>CHS239 (CHS239Q) /CSM/CH/CHS2-B/CHS239Q.Seq.d/
XXXXXXXXXXACATTTCCACAATGGNTTCCCAGTTATTGAACGTCCAAGACCACTCGATC
CAAATAGGAAGGATGCTTATGGCAATTTAGAATACTATGAAGATGAAACCCCCTATAGTG
GTTTAATATTACGTAATCAATTGATTTGTTTACTCTATTATANAATNTTTTGTCATGAAC
AACCNTTACCTCAAAATCCACGTTTACTTGGAGGCAATTCAAATAGACGTTACAATCAAC
GTNGTTTTGGTNGTCCAACCGAATATGGNTACGNTCCTGCTGATCCAAGAATGACCTATG
AACTAATGACTCAATCATTGGCAANACATTTCCCNCCNATCGATAAAATGAACCTTAAAA
AAGAAGAGATNGAAACAATGTATATCGATNTTAGACCCTATATGAATTTAAGTACAATCG
TTGCAAATGAAACTTATTCCTACTCGGAAACTTATTCAATTTTTAAC

---HFHNGFPVIERPRPLDPNRKDAYGNLEYYEDETPYSGLILRNQLICLLYYXXFCHEQ
PLPQNPRLLGGNSNRRYNQRXFGXPTEYGYXPADPRMTYELMTQSLAXHFPPIDKMNLKK
EEXETMYIDXRPYMNLSTIVANETYSYSETYSIFN

Frame A:
---HFHNGFPVIERPRPLDPNRKDAYGNLEYYEDETPYSGLILRNQLICLLYYXXFCHEQ
PLPQNPRLLGGNSNRRYNQRXFGXPTEYGYXPADPRMTYELMTQSLAXHFPPIDKMNLKK
EEXETMYIDXRPYMNLSTIVANETYSYSETYSIFN


Frame B:
---istmxsqllnvqdhsiqigrmlmai*ntmkmkppivv*yyvin*fvysiixxfvmnn
xylkihvyleaiqidvtinvvlvvqpnmxtxlliqe*pmn**lnhwqxisxxsik*tlkk
krxkqcisxldpi*i*vqslqmkliptrkliqfl


Frame C:
---fpqwxpsy*tskttrsk*egclwqfril*r*npl*wfnit*sidlftllxnxls*tt
xtskstftwrqfk*tlqstxfwxsnriwxrsc*skndl*tndsiigxtfpxxr*nep*kr
rdxnnvyrx*tlyefkynrck*nlfllgnlfnf*

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHS239 (CHS239Q) /CSM/CH/CHS2-B/CHS239Q.Seq.d/                        829   0.0
CHQ556 (CHQ556Q) /CSM/CH/CHQ5-C/CHQ556Q.Seq.d/                        809   0.0
AHP611 (AHP611Q) /CSM/AH/AHP6-A/AHP611Q.Seq.d/                        809   0.0
AHC630 (AHC630Q) /CSM/AH/AHC6-B/AHC630Q.Seq.d/                        809   0.0
AHE445 (AHE445Q) /CSM/AH/AHE4-B/AHE445Q.Seq.d/                        801   0.0
AFD147 (AFD147Q) /CSM/AF/AFD1-B/AFD147Q.Seq.d/                        801   0.0
SLH751 (SLH751Q) /CSM/SL/SLH7-C/SLH751Q.Seq.d/                        799   0.0
SLH842 (SLH842Q) /CSM/SL/SLH8-B/SLH842Q.Seq.d/                        791   0.0
CHJ882 (CHJ882Q) /CSM/CH/CHJ8-D/CHJ882Q.Seq.d/                        777   0.0
AHM582 (AHM582Q) /CSM/AH/AHM5-D/AHM582Q.Seq.d/                        777   0.0

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

AF414428|AF414428.1 Dictyostelium discoideum chloride channel protein ClcA (clcA) mRNA, complete cds.   809   0.0    1
CR352259|CR352259.6 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone.    44   2.5    1
BG317760|BG317760.1 NXPV_005_D06_F NXPV (Nsf Xylem Planings wood Vertical) Pinus taeda cDNA clone NXPV_005_D06 5', mRNA sequence.    42   9.9    1
CX659099|CX659099.1 PO01026E04 Poplar SC cDNA library Populus alba x Populus tremula var. glandulosa cDNA clone PO01026E04 5', mRNA sequence.    42   9.9    1
BB698265|BB698265.1 Mus musculus 2 days neonate sympathetic ganglion cDNA, RIKEN full-length enriched library, clone:7120498L16, 3' end partial sequence.    42   9.9    1
CR029411|CR029411.1 Forward strand read from insert in 5'HPRT insertion targeting and chromosome engineering clone MHPN192d01.    42   9.9    1
AZ781723|AZ781723.1 2M0021H18F Mouse 10kb plasmid UUGC1M library Mus musculus genomic clone UUGC2M0021H18 F, DNA sequence.    42   9.9    1
AQ947022|AQ947022.1 Sheared DNA-45H14.TF Sheared DNA Trypanosoma brucei genomic clone Sheared DNA-45H14, genomic survey sequence.    42   9.9    1
AQ652908|AQ652908.1 Sheared DNA-9P11.TF Sheared DNA Trypanosoma brucei genomic clone Sheared DNA-9P11, genomic survey sequence.    42   9.9    1
AF303582|AF303582.2 Trypanosoma brucei RNA polymerase (MTRNAP) gene, complete cds, nuclear gene for mitochondrial product.    42   9.9    1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54AX6) RecName: Full=Chloride channel protein A;  &AF414428_1(...   302   3e-81
T01843(T01843)chloride channel protein homolog F9D12.10 - Arabid...    45   8e-04
Z71450_1(Z71450|pid:none) A.thaliana mRNA for CLC-d chloride cha...    45   8e-04
AC123974_4(AC123974|pid:none) Oryza sativa chromosome 3 BAC OSJN...    42   0.006
CP001141_210(CP001141|pid:none) Phaeodactylum tricornutum CCAP 1...    40   0.025
AK056551_1(AK056551|pid:none) Homo sapiens cDNA FLJ31989 fis, cl...    40   0.025
AK292136_1(AK292136|pid:none) Homo sapiens cDNA FLJ78478 complet...    39   0.072
BC006158_1(BC006158|pid:none) Homo sapiens chloride channel 7, m...    39   0.072
BC004946_1(BC004946|pid:none) Homo sapiens, clone IMAGE:3615790,...    39   0.072
BC109196_1(BC109196|pid:none) Homo sapiens chloride channel 7, m...    39   0.072

 psg: 0.38  gvh: 0.58  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.24  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 

	 40.0 %: cytoplasmic
	 32.0 %: nuclear
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: extracellular, including cell wall
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for CHS239 is cyt

>CHS239Z.Seq
NNNNNNNNNNACATTTCCACAATGGNTTCCCAGTTATTGAACGTCCAAGACCACTCGATC
CAAATAGGAAGGATGCTTATGGCAATTTAGAATACTATGAAGATGAAACCCCCTATAGTG
GTTTAATATTACGTAATCAATTGATTTGTTTACTCTATTATANAATNTTTTGTCATGAAC
AACCNTTACCTCAAAATCCACGTTTACTTGGAGGCAATTCAAATAGACGTTACAATCAAC
GTNGTTTTGGTNGTCCAACCGAATATGGNTACGNTCCTGCTGATCCAAGAATGACCTATG
AACTAATGACTCAATCATTGGCAANACATTTCCCNCCNATCGATAAAATGAACCTTAAAA
AAGAAGAGATNGAAACAATGTATATCGATNTTAGACCCTATATGAATTTAAGTACAATCG
TTGCAAATGAAACTTATTCCTACTCGGAAACTTATTCAATTTTTAAC