>SHB186 (SHB186Q) /CSM/SH/SHB1-D/SHB186Q.Seq.d/
XXXXXXXXXXTTCTGATCAAGTTCAAAAAGTTACTTTACATACTCATGCTACTCCAGTTT
TACCATCATTATCAACTCATCAATCTTCAATTTGTGGTGGTGGTGGATCACTTCATCGTA
GAACTGCTAGTAATAGTGGTGATGGTATTGCAAGTGGTATTGGTTCAAGAATTGGCGGTA
CAAATACTAGTGGTGGTGGTGGTGGTGGTAATAATGATGGAATTTCAAATATTACAAGTA
ATTTTGGTAATACTTTAACAGTTGATGGTGCAGGTGGTAATTTATCAGGTTCAAAAGTTA
CACCAATTCCAACTAGAAAAGTTCATACTCATTATCAACAATCAAATATAAATAGACAAC
AACATCTTCAACCTTTAACAACCAAAGAAGAATATGAAGCATCAAAAGATACTAAACAAC
CATTTGTTTCATTTTTAAATGTTGAAACTGCTTCCTATGATGAACAATCACATTATTTAA
TAGATATTTTAACAGATTATCAAGTGATGGTAGATCAAAAAGGTTATGTTACAATGGATT
TAGAACCATACCAATTCTTTTGGTTCTCAATGGGNGAAAATTACANCTTTAATGGGTGAT
GGTTCANNATCACGTGATCTTAGTAANTGCTCCTCTT

---SDQVQKVTLHTHATPVLPSLSTHQSSICGGGGSLHRRTASNSGDGIASGIGSRIGGT
NTSGGGGGGNNDGISNITSNFGNTLTVDGAGGNLSGSKVTPIPTRKVHTHYQQSNINRQQ
HLQPLTTKEEYEASKDTKQPFVSFLNVETASYDEQSHYLIDILTDYQVMVDQKGYVTMDL
EPYQFFWFSMGENYXFNG*wfxit*s**xll

Frame A:
---SDQVQKVTLHTHATPVLPSLSTHQSSICGGGGSLHRRTASNSGDGIASGIGSRIGGT
NTSGGGGGGNNDGISNITSNFGNTLTVDGAGGNLSGSKVTPIPTRKVHTHYQQSNINRQQ
HLQPLTTKEEYEASKDTKQPFVSFLNVETASYDEQSHYLIDILTDYQVMVDQKGYVTMDL
EPYQFFWFSMGENYXFNG*wfxit*s**xll


Frame B:
---likfkkllyilmllqfyhhyqlinlqfvvvvdhfivellvivvmvlqvvlvqelavq
ilvvvvvvvimmefqilqvilvil*qlmvqvviyqvqklhqfqlekfiliinnqi*idnn
ifnl*qpkknmkhqkilnnhlfhf*mlkllpmmnnhii**if*qiik*w*ikkvmlqwi*
nhtnsfgsqwxkitxlmgdgsxsrdlsxcss


Frame C:
---*sssksyftyscyssftiiinssifnlwwwwitss*nc***w*wyckwywfknwryk
y*wwwwww***wnfkyyk*fw*yfns*wcrw*firfksytnsn*kssyslstikyk*ttt
sstfnnqrri*sikry*tticfifkc*ncfl**titlfnryfnrlssdgrskrlcyngfr
tipillvlngxklxl*wvmvxxhvilvxapl

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHB186 (SHB186Q) /CSM/SH/SHB1-D/SHB186Q.Seq.d/                        819   0.0
VHJ358 (VHJ358Q) /CSM/VH/VHJ3-C/VHJ358Q.Seq.d/                        781   0.0
SLA289 (SLA289Q) /CSM/SL/SLA2-D/SLA289Q.Seq.d/                        781   0.0
CFC289 (CFC289Q) /CSM/CF/CFC2-D/CFC289Q.Seq.d/                        781   0.0
AFL570 (AFL570Q) /CSM/AF/AFL5-C/AFL570Q.Seq.d/                        781   0.0
AFN120 (AFN120Q) /CSM/AF/AFN1-A/AFN120Q.Seq.d/                        773   0.0
SFK748 (SFK748Q) /CSM/SF/SFK7-B/SFK748Q.Seq.d/                        763   0.0
CHH251 (CHH251Q) /CSM/CH/CHH2-C/CHH251Q.Seq.d/                        763   0.0
AFM221 (AFM221Q) /CSM/AF/AFM2-A/AFM221Q.Seq.d/                        763   0.0
AHQ540 (AHQ540Q) /CSM/AH/AHQ5-B/AHQ540Q.Seq.d/                        745   0.0

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

CT054455|CT054455.1 Sus scrofa genomic clone PigE-52G4, genomic survey sequence.    38   0.65   3
AC162044|AC162044.2 Bos taurus clone CH240-113M22, *** SEQUENCING IN PROGRESS ***, 14 unordered pieces.    46   0.88   1
AC160294|AC160294.2 Bos taurus clone CH240-86B2, *** SEQUENCING IN PROGRESS ***, 53 unordered pieces.    46   0.88   1
AF240632|AF240632.1 Rattus norvegicus sialomucin complex (Muc4) gene, promoter and partial cds.    32   2.2    2
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.    34   2.3    11
AQ788363|AQ788363.1 HS_3135_A2_E06_MR CIT Approved Human Genomic Sperm Library D Homo sapiens genomic clone Plate=3135 Col=12 Row=I, genomic survey sequence.    34   2.3    2
AC025775|AC025775.6 Homo sapiens chromosome 5 clone CTD-2299B9, complete sequence.    36   3.0    4
BH583690|BH583690.1 BOHQP74TR BOHQ Brassica oleracea genomic clone BOHQP74, DNA sequence.    44   3.5    1
CP000099|CP000099.1 Methanosarcina barkeri str. fusaro chromosome 1, complete sequence.    44   3.5    1
BX511024|BX511024.4 Zebrafish DNA sequence from clone DKEY-15F12 in linkage group 20  Contains the 5' end of the gene for a novel protein similar to  vertebrate visinin-like 1 (VSNL1) and a CpG island.    44   3.5    1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AE004437_1261(AE004437|pid:none) Halobacterium sp. NRC-1, comple...    35   2.3
DQ366712_25(DQ366712|pid:none) Uncultured Prochlorococcus marinu...    33   5.0
BC162578_1(BC162578|pid:none) Danio rerio cortactin, mRNA (cDNA ...    33   8.6
AF527956_1(AF527956|pid:none) Danio rerio cortactin mRNA, comple...    33   8.6
CP000576_1384(CP000576|pid:none) Prochlorococcus marinus str. MI...    33   8.6
AC105768_3(AC105768|pid:none) Oryza sativa (japonica cultivar-gr...    33   8.6

 psg: 0.87  gvh: 0.49  alm: 0.55  top: 0.57  tms: 0.00  mit: 0.37  mip: 0.19
 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 

	 52.0 %: mitochondrial
	 28.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal

>> prediction for SHB186 is mit

>SHB186Z.Seq
NNNNNNNNNNTTCTGATCAAGTTCAAAAAGTTACTTTACATACTCATGCTACTCCAGTTT
TACCATCATTATCAACTCATCAATCTTCAATTTGTGGTGGTGGTGGATCACTTCATCGTA
GAACTGCTAGTAATAGTGGTGATGGTATTGCAAGTGGTATTGGTTCAAGAATTGGCGGTA
CAAATACTAGTGGTGGTGGTGGTGGTGGTAATAATGATGGAATTTCAAATATTACAAGTA
ATTTTGGTAATACTTTAACAGTTGATGGTGCAGGTGGTAATTTATCAGGTTCAAAAGTTA
CACCAATTCCAACTAGAAAAGTTCATACTCATTATCAACAATCAAATATAAATAGACAAC
AACATCTTCAACCTTTAACAACCAAAGAAGAATATGAAGCATCAAAAGATACTAAACAAC
CATTTGTTTCATTTTTAAATGTTGAAACTGCTTCCTATGATGAACAATCACATTATTTAA
TAGATATTTTAACAGATTATCAAGTGATGGTAGATCAAAAAGGTTATGTTACAATGGATT
TAGAACCATACCAATTCTTTTGGTTCTCAATGGGNGAAAATTACANCTTTAATGGGTGAT
GGTTCANNATCACGTGATCTTAGTAANTGCTCCTCTT