>SHH289 (SHH289Q) /CSM/SH/SHH2-D/SHH289Q.Seq.d/
AAAACTACAAATTTGGATGTTAAATTAATTATAATTTGTTAATATAACATTTTGTATATA
TATATATATAAAAAATAAAAAACTCAAATGACAGGATTTTCAATTCCTAATATGAGTATG
TTACTCAAATTAGCAAATAGTAGATTGGTATTACATAAAAATAAAAATTTTGAACAAAGT
AATGTTCATAAAAAAGAGATTGCAGAATTATTACAATTAGGTAAAGAAGAACAAGCAAGA
GTTAGAACGGTTTCAGTTATTAATGAAGATTATCACACTGAAGTTTTAGGTATTTTAATT
ATTTATTGTGAAACTTTAGCAAATAGAATTAGAGGAATTGAAGGTGTAAAGGTATGCCCA
CCAGATTTAAAAGAAGCATGTTGTAGTATTATATTTGCATCACCATATTTAGATAAACAA
GTTGAATTATATAAGATTAGAAAGAGATTAATTGAAAAATTTGGTAAAAAATTCCCAGAG
GAATGTATAGATTGTTGTTGTATCAATCCAAAGATTGTACATAGATTATCAAATAAACCA
CCTGAAGAATCATTGGTAAACTATTATCTTAGTAATATTGCAAAGAAACATAATGTAGCC
TGGGATACTCCAGCATTACCACCTTTAGTTGATTTAXXXXXXXXXXATCTATGAAGGTTA
TTCTATTCCACATGCAATTAAAAGAATCGATATCGGTGGTCGTGATATCACAGAGTATTT
AATGCGTTTACTCACTGAAAGAGGTTATGCTTTCACTACAACCGCCGAAAGAGAAATCGT
ACGTGATATCAAAGAGAAAACTTCATTTGTCTCTCAAGATTTCTATGCCTCTATGAATGC
TCCAGAGGATAATAATATACTCAAGGATTATACGATGCCCGATAAACAAGTTTTAACCAT
TGGTAAAGAAAGATTCCGTTGTTATGAAGCTTTCTTTGACCCTTCAGTACTAGGTAAAGA
TCAAAATGGTATTCATCACCTCTTAAATGAAACTATCACCTCTTGTGATATTGATATTCG
TCGTGATCTCTATAAAAATATTGTAGTTTCTGGTGGTTCAACAATGGCAACAGGTTTTGA
AAAACGTTTACAAAAAGAAATGGAACTTTTAGTTTCAAATCCTCAAGTCCAAATTAAAAT
TAATGCACCACCAAATCGTGATATTAGTGTTTGGTGTGGTGGTTCGGTTTTAGGTGATCT
TAAAACTTTTTCGGATCAATGGATTACAAAACAAGAATATGAGAAGTTGGTAGAGGAATT
GTTCATAGAAAATGTTTTTAAATAAATAAAATAATAAATAATATTTTAAAAT

kttnldvkliiic*ynilyiyiykk*KTQMTGFSIPNMSMLLKLANSRLVLHKNKNFEQS
NVHKKEIAELLQLGKEEQARVRTVSVINEDYHTEVLGILIIYCETLANRIRGIEGVKVCP
PDLKEACCSIIFASPYLDKQVELYKIRKRLIEKFGKKFPEECIDCCCINPKIVHRLSNKP
PEESLVNYYLSNIAKKHNVAWDTPALPPLVDL---

---IYEGYSIPHAIKRIDIGGRDITEYLMRLLTERGYAFTTTAEREIVRDIKEKTSFVSQ
DFYASMNAPEDNNILKDYTMPDKQVLTIGKERFRCYEAFFDPSVLGKDQNGIHHLLNETI
TSCDIDIRRDLYKNIVVSGGSTMATGFEKRLQKEMELLVSNPQVQIKINAPPNRDISVWC
GGSVLGDLKTFSDQWITKQEYEKLVEELFIENVFK*ik**iif*n

Frame A:
kttnldvkliiic*ynilyiyiykk*KTQMTGFSIPNMSMLLKLANSRLVLHKNKNFEQS
NVHKKEIAELLQLGKEEQARVRTVSVINEDYHTEVLGILIIYCETLANRIRGIEGVKVCP
PDLKEACCSIIFASPYLDKQVELYKIRKRLIEKFGKKFPEECIDCCCINPKIVHRLSNKP
PEESLVNYYLSNIAKKHNVAWDTPALPPLVDL---

---IYEGYSIPHAIKRIDIGGRDITEYLMRLLTERGYAFTTTAEREIVRDIKEKTSFVSQ
DFYASMNAPEDNNILKDYTMPDKQVLTIGKERFRCYEAFFDPSVLGKDQNGIHHLLNETI
TSCDIDIRRDLYKNIVVSGGSTMATGFEKRLQKEMELLVSNPQVQIKINAPPNRDISVWC
GGSVLGDLKTFSDQWITKQEYEKLVEELFIENVFK*ik**iif*n

Frame B:
klqiwmln*l*fvnitfciyiyiknkklk*qdfqfli*vcysn*qivdwyyikikilnkv
mfikkrlqnyyn*vkknkqelerfqllmkiitlkf*vf*lfivkl*qieleelkv*ryah
qi*kkhvvvlylhhhi*inklnyirlerd*lknlvknsqrnv*ivvvsiqrlyidyqinh
lknhw*tiilvilqrnim*pgilqhyhl*li---

---smkvilfhmqlkesisvvvisqsi*cvyslkevmlslqppkeksyviskrklhlslk
ismpl*mlqriiiysriircpinkf*plvkkdsvvmklsltlqy*vkikmvfits*mkls
plvilifvvisikil*flvvqqwqqvlknvykkkwnf*fqilksklklmhhqivilvfgv
vvrf*vilklfringlqnknmrsw*rncs*kmflnk*nnk*yfk

Frame C:
nykfgc*inynlli*hfvyiyi*kiknsndrifns*yeyvtqisk**igit*k*kf*tk*
cs*krdcriitir*rrtsks*ngfsy**rlsh*sfryfnyll*nfsk*n*rn*rckgmpt
rfkrsml*yyicitifr*ts*ii*d*kein*kiw*kiprgmyrlllyqskdct*iik*tt
*riigklls**ycket*cslgyssittfs*f---

---l*rlfystcn*knryrws*yhrvfnafth*krlcfhynrrkrnrt*yqrenficlsr
flclyecsrg**ytqglydar*tsfnhw*rkipll*sfl*pfstr*rskwyssplk*nyh
ll*y*yss*sl*kycsfwwfnngnrf*ktftkrngtfsfkssspn*n*cttks*y*clvw
wfgfr*s*nffgsmdyktri*evgrgivhrkcf*inkiinnilk

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHH289 (SHH289Q) /CSM/SH/SHH2-D/SHH289Q.Seq.d/                       2292   0.0
AHM227 (AHM227Q) /CSM/AH/AHM2-B/AHM227Q.Seq.d/                       1233   0.0
AHE553 (AHE553Q) /CSM/AH/AHE5-C/AHE553Q.Seq.d/                       1233   0.0
VHB304 (VHB304Q) /CSM/VH/VHB3-A/VHB304Q.Seq.d/                       1225   0.0
VHD820 (VHD820Q) /CSM/VH/VHD8-A/VHD820Q.Seq.d/                       1219   0.0
SHC311 (SHC311Q) /CSM/SH/SHC3-A/SHC311Q.Seq.d/                       1219   0.0
AHL385 (AHL385Q) /CSM/AH/AHL3-D/AHL385Q.Seq.d/                       1219   0.0
AHF512 (AHF512Q) /CSM/AH/AHF5-A/AHF512Q.Seq.d/                       1219   0.0
AHE579 (AHE579Q) /CSM/AH/AHE5-D/AHE579Q.Seq.d/                       1219   0.0
VHA813 (VHA813Q) /CSM/VH/VHA8-A/VHA813Q.Seq.d/                       1217   0.0

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

DN294228|DN294228.1 PL030016A20H07 cDNA from sexually mature hermaphodites Schmidtea mediterranea cDNA 5', mRNA sequence.    68   3e-13  2
DN295122|DN295122.1 PL03019A1B06 cDNA from sexually mature hermaphodites Schmidtea mediterranea cDNA 5', mRNA sequence.    68   4e-13  2
DN312340|DN312340.1 PL06012B1F08 cDNA from juvenile hermaphodites Schmidtea mediterranea cDNA 5', mRNA sequence.    68   4e-13  2
DN295182|DN295182.1 PL03019A1H01 cDNA from sexually mature hermaphodites Schmidtea mediterranea cDNA 5', mRNA sequence.    68   4e-13  2
X52604|X52604.1 Artemia mRNA for actin (clone pArAct302).          66   3e-12  3
AJ269586|AJ269586.1 Artemia franciscana mRNA for actin (actin 302 gene), clone RT-PCR-14.    66   4e-12  3
AJ269585|AJ269585.1 Artemia franciscana mRNA for actin (actin 302 gene), clone RT-PCR-7.    66   4e-12  3
AJ269584|AJ269584.1 Artemia franciscana mRNA for actin (actin 302 gene), clone RT-PCR-6.    66   4e-12  3
AJ269583|AJ269583.1 Artemia franciscana mRNA for actin (actin 302 gene), clone RT-PCR-3.    66   4e-12  3
AJ269581|AJ269581.1 Artemia franciscana mRNA for actin (actin 302 gene), clone RT-PCR-18.    66   4e-12  3

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AJ132370_1(AJ132370|pid:none) Allogromia sp. mRNA for actin 1.        247   6e-64
EU334881_1(EU334881|pid:none) Andalucia incarcerata isolate MB1 ...   242   2e-62
(P11426) RecName: Full=Actin;  &ATAXE(A29877;A54526;S33463) &M16...   241   2e-62
AF363539_1(AF363539|pid:none) Cercomonas sp. ATCC 50319 actin (a...   241   3e-62
DQ980435_1(DQ980435|pid:none) Thaumatomonas sp. TMT002 actin gen...   241   4e-62
AF363536_1(AF363536|pid:none) Cercomonas sp. ATCC 50318 actin-1 ...   241   4e-62
AM411663_1(AM411663|pid:none) Plasmodiophora brassicae actII gen...   239   4e-62
DQ356668_1(DQ356668|pid:none) Japonochytrium marinum actin gene,...   241   5e-62
AY764017_1(AY764017|pid:none) Sorites sp. isolate X-1646 clone S...   240   7e-62
AY294156_1(AY294156|pid:none) Pelomyxa palustris actin mRNA, com...   239   9e-62

 psg: 0.87  gvh: 0.48  alm: 0.41  top: 0.70  tms: 0.00  mit: 0.33  mip: 0.05
 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 

	 36.0 %: nuclear
	 32.0 %: mitochondrial
	 24.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: endoplasmic reticulum

>> prediction for SHH289 is nuc

>SHH289F.Seq
AAAACTACAAATTTGGATGTTAAATTAATTATAATTTGTTAATATAACATTTTGTATATA
TATATATATAAAAAATAAAAAACTCAAATGACAGGATTTTCAATTCCTAATATGAGTATG
TTACTCAAATTAGCAAATAGTAGATTGGTATTACATAAAAATAAAAATTTTGAACAAAGT
AATGTTCATAAAAAAGAGATTGCAGAATTATTACAATTAGGTAAAGAAGAACAAGCAAGA
GTTAGAACGGTTTCAGTTATTAATGAAGATTATCACACTGAAGTTTTAGGTATTTTAATT
ATTTATTGTGAAACTTTAGCAAATAGAATTAGAGGAATTGAAGGTGTAAAGGTATGCCCA
CCAGATTTAAAAGAAGCATGTTGTAGTATTATATTTGCATCACCATATTTAGATAAACAA
GTTGAATTATATAAGATTAGAAAGAGATTAATTGAAAAATTTGGTAAAAAATTCCCAGAG
GAATGTATAGATTGTTGTTGTATCAATCCAAAGATTGTACATAGATTATCAAATAAACCA
CCTGAAGAATCATTGGTAAACTATTATCTTAGTAATATTGCAAAGAAACATAATGTAGCC
TGGGATACTCCAGCATTACCACCTTTAGTTGATTTANNNNNNNNNN

>SHH289Z.Seq
NNNNNNNNNNATCTATGAAGGTTATTCTATTCCACATGCAATTAAAAGAATCGATATCGG
TGGTCGTGATATCACAGAGTATTTAATGCGTTTACTCACTGAAAGAGGTTATGCTTTCAC
TACAACCGCCGAAAGAGAAATCGTACGTGATATCAAAGAGAAAACTTCATTTGTCTCTCA
AGATTTCTATGCCTCTATGAATGCTCCAGAGGATAATAATATACTCAAGGATTATACGAT
GCCCGATAAACAAGTTTTAACCATTGGTAAAGAAAGATTCCGTTGTTATGAAGCTTTCTT
TGACCCTTCAGTACTAGGTAAAGATCAAAATGGTATTCATCACCTCTTAAATGAAACTAT
CACCTCTTGTGATATTGATATTCGTCGTGATCTCTATAAAAATATTGTAGTTTCTGGTGG
TTCAACAATGGCAACAGGTTTTGAAAAACGTTTACAAAAAGAAATGGAACTTTTAGTTTC
AAATCCTCAAGTCCAAATTAAAATTAATGCACCACCAAATCGTGATATTAGTGTTTGGTG
TGGTGGTTCGGTTTTAGGTGATCTTAAAACTTTTTCGGATCAATGGATTACAAAACAAGA
ATATGAGAAGTTGGTAGAGGAATTGTTCATAGAAAATGTTTTTAAATAAATAAAATAATA
AATAATATTTTAAAAT

>SHH289P.Seq
AAAACTACAAATTTGGATGTTAAATTAATTATAATTTGTTAATATAACATTTTGTATATA
TATATATATAAAAAATAAAAAACTCAAATGACAGGATTTTCAATTCCTAATATGAGTATG
TTACTCAAATTAGCAAATAGTAGATTGGTATTACATAAAAATAAAAATTTTGAACAAAGT
AATGTTCATAAAAAAGAGATTGCAGAATTATTACAATTAGGTAAAGAAGAACAAGCAAGA
GTTAGAACGGTTTCAGTTATTAATGAAGATTATCACACTGAAGTTTTAGGTATTTTAATT
ATTTATTGTGAAACTTTAGCAAATAGAATTAGAGGAATTGAAGGTGTAAAGGTATGCCCA
CCAGATTTAAAAGAAGCATGTTGTAGTATTATATTTGCATCACCATATTTAGATAAACAA
GTTGAATTATATAAGATTAGAAAGAGATTAATTGAAAAATTTGGTAAAAAATTCCCAGAG
GAATGTATAGATTGTTGTTGTATCAATCCAAAGATTGTACATAGATTATCAAATAAACCA
CCTGAAGAATCATTGGTAAACTATTATCTTAGTAATATTGCAAAGAAACATAATGTAGCC
TGGGATACTCCAGCATTACCACCTTTAGTTGATTTA----------ATCTATGAAGGTTA
TTCTATTCCACATGCAATTAAAAGAATCGATATCGGTGGTCGTGATATCACAGAGTATTT
AATGCGTTTACTCACTGAAAGAGGTTATGCTTTCACTACAACCGCCGAAAGAGAAATCGT
ACGTGATATCAAAGAGAAAACTTCATTTGTCTCTCAAGATTTCTATGCCTCTATGAATGC
TCCAGAGGATAATAATATACTCAAGGATTATACGATGCCCGATAAACAAGTTTTAACCAT
TGGTAAAGAAAGATTCCGTTGTTATGAAGCTTTCTTTGACCCTTCAGTACTAGGTAAAGA
TCAAAATGGTATTCATCACCTCTTAAATGAAACTATCACCTCTTGTGATATTGATATTCG
TCGTGATCTCTATAAAAATATTGTAGTTTCTGGTGGTTCAACAATGGCAACAGGTTTTGA
AAAACGTTTACAAAAAGAAATGGAACTTTTAGTTTCAAATCCTCAAGTCCAAATTAAAAT
TAATGCACCACCAAATCGTGATATTAGTGTTTGGTGTGGTGGTTCGGTTTTAGGTGATCT
TAAAACTTTTTCGGATCAATGGATTACAAAACAAGAATATGAGAAGTTGGTAGAGGAATT
GTTCATAGAAAATGTTTTTAAATAAATAAAATAATAAATAATATTTTAAAAT