>VSD202 (VSD202Q) /CSM/VS/VSD2-A/VSD202Q.Seq.d/
CATAATATAAAAAAATGGTTGGATATAGACAAAAATGGGTACAAGATTTACCACCAGCTG
GAGGTTTCCCAAAATTAAAATATGCTAGAACTTCAACTTCACCAATTCCAGGTGCCTACA
TTTTCGCAGGTGTCTTTTCAATTATGGCTGTTGGTACTTACATTTTCTTTTCAGATAAAG
TTGAAAGAAACGCAAGAGAAGAAGAAGAAAAGAGAAGATTATCAATGATTTTACCAATTT
TACAAGCAGAGAATGATATTAATTTCCTTGCATCACCACATCAAAATGTATACTTTACAA
GATGGATGCCACCACAAACTGGAAAGAGAGCTGCCGCACTTCTCAGAGACCTTTAAAATA
ATAGTAAAAAGAAAAAAACATTTATATATATATAATAAACCTTAGTAATATTAGAAAATA
ATAAAAAAAAAAXXXXXXXXXXTNCAGGGGCCTANATTTTTGCAGGNGTNTTTTCAANTA
NGGNTGTTGGGACTTANATTTTNTTTTCANAAAAANTTTAAAAAAACNCAAAANAANAAA
AAAAAAAAAGAAGATTATCAATGATTTTNCCNATTTTACAANCAAANAATGATATTAATT
TCCNTGNATCNCCNCANCAAAATGNANACNTTACAANATGGANGCCCCCCCNAACTGGAA
AAANANCNGCCGCNCTTNTCANAGACCNTTTAAANAANAGNAAAAANAAAAAAACNTTTA
NANANAAANAANAAACCNTAGNAAAATTAGNAAANAATAAAAAAAAAAAAAACAAGAAAC
AACAAAAACAACAAAAACAAAAAACAAAAACAAAAAATAAAAAAAAACTCGTACAT

*ykkmvgyrqkwvqdlppaggfpklkyartstspipgayifagvfsimavgtyiffsdkv
ernareeeekrrlsmilpilqaendinflasphqnvyftrwmppqtgkraaallrdl*nn
skkkktfiyi**TLVILENNKKK---

---XRGLXFCRXXFXXGCWDLXFXFXKXLKKXKXXKKKKKIINDFXXFTXKX*y*fpxix
xxkxxxyxmxappnwkxxxrxxxrpfkxxxkxknxxxxxxnxxkixkx*kkkkqettktt
ktknknkk*kktrt

Frame A:
hnikkwldidkngykiyhqlevsqn*nmlelqlhqfqvptfsqvsfqlwllvltfsfqik
lketqekkkkredyq*fyqfykqrmilislhhhikmytlqdgchhklerelphfsetfki
ivkrkkhlyiynkp**y*kiikkk---

---XRGLXFCRXXFXXGCWDLXFXFXKXLKKXKXXKKKKKIINDFXXFTXKX*y*fpxix
xxkxxxyxmxappnwkxxxrxxxrpfkxxxkxknxxxxxxnxxkixkx*kkkkqettktt
ktknknkk*kktrt

Frame B:
ii*kngwi*tkmgtrfttswrfpkikic*nfnftnsrclhfrrclfnygcwylhflfr*s
*kkrkrrrrkekiindftnftsre*y*fpcittskcilykmdattnwkescrtsqrplk*
**kekniyiyiinlsnirk**kk---

---xgaxifagvfsxxxvgtxixfsxkx*knxkxxkkkrrlsmixpilqxxndinfxxsp
xqnxxxtxwxppxtgkxxaalxxdxlxxxkxkktfxxkxxtxxklxxnkkkknkkqqkqq
kqktktknkkklvh

Frame C:
*ykkmvgyrqkwvqdlppaggfpklkyartstspipgayifagvfsimavgtyiffsdkv
ernareeeekrrlsmilpilqaendinflasphqnvyftrwmppqtgkraaallrdl*nn
skkkktfiyi**TLVILENNKKK---

---qgpxflqxxfqxxxlglxfxfxkxfkktqxxkkkkedyq*fxxfyxqxmilisxxxx
xkmxtlqxgxppxlekxxpxxsxtx*xxxkxkkxlxxxxkp*xn*xxikkkktrnnknnk
nkkqkqkikknsy

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK321 (VSK321Q) /CSM/VS/VSK3-A/VSK321Q.Seq.d/                        329   4e-89
VSD202 (VSD202Q) /CSM/VS/VSD2-A/VSD202Q.Seq.d/                        329   4e-89
VHD547 (VHD547Q) /CSM/VH/VHD5-B/VHD547Q.Seq.d/                        329   4e-89
SSF538 (SSF538Q) /CSM/SS/SSF5-B/SSF538Q.Seq.d/                        329   4e-89
VSE115 (VSE115Q) /CSM/VS/VSE1-A/VSE115Q.Seq.d/                        305   6e-82
VFM580 (VFM580Q) /CSM/VF/VFM5-D/VFM580Q.Seq.d/                         36   0.83
VFH159 (VFH159Q) /CSM/VF/VFH1-C/VFH159Q.Seq.d/                         36   0.83
SSB802 (SSB802Q) /CSM/SS/SSB8-A/SSB802Q.Seq.d/                         36   0.83
CHR704 (CHR704Q) /CSM/CH/CHR7-A/CHR704Q.Seq.d/                         36   0.83
VHA322 (VHA322Q) /CSM/VH/VHA3-A/VHA322Q.Seq.d/                         34   3.3

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

AC116986|AC116986.2 Dictyostelium discoideum chromosome 2 map 2234041-2567370 strain AX4, complete sequence.   329  e-153  3
AE000488|AE000488.1 Escherichia coli K12 MG1655 section 378 of 400 of the complete genome.    46  0.70  1
AE005649|AE005649.1 Escherichia coli O157:H7 EDL933 genome, contig 3 of 3, section 268 of 290.    46  0.70  1
U14003|U14003.1 Escherichia coli K-12 chromosomal region from 92.8 to 00.1 minutes.    46  0.70  1
AE016771|AE016771.1 Escherichia coli CFT073 section 17 of 18 of the complete genome.    46  0.70  1
AL137081|AL137081.1 Arabidopsis thaliana DNA chromosome 3, BAC clone F9D24.    46  0.70  1
AE016993|AE016993.1 Shigella flexneri 2a str. 2457T section 16 of 16 of the complete genome.    46  0.70  1
AC020850|AC020850.3 Mus musculus clone RP21-460J8, WORKING DRAFT SEQUENCE, 179 unordered pieces.    46  0.70  1
AP002568|AP002568.1 Escherichia coli O157:H7 DNA, complete genome, section 19/20.    46  0.70  1
AE015438|AE015438.1 Shigella flexneri 2a str. 301 section 401 of 412 of the complete genome.    46  0.77  2

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q86IZ2) RecName: Full=NADH dehydrogenase [ubiquinone] 1 alpha s...   204   3e-51
AY365055_1(AY365055|pid:none) Chlamydomonas reinhardtii NADH:ubi...    48   4e-04
FB807234_1(FB807234|pid:none) Sequence 26507 from Patent WO20080...    46   0.001
AJ311660_1(AJ311660|pid:none) Gossypium hirsutum mRNA for hypoth...    46   0.001
FB807208_1(FB807208|pid:none) Sequence 26481 from Patent WO20080...    45   0.002
CP001327_659(CP001327|pid:none) Micromonas sp. RCC299 chromosome...    43   0.011
AE017349_163(AE017349|pid:none) Cryptococcus neoformans var. neo...    43   0.015
BT053264_1(BT053264|pid:none) Medicago truncatula clone MTYFP_FQ...    43   0.015
AK070573_1(AK070573|pid:none) Oryza sativa Japonica Group cDNA c...    43   0.015
AM434081_1(AM434081|pid:none) Vitis vinifera contig VV78X159779....    43   0.015

 psg: 0.60  gvh: 0.54  alm: 0.52  top: 0.53  tms: 0.00  mit: 0.22  mip: 0.00
 nuc: 0.20  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 

	 60.0 %: nuclear
	 32.0 %: cytoplasmic
	  8.0 %: mitochondrial

>> prediction for VSD202 is nuc

>VSD202F.Seq
CATAATATAAAAAAATGGTTGGATATAGACAAAAATGGGTACAAGATTTACCACCAGCTG
GAGGTTTCCCAAAATTAAAATATGCTAGAACTTCAACTTCACCAATTCCAGGTGCCTACA
TTTTCGCAGGTGTCTTTTCAATTATGGCTGTTGGTACTTACATTTTCTTTTCAGATAAAG
TTGAAAGAAACGCAAGAGAAGAAGAAGAAAAGAGAAGATTATCAATGATTTTACCAATTT
TACAAGCAGAGAATGATATTAATTTCCTTGCATCACCACATCAAAATGTATACTTTACAA
GATGGATGCCACCACAAACTGGAAAGAGAGCTGCCGCACTTCTCAGAGACCTTTAAAATA
ATAGTAAAAAGAAAAAAACATTTATATATATATAATAAACCTTAGTAATATTAGAAAATA
ATAAAAAAAAAA----------

>VSD202Z.Seq
----------TNCAGGGGCCTANATTTTTGCAGGNGTNTTTTCAANTANGGNTGTTGGGA
CTTANATTTTNTTTTCANAAAAANTTTAAAAAAACNCAAAANAANAAAAAAAAAAAAGAA
GATTATCAATGATTTTNCCNATTTTACAANCAAANAATGATATTAATTTCCNTGNATCNC
CNCANCAAAATGNANACNTTACAANATGGANGCCCCCCCNAACTGGAAAAANANCNGCCG
CNCTTNTCANAGACCNTTTAAANAANAGNAAAAANAAAAAAACNTTTANANANAAANAAN
AAACCNTAGNAAAATTAGNAAANAATAAAAAAAAAAAAAACAAGAAACAACAAAAACAAC
AAAAACAAAAAACAAAAACAAAAAATAAAAAAAAACTCGTACAT

>VSD202P.Seq
CATAATATAAAAAAATGGTTGGATATAGACAAAAATGGGTACAAGATTTACCACCAGCTG
GAGGTTTCCCAAAATTAAAATATGCTAGAACTTCAACTTCACCAATTCCAGGTGCCTACA
TTTTCGCAGGTGTCTTTTCAATTATGGCTGTTGGTACTTACATTTTCTTTTCAGATAAAG
TTGAAAGAAACGCAAGAGAAGAAGAAGAAAAGAGAAGATTATCAATGATTTTACCAATTT
TACAAGCAGAGAATGATATTAATTTCCTTGCATCACCACATCAAAATGTATACTTTACAA
GATGGATGCCACCACAAACTGGAAAGAGAGCTGCCGCACTTCTCAGAGACCTTTAAAATA
ATAGTAAAAAGAAAAAAACATTTATATATATATAATAAACCTTAGTAATATTAGAAAATA
ATAAAAAAAAAA----------TNCAGGGGCCTANATTTTTGCAGGNGTNTTTTCAANTA
NGGNTGTTGGGACTTANATTTTNTTTTCANAAAAANTTTAAAAAAACNCAAAANAANAAA
AAAAAAAAAGAAGATTATCAATGATTTTNCCNATTTTACAANCAAANAATGATATTAATT
TCCNTGNATCNCCNCANCAAAATGNANACNTTACAANATGGANGCCCCCCCNAACTGGAA
AAANANCNGCCGCNCTTNTCANAGACCNTTTAAANAANAGNAAAAANAAAAAAACNTTTA
NANANAAANAANAAACCNTAGNAAAATTAGNAAANAATAAAAAAAAAAAAAACAAGAAAC
AACAAAAACAACAAAAACAAAAAACAAAAACAAAAAATAAAAAAAAACTCGTACAT