>VSA204 (VSA204Q) /CSM/VS/VSA2-A/VSA204Q.Seq.d/
XXXXXXXXXXACATTTATTCATAATCTCCACCCCACACACACATATTTATATATATATAT
AGCCACCCACTTTTAATAAATTAATAAATATATTAATAAATAAATAAATACACAATAAAT
AAATTAATAAATTAATAAATTATATGAAAAAATGACCACTACCACCACAACCAGTAATAC
ATCAAACAATAGTAATGCACAATTTAACTTTTTTAAAATGTGTATTGGAAGACCAGTCGT
TGTTAAATTAAACAATGGTGTTGAATATAGGGGTATTTTAGAAGTAGTAGATGGTAATAT
GAACATTGTAATGGAGCAAACTGAGGAATATCTTAATGGGCAATTAAAAACTAAATATGG
TGATTGCTTTTTAAGAGGAAATAATGTATTATATATTTCAGCTCAACCAAGAAAATAATA
ATTTATTAATTAAAACAAATAAAATAATTATAATCTTTTTGTAAAAAAAAAAAAATAAAA
AAAAATAAAAAAAAAAAAACAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAA

---fihnlhpthtylyiyiathf**inkyink*intq*in**INKLYEKMTTTTTTSNTS
NNSNAQFNFFKMCIGRPVVVKLNNGVEYRGILEVVDGNMNIVMEQTEEYLNGQLKTKYGD
CFLRGNNVLYISAQPRK**fin*nk*nnynlfvkkkk*kkikkkkqnkkkkkkkkkkkkk

Frame A:
---hlfiistphthiyiyi*pptfnklinilink*ihnk*inklinymkk*plppqpvih
qtivmhnltflkcvledqslln*tmvlnigvf*k**mvi*tl*wsklrnilmgn*klnmv
iaf*eeimyyifqlnqennnlliktnkiiiifl*kkknkkk*kkknktkkkkkkkkkkkk


Frame B:
---iys*spphthifiyiyshpllin**iy**inkytinklin**ii*kndhyhhnq*yi
kq**cti*lf*nvywktsrc*ikqwc*i*gyfrssrw*yehcngan*gis*waikn*iw*
llfkrk*ciiyfsstkkiiiy*lkqik*l*sfckkkkikknkkkktkqkkkkkkkkkkkk


Frame C:
---fihnlhpthtylyiyiathf**inkyink*intq*in**INKLYEKMTTTTTTSNTS
NNSNAQFNFFKMCIGRPVVVKLNNGVEYRGILEVVDGNMNIVMEQTEEYLNGQLKTKYGD
CFLRGNNVLYISAQPRK**fin*nk*nnynlfvkkkk*kkikkkkqnkkkkkkkkkkkkk

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSA204 (VSA204Q) /CSM/VS/VSA2-A/VSA204Q.Seq.d/                        613   e-174
SHA663 (SHA663Q) /CSM/SH/SHA6-C/SHA663Q.Seq.d/                         42   0.009
FC-AY13 (FC-AY13Q) /CSM/FC/FC-AY/FC-AY13Q.Seq.d/                       42   0.009
VHQ106 (VHQ106Q) /CSM/VH/VHQ1-A/VHQ106Q.Seq.d/                         40   0.034
SLF212 (SLF212Q) /CSM/SL/SLF2-A/SLF212Q.Seq.d/                         40   0.034
SHI445 (SHI445Q) /CSM/SH/SHI4-B/SHI445Q.Seq.d/                         40   0.034
SHE886 (SHE886Q) /CSM/SH/SHE8-D/SHE886Q.Seq.d/                         40   0.034
SHB808 (SHB808Q) /CSM/SH/SHB8-A/SHB808Q.Seq.d/                         40   0.034
CHJ208 (CHJ208Q) /CSM/CH/CHJ2-A/CHJ208Q.Seq.d/                         40   0.034
CHH509 (CHH509Q) /CSM/CH/CHH5-A/CHH509Q.Seq.d/                         40   0.034

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

AC116551|AC116551.2 Dictyostelium discoideum chromosome 2 map complement(581327-427576) strain AX4, complete sequence.   462  e-175  8
CA520835|CA520835.1 KS11017F06 KS11 Capsicum annuum cDNA, mRNA sequence.    48  2e-04  2
AC116956|AC116956.2 Dictyostelium discoideum chromosome 2 map 1418423-1684967 strain AX4, complete sequence.    36  2e-04  8
AC141707|AC141707.1 Apis mellifera clone CH224-56H8, WORKING DRAFT SEQUENCE, 24 unordered pieces.    56  0.001  3
AC006278|AC006278.8 Plasmodium falciparum chromosome 12 clone 3D7, *** SEQUENCING IN PROGRESS ***, 4 unordered pieces.    36  0.001  6
BQ045548|BQ045548.1 EST594665 P. infestans-challenged potato leaf, incompatible reaction Solanum tuberosum cDNA clone BPLI12M7 5' end, mRNA sequence.    54  0.002  1
AW429242|AW429242.1 EST306698 tomato flower buds 0-3 mm, Cornell University Lycopersicon esculentum cDNA clone cTOA10E2 5', mRNA sequence.    54  0.002  1
AI775882|AI775882.1 EST256982 tomato resistant, Cornell Lycopersicon esculentum cDNA clone cLER16J4, mRNA sequence.    54  0.002  1
BQ047121|BQ047121.1 EST596239 P. infestans-challenged potato leaf, incompatible reaction Solanum tuberosum cDNA clone BPLI16D18 5' end, mRNA sequence.    54  0.002  1
AW094219|AW094219.1 EST287399 tomato mixed elicitor, BTI Lycopersicon esculentum cDNA clone cLET27N3, mRNA sequence.    54  0.002  1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q552U1) RecName: Full=Probable U6 snRNA-associated Sm-like prot...   152   4e-36
BC072549_1(BC072549|pid:none) Danio rerio LSM6 homolog, U6 small...   110   2e-23
BT082878_1(BT082878|pid:none) Anoplopoma fimbria clone afim-evh-...   110   2e-23
(P62312) RecName: Full=U6 snRNA-associated Sm-like protein LSm6;...   109   5e-23
BT056850_1(BT056850|pid:none) Salmo salar clone ssal-evd-507-104...   108   9e-23
BT079796_1(BT079796|pid:none) Esox lucius clone eluc-evq-528-296...   108   9e-23
BT077535_1(BT077535|pid:none) Lepeophtheirus salmonis Pacific fo...   105   8e-22
EF639036_1(EF639036|pid:none) Triatoma infestans clone TI-604 sm...   105   8e-22
EF083122_1(EF083122|pid:none) Picea sitchensis clone WS02721_N04...   105   1e-21
AK058487_1(AK058487|pid:none) Oryza sativa Japonica Group cDNA c...   105   1e-21

 psg: 0.87  gvh: 0.33  alm: 0.49  top: 0.47  tms: 0.00  mit: 0.39  mip: 0.07
 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 %: mitochondrial
	 32.0 %: cytoplasmic
	 20.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane
	  4.0 %: peroxisomal

>> prediction for VSA204 is mit

>VSA204Z.Seq
----------ACATTTATTCATAATCTCCACCCCACACACACATATTTATATATATATAT
AGCCACCCACTTTTAATAAATTAATAAATATATTAATAAATAAATAAATACACAATAAAT
AAATTAATAAATTAATAAATTATATGAAAAAATGACCACTACCACCACAACCAGTAATAC
ATCAAACAATAGTAATGCACAATTTAACTTTTTTAAAATGTGTATTGGAAGACCAGTCGT
TGTTAAATTAAACAATGGTGTTGAATATAGGGGTATTTTAGAAGTAGTAGATGGTAATAT
GAACATTGTAATGGAGCAAACTGAGGAATATCTTAATGGGCAATTAAAAACTAAATATGG
TGATTGCTTTTTAAGAGGAAATAATGTATTATATATTTCAGCTCAACCAAGAAAATAATA
ATTTATTAATTAAAACAAATAAAATAATTATAATCTTTTTGTAAAAAAAAAAAAATAAAA
AAAAATAAAAAAAAAAAAACAAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAA