>VHP173 (VHP173Q) /CSM/VH/VHP1-D/VHP173Q.Seq.d/
XXXXXXXXXXATCAATCATTGCCNGCCAGAAAGAATGCTCATAATCATCTATACCCAGAG
TATAAGAATGCNTCAAAGTCAATCATCAATGAAAAGAAGATCTCTGAAGATTTAATTAGA
TATGTTATCGATTCTGATCTCATCTCTCATAAATATAATGTTGCCCCATCCATCGATAAA
GAAGACAAGGTCGATTTTAGAACTTTGAAATTGGATCCAGAAACTGAGCATCAATATGCC
CACCACATTAAAGAGTTTAGAGATAAAGATGCCAAAGGTCTCATCTCTCAACAAGATGCC
TTTGAATTTACAAATTACATCAACTACTTAAAGGAAAGTTCTGCTACTTCTCCAATCATT
CAATCTCTTAAATCTTCAATTCATATGAAATCAAATAACAATGAACTCATCGATCAATTC
AATGCTGAATCTTTAGAAAAAGATACCACCACCACCGATAAACTCTCCCCTGAAGGTTTG
TTCTTTAAGCAACTCGGAGAAATGTTCCCTTCCGAAGCTGATAAAGAAATTGCTATCAAT
ACTCTCTTATATCAAAATAATAAAAATCAAAAGATTCAAAAACTTGAAAATGATTTGGTT
AATGCAATCTCTAAGGATTCCACCATTCGTATTCCTTCTCCAAAAGAATTAAATCAATCT
CTTGCTNATGCCAAAGTTGAATTCTCCAAAAAAA

---QSLPARKNAHNHLYPEYKNASKSIINEKKISEDLIRYVIDSDLISHKYNVAPSIDKE
DKVDFRTLKLDPETEHQYAHHIKEFRDKDAKGLISQQDAFEFTNYINYLKESSATSPIIQ
SLKSSIHMKSNNNELIDQFNAESLEKDTTTTDKLSPEGLFFKQLGEMFPSEADKEIAINT
LLYQNNKNQKIQKLENDLVNAISKDSTIRIPSPKELNQSLAXAKVEFSKK

Frame A:
---siiaxqkecs*ssiprv*ecxkvnhq*kedl*rfn*icyrf*shls*i*ccpihr*r
rqgrf*nfeigsrn*asicpph*rv*r*rcqrshlstrcl*iyklhqllkgkfcyfsnhs
is*ifnsyeik*q*thrsiqc*ifrkryhhhr*tlp*rfvl*atrrnvpfrs**rncyqy
slisk**kskdskt*k*fg*cnl*gfhhsysfskriksiscxcqs*ilqk


Frame B:
---QSLPARKNAHNHLYPEYKNASKSIINEKKISEDLIRYVIDSDLISHKYNVAPSIDKE
DKVDFRTLKLDPETEHQYAHHIKEFRDKDAKGLISQQDAFEFTNYINYLKESSATSPIIQ
SLKSSIHMKSNNNELIDQFNAESLEKDTTTTDKLSPEGLFFKQLGEMFPSEADKEIAINT
LLYQNNKNQKIQKLENDLVNAISKDSTIRIPSPKELNQSLAXAKVEFSKK


Frame C:
---nhcxpermliiiytqsirmxqsqssmkrrslki*ldmlsilisslinimlphpsikk
trsilel*nwiqklsinmpttlksleikmpkvsslnkmplnlqitstt*rkvllllqsfn
llnlqfi*nqitmnssinsmlnl*kkippppinsplkvcslsnsekcslpklikkllsil
syikiikikrfknlkmiwlmqslrippfvfllqkn*inlllmpklnspkk

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHP173 (VHP173Q) /CSM/VH/VHP1-D/VHP173Q.Seq.d/                       1059   0.0
VHO315 (VHO315Q) /CSM/VH/VHO3-A/VHO315Q.Seq.d/                       1051   0.0
VHN232 (VHN232Q) /CSM/VH/VHN2-B/VHN232Q.Seq.d/                       1051   0.0
VHN206 (VHN206Q) /CSM/VH/VHN2-A/VHN206Q.Seq.d/                       1051   0.0
VHC224 (VHC224Q) /CSM/VH/VHC2-A/VHC224Q.Seq.d/                       1051   0.0
VHA418 (VHA418Q) /CSM/VH/VHA4-A/VHA418Q.Seq.d/                       1051   0.0
VHA130 (VHA130Q) /CSM/VH/VHA1-B/VHA130Q.Seq.d/                       1051   0.0
VFL546 (VFL546Q) /CSM/VF/VFL5-B/VFL546Q.Seq.d/                       1051   0.0
SHK605 (SHK605Q) /CSM/SH/SHK6-A/SHK605Q.Seq.d/                       1051   0.0
AHL671 (AHL671Q) /CSM/AH/AHL6-C/AHL671Q.Seq.d/                       1051   0.0

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

AC131116|AC131116.1 Mus musculus chromosome UNK clone RP24-344M21, WORKING DRAFT SEQUENCE, 8 unordered pieces.    44   0.15   7
AC100002|AC100002.1 Mus musculus clone RP23-27I13, LOW-PASS SEQUENCE SAMPLING.    38   0.22   4
AC102589|AC102589.3 Mus musculus clone RP23-334O19, WORKING DRAFT SEQUENCE, 5 unordered pieces.    38   0.36   9
AP005547|AP005547.1 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 9, BAC clone:OJ1031_C12, WORKING DRAFT SEQUENCE, 1 ordered pieces.    34   0.83   7
BX294366|BX294366.3 Mouse DNA sequence *** SEQUENCING IN PROGRESS *** from clone  RP23-305J20.    34   0.92   8
AC100647|AC100647.1 Mus musculus clone RP23-162K17, LOW-PASS SEQUENCE SAMPLING.    34   0.99   5
AL928746|AL928746.4 Oryza sativa chromosome 12, ***SEQUENCING IN PROGRESS***. BAC  OSJNBb0040K21 of library OSJNBb from chromosome 12 of cultivar  Nipponbare of ssp. japonica of Oryza sativa (rice).    36   1.0    5
AC131104|AC131104.3 Mus musculus chromosome 12 clone RP23-245G19, complete sequence.    34   1.2    2
BX276100|BX276100.2 Oryza sativa chromosome 12, ***SEQUENCING IN PROGRESS***. BAC  OSJNBa0076H14 of library OSJNBa from chromosome 12 of cultivar  Nipponbare of ssp. japonica of Oryza sativa (rice).    36   1.8    5
AC113065|AC113065.4 Mus musculus clone RP23-263E7, WORKING DRAFT SEQUENCE, 20 ordered pieces.    30   1.9    9

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

FM864216_503(FM864216|pid:none) Mycoplasma conjunctivae HRC/581T...    40   0.052
CU179680_105(CU179680|pid:none) Mycoplasma agalactiae PG2 chromo...    40   0.089
CP001130_776(CP001130|pid:none) Hydrogenobaculum sp. Y04AAS1, co...    39   0.15
CP000383_40(CP000383|pid:none) Cytophaga hutchinsonii ATCC 33406...    38   0.26
CP001357_1786(CP001357|pid:none) Brachyspira hyodysenteriae WA1,...    37   0.44
CP000025_934(CP000025|pid:none) Campylobacter jejuni RM1221, com...    37   0.44
AE001362_41(AE001362|pid:none) Plasmodium falciparum 3D7 chromos...    37   0.75
CR382137_355(CR382137|pid:none) Debaryomyces hansenii strain CBS...    37   0.75
AE008384_3143(AE008384|pid:none) Methanosarcina mazei strain Goe...    37   0.75
AY325220_1(AY325220|pid:none) Rattus norvegicus Ac2-154 mRNA, co...    36   0.98

 psg: 0.63  gvh: 0.20  alm: 0.56  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.02
 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 

	 44.0 %: nuclear
	 24.0 %: cytoplasmic
	 16.0 %: cytoskeletal
	 12.0 %: mitochondrial
	  4.0 %: extracellular, including cell wall

>> prediction for VHP173 is nuc

>VHP173Z.Seq
NNNNNNNNNNATCAATCATTGCCNGCCAGAAAGAATGCTCATAATCATCTATACCCAGAG
TATAAGAATGCNTCAAAGTCAATCATCAATGAAAAGAAGATCTCTGAAGATTTAATTAGA
TATGTTATCGATTCTGATCTCATCTCTCATAAATATAATGTTGCCCCATCCATCGATAAA
GAAGACAAGGTCGATTTTAGAACTTTGAAATTGGATCCAGAAACTGAGCATCAATATGCC
CACCACATTAAAGAGTTTAGAGATAAAGATGCCAAAGGTCTCATCTCTCAACAAGATGCC
TTTGAATTTACAAATTACATCAACTACTTAAAGGAAAGTTCTGCTACTTCTCCAATCATT
CAATCTCTTAAATCTTCAATTCATATGAAATCAAATAACAATGAACTCATCGATCAATTC
AATGCTGAATCTTTAGAAAAAGATACCACCACCACCGATAAACTCTCCCCTGAAGGTTTG
TTCTTTAAGCAACTCGGAGAAATGTTCCCTTCCGAAGCTGATAAAGAAATTGCTATCAAT
ACTCTCTTATATCAAAATAATAAAAATCAAAAGATTCAAAAACTTGAAAATGATTTGGTT
AATGCAATCTCTAAGGATTCCACCATTCGTATTCCTTCTCCAAAAGAATTAAATCAATCT
CTTGCTNATGCCAAAGTTGAATTCTCCAAAAAAA