>VHA477 (VHA477Q) /CSM/VH/VHA4-D/VHA477Q.Seq.d/
TATATATTCATATATATTTATTTATTTATTTATTTATTTTCTTTTTTTGTAATATTATTT
TAATAATATTAATAGTAATACTAAAAGATGGCATTTGGTAAAACGAAAAAATATAAGAGA
ATTGTTAAAACGATTTTCCCTCAAGTTGAAGGTGGTGAAATGCAATTAGGTAATATTAGT
AAATTANTTTATTTTTGCGAAATGAGTCCAGAGCAACTTCAAAAGGTTGGACCTTATATA
GAGGCAAAAGCACAAAAGAATTTATCAGGAAAAAAGGTTAGTTTATGTTTCAACTTGTAT
CATTATCATTAGAGAACTTATCATTGGTTGTAGAAAACATTTANCATTATTCTCTGGTAA
TGCTACAAGATTAATGAAAATATTATTAATTCAAACTGAATATCCATCATTACAAATTGA
AGCAACTGAAACCTTTATTAGATTTGCATCAGNTCAAGATGATTCAAATCAAATACCACC
AGAAATTGATGAATTTATAAAGTATTTTATTATAATGGCAAAGAATATGGATAATGATGA
TACAATGAGAAGAAXXXXXXXXXX

iysyifiylfiyflfl*yyfnninsntkrwhlvkrknirellkrfslklkvvkcn*vilv
nxfifak*vqsnfkrldli*RQKHKRIYQEKRLVYVSTCIIIIRELIIGCRKHLXLFSGN
ATRLMKILLIQTEYPSLQIEATETFIRFASXQDDSNQIPPEIDEFIKYFIIMAKNMDNDD
TMRR---

Frame A:
yifiyiylfiylfsffvilf**y***y*kmafgktkkykrivktifpqveggemqlgnis
klxyfcemspeqlqkvgpyieakaqknlsgkkvslcfnlyhyh*rtyhwl*ktfxiilw*
cykineniinsn*isiitn*sn*nly*icixsr*fksnttrn**iykvfyyngkeyg***
ynek---


Frame B:
iysyifiylfiyflfl*yyfnninsntkrwhlvkrknirellkrfslklkvvkcn*vilv
nxfifak*vqsnfkrldli*RQKHKRIYQEKRLVYVSTCIIIIRELIIGCRKHLXLFSGN
ATRLMKILLIQTEYPSLQIEATETFIRFASXQDDSNQIPPEIDEFIKYFIIMAKNMDNDD
TMRR---


Frame C:
yihiylfiylfifffcniiliilivilkdgiw*neki*enc*ndfpss*rw*nair*y**
ixlflrnesratskgwtlyrgkstkefirkkg*fmfqlvslslenlslvvenixhyslvm
lqd**kyy*fklnihhyklkqlkplldlhqxkmiqikyhqklmnl*sill*wqriwimmi
q*e---

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHA477 (VHA477Q) /CSM/VH/VHA4-D/VHA477Q.Seq.d/                        985   0.0
SSI232 (SSI232Q) /CSM/SS/SSI2-B/SSI232Q.Seq.d/                        961   0.0
VHC861 (VHC861Q) /CSM/VH/VHC8-C/VHC861Q.Seq.d/                        959   0.0
AHM717 (AHM717Q) /CSM/AH/AHM7-A/AHM717Q.Seq.d/                        952   0.0
SHK716 (SHK716Q) /CSM/SH/SHK7-A/SHK716Q.Seq.d/                        948   0.0
VHI708 (VHI708Q) /CSM/VH/VHI7-A/VHI708Q.Seq.d/                        165   9e-40
CHF805 (CHF805Q) /CSM/CH/CHF8-A/CHF805Q.Seq.d/                         48   1e-04
SSD825 (SSD825Q) /CSM/SS/SSD8-B/SSD825Q.Seq.d/                         40   0.035
SHC113 (SHC113Q) /CSM/SH/SHC1-A/SHC113Q.Seq.d/                         40   0.035
FCL-AB12 (FCL-AB12Q) /CSM/FCL/FCL-AB/FCL-AB12Q.Seq.d/                  40   0.035

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

CU406979|CU406979.2 Pig DNA sequence *** SEQUENCING IN PROGRESS *** from clone  CH242-222D13.    48   0.26   1
AW684539|AW684539.1 NF018B01NR1F1000 Nodulated root Medicago truncatula cDNA clone NF018B01NR 5', mRNA sequence.    38   0.32   2
CL591686|CL591686.1 OB__Ba0050M06.r OB__Ba Oryza brachyantha genomic clone OB__Ba0050M06 3', genomic survey sequence.    40   0.42   2
CL552826|CL552826.1 OB__Ba0096E13.f OB__Ba Oryza brachyantha genomic clone OB__Ba0096E13 5', genomic survey sequence.    40   0.48   2
AC189379|AC189379.1 Brassica rapa subsp. pekinensis clone KBrB049N17, *** SEQUENCING IN PROGRESS ***, 6 ordered pieces.    44   0.62   3
AC151949|AC151949.27 Medicago truncatula chromosome 8 clone mth2-51e2, WORKING DRAFT SEQUENCE, 6 unordered pieces.    36   0.85   4
AC166899|AC166899.18 Medicago truncatula chromosome 8 clone mth2-170k6, WORKING DRAFT SEQUENCE, 2 ordered pieces.    40   0.87   2
AC151949|AC151949.27 Medicago truncatula chromosome 8 clone mth2-51e2, WORKING DRAFT SEQUENCE, 6 unordered pieces.    36   0.89   4
AC150779|AC150779.1 Medicago truncatula chromosome 2 clone mth2-31a11, *** SEQUENCING IN PROGRESS ***, 9 unordered pieces.    40   0.89   2
AC018961|AC018961.3 Homo sapiens chromosome 2 clone RP11-389D8 map 2, WORKING DRAFT SEQUENCE, 19 unordered pieces.    46   1.0    1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q8IGJ0) RecName: Full=Protein EFR3 homolog cmp44E; AltName: Ful...    44   3e-07
AE013599_717(AE013599|pid:none) Drosophila melanogaster chromoso...    44   3e-07
AE013599_719(AE013599|pid:none) Drosophila melanogaster chromoso...    44   3e-07
BT001762_1(BT001762|pid:none) Drosophila melanogaster RH07443 fu...    42   1e-06
(Q641A2) RecName: Full=Protein EFR3 homolog A; AltName: Full=Pro...    37   3e-06
(Q5SPP5) RecName: Full=Protein EFR3 homolog B;  &AL845420_1(AL84...    40   3e-06
BX324115_7(BX324115|pid:none) Zebrafish DNA sequence from clone ...    40   3e-06
AK129065_1(AK129065|pid:none) Mus musculus mRNA for mKIAA0143 pr...    37   8e-06
AK030074_1(AK030074|pid:none) Mus musculus adult male testis cDN...    37   8e-06
AK044475_1(AK044475|pid:none) Mus musculus adult retina cDNA, RI...    37   8e-06

 psg: 0.74  gvh: 0.43  alm: 0.29  top: 0.27  tms: 0.07  mit: 0.41  mip: 0.08
 nuc: 0.02  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: 1.00  tyr: 0.38  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 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 28.0 %: mitochondrial
	 20.0 %: endoplasmic reticulum
	 16.0 %: cytoplasmic
	 16.0 %: nuclear
	 12.0 %: Golgi
	  4.0 %: extracellular, including cell wall
	  4.0 %: vesicles of secretory system

>> prediction for VHA477 is mit

>VHA477F.Seq
TATATATTCATATATATTTATTTATTTATTTATTTATTTTCTTTTTTTGTAATATTATTT
TAATAATATTAATAGTAATACTAAAAGATGGCATTTGGTAAAACGAAAAAATATAAGAGA
ATTGTTAAAACGATTTTCCCTCAAGTTGAAGGTGGTGAAATGCAATTAGGTAATATTAGT
AAATTANTTTATTTTTGCGAAATGAGTCCAGAGCAACTTCAAAAGGTTGGACCTTATATA
GAGGCAAAAGCACAAAAGAATTTATCAGGAAAAAAGGTTAGTTTATGTTTCAACTTGTAT
CATTATCATTAGAGAACTTATCATTGGTTGTAGAAAACATTTANCATTATTCTCTGGTAA
TGCTACAAGATTAATGAAAATATTATTAATTCAAACTGAATATCCATCATTACAAATTGA
AGCAACTGAAACCTTTATTAGATTTGCATCAGNTCAAGATGATTCAAATCAAATACCACC
AGAAATTGATGAATTTATAAAGTATTTTATTATAATGGCAAAGAATATGGATAATGATGA
TACAATGAGAAGAANNNNNNNNNN