>SSB259 (SSB259Q) /CSM/SS/SSB2-C/SSB259Q.Seq.d/
XXXXXXXXXXAAAGTTTGAAGCAGATCGTAGATCAATCAATATCACAATCAATAGTTTTG
GTGCAACTGAACTCTCAAAGGATGATCGTGAAAAACTTTACCCATCCTTAGGTCTTTTAT
ACCCAGAAGGTACTAGCAAACTTGGTAAAGCTGAAGACGTTGATCAAGTTAGAGGTATCC
TCGAAGTTTACTCTACCTATCGTAATTTCTTCTCTGATGGTGTCAACAACGAGAAATCAT
TGGAAGACTCATTCTTTGAACATGAAGTTCACTTAAATCGTATGGCTTTTGAAGATCAAT
ATGGTTATGGTGTCTTTTACGCTTACATTAAATTAAGAGAACAAGAAATTAGAAATATAG
TTTGGATTGCTGAATGTATTAGTCAAAATATGAAACAAAAAATGAATCAATACATTCCAA
TCTTTTAAAAAAATAACTATATCTAATTATTAAAAAAAATAAAAAAAAAAATAAAAAAAA
AATAAAATAAAATAAAACAATAAT

---KFEADRRSINITINSFGATELSKDDREKLYPSLGLLYPEGTSKLGKAEDVDQVRGIL
EVYSTYRNFFSDGVNNEKSLEDSFFEHEVHLNRMAFEDQYGYGVFYAYIKLREQEIRNIV
WIAECISQNMKQKMNQYIPIF*knnyi*llkkikkkikkk*nkikq*

Frame A:
---KFEADRRSINITINSFGATELSKDDREKLYPSLGLLYPEGTSKLGKAEDVDQVRGIL
EVYSTYRNFFSDGVNNEKSLEDSFFEHEVHLNRMAFEDQYGYGVFYAYIKLREQEIRNIV
WIAECISQNMKQKMNQYIPIF*knnyi*llkkikkkikkk*nkikq*


Frame B:
---slkqivdqsisqsivlvqlnsqrmivknfthp*vfytqkvlanlvklktliklevss
kftlpivisslmvsttrnhwkthslnmkft*ivwllkinmvmvsftltln*enkklei*f
gllnvlvki*nkk*intfqsfkkitisny*kk*kkk*kknkik*nnn


Frame C:
---v*srs*inqyhnq*fwcn*tlkg*s*ktlpilrsfiprry*qtw*s*rr*ss*rypr
sllyls*fll*wcqqreiigrlil*t*sslksygf*rsiwlwcllrlh*ikrtrn*kysl
dc*my*skyetknesihsnllkk*lyliikknkkknkkkik*nkti

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSE491 (VSE491Q) /CSM/VS/VSE4-D/VSE491Q.Seq.d/                        833   0.0
VSA730 (VSA730Q) /CSM/VS/VSA7-B/VSA730Q.Seq.d/                        833   0.0
SSM519 (SSM519Q) /CSM/SS/SSM5-A/SSM519Q.Seq.d/                        833   0.0
SSK753 (SSK753Q) /CSM/SS/SSK7-C/SSK753Q.Seq.d/                        833   0.0
SSK721 (SSK721Q) /CSM/SS/SSK7-A/SSK721Q.Seq.d/                        833   0.0
SSK423 (SSK423Q) /CSM/SS/SSK4-A/SSK423Q.Seq.d/                        833   0.0
SSI366 (SSI366Q) /CSM/SS/SSI3-C/SSI366Q.Seq.d/                        833   0.0
SSI279 (SSI279Q) /CSM/SS/SSI2-D/SSI279Q.Seq.d/                        833   0.0
SSH558 (SSH558Q) /CSM/SS/SSH5-C/SSH558Q.Seq.d/                        833   0.0
SSG826 (SSG826Q) /CSM/SS/SSG8-B/SSG826Q.Seq.d/                        833   0.0

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

AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.   825  0.0  2
U13150|U13150.1 Dictyostelium discoideum vacuolar ATPase subunit DVA41 mRNA, complete cds.   809  0.0  2
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  3e-14  2
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  2e-04  2
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  3e-04  2
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  3e-04  2
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  4e-04  2
BU768904|BU768904.1 SJEBZB10 SJE Schistosoma japonicum cDNA, mRNA sequence.    54  0.002  1
BU776849|BU776849.1 SJEDDD08 SJE Schistosoma japonicum cDNA, mRNA sequence.    54  0.002  1
BU715793|BU715793.1 SJM2ABF05 SJM Schistosoma japonicum cDNA, mRNA sequence.    48  0.10  1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

A55016(A55016) lysosomal membrane protein DVA41 - slime mold (Di...   281   5e-75
(P54641) RecName: Full=V-type proton ATPase subunit d;          ...   281   5e-75
(Q5ZHL0) RecName: Full=V-type proton ATPase subunit d 2;        ...   174   1e-42
BT081086_1(BT081086|pid:none) Caligus clemensi clone ccle-evs-51...   167   1e-40
BC125665_1(BC125665|pid:none) Xenopus tropicalis ATPase, H+ tran...   167   2e-40
BC042233_1(BC042233|pid:none) Xenopus laevis ATPase, H+ transpor...   166   2e-40
AY648766_1(AY648766|pid:none) Danio rerio v-ATPase AC39 subunit ...   166   3e-40
BT077935_1(BT077935|pid:none) Lepeophtheirus salmonis clone lsal...   166   3e-40
(Q9W4P5) RecName: Full=V-type proton ATPase subunit d 1;        ...   166   3e-40
(P51863) RecName: Full=V-type proton ATPase subunit d 1;        ...   166   4e-40

 psg: 0.85  gvh: 0.33  alm: 0.58  top: 0.40  tms: 0.00  mit: 0.18  mip: 0.00
 nuc: 0.00  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 

	 44.0 %: nuclear
	 32.0 %: cytoplasmic
	 12.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: endoplasmic reticulum

>> prediction for SSB259 is nuc

>SSB259Z.Seq
----------AAAGTTTGAAGCAGATCGTAGATCAATCAATATCACAATCAATAGTTTTG
GTGCAACTGAACTCTCAAAGGATGATCGTGAAAAACTTTACCCATCCTTAGGTCTTTTAT
ACCCAGAAGGTACTAGCAAACTTGGTAAAGCTGAAGACGTTGATCAAGTTAGAGGTATCC
TCGAAGTTTACTCTACCTATCGTAATTTCTTCTCTGATGGTGTCAACAACGAGAAATCAT
TGGAAGACTCATTCTTTGAACATGAAGTTCACTTAAATCGTATGGCTTTTGAAGATCAAT
ATGGTTATGGTGTCTTTTACGCTTACATTAAATTAAGAGAACAAGAAATTAGAAATATAG
TTTGGATTGCTGAATGTATTAGTCAAAATATGAAACAAAAAATGAATCAATACATTCCAA
TCTTTTAAAAAAATAACTATATCTAATTATTAAAAAAAATAAAAAAAAAAATAAAAAAAA
AATAAAATAAAATAAAACAATAAT