>SFJ665 (SFJ665Q) /CSM/SF/SFJ6-C/SFJ665Q.Seq.d/
AAGTTATTAGAGATNTAATAATTGATGAATTATTATTAGATGGTAATGCNAAACAAAACT
TGNCCACATTTTGTCAAACTGATCTTGATAAAGAGATTCATGTATTAATGGATAAATGTN
TTGACAAGAATATGATTGACAAGGATGAATATCCACAAACTGCTGAANTTGAAAGTCGTT
GTGTTCATATTTTAGCGGATTTGTGGAATTCACCAGAAAGTTCTGAAACTATTGGTTGTT
CAACTACTGGATCTAGTGAAGCTGCAATGTTGGGTGGAATGGCTTTGAAATGGAGATGGA
GAGAAAATAGAAXXXXXXXXXX

VIRDXIIDELLLDGNAKQNLXTFCQTDLDKEIHVLMDKCXDKNMIDKDEYPQTAEXESRC
VHILADLWNSPESSETIGCSTTGSSEAAMLGGMALKWRWRENR---

Frame A:
kllex**lmnyy*mvmxnktxphfvklilikrfmy*winvltri*ltrmnihkllxlkvv
vfif*ricgihqkvlkllvvqlldlvklqcwvewl*ngdgeki---


Frame B:
sy*rxnn**iiirw*cxtklxhilsn*s**rdscing*mx*qeyd*qg*istnc*x*ksl
csyfsgfveftrkf*nywlfnywi**scnvgwngfememerk*---


Frame C:
VIRDXIIDELLLDGNAKQNLXTFCQTDLDKEIHVLMDKCXDKNMIDKDEYPQTAEXESRC
VHILADLWNSPESSETIGCSTTGSSEAAMLGGMALKWRWRENR---

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSF805 (SSF805Q) /CSM/SS/SSF8-A/SSF805Q.Seq.d/                        589   e-167
SLH288 (SLH288Q) /CSM/SL/SLH2-D/SLH288Q.Seq.d/                        589   e-167
SLH224 (SLH224Q) /CSM/SL/SLH2-A/SLH224Q.Seq.d/                        589   e-167
SLC775 (SLC775Q) /CSM/SL/SLC7-D/SLC775Q.Seq.d/                        589   e-167
SFJ796 (SFJ796Q) /CSM/SF/SFJ7-D/SFJ796Q.Seq.d/                        589   e-167
SFJ665 (SFJ665Q) /CSM/SF/SFJ6-C/SFJ665Q.Seq.d/                        589   e-167
SFJ565 (SFJ565Q) /CSM/SF/SFJ5-C/SFJ565Q.Seq.d/                        589   e-167
SFJ443 (SFJ443Q) /CSM/SF/SFJ4-B/SFJ443Q.Seq.d/                        589   e-167
SFI466 (SFI466Q) /CSM/SF/SFI4-C/SFI466Q.Seq.d/                        589   e-167
SFG506 (SFG506Q) /CSM/SF/SFG5-A/SFG506Q.Seq.d/                        589   e-167

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

AR375678|AR375678.1 Sequence 684 from patent US 6605709.           60   2e-08  2
AL591983|AL591983.1 Listeria monocytogenes strain EGD, complete genome segment 11/12.    50   0.018  1
AX641672|AX641672.1 Sequence 2862 from Patent WO0101118.           50   0.018  1
AX417048|AX417048.1 Sequence 4039 from Patent WO0228891.           50   0.018  1
AX413018|AX413018.1 Sequence 9 from Patent WO0228891.              50   0.018  1
AL596172|AL596172.1 Listeria innocua Clip11262 complete genome, segment 10/12.    50   0.018  1
AX416865|AX416865.1 Sequence 3856 from Patent WO0228891.           48   0.073  1
AX415040|AX415040.1 Sequence 2031 from Patent WO0228891.           48   0.073  1
CA375513|CA375513.1 653594 NCCCWA 1RT Oncorhynchus mykiss cDNA clone 1RT31A08_C_A04 5', mRNA sequence.    46   0.29   1
AC123964|AC123964.3 Macaca mulatta clone CH250-505G9, complete sequence.    46   0.29   1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP000020_1061(CP000020|pid:none) Vibrio fischeri ES114 chromosom...   155   3e-37
FM178379_1197(FM178379|pid:none) Aliivibrio salmonicida LFI1238 ...   154   7e-37
CP000851_2941(CP000851|pid:none) Shewanella pealeana ATCC 700345...   153   2e-36
CR522870_385(CR522870|pid:none) Desulfotalea psychrophila LSv54 ...   151   6e-36
CP000789_2953(CP000789|pid:none) Vibrio harveyi ATCC BAA-1116 ch...   148   5e-35
CP000608_56(CP000608|pid:none) Francisella tularensis subsp. tul...   145   5e-34
AJ749949_1722(AJ749949|pid:none) Francisella tularensis subsp. t...   145   5e-34
AY967181_1(AY967181|pid:none) Synthetic construct isolate FTT172...   145   5e-34
CP000439_1647(CP000439|pid:none) Francisella tularensis subsp. n...   145   5e-34
CP000937_903(CP000937|pid:none) Francisella philomiragia subsp. ...   144   7e-34

 psg: 0.75  gvh: 0.32  alm: 0.50  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.00
 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 

	 40.0 %: nuclear
	 28.0 %: cytoplasmic
	 16.0 %: mitochondrial
	 12.0 %: cytoskeletal
	  4.0 %: extracellular, including cell wall

>> prediction for SFJ665 is nuc

>SFJ665F.Seq
AAGTTATTAGAGATNTAATAATTGATGAATTATTATTAGATGGTAATGCNAAACAAAACT
TGNCCACATTTTGTCAAACTGATCTTGATAAAGAGATTCATGTATTAATGGATAAATGTN
TTGACAAGAATATGATTGACAAGGATGAATATCCACAAACTGCTGAANTTGAAAGTCGTT
GTGTTCATATTTTAGCGGATTTGTGGAATTCACCAGAAAGTTCTGAAACTATTGGTTGTT
CAACTACTGGATCTAGTGAAGCTGCAATGTTGGGTGGAATGGCTTTGAAATGGAGATGGA
GAGAAAATAGAA----------