>CHL118 (CHL118Q) /CSM/CH/CHL1-A/CHL118Q.Seq.d/
ANGACGGTGGCCATGGAAGTCGGTATCCGCTAANGANTGTGTAACAACTCACCTGCCAAA
TGGACTATGCCCTGAAAATGGATGACGCTAGCAGTGGATGGTCGATGCCCAATCGTTAAA
AGAAGTGATAATACTTTTAACGTGTAGGAAGGCGTGAAGGTAACGTAGAAGCTTGAATGT
GAATTCGAGTGGAGTTGTCTTTATTGCAGATCTTGATGGTAGTAGCAAATATTCAAAAGA
ATTTACTTTGAANGCCGAAGTGGGGAAAGGTTCCATAACAATGGAATTCACTTATGGGTG
AGTCGATCCTAAAGTTTGGGTTAACTCTCTCTAATAAXXXXXXXXXXAGTGACCTGCCGC
TACCATCCGTTGGATAATGGCTGAACGCCTCTAAGTCAGAATCCATTCTAGAAACGCAAA
CCAAATGCTTTAGAGTGTGAATGTTGTAGGTAACATTAGGTTGTTGGTGGGGGACCACTT
TCAACTTTAAACCATATGATTAATCGCTGTTACACTGCAGTTTCCTTCCGGTTATTGTGG
TGGGTGGCTAAATTCTAATTTATATCCTCGTTCCGCTCAACTCTTCGATTGTAGACGACT
ATCAAATGAACTAGGTGCTGTAAGCTTCCGAGTAGCGTTCAGTTACGAGGGGTTGAGGCT
TTTCCATTAGTTCTTACTCAATATAATATTACACACAATGTCTATGGTAGCCAAACGTCT
CTTCACCACCCAATCAATCGAATCAGCCAAAAAGATTCTTTCCTCATTACCAAAGAGCAA
CATGGATCAAAAAATCAAAGATTTACTCGAGAAAAACGCTGACATCGCCAAAAAATATAA
CTTAAAATACACCCCAAAGACTGAACAAGAACAATTAAATGAAATCGTAGAAATCACCAA
CTCATTCAAAAAAGCAGGAGAAAAAGCTTTCGAAGCTATGGGTAAAGCATACAAAGATGT
TCAACCAATTGAAACTAAAACCGTCAAGGATTTCATTCCAGAATACACTGCTTAAATAAA
TAAATGATGATAATAATAATAGTTTAAATNAAATATTACAAACCAAATTTAGTAAAATCA
TAAACAATAAAACAAGTTGGAGAGAATTTTAAAT

dgghgsryplxxv*qltcqmdyalkmddassgwsmpnr*kk**yf*rvgrregnvea*m*
irvelsllqilmvvaniqknll*xpkwgkvp*QWNSLMGESILKFGLTLSN---

---VTCRYHPLDNG*tplsqnpf*krkpnalececcr*h*vvgggplstlnhminrcyta
vsfrllwwvakf*fissfrstlrl*ttik*trccklpssvqlrgveafplvltqynithn
vygsqtslhhpinrisqkdsflitkeqhgsknqrftrekr*hrqki*lkihpkd*trtik
*nrrnhqliqksrrksfrsyg*siqrcstn*n*nrqgfhsrihclnk*mmiiiiv*xkyy
kpnlvks*tikqvgenfk

Frame A:
xtvamevgir*xxcnnspakwtmp*kwmtlavdgrcpivkrsdntfnv*egvkvt*klec
efewsclycrs*w**qifkriyfexrsgerfhnngihlwvsrs*slg*lsli---

---sdlplpsvg*wlnasksesiletqtkcfrv*ml*vtlgcwwgttfnfkpyd*sllhc
sflpvivvgg*iliyilvplnssivddyqmn*vl*ase*rsvtrg*gfsissysi*yytq
clw*pnvssppnqsnqpkrffphyqratwikkskiysrktltspknit*ntpqrlnknn*
mks*kspthskkqekklsklwvkhtkmfnqlklkpsrisfqntllk*inddnnnslnxil
qtkfskiinnktswref*

Frame B:
xrwpwksvsaxxcvtthlpnglcpeng*r*qwmvdaqslkeviilltcrka*r*rrslnv
nssgvvfiadldgsskyskeftlxaevgkgsitmeftyg*vdpkvwvnsl**---

---VTCRYHPLDNG*tplsqnpf*krkpnalececcr*h*vvgggplstlnhminrcyta
vsfrllwwvakf*fissfrstlrl*ttik*trccklpssvqlrgveafplvltqynithn
vygsqtslhhpinrisqkdsflitkeqhgsknqrftrekr*hrqki*lkihpkd*trtik
*nrrnhqliqksrrksfrsyg*siqrcstn*n*nrqgfhsrihclnk*mmiiiiv*xkyy
kpnlvks*tikqvgenfk

Frame C:
dgghgsryplxxv*qltcqmdyalkmddassgwsmpnr*kk**yf*rvgrregnvea*m*
irvelsllqilmvvaniqknll*xpkwgkvp*QWNSLMGESILKFGLTLSN---

---*paatirwimaerl*vrihsrnanqml*svnvvgnirllvgdhfql*ti*liavtlq
fpsgycggwlnsnlyprsaqlfdcrrlsnelgavsfrvafsyeglrlfh*fllniilhtm
smvakrlfttqsiesakkilsslpksnmdqkikdlleknadiakkynlkytpkteqeqln
eiveitnsfkkagekafeamgkaykdvqpietktvkdfipeyta*ink******fkxnit
nqi**nhkq*nkleriln

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHL118 (CHL118Q) /CSM/CH/CHL1-A/CHL118Q.Seq.d/                       1923   0.0
VSG388 (VSG388Q) /CSM/VS/VSG3-D/VSG388Q.Seq.d/                        666   0.0
SSI178 (SSI178Q) /CSM/SS/SSI1-D/SSI178Q.Seq.d/                        666   0.0
SSI177 (SSI177Q) /CSM/SS/SSI1-D/SSI177Q.Seq.d/                        660   0.0
VFJ849 (VFJ849Q) /CSM/VF/VFJ8-C/VFJ849Q.Seq.d/                        658   0.0
VHM686 (VHM686Q) /CSM/VH/VHM6-D/VHM686Q.Seq.d/                        654   0.0
VHM510 (VHM510Q) /CSM/VH/VHM5-A/VHM510Q.Seq.d/                        654   0.0
VHD592 (VHD592Q) /CSM/VH/VHD5-D/VHD592Q.Seq.d/                        654   0.0
SHA880 (SHA880Q) /CSM/SH/SHA8-D/SHA880Q.Seq.d/                        654   0.0
AHE287 (AHE287Q) /CSM/AH/AHE2-D/AHE287Q.Seq.d/                        654   0.0

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

AY171066|AY171066.1 Dictyostelium discoideum extrachromosomal palindromic ribosomal RNA gene sequence, central segment.   650   0.0    3
X00601|X00601.1 Dictyostelium discoideum ribosomal RNA gene.      496   e-165  2
AC136838|AC136838.31 Medicago truncatula clone mth1-5j15, WORKING DRAFT SEQUENCE, 10 unordered pieces.    74   3e-76  13
AC121240|AC121240.27 Medicago truncatula clone mth1-51o19, WORKING DRAFT SEQUENCE, 12 ordered pieces.    74   4e-76  13
AP008160|AP008160.1 Lotus corniculatus var. japonicus genomic DNA, clone:LjT31N05, TM1576.    76   2e-55  9
AC151591|AC151591.1 Nematostella vectensis clone JGIAFIN-297A8, WORKING DRAFT SEQUENCE, 3 unordered pieces.    82   2e-54  7
AF289045|AF289045.1 Apedinella radians internal transcribed spacer 1, 5.8S ribosomal RNA gene, internal transcribed spacer 2, and 28S ribosomal RNA gene, complete sequence.    94   1e-51  7
U09238|U09238.1 Endomyces fibuliger 8014 26S rRNA gene, complete sequence.    88   1e-51  6
AY048158|AY048158.1 Saccharomyces unisporus NRRL Y-1556 26S ribosomal RNA gene, partial sequence.    96   9e-51  6
AY048168|AY048168.1 Saccharomyces dairenensis NRRL Y-12639 26S ribosomal RNA gene, partial sequence.    88   1e-49  6

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

U12823_1(U12823|pid:none) Acanthamoeba polyphaga CDC:0187:1 hemo...    38   0.032
CP000497_644(CP000497|pid:none) Pichia stipitis CBS 6054 chromos...    37   0.90
AY682195_70(AY682195|pid:none) Lactobacillus plantarum bacteriop...    37   0.90
(Q9TLS1) RecName: Full=Prenyl transferase;          EC=2.5.1.-; ...    36   2.0
CP000942_165(CP000942|pid:none) Ureaplasma parvum serovar 3 str....    35   3.4
CP001184_372(CP001184|pid:none) Ureaplasma urealyticum serovar 1...    35   3.4
AE002116_6(AE002116|pid:none) Ureaplasma parvum serovar 3 str. A...    35   3.4
(Q58974) Uncharacterized protein MJ1579.  &B64497(B64497) &L7711...    35   4.5
EF634321_1(EF634321|pid:none) Heliothis armigera cypovirus 5 iso...    35   4.5
(P31171) RecName: Full=Prenyl transferase;          EC=2.5.1.-; ...    35   4.5

 psg: 0.75  gvh: 0.59  alm: 0.47  top: 0.53  tms: 0.00  mit: 0.26  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 

	 40.0 %: nuclear
	 36.0 %: cytoplasmic
	 12.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: Golgi

>> prediction for CHL118 is nuc

>CHL118F.Seq
ANGACGGTGGCCATGGAAGTCGGTATCCGCTAANGANTGTGTAACAACTCACCTGCCAAA
TGGACTATGCCCTGAAAATGGATGACGCTAGCAGTGGATGGTCGATGCCCAATCGTTAAA
AGAAGTGATAATACTTTTAACGTGTAGGAAGGCGTGAAGGTAACGTAGAAGCTTGAATGT
GAATTCGAGTGGAGTTGTCTTTATTGCAGATCTTGATGGTAGTAGCAAATATTCAAAAGA
ATTTACTTTGAANGCCGAAGTGGGGAAAGGTTCCATAACAATGGAATTCACTTATGGGTG
AGTCGATCCTAAAGTTTGGGTTAACTCTCTCTAATAANNNNNNNNNN

>CHL118Z.Seq
NNNNNNNNNNAGTGACCTGCCGCTACCATCCGTTGGATAATGGCTGAACGCCTCTAAGTC
AGAATCCATTCTAGAAACGCAAACCAAATGCTTTAGAGTGTGAATGTTGTAGGTAACATT
AGGTTGTTGGTGGGGGACCACTTTCAACTTTAAACCATATGATTAATCGCTGTTACACTG
CAGTTTCCTTCCGGTTATTGTGGTGGGTGGCTAAATTCTAATTTATATCCTCGTTCCGCT
CAACTCTTCGATTGTAGACGACTATCAAATGAACTAGGTGCTGTAAGCTTCCGAGTAGCG
TTCAGTTACGAGGGGTTGAGGCTTTTCCATTAGTTCTTACTCAATATAATATTACACACA
ATGTCTATGGTAGCCAAACGTCTCTTCACCACCCAATCAATCGAATCAGCCAAAAAGATT
CTTTCCTCATTACCAAAGAGCAACATGGATCAAAAAATCAAAGATTTACTCGAGAAAAAC
GCTGACATCGCCAAAAAATATAACTTAAAATACACCCCAAAGACTGAACAAGAACAATTA
AATGAAATCGTAGAAATCACCAACTCATTCAAAAAAGCAGGAGAAAAAGCTTTCGAAGCT
ATGGGTAAAGCATACAAAGATGTTCAACCAATTGAAACTAAAACCGTCAAGGATTTCATT
CCAGAATACACTGCTTAAATAAATAAATGATGATAATAATAATAGTTTAAATNAAATATT
ACAAACCAAATTTAGTAAAATCATAAACAATAAAACAAGTTGGAGAGAATTTTAAAT

>CHL118P.Seq
ANGACGGTGGCCATGGAAGTCGGTATCCGCTAANGANTGTGTAACAACTCACCTGCCAAA
TGGACTATGCCCTGAAAATGGATGACGCTAGCAGTGGATGGTCGATGCCCAATCGTTAAA
AGAAGTGATAATACTTTTAACGTGTAGGAAGGCGTGAAGGTAACGTAGAAGCTTGAATGT
GAATTCGAGTGGAGTTGTCTTTATTGCAGATCTTGATGGTAGTAGCAAATATTCAAAAGA
ATTTACTTTGAANGCCGAAGTGGGGAAAGGTTCCATAACAATGGAATTCACTTATGGGTG
AGTCGATCCTAAAGTTTGGGTTAACTCTCTCTAATAA----------AGTGACCTGCCGC
TACCATCCGTTGGATAATGGCTGAACGCCTCTAAGTCAGAATCCATTCTAGAAACGCAAA
CCAAATGCTTTAGAGTGTGAATGTTGTAGGTAACATTAGGTTGTTGGTGGGGGACCACTT
TCAACTTTAAACCATATGATTAATCGCTGTTACACTGCAGTTTCCTTCCGGTTATTGTGG
TGGGTGGCTAAATTCTAATTTATATCCTCGTTCCGCTCAACTCTTCGATTGTAGACGACT
ATCAAATGAACTAGGTGCTGTAAGCTTCCGAGTAGCGTTCAGTTACGAGGGGTTGAGGCT
TTTCCATTAGTTCTTACTCAATATAATATTACACACAATGTCTATGGTAGCCAAACGTCT
CTTCACCACCCAATCAATCGAATCAGCCAAAAAGATTCTTTCCTCATTACCAAAGAGCAA
CATGGATCAAAAAATCAAAGATTTACTCGAGAAAAACGCTGACATCGCCAAAAAATATAA
CTTAAAATACACCCCAAAGACTGAACAAGAACAATTAAATGAAATCGTAGAAATCACCAA
CTCATTCAAAAAAGCAGGAGAAAAAGCTTTCGAAGCTATGGGTAAAGCATACAAAGATGT
TCAACCAATTGAAACTAAAACCGTCAAGGATTTCATTCCAGAATACACTGCTTAAATAAA
TAAATGATGATAATAATAATAGTTTAAATNAAATATTACAAACCAAATTTAGTAAAATCA
TAAACAATAAAACAAGTTGGAGAGAATTTTAAAT