>SSM123 (SSM123Q) /CSM/SS/SSM1-A/SSM123Q.Seq.d/
XXXXXXXXXXAACAAAAAAAAATATTTAAAAAAAAAAAAAAAAGGAAAAAAAAAAATATT
AAAATATTTTTTTTAAAATCAATTTTAAATATAAATAATAATGTTTTTTTTTTTTTTTTA
TAAAAAAAAGAAAGAAAAAAAGAAAAAAAAAAAAAAAAGAAAAAAAGAATTTAAAAAAAA
AAAAAAAAATAGAAAAAAAAAAGTTAAAGATGTAATGGTAAAACCAAAGTAGAATGGAAT
CCAAAAAAAGATCTTTATAAATTGCCACTATAATCAATGTATAGATATTGTTCCGTCTGT
GTGTATGCTGTTAGGTCCAGTTTGCTCTTTAGTTACTTTAATTTAAATCTATATTGTAAT
TTTTATAAAAAAAAAAAAAAGAAAAAAAAAAACAAAAAAAAAAAGAAAAAAGAAAAAATA
ATAATAATAATAATAATAATAATACAATAAATTTAAATAAAAATAAAGAATAAACCTTAT
AGTGGGTTTACCAATTTATA

---qkkifkkkkkrkkknikifflksilninnnvffffl*kkerkkekkkkkkkri*kkk
kk*kkks*rcngktkvewnpkkdlyklpl*SMYRYCSVCVYAVRSSLLFSYFNLNLYCNF
YKKKKKKKKNKKKKKKEKIIIIIIIIIQ*i*ikiknkpysgftnl

Frame A:
---tkkni*kkkkkekkky*niffkinfkyk**cfffffikkrkkkrkkkkkekknlkkk
kkiekkklkm*w*nqsrmeskkrsl*iatiinv*ilfrlcvcc*vqfal*ll*fksil*f
l*kkkkekkkqkkkekrknnnnnnnnntinlnknke*tl*wvyqfi


Frame B:
---qkkifkkkkkrkkknikifflksilninnnvffffl*kkerkkekkkkkkkri*kkk
kk*kkks*rcngktkvewnpkkdlyklpl*SMYRYCSVCVYAVRSSLLFSYFNLNLYCNF
YKKKKKKKKNKKKKKKEKIIIIIIIIIQ*i*ikiknkpysgftnl


Frame C:
---kkkylkkkkkgkkkilkyff*nqf*i*iimfffffykkkkekkkkkkkrkkefkkkk
knrkkkvkdvmvkpk*ngiqkkifinchynqcidivpsvcmllgpvcslvtli*iyivif
ikkkkrkkktkkkrkkkk********ynkfk*k*rinlivglpiy

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSM123 (SSM123Q) /CSM/SS/SSM1-A/SSM123Q.Seq.d/                        283   1e-75
SSM852 (SSM852Q) /CSM/SS/SSM8-C/SSM852Q.Seq.d/                        270   2e-71
SSM834 (SSM834Q) /CSM/SS/SSM8-B/SSM834Q.Seq.d/                        270   2e-71
SSM790 (SSM790Q) /CSM/SS/SSM7-D/SSM790Q.Seq.d/                        270   2e-71
SSM712 (SSM712Q) /CSM/SS/SSM7-A/SSM712Q.Seq.d/                        270   2e-71
SSM626 (SSM626Q) /CSM/SS/SSM6-B/SSM626Q.Seq.d/                        270   2e-71
SSM515 (SSM515Q) /CSM/SS/SSM5-A/SSM515Q.Seq.d/                        270   2e-71
SSM501 (SSM501Q) /CSM/SS/SSM5-A/SSM501Q.Seq.d/                        270   2e-71
SSM491 (SSM491Q) /CSM/SS/SSM4-D/SSM491Q.Seq.d/                        270   2e-71
SSM425 (SSM425Q) /CSM/SS/SSM4-B/SSM425Q.Seq.d/                        270   2e-71

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

D16417|D16417.1 Dictyostelium discoideum mRNA.                   232  2e-92  3
CC245494|CC245494.1 CH261-54C11_Sp6.1 CH261 Gallus gallus genomic clone CH261-54C11, DNA sequence.    56  4e-04  1
BM094544|BM094544.1 saj17c12.y1 Gm-c1066 Glycine max cDNA clone GENOME SYSTEMS CLONE ID: Gm-c1066-2832 5', mRNA sequence.    52  0.007  1
L06178|L06178.1 Apis mellifera ligustica complete mitochondrial genome.    38  0.010  6
AX348899|AX348899.1 Sequence 357 from Patent WO0202807.           34  0.050  4
AX344490|AX344490.1 Sequence 337 from Patent WO0200926.           34  0.050  4
AB030651|AB030651.1 Felis catus mRNA for B-lymphocyte activation antigen B7-1 (CD80), complete cds.    38  0.075  2
L43882|L43882.1 Ixodes scapularis (isolate 2, strain Georgia 2) mitochondrial 12S ribosomal RNA (12S rDNA) gene fragment.    48  0.10  1
BH564896|BH564896.1 BOHIQ68TR BOHI Brassica oleracea genomic clone BOHIQ68, DNA sequence.    48  0.10  1
AC130808|AC130808.13 Medicago truncatula clone mth2-34k9, WORKING DRAFT SEQUENCE, 1 ordered piece.    36  0.17  4

 ***** 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: 3204285
Number of Hits to DB: 291,751,835

 psg: 0.89  gvh: 0.44  alm: 0.40  top: 0.47  tms: 0.00  mit: 0.45  mip: 0.00
 nuc: 0.59  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 

	 76.0 %: nuclear
	  8.0 %: plasma membrane
	  8.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial

>> prediction for SSM123 is nuc

>SSM123Z.Seq
----------AACAAAAAAAAATATTTAAAAAAAAAAAAAAAAGGAAAAAAAAAAATATT
AAAATATTTTTTTTAAAATCAATTTTAAATATAAATAATAATGTTTTTTTTTTTTTTTTA
TAAAAAAAAGAAAGAAAAAAAGAAAAAAAAAAAAAAAAGAAAAAAAGAATTTAAAAAAAA
AAAAAAAAATAGAAAAAAAAAAGTTAAAGATGTAATGGTAAAACCAAAGTAGAATGGAAT
CCAAAAAAAGATCTTTATAAATTGCCACTATAATCAATGTATAGATATTGTTCCGTCTGT
GTGTATGCTGTTAGGTCCAGTTTGCTCTTTAGTTACTTTAATTTAAATCTATATTGTAAT
TTTTATAAAAAAAAAAAAAAGAAAAAAAAAAACAAAAAAAAAAAGAAAAAAGAAAAAATA
ATAATAATAATAATAATAATAATACAATAAATTTAAATAAAAATAAAGAATAAACCTTAT
AGTGGGTTTACCAATTTATA