>AFI246 (AFI246Q) /CSM/AF/AFI2-B/AFI246Q.Seq.d/
XXXXXXXXXXGGTTGTGATGGTGGTTTAATGAATAATGCATTTGATTATATCATTAAAAA
CAAGGGTATTGACACTGAAAGTAGTTATCCATATACTGCTGAAACTGGTTCAACATGTTT
ATTCAATAAATCTGATATTGGTGCAACCATTAAAGGTTATGTTAACATTACTGCCGGTTC
AGAGATTTCATTAGAGAATGGTGCTCAACATGGTCCAGTATCTGTTGCAATTGATGCTTC
CCATAATAGTTTCCAACTCTATACATCTGGTATCTATTATGAGCCAAAATGTTCTCCAAC
TGAATTGGATCATGGTGTTTTAGTTGTTGGTTATGGTGTTCAAGGTAAAGATGATGAAGG
TCCAGTATTAAACAGAAAACAAACCATTGTTATCCACAAGAATGAAGATAATAAAGTTGA
ATCCTCTGATGATTCATCTGATAGTGTTAGACCAAAGGCAAATAATTATTGGATCGTTAA
AAATTCATGGGGTACCTCATGGGGTATAAAAGGTTACATTTTAATGTCAAAGGATAGA

---CDGGLMNNAFDYIIKNKGIDTESSYPYTAETGSTCLFNKSDIGATIKGYVNITAGSE
ISLENGAQHGPVSVAIDASHNSFQLYTSGIYYEPKCSPTELDHGVLVVGYGVQGKDDEGP
VLNRKQTIVIHKNEDNKVESSDDSSDSVRPKANNYWIVKNSWGTSWGIKGYILMSKDR

Frame A:
---vvmvv**imhliislktrvltlkvvihillklvqhvysinlilvqplkvmltllpvq
rfh*rmvlnmvqyllqlmlpiivsnsihlvsimsqnvlqlnwimvf*llvmvfkvkmmkv
qy*tenkpllstrmkiiklnplmihlivldqrqiiigslkihgvphgv*kvtf*cqri


Frame B:
---l*wwfne*ci*lyh*kqgy*h*k*lsiyc*nwfnmfiq*i*ywcnh*rlc*hycrfr
dfirewcstwssiccn*cfp**fptlyiwyll*akmfsn*igswcfscwlwcsr*r**rs
sikqktnhcypqe*r**s*il**fi**c*tkgk*lldr*kfmgylmgykrlhfnvkg*


Frame C:
---CDGGLMNNAFDYIIKNKGIDTESSYPYTAETGSTCLFNKSDIGATIKGYVNITAGSE
ISLENGAQHGPVSVAIDASHNSFQLYTSGIYYEPKCSPTELDHGVLVVGYGVQGKDDEGP
VLNRKQTIVIHKNEDNKVESSDDSSDSVRPKANNYWIVKNSWGTSWGIKGYILMSKDR

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSJ524 (SSJ524Q) /CSM/SS/SSJ5-A/SSJ524Q.Seq.d/                       1047   0.0
SSF462 (SSF462Q) /CSM/SS/SSF4-C/SSF462Q.Seq.d/                       1047   0.0
SFK650 (SFK650Q) /CSM/SF/SFK6-C/SFK650Q.Seq.d/                       1047   0.0
SFK574 (SFK574Q) /CSM/SF/SFK5-D/SFK574Q.Seq.d/                       1047   0.0
SFJ429 (SFJ429Q) /CSM/SF/SFJ4-B/SFJ429Q.Seq.d/                       1047   0.0
SFG645 (SFG645Q) /CSM/SF/SFG6-B/SFG645Q.Seq.d/                       1047   0.0
SFG577 (SFG577Q) /CSM/SF/SFG5-D/SFG577Q.Seq.d/                       1047   0.0
SFE526 (SFE526Q) /CSM/SF/SFE5-B/SFE526Q.Seq.d/                       1047   0.0
SFC863 (SFC863Q) /CSM/SF/SFC8-C/SFC863Q.Seq.d/                       1047   0.0
CFI296 (CFI296Q) /CSM/CF/CFI2-D/CFI296Q.Seq.d/                       1047   0.0

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

X03344|X03344.1 Dictyostelium discoideum mRNA for cysteine proteinase 2.  1047   0.0    1
M16039|M16039.1 Dictyostelium discoideum pst-cath gene encoding pst-cathepsin, complete cds.   961   0.0    3
BJ171907|BJ171907.1 Physcomitrella patens subsp. patens cDNA clone:pph30i20, 3' end, single read.   595   0.0    2
L36205|L36205.1 Dictyostelium discoideum cysteine proteinase CP5 mRNA, complete cds.    88   3e-46  5
L36204|L36204.1 Dictyostelium discoideum cysteine proteinase (CP4) mRNA, complete cds.    70   1e-44  5
AC117076|AC117076.3 Dictyostelium discoideum chromosome 2 map 3323568-3470138 strain AX4, complete sequence.    88   1e-34  6
U72746|U72746.1 Dictyostelium discoideum cysteine proteinase (cprG) mRNA, complete cds.    82   5e-15  2
AF426414|AF426414.1 Delia radicum cathepsin L-like cysteine protease precursor (CP1) mRNA, complete cds.    56   1e-11  3
U72745|U72745.1 Dictyostelium discoideum cysteine proteinase (cprF) mRNA, complete cds.    46   2e-11  4
BQ834906|BQ834906.1 Po_ad_04H08_TEXF1 Psoroptes ovis mixed Psoroptes ovis cDNA clone Po_ad_04H08 5' similar to O46030 CYSTEINE PROTEINASE. Sitophilus zeamais (maize weevil), mRNA sequence.    50   2e-06  3

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P04989) RecName: Full=Cysteine proteinase 2;          EC=3.4.22...   349   3e-95
(P54640) RecName: Full=Cysteine proteinase 5;          EC=3.4.22...   188   8e-47
L36205_1(L36205|pid:none) Dictyostelium discoideum cysteine prot...   188   8e-47
BC075887_1(BC075887|pid:none) Danio rerio cathepsin L.1, mRNA (c...   170   2e-41
AY220615_1(AY220615|pid:none) Hydra vulgaris cathepsin L precurs...   170   2e-41
AY554271_1(AY554271|pid:none) Heterodera glycines cathepsin L-li...   168   9e-41
DQ280314_1(DQ280314|pid:none) Hymeniacidon perlevis cathepsin L ...   166   3e-40
AY336798_1(AY336798|pid:none) Rhipicephalus haemaphysaloides hae...   164   2e-39
DQ474246_1(DQ474246|pid:none) Lygus lineolaris cathepsin-L mRNA,...   164   2e-39
L36204_1(L36204|pid:none) Dictyostelium discoideum cysteine prot...   163   3e-39

 psg: 0.75  gvh: 0.27  alm: 0.50  top: 0.53  tms: 0.00  mit: 0.15  mip: 0.00
 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 

	 40.0 %: nuclear
	 32.0 %: cytoplasmic
	 24.0 %: cytoskeletal
	  4.0 %: mitochondrial

>> prediction for AFI246 is nuc

>AFI246Z.Seq
----------GGTTGTGATGGTGGTTTAATGAATAATGCATTTGATTATATCATTAAAAA
CAAGGGTATTGACACTGAAAGTAGTTATCCATATACTGCTGAAACTGGTTCAACATGTTT
ATTCAATAAATCTGATATTGGTGCAACCATTAAAGGTTATGTTAACATTACTGCCGGTTC
AGAGATTTCATTAGAGAATGGTGCTCAACATGGTCCAGTATCTGTTGCAATTGATGCTTC
CCATAATAGTTTCCAACTCTATACATCTGGTATCTATTATGAGCCAAAATGTTCTCCAAC
TGAATTGGATCATGGTGTTTTAGTTGTTGGTTATGGTGTTCAAGGTAAAGATGATGAAGG
TCCAGTATTAAACAGAAAACAAACCATTGTTATCCACAAGAATGAAGATAATAAAGTTGA
ATCCTCTGATGATTCATCTGATAGTGTTAGACCAAAGGCAAATAATTATTGGATCGTTAA
AAATTCATGGGGTACCTCATGGGGTATAAAAGGTTACATTTTAATGTCAAAGGATAGA