>SSJ391 (SSJ391Q) /CSM/SS/SSJ3-D/SSJ391Q.Seq.d/
XXXXXXXXXXCCCGGTNATGGAATTTAAGGGTGTGTTGACATTCAAGTCCGTGTTAAAAA
GAAACCCGAAAGGGGGTTTCACGGTTGGTTGGATGAATTAAATTTCAGAGGTTGCTCCAA
GCAATGAAACCTTAATGGAGACTGTCAAGGTTTTTTTGTAGCCAAGAACCACAGGGTTTC
AGTCGTTGAAATGGAAGCTGATGGCTTCAAAGCTGATTATTAAAGGAAATCCCAAAAGGT
TCGGAAGTCATGTGCGCTAGCAGTGTGTACCATTTGATGAAATCGGTTTTCAAGAAAATG
TATTTTCAGTGATGATTCTCCATTCGTCAACTTTCATAAAAAGATTTTAGCTTTTACCAG
CTGATAAACAAGCTGATGCTCGTAAAGATGCTTTAACCTCACAATACTTTTTTATCATCT
GTTAACTGCAATCTCCAAAACTGGAAATGTTTATGTTGCCGACGCTTCAGGTACCAGAGT
TGGCGGTTTCACTGCTGCTAAAAATTTAATCATCGTTTCTGGTTATAACAAGATTGTTGA
TTCTGATGAATTAGCCGTCCAAAGAACTGAACAATTCTGTTTACCATGTGAAAGTGTTCG
TGCTCGTTGGGCTTACAAAGTTCCAGGTTCAATGATTCAAAATCTTTTGGGTATGAAACA
TGGTGCTCCAAACAAACATCACATTATCCTCATTAAAAAATTATTAGGTTATTAAATTAA
TAATTAAAAA

---gxgi*gcvdiqvrvkkkpergfhgwldelnfrgcskq*nlngdcqgffvaknhrvsv
vemeadgfkady*rksqkvrkscalavcti**nrfsrkcifsddspfvnfhkkilafts*
*ts*cs*RCFNLTILFYHLLTAISKTGNVYVADASGTRVGGFTAAKNLIIVSGYNKIVDS
DELAVQRTEQFCLPCESVRARWAYKVPGSMIQNLLGMKHGAPNKHHIILIKKLLGY*inn
*k

Frame A:
---pvmefkgvltfksvlkrnpkggftvgwmn*isevapsnetlmetvkvfl*prttgfq
slkwklmaskliikgnpkrfgshvr*qcvpfdeigfqenvfsvmilhsstfikrf*llpa
dkqadarkdaltsqyffiic*lqspklemfmlptlqvpelavslllki*ssflvitrlli
lmn*pskelnnsvyhvkvfvlvgltkfqvq*fkifwv*nmvlqtnitlsslkny*vikli
ik


Frame B:
---rxwnlrvc*hsspc*ketrkgvsrlvg*ikfqrllqamkp*wrlsrffcsqepqgfs
r*ngs*wlqs*llkeipkgsevmcassvyhlmksvfkkmyfq**fsirqls*kdfsfyql
inklmlvkml*phntflssvncnlqnwkclccrrfryqswrfhcc*kfnhrfwl*qdc*f
**isrpkn*tilftm*kcscslglqssrfndsksfgyetwcskqtshyph*kiirlln**
lk


Frame C:
---gxgi*gcvdiqvrvkkkpergfhgwldelnfrgcskq*nlngdcqgffvaknhrvsv
vemeadgfkady*rksqkvrkscalavcti**nrfsrkcifsddspfvnfhkkilafts*
*ts*cs*RCFNLTILFYHLLTAISKTGNVYVADASGTRVGGFTAAKNLIIVSGYNKIVDS
DELAVQRTEQFCLPCESVRARWAYKVPGSMIQNLLGMKHGAPNKHHIILIKKLLGY*inn
*k

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSJ391 (SSJ391Q) /CSM/SS/SSJ3-D/SSJ391Q.Seq.d/                       1302   0.0
VSJ656 (VSJ656Q) /CSM/VS/VSJ6-C/VSJ656Q.Seq.d/                        848   0.0
VSD182 (VSD182Q) /CSM/VS/VSD1-D/VSD182Q.Seq.d/                        848   0.0
SSK492 (SSK492Q) /CSM/SS/SSK4-D/SSK492Q.Seq.d/                        848   0.0
SSE602 (SSE602Q) /CSM/SS/SSE6-A/SSE602Q.Seq.d/                        848   0.0
SHF652 (SHF652Q) /CSM/SH/SHF6-C/SHF652Q.Seq.d/                        848   0.0
CHM787 (CHM787Q) /CSM/CH/CHM7-D/CHM787Q.Seq.d/                        848   0.0
CHG794 (CHG794Q) /CSM/CH/CHG7-D/CHG794Q.Seq.d/                        848   0.0
VSB521 (VSB521Q) /CSM/VS/VSB5-A/VSB521Q.Seq.d/                        844   0.0
SSG784 (SSG784Q) /CSM/SS/SSG7-D/SSG784Q.Seq.d/                        844   0.0

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

AJ310674|AJ310674.1 Dictyostelium discoideum 3B gene for prespore-specific protein 3B,.   533   0.0    10
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.   533   0.0    13
AR376368|AR376368.1 Sequence 1374 from patent US 6605709.          44   0.28   2
AR409405|AR409405.1 Sequence 1 from patent US 6632935.             32   0.55   10
BD061520|BD061520.1 Genome DNA of symbiotic bacteria of aphid.     32   0.55   10
AC135415|AC135415.25 Medicago truncatula clone mth2-10b9, complete sequence.    40   0.67   4
AP001119|AP001119.1 Buchnera aphidicola str. APS (Acyrthosiphon pisum) genomic DNA, complete sequence, segment 2/2.    32   1.7    9
CE042158|CE042158.1 tigr-gss-dog-17000350326059 Dog Library Canis familiaris genomic, genomic survey sequence.    44   2.8    1
AC027035|AC027035.5 Arabidopsis thaliana chromosome 1 BAC T16O9 genomic sequence, complete sequence.    34   2.9    6
AC119437|AC119437.7 Rattus norvegicus clone CH230-348K5, WORKING DRAFT SEQUENCE, 1 ordered piece.    38   5.0    5

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC115605_5(AC115605|pid:none) Dictyostelium discoideum chromosom...   103   4e-21
AC115605_4(AC115605|pid:none) Dictyostelium discoideum chromosom...   101   2e-20
AY596296_161(AY596296|pid:none) Haloarcula marismortui ATCC 4304...    61   4e-08
CP000312_2508(CP000312|pid:none) Clostridium perfringens SM101, ...    45   0.003
BA000016_2602(BA000016|pid:none) Clostridium perfringens str. 13...    45   0.003
CP000246_2818(CP000246|pid:none) Clostridium perfringens ATCC 13...    45   0.003
CP001390_601(CP001390|pid:none) Geobacter sp. FRC-32, complete g...    41   0.033
CP001197_25(CP001197|pid:none) Desulfovibrio vulgaris str. 'Miya...    41   0.033
AM180355_1561(AM180355|pid:none) Clostridium difficile 630 compl...    41   0.043
AE015927_490(AE015927|pid:none) Clostridium tetani E88, complete...    41   0.043

 psg: 0.90  gvh: 0.56  alm: 0.42  top: 0.50  tms: 0.00  mit: 0.37  mip: 0.06
 nuc: 0.00  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 

	 44.0 %: mitochondrial
	 20.0 %: nuclear
	 12.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: extracellular, including cell wall
	  4.0 %: Golgi
	  4.0 %: endoplasmic reticulum
	  4.0 %: peroxisomal

>> prediction for SSJ391 is mit

>SSJ391Z.Seq
----------CCCGGTNATGGAATTTAAGGGTGTGTTGACATTCAAGTCCGTGTTAAAAA
GAAACCCGAAAGGGGGTTTCACGGTTGGTTGGATGAATTAAATTTCAGAGGTTGCTCCAA
GCAATGAAACCTTAATGGAGACTGTCAAGGTTTTTTTGTAGCCAAGAACCACAGGGTTTC
AGTCGTTGAAATGGAAGCTGATGGCTTCAAAGCTGATTATTAAAGGAAATCCCAAAAGGT
TCGGAAGTCATGTGCGCTAGCAGTGTGTACCATTTGATGAAATCGGTTTTCAAGAAAATG
TATTTTCAGTGATGATTCTCCATTCGTCAACTTTCATAAAAAGATTTTAGCTTTTACCAG
CTGATAAACAAGCTGATGCTCGTAAAGATGCTTTAACCTCACAATACTTTTTTATCATCT
GTTAACTGCAATCTCCAAAACTGGAAATGTTTATGTTGCCGACGCTTCAGGTACCAGAGT
TGGCGGTTTCACTGCTGCTAAAAATTTAATCATCGTTTCTGGTTATAACAAGATTGTTGA
TTCTGATGAATTAGCCGTCCAAAGAACTGAACAATTCTGTTTACCATGTGAAAGTGTTCG
TGCTCGTTGGGCTTACAAAGTTCCAGGTTCAATGATTCAAAATCTTTTGGGTATGAAACA
TGGTGCTCCAAACAAACATCACATTATCCTCATTAAAAAATTATTAGGTTATTAAATTAA
TAATTAAAAA