>SSH663 (SSH663Q) /CSM/SS/SSH6-C/SSH663Q.Seq.d/
ACATACTTATATAAAAGTACATATAAGTAAATTTATTATATGTTAAAACATATTATTTAT
AAATTTTATTTATAAATTTTAAAAATTAAACAATTAATAAAAAAAATTGTTTATTTACAT
TCTACACACACACAAATACAAATAAATTCGCACACAAAAAAAAAAACACAGTATCCACAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAXXXXXXXXXXAGTTCAAGT
CCAAATGTAAATAATAATTCAAATCAATCTTTNGAAGTTTNTGAAAATTTAAATANCNAA
GGTGNTTTAATAGGTGGTGCTGATGTTTAAATATNTAATTTAAATATATTTATTTCTTAT
TATTATTTTTTTTTTTTCTATATATCTAATNTAAAAAAAAAAAAAAAAAAAAAAAAAAAA
GAAAATTTAAAAATAGAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAGTAT

tylykstyk*iyymlkhiiykfyl*ILKIKQLIKKIVYLHSTHTQIQINSHTKKKTQYPQ
KKKKKKKKKKKKK---

---SSSPNVNNNSNQSXEVXENLNXXGXLIGGADV*ixnlnifisyyyffffyisnxkkk
kkkkkkenlkiekkkkkkkkkkks

Frame A:
tylykstyk*iyymlkhiiykfyl*ILKIKQLIKKIVYLHSTHTQIQINSHTKKKTQYPQ
KKKKKKKKKKKKK---

---SSSPNVNNNSNQSXEVXENLNXXGXLIGGADV*ixnlnifisyyyffffyisnxkkk
kkkkkkenlkiekkkkkkkkkkks

Frame B:
htyikvhiskfiic*nilfinfiykf*klnn**kklfiyilhthkyk*irtqkkkhsihk
kkkkkkkkkkkkk---

---vqvqm*iiiqinlxkfxki*ixkvx**vvlmfkyxi*iylfliiifffsiylx*kkk
kkkkkkki*k*kkkkkkkrkkkkv

Frame C:
ili*kyi*vnllyvktyyl*ilfinfkn*tinkknclftfythtntnkfahkkkntvstk
kkkkkkkkkkkkk---

---fkskck**fksifxsx*kfkxxrxfnrwc*clnx*fkyiyflllfffflyi*xkkkk
kkkkkrkfknrkkkkkkkekkkky

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH663 (SSH663Q) /CSM/SS/SSH6-C/SSH663Q.Seq.d/                        230   2e-59
SSJ852 (SSJ852Q) /CSM/SS/SSJ8-C/SSJ852Q.Seq.d/                        222   4e-57
SSJ254 (SSJ254Q) /CSM/SS/SSJ2-C/SSJ254Q.Seq.d/                        222   4e-57
SSH781 (SSH781Q) /CSM/SS/SSH7-D/SSH781Q.Seq.d/                        222   4e-57
SSG274 (SSG274Q) /CSM/SS/SSG2-D/SSG274Q.Seq.d/                        222   4e-57
SSF157 (SSF157Q) /CSM/SS/SSF1-C/SSF157Q.Seq.d/                        222   4e-57
CHI372 (CHI372Q) /CSM/CH/CHI3-C/CHI372Q.Seq.d/                         40   0.030
AHN202 (AHN202Q) /CSM/AH/AHN2-A/AHN202Q.Seq.d/                         38   0.12
AFH675 (AFH675Q) /CSM/AF/AFH6-D/AFH675Q.Seq.d/                         38   0.12
AHJ874 (AHJ874Q) /CSM/AH/AHJ8-D/AHJ874Q.Seq.d/                         36   0.46

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

AC023840|AC023840.3 Homo sapiens chromosome 15 clone RP11-560A2 map 15, LOW-PASSSEQUENCE SAMPLING.    44   8e-05  2
AL008970|AL008970.3 Plasmodium falciparum MAL3P4.                  42   6e-04  8
AE014816|AE014816.1 Plasmodium falciparum 3D7 chromosome 14 section 1 of 13 of the complete sequence.    34   0.003  10
AC116977|AC116977.2 Dictyostelium discoideum chromosome 2 map 5515173-5817331 strain AX4, complete sequence.    34   0.004  7
AL844506|AL844506.1 Plasmodium falciparum chromosome  7.           38   0.004  18
AC006281|AC006281.8 Plasmodium falciparum chromosome 12 clone 3D7, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    40   0.012  8
BX465859|BX465859.9 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone DKEYP-67G10.    42   0.014  4
AL365334|AL365334.13 Mouse DNA sequence from clone RP23-392F1 on chromosome 1.    42   0.025  3
BS000070|BS000070.1 Pan troglodytes chromosome 22 clone:RP43-073J16, map 22, complete sequences.    38   0.027  5
AC117076|AC117076.2 Dictyostelium discoideum chromosome 2 map 5862124-6045772 strain AX4, complete sequence.    34   0.030  7

 ***** 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: 3159261
Number of Hits to DB: 206,556,759

 psg: 0.79  gvh: 0.49  alm: 0.52  top: 0.53  tms: 0.00  mit: 0.40  mip: 0.00
 nuc: 0.79  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 

	 80.0 %: nuclear
	  8.0 %: mitochondrial
	  8.0 %: plasma membrane
	  4.0 %: cytoskeletal

>> prediction for SSH663 is nuc

>SSH663F.Seq
ACATACTTATATAAAAGTACATATAAGTAAATTTATTATATGTTAAAACATATTATTTAT
AAATTTTATTTATAAATTTTAAAAATTAAACAATTAATAAAAAAAATTGTTTATTTACAT
TCTACACACACACAAATACAAATAAATTCGCACACAAAAAAAAAAACACAGTATCCACAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA----------

>SSH663Z.Seq
----------AGTTCAAGTCCAAATGTAAATAATAATTCAAATCAATCTTTNGAAGTTTN
TGAAAATTTAAATANCNAAGGTGNTTTAATAGGTGGTGCTGATGTTTAAATATNTAATTT
AAATATATTTATTTCTTATTATTATTTTTTTTTTTTCTATATATCTAATNTAAAAAAAAA
AAAAAAAAAAAAAAAAAAAGAAAATTTAAAAATAGAAAAAAAAAAAAAAAAAAAAAAGAA
AAAAAAAAAAAGTAT

>SSH663P.Seq
ACATACTTATATAAAAGTACATATAAGTAAATTTATTATATGTTAAAACATATTATTTAT
AAATTTTATTTATAAATTTTAAAAATTAAACAATTAATAAAAAAAATTGTTTATTTACAT
TCTACACACACACAAATACAAATAAATTCGCACACAAAAAAAAAAACACAGTATCCACAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA----------AGTTCAAGT
CCAAATGTAAATAATAATTCAAATCAATCTTTNGAAGTTTNTGAAAATTTAAATANCNAA
GGTGNTTTAATAGGTGGTGCTGATGTTTAAATATNTAATTTAAATATATTTATTTCTTAT
TATTATTTTTTTTTTTTCTATATATCTAATNTAAAAAAAAAAAAAAAAAAAAAAAAAAAA
GAAAATTTAAAAATAGAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAGTAT