>AFJ831 (AFJ831Q) /CSM/AF/AFJ8-B/AFJ831Q.Seq.d/
ATTTATTTTTTTTTTCATTCATTATTATCTTTTTCATTTATTTTCACAACACACCATGTC
TCACTCTGCGAACTTTGTAAANGTACAATCTCCACCATCATATATTCAATTAGCACAACA
ACAACAACAGCAACAACAACAACAACTACAACAACAACAACAAACACAAAACCCAACATC
TCCAACATCTTTTTTAGCTCAGCAGCAATATAGNGGTAATATACCAACAACAGCATCAAA
TCAACAACCATACCAACATATTCCACAACCATACCAACCAAATATTTCATCAATATTACA
ACCACTCCCAATACGATACATATATGTTAATCAACTTCCATTAGCACAACAACAACAACA
ACTACAACAAAATCAACTACAACAACAACCACCAAACGTAATATACCAGCAACAGCCACT
TATAGTACAACAACAACAACAACCAAATACAGTACAACAACAGCAACAACAACCACCACA
AACTATACAGCAACAACCAAATATGGCACAACCACAACCACAACAAACTCAACAATTTAC
AANGGAACAAACTTTTCAAAATATTTTAAATAAAATTAAAGATAAATTTGATAAATTTAC
AACGAXXXXXXXXXXTTGATATTATGAAATCAATTGAAGAAGAGAAAAAGAAAAGAATTG
AAGAAGATGATCGTTTAAATAANCAAAGAAAGCAACAACAACAGCAACAACAAAGTAATT
CATCATCACCACATATTGTTGGAGGACATGTTCAAGATCAGTATAGTGAAATTAAAACTA
ATTTATTATTGGAGGGTTTAGTATTAAAGAATATGAATCATGATGCTTCATTGATTAGTT
CAAATGTTTTATTGAATCTTCATCCATTACCACAATCAAAAGAGGTGCAAATCGCTCAAC
AACGTTTGAATGAACGTTTGGAACTTTATATGCTAAAGAATAGTAAAGAGATACCAGGTG
ATGGCAATTGTCAAATGCATGCTTTATCCGATCAGTTGTATGGTGATTTATCTCATTCTC
AAGAAGTTAGAAAAACAATTGTCGATTGGTTAAGAAAGAATAAAGATTTTCAACTTCCAA
ATGGTGCTACCATTTGTCAATTTGTAAATACTAATAATTGGGATGACTATTGTAACGATA
TGTCAAAGAATGGAAATTGGGGTGATCATTTACTCTCTTGGCTGCTGCTGAACATTTTGG
TTCAAAGATTTCAATCATCTCTTCTGTTAAAGTCAAAGTAACTTTTTCATNAAATCATTC
CATCTAAAATTTTAA

FIFFFIHYYLFHLFSQHTMSHSANFVXVQSPPSYIQLAQQQQQQQQQQLQQQQQTQNPTS
PTSFLAQQQYXGNIPTTASNQQPYQHIPQPYQPNISSILQPLPIRYIYVNQLPLAQQQQQ
LQQNQLQQQPPNVIYQQQPLIVQQQQQPNTVQQQQQQPPQTIQQQPNMAQPQPQQTQQFT
XEQTFQNILNKIKDKFDKFTT---

---DIMKSIEEEKKKRIEEDDRLNXQRKQQQQQQQSNSSSPHIVGGHVQDQYSEIKTNLL
LEGLVLKNMNHDASLISSNVLLNLHPLPQSKEVQIAQQRLNERLELYMLKNSKEIPGDGN
CQMHALSDQLYGDLSHSQEVRKTIVDWLRKNKDFQLPNGATICQFVNTNNWDDYCNDMSK
NGNWGDHLLSWLLLNILVQRFQSSLLLKSK*lfhxiipskil

Frame A:
iyfffhsllsfsfiftthhvslcelckxtistiiysistttttattttttttttntkpni
sniffssaai*x*ytnnsiksttiptysttiptkyfinitttpntihic*stsisttttt
tttksttttttkrnipatatysttttttkystttatttttnytattkygttttttnstiy
xgtnfskyfk*n*r*i**iyn---

---lil*nqlkkrkrkelkkmiv*ixkesnnnsnnkvihhhhilledmfkisivklkliy
ywrv*y*ri*immlh*lvqmfy*ifihyhnqkrckslnnv*mnvwnfic*rivkryqvma
ivkcmlypiscmviylilkklekqlsig*erikifnfqmvlpfvnl*iliigmtivticq
rmeigviiyslgcc*tfwfkdfnhlfc*sqsnffxksfhlkf*

Frame B:
FIFFFIHYYLFHLFSQHTMSHSANFVXVQSPPSYIQLAQQQQQQQQQQLQQQQQTQNPTS
PTSFLAQQQYXGNIPTTASNQQPYQHIPQPYQPNISSILQPLPIRYIYVNQLPLAQQQQQ
LQQNQLQQQPPNVIYQQQPLIVQQQQQPNTVQQQQQQPPQTIQQQPNMAQPQPQQTQQFT
XEQTFQNILNKIKDKFDKFTT---

---*yyein*rrekekn*rr*sfk*xkkatttattk*fiittycwrtcsrsv**n*n*fi
iggfsikeyes*cfid*fkcfiesssittikrganrsttfe*tfgtlyake**rdtr*wq
lsnacfirsvvw*fisfsrs*knncrlvkke*rfstskwcyhlsicky**lg*ll*ryvk
ewklg*sftllaaaehfgskisiissvkvkvtfsxnhsi*nf

Frame C:
lfffsfiiiffiyfhntpcltlrtl*xynlhhhifn*hnnnnsnnnnnynnnnkhktqhl
qhlf*lssnixviyqqqhqinnhtnifhnhtnqifhqyynhsqydtymlinfh*hnnnnn
ynkinynnnhqt*ytsnshl*ynnnnnqiqynnsnnnhhklysnnqiwhnhnhnklnnlq
xnklfkif*iklkinlinlqr---

---DIMKSIEEEKKKRIEEDDRLNXQRKQQQQQQQSNSSSPHIVGGHVQDQYSEIKTNLL
LEGLVLKNMNHDASLISSNVLLNLHPLPQSKEVQIAQQRLNERLELYMLKNSKEIPGDGN
CQMHALSDQLYGDLSHSQEVRKTIVDWLRKNKDFQLPNGATICQFVNTNNWDDYCNDMSK
NGNWGDHLLSWLLLNILVQRFQSSLLLKSK*lfhxiipskil

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFJ831 (AFJ831Q) /CSM/AF/AFJ8-B/AFJ831Q.Seq.d/                       1193   0.0
CHO308 (CHO308Q) /CSM/CH/CHO3-A/CHO308Q.Seq.d/                       1174   0.0
AFL293 (AFL293Q) /CSM/AF/AFL2-D/AFL293Q.Seq.d/                       1168   0.0
VHO420 (VHO420Q) /CSM/VH/VHO4-A/VHO420Q.Seq.d/                       1152   0.0
VHI135 (VHI135Q) /CSM/VH/VHI1-B/VHI135Q.Seq.d/                       1152   0.0
SHC338 (SHC338Q) /CSM/SH/SHC3-B/SHC338Q.Seq.d/                       1152   0.0
SFH196 (SFH196Q) /CSM/SF/SFH1-D/SFH196Q.Seq.d/                       1152   0.0
CHR868 (CHR868Q) /CSM/CH/CHR8-C/CHR868Q.Seq.d/                       1152   0.0
CHR541 (CHR541Q) /CSM/CH/CHR5-B/CHR541Q.Seq.d/                       1152   0.0
CHQ162 (CHQ162Q) /CSM/CH/CHQ1-C/CHQ162Q.Seq.d/                       1152   0.0

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

AC090280|AC090280.2 Homo sapiens chromosome 8 clone RP4-611F18 map 8, WORKING DRAFT SEQUENCE, 8 unordered pieces.    48  2e-05  2
AC116551|AC116551.2 Dictyostelium discoideum chromosome 2 map complement(581327-427576) strain AX4, complete sequence.    46  7e-05  7
AC116979|AC116979.2 Dictyostelium discoideum chromosome 2 map 6357117-6445670 strain AX4, complete sequence.    42  2e-04  7
AC116305|AC116305.2 Dictyostelium discoideum chromosome 2 map 1005175-1418323 strain AX4, complete sequence.    44  6e-04  6
AC095286|AC095286.5 Rattus norvegicus clone CH230-12C16, WORKING DRAFT SEQUENCE, 1 ordered piece.    40  6e-04  6
AC117426|AC117426.3 Homo sapiens 3 BAC RP11-130C13 (Roswell Park Cancer Institute Human BAC Library) complete sequence.    60  0.001  6
AF207954|AF207954.3 Homo sapiens chromosome 8 clone RP1-92A23 map 8q21, WORKING DRAFT SEQUENCE, 8 unordered pieces.    48  0.002  2
AC090731|AC090731.5 Homo sapiens chromosome 8, clone RP1-92A23, complete sequence.    48  0.002  3
AC114141|AC114141.4 Rattus norvegicus clone CH230-139L5, WORKING DRAFT SEQUENCE, 3 unordered pieces.    52  0.003  5
AC084840|AC084840.1 Homo sapiens chromosome 4 clone CTD-2120P15 map 4, WORKING DRAFT SEQUENCE, 5 unordered pieces.    52  0.003  4

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

EU962473_1(EU962473|pid:none) Zea mays clone 242997 unknown mRNA.      75   6e-12
BT054787_1(BT054787|pid:none) Zea mays full-length cDNA clone ZM...    75   6e-12
EU976609_1(EU976609|pid:none) Zea mays clone 984875 cysteine-typ...    75   6e-12
AK069427_1(AK069427|pid:none) Oryza sativa Japonica Group cDNA c...    74   8e-12
AC153725_16(AC153725|pid:none) Medicago truncatula clone mth2-78...    69   3e-10
AL391716_17(AL391716|pid:none) Arabidopsis thaliana DNA chromoso...    68   6e-10
AK221616_1(AK221616|pid:none) Arabidopsis thaliana mRNA for hypo...    68   6e-10
AL162751_6(AL162751|pid:none) Arabidopsis thaliana DNA chromosom...    67   1e-09
AM466592_1(AM466592|pid:none) Vitis vinifera contig VV78X273584....    65   4e-09
CP000583_456(CP000583|pid:none) Ostreococcus lucimarinus CCE9901...    65   5e-09

 psg: 0.75  gvh: 0.48  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.52  mip: 0.17
 nuc: 0.04  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 

	 88.0 %: mitochondrial
	  8.0 %: nuclear
	  4.0 %: cytoplasmic

>> prediction for AFJ831 is mit

>AFJ831F.Seq
ATTTATTTTTTTTTTCATTCATTATTATCTTTTTCATTTATTTTCACAACACACCATGTC
TCACTCTGCGAACTTTGTAAANGTACAATCTCCACCATCATATATTCAATTAGCACAACA
ACAACAACAGCAACAACAACAACAACTACAACAACAACAACAAACACAAAACCCAACATC
TCCAACATCTTTTTTAGCTCAGCAGCAATATAGNGGTAATATACCAACAACAGCATCAAA
TCAACAACCATACCAACATATTCCACAACCATACCAACCAAATATTTCATCAATATTACA
ACCACTCCCAATACGATACATATATGTTAATCAACTTCCATTAGCACAACAACAACAACA
ACTACAACAAAATCAACTACAACAACAACCACCAAACGTAATATACCAGCAACAGCCACT
TATAGTACAACAACAACAACAACCAAATACAGTACAACAACAGCAACAACAACCACCACA
AACTATACAGCAACAACCAAATATGGCACAACCACAACCACAACAAACTCAACAATTTAC
AANGGAACAAACTTTTCAAAATATTTTAAATAAAATTAAAGATAAATTTGATAAATTTAC
AACGA----------

>AFJ831Z.Seq
----------TTGATATTATGAAATCAATTGAAGAAGAGAAAAAGAAAAGAATTGAAGAA
GATGATCGTTTAAATAANCAAAGAAAGCAACAACAACAGCAACAACAAAGTAATTCATCA
TCACCACATATTGTTGGAGGACATGTTCAAGATCAGTATAGTGAAATTAAAACTAATTTA
TTATTGGAGGGTTTAGTATTAAAGAATATGAATCATGATGCTTCATTGATTAGTTCAAAT
GTTTTATTGAATCTTCATCCATTACCACAATCAAAAGAGGTGCAAATCGCTCAACAACGT
TTGAATGAACGTTTGGAACTTTATATGCTAAAGAATAGTAAAGAGATACCAGGTGATGGC
AATTGTCAAATGCATGCTTTATCCGATCAGTTGTATGGTGATTTATCTCATTCTCAAGAA
GTTAGAAAAACAATTGTCGATTGGTTAAGAAAGAATAAAGATTTTCAACTTCCAAATGGT
GCTACCATTTGTCAATTTGTAAATACTAATAATTGGGATGACTATTGTAACGATATGTCA
AAGAATGGAAATTGGGGTGATCATTTACTCTCTTGGCTGCTGCTGAACATTTTGGTTCAA
AGATTTCAATCATCTCTTCTGTTAAAGTCAAAGTAACTTTTTCATNAAATCATTCCATCT
AAAATTTTAA

>AFJ831P.Seq
ATTTATTTTTTTTTTCATTCATTATTATCTTTTTCATTTATTTTCACAACACACCATGTC
TCACTCTGCGAACTTTGTAAANGTACAATCTCCACCATCATATATTCAATTAGCACAACA
ACAACAACAGCAACAACAACAACAACTACAACAACAACAACAAACACAAAACCCAACATC
TCCAACATCTTTTTTAGCTCAGCAGCAATATAGNGGTAATATACCAACAACAGCATCAAA
TCAACAACCATACCAACATATTCCACAACCATACCAACCAAATATTTCATCAATATTACA
ACCACTCCCAATACGATACATATATGTTAATCAACTTCCATTAGCACAACAACAACAACA
ACTACAACAAAATCAACTACAACAACAACCACCAAACGTAATATACCAGCAACAGCCACT
TATAGTACAACAACAACAACAACCAAATACAGTACAACAACAGCAACAACAACCACCACA
AACTATACAGCAACAACCAAATATGGCACAACCACAACCACAACAAACTCAACAATTTAC
AANGGAACAAACTTTTCAAAATATTTTAAATAAAATTAAAGATAAATTTGATAAATTTAC
AACGA----------TTGATATTATGAAATCAATTGAAGAAGAGAAAAAGAAAAGAATTG
AAGAAGATGATCGTTTAAATAANCAAAGAAAGCAACAACAACAGCAACAACAAAGTAATT
CATCATCACCACATATTGTTGGAGGACATGTTCAAGATCAGTATAGTGAAATTAAAACTA
ATTTATTATTGGAGGGTTTAGTATTAAAGAATATGAATCATGATGCTTCATTGATTAGTT
CAAATGTTTTATTGAATCTTCATCCATTACCACAATCAAAAGAGGTGCAAATCGCTCAAC
AACGTTTGAATGAACGTTTGGAACTTTATATGCTAAAGAATAGTAAAGAGATACCAGGTG
ATGGCAATTGTCAAATGCATGCTTTATCCGATCAGTTGTATGGTGATTTATCTCATTCTC
AAGAAGTTAGAAAAACAATTGTCGATTGGTTAAGAAAGAATAAAGATTTTCAACTTCCAA
ATGGTGCTACCATTTGTCAATTTGTAAATACTAATAATTGGGATGACTATTGTAACGATA
TGTCAAAGAATGGAAATTGGGGTGATCATTTACTCTCTTGGCTGCTGCTGAACATTTTGG
TTCAAAGATTTCAATCATCTCTTCTGTTAAAGTCAAAGTAACTTTTTCATNAAATCATTC
CATCTAAAATTTTAA