>SHD404 (SHD404Q) /CSM/SH/SHD4-A/SHD404Q.Seq.d/
XXXXXXXXXXCANCANCANCCNCAACCAATTGGTACAACAATTAATTTAATACCACCATC
TTCAAATGTTTCAGTAACACNTANTACAACACCAACAACTACAACAACTGCAACTACAGC
AACTACAGCACCAATCACAACACCAAAACCAAATGTAATTCCAATTAATACTGGTAAAGA
AAATATCACTTTATTATCACCAAATTCAATGTCTTCACTTTTAAGTGATTCATTAAATGA
ATCTAAAAAACAACAACAACAACAACAACAATCTAAAACACCAACAACACCAACAACAAC
ATCAACAACGACAACAACACCATCAACTACAGCAGCGGCAACAAATAAATCAGTTTTATC
AAATCCAACACCAACACCATCTCCAAATACATCATCATTCATTCCAACAAATAAAGGATC
CACAGCAACAACTACAACAACAACAGCAACACCAACACCAACACCAAGTAATAATACTAA
TGGTAAACCATTTAATCCAATTGAAGCATTAACTAAAAGTAACAGTAGTAGTAACTGCTC
CTCAGTG

---XXPQPIGTTINLIPPSSNVSVTXXTTPTTTTTATTATTAPITTPKPNVIPINTGKEN
ITLLSPNSMSSLLSDSLNESKKQQQQQQQSKTPTTPTTTSTTTTTPSTTAAATNKSVLSN
PTPTPSPNTSSFIPTNKGSTATTTTTTATPTPTPSNNTNGKPFNPIEALTKSNSSSNCSS
V

Frame A:
---xxxxnqlvqqli*yhhlqmfq*hxxqhqqlqqlqlqqlqhqsqhqnqm*fqlilvkk
islyyhqiqclhf*vih*mnlknnnnnnnnlkhqqhqqqhqqrqqhhqlqqrqqinqfyq
iqhqhhlqihhhsfqqikdpqqqlqqqqqhqhqhqviilmvnhliqlkh*lkvtvvvtap
q


Frame B:
---xxxxtnwynn*fnttifkcfsntxyntnnynncnysnystnhntktkcnsn*yw*rk
yhfiitkfnvftfk*fik*i*kttttttti*ntnntnnninndnntinyssgnk*isfik
sntntiskyiiihsnk*rihsnnynnnsntntntk**y*w*ti*sn*sin*k*q***lll
s


Frame C:
---XXPQPIGTTINLIPPSSNVSVTXXTTPTTTTTATTATTAPITTPKPNVIPINTGKEN
ITLLSPNSMSSLLSDSLNESKKQQQQQQQSKTPTTPTTTSTTTTTPSTTAAATNKSVLSN
PTPTPSPNTSSFIPTNKGSTATTTTTTATPTPTPSNNTNGKPFNPIEALTKSNSSSNCSS
V

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHD404 (SHD404Q) /CSM/SH/SHD4-A/SHD404Q.Seq.d/                        428   e-119
CHR602 (CHR602Q) /CSM/CH/CHR6-A/CHR602Q.Seq.d/                        428   e-119
AHD170 (AHD170Q) /CSM/AH/AHD1-C/AHD170Q.Seq.d/                        420   e-117
AHP468 (AHP468Q) /CSM/AH/AHP4-C/AHP468Q.Seq.d/                        402   e-111
SHA402 (SHA402Q) /CSM/SH/SHA4-A/SHA402Q.Seq.d/                        341   7e-93
SHA459 (SHA459Q) /CSM/SH/SHA4-C/SHA459Q.Seq.d/                        327   1e-88
AHN767 (AHN767Q) /CSM/AH/AHN7-C/AHN767Q.Seq.d/                        321   6e-87
AHQ115 (AHQ115Q) /CSM/AH/AHQ1-A/AHQ115Q.Seq.d/                        291   6e-78
SHC366 (SHC366Q) /CSM/SH/SHC3-C/SHC366Q.Seq.d/                        256   3e-67
SHJ726 (SHJ726Q) /CSM/SH/SHJ7-B/SHJ726Q.Seq.d/                        250   2e-65

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

AC114464|AC114464.4 Rattus norvegicus clone CH230-14C7, WORKING DRAFT SEQUENCE, 2 unordered pieces.    62   1e-05  1
AC115235|AC115235.6 Rattus norvegicus clone CH230-227G8, *** SEQUENCING IN PROGRESS ***, 5 unordered pieces.    56   8e-04  1
CF878494|CF878494.1 tric017xh11.b13 T.reesei mycelial culture, Version 6 October 2003 Hypocrea jecorina cDNA clone tric017xh11, mRNA sequence.    54   0.003  1
CF878261|CF878261.1 tric017xh11.b12 T.reesei mycelial culture, Version 6 October 2003 Hypocrea jecorina cDNA clone tric017xh11, mRNA sequence.    54   0.003  1
CF869026|CF869026.1 tric017xh11.b1 T.reesei mycelial culture, Version 6 October 2003 Hypocrea jecorina cDNA clone tric017xh11, mRNA sequence.    54   0.003  1
CB899139|CB899139.1 tric017xh11 T.reesei mycelial culture, Version 3 april Hypocrea jecorina cDNA clone tric017xh11, mRNA sequence.    54   0.003  1
AC130078|AC130078.2 Rattus norvegicus clone CH230-270D3, *** SEQUENCING IN PROGRESS ***, 1 ordered piece.    54   0.003  1
AC128627|AC128627.2 Rattus norvegicus clone CH230-303K20, *** SEQUENCING IN PROGRESS ***, 21 unordered pieces.    54   0.003  1
AQ988788|AQ988788.1 08B1C03NE.R1 C. parvum Lambda Zap Express Library Cryptosporidium parvum genomic clone 08B1C03NE, DNA sequence.    52   0.013  1
CZ904971|CZ904971.1 gy39d06.x1.b.screen Bread wheat methylation filtered library (Bread_Wheat_F) Triticum aestivum genomic, genomic survey sequence.    52   0.013  1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q55GH4) RecName: Full=Glycogen [starch] synthase;          EC=2...    64   3e-09

 psg: 0.87  gvh: 0.44  alm: 0.50  top: 0.53  tms: 0.00  mit: 0.47  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 

	 60.0 %: mitochondrial
	 20.0 %: nuclear
	 12.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for SHD404 is mit

>SHD404Z.Seq
NNNNNNNNNNCANCANCANCCNCAACCAATTGGTACAACAATTAATTTAATACCACCATC
TTCAAATGTTTCAGTAACACNTANTACAACACCAACAACTACAACAACTGCAACTACAGC
AACTACAGCACCAATCACAACACCAAAACCAAATGTAATTCCAATTAATACTGGTAAAGA
AAATATCACTTTATTATCACCAAATTCAATGTCTTCACTTTTAAGTGATTCATTAAATGA
ATCTAAAAAACAACAACAACAACAACAACAATCTAAAACACCAACAACACCAACAACAAC
ATCAACAACGACAACAACACCATCAACTACAGCAGCGGCAACAAATAAATCAGTTTTATC
AAATCCAACACCAACACCATCTCCAAATACATCATCATTCATTCCAACAAATAAAGGATC
CACAGCAACAACTACAACAACAACAGCAACACCAACACCAACACCAAGTAATAATACTAA
TGGTAAACCATTTAATCCAATTGAAGCATTAACTAAAAGTAACAGTAGTAGTAACTGCTC
CTCAGTG