>SSA339 (SSA339Q) /CSM/SS/SSA3-B/SSA339Q.Seq.d/
ATTTTTTTTTTTTTTATTAATATTTCTTTATATATATATATATGAGTCAATTAGTTATAC
CATTTAAACCAAAATCCAACACAAATGATCCTGCCTCAATAAAGAAAAAGGAGTTAACGG
AATTGGGTGAAAATATAGTAAATGATTTAGGAAAAACAGTTAAATCATTAGTCAAAAATT
CAAACCTTCACGACAATATGTTATTAATTTCAAAATCATTTGCAGCTCATGAAGGTAACA
TTTCACAAACTGACGAGATGGTAAAACAAATGCAACAATTATCACAAGAATTAATGAATC
AAGTTAAATTCTTAGAAAATAGTTTACAACAAATTGAACCTTTAAATCAAAAAGTAACAG
ATATAACGAATTCGATACATACTGCTGTACCATCATCCCAACCACATCTTTAAACAAAAA
AAAAAAAAAAAAAAGTGAAAGTAAAGAAAAATAATAAAAATAAAAATAAACTTTGTAAAA
TAXXXXXXXXXX

ffffy*YFFIYIYMSQLVIPFKPKSNTNDPASIKKKELTELGENIVNDLGKTVKSLVKNS
NLHDNMLLISKSFAAHEGNISQTDEMVKQMQQLSQELMNQVKFLENSLQQIEPLNQKVTD
ITNSIHTAVPSSQPHL*tkkkkkkvkvkknnknknklck---

Frame A:
iffffinislyiyi*vn*lyhlnqnptqmilpq*rkrs*rnwvki**mi*ekqlnh*ski
qtftticy*fqnhlqlmkvtfhkltrw*nkcnnyhkn**iklns*kivynklnl*ikk*q
i*riryillyhhpnhifkqkkkkkk*k*rkiikikinfvk---


Frame B:
fffflliflyiyiyesisyti*tkiqhk*sclnkekgvngig*kysk*frkns*iisqkf
kpsrqyvinfkiicss*r*hftn*rdgktnatiitriness*ilrk*fttn*tfksksnr
ynefdtycctiipttslnkkkkkkseskek**k*k*tl*n---


Frame C:
ffffy*YFFIYIYMSQLVIPFKPKSNTNDPASIKKKELTELGENIVNDLGKTVKSLVKNS
NLHDNMLLISKSFAAHEGNISQTDEMVKQMQQLSQELMNQVKFLENSLQQIEPLNQKVTD
ITNSIHTAVPSSQPHL*tkkkkkkvkvkknnknknklck---

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSM403 (SSM403Q) /CSM/SS/SSM4-A/SSM403Q.Seq.d/                        737   0.0
SSA339 (SSA339Q) /CSM/SS/SSA3-B/SSA339Q.Seq.d/                        737   0.0
VHK212 (VHK212Q) /CSM/VH/VHK2-A/VHK212Q.Seq.d/                        460   e-128
VHG880 (VHG880Q) /CSM/VH/VHG8-D/VHG880Q.Seq.d/                         40   0.031
SLA723 (SLA723Q) /CSM/SL/SLA7-A/SLA723Q.Seq.d/                         40   0.031
SHD731 (SHD731Q) /CSM/SH/SHD7-B/SHD731Q.Seq.d/                         40   0.031
VSG367 (VSG367Q) /CSM/VS/VSG3-C/VSG367Q.Seq.d/                         36   0.48
VHP254 (VHP254Q) /CSM/VH/VHP2-C/VHP254Q.Seq.d/                         36   0.48
VHP160 (VHP160Q) /CSM/VH/VHP1-C/VHP160Q.Seq.d/                         36   0.48
VHO714 (VHO714Q) /CSM/VH/VHO7-A/VHO714Q.Seq.d/                         36   0.48

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

AC118592|AC118592.5 Mus musculus clone RP24-463B5, WORKING DRAFT SEQUENCE.    44  0.39  6
AC098050|AC098050.6 Rattus norvegicus clone CH230-116M19, WORKING DRAFT SEQUENCE, 2 unordered pieces.    46  0.40  1
BX465186|BX465186.5 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone DKEY-106M10.    46  0.40  1
AQ409757|AQ409757.1 HS_5095_B2_G12_SP6E RPCI-11 Human Male BAC Library Homo sapiens genomic clone Plate=671 Col=24 Row=N, DNA sequence.    46  0.40  1
BX209266|BX209266.1 Danio rerio genomic clone DKEY-241A16, genomic survey sequence.    46  0.40  1
AC055888|AC055888.3 Homo sapiens chromosome 8 clone RP11-803G8 map 8, WORKING DRAFT SEQUENCE, 8 unordered pieces.    32  1.1  7
BX470231|BX470231.2 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-63H10.    44  1.6  1
AZ685997|AZ685997.1 ENTIN80TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    44  1.6  1
AZ692398|AZ692398.1 ENTKQ81TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    44  1.6  1
AC098723|AC098723.3 Mus musculus clone RP23-3D10, complete sequence.    44  2.9  6

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP000743_11(CP000743|pid:none) Methanococcus aeolicus Nankai-3, ...    39   0.049
BX950851_4307(BX950851|pid:none) Erwinia carotovora subsp. atros...    39   0.084
BA000039_385(BA000039|pid:none) Thermosynechococcus elongatus BP...    37   0.19
CP000817_744(CP000817|pid:none) Lysinibacillus sphaericus C3-41,...    36   0.41
CP000123_228(CP000123|pid:none) Mycoplasma capricolum subsp. cap...    36   0.41
(Q19020) RecName: Full=Dynein heavy chain, cytoplasmic; AltName:...    36   0.41
CP001291_3998(CP001291|pid:none) Cyanothece sp. PCC 7424, comple...    36   0.41
(A4J2F4) RecName: Full=Isoleucyl-tRNA synthetase;          EC=6....    36   0.41
CP001344_134(CP001344|pid:none) Cyanothece sp. PCC 7425, complet...    36   0.41
CP001229_1079(CP001229|pid:none) Sulfurihydrogenibium azorense A...    35   0.71

 psg: 0.92  gvh: 0.41  alm: 0.45  top: 0.73  tms: 0.00  mit: 0.28  mip: 0.00
 nuc: 0.03  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 

	 32.0 %: cytoplasmic
	 32.0 %: nuclear
	 20.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system
	  4.0 %: endoplasmic reticulum

>> prediction for SSA339 is cyt

>SSA339F.Seq
ATTTTTTTTTTTTTTATTAATATTTCTTTATATATATATATATGAGTCAATTAGTTATAC
CATTTAAACCAAAATCCAACACAAATGATCCTGCCTCAATAAAGAAAAAGGAGTTAACGG
AATTGGGTGAAAATATAGTAAATGATTTAGGAAAAACAGTTAAATCATTAGTCAAAAATT
CAAACCTTCACGACAATATGTTATTAATTTCAAAATCATTTGCAGCTCATGAAGGTAACA
TTTCACAAACTGACGAGATGGTAAAACAAATGCAACAATTATCACAAGAATTAATGAATC
AAGTTAAATTCTTAGAAAATAGTTTACAACAAATTGAACCTTTAAATCAAAAAGTAACAG
ATATAACGAATTCGATACATACTGCTGTACCATCATCCCAACCACATCTTTAAACAAAAA
AAAAAAAAAAAAAAGTGAAAGTAAAGAAAAATAATAAAAATAAAAATAAACTTTGTAAAA
TA----------