>VHA465 (VHA465Q) /CSM/VH/VHA4-C/VHA465Q.Seq.d/
AGTAAGCAGAACTGGCGATGTGGGTTGAACCAAATATTGGGATAAGACGTCTAACATTCA
CTAATAGATACCACAAAAGGTGTTAGTTCATTAAGACAGCAGGACGGTGGCCATGGAAGT
CGGTATCCGCTAAGGAGTGTGTAACAACTCACCTGCCAAATGGACTAGCCCTGAAAATGG
ATGACGCTAGCAGTGGATGGTCGATGCCCAATCGTTAAAAGAAGTGATAATACTTTTAAC
GTGTAGGAAGGCGTGAAGGTAACGTAGAAGCTTGAATGTGAATTCGAGTGGAGTTGTCTT
TAGTGCAGATCTTGATGGTAGTAGCAAATATTCAAAAGAATTTACTTTGAAGGCCGAAGT
GGGGAAGGGTTCCATAACAATGGAATTCACTTATGGGTGAGTCGATCCTAAGGTTTGGGT
TAACTCTCTCTAATAAGGTTACTAGGTCATTGGATCGAAAGTGAAGGTGGCTTTAACACT
AGTGACTTTATAGGCCGAAAGGGAAGCGGGTTAAAATTCCTGCACCATCGAATGGGATAT
TAGGGTAACCGATCGTAATCCGGGACATCAATTGGCGGTCGAXXXXXXXXXXTAACGCAA
GTGTCCAAAGGCAGGCTCAGTGAGAACAGAAATTCTCACGTAGAGTAAAAGGGCAAAAGC
CTGCTTGATTCTGATTTTCAGTACTAATCGGAACTGGGAAACCAGGGCCTATCGATCCTT
TATGTGCTTAAATCTTAAGCCTAGAGGTGTCAGAAAAGTTACCACAGGGATAACTGGCTT
GTGGCAGCCAAGCGCTCATAGCGACGCTGCTTTTTGATCCTTCGATGTCGGCTCTTCTTA
TCATTGTGAAGCAGAATTCACAAAGTGTTGGATTGTTCACCCACTAACAAGGAACGTGAG
CTGGGTTTAGACCGTCGTGAGACAGGTTAGTTTTACCCTACTGTTGTCAATTGTTTGCGT
AATAGTAGCATGATTTAGTACGAGAGGAACTGTCATGCCGGATCACTGGTCTGTAGGTTT
ATTTGACAAAATAGTGACCTGCCGCTACCATCCGTTGGATAATGGCTGAACGCCTCTAAG
TCAGAATCCATTCTAGAAACGCAAACCAAATGCTTTAGAGTGTGAATGTTGTAGGTAACA
TTAGGTTGTTGGTGGGGGACCACTTTCAACTTTAAACCATATGATTAATCGCTGTTACAC
TGCAGTTTCCTTCCGGTTATTGTGGTGGGTGGCTAAATTCTAATTTATATCCTCGTTCCG
CTCAACTCTTCGATTGTAGACGACTATCAAATGAACTAGGTGCTGTAAGCTTCCGAGTAG
CGTTCAGTTACGAGGGGTTGAGGCTTTTCCAT

vsrtgdvg*tkywdktsnih**ipqkvlvh*dsrtvamevgir*gvcnnspakwtspeng
*r*qwmvdaqslkeviilltcrka*r*rrslnvnssgvvfsadldgsskyskeftlkaev
gkgsitmeftyg*vdpkvwvnsl**gy*vigskvkvaltlvtl*aereag*NSCTIEWDI
RVTDRNPGHQLAV---

---TQVSKGRLSENRNSHVE*kgkslldsdfqy*selgnqglsilyvlks*a*rcqksyh
rdnwlvaakrs*rrcflilrcrlflsl*srihkvldcsptnkerelgldrretg*fyptv
vnclrnssmi*yernchagslvcrfi*qnsdlplpsvg*wlnasksesiletqtkcfrv*
ml*vtlgcwwgttfnfkpyd*sllhcsflpvivvgg*iliyilvplnssivddyqmn*vl
*ase*rsvtrg*gfs

Frame A:
skqnwrcglnqilg*dv*hslidttkgvsslrqqdgghgsryplrsv*qltcqmd*p*kw
mtlavdgrcpivkrsdntfnv*egvkvt*klecefewscl*crs*w**qifkriyfegrs
gegfhnngihlwvsrs*glg*lslirllghwieseggfntsdfigrkgsglkflhhrmgy
*gnrs*sgtsiggr---

---*rkcpkagsvrteilt*skrakaclilifstnrnwetrayrsfmclnlkprgvrkvt
tgitglwqpsahsdaaf*sfdvgssyhceaeftkcwivhpltrnvswv*tvvrqvsftll
lsivcviva*fstrgtvmpdhwsvglfdkivtcryhpldng*tplsqnpf*krkpnalec
eccr*h*vvgggplstlnhminrcytavsfrllwwvakf*fissfrstlrl*ttik*trc
cklpssvqlrgveafp

Frame B:
vsrtgdvg*tkywdktsnih**ipqkvlvh*dsrtvamevgir*gvcnnspakwtspeng
*r*qwmvdaqslkeviilltcrka*r*rrslnvnssgvvfsadldgsskyskeftlkaev
gkgsitmeftyg*vdpkvwvnsl**gy*vigskvkvaltlvtl*aereag*NSCTIEWDI
RVTDRNPGHQLAV---

---nasvqrqaq*eqkfsrrvkgqkpa*f*fsvligtgkpgpidplca*ilslevseklp
qg*lacgsqaliatllfdpsmsalliivkqnsqsvglfth*qgt*agfrps*drlvlpyc
cqlfa***hdlvreelscritgl*vyltk**paatirwimaerl*vrihsrnanqml*sv
nvvgnirllvgdhfql*ti*liavtlqfpsgycggwlnsnlyprsaqlfdcrrlsnelga
vsfrvafsyeglrlfh

Frame C:
*aelamwvepnigirrltftnryhkrc*fiktagrwpwksvsakecvtthlpnglalkmd
dassgwsmpnr*kk**yf*rvgrregnvea*m*irvelslvqilmvvaniqknll*rpkw
grvp*qwnslmgesilrfgltlsnkvtrsldrk*rwl*h**lyrpkgkrvkipapsngil
g*pivirdinwrs---

---TQVSKGRLSENRNSHVE*kgkslldsdfqy*selgnqglsilyvlks*a*rcqksyh
rdnwlvaakrs*rrcflilrcrlflsl*srihkvldcsptnkerelgldrretg*fyptv
vnclrnssmi*yernchagslvcrfi*qnsdlplpsvg*wlnasksesiletqtkcfrv*
ml*vtlgcwwgttfnfkpyd*sllhcsflpvivvgg*iliyilvplnssivddyqmn*vl
*ase*rsvtrg*gfs

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHA465 (VHA465Q) /CSM/VH/VHA4-C/VHA465Q.Seq.d/                       2621   0.0
VHD592 (VHD592Q) /CSM/VH/VHD5-D/VHD592Q.Seq.d/                       1507   0.0
SHA880 (SHA880Q) /CSM/SH/SHA8-D/SHA880Q.Seq.d/                       1507   0.0
CHI557 (CHI557Q) /CSM/CH/CHI5-C/CHI557Q.Seq.d/                       1507   0.0
VHK846 (VHK846Q) /CSM/VH/VHK8-B/VHK846Q.Seq.d/                       1497   0.0
SLE369 (SLE369Q) /CSM/SL/SLE3-C/SLE369Q.Seq.d/                       1491   0.0
VHK190 (VHK190Q) /CSM/VH/VHK1-D/VHK190Q.Seq.d/                       1483   0.0
CHL604 (CHL604Q) /CSM/CH/CHL6-A/CHL604Q.Seq.d/                       1483   0.0
VHA301 (VHA301Q) /CSM/VH/VHA3-A/VHA301Q.Seq.d/                       1481   0.0
CHM788 (CHM788Q) /CSM/CH/CHM7-D/CHM788Q.Seq.d/                       1477   0.0

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

AY171066|AY171066.1 Dictyostelium discoideum extrachromosomal palindromic ribosomal RNA gene sequence, central segment.  1425   0.0    2
DQ340385|DQ340385.1 Dictyostelium citrinum 17S ribosomal RNA, 5.8S ribosomal RNA, 26S ribosomal RNA, and 5S ribosomal RNA genes, complete sequence.  1409   0.0    2
X00601|X00601.1 Dictyostelium discoideum ribosomal RNA gene.     1144   0.0    1
DQ340386|DQ340386.1 Dictyostelium purpureum 17S ribosomal RNA, 5.8S ribosomal RNA, 26S ribosomal RNA, and 5S ribosomal RNA genes, complete sequence.   846   0.0    6
DQ340387|DQ340387.1 Dictyostelium polycephalum 17S ribosomal RNA, 5.8S ribosomal RNA, and 26S ribosomal RNA genes, complete sequence.   474   0.0    10
DQ340388|DQ340388.1 Polysphondylium pallidum 17S ribosomal RNA, 5.8S ribosomal RNA, 26S ribosomal RNA, and 5S ribosomal RNA genes, complete sequence.   379   0.0    10
AM183920|AM183920.1 Geosiphon pyriformis partial 28S rRNA gene.   321   0.0    12
AF289047|AF289047.1 Pelagomonas calceolata internal transcribed spacer 1, 5.8S ribosomal RNA gene, internal transcribed spacer 2, and 28S ribosomal RNA gene, complete sequence.   323   0.0    11
AF289046|AF289046.1 Dictyocha speculum internal transcribed spacer 1, 5.8S ribosomal RNA gene, internal transcribed spacer 2, and 28S ribosomal RNA gene, complete sequence.   323   0.0    11
AY157702|AY157702.1 Microzonia velutina 28S ribosomal RNA gene, complete sequence.   323   0.0    11

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

EU430725_1(EU430725|pid:none) Cupressus sempervirens clone CYPLP...   140   1e-31
AY436773_1(AY436773|pid:none) Pyrus communis putative senescence...   104   8e-21
CP001575_406(CP001575|pid:none) Micromonas sp. RCC299 chromosome...   102   2e-20
AK230153_1(AK230153|pid:none) Arabidopsis thaliana mRNA for hypo...    99   3e-19
EF192058_1(EF192058|pid:none) Trichosanthes dioica clone TDM04 p...    78   6e-13
EU244380_1(EU244380|pid:none) Haliotis diversicolor clone HDr4CJ...    73   2e-11
BC114377_1(BC114377|pid:none) Homo sapiens cDNA clone MGC:134704...    68   9e-10
AL844507_287(AL844507|pid:none) Plasmodium falciparum 3D7 chromo...    66   3e-09
CP000497_644(CP000497|pid:none) Pichia stipitis CBS 6054 chromos...    60   5e-08
U12823_1(U12823|pid:none) Acanthamoeba polyphaga CDC:0187:1 hemo...    45   4e-05

 psg: 0.75  gvh: 0.31  alm: 0.67  top: 0.53  tms: 0.00  mit: 0.19  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 

	 36.0 %: cytoplasmic
	 36.0 %: nuclear
	 16.0 %: cytoskeletal
	 12.0 %: mitochondrial

>> prediction for VHA465 is cyt

>VHA465F.Seq
AGTAAGCAGAACTGGCGATGTGGGTTGAACCAAATATTGGGATAAGACGTCTAACATTCA
CTAATAGATACCACAAAAGGTGTTAGTTCATTAAGACAGCAGGACGGTGGCCATGGAAGT
CGGTATCCGCTAAGGAGTGTGTAACAACTCACCTGCCAAATGGACTAGCCCTGAAAATGG
ATGACGCTAGCAGTGGATGGTCGATGCCCAATCGTTAAAAGAAGTGATAATACTTTTAAC
GTGTAGGAAGGCGTGAAGGTAACGTAGAAGCTTGAATGTGAATTCGAGTGGAGTTGTCTT
TAGTGCAGATCTTGATGGTAGTAGCAAATATTCAAAAGAATTTACTTTGAAGGCCGAAGT
GGGGAAGGGTTCCATAACAATGGAATTCACTTATGGGTGAGTCGATCCTAAGGTTTGGGT
TAACTCTCTCTAATAAGGTTACTAGGTCATTGGATCGAAAGTGAAGGTGGCTTTAACACT
AGTGACTTTATAGGCCGAAAGGGAAGCGGGTTAAAATTCCTGCACCATCGAATGGGATAT
TAGGGTAACCGATCGTAATCCGGGACATCAATTGGCGGTCGANNNNNNNNNN

>VHA465Z.Seq
NNNNNNNNNNTAACGCAAGTGTCCAAAGGCAGGCTCAGTGAGAACAGAAATTCTCACGTA
GAGTAAAAGGGCAAAAGCCTGCTTGATTCTGATTTTCAGTACTAATCGGAACTGGGAAAC
CAGGGCCTATCGATCCTTTATGTGCTTAAATCTTAAGCCTAGAGGTGTCAGAAAAGTTAC
CACAGGGATAACTGGCTTGTGGCAGCCAAGCGCTCATAGCGACGCTGCTTTTTGATCCTT
CGATGTCGGCTCTTCTTATCATTGTGAAGCAGAATTCACAAAGTGTTGGATTGTTCACCC
ACTAACAAGGAACGTGAGCTGGGTTTAGACCGTCGTGAGACAGGTTAGTTTTACCCTACT
GTTGTCAATTGTTTGCGTAATAGTAGCATGATTTAGTACGAGAGGAACTGTCATGCCGGA
TCACTGGTCTGTAGGTTTATTTGACAAAATAGTGACCTGCCGCTACCATCCGTTGGATAA
TGGCTGAACGCCTCTAAGTCAGAATCCATTCTAGAAACGCAAACCAAATGCTTTAGAGTG
TGAATGTTGTAGGTAACATTAGGTTGTTGGTGGGGGACCACTTTCAACTTTAAACCATAT
GATTAATCGCTGTTACACTGCAGTTTCCTTCCGGTTATTGTGGTGGGTGGCTAAATTCTA
ATTTATATCCTCGTTCCGCTCAACTCTTCGATTGTAGACGACTATCAAATGAACTAGGTG
CTGTAAGCTTCCGAGTAGCGTTCAGTTACGAGGGGTTGAGGCTTTTCCAT

>VHA465P.Seq
AGTAAGCAGAACTGGCGATGTGGGTTGAACCAAATATTGGGATAAGACGTCTAACATTCA
CTAATAGATACCACAAAAGGTGTTAGTTCATTAAGACAGCAGGACGGTGGCCATGGAAGT
CGGTATCCGCTAAGGAGTGTGTAACAACTCACCTGCCAAATGGACTAGCCCTGAAAATGG
ATGACGCTAGCAGTGGATGGTCGATGCCCAATCGTTAAAAGAAGTGATAATACTTTTAAC
GTGTAGGAAGGCGTGAAGGTAACGTAGAAGCTTGAATGTGAATTCGAGTGGAGTTGTCTT
TAGTGCAGATCTTGATGGTAGTAGCAAATATTCAAAAGAATTTACTTTGAAGGCCGAAGT
GGGGAAGGGTTCCATAACAATGGAATTCACTTATGGGTGAGTCGATCCTAAGGTTTGGGT
TAACTCTCTCTAATAAGGTTACTAGGTCATTGGATCGAAAGTGAAGGTGGCTTTAACACT
AGTGACTTTATAGGCCGAAAGGGAAGCGGGTTAAAATTCCTGCACCATCGAATGGGATAT
TAGGGTAACCGATCGTAATCCGGGACATCAATTGGCGGTCGA----------TAACGCAA
GTGTCCAAAGGCAGGCTCAGTGAGAACAGAAATTCTCACGTAGAGTAAAAGGGCAAAAGC
CTGCTTGATTCTGATTTTCAGTACTAATCGGAACTGGGAAACCAGGGCCTATCGATCCTT
TATGTGCTTAAATCTTAAGCCTAGAGGTGTCAGAAAAGTTACCACAGGGATAACTGGCTT
GTGGCAGCCAAGCGCTCATAGCGACGCTGCTTTTTGATCCTTCGATGTCGGCTCTTCTTA
TCATTGTGAAGCAGAATTCACAAAGTGTTGGATTGTTCACCCACTAACAAGGAACGTGAG
CTGGGTTTAGACCGTCGTGAGACAGGTTAGTTTTACCCTACTGTTGTCAATTGTTTGCGT
AATAGTAGCATGATTTAGTACGAGAGGAACTGTCATGCCGGATCACTGGTCTGTAGGTTT
ATTTGACAAAATAGTGACCTGCCGCTACCATCCGTTGGATAATGGCTGAACGCCTCTAAG
TCAGAATCCATTCTAGAAACGCAAACCAAATGCTTTAGAGTGTGAATGTTGTAGGTAACA
TTAGGTTGTTGGTGGGGGACCACTTTCAACTTTAAACCATATGATTAATCGCTGTTACAC
TGCAGTTTCCTTCCGGTTATTGTGGTGGGTGGCTAAATTCTAATTTATATCCTCGTTCCG
CTCAACTCTTCGATTGTAGACGACTATCAAATGAACTAGGTGCTGTAAGCTTCCGAGTAG
CGTTCAGTTACGAGGGGTTGAGGCTTTTCCAT