>SSI489 (SSI489Q) /CSM/SS/SSI4-D/SSI489Q.Seq.d/
CAAATAAATAAAAAAAAAAAAAAAAAAATAAAAAAAAATTTAATAAGTTTTAAAATGGTA
TAGTTTTAATAAAAAAAAAAAAAAAACCACTATCATTAGTAGTAAAAAAAAAATAAAAAA
TAAAAAAAAAAAAAATAAAAAAAAATAATAATAAGCTATACCATGGGACTTAGAGAAAAT
AAAAAAGTTTTAAAAAAAAAATAAAAAATAATAAAAATTAAAAAAAAAATAAAAAAAAAA
ACTTTTAAAACTCTCCTTCTACTTTTTGGTGCTTCTGTTAAGCTAATGCTAAGGTGTCTC
TCTCCCCCTTTGCTTTGCATTTCTCTCCTCAAGCTCAGATAXXXXXXXXXX

qinkkkkkkikknlisfkmv*f**kkkknhyh***kknkk*kkkk*kkiiisytmglren
kkvlkkk*KIIKIKKKIKKKTFKTLLLLFGASVKLMLRCLSPPLLCISLLKLR---

Frame A:
qinkkkkkkikknlisfkmv*f**kkkknhyh***kknkk*kkkk*kkiiisytmglren
kkvlkkk*KIIKIKKKIKKKTFKTLLLLFGASVKLMLRCLSPPLLCISLLKLR---


Frame B:
k*ikkkkkk*kki**vlkwysfnkkkkkttiisskkkiknkkkknkkk***aipwdleki
kkf*kknkk**klkkk*kkkllklsfyflvllls*c*gvslplcfaflssssd---


Frame C:
nk*kkkkknkkkfnkf*ngivlikkkkkplslvvkkk*kikkkkikknnnklyhgt*rk*
ksfkkkiknnkn*kknkkknf*nspstfwcfc*anakvslspfalhfspqaq---

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSI489 (SSI489Q) /CSM/SS/SSI4-D/SSI489Q.Seq.d/                        198   4e-50
VSC737 (VSC737Q) /CSM/VS/VSC7-B/VSC737Q.Seq.d/                        190   1e-47
VSA585 (VSA585Q) /CSM/VS/VSA5-D/VSA585Q.Seq.d/                        190   1e-47
SSM803 (SSM803Q) /CSM/SS/SSM8-A/SSM803Q.Seq.d/                        190   1e-47
SSM728 (SSM728Q) /CSM/SS/SSM7-B/SSM728Q.Seq.d/                        190   1e-47
SSM719 (SSM719Q) /CSM/SS/SSM7-A/SSM719Q.Seq.d/                        190   1e-47
SSM276 (SSM276Q) /CSM/SS/SSM2-D/SSM276Q.Seq.d/                        190   1e-47
SSM269 (SSM269Q) /CSM/SS/SSM2-C/SSM269Q.Seq.d/                        190   1e-47
SSM229 (SSM229Q) /CSM/SS/SSM2-B/SSM229Q.Seq.d/                        190   1e-47
SSM165 (SSM165Q) /CSM/SS/SSM1-C/SSM165Q.Seq.d/                        190   1e-47

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

D16417|D16417.1 Dictyostelium discoideum mRNA.                   190  1e-67  3
BZ463651|BZ463651.1 BONRK12TR BO_1.6_2_KB_tot Brassica oleracea genomic clone BONRK12, DNA sequence.    50  0.018  1
AC100496|AC100496.1 Mus musculus clone RP23-143E17, LOW-PASS SEQUENCE SAMPLING.    44  1.1  2
AC010023|AC010023.6 Drosophila melanogaster 3L BAC RP98-19G23 (Roswell Park Cancer Institute Drosophila BAC Library) complete sequence.    44  1.1  1
AC017890|AC017890.1 Drosophila melanogaster, WORKING DRAFT SEQUENCE, in ordered pieces.    44  1.1  1
AC109150|AC109150.4 Mus musculus clone RP24-536C12, WORKING DRAFT SEQUENCE, 6 ordered pieces.    44  1.1  1
AC011428|AC011428.3 Homo sapiens chromosome 5 clone XXp1-380H11, WORKING DRAFT SEQUENCE, 4 unordered pieces.    42  2.8  2
AC012439|AC012439.4 Homo sapiens clone RP11-11G23, WORKING DRAFT SEQUENCE, 16 unordered pieces.    42  4.4  1
AL356014|AL356014.1 Arabidopsis thaliana DNA chromosome 3, BAC clone F25L23.    42  4.4  1
AC005738|AC005738.1 Homo sapiens chromosome 5, BAC clone 7g12 (LBNL H126), complete sequence.    42  4.4  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: 3159261
Number of Hits to DB: 177,528,050

 psg: 0.72  gvh: 0.65  alm: 0.33  top: 0.53  tms: 0.00  mit: 0.48  mip: 0.00
 nuc: 0.12  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 

	 52.0 %: mitochondrial
	 28.0 %: nuclear
	 12.0 %: cytoplasmic
	  8.0 %: cytoskeletal

>> prediction for SSI489 is mit

>SSI489F.Seq
CAAATAAATAAAAAAAAAAAAAAAAAAATAAAAAAAAATTTAATAAGTTTTAAAATGGTA
TAGTTTTAATAAAAAAAAAAAAAAAACCACTATCATTAGTAGTAAAAAAAAAATAAAAAA
TAAAAAAAAAAAAAATAAAAAAAAATAATAATAAGCTATACCATGGGACTTAGAGAAAAT
AAAAAAGTTTTAAAAAAAAAATAAAAAATAATAAAAATTAAAAAAAAAATAAAAAAAAAA
ACTTTTAAAACTCTCCTTCTACTTTTTGGTGCTTCTGTTAAGCTAATGCTAAGGTGTCTC
TCTCCCCCTTTGCTTTGCATTTCTCTCCTCAAGCTCAGATA----------