>SHK532 (SHK532Q) /CSM/SH/SHK5-B/SHK532Q.Seq.d/
XXXXXXXXXXTTTAGATGCAGATGGTAATGAAATTGAAGACTNTGATGATGACTNTGAAT
TTGATGACGATGAATACAGTGATAGTGATGACGATGATGCTTGGGAGAAAGTACCAAAGA
AATCATTAATTAATCCACCAAAGGAATTATGTCATTCTCCATTCACATTTGATGATAAAC
CAGTAAACTTTTGGATTTTAATGGGTAATCGTCAAAAGAATGAATTGGTTGCATTGGGTA
AAACTGAAACCTTTACACCAGGTACCATCGTTAAATATCCATTCCTTTCAGCCGCTGAAA
TTGGTACCGCTCATTATTCACTCTACGTCATGTGTGATGGTTATTTAGGTTGTGATGTTG
AAACTGATGTTTCAATTAATCTCGCTCATAATCCACGTCCATTACAACTTCAACCATTAC
CACGTGTTCAACAACAACCTGTACCACCACAAAGAAAAATTGGTGATGCTGCAGATGATG
ATAGCGACGATGATGAAGTTGCAAACAAAAAATCAAATGATACAGTTCAACAAAAACAAC
AACAACAACAAGCAGCTCAGCAAAAACAACAACAAG

---LDADGNEIEDXDDDXEFDDDEYSDSDDDDAWEKVPKKSLINPPKELCHSPFTFDDKP
VNFWILMGNRQKNELVALGKTETFTPGTIVKYPFLSAAEIGTAHYSLYVMCDGYLGCDVE
TDVSINLAHNPRPLQLQPLPRVQQQPVPPQRKIGDAADDDSDDDEVANKKSNDTVQQKQQ
QQQAAQQKQQQ

Frame A:
---LDADGNEIEDXDDDXEFDDDEYSDSDDDDAWEKVPKKSLINPPKELCHSPFTFDDKP
VNFWILMGNRQKNELVALGKTETFTPGTIVKYPFLSAAEIGTAHYSLYVMCDGYLGCDVE
TDVSINLAHNPRPLQLQPLPRVQQQPVPPQRKIGDAADDDSDDDEVANKKSNDTVQQKQQ
QQQAAQQKQQQ


Frame B:
---*mqmvmklktxmmtxnlmtmntvivmtmmlgrkyqrnh*lihqrnyvilhshlminq
*tfgf*wvivkrmnwlhwvklkplhqvpslnihsfqplklvpliihstscvmvi*vvmlk
lmfqlisliihvhynfnhyhvfnnnlyhhkeklvmlqmmiatmmklqtknqmiqfnknnn
nnkqlsknnnk


Frame C:
---rcrw**n*rl***l*i**r*iq****r*clgestkeiin*stkgimsfsihi***ts
klldfng*sske*igcig*n*nlytryhr*isipfsr*nwyrslftlrhv*wlfrl*c*n
*cfn*srs*stsittstittcstttctttkknw*ccr***rr**sckqkik*ysstkttt
ttsssakttt

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SLG123 (SLG123Q) /CSM/SL/SLG1-A/SLG123Q.Seq.d/                        961   0.0
SHK532 (SHK532Q) /CSM/SH/SHK5-B/SHK532Q.Seq.d/                        961   0.0
AHO340 (AHO340Q) /CSM/AH/AHO3-B/AHO340Q.Seq.d/                        914   0.0
SHG211 (SHG211Q) /CSM/SH/SHG2-A/SHG211Q.Seq.d/                        902   0.0
CHG880 (CHG880Q) /CSM/CH/CHG8-D/CHG880Q.Seq.d/                        676   0.0
AHJ295 (AHJ295Q) /CSM/AH/AHJ2-D/AHJ295Q.Seq.d/                        674   0.0
AHQ275 (AHQ275Q) /CSM/AH/AHQ2-D/AHQ275Q.Seq.d/                        628   e-179
AHQ534 (AHQ534Q) /CSM/AH/AHQ5-B/AHQ534Q.Seq.d/                        601   e-171
AHK331 (AHK331Q) /CSM/AH/AHK3-B/AHK331Q.Seq.d/                        280   2e-74
SHD177 (SHD177Q) /CSM/SH/SHD1-D/SHD177Q.Seq.d/                         82   1e-14

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

AL665076|AL665076.1 Ciona intestinalis; larval mRNA; EST 3PRIM end of clone 011ZG02 of (Ciona).    50   0.058  1
BW405940|BW405940.1 Ciona intestinalis cDNA, clone:ciem849p05, 3'end, single read.    50   0.058  1
BW141976|BW141976.1 Ciona intestinalis cDNA, clone:rcign005p14, 3' end, single read.    50   0.058  1
BW158502|BW158502.1 Ciona intestinalis cDNA, clone:rcigd034p24, 3' end, single read.    50   0.058  1
BW271680|BW271680.1 Ciona intestinalis cDNA, clone:cign005p14, 5' end, single read.    50   0.058  1
BW131793|BW131793.1 Ciona intestinalis cDNA, clone:rcign028p12, 3' end, single read.    50   0.058  1
BW143592|BW143592.1 Ciona intestinalis cDNA, clone:rcign065j04, 3' end, single read.    50   0.058  1
BW157720|BW157720.1 Ciona intestinalis cDNA, clone:rcigd032j18, 3' end, single read.    50   0.058  1
BW261628|BW261628.1 Ciona intestinalis cDNA, clone:cign028p12, 5' end, single read.    50   0.058  1
AB210737|AB210737.1 Ciona intestinalis mRNA for transcription factor protein, complete cds, clone: ciem849p05.    50   0.058  1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AF419583_1(AF419583|pid:none) Arabidopsis thaliana At1g20960/F9H...    52   1e-05
AC092558_6(AC092558|pid:none) Oryza sativa chromosome 3 BAC OSJN...    50   4e-05
CP001577_153(CP001577|pid:none) Micromonas sp. RCC299 chromosome...    48   2e-04
AK303663_1(AK303663|pid:none) Homo sapiens cDNA FLJ55548 complet...    44   0.002
BC001417_1(BC001417|pid:none) Homo sapiens small nuclear ribonuc...    44   0.002
BC160717_1(BC160717|pid:none) Xenopus laevis hypothetical protei...    44   0.002
(O75643) RecName: Full=U5 small nuclear ribonucleoprotein 200 kD...    44   0.002
AF119874_1(AF119874|pid:none) Homo sapiens PRO2281 mRNA, complet...    44   0.002
BC007577_1(BC007577|pid:none) Homo sapiens small nuclear ribonuc...    44   0.002
BC158531_1(BC158531|pid:none) Xenopus tropicalis hypothetical pr...    44   0.002

 psg: 0.75  gvh: 0.13  alm: 0.47  top: 0.53  tms: 0.00  mit: 0.14  mip: 0.00
 nuc: 0.00  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 

	 44.0 %: cytoplasmic
	 40.0 %: nuclear
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar

>> prediction for SHK532 is cyt

>SHK532Z.Seq
NNNNNNNNNNTTTAGATGCAGATGGTAATGAAATTGAAGACTNTGATGATGACTNTGAAT
TTGATGACGATGAATACAGTGATAGTGATGACGATGATGCTTGGGAGAAAGTACCAAAGA
AATCATTAATTAATCCACCAAAGGAATTATGTCATTCTCCATTCACATTTGATGATAAAC
CAGTAAACTTTTGGATTTTAATGGGTAATCGTCAAAAGAATGAATTGGTTGCATTGGGTA
AAACTGAAACCTTTACACCAGGTACCATCGTTAAATATCCATTCCTTTCAGCCGCTGAAA
TTGGTACCGCTCATTATTCACTCTACGTCATGTGTGATGGTTATTTAGGTTGTGATGTTG
AAACTGATGTTTCAATTAATCTCGCTCATAATCCACGTCCATTACAACTTCAACCATTAC
CACGTGTTCAACAACAACCTGTACCACCACAAAGAAAAATTGGTGATGCTGCAGATGATG
ATAGCGACGATGATGAAGTTGCAAACAAAAAATCAAATGATACAGTTCAACAAAAACAAC
AACAACAACAAGCAGCTCAGCAAAAACAACAACAAG