>CFC680 (CFC680Q) /CSM/CF/CFC6-D/CFC680Q.Seq.d/
AATAATAACAAAGATGACAAGCAATACAACTGAAATACCCTATCATTTTTTACCATATGT
AAGAATTCAATATGATTGGCAATTGGCATATAAACAAGATTCAGATAATTGTTGGGTTGC
ATATCAAAAAGATTTAAAAAATACAATTCATGGATCAGTTCATTCTACCAAAATTGATGA
AAATAATTTTAAATTTGAATCTGATTATGGATTTAAATTAACACCAAATAAAGAAAATAA
AAATAATATTAGAGTTGAAAATGATAAATATAGTATTGAAATATATGCACCAGAGAAACA
GTTAAAAGTTTCAGGTGGAAAGAAAAGAATAACATCAATGGGTGTTAGTCATTTAGGAGA
GTTGGGTGTATATGGTAGTACTGATGGTACATTGGAAGTATTTGAAACTGGTGATGGTCA
AATTAGAAGAAAATTAGATGGTCATGTTGGTGATGTTGATTTGGCAATGTTTTTCCCAAG
TGGTAGGGTTATACTAAGTGGTTCCTCTGATAGTAGATTAAAGATTTGGGATGCTATAGA
AGGCACATGCGCCTCTACATTGGTCGGACACATCGGTGGTATAACATCGGCATCATTGGT
TGATCGTGGTAGAAATTTAGTATCATGTTCACGTGATGGTAXXXXXXXXXXTAGTATCAT
GTTCACGTGATGGTACAAGTAAATTATGGGATATACCAACATCATCGATCATTTCAAATT
TAACAAAATTATCAAGACCAATTAATGATAGTTTTATAGCATCATCATTACTTGACTCAA
TTCCAACTACCACCACTACAAATAGTAATGATAATAATAAAGTTGATGAAAGAGAAGTGG
GTACAGATGGTAAAACATTGATTATAGCGGCAGAAGAAGGGTTTTTACAAGCAATTGATT
TGAGATCAAAGAATATGATATCACAAATGAATGTTGTACAATCTGGTGAAAAGAGTACAA
GATCAGTTGCATTCAATGCTTGTCATGTACATAAGAATTATATAATTGGTGGTGACCATA
ATGGTTCCATTTACTTTTGGGATAAGAGAAATTTAAATTCACCTTTTTGTAGATTACAAT
TTACAAACTCACCAATTCATCATATAAAGGCAAATTCATCCAATTCAAAGATTGCAAATT
CAATTTGGGTTACCTCTGGTGATGGTTGTTGTTTCTTGTTGGATTTAGATAAAAATCAAA
TCATAACCTCTTTATCTGGTATTGATACTGATGTTGTAACTTCTTTTAATATCGTTGGAA
ATCAAGCTTATTTAACTTCCAGAGATTCAATCATTAGATGTTATAATAATTTATTAAATA
TTTAAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAG

IITKMTSNTTEIPYHFLPYVRIQYDWQLAYKQDSDNCWVAYQKDLKNTIHGSVHSTKIDE
NNFKFESDYGFKLTPNKENKNNIRVENDKYSIEIYAPEKQLKVSGGKKRITSMGVSHLGE
LGVYGSTDGTLEVFETGDGQIRRKLDGHVGDVDLAMFFPSGRVILSGSSDSRLKIWDAIE
GTCASTLVGHIGGITSASLVDRGRNLVSCSRDG---

---VSCSRDGTSKLWDIPTSSIISNLTKLSRPINDSFIASSLLDSIPTTTTTNSNDNNKV
DEREVGTDGKTLIIAAEEGFLQAIDLRSKNMISQMNVVQSGEKSTRSVAFNACHVHKNYI
IGGDHNGSIYFWDKRNLNSPFCRLQFTNSPIHHIKANSSNSKIANSIWVTSGDGCCFLLD
LDKNQIITSLSGIDTDVVTSFNIVGNQAYLTSRDSIIRCYNNLLNI*kikikikikikik

Frame A:
nnnkddkqyn*ntlsffticknsi*laigi*trfr*llgciskrfkkynswissfyqn**
k*f*i*i*lwi*intk*rk*k*y*s*k**i*y*nictretvksfrwkeknningc*sfrr
vgciw*y*wyigsi*nw*wsn*kkirwscw*c*fgnvfpkw*gytkwfl***ikdlgcyr
rhmrlyigrthrwynigiig*sw*kfsimft*w---

---*yhvhvmvqvnygiyqhhrsfqi*qnyqdqlmivl*hhhyltqfqlpplqivmiiik
lmkekwvqmvkh*l*rqkkgfykqli*dqri*yhk*mlynlvkrvqdqlhsmlvmyirii
*lvvtimvpftfgirei*ihlfvdynlqthqfii*rqihpiqrlqiqfglplvmvvvscw
i*ikiks*plylvlilml*lllisleikli*lpeiqsldviiiy*ifkk*k*k*k*k*k*

Frame B:
IITKMTSNTTEIPYHFLPYVRIQYDWQLAYKQDSDNCWVAYQKDLKNTIHGSVHSTKIDE
NNFKFESDYGFKLTPNKENKNNIRVENDKYSIEIYAPEKQLKVSGGKKRITSMGVSHLGE
LGVYGSTDGTLEVFETGDGQIRRKLDGHVGDVDLAMFFPSGRVILSGSSDSRLKIWDAIE
GTCASTLVGHIGGITSASLVDRGRNLVSCSRDG---

---simft*wyk*imgytniidhfkfnkiiktn***fysiiit*lnsnyhhyk******s
**krsgyrw*nidysgrrrvftsn*feikeyditnecctiw*keykisciqclsct*ely
nww*p*wfhlllg*ekfkftfl*itiykltnssykgkfiqfkdckfnlgylw*wllflvg
fr*ksnhnlfiwy*y*ccnff*yrwksslfnfqrfnh*ml**fikylknknknknknknk

Frame C:
**qr*qaiqlkypiifyhm*efnmignwhinkiqiivglhikki*kiqfmdqfilpklmk
iilnlnlimdln*hqikkikiilelkminivlkymhqrns*kfqverke*hqwvlvi*es
wvymvvlmvhwkylklvmvkleen*mvmlvmliwqcfsqvvgly*vvplivd*rfgml*k
ahaplhwsdtsvv*hrhhwlivvei*yhvhvmv---

---VSCSRDGTSKLWDIPTSSIISNLTKLSRPINDSFIASSLLDSIPTTTTTNSNDNNKV
DEREVGTDGKTLIIAAEEGFLQAIDLRSKNMISQMNVVQSGEKSTRSVAFNACHVHKNYI
IGGDHNGSIYFWDKRNLNSPFCRLQFTNSPIHHIKANSSNSKIANSIWVTSGDGCCFLLD
LDKNQIITSLSGIDTDVVTSFNIVGNQAYLTSRDSIIRCYNNLLNI*kikikikikikik

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CFC680 (CFC680Q) /CSM/CF/CFC6-D/CFC680Q.Seq.d/                       1996   0.0
SFF793 (SFF793Q) /CSM/SF/SFF7-D/SFF793Q.Seq.d/                       1324   0.0
SFI104 (SFI104Q) /CSM/SF/SFI1-A/SFI104Q.Seq.d/                       1322   0.0
AFK648 (AFK648Q) /CSM/AF/AFK6-B/AFK648Q.Seq.d/                       1322   0.0
AFK621 (AFK621Q) /CSM/AF/AFK6-A/AFK621Q.Seq.d/                       1314   0.0
CFJ122 (CFJ122Q) /CSM/CF/CFJ1-A/CFJ122Q.Seq.d/                       1310   0.0
AFK575 (AFK575Q) /CSM/AF/AFK5-D/AFK575Q.Seq.d/                       1308   0.0
CFC339 (CFC339Q) /CSM/CF/CFC3-B/CFC339Q.Seq.d/                       1306   0.0
VSD222 (VSD222Q) /CSM/VS/VSD2-A/VSD222Q.Seq.d/                       1291   0.0
VFF547 (VFF547Q) /CSM/VF/VFF5-B/VFF547Q.Seq.d/                       1283   0.0

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

AC117081|AC117081.2 Dictyostelium discoideum chromosome 2 map 5862124-6045772 strain AX4, complete sequence.  1330   0.0    14
AC116986|AC116986.2 Dictyostelium discoideum chromosome 2 map 2234041-2567370 strain AX4, complete sequence.    38   8e-11  22
BX842643|BX842643.1 Mycoplasma mycoides subsp. mycoides SC genomic DNA, complete  sequence; segment 2/4.    40   6e-10  23
AC116979|AC116979.3 Dictyostelium discoideum chromosome 2 map 6445720-6776760 strain AX4, complete sequence.    36   5e-08  23
AL844509|AL844509.1 Plasmodium falciparum chromosome 13.           40   2e-07  19
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.    38   3e-07  23
AC116956|AC116956.2 Dictyostelium discoideum chromosome 2 map 1418423-1684967 strain AX4, complete sequence.    34   5e-06  17
AL445563|AL445563.1 Mycoplasma pulmonis (strain UAB CTIP) complete genome; segment 1/3.    34   5e-06  20
AE014825|AE014825.1 Plasmodium falciparum 3D7 chromosome 14 section 10 of 13 of the complete sequence.    36   6e-06  17
AE017338|AE017338.1 Mycoplasma mobile 163K section 2 of 3 of the complete genome.    34   5e-05  17

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q8MYE8) RecName: Full=Probable proteasomal ATPase-associated fa...   430   0.0
(Q5ZK69) RecName: Full=Proteasomal ATPase-associated factor 1; A...   138   3e-51
AK222501_1(AK222501|pid:none) Homo sapiens mRNA for hypothetical...   137   4e-47
BC006142_1(BC006142|pid:none) Homo sapiens proteasomal ATPase-as...   136   5e-47
AB171255_1(AB171255|pid:none) Macaca fascicularis brain cDNA clo...   133   4e-45
(Q148I1) RecName: Full=Proteasomal ATPase-associated factor 1; A...   131   8e-45
BC028628_1(BC028628|pid:none) Homo sapiens proteasomal ATPase-as...   122   7e-43
AF087895_1(AF087895|pid:none) Homo sapiens G-16 mRNA, complete c...   122   1e-42
BC070729_1(BC070729|pid:none) Xenopus laevis hypothetical protei...   127   8e-42
AK316394_1(AK316394|pid:none) Homo sapiens cDNA, FLJ79293 comple...    98   2e-35

 psg: 0.80  gvh: 0.24  alm: 0.42  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.05
 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 

	 36.0 %: nuclear
	 28.0 %: cytoplasmic
	 20.0 %: mitochondrial
	  8.0 %: plasma membrane
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for CFC680 is nuc

>CFC680F.Seq
AATAATAACAAAGATGACAAGCAATACAACTGAAATACCCTATCATTTTTTACCATATGT
AAGAATTCAATATGATTGGCAATTGGCATATAAACAAGATTCAGATAATTGTTGGGTTGC
ATATCAAAAAGATTTAAAAAATACAATTCATGGATCAGTTCATTCTACCAAAATTGATGA
AAATAATTTTAAATTTGAATCTGATTATGGATTTAAATTAACACCAAATAAAGAAAATAA
AAATAATATTAGAGTTGAAAATGATAAATATAGTATTGAAATATATGCACCAGAGAAACA
GTTAAAAGTTTCAGGTGGAAAGAAAAGAATAACATCAATGGGTGTTAGTCATTTAGGAGA
GTTGGGTGTATATGGTAGTACTGATGGTACATTGGAAGTATTTGAAACTGGTGATGGTCA
AATTAGAAGAAAATTAGATGGTCATGTTGGTGATGTTGATTTGGCAATGTTTTTCCCAAG
TGGTAGGGTTATACTAAGTGGTTCCTCTGATAGTAGATTAAAGATTTGGGATGCTATAGA
AGGCACATGCGCCTCTACATTGGTCGGACACATCGGTGGTATAACATCGGCATCATTGGT
TGATCGTGGTAGAAATTTAGTATCATGTTCACGTGATGGTA----------

>CFC680Z.Seq
----------TAGTATCATGTTCACGTGATGGTACAAGTAAATTATGGGATATACCAACA
TCATCGATCATTTCAAATTTAACAAAATTATCAAGACCAATTAATGATAGTTTTATAGCA
TCATCATTACTTGACTCAATTCCAACTACCACCACTACAAATAGTAATGATAATAATAAA
GTTGATGAAAGAGAAGTGGGTACAGATGGTAAAACATTGATTATAGCGGCAGAAGAAGGG
TTTTTACAAGCAATTGATTTGAGATCAAAGAATATGATATCACAAATGAATGTTGTACAA
TCTGGTGAAAAGAGTACAAGATCAGTTGCATTCAATGCTTGTCATGTACATAAGAATTAT
ATAATTGGTGGTGACCATAATGGTTCCATTTACTTTTGGGATAAGAGAAATTTAAATTCA
CCTTTTTGTAGATTACAATTTACAAACTCACCAATTCATCATATAAAGGCAAATTCATCC
AATTCAAAGATTGCAAATTCAATTTGGGTTACCTCTGGTGATGGTTGTTGTTTCTTGTTG
GATTTAGATAAAAATCAAATCATAACCTCTTTATCTGGTATTGATACTGATGTTGTAACT
TCTTTTAATATCGTTGGAAATCAAGCTTATTTAACTTCCAGAGATTCAATCATTAGATGT
TATAATAATTTATTAAATATTTAAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATA
AAG

>CFC680P.Seq
AATAATAACAAAGATGACAAGCAATACAACTGAAATACCCTATCATTTTTTACCATATGT
AAGAATTCAATATGATTGGCAATTGGCATATAAACAAGATTCAGATAATTGTTGGGTTGC
ATATCAAAAAGATTTAAAAAATACAATTCATGGATCAGTTCATTCTACCAAAATTGATGA
AAATAATTTTAAATTTGAATCTGATTATGGATTTAAATTAACACCAAATAAAGAAAATAA
AAATAATATTAGAGTTGAAAATGATAAATATAGTATTGAAATATATGCACCAGAGAAACA
GTTAAAAGTTTCAGGTGGAAAGAAAAGAATAACATCAATGGGTGTTAGTCATTTAGGAGA
GTTGGGTGTATATGGTAGTACTGATGGTACATTGGAAGTATTTGAAACTGGTGATGGTCA
AATTAGAAGAAAATTAGATGGTCATGTTGGTGATGTTGATTTGGCAATGTTTTTCCCAAG
TGGTAGGGTTATACTAAGTGGTTCCTCTGATAGTAGATTAAAGATTTGGGATGCTATAGA
AGGCACATGCGCCTCTACATTGGTCGGACACATCGGTGGTATAACATCGGCATCATTGGT
TGATCGTGGTAGAAATTTAGTATCATGTTCACGTGATGGTA----------TAGTATCAT
GTTCACGTGATGGTACAAGTAAATTATGGGATATACCAACATCATCGATCATTTCAAATT
TAACAAAATTATCAAGACCAATTAATGATAGTTTTATAGCATCATCATTACTTGACTCAA
TTCCAACTACCACCACTACAAATAGTAATGATAATAATAAAGTTGATGAAAGAGAAGTGG
GTACAGATGGTAAAACATTGATTATAGCGGCAGAAGAAGGGTTTTTACAAGCAATTGATT
TGAGATCAAAGAATATGATATCACAAATGAATGTTGTACAATCTGGTGAAAAGAGTACAA
GATCAGTTGCATTCAATGCTTGTCATGTACATAAGAATTATATAATTGGTGGTGACCATA
ATGGTTCCATTTACTTTTGGGATAAGAGAAATTTAAATTCACCTTTTTGTAGATTACAAT
TTACAAACTCACCAATTCATCATATAAAGGCAAATTCATCCAATTCAAAGATTGCAAATT
CAATTTGGGTTACCTCTGGTGATGGTTGTTGTTTCTTGTTGGATTTAGATAAAAATCAAA
TCATAACCTCTTTATCTGGTATTGATACTGATGTTGTAACTTCTTTTAATATCGTTGGAA
ATCAAGCTTATTTAACTTCCAGAGATTCAATCATTAGATGTTATAATAATTTATTAAATA
TTTAAAAAATAAAAATAAAAATAAAAATAAAAATAAAAATAAAG