>AFH115 (AFH115Q) /CSM/AF/AFH1-A/AFH115Q.Seq.d/
ACTAGCCAGTAACATAGATGACGCAGATAAAATGGACATGAAAGTTATAAAATTTTGCCA
AGCCACCGCAGCAAAAATAAACGATAACAAATGTGTGTGCATCACTAAAAACCCAAAGAT
AAAGACCAAATATAAGACAATTGGGGCGAAAGAAGAAGAAAGATATCTTGGCTTTTTCTT
CAACCGCAAAGGTGTAATAAGCAAAGTAGATGATACGGTGAACAAACTAGAAAACCTCAC
AAAATGCTATTCGAGCGTGTCATCAACGCTAAAAGGTAGAATCACAATTCTCAAATCATA
CCTCTTGTCCCAACTAACCTTCCAACTATACATCAACGAAATAAATGACATAAAGAAACT
GGAGAACGTTAACGCCAATATGTTATTCAAAGGGGACAGGTGGGCTATCTCAAAGGAAAG
GAGCAGAAGAGACTATGAAATTGGAGGCCTTGAACTATGGAATATGGCAACCAGATCCAA
TGCCCAGAAAGCATGGATATACGAACAATACCTCAGAGAAAAAGACGACCAGAACTGCCC
TCCACATATGGAAGTTTGGAAGTCGGAAAAAGAAAACTCACTATCAAGGATTCACATCAA
ATGCTGGAAAGCCTGGXXXXXXXXXXAACAGGTCAAAAACTGATTCAAAAGAACATTAAT
CACCCAATTCTACCATTTAGAGAAGCCAGATCAATCACAACTATCAAAGGAAGAGACTTA
GCATGGAGGTATCTACTCAAGGCACTTCCAAAACACCATGGGGAGAATTGCCACTCATGT
AAAGAAGAAGAGTCGTCTATGCACATCTTCTTCGAATGCAAATCAATAAAACAGGATATC
GACTCAATCTATCAAAAGGTCTGTAAAGACTCTAACAACACTTACCACGGTCCATGGAGC
GAAAAAGTTCTCGGAAAACTACTCACACCATTCTCATCAAATCTGATAGGAGCCATTATG
GAATCGATATGGTACAGAAGAAATCAAATAAAATTCAACGATAACACTACAATAATAACA
GAGAACCAAATAATTCATAAAATCAAAAAAGCGAGAGATGCCGAATGGGATAGAACAAGA
AAGATAGTAGAAAAGCAACTACGTCAAGAACTAAAATGCACTGATAACCGAGAGTCAATC
AATCGGACCGCATCAATAAAAAGAAGACTCGAAAAATTCAGCCACAACTGGAACTCGAAA
CTCATGACCATAAACATCCCGGAACACTTCATACCATACTGCTCATATAACACCAACTA

LASNIDDADKMDMKVIKFCQATAAKINDNKCVCITKNPKIKTKYKTIGAKEEERYLGFFF
NRKGVISKVDDTVNKLENLTKCYSSVSSTLKGRITILKSYLLSQLTFQLYINEINDIKKL
ENVNANMLFKGDRWAISKERSRRDYEIGGLELWNMATRSNAQKAWIYEQYLREKDDQNCP
PHMEVWKSEKENSLSRIHIKCWKAW---

---TGQKLIQKNINHPILPFREARSITTIKGRDLAWRYLLKALPKHHGENCHSCKEEESS
MHIFFECKSIKQDIDSIYQKVCKDSNNTYHGPWSEKVLGKLLTPFSSNLIGAIMESIWYR
RNQIKFNDNTTIITENQIIHKIKKARDAEWDRTRKIVEKQLRQELKCTDNRESINRTASI
KRRLEKFSHNWNSKLMTINIPEHFIPYCSYNTN

Frame A:
tsq*hr*rr*nghesykilpshrsknkr*qmcvhh*kpkdkdqi*dnwgerrrkiswlfl
qpqrcnkqsr*ygeqtrkphkmlfervinakr*nhnsqiiplvptnlptihqrnk*hket
ger*rqyviqrgqvgylkgkeqkrl*nwrp*tmeygnqiqcpesmdirtipqrkrrpelp
stygslevgkrkltikdshqmlesl---

---nrsktdskeh*spnsti*rsqinhnyqrkrlsmevstqgtsktpwgelplm*rrrvv
yahllrmqinktgyrlnlskgl*rl*qhlprsmerkssrktthtiliksdrshygidmvq
kksnkiqr*hynnnrepnns*nqksercrmg*nkkdsrkattsrtkmh**prvnqsdrin
kkktrkiqpqlelethdhkhpgtlhtilli*hql

Frame B:
LASNIDDADKMDMKVIKFCQATAAKINDNKCVCITKNPKIKTKYKTIGAKEEERYLGFFF
NRKGVISKVDDTVNKLENLTKCYSSVSSTLKGRITILKSYLLSQLTFQLYINEINDIKKL
ENVNANMLFKGDRWAISKERSRRDYEIGGLELWNMATRSNAQKAWIYEQYLREKDDQNCP
PHMEVWKSEKENSLSRIHIKCWKAW---

---TGQKLIQKNINHPILPFREARSITTIKGRDLAWRYLLKALPKHHGENCHSCKEEESS
MHIFFECKSIKQDIDSIYQKVCKDSNNTYHGPWSEKVLGKLLTPFSSNLIGAIMESIWYR
RNQIKFNDNTTIITENQIIHKIKKARDAEWDRTRKIVEKQLRQELKCTDNRESINRTASI
KRRLEKFSHNWNSKLMTINIPEHFIPYCSYNTN

Frame C:
*pvt*mtqikwt*kl*nfakppqqk*titnvcaslktqr*rpnirqlgrkkkkdilafss
takv**ak*mir*tn*ktsqnairachqr*kvesqfsnhtscpn*psnytstk*mt*rnw
rtltpicyskgtgglsqrkgaeetmklealnygiwqpdpmprkhgytnntsekkttrtal
hiwkfgsrkkkthyqgftsnagkp---

---qvkn*fkrtlitqfyhlekpdqsqlskeet*hggiysrhfqntmgriathvkkksrl
ctsssnanq*nristqsikrsvktlttlttvhgakkfsenyshhshqi**eplwnrygte
eik*nstitlq**qrtk*fikskkrempngieqer**ksnyvkn*nalitesqsigphq*
kedsknsattgtrns*p*tsrntsyhtahitpt

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFH115 (AFH115Q) /CSM/AF/AFH1-A/AFH115Q.Seq.d/                       2436   0.0
SLJ803 (SLJ803Q) /CSM/SL/SLJ8-A/SLJ803Q.Seq.d/                        456   e-127
VSJ634 (VSJ634Q) /CSM/VS/VSJ6-B/VSJ634Q.Seq.d/                         34   5.0
VSG760 (VSG760Q) /CSM/VS/VSG7-C/VSG760Q.Seq.d/                         34   5.0
VHP880 (VHP880Q) /CSM/VH/VHP8-D/VHP880Q.Seq.d/                         34   5.0
VHP350 (VHP350Q) /CSM/VH/VHP3-C/VHP350Q.Seq.d/                         34   5.0
VHP175 (VHP175Q) /CSM/VH/VHP1-D/VHP175Q.Seq.d/                         34   5.0
VHO263 (VHO263Q) /CSM/VH/VHO2-C/VHO263Q.Seq.d/                         34   5.0
VHN442 (VHN442Q) /CSM/VH/VHN4-B/VHN442Q.Seq.d/                         34   5.0
VHM534 (VHM534Q) /CSM/VH/VHM5-B/VHM534Q.Seq.d/                         34   5.0

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

AF298209|AF298209.1 Dictyostelium discoideum non-LTR retrotransposon TRE5-B, group-specific antigen (gag) and polyprotein (pol) genes, complete cds.  1207   0.0    1
AC116979|AC116979.3 Dictyostelium discoideum chromosome 2 map 6445720-6776760 strain AX4, complete sequence.  1191   0.0    6
AC117081|AC117081.2 Dictyostelium discoideum chromosome 2 map 5862124-6045772 strain AX4, complete sequence.  1110   0.0    2
AF482382|AF482382.1 Dictyostelium discoideum ABC transporter AbcG3 (abcG3) gene, complete cds.   926   0.0    1
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.   517   e-142  1
AC068488|AC068488.2 Homo sapiens chromosome 11 clone RP11-651M4, WORKING DRAFT SEQUENCE, 14 unordered pieces.    42   5e-04  9
AC131474|AC131474.4 Rattus norvegicus clone CH230-104E23, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    42   0.025  2
AC111730|AC111730.4 Rattus norvegicus clone CH230-152A12, WORKING DRAFT SEQUENCE, 3 unordered pieces.    42   0.027  2
AC112563|AC112563.3 Rattus norvegicus clone CH230-43D5, *** SEQUENCING IN PROGRESS ***, 11 unordered pieces.    42   0.062  2
AC010081|AC010081.4 Homo sapiens BAC clone RP11-65E7 from Y, complete sequence.    38   0.19   10

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AF298209_2(AF298209|pid:none) Dictyostelium discoideum non-LTR r...   437   e-121
S20106(S20106;S30209;S30211;S30207;S25646)hypothetical protein 2...   152   3e-35
AF134171_2(AF134171|pid:none) Dictyostelium discoideum retrotran...    87   1e-15
AF134170_2(AF134170|pid:none) Dictyostelium discoideum retrotran...    75   6e-12
AB097143_2(AB097143|pid:none) Danio rerio retrotransposon DewaDr...    42   0.057
Z36534_1(Z36534|pid:none) D.discoideum (Ax3-K) ponA gene.              40   0.22
AC142223_1(AC142223|pid:none) Medicago truncatula clone mth2-5e2...    38   0.63
AF030694_2(AF030694|pid:none) Plasmodium falciparum strain Dd2 h...    38   0.63
AL844506_55(AL844506|pid:none) Plasmodium falciparum 3D7 chromos...    38   0.63
AC145027_3(AC145027|pid:none) Medicago truncatula clone mth2-15e...    37   1.4

 psg: 0.75  gvh: 0.36  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.21  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 

	 48.0 %: cytoplasmic
	 40.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: vesicles of secretory system

>> prediction for AFH115 is cyt

>AFH115F.Seq
ACTAGCCAGTAACATAGATGACGCAGATAAAATGGACATGAAAGTTATAAAATTTTGCCA
AGCCACCGCAGCAAAAATAAACGATAACAAATGTGTGTGCATCACTAAAAACCCAAAGAT
AAAGACCAAATATAAGACAATTGGGGCGAAAGAAGAAGAAAGATATCTTGGCTTTTTCTT
CAACCGCAAAGGTGTAATAAGCAAAGTAGATGATACGGTGAACAAACTAGAAAACCTCAC
AAAATGCTATTCGAGCGTGTCATCAACGCTAAAAGGTAGAATCACAATTCTCAAATCATA
CCTCTTGTCCCAACTAACCTTCCAACTATACATCAACGAAATAAATGACATAAAGAAACT
GGAGAACGTTAACGCCAATATGTTATTCAAAGGGGACAGGTGGGCTATCTCAAAGGAAAG
GAGCAGAAGAGACTATGAAATTGGAGGCCTTGAACTATGGAATATGGCAACCAGATCCAA
TGCCCAGAAAGCATGGATATACGAACAATACCTCAGAGAAAAAGACGACCAGAACTGCCC
TCCACATATGGAAGTTTGGAAGTCGGAAAAAGAAAACTCACTATCAAGGATTCACATCAA
ATGCTGGAAAGCCTGG----------

>AFH115Z.Seq
----------AACAGGTCAAAAACTGATTCAAAAGAACATTAATCACCCAATTCTACCAT
TTAGAGAAGCCAGATCAATCACAACTATCAAAGGAAGAGACTTAGCATGGAGGTATCTAC
TCAAGGCACTTCCAAAACACCATGGGGAGAATTGCCACTCATGTAAAGAAGAAGAGTCGT
CTATGCACATCTTCTTCGAATGCAAATCAATAAAACAGGATATCGACTCAATCTATCAAA
AGGTCTGTAAAGACTCTAACAACACTTACCACGGTCCATGGAGCGAAAAAGTTCTCGGAA
AACTACTCACACCATTCTCATCAAATCTGATAGGAGCCATTATGGAATCGATATGGTACA
GAAGAAATCAAATAAAATTCAACGATAACACTACAATAATAACAGAGAACCAAATAATTC
ATAAAATCAAAAAAGCGAGAGATGCCGAATGGGATAGAACAAGAAAGATAGTAGAAAAGC
AACTACGTCAAGAACTAAAATGCACTGATAACCGAGAGTCAATCAATCGGACCGCATCAA
TAAAAAGAAGACTCGAAAAATTCAGCCACAACTGGAACTCGAAACTCATGACCATAAACA
TCCCGGAACACTTCATACCATACTGCTCATATAACACCAACTA

>AFH115P.Seq
ACTAGCCAGTAACATAGATGACGCAGATAAAATGGACATGAAAGTTATAAAATTTTGCCA
AGCCACCGCAGCAAAAATAAACGATAACAAATGTGTGTGCATCACTAAAAACCCAAAGAT
AAAGACCAAATATAAGACAATTGGGGCGAAAGAAGAAGAAAGATATCTTGGCTTTTTCTT
CAACCGCAAAGGTGTAATAAGCAAAGTAGATGATACGGTGAACAAACTAGAAAACCTCAC
AAAATGCTATTCGAGCGTGTCATCAACGCTAAAAGGTAGAATCACAATTCTCAAATCATA
CCTCTTGTCCCAACTAACCTTCCAACTATACATCAACGAAATAAATGACATAAAGAAACT
GGAGAACGTTAACGCCAATATGTTATTCAAAGGGGACAGGTGGGCTATCTCAAAGGAAAG
GAGCAGAAGAGACTATGAAATTGGAGGCCTTGAACTATGGAATATGGCAACCAGATCCAA
TGCCCAGAAAGCATGGATATACGAACAATACCTCAGAGAAAAAGACGACCAGAACTGCCC
TCCACATATGGAAGTTTGGAAGTCGGAAAAAGAAAACTCACTATCAAGGATTCACATCAA
ATGCTGGAAAGCCTGG----------AACAGGTCAAAAACTGATTCAAAAGAACATTAAT
CACCCAATTCTACCATTTAGAGAAGCCAGATCAATCACAACTATCAAAGGAAGAGACTTA
GCATGGAGGTATCTACTCAAGGCACTTCCAAAACACCATGGGGAGAATTGCCACTCATGT
AAAGAAGAAGAGTCGTCTATGCACATCTTCTTCGAATGCAAATCAATAAAACAGGATATC
GACTCAATCTATCAAAAGGTCTGTAAAGACTCTAACAACACTTACCACGGTCCATGGAGC
GAAAAAGTTCTCGGAAAACTACTCACACCATTCTCATCAAATCTGATAGGAGCCATTATG
GAATCGATATGGTACAGAAGAAATCAAATAAAATTCAACGATAACACTACAATAATAACA
GAGAACCAAATAATTCATAAAATCAAAAAAGCGAGAGATGCCGAATGGGATAGAACAAGA
AAGATAGTAGAAAAGCAACTACGTCAAGAACTAAAATGCACTGATAACCGAGAGTCAATC
AATCGGACCGCATCAATAAAAAGAAGACTCGAAAAATTCAGCCACAACTGGAACTCGAAA
CTCATGACCATAAACATCCCGGAACACTTCATACCATACTGCTCATATAACACCAACTA