig-U05016-1Q) /CSM_Contig/Conti...    36  0.048
Contig-U01291-1 (Contig-U01291-1Q) /CSM_Contig/Conti...    36  0.048
Contig-U14446-1 (Contig-U14446-1Q) /CSM_Contig/Conti...    34  0.19
Contig-U12729-1 (Contig-U12729-1Q) /CSM_Contig/Conti...    34  0.19

>Contig-U09216-1 (Contig-U09216-1Q) /CSM_Contig/Contig-U09216-1Q.Seq.d
          Length = 691

 Score =  393 bits (198), Expect = e-109
 Identities = 198/198 (100%)
 Strand = Plus / Plus

                                                                       
Query: 390 gttcaccatcttctttttcaaaatcaccatcttatccaaagaaatatcaaaagccaaata 449
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 390 gttcaccatcttctttttcaaaatcaccatcttatccaaagaaatatcaaaagccaaata 449

                                                                       
Query: 450 taataccaactgacaagataaaagaaaagattaaccaaactgatgaccaccactctaaca 509
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 450 taataccaactgacaagataaaagaaaagattaaccaaactgatgaccaccactctaaca 509

                                                                       
Query: 510 aagaattttcaatgattcacgatagtgaagatgataaaaaagagtcttcaatgacacaac 569
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 510 aagaattttcaatgattcacgatagtgaagatgataaaaaagagtcttcaatgacacaac 569

                             
Query: 570 ctccatcaccaaagaaaa 587
           ||||||||||||||||||
Sbjct: 570 ctccatcaccaaagaaaa 587


 Score =  333 bits (168), Expect = 1e-91
 Identities = 168/168 (100%)
 Strand = Plus / Plus

                                                                       
Query: 159 ataataataataatagacgtgaaaaagatcgtgatagtaatcgtgaatcaaataaggata 218
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 159 ataataataataatagacgtgaaaaagatcgtgatagtaatcgtgaatcaaataaggata 218

                                                                       
Query: 219 aagatcatggaagaaagaaaaagaataaatctaaaagatcttcaccaaccaattcatctc 278
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 219 aagatcatggaagaaagaaaaagaataaatctaaaagatcttcaccaaccaattcatctc 278

                                                           
Query: 279 cagagaattccccatcaccaaaatcatctccaccatcaccatccatag 326
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 279 cagagaattccccatcaccaaaatcatctccaccatcaccatccatag 326


 Score =  107 bits (54), Expect = 2e-23
 Identities = 54/54 (100%)
 Strand = Plus / Plus

                                                                 
Query: 638 caaacacaaacacaatcaccatctctaccatcaacccaattgccaactaccaca 691
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 638 caaacacaaacacaatcaccatctctaccatcaacccaattgccaactaccaca 691


 Score = 32.2 bits (16), Expect = 0.76
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                           
Query: 159 ataataataataatag 174
           ||||||||||||||||
Sbjct: 375 ataataataataatag 390


>Contig-U12335-1 (Contig-U12335-1Q) /CSM_Contig/Contig-U12335-1Q.Seq.d
          Length = 1413

 Score = 40.1 bits (20), Expect = 0.003
 Identities = 20/20 (100%)
 Strand = Plus / Minus

                               
Query: 423 atccaaagaaatatcaaaag 442
           ||||||||||||||||||||
Sbjct: 757 atccaaagaaatatcaaaag 738


>Contig-U11327-1 (Contig-U11327-1Q) /CSM_Contig/Contig-U11327-1Q.Seq.d
          Length = 1482

 Score = 38.2 bits (19), Expect = 0.012
 Identities = 25/27 (92%)
 Strand = Plus / Plus

                                      
Query: 159 ataataataataatagacgtgaaaaag 185
           |||||||||||||||||  ||||||||
Sbjct: 148 ataataataataatagaaatgaaaaag 174


 Score = 32.2 bits (16), Expect = 0.76
 Identities = 16/16 (100%)
 Strand = Plus / Plus

                            
Query: 510  aagaattttcaatgat 525
            ||||||||||||||||
Sbjct: 1228 aagaattttcaatgat 1243


 Score = 30.2 bits (15), Expect = 3.0
 Identities = 15/15 (100%)
 Strand = Plus / Plus

                          
Query: 159 ataataataataata 173
           |||||||||||||||
Sbjct: 145 ataataataataata 159


  Database: CSM
    Posted date:  Jun 9, 2004  7:35 PM
  Number of letters in database: 5,674,871
  Number of sequences in database:  6905
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 22,631
Number of Sequences: 6905
Number of extensions: 22631
Number of successful extensions: 10696
Number of sequences better than 10.0: 1444
length of query: 691
length of database: 5,674,871
effective HSP length: 16
effective length of query: 675
effective length of database: 5,564,391
effective search space: 3755963925
effective search space used: 3755963925
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2008.11.15
Homology vs DNA 
Query= Contig-U09216-1 (Contig-U09216-1Q) /CSM_Contig/Contig-U09216-1Q.Seq.d
         (691 letters)

Database: ddbj_A
           92,845,959 sequences; 95,242,211,685 total letters

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

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(AU039938) Dictyostelium discoideum slug cDNA, clone SLG783.      392   0.0    3
(AE014818) Plasmodium falciparum 3D7 chromosome 14 section 3...    46   0.024  5
(AF396517) Paraclisis hyalina isolate PARhyal2 12S ribosomal...    40   0.026  2
(DY887737) CeleSEQ4360 Cunninghamella elegans pBluescript (E...    52   0.028  1
(AF396516) Paraclisis hyalina isolate PARhyal1 12S ribosomal...    40   0.030  2
(CL331829) CH242_9I1.f CHORI-242 Sus scrofa genomic clone CH...    40   0.065  2
(CX587108) TTE00029849 Amplicon Express - Conjugative Form T...    50   0.11   1
(FF576760) TTEED70THB Tetrahymena thermophila conjugation cD...    50   0.11   1
(FF571317) TTEBI06THC Tetrahymena thermophila conjugation cD...    50   0.11   1
(ER406763) 1095366020130 Global-Ocean-Sampling_GS-34-01-01-1...    42   0.28   2
(AP001751) Homo sapiens genomic DNA, chromosome 21q, section...    48   0.44   1
(AP001046) Homo sapiens genomic DNA, chromosome 21, clone:KB...    48   0.44   1
(AC008746) Homo sapiens chromosome 19 clone CTD-2587H19, com...    48   0.44   1
(AC221323) Bos taurus clone CH240-403J20, WORKING DRAFT SEQU...    48   0.44   1
(AC018734) Homo sapiens chromosome 21 clone RP11-351D2, WORK...    48   0.44   1
(EG061675) MSAM088348_0339_0229 LCM-dissected maize inbred l...    48   0.44   1
(AC181322) Strongylocentrotus purpuratus clone R3-4017N15, W...    44   0.45   6
(AY160069) Paraclisis hyalina isolate GLA896 12S ribosomal R...    40   0.47   2
(AC222965) Bos taurus clone CH240-433F14, WORKING DRAFT SEQU...    40   0.49   6
(CU694550) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    38   0.52   4
(AL928685) Zebrafish DNA sequence from clone CH211-274K16 in...    34   0.92   2
(CA224852) SCCCAM2C11B11.g AM2 Saccharum officinarum cDNA cl...    32   1.4    3
(AC170077) Loxodonta africana clone VMRC15-463O4, WORKING DR...    40   1.4    6
(AL844507) Plasmodium falciparum chromosome 8.                     38   1.7    3
(AC108821) Mus musculus chromosome 15, clone RP23-61D6, comp...    46   1.7    1
(AC153775) Loxodonta africana clone VMRC15-75M7, complete se...    46   1.7    1
(AC153768) Loxodonta africana clone VMRC15-348G4, complete s...    46   1.7    1
(AC153763) Loxodonta africana clone VMRC15-160B20, complete ...    46   1.7    1
(AC141203) Rattus norvegicus clone CH230-389K15, WORKING DRA...    46   1.7    1
(AC079493) Mus musculus clone RP23-202M7, WORKING DRAFT SEQU...    46   1.7    1
(AC230391) Bos taurus clone CH240-510L5, WORKING DRAFT SEQUE...    46   1.7    1
(AC230388) Bos taurus clone CH240-510L21, WORKING DRAFT SEQU...    46   1.7    1
(AC221643) Bos taurus clone CH240-389M2, WORKING DRAFT SEQUE...    46   1.7    1
(AC166032) Loxodonta africana clone VMRC15-220O23, WORKING D...    46   1.7    1
(BH072435) RPCI-24-257L4.TV RPCI-24 Mus musculus genomic clo...    46   1.7    1
(EJ179194) 1092344113342 Global-Ocean-Sampling_GS-27-01-01-1...    46   1.7    1
(EY381604) CAXA3561.fwd CAXA Helobdella robusta Subtracted L...    46   1.7    1
(EY381603) CAXA3561.rev CAXA Helobdella robusta Subtracted L...    46   1.7    1
(BH139284) ENTOY23TR Entamoeba histolytica Sheared DNA Entam...    38   1.7    3
(CS086333) Sequence 37 from Patent WO2005042786.                   44   1.7    3
(AC172736) Loxodonta africana clone VMRC15-222K22, WORKING D...    40   1.9    3
(ET079171) QM0AAB7DA06FM2 CCER1 Citrus clementina genomic cl...    32   2.1    3
(AC026756) Homo sapiens chromosome 13 clone RP11-286P8, comp...    42   2.3    4
(AC154936) Loxodonta africana clone VMRC15-154O9, WORKING DR...    42   2.3    2
(AL034559) Plasmodium falciparum MAL3P7.                           42   2.4    5
(EI317362) GM_WBc0051C23.r GM_WBc Glycine max genomic clone ...    36   3.1    2
(EI306899) GM_WBc0035M21.f GM_WBc Glycine max genomic clone ...    36   3.2    2
(EL502748) D10_PFLAB1-LARGE-PLATE13B.AB1 Blood stage Plasmod...    38   3.3    2
(AL121887) Human DNA sequence from clone RP5-1040G13 on chro...    32   3.5    2
(EI336228) GM_WBc0078D19.f GM_WBc Glycine max genomic clone ...    36   3.5    2
(EY361590) CAWZ7805.rev CAWZ Helobdella robusta Primary Late...    34   3.5    2
(AC141667) Apis mellifera clone CH224-54J13, WORKING DRAFT S...    40   3.6    5
(AG524775) Mus musculus molossinus DNA, clone:MSMg01-432N16....    38   3.8    2
(AM445680) Vitis vinifera contig VV78X145878.4, whole genome...    34   4.0    2
(ET828134) CHO_OF791xk02r1.ab1 CHO_OF Nicotiana tabacum geno...    38   4.0    2
(AM472500) Vitis vinifera contig VV78X160163.9, whole genome...    34   4.1    2
(AC154163) Loxodonta africana clone VMRC15-567F9, WORKING DR...    40   4.2    5
(AC186132) Loxodonta africana clone VMRC15-580D9, WORKING DR...    40   4.4    3
(AU072904) Dictyostelium discoideum slug cDNA, clone SSF370.       36   4.4    2
(EY389544) CAXA7903.fwd CAXA Helobdella robusta Subtracted L...    34   4.5    2
(EY375510) CAXA15668.fwd CAXA Helobdella robusta Subtracted ...    34   4.5    2
(AP001347) Homo sapiens genomic DNA, chromosome 21q11.1 clon...    40   5.0    3
(AC125599) Rattus norvegicus clone CH230-357L7, WORKING DRAF...    38   5.1    6
(DE610102) Bombyx mori genomic DNA, Fosmid clone:GBMFno274_d...    38   5.6    2
(AY160070) Paraclisis hyalina isolate GLA901 12S ribosomal R...    40   6.5    2
(AC157827) Strongylocentrotus purpuratus clone R3-3054I11, W...    38   6.5    4
(AC181786) Strongylocentrotus purpuratus clone R3-1031A02, W...    40   6.8    4
(AL807793) Mouse DNA sequence from clone RP23-33N15 on chrom...    44   6.9    1
(AC156568) Mus musculus BAC clone RP23-291D3 from chromosome...    44   6.9    1
(AB029486) Rattus norvegicus gene for CD1 antigen, complete ...    44   6.9    1
(AC198055) Pongo abelii BAC clone CH276-116C6 from chromosom...    44   6.9    1
(AC192136) Pan troglodytes BAC clone CH251-590L2 from chromo...    44   6.9    1
(BT029474) Arabidopsis thaliana At1g68945 mRNA, complete cds.      44   6.9    1
(AY045928) Arabidopsis thaliana At1g68945 mRNA sequence.           44   6.9    1
(AP010506) Lotus japonicus genomic DNA, chromosome 2, clone:...    44   6.9    1
(AC011665) Arabidopsis thaliana chromosome 1 BAC T6L1 genomi...    44   6.9    1
(EA116740) Sequence 924 from patent US 7205146.                    44   6.9    1
(EA116527) Sequence 711 from patent US 7205146.                    44   6.9    1
(EA116513) Sequence 697 from patent US 7205146.                    44   6.9    1
(AC091184) Homo sapiens chromosome 8, clone RP11-353O11, com...    44   6.9    1
(AC073912) Homo sapiens 12 BAC RP11-989F5 (Roswell Park Canc...    44   6.9    1
(AC020763) Homo sapiens chromosome 16 clone RP11-394B2, comp...    44   6.9    1
(AC016182) Homo sapiens chromosome 17, clone RP11-559N14, co...    44   6.9    1
(AC160229) Loxodonta africana clone VMRC15-76L23, WORKING DR...    44   6.9    1
(AC153222) Bos taurus clone CH240-29C8, WORKING DRAFT SEQUEN...    44   6.9    1
(AC126841) Rattus norvegicus clone CH230-10D21, *** SEQUENCI...    44   6.9    1
(AC119172) Mus musculus clone RP23-429N11, WORKING DRAFT SEQ...    44   6.9    1
(AC111350) Rattus norvegicus clone CH230-157E18, WORKING DRA...    44   6.9    1
(AC109069) Rattus norvegicus clone CH230-70F3, *** SEQUENCIN...    44   6.9    1
(AC079348) Homo sapiens chromosome 8 clone RP11-353O11, WORK...    44   6.9    1
(CU074396) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   6.9    1
(AP007523) Lotus japonicus genomic DNA, chromosome 2, clone:...    44   6.9    1
(AC219785) Bos taurus clone CH240-321J2, WORKING DRAFT SEQUE...    44   6.9    1
(AC216219) Zea mays chromosome 9 clone CH201-473O16; ZMMBBc0...    44   6.9    1
(AC191498) Sorex araneus clone SA_Ba-334F10, WORKING DRAFT S...    44   6.9    1
(AC169772) Bos taurus clone CH240-201M2, WORKING DRAFT SEQUE...    44   6.9    1
(AC167313) Sorex araneus clone SA_Ba-413D24, WORKING DRAFT S...    44   6.9    1
(AC167100) Sorex araneus clone SA_Ba-293D10, WORKING DRAFT S...    44   6.9    1
(AC024021) Homo sapiens chromosome 12 clone RP11-1K22, WORKI...    44   6.9    1
(ET681623) CHO_OF334xb10r1.ab1 CHO_OF Nicotiana tabacum geno...    44   6.9    1

>(AU039938) Dictyostelium discoideum slug cDNA, clone SLG783.
          Length = 534

 Score =  392 bits (198), Expect(3) = 0.0
 Identities = 198/198 (100%)
 Strand = Plus / Plus


Query: 390 gttcaccatcttctttttcaaaatcaccatcttatccaaagaaatatcaaaagccaaata 449
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 232 gttcaccatcttctttttcaaaatcaccatcttatccaaagaaatatcaaaagccaaata 291


Query: 450 taataccaactgacaagataaaagaaaagattaaccaaactgatgaccaccactctaaca 509
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 292 taataccaactgacaagataaaagaaaagattaaccaaactgatgaccaccactctaaca 351


Query: 510 aagaattttcaatgattcacgatagtgaagatgataaaaaagagtcttcaatgacacaac 569
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 352 aagaattttcaatgattcacgatagtgaagatgataaaaaagagtcttcaatgacacaac 411


Query: 570 ctccatcaccaaagaaaa 587
           ||||||||||||||||||
Sbjct: 412 ctccatcaccaaagaaaa 429

 Score =  333 bits (168), Expect(3) = 0.0
 Identities = 168/168 (100%)
 Strand = Plus / Plus


Query: 159 ataataataataatagacgtgaaaaagatcgtgatagtaatcgtgaatcaaataaggata 218
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ataataataataatagacgtgaaaaagatcgtgatagtaatcgtgaatcaaataaggata 60


Query: 219 aagatcatggaagaaagaaaaagaataaatctaaaagatcttcaccaaccaattcatctc 278
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  aagatcatggaagaaagaaaaagaataaatctaaaagatcttcaccaaccaattcatctc 120


Query: 279 cagagaattccccatcaccaaaatcatctccaccatcaccatccatag 326
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 cagagaattccccatcaccaaaatcatctccaccatcaccatccatag 168

 Score = 44.1 bits (22), Expect(3) = 0.0
 Identities = 22/22 (100%)
 Strand = Plus / Plus


Query: 670 aacccaattgccaactaccaca 691
           ||||||||||||||||||||||
Sbjct: 512 aacccaattgccaactaccaca 533

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 588,064,192
Number of extensions: 47625984
Number of successful extensions: 7381572
Number of sequences better than 10.0: 129
Length of query: 691
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 667
Effective length of database: 97,308,875,965
Effective search space: 64905020268655
Effective search space used: 64905020268655
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 6.25
Homology vs Protein 
Query= Contig-U09216-1 (Contig-U09216-1Q) /CSM_Contig/Contig-U09216-1Q.Seq.d
         (691 letters)

Database: nrp_A
           3,204,285 sequences; 1,040,966,779 total letters

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

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3204285
Number of Hits to DB: 436,407,161
Number of extensions: 4503944
Number of successful extensions: 12206
Number of sequences better than 10.0: 0
Number of HSP's gapped: 12204
Number of HSP's successfully gapped: 0
Length of query: 230
Length of database: 1,040,966,779
Length adjustment: 124
Effective length of query: 106
Effective length of database: 643,635,439
Effective search space: 68225356534
Effective search space used: 68225356534
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 31 (16.5 bits)
PSORT 

 psg: 0.19  gvh: 0.28  alm: 0.70  top: 0.53  tms: 0.00  mit: 0.27  mip: 0.03
 nuc: 0.10  erl: 0.00  erm: 0.00  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 52.0 %: nuclear
	 28.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for Contig-U09216-1 is nuc
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 1
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0