>AFK270 (AFK270Q) /CSM/AF/AFK2-C/AFK270Q.Seq.d/
XXXXXXXXXXCCNCCNNNNCNNNNNNNAGCNNCNNNTNNNNNNCCNNNNGGTGGTNNAAT
TANNNATGNNNNNNNNCNNAGNTNNNANANNCNGGNCCNNCNNCAGNNNCNAGTGNNTCN
TCNTCNNATCNNCNNANCCNNCNCANCANCCNCCANCAAAACCANCAACAACAACAACAA
CAGACACTACTACCACTGCAACACCAAAATCACCAAAATCTCCTTCAATAAAATCATTAC
CAACAACAACTACTACAACAACAACAACAACACCAACAACACCAAAAATAGATTCATCAA
CATCAACACCATCAATTGAAGATGGCGAAGATGATCTTTGTGGTATTGAAATAGAAGAGT
TTAAGGATAAAAAGAAAAAAGTAGAAAATGATAAAATTACAAAGGATATTTTAGGTCAAG
TTGGTAAATTACTCAAGAAAGAAACCAAGAAAGTCGATGATAGTGACACTGAAGATGACG
AAGAAGAAGAGGAAGAAGAAGTTTTATTTGTAAACAAAAAGAGAAAATCGAATCCATTAG
ATGGTAGTAGTACACCAACTAACCAAAATCAAAACCAAAACCAAAGAAAATTA

---XXXXXXXXXXXXXVVXLXMXXXXXXXXXXXXXXXXXXXXSXXPXXXPPXKPXTTTTT
DTTTTATPKSPKSPSIKSLPTTTTTTTTTTPTTPKIDSSTSTPSIEDGEDDLCGIEIEEF
KDKKKKVENDKITKDILGQVGKLLKKETKKVDDSDTEDDEEEEEEEVLFVNKKRKSNPLD
GSSTPTNQNQNQNQRKL

Frame A:
---XXXXXXXXXXXXXVVXLXMXXXXXXXXXXXXXXXXXXXXSXXPXXXPPXKPXTTTTT
DTTTTATPKSPKSPSIKSLPTTTTTTTTTTPTTPKIDSSTSTPSIEDGEDDLCGIEIEEF
KDKKKKVENDKITKDILGQVGKLLKKETKKVDDSDTEDDEEEEEEEVLFVNKKRKSNPLD
GSSTPTNQNQNQNQRKL


Frame B:
---xxxxxsxxxxxxxwxnxxxxxxxxxxxgpxxxxsxsssxxxxxxxxxxqnxqqqqqq
tllplqhqnhqnllq*nhyqqqllqqqqqhqqhqk*ihqhqhhqlkmakmifvvlk*ksl
rikrkk*kmiklqrif*vklvnysrkkprksmivtlkmtkkkrkkkfyl*tkrenrih*m
vvvhqltkiktktken


Frame C:
---pxxxxaxxxxpxggxixxxxxxxxxxxxxxqxxvxxxxixxxxxxxxxktxnnnnnr
hyyhcntkitkisfnkiitnnnyynnnnntnntknrfinintin*rwrr*slwy*nrrv*
g*keksrk**nykgyfrssw*itqernqesr***h*r*rrrrgrrsfickqkekiesirw
**ytn*pkskpkpkki

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFK270 (AFK270Q) /CSM/AF/AFK2-C/AFK270Q.Seq.d/                        321   7e-87
CFJ131 (CFJ131Q) /CSM/CF/CFJ1-B/CFJ131Q.Seq.d/                        313   2e-84
AFO701 (AFO701Q) /CSM/AF/AFO7-A/AFO701Q.Seq.d/                        313   2e-84
AFG757 (AFG757Q) /CSM/AF/AFG7-C/AFG757Q.Seq.d/                        305   4e-82
AHE829 (AHE829Q) /CSM/AH/AHE8-B/AHE829Q.Seq.d/                         50   4e-05
SHA249 (SHA249Q) /CSM/SH/SHA2-C/SHA249Q.Seq.d/                         44   0.002
VSJ122 (VSJ122Q) /CSM/VS/VSJ1-A/VSJ122Q.Seq.d/                         42   0.009
FC-AC22 (FC-AC22Q) /CSM/FC/FC-AC/FC-AC22Q.Seq.d/                       42   0.009
VSI229 (VSI229Q) /CSM/VS/VSI2-B/VSI229Q.Seq.d/                         40   0.037
VSH740 (VSH740Q) /CSM/VS/VSH7-B/VSH740Q.Seq.d/                         40   0.037

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

AC142022|AC142022.1 Rattus norvegicus clone CH230-278B5, WORKING DRAFT SEQUENCE, 13 unordered pieces.    52  0.008  1
AC140245|AC140245.2 Mus musculus chromosome UNK clone RP23-293J3, WORKING DRAFT SEQUENCE, 5 unordered pieces.    52  0.008  1
AZ304936|AZ304936.1 1M0005H02F Mouse 10kb plasmid UUGC1M library Mus musculus genomic clone UUGC1M0005H02 F, DNA sequence.    52  0.008  1
AL591485|AL591485.7 Human DNA sequence from clone RP11-293C4 on chromosome 6.    50  0.022  3
AL663108|AL663108.4 Mouse DNA sequence from clone RP23-19H23 on chromosome 11.    50  0.030  2
AC128595|AC128595.2 Rattus norvegicus clone CH230-158C4, *** SEQUENCING IN PROGRESS ***, 1 ordered piece.    54  0.031  2
AC109247|AC109247.8 Mus musculus clone RP23-462C14, *** SEQUENCING IN PROGRESS ***, 2 ordered pieces.    50  0.032  1
AC069019|AC069019.8 Mus musculus  BAC RP23-455N13 (Roswell Park Cancer Institute Mouse BAC Library) complete sequence.    50  0.032  1
AC102987|AC102987.5 Rattus norvegicus clone CH230-52N2, WORKING DRAFT SEQUENCE, 3 unordered pieces.    50  0.032  1
AL773597|AL773597.29 Mouse DNA sequence from clone RP23-80A13 on chromosome 4.    50  0.032  1

 ***** 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: 313,128,145

 psg: 0.87  gvh: 0.59  alm: 0.53  top: 0.47  tms: 0.00  mit: 0.31  mip: 0.00
 nuc: 0.08  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 

	 32.0 %: nuclear
	 16.0 %: extracellular, including cell wall
	 16.0 %: mitochondrial
	 16.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: endoplasmic reticulum
	  4.0 %: peroxisomal

>> prediction for AFK270 is nuc

>AFK270Z.Seq
----------CCNCCNNNNCNNNNNNNAGCNNCNNNTNNNNNNCCNNNNGGTGGTNNAAT
TANNNATGNNNNNNNNCNNAGNTNNNANANNCNGGNCCNNCNNCAGNNNCNAGTGNNTCN
TCNTCNNATCNNCNNANCCNNCNCANCANCCNCCANCAAAACCANCAACAACAACAACAA
CAGACACTACTACCACTGCAACACCAAAATCACCAAAATCTCCTTCAATAAAATCATTAC
CAACAACAACTACTACAACAACAACAACAACACCAACAACACCAAAAATAGATTCATCAA
CATCAACACCATCAATTGAAGATGGCGAAGATGATCTTTGTGGTATTGAAATAGAAGAGT
TTAAGGATAAAAAGAAAAAAGTAGAAAATGATAAAATTACAAAGGATATTTTAGGTCAAG
TTGGTAAATTACTCAAGAAAGAAACCAAGAAAGTCGATGATAGTGACACTGAAGATGACG
AAGAAGAAGAGGAAGAAGAAGTTTTATTTGTAAACAAAAAGAGAAAATCGAATCCATTAG
ATGGTAGTAGTACACCAACTAACCAAAATCAAAACCAAAACCAAAGAAAATTA