>SSA581 (SSA581Q) /CSM/SS/SSA5-D/SSA581Q.Seq.d/
XXXXXXXXXXTAGCAAAGAGAATGGCTGATATTGCTCAACTTTCAACACAACACGCTTCA
GCACGTCCATTAGGTGTTGCTATGATTCTTATTGGTATTGATGATGAATTAGGTCCACAA
CTTTTCAAAGTAGATCCAGCTGGTGTTTTTACAGGTTATAAAGCAACTGCTGCTGGTGAA
AAAGAACAAGAATCAACAAATTTCCTCGAGAAAAAGTTTAAATCTAATCCACAATTATCA
AAAGATGAAACCATTCAAATGGCAATTTCAACATTACAAAGTGTACTTGGAGCAGATCTT
AAATCATCAGATTTAGAGATTGGTATTTGTACAATGGATAATAGAAAGTTTGTTATTATG
ACTGATGAAGATATTGATAGTCAATTAACTAAATTAGCTGAAAGAGATTAAAGAAGAATA
AATTAAATTAATGAAATAACATAAATTAATTGTGATAGTATATAATATATTAATAAAAAA
ANAAAAATAAAAATAAAAAAAAAAAATAGAAAAT

---AKRMADIAQLSTQHASARPLGVAMILIGIDDELGPQLFKVDPAGVFTGYKATAAGEK
EQESTNFLEKKFKSNPQLSKDETIQMAISTLQSVLGADLKSSDLEIGICTMDNRKFVIMT
DEDIDSQLTKLAERD*rrin*ineit*incdsi*yinkkxkikikkknrk

Frame A:
---skeng*ycstfnttrfstsirccydsywy***irsttfqsrsswcfyrl*snccw*k
rtrinkfprekv*i*stiikr*nhsngnfnitkctwsrs*iirfrdwylyng**kvcyyd
**ry**sin*is*krlkknkln**nnin*l**yiiy**kxknknkkkk*k


Frame B:
---AKRMADIAQLSTQHASARPLGVAMILIGIDDELGPQLFKVDPAGVFTGYKATAAGEK
EQESTNFLEKKFKSNPQLSKDETIQMAISTLQSVLGADLKSSDLEIGICTMDNRKFVIMT
DEDIDSQLTKLAERD*rrin*ineit*incdsi*yinkkxkikikkknrk


Frame C:
---qrewlillnfqhntlqhvh*vll*fllvlmmn*vhnfsk*iqlvflqvikqlllvkk
nknqqissrkslnlihnyqkmkpfkwqfqhykvyleqilnhqi*rlvfvqwiieslll*l
mkilivn*ln*lkeikee*iklmk*hklivivynilikkxk*k*kkkien

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSB235 (VSB235Q) /CSM/VS/VSB2-B/VSB235Q.Seq.d/                        805   0.0
SSA581 (SSA581Q) /CSM/SS/SSA5-D/SSA581Q.Seq.d/                        805   0.0
SSC845 (SSC845Q) /CSM/SS/SSC8-B/SSC845Q.Seq.d/                        767   0.0
VFJ144 (VFJ144Q) /CSM/VF/VFJ1-B/VFJ144Q.Seq.d/                        710   0.0
SHI806 (SHI806Q) /CSM/SH/SHI8-A/SHI806Q.Seq.d/                        392   e-108
VSF611 (VSF611Q) /CSM/VS/VSF6-A/VSF611Q.Seq.d/                        248   7e-65
VSH153 (VSH153Q) /CSM/VS/VSH1-C/VSH153Q.Seq.d/                        202   4e-51
SLI877 (SLI877Q) /CSM/SL/SLI8-D/SLI877Q.Seq.d/                         38   0.13
AHK773 (AHK773Q) /CSM/AH/AHK7-D/AHK773Q.Seq.d/                         38   0.13
AFE545 (AFE545Q) /CSM/AF/AFE5-B/AFE545Q.Seq.d/                         38   0.13

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

CB338989|CB338989.1 pl37d06.y1 Ancylostoma ceylanicum adult Ancylostoma ceylanicum cDNA 5' similar to TR:O17586 O17586 C15H11.7 PROTEIN. [1] ;, mRNA sequence.    42  0.004  2
AW626865|AW626865.1 pa20f10.y1 Hawdon Ancylostoma caninum L3 Ancylostoma caninum cDNA 5' similar to WP:C15H11.7 CE08184 PROTEASOME COMPONENT ;, mRNA sequence.    38  0.059  2
AC099078|AC099078.5 Rattus norvegicus clone CH230-98P1, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    44  1.7  1
AC125700|AC125700.4 Rattus norvegicus clone CH230-12K11, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    40  3.3  3
AC120689|AC120689.4 Rattus norvegicus clone CH230-42C11, WORKING DRAFT SEQUENCE, 9 unordered pieces.    40  3.7  2
AC116568|AC116568.3 Mus musculus chromosome UNK clone RP23-34C4, WORKING DRAFT SEQUENCE, 8 unordered pieces.    40  3.9  2
AC127815|AC127815.3 Rattus norvegicus clone CH230-257C10, WORKING DRAFT SEQUENCE, 2 unordered pieces.    42  4.0  2
AC105580|AC105580.4 Rattus norvegicus clone CH230-231I19, *** SEQUENCING IN PROGRESS ***, 8 unordered pieces.    40  4.4  2
BE572405|BE572405.1 601329751F1 NCI_CGAP_Mam6 Mus musculus cDNA clone IMAGE:3603468 5', mRNA sequence.    36  4.6  2
AP003601|AP003601.1 Nostoc sp. PCC 7120 plasmid pCC7120alpha DNA, complete genome, section 2/2.    42  5.0  2

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54XM7) RecName: Full=Proteasome subunit alpha type-6;         ...   250   2e-65
EF083048_1(EF083048|pid:none) Picea sitchensis clone WS02716_P20...   158   6e-38
(O48551) RecName: Full=Proteasome subunit alpha type-6;         ...   150   2e-35
DQ658273_1(DQ658273|pid:none) Emiliania huxleyi clone Plate1_C07...   150   2e-35
(Q9XG77) RecName: Full=Proteasome subunit alpha type-6;         ...   150   2e-35
FJ755458_1(FJ755458|pid:none) Carica papaya PAA1 mRNA, complete ...   150   2e-35
AC146756_8(AC146756|pid:none) Medicago truncatula clone mth2-15l...   148   9e-35
(Q9LSU3) RecName: Full=Proteasome subunit alpha type-6;         ...   148   9e-35
EF148427_1(EF148427|pid:none) Populus trichocarpa x Populus delt...   147   1e-34
AJ293343_1(AJ293343|pid:none) Zea mays mRNA for maize 20S protea...   147   2e-34

 psg: 0.77  gvh: 0.50  alm: 0.43  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.04
 nuc: 0.00  erl: 0.00  erm: 0.20  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 

	 44.0 %: nuclear
	 36.0 %: cytoplasmic
	 12.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for SSA581 is nuc

>SSA581Z.Seq
----------TAGCAAAGAGAATGGCTGATATTGCTCAACTTTCAACACAACACGCTTCA
GCACGTCCATTAGGTGTTGCTATGATTCTTATTGGTATTGATGATGAATTAGGTCCACAA
CTTTTCAAAGTAGATCCAGCTGGTGTTTTTACAGGTTATAAAGCAACTGCTGCTGGTGAA
AAAGAACAAGAATCAACAAATTTCCTCGAGAAAAAGTTTAAATCTAATCCACAATTATCA
AAAGATGAAACCATTCAAATGGCAATTTCAACATTACAAAGTGTACTTGGAGCAGATCTT
AAATCATCAGATTTAGAGATTGGTATTTGTACAATGGATAATAGAAAGTTTGTTATTATG
ACTGATGAAGATATTGATAGTCAATTAACTAAATTAGCTGAAAGAGATTAAAGAAGAATA
AATTAAATTAATGAAATAACATAAATTAATTGTGATAGTATATAATATATTAATAAAAAA
ANAAAAATAAAAATAAAAAAAAAAAATAGAAAAT