>VFA461 (VFA461Q) /CSM/VF/VFA4-C/VFA461Q.Seq.d/
ATTGATATCACACATACATACATACACACATACATATATTTTAAATATACCCTTAAAAAA
ACAATATACAAATAAAACTTATATAATAATGTCAACATTTCCAACATCAACAATTGTACA
TCCAACAGTACTTTTAAGTGTTGTAGATCATTATAATAGAGTTGCAAAGGATACCAACAA
GAGAGTAGTAGGTGCATTATTAGGATCAAATAATAAXXXXXXXXXX

LISHIHTYTHTYILNIPLKKQYTNKTYIIMSTFPTSTIVHPTVLLSVVDHYNRVAKDTNK
RVVGALLGSNN---

Frame A:
idithtyihtyiyfkytlkktiyk*nlynnvnisninnctsnstfkccrsl**sckgyqq
essrciirik*---


Frame B:
LISHIHTYTHTYILNIPLKKQYTNKTYIIMSTFPTSTIVHPTVLLSVVDHYNRVAKDTNK
RVVGALLGSNN---


Frame C:
*yhtyihthihif*iyp*knniqikli**cqhfqhqqlyiqqyf*vl*iiiielqriptr
e**vhy*dqii---

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFA461 (VFA461Q) /CSM/VF/VFA4-C/VFA461Q.Seq.d/                        387   e-107
AHK717 (AHK717Q) /CSM/AH/AHK7-A/AHK717Q.Seq.d/                        381   e-105
VFH840 (VFH840Q) /CSM/VF/VFH8-B/VFH840Q.Seq.d/                        375   e-103
VFA364 (VFA364Q) /CSM/VF/VFA3-C/VFA364Q.Seq.d/                        375   e-103
AFO748 (AFO748Q) /CSM/AF/AFO7-B/AFO748Q.Seq.d/                        375   e-103
AFJ642 (AFJ642Q) /CSM/AF/AFJ6-B/AFJ642Q.Seq.d/                        375   e-103
SSL521 (SSL521Q) /CSM/SS/SSL5-A/SSL521Q.Seq.d/                        371   e-102
CFH655 (CFH655Q) /CSM/CF/CFH6-C/CFH655Q.Seq.d/                        371   e-102
VFH777 (VFH777Q) /CSM/VF/VFH7-D/VFH777Q.Seq.d/                        281   2e-75
VSJ776 (VSJ776Q) /CSM/VS/VSJ7-D/VSJ776Q.Seq.d/                         66   2e-10

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

AC099159|AC099159.5 Rattus norvegicus clone CH230-49B23, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    64  7e-07  1
AC140375|AC140375.1 Mus musculus chromosome UNK clone RP23-183J2, WORKING DRAFT SEQUENCE, 10 unordered pieces.    62  1e-06  3
AC139553|AC139553.2 Mus musculus clone RP24-386E18, WORKING DRAFT SEQUENCE, 6 unordered pieces.    62  1e-06  3
AC098669|AC098669.9 Rattus norvegicus clone CH230-202O13, WORKING DRAFT SEQUENCE, 5 unordered pieces.    62  3e-06  1
AC103569|AC103569.6 Rattus norvegicus clone CH230-6G21, WORKING DRAFT SEQUENCE, 2 unordered pieces.    62  3e-06  1
AC134569|AC134569.3 Mus musculus chromosome UNK clone RP24-240H21, WORKING DRAFT SEQUENCE, 5 unordered pieces.    62  3e-06  1
AC113780|AC113780.5 Rattus norvegicus clone CH230-94H3, WORKING DRAFT SEQUENCE, 1 ordered piece.    62  3e-06  1
AC100712|AC100712.1 Mus musculus clone RP23-169L8, LOW-PASS SEQUENCE SAMPLING.    62  3e-06  1
AC095648|AC095648.6 Rattus norvegicus clone CH230-8P18, *** SEQUENCING IN PROGRESS ***, 5 unordered pieces.    62  3e-06  1
BX296556|BX296556.2 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-234E14.    62  3e-06  4

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54WI8) RecName: Full=26S proteasome non-ATPase regulatory subu...    87   2e-16
AC073395_21(AC073395|pid:none) Arabidopsis thaliana chromosome 3...    62   6e-09
BT086952_1(BT086952|pid:none) Zea mays full-length cDNA clone ZM...    58   9e-08
BT039951_1(BT039951|pid:none) Zea mays full-length cDNA clone ZM...    58   1e-07
AB037150_1(AB037150|pid:none) Oryza sativa Japonica Group OsRPN8...    58   1e-07
BT040320_1(BT040320|pid:none) Zea mays full-length cDNA clone ZM...    58   1e-07
DQ222517_1(DQ222517|pid:none) Solanum tuberosum clone 119G03 unk...    58   1e-07
BT083501_1(BT083501|pid:none) Zea mays full-length cDNA clone ZM...    58   1e-07
BT053084_1(BT053084|pid:none) Medicago truncatula clone MTYFL_FM...    57   2e-07
FM992692_190(FM992692|pid:none) Candida dubliniensis CD36 chromo...    57   3e-07

 psg: 0.83  gvh: 0.43  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.41  mip: 0.00
 nuc: 0.00  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 

	 40.0 %: mitochondrial
	 40.0 %: nuclear
	 12.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for VFA461 is mit

>VFA461F.Seq
ATTGATATCACACATACATACATACACACATACATATATTTTAAATATACCCTTAAAAAA
ACAATATACAAATAAAACTTATATAATAATGTCAACATTTCCAACATCAACAATTGTACA
TCCAACAGTACTTTTAAGTGTTGTAGATCATTATAATAGAGTTGCAAAGGATACCAACAA
GAGAGTAGTAGGTGCATTATTAGGATCAAATAATAA----------