>SSC665 (SSC665Q) /CSM/SS/SSC6-C/SSC665Q.Seq.d/
ATATAAAAAAAAAAAAAAAAAAATAAAAAAAAATTTAATAAGTTTTAAAATGGTATAGTT
TTAATAAAAAAAAAAAAAAAACCACTATCATTAGTAGTAAAAAAAAAATAAAAAATAAAA
AAAAAAAAAATAAAAAAAAATAATAATAAGCTATACCATGGGACTTAGAGAAAATAAAAA
AGTTTAAAAAAAAAATAAAAAATAATAAAAAATAAAAAAAAAATAAAAAAAAAACCTTTT
AAAACTCTCCTTCTACTTTTTGGTGCTTCTGTTAAGCTAATGCTAAGGTGTCTCTCTCCC
CCTTTGCTTTGCATTACTCTCCTCAAGCTCAGATAATCTCGAGCTCCACTAACGATGCTC
CTCAAGTATCCTCAGGGTTAAXXXXXXXXXX

i*kkkkknkkkfnkf*ngivlikkkkkplslvvkkk*kikkkkikknnnklyhgt*rk*k
slkkk*KIIKNKKKIKKKPFKTLLLLFGASVKLMLRCLSPPLLCITLLKLR*srapltml
lkypqg---

Frame A:
i*kkkkknkkkfnkf*ngivlikkkkkplslvvkkk*kikkkkikknnnklyhgt*rk*k
slkkk*KIIKNKKKIKKKPFKTLLLLFGASVKLMLRCLSPPLLCITLLKLR*srapltml
lkypqg---


Frame B:
ykkkkkkikknlisfkmv*f**kkkknhyh***kknkk*kkkk*kkiiisytmglrenkk
v*kknkk**kikkk*kknllklsfyflvllls*c*gvslplcfallssssdnlelh*rcs
ssilrv---


Frame C:
ikkkkkk*kki**vlkwysfnkkkkkttiisskkkiknkkkknkkk***aipwdlekikk
fkkkiknnkk*kknkkktf*nspstfwcfc*anakvslspfalhyspqaqiissstndap
qvssgl---

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSJ460 (SSJ460Q) /CSM/SS/SSJ4-C/SSJ460Q.Seq.d/                        291   4e-78
SSG321 (SSG321Q) /CSM/SS/SSG3-A/SSG321Q.Seq.d/                        291   4e-78
SSF109 (SSF109Q) /CSM/SS/SSF1-A/SSF109Q.Seq.d/                        291   4e-78
SSC665 (SSC665Q) /CSM/SS/SSC6-C/SSC665Q.Seq.d/                        291   4e-78
SSC650 (SSC650Q) /CSM/SS/SSC6-C/SSC650Q.Seq.d/                        291   4e-78
VSA585 (VSA585Q) /CSM/VS/VSA5-D/VSA585Q.Seq.d/                        289   2e-77
SSM728 (SSM728Q) /CSM/SS/SSM7-B/SSM728Q.Seq.d/                        289   2e-77
SSM719 (SSM719Q) /CSM/SS/SSM7-A/SSM719Q.Seq.d/                        289   2e-77
SSM276 (SSM276Q) /CSM/SS/SSM2-D/SSM276Q.Seq.d/                        289   2e-77
SSM269 (SSM269Q) /CSM/SS/SSM2-C/SSM269Q.Seq.d/                        289   2e-77

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

D16417|D16417.1 Dictyostelium discoideum mRNA.                   289  5e-97  3
BZ463651|BZ463651.1 BONRK12TR BO_1.6_2_KB_tot Brassica oleracea genomic clone BONRK12, DNA sequence.    50  0.020  1
AC100496|AC100496.1 Mus musculus clone RP23-143E17, LOW-PASS SEQUENCE SAMPLING.    44  1.2  2
AC109150|AC109150.4 Mus musculus clone RP24-536C12, WORKING DRAFT SEQUENCE, 6 ordered pieces.    44  1.2  1
AX508705|AX508705.1 Sequence 3400 from Patent WO0216655.          42  4.9  1
AC093987|AC093987.6 Rattus norvegicus clone CH230-36D18, WORKING DRAFT SEQUENCE, 5 unordered pieces.    42  4.9  1
AL356014|AL356014.1 Arabidopsis thaliana DNA chromosome 3, BAC clone F25L23.    42  4.9  1
AC098812|AC098812.3 Papio cynocephalus anubis clone RP41-440G22, complete sequence.    42  4.9  1
AC113975|AC113975.4 Mus musculus clone RP23-140P24, WORKING DRAFT SEQUENCE, 5 ordered pieces.    42  4.9  1
AL844180|AL844180.6 Mouse DNA sequence from clone RP23-403A4 on chromosome 4.    44  8.0  2

 ***** 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: 255,057,735

 psg: 0.71  gvh: 0.66  alm: 0.33  top: 0.53  tms: 0.00  mit: 0.48  mip: 0.00
 nuc: 0.15  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 

	 48.0 %: mitochondrial
	 36.0 %: nuclear
	  8.0 %: cytoskeletal
	  8.0 %: cytoplasmic

>> prediction for SSC665 is mit

>SSC665F.Seq
ATATAAAAAAAAAAAAAAAAAAATAAAAAAAAATTTAATAAGTTTTAAAATGGTATAGTT
TTAATAAAAAAAAAAAAAAAACCACTATCATTAGTAGTAAAAAAAAAATAAAAAATAAAA
AAAAAAAAAATAAAAAAAAATAATAATAAGCTATACCATGGGACTTAGAGAAAATAAAAA
AGTTTAAAAAAAAAATAAAAAATAATAAAAAATAAAAAAAAAATAAAAAAAAAACCTTTT
AAAACTCTCCTTCTACTTTTTGGTGCTTCTGTTAAGCTAATGCTAAGGTGTCTCTCTCCC
CCTTTGCTTTGCATTACTCTCCTCAAGCTCAGATAATCTCGAGCTCCACTAACGATGCTC
CTCAAGTATCCTCAGGGTTAA----------