>AFO338 (AFO338Q) /CSM/AF/AFO3-B/AFO338Q.Seq.d/
XXXXXXXXXXTNNNTTTNNNNTGGTNNNCNATTANAANATGGTNGNACTNTNTNTNATNN
CAAATATNCAAAAANAATNNNCTNTCCNNTTGGTCNTNANATTAAANAGGTGGTATNCAA
ATNTTTGTCAAAACATTAANTGGTAANGNCCATCACTNTTNAAGTTGAGGGNTCAGATAA
TATTGAAAATGTTAAAACAAAGATTCAAGACAAAGAAGGTATCCCNCCAGACCANCAAAG
ATTAATTTTCGNTGGTAAACAATTAGAAGATGGTCGTACTCTCTCTGATTACAACATTCA
AAAGGAATCCACTCTCCATTTAGTCCTCAGATTAAGAGGTGGTATGCAAATTTTTGTCAA
AACCCTCACTGGTAAGACTATTACACTCGAAGTTGAAGGTTCTGATAACATTGAGAATGT
TAAAGCCAAAATCCAAGACAAAGAAGGTATTCCACCAGATCAACAACGTCTCATTTTCGC
CGGTAAACAATTGGAGGATGGTCGTACTCTCTCTGATTACAACATTCAAAAGGAATCCAC
TCTCCATTTAGTTCTCAGATTAAGAGGTGGTATGCAAATTTTTGTAAAAACTCTCACTGG
TAAAACCATTACACTCGAAGTTGAAGGTAGTGACAACATTGAGAATGTAAAAACAAAAAT
TCAAGACA

---xxxgxxlxxgxtxxxxkyxkxxxxpxgxxikxvvxkxlskh*XVXXITXXVEGSDNI
ENVKTKIQDKEGIPPDXQRLIFXGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKT
LTGKTITLEVEGSDNIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTL
HLVLRLRGGMQIFVKTLTGKTITLEVEGSDNIENVKTKIQD

Frame A:
---xfxxvxxxxmvxlxxxxnxqkxxxxxlvxxlxrwyxnxcqnixw*xpslxklrxqii
lkmlkqrfktkkvsxqtxkd*fsxvnn*kmvvlslittfkrnplsi*ssd*evvckflsk
pslvrllhsklkvlitlrmlkpksktkkvfhqinnvsfspvnnwrmvvlslittfkrnpl
si*fsd*evvckfl*klslvkplhsklkvvttlrm*kqkfkt


Frame B:
---xxxwxxixxwxxxxxxqixkxnxlsxwsxx*xggxqxfvktlxgxxhhxxs*gxr*y
*kc*nkdsrqrrypxrpxkinfrw*tirrwsysl*lqhskgihspfspqikrwyanfcqn
phw*dyytrs*rf**h*ec*sqnprqrrystrsttshfrr*tiggwsysl*lqhskgihs
pfssqikrwyanfcknshw*nhytrs*r**qh*ecknknsr


Frame C:
---xxxgxxlxxgxtxxxxkyxkxxxxpxgxxikxvvxkxlskh*XVXXITXXVEGSDNI
ENVKTKIQDKEGIPPDXQRLIFXGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKT
LTGKTITLEVEGSDNIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTL
HLVLRLRGGMQIFVKTLTGKTITLEVEGSDNIENVKTKIQD

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFO338 (AFO338Q) /CSM/AF/AFO3-B/AFO338Q.Seq.d/                       1068   0.0
SFI178 (SFI178Q) /CSM/SF/SFI1-D/SFI178Q.Seq.d/                       1055   0.0
AFE352 (AFE352Q) /CSM/AF/AFE3-C/AFE352Q.Seq.d/                       1055   0.0
CFB426 (CFB426Q) /CSM/CF/CFB4-B/CFB426Q.Seq.d/                       1047   0.0
AFD882 (AFD882Q) /CSM/AF/AFD8-D/AFD882Q.Seq.d/                       1047   0.0
AFC242 (AFC242Q) /CSM/AF/AFC2-B/AFC242Q.Seq.d/                       1047   0.0
CFB156 (CFB156Q) /CSM/CF/CFB1-C/CFB156Q.Seq.d/                       1045   0.0
VFH309 (VFH309Q) /CSM/VF/VFH3-A/VFH309Q.Seq.d/                       1043   0.0
SFC119 (SFC119Q) /CSM/SF/SFC1-A/SFC119Q.Seq.d/                       1043   0.0
VFL269 (VFL269Q) /CSM/VF/VFL2-C/VFL269Q.Seq.d/                       1041   0.0

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

M19491|M19491.1 Slime mold (D.discoideum) ubiquitin p229C/pLK229 gene, complete cds.   985  0.0  2
M23748|M23748.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUB19.   969  0.0  2
M19666|M19666.1 Slime mold (D.discoideum) ubiquitin gene, 3' end, clone p229C.   969  0.0  2
M23753|M23753.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUB14.   595  e-166  2
M23754|M23754.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUB2.   585  e-163  2
M19492|M19492.1 Slime mold (D.discoideum) ubiquitin lambda-229 gene, complete cds.   573  e-159  2
M23752|M23752.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUB17.   456  e-124  3
M23751|M23751.1 D.discoideum ubiquitin mRNA, complete cds, clone DCUB18.   456  e-124  3
BJ528884|BJ528884.1 Oryzias latipes cDNA clone:MF01SSB034A18, 5' end single read.   180  1e-74  3
CF181874|CF181874.1 ISO1H6R Iso cDNA Isotricha sp. BBF-2003 cDNA similar to PfpUB polyubiquitin 3D7, mRNA sequence.   155  3e-74  4

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

A27806(A27806) polyubiquitin 5 (clone pLK229) - slime mold (Dict...   327   1e-88
M19666_1(M19666|pid:none) Slime mold (D.discoideum) ubiquitin ge...   327   1e-88
B34080(B34080)polyubiquitin 5 (clone DCUB19) - slime mold (Dicty...   327   1e-88
B27806(B27806) ubiquitin (clone lambda229) - slime mold (Dictyos...   323   2e-87
M23754_1(M23754|pid:none) D.discoideum ubiquitin mRNA, complete ...   323   2e-87
S53719(S53719;S73107;S71069)polyubiquitin 6 - red alga (Gracilar...   312   6e-84
AF517848_1(AF517848|pid:none) Griffithsia japonica isolate Gj526...   312   6e-84
AY957885_1(AY957885|pid:none) Gracilaria lemaneiformis polyubiqu...   312   6e-84
AB021974_1(AB021974|pid:none) Bombyx mori UBI3 mRNA for polyubiq...   310   3e-83
Y12081_1(Y12081|pid:none) Suberites domuncula mRNA for polyubiqu...   310   3e-83

 psg: 0.75  gvh: 0.30  alm: 0.47  top: 0.53  tms: 0.00  mit: 0.16  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.20  pox: 0.00  px2: 1.00  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 

	 56.0 %: nuclear
	 36.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: endoplasmic reticulum

>> prediction for AFO338 is nuc

>AFO338Z.Seq
----------TNNNTTTNNNNTGGTNNNCNATTANAANATGGTNGNACTNTNTNTNATNN
CAAATATNCAAAAANAATNNNCTNTCCNNTTGGTCNTNANATTAAANAGGTGGTATNCAA
ATNTTTGTCAAAACATTAANTGGTAANGNCCATCACTNTTNAAGTTGAGGGNTCAGATAA
TATTGAAAATGTTAAAACAAAGATTCAAGACAAAGAAGGTATCCCNCCAGACCANCAAAG
ATTAATTTTCGNTGGTAAACAATTAGAAGATGGTCGTACTCTCTCTGATTACAACATTCA
AAAGGAATCCACTCTCCATTTAGTCCTCAGATTAAGAGGTGGTATGCAAATTTTTGTCAA
AACCCTCACTGGTAAGACTATTACACTCGAAGTTGAAGGTTCTGATAACATTGAGAATGT
TAAAGCCAAAATCCAAGACAAAGAAGGTATTCCACCAGATCAACAACGTCTCATTTTCGC
CGGTAAACAATTGGAGGATGGTCGTACTCTCTCTGATTACAACATTCAAAAGGAATCCAC
TCTCCATTTAGTTCTCAGATTAAGAGGTGGTATGCAAATTTTTGTAAAAACTCTCACTGG
TAAAACCATTACACTCGAAGTTGAAGGTAGTGACAACATTGAGAATGTAAAAACAAAAAT
TCAAGACA