>SSA379 (SSA379Q) /CSM/SS/SSA3-D/SSA379Q.Seq.d/
CCCAAAATCACTTTAGCTGATCATAATAAAGGTGTAAACATTACTTATTATCCTTTATTT
GTTGGTAAAAAAAAGAATACTAAAAAAGAATGGATGGAACAATCAAAGAGAACCAGAAAA
TGGTTTAGATTATCAAATGTATTATCATTTATTGTACCAATTAAACCACATATTGAAGCT
GCCATCGTTCATATACAAAGATCAATTGTAACATTACAACAACAATTGAATTCTCAATTT
GATCTTATCAATACACCAATTGAAAATTTCCCCTTGGATGAAATCACCGAATTTGTAATT
GAGGAATGTAAAAAACAAAAAAAAAAAGATAAAAAAGGTAAAAAAGATAAAAAAGATAAA
AAAGATAAAAAAGATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAXX
XXXXXXXX

PKITLADHNKGVNITYYPLFVGKKKNTKKEWMEQSKRTRKWFRLSNVLSFIVPIKPHIEA
AIVHIQRSIVTLQQQLNSQFDLINTPIENFPLDEITEFVIEECKKQKKKDKKGKKDKKDK
KDKKDKKKKKKKKKKKKKK---

Frame A:
PKITLADHNKGVNITYYPLFVGKKKNTKKEWMEQSKRTRKWFRLSNVLSFIVPIKPHIEA
AIVHIQRSIVTLQQQLNSQFDLINTPIENFPLDEITEFVIEECKKQKKKDKKGKKDKKDK
KDKKDKKKKKKKKKKKKKK---


Frame B:
pksl*liiikv*tlliilyllvkkrilkkngwnnqrepengldyqmyyhllyqlnhilkl
psfiykdql*hynnn*ilnlilsihqlkispwmkspnl*lrnvknkkkkikkvkkikkik
kikkikkkkkkkkkkkkk---


Frame C:
qnhfs*s**rckhyllsficw*kkey*krmdgtikenqkmv*iikciiiyctn*tty*sc
hrsytkincnitttiefsi*syqytn*kfplg*nhricn*gm*ktkkkr*kr*kr*kr*k
r*kr*kkkkkkkkkkkkk---

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSA379 (SSA379Q) /CSM/SS/SSA3-D/SSA379Q.Seq.d/                        563   e-160
SSL684 (SSL684Q) /CSM/SS/SSL6-D/SSL684Q.Seq.d/                        500   e-140
CHE773 (CHE773Q) /CSM/CH/CHE7-D/CHE773Q.Seq.d/                        470   e-132
SSF456 (SSF456Q) /CSM/SS/SSF4-C/SSF456Q.Seq.d/                        105   5e-22
SSD562 (SSD562Q) /CSM/SS/SSD5-C/SSD562Q.Seq.d/                         36   0.42
SLB330 (SLB330Q) /CSM/SL/SLB3-B/SLB330Q.Seq.d/                         36   0.42
SFK347 (SFK347Q) /CSM/SF/SFK3-B/SFK347Q.Seq.d/                         36   0.42
SFK324 (SFK324Q) /CSM/SF/SFK3-A/SFK324Q.Seq.d/                         36   0.42
SFI409 (SFI409Q) /CSM/SF/SFI4-A/SFI409Q.Seq.d/                         36   0.42
SFG457 (SFG457Q) /CSM/SF/SFG4-C/SFG457Q.Seq.d/                         36   0.42

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

AC093910|AC093910.2 Homo sapiens BAC clone RP11-762H11 from 2, complete sequence.    40  0.30  3
AC011583|AC011583.6 Homo sapiens clone RP11-13H8, WORKING DRAFT SEQUENCE, 2 ordered pieces.    40  0.53  2
AY093607|AY093607.1 HIV-1 isolate 99DE4057, gag protein (gag) and pol protein genes, partial cds; vif protein (vif), vpr protein (vpr), tat protein (tat), rev protein (rev), vpu protein (vpu), and envelope glycoprotein (env) genes, complete cds; and nef protein (nef) gene, partial cds.    44  1.4  1
AX489275|AX489275.1 Sequence 6575 from Patent WO02053728.         44  1.4  1
BD082245|BD082245.1 Bacillus thuringiensis toxins.                34  2.0  2
BD082244|BD082244.1 Bacillus thuringiensis toxins.                34  2.0  2
AR107059|AR107059.1 Sequence 9 from patent US 6107278.            34  2.0  2
AR107058|AR107058.1 Sequence 7 from patent US 6107278.            34  2.0  2
BF121747|BF121747.1 601759263F1 NCI_CGAP_Mam5 Mus musculus cDNA clone IMAGE:3993782 5', mRNA sequence.    40  2.2  2
AF200816|AF200816.1 Bacillus thuringiensis crystal protein (cry2) gene, complete cds.    34  3.1  2

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BC117457_1(BC117457|pid:none) Homo sapiens family with sequence ...    32   6.8
(Q17R55) RecName: Full=Protein FAM187B; AltName: Full=Transmembr...    32   6.8
FM867181_1(FM867181|pid:none) Uncultured bacterium partial ORF1 ...    32   8.9

 psg: 0.88  gvh: 0.42  alm: 0.36  top: 0.50  tms: 0.00  mit: 0.20  mip: 0.00
 nuc: 1.55  erl: 0.00  erm: 0.80  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 

	 72.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for SSA379 is nuc

>SSA379F.Seq
CCCAAAATCACTTTAGCTGATCATAATAAAGGTGTAAACATTACTTATTATCCTTTATTT
GTTGGTAAAAAAAAGAATACTAAAAAAGAATGGATGGAACAATCAAAGAGAACCAGAAAA
TGGTTTAGATTATCAAATGTATTATCATTTATTGTACCAATTAAACCACATATTGAAGCT
GCCATCGTTCATATACAAAGATCAATTGTAACATTACAACAACAATTGAATTCTCAATTT
GATCTTATCAATACACCAATTGAAAATTTCCCCTTGGATGAAATCACCGAATTTGTAATT
GAGGAATGTAAAAAACAAAAAAAAAAAGATAAAAAAGGTAAAAAAGATAAAAAAGATAAA
AAAGATAAAAAAGATAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA--
--------