>SHK558 (SHK558Q) /CSM/SH/SHK5-C/SHK558Q.Seq.d/
XXXXXXXXXXTNTGACATTATTAATTTNGNTGATACTCCACAAAAAGAAGTTTGTCAATT
TGATGATGATTNTGAAACAGAATCAGATGTTTCGATGGACCATTTACCATTCGATTCAGT
TAGTAATCAAGTAGATGATAAGGTAGAGGAGGAAGAAGAGGGGGAAGGAGAAGTAGTTGA
TGAAAATGCCATTGAAGAGGAATTTGATGAAGAAGTTGATGAAGAAATTGATGAAGAAGT
TGATGAAGAAGTTGACGAAGAAGTTGATGAAAAATTTGAAGAAGTTGATGGAGAAGTTGA
TGAAGAATTTGATGAAGAAGTTGATGAAGAGGTTGGTGAAGAATTTGATGAAGAATTTGA
TGAAGAAGTTGATGAAGAAGTTGATGAGGAAGTTGAAGAAGTTGATGAAGAAGTTGATGA
AGAAGTTGATGAAGAAGTTGATGAAGAGGTTGATGATAAAGTTGATGAACAAGCTGATGA
ACAAGTTGAACAAGTTGAAGATGTTGACGAGGAGAGAGAAAATGAAACATGTCAAGAGTT
CGAAAAAGAACTTAAAGTTAATGTAGATGAAGAGA

---DIINXXDTPQKEVCQFDDDXETESDVSMDHLPFDSVSNQVDDKVEEEEEGEGEVVDE
NAIEEEFDEEVDEEIDEEVDEEVDEEVDEKFEEVDGEVDEEFDEEVDEEVGEEFDEEFDE
EVDEEVDEEVEEVDEEVDEEVDEEVDEEVDDKVDEQADEQVEQVEDVDEERENETCQEFE
KELKVNVDEE

Frame A:
---xtllixxilhkkkfvnlmmixkqnqmfrwtiyhsiqlvik*mir*rrkkrgkek*lm
kmplkrnlmkklmkklmkklmkkltkklmknlkklmeklmknlmkklmkrlvknlmknlm
kklmkklmrklkklmkklmkklmkklmkrlmiklmnklmnklnklkmltrrekmkhvkss
kknlklm*mkr


Frame B:
---*hy*fx*ystkrslsi***x*nrircfdgpftirfs**ssr**grggrrggrrss**
kch*rgi**rs**rn**rs**rs*rrs**ki*rs*wrs**ri**rs**rgw*ri**ri**
rs**rs**gs*rs**rs**rs**rs**rg***s**ts**ts*ts*rc*rgerk*nmsrvr
krt*s*cr*r


Frame C:
---DIINXXDTPQKEVCQFDDDXETESDVSMDHLPFDSVSNQVDDKVEEEEEGEGEVVDE
NAIEEEFDEEVDEEIDEEVDEEVDEEVDEKFEEVDGEVDEEFDEEVDEEVGEEFDEEFDE
EVDEEVDEEVEEVDEEVDEEVDEEVDEEVDDKVDEQADEQVEQVEDVDEERENETCQEFE
KELKVNVDEE

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHK558 (SHK558Q) /CSM/SH/SHK5-C/SHK558Q.Seq.d/                        339   3e-92
SHJ601 (SHJ601Q) /CSM/SH/SHJ6-A/SHJ601Q.Seq.d/                        339   3e-92
SHE636 (SHE636Q) /CSM/SH/SHE6-B/SHE636Q.Seq.d/                        339   3e-92
SHD487 (SHD487Q) /CSM/SH/SHD4-D/SHD487Q.Seq.d/                        339   3e-92
SFB117 (SFB117Q) /CSM/SF/SFB1-A/SFB117Q.Seq.d/                        339   3e-92
AHP878 (AHP878Q) /CSM/AH/AHP8-D/AHP878Q.Seq.d/                        339   3e-92
AHO483 (AHO483Q) /CSM/AH/AHO4-D/AHO483Q.Seq.d/                        339   3e-92
AHK203 (AHK203Q) /CSM/AH/AHK2-A/AHK203Q.Seq.d/                        339   3e-92
AHK201 (AHK201Q) /CSM/AH/AHK2-A/AHK201Q.Seq.d/                        339   3e-92
AHC718 (AHC718Q) /CSM/AH/AHC7-A/AHC718Q.Seq.d/                        339   3e-92

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

AC109986|AC109986.5 Rattus norvegicus clone CH230-40N2, WORKING DRAFT SEQUENCE.    36   0.010  2
AG333333|AG333333.1 Mus musculus molossinus DNA, clone:MSMg01-123N04.TJ, genomic survey sequence.    40   0.044  2
BQ433997|BQ433997.1 AGENCOURT_7761084 NIH_MGC_72 Homo sapiens cDNA clone IMAGE:6061982 5', mRNA sequence.    50   0.058  1
AC129842|AC129842.4 Rattus norvegicus clone CH230-400K20, WORKING DRAFT SEQUENCE, 2 unordered pieces.    50   0.058  1
AC121369|AC121369.4 Rattus norvegicus clone CH230-133D12, *** SEQUENCING IN PROGRESS ***, 5 unordered pieces.    50   0.058  1
AC114358|AC114358.4 Rattus norvegicus clone CH230-21N22, WORKING DRAFT SEQUENCE, 2 unordered pieces.    50   0.058  1
AC106582|AC106582.4 Rattus norvegicus clone CH230-204F6, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces.    50   0.058  1
AC106323|AC106323.4 Rattus norvegicus clone CH230-222A19, WORKING DRAFT SEQUENCE, 4 unordered pieces.    50   0.058  1
AC123843|AC123843.4 Mus musculus BAC clone RP23-407D18 from chromosome 8, complete sequence.    50   0.058  1
DY611260|DY611260.1 IMMUNEF045817H8 POSSUM_01-C-POSSUM-IMMUNE-2KB Trichosurus vulpecula cDNA clone 1061021065086, mRNA sequence.    48   0.23   1

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3101297
Number of Hits to DB: 219,918,367

 psg: 0.75  gvh: 0.37  alm: 0.64  top: 0.53  tms: 0.00  mit: 0.11  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 %: nuclear
	 24.0 %: cytoplasmic
	 16.0 %: cytoskeletal
	 12.0 %: mitochondrial
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for SHK558 is nuc

>SHK558Z.Seq
NNNNNNNNNNTNTGACATTATTAATTTNGNTGATACTCCACAAAAAGAAGTTTGTCAATT
TGATGATGATTNTGAAACAGAATCAGATGTTTCGATGGACCATTTACCATTCGATTCAGT
TAGTAATCAAGTAGATGATAAGGTAGAGGAGGAAGAAGAGGGGGAAGGAGAAGTAGTTGA
TGAAAATGCCATTGAAGAGGAATTTGATGAAGAAGTTGATGAAGAAATTGATGAAGAAGT
TGATGAAGAAGTTGACGAAGAAGTTGATGAAAAATTTGAAGAAGTTGATGGAGAAGTTGA
TGAAGAATTTGATGAAGAAGTTGATGAAGAGGTTGGTGAAGAATTTGATGAAGAATTTGA
TGAAGAAGTTGATGAAGAAGTTGATGAGGAAGTTGAAGAAGTTGATGAAGAAGTTGATGA
AGAAGTTGATGAAGAAGTTGATGAAGAGGTTGATGATAAAGTTGATGAACAAGCTGATGA
ACAAGTTGAACAAGTTGAAGATGTTGACGAGGAGAGAGAAAATGAAACATGTCAAGAGTT
CGAAAAAGAACTTAAAGTTAATGTAGATGAAGAGA