>AFL336 (AFL336Q) /CSM/AF/AFL3-B/AFL336Q.Seq.d/
XXXXXXXXXXAAAGAGAGTTGGGAAGCTGAACGCCTCGAAAAAGAGAGATTAGAAGCTGA
ACGCCTCCGAAAAAGAGAAATTAGAAGCTGAACGTTTGGAAAAAGAGAAATTGGAAGCTG
AACGTTTAGAAAAGGAGAGGTTAGAAGCTGAACGTTTTTGAAAAAGAGAGATTAGAATCT
GAACGTCTCGAAAAAGAGAGATTAGAAGCTGAACGTCTCGAAAAAGAAAAATTAGAGGCT
GAACGTTTGGAAAAAGAGAAATTAGAAGCTGAACGTCTCGAAAAAGAGAGATTGGAAGCT
GAACGTCTCGAAAAAGAGAGATTAGAAGCTGAACGTCTCGAAAAAGAAAAATTAGAAGCT
GAACGTTTAGAAAAAGAGAAATTAGAAGCTGAACGTTTGGAAAAAGAGAAATTAGAAGCT
GAACGTCTCGAAAAAGAGAGATTAGAGGCTGAACGTTTGGAAAAAGAGAAATTAGAAGCT
GAACGTTTAGAAAAAGAGAGATTAGAAGCTGAACGTCTCGAAAAAGAAAAATTAGAAGCT
GAACGTTTGGAAAAAGAAAGAATTGAAAATGAAATATTGGAAGCTGAACGTTTGGAAAGA
TTGGAAATGGAAAAAATTGAAATTGAAAGATTGGAAAAACAACGTTTACAAGAGGAACAA
ATCAAAGAAAGNNGCNNCNANNNGATTAGNC

---relgs*tprkreirs*tppkkrn*klnvwkkrnwklnv*krrg*KLNVFEKERLESE
RLEKERLEAERLEKEKLEAERLEKEKLEAERLEKERLEAERLEKERLEAERLEKEKLEAE
RLEKEKLEAERLEKEKLEAERLEKERLEAERLEKEKLEAERLEKERLEAERLEKEKLEAE
RLEKERIENEILEAERLERLEMEKIEIERLEKQRLQEEQIKEXXXXXIX

Frame A:
---krvgklnaskkrd*klnasekekleaerlekekleaerlekerleaerf*kreiri*
tsrkreirs*tsrkrkirg*tfgkreirs*tsrkreigs*tsrkreirs*tsrkrkirs*
tfrkreirs*tfgkreirs*tsrkreirg*tfgkreirs*tfrkreirs*tsrkrkirs*
tfgkrkn*k*nigs*tfgkigngkn*n*kigkttftrgtnqrkxxxxd*


Frame B:
---relgs*tprkreirs*tppkkrn*klnvwkkrnwklnv*krrg*KLNVFEKERLESE
RLEKERLEAERLEKEKLEAERLEKEKLEAERLEKERLEAERLEKERLEAERLEKEKLEAE
RLEKEKLEAERLEKEKLEAERLEKERLEAERLEKEKLEAERLEKERLEAERLEKEKLEAE
RLEKERIENEILEAERLERLEMEKIEIERLEKQRLQEEQIKEXXXXXIX


Frame C:
---esweaerlekerleaerlrkreirs*tfgkreigs*tfrkgevrs*tflkkrd*nln
vskkrd*klnvskkkn*rlnvwkkrn*klnvskkrdwklnvskkrd*klnvskkkn*kln
v*kkrn*klnvwkkrn*klnvskkrd*rlnvwkkrn*klnv*kkrd*klnvskkkn*kln
vwkkkelkmkywklnvwkdwkwkklklkdwknnvykrnkskkxaxxxlx

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFL336 (AFL336Q) /CSM/AF/AFL3-B/AFL336Q.Seq.d/                       1007   0.0
AFA232 (AFA232Q) /CSM/AF/AFA2-B/AFA232Q.Seq.d/                        878   0.0
AHK353 (AHK353Q) /CSM/AH/AHK3-C/AHK353Q.Seq.d/                        831   0.0
AFC466 (AFC466Q) /CSM/AF/AFC4-C/AFC466Q.Seq.d/                        781   0.0
SHA663 (SHA663Q) /CSM/SH/SHA6-C/SHA663Q.Seq.d/                        111   1e-23
VHQ427 (VHQ427Q) /CSM/VH/VHQ4-B/VHQ427Q.Seq.d/                         66   8e-10
FCL-AB16 (FCL-AB16Q) /CSM/FCL/FCL-AB/FCL-AB16Q.Seq.d/                  66   8e-10
FC-172 (FC-172Q) /CSM/CG/CG-FC/FC-172Q.Seq.d/                          66   8e-10
AHR183 (AHR183Q) /CSM/AH/AHR1-D/AHR183Q.Seq.d/                         66   8e-10
SFL476 (SFL476Q) /CSM/SF/SFL4-D/SFL476Q.Seq.d/                         62   1e-08

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

AC084720|AC084720.1 Homo sapiens clone RP11-552F10, LOW-PASS SEQUENCE SAMPLING.    28   7e-08  15
CF542505|CF542505.1 plhc7-29 Crayfish Lambda Zap Express Library Pacifastacus leniusculus cDNA, mRNA sequence.    28   2e-05  6
AC022765|AC022765.2 Homo sapiens clone RP11-316D3, WORKING DRAFT SEQUENCE, 31 unordered pieces.    30   3e-04  17
CL112963|CL112963.1 ISB1-57N22_T7.1 ISB1 Silurana tropicalis genomic clone ISB1-57N22, genomic survey sequence.    28   4e-04  6
CN771953|CN771953.1 tad93f01.y1 Hydra EST Darmstadt I Hydra magnipapillata cDNA 5', mRNA sequence.    38   4e-04  3
CL123447|CL123447.1 ISB1-83L9_T7.1 ISB1 Silurana tropicalis genomic clone ISB1-83L9, genomic survey sequence.    28   5e-04  6
AC073300|AC073300.2 Homo sapiens chromosome 6 clone RP11-220P17 map 6, WORKING DRAFT SEQUENCE, 41 unordered pieces.    30   6e-04  15
AC023039|AC023039.3 Homo sapiens chromosome 14 clone RP11-733E22 map 14, WORKING DRAFT SEQUENCE, 16 unordered pieces.    30   0.001  17
AC116956|AC116956.2 Dictyostelium discoideum chromosome 2 map 1418423-1684967 strain AX4, complete sequence.    44   0.002  4
AC067769|AC067769.2 Homo sapiens chromosome 16 clone RP11-3C20 map 16, WORKING DRAFT SEQUENCE, 16 unordered pieces.    28   0.002  16

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AB359640_1(AB359640|pid:none) Pseudozizeeria maha argia mitochon...    37   0.70
CP000994_1(CP000994|pid:none) Borrelia recurrentis A1 plasmid pl...    35   1.6
AB359513_1(AB359513|pid:none) Zizina emelina emelina mitochondri...    35   2.0
AB359470_1(AB359470|pid:none) Zizina emelina emelina mitochondri...    35   2.0
AB359472_1(AB359472|pid:none) Zizina emelina emelina mitochondri...    35   2.0
AB107977_1(AB107977|pid:none) Lampides boeticus mitochondrial ND...    35   2.0
AB359622_1(AB359622|pid:none) Zizina otis labradus mitochondrial...    35   2.7
AB359556_1(AB359556|pid:none) Zizina otis otis mitochondrial ND5...    35   2.7
AB359602_1(AB359602|pid:none) Zizina otis mitochondrial ND5 gene...    35   2.7
CP000053_415(CP000053|pid:none) Rickettsia felis URRWXCal2, comp...    35   2.7

 psg: 0.19  gvh: 0.13  alm: 0.65  top: 0.53  tms: 0.00  mit: 0.20  mip: 0.00
 nuc: 0.12  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 

	 64.0 %: nuclear
	 24.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for AFL336 is nuc

>AFL336Z.Seq
----------AAAGAGAGTTGGGAAGCTGAACGCCTCGAAAAAGAGAGATTAGAAGCTGA
ACGCCTCCGAAAAAGAGAAATTAGAAGCTGAACGTTTGGAAAAAGAGAAATTGGAAGCTG
AACGTTTAGAAAAGGAGAGGTTAGAAGCTGAACGTTTTTGAAAAAGAGAGATTAGAATCT
GAACGTCTCGAAAAAGAGAGATTAGAAGCTGAACGTCTCGAAAAAGAAAAATTAGAGGCT
GAACGTTTGGAAAAAGAGAAATTAGAAGCTGAACGTCTCGAAAAAGAGAGATTGGAAGCT
GAACGTCTCGAAAAAGAGAGATTAGAAGCTGAACGTCTCGAAAAAGAAAAATTAGAAGCT
GAACGTTTAGAAAAAGAGAAATTAGAAGCTGAACGTTTGGAAAAAGAGAAATTAGAAGCT
GAACGTCTCGAAAAAGAGAGATTAGAGGCTGAACGTTTGGAAAAAGAGAAATTAGAAGCT
GAACGTTTAGAAAAAGAGAGATTAGAAGCTGAACGTCTCGAAAAAGAAAAATTAGAAGCT
GAACGTTTGGAAAAAGAAAGAATTGAAAATGAAATATTGGAAGCTGAACGTTTGGAAAGA
TTGGAAATGGAAAAAATTGAAATTGAAAGATTGGAAAAACAACGTTTACAAGAGGAACAA
ATCAAAGAAAGNNGCNNCNANNNGATTAGNC