>AFO540 (AFO540Q) /CSM/AF/AFO5-B/AFO540Q.Seq.d/
XXXXXXXXXXANTTTTTTAAAAAAAAAGGNNNGGTTTTTAAAAAAAAANTAAAAANTAAA
NTAAAAAAAAAAATATTAAACNAAAAAAAAAAAACAACAAATAAATGTAATATCATATAA
TAAATTTATTATTTTTTTTT

---FFKKKGXVFKKKXKXKXKKKILNXKKKTTNKCNII**iyyff

Frame A:
---xf*kkrxgf*kkxkx*xkkknikxkkknnk*m*yhiinllfff


Frame B:
---FFKKKGXVFKKKXKXKXKKKILNXKKKTTNKCNII**iyyff


Frame C:
---flkkkxxflkkx*kxx*kkky*tkkkkqqinvisynkfiiff

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFO540 (AFO540Q) /CSM/AF/AFO5-B/AFO540Q.Seq.d/                         74   6e-13
AHC695 (AHC695Q) /CSM/AH/AHC6-D/AHC695Q.Seq.d/                         70   9e-12
VFK666 (VFK666Q) /CSM/VF/VFK6-C/VFK666Q.Seq.d/                         34   0.49
VFI560 (VFI560Q) /CSM/VF/VFI5-C/VFI560Q.Seq.d/                         34   0.49
SSH101 (SSH101Q) /CSM/SS/SSH1-A/SSH101Q.Seq.d/                         34   0.49
SSF247 (SSF247Q) /CSM/SS/SSF2-B/SSF247Q.Seq.d/                         34   0.49
VSK193 (VSK193Q) /CSM/VS/VSK1-D/VSK193Q.Seq.d/                         32   2.0
VSI593 (VSI593Q) /CSM/VS/VSI5-D/VSI593Q.Seq.d/                         32   2.0
VSI560 (VSI560Q) /CSM/VS/VSI5-C/VSI560Q.Seq.d/                         32   2.0
VSH859 (VSH859Q) /CSM/VS/VSH8-C/VSH859Q.Seq.d/                         32   2.0

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

AC114263|AC114263.2 Dictyostelium discoideum chromosome 2 map 215673-367476 strain AX4, complete sequence.    74  5e-10  2
AX344952|AX344952.1 Sequence 23 from Patent WO0200928.            38  1.4  2
AC018932|AC018932.5 Homo sapiens clone RP11-11N16, WORKING DRAFT SEQUENCE, 23 unordered pieces.    42  1.6  1
BH662072|BH662072.1 BOMCY09TR BO_2_3_KB Brassica oleracea genomic clone BOMCY09, DNA sequence.    42  1.6  1
AC019086|AC019086.7 Homo sapiens BAC clone RP11-360H4 from 2, complete sequence.    42  1.6  1
AL356376|AL356376.9 Human DNA sequence from clone RP11-155N20 on chromosome 13. Contains STSs and GSSs.    34  2.5  2
AF429829|AF429829.1 Plasmodium falciparum isolate 807 merozoite surface protein 5 (MSP5) gene, complete cds.    36  2.5  2
AC013316|AC013316.3 Homo sapiens chromosome 2 clone RP11-355M5 map 2, LOW-PASS SEQUENCE SAMPLING.    42  2.6  2
AC011024|AC011024.3 Homo sapiens clone RP11-115D12, WORKING DRAFT SEQUENCE, 6 unordered pieces.    34  2.7  2
AE014309|AE014309.1 Homo sapiens chromosome 13q34 schizophrenia region contig 1 section 6 of 11 of the complete sequence.    34  4.0  2

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3039690
Number of Hits to DB: 53,762,304

 psg: 0.30  gvh: -0.03  alm: 0.75  top: 0.53  tms: 0.00  mit: 0.39  mip: 0.00
 nuc: 0.58  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 

	 72.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for AFO540 is nuc

>AFO540Z.Seq
----------ANTTTTTTAAAAAAAAAGGNNNGGTTTTTAAAAAAAAANTAAAAANTAAA
NTAAAAAAAAAAATATTAAACNAAAAAAAAAAAACAACAAATAAATGTAATATCATATAA
TAAATTTATTATTTTTTTTT