>VFA349 (VFA349Q) /CSM/VF/VFA3-C/VFA349Q.Seq.d/
XXXXXXXXXXTTAGAAATCCTTTATATAAAGGCTTATTTAGAAGATTTTTACAACTATTG
CAAATATCTCGGTGGTCAAACTGAATTGATCATGAGTGGTATTTTAAAGTTTGAAGCAGA
TCGTAGATCAATCAATATCNCAATCAATAGTTTTGGTGCAACTGAACTCTCAAAGGATGA
TCGTGAAAAACTTTACCCATCCTTAGGTCTTTTATGCCCAGAAGGTACTAGCAAACTTGG
TAAAGCTGAAGACGTTGATCAAGTTANAGGTATCCTCGAAGTTTACTCTACCTATCGTAA
TTTCTTCTCTGATGGTGTCAACAACGAGAAATCATTGGAAGACTCATTCTTTGAACATGA
AGTTCACTTAAATCGTATGGCTTTTGAAGATCAATATGGTTATGGTGTCTTTTACGCTTA
CATTAAATTAAGAGAACAAGAAATTAGAAATATAGTTTGGATTGCTGAATGTATTAGTCA
AAATATAAACAAAAAATGAATCAATACATTCCAATCTTTTTAAAAAAAACTANATCAATA
TAAAAAAAATAAAAAAAAAAAAAAAAAAAA

---EILYIKAYLEDFYNYCKYLGGQTELIMSGILKFEADRRSINIXINSFGATELSKDDR
EKLYPSLGLLCPEGTSKLGKAEDVDQVXGILEVYSTYRNFFSDGVNNEKSLEDSFFEHEV
HLNRMAFEDQYGYGVFYAYIKLREQEIRNIVWIAECISQNINKK*intfqsf*kklxqyk
knkkkkkk

Frame A:
---*ksfi*rli*kifttianisvvkln*s*vvf*slkqivdqsisqsivlvqlnsqrmi
vknfthp*vfyaqkvlanlvklktliklxvsskftlpivisslmvsttrnhwkthslnmk
ft*ivwllkinmvmvsftltln*enkklei*fgllnvlvki*tknesihsnlfkknxini
kkikkkkkk


Frame B:
---rnplykglfrrflqllqisrwsn*idhewyfkv*srs*inqyxnq*fwcn*tlkg*s
*ktlpilrsfmprry*qtw*s*rr*ssxryprsllyls*fll*wcqqreiigrlil*t*s
slksygf*rsiwlwcllrlh*ikrtrn*kysldc*my*skykqkmnqyipiflkktxsi*
kk*kkkkkk


Frame C:
---EILYIKAYLEDFYNYCKYLGGQTELIMSGILKFEADRRSINIXINSFGATELSKDDR
EKLYPSLGLLCPEGTSKLGKAEDVDQVXGILEVYSTYRNFFSDGVNNEKSLEDSFFEHEV
HLNRMAFEDQYGYGVFYAYIKLREQEIRNIVWIAECISQNINKK*intfqsf*kklxqyk
knkkkkkk

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFA349 (VFA349Q) /CSM/VF/VFA3-C/VFA349Q.Seq.d/                       1001   0.0
VFE465 (VFE465Q) /CSM/VF/VFE4-C/VFE465Q.Seq.d/                        954   0.0
VSA730 (VSA730Q) /CSM/VS/VSA7-B/VSA730Q.Seq.d/                        946   0.0
SSK753 (SSK753Q) /CSM/SS/SSK7-C/SSK753Q.Seq.d/                        946   0.0
SSK721 (SSK721Q) /CSM/SS/SSK7-A/SSK721Q.Seq.d/                        946   0.0
SSI279 (SSI279Q) /CSM/SS/SSI2-D/SSI279Q.Seq.d/                        946   0.0
SSG826 (SSG826Q) /CSM/SS/SSG8-B/SSG826Q.Seq.d/                        946   0.0
SSF396 (SSF396Q) /CSM/SS/SSF3-D/SSF396Q.Seq.d/                        946   0.0
SSC867 (SSC867Q) /CSM/SS/SSC8-C/SSC867Q.Seq.d/                        946   0.0
SFG830 (SFG830Q) /CSM/SF/SFG8-B/SFG830Q.Seq.d/                        946   0.0

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

U13150|U13150.1 Dictyostelium discoideum vacuolar ATPase subunit DVA41 mRNA, complete cds.   858  0.0  3
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.   874  0.0  3
BE029219|BE029219.1 kp26d05.y1 TBN95TM-SSFH Strongyloides stercoralis cDNA 5' similar to SW:VATX_BOVIN P12953 VACUOLAR ATP SYNTHASE SUBUNIT AC39 ;, mRNA sequence.    76  5e-14  2
BU768904|BU768904.1 SJEBZB10 SJE Schistosoma japonicum cDNA, mRNA sequence.    54  0.002  1
AI067329|AI067329.1 EST209007 Schistosoma mansoni, Phil LoVerde/Joe Merrick Schistosoma mansoni cDNA clone SMNAS63 5' end similar to ATPase vacuolar, 40 kDa subunit, mRNA sequence.    54  0.002  1
AI067936|AI067936.1 EST209624 Schistosoma mansoni, Phil LoVerde/Joe Merrick Schistosoma mansoni cDNA clone SMNCG92 5' end similar to ATPase vacuolar, 40 kDa subunit, mRNA sequence.    54  0.002  1
AI067953|AI067953.1 EST209642 Schistosoma mansoni, Phil LoVerde/Joe Merrick Schistosoma mansoni cDNA clone SMNCH20 5' end similar to ATPase vacuolar, 40 kDa subunit, mRNA sequence.    54  0.002  1
BU776849|BU776849.1 SJEDDD08 SJE Schistosoma japonicum cDNA, mRNA sequence.    54  0.002  1
AI067312|AI067312.1 EST208990 Schistosoma mansoni, Phil LoVerde/Joe Merrick Schistosoma mansoni cDNA clone SMNAS44 5' end similar to ATPase vacuolar, 40 kDa subunit, mRNA sequence.    54  0.002  1
AC103710|AC103710.2 Homo sapiens chromosome 11, clone CTD-2379P15, complete sequence.    46  0.073  2

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

A55016(A55016) lysosomal membrane protein DVA41 - slime mold (Di...   303   9e-83
(P54641) RecName: Full=V-type proton ATPase subunit d;          ...   303   9e-83
BT081086_1(BT081086|pid:none) Caligus clemensi clone ccle-evs-51...   181   9e-45
BT077935_1(BT077935|pid:none) Lepeophtheirus salmonis clone lsal...   181   9e-45
AC006611_1(AC006611|pid:none) Caenorhabditis elegans cosmid C30F...   179   4e-44
(Q5ZHL0) RecName: Full=V-type proton ATPase subunit d 2;        ...   179   5e-44
(Q9W4P5) RecName: Full=V-type proton ATPase subunit d 1;        ...   178   1e-43
BC042233_1(BC042233|pid:none) Xenopus laevis ATPase, H+ transpor...   176   4e-43
EF676791_1(EF676791|pid:none) Picea sitchensis clone WS02752_K08...   176   4e-43
DQ440373_1(DQ440373|pid:none) Aedes aegypti clone AET-492 vacuol...   175   7e-43

 psg: 0.75  gvh: 0.32  alm: 0.51  top: 0.53  tms: 0.00  mit: 0.11  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
	 32.0 %: cytoplasmic
	 16.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for VFA349 is nuc

>VFA349Z.Seq
----------TTAGAAATCCTTTATATAAAGGCTTATTTAGAAGATTTTTACAACTATTG
CAAATATCTCGGTGGTCAAACTGAATTGATCATGAGTGGTATTTTAAAGTTTGAAGCAGA
TCGTAGATCAATCAATATCNCAATCAATAGTTTTGGTGCAACTGAACTCTCAAAGGATGA
TCGTGAAAAACTTTACCCATCCTTAGGTCTTTTATGCCCAGAAGGTACTAGCAAACTTGG
TAAAGCTGAAGACGTTGATCAAGTTANAGGTATCCTCGAAGTTTACTCTACCTATCGTAA
TTTCTTCTCTGATGGTGTCAACAACGAGAAATCATTGGAAGACTCATTCTTTGAACATGA
AGTTCACTTAAATCGTATGGCTTTTGAAGATCAATATGGTTATGGTGTCTTTTACGCTTA
CATTAAATTAAGAGAACAAGAAATTAGAAATATAGTTTGGATTGCTGAATGTATTAGTCA
AAATATAAACAAAAAATGAATCAATACATTCCAATCTTTTTAAAAAAAACTANATCAATA
TAAAAAAAATAAAAAAAAAAAAAAAAAAAA