>CFI231 (CFI231Q) /CSM/CF/CFI2-B/CFI231Q.Seq.d/
AAATAATTATTTTTTTTATCTTCATTATATACAATTTAATTTATTAATTTTTTAATGGCA
AAACTAAAAATAATTATTTATATTGTAATAATTTTTTGTAGTAGTATCCAATTTTCTTTT
GGATACGAAAAGGCGATTGCTTCATTTTATCCACCTCCAGGTGATTTGCATCCCACTACT
CATAATTTTTGGGCATGTAATAGTGTCATTAACCAAAACGGTGGATTCGGTCCACTTGAA
TGCAATAATGCCGGTATCTATGCAATTTTCTCGACCGCCAATGAGATCATCGACGGTAAT
GAATACATGCTTCCACTATTTTATATTGGAAGATCCACTATAGATGTTCGAGATAGAATT
GCTGATCACAGTAGACGAAACCATGTTGATAATGATTTCATTGTGTGTTATATGCGTTTC
CCAGCATTGGATGATTATGGTTACAGTAACAAAGTAACACCCGTTGAACAAGCTCTCCTT
CACCAATTCAAAACTCAATTCAACTCATGGGATAACCCTCGGTTTTGATCCACAGTATGA
TACTGCTTATCCAGATGAAAATGGTTTGGGATGGGATATCCTTGCATCTTTTTATAATAT
GGATATCAATGCTCCATCTTTTAATATTGAAAAAGAGCCAGGCTTTGTATGXXXXXXXXX
XCTCTATACGTAGCAGAGCTACTCGTTATGCTAATCAAGGGTTACAATTCCATGAGNAAA
TGGTGCACAAAGAGCTGGCAACGGCGCACGTAATTATGCTAATGAAGGTTACAATTCCGT
GAGAGATGGTGCACAAAGAGCTGGCAACGGCGCACGTAATTATGCTCAACAAGGTTATCA
AGCATGGAGAGAAGGTGTCAATGAGATTGGTGATGATATCGCCAATACTGCACATGATGT
AGGTGATGGTTTCGCCAATACTGCACGTGAAGTAGGTGATGGAATTAGAATCACTGCAGA
GGAGGGATATGAACTCATTAAAGATGGAGCTGAAGAAACTTGGGTGAAGAAATATTAAAG
GTTATCCTTAATTAAAATTAAAAAAGCACAACAAAGAATGGCTGAACAAGAAGAAAGAAG
AAGGTTGATGCAAGAAGAAAGTGAAAGAAGACGATTGCAAAGAAACAGAGAAAGACAAGA
GCCAATTAGAACTTATACAACTGCACAAGAAGCTCAACGATATATACCCAAACCTGGTAA
CTTTGCACGTAAAAGAGG

nnyffylhyiqfnllif*wqn*k*lfil**ffvvvsnflldtkrrllhfihlqvicipll
iifghvivsltktvdsvhlnaimpvsmqfsrppmrsstvmntcfhyfiledpl*mfeiel
litvdetmlimislcvicvsqhwmimvtvtk*HPLNKLSFTNSKLNSTHGITLGFDPQYD
TAYPDENGLGWDILASFYNMDINAPSFNIEKEPGFV---

---SIRSRATRYANQGLQFHEXMVHKELATAHVIMLMKVTIP*emvhkelatahvimlnk
vikhgekvsmrlvmispilhmm*vmvspilhvk*vmeleslqrrdmnslkmelkklg*rn
ikgyp*lklkkhnkewlnkkkeeg*ckkkvkeddcketekdksqleliqlhkklndiypn
lvtlhvke

Frame A:
k*lfflsslyti*finflmaklkiiiyiviifcssiqfsfgyekaiasfypppgdlhptt
hnfwacnsvinqnggfgplecnnagiyaifstaneiidgneymlplfyigrstidvrdri
adhsrrnhvdndfivcymrfpalddygysnkvtpveqallhqfktqfnswdnprf*stv*
yclsr*kwfgmgypcifl*ygyqcsif*y*krarlcm---

---lyt*qsyslc*srvtip*xngaqragngarnyanegynsvrdgaqragngarnyaqq
gyqawregvneigddiantahdvgdgfantarevgdgiritaeegyelikdgaeetwvkk
y*rlslikikkaqqrmaeqeerrrlmqeeserrrlqrnrerqepirtyttaqeaqryipk
pgnfarkr

Frame B:
nnyffylhyiqfnllif*wqn*k*lfil**ffvvvsnflldtkrrllhfihlqvicipll
iifghvivsltktvdsvhlnaimpvsmqfsrppmrsstvmntcfhyfiledpl*mfeiel
litvdetmlimislcvicvsqhwmimvtvtk*HPLNKLSFTNSKLNSTHGITLGFDPQYD
TAYPDENGLGWDILASFYNMDINAPSFNIEKEPGFV---

---SIRSRATRYANQGLQFHEXMVHKELATAHVIMLMKVTIP*emvhkelatahvimlnk
vikhgekvsmrlvmispilhmm*vmvspilhvk*vmeleslqrrdmnslkmelkklg*rn
ikgyp*lklkkhnkewlnkkkeeg*ckkkvkeddcketekdksqleliqlhkklndiypn
lvtlhvke

Frame C:
iiiffifiiynliy*ffngktknnylycnnfl**ypiffwirkgdcfilstsr*fashys
*flgm**ch*pkrwirst*mq*crylcnfldrq*dhrr**ihastilywkihyrcsr*nc
*sq*tkpc***fhcvlyafpsig*lwlq*qsntr*tsspspiqnsiqlmg*psvlihsmi
lliqmkmvwdgislhlfiiwismlhllilkksqaly---

---lyvaellvmlikgynsmxkwctkswqrrt*lc**rlqfrerwctkswqrrt*lcstr
lssmerrcq*dw**yrqyct*cr*wfrqyct*sr*wn*nhcrggi*th*rws*rnlgeei
lkviln*n*ksttkng*trrkkkvdarrk*kktiakkqrktran*nlynctrsstiytqt
w*lct*kr

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CFI231 (CFI231Q) /CSM/CF/CFI2-B/CFI231Q.Seq.d/                       1963   0.0
SFJ550 (SFJ550Q) /CSM/SF/SFJ5-C/SFJ550Q.Seq.d/                       1243   0.0
SFG737 (SFG737Q) /CSM/SF/SFG7-B/SFG737Q.Seq.d/                       1243   0.0
SFD458 (SFD458Q) /CSM/SF/SFD4-C/SFD458Q.Seq.d/                       1243   0.0
AFO704 (AFO704Q) /CSM/AF/AFO7-A/AFO704Q.Seq.d/                       1243   0.0
AFM690 (AFM690Q) /CSM/AF/AFM6-D/AFM690Q.Seq.d/                       1243   0.0
AFB465 (AFB465Q) /CSM/AF/AFB4-C/AFB465Q.Seq.d/                       1243   0.0
AFA515 (AFA515Q) /CSM/AF/AFA5-A/AFA515Q.Seq.d/                       1243   0.0
CFI722 (CFI722Q) /CSM/CF/CFI7-A/CFI722Q.Seq.d/                       1235   0.0
CFF310 (CFF310Q) /CSM/CF/CFF3-A/CFF310Q.Seq.d/                       1235   0.0

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

AC116551|AC116551.2 Dictyostelium discoideum chromosome 2 map complement(581327-427576) strain AX4, complete sequence.   141   3e-29  1
AC117076|AC117076.2 Dictyostelium discoideum chromosome 2 map 5862124-6045772 strain AX4, complete sequence.    70   1e-14  10
AC117081|AC117081.1 Dictyostelium discoideum chromosome 2 map 4903137-4960091 strain AX4, *** SEQUENCING IN PROGRESS ***, in ordered pieces.    70   3e-14  2
AL035476|AL035476.7 Plasmodium falciparum MAL4P3.                  36   4e-05  15
AE014823|AE014823.1 Plasmodium falciparum 3D7 chromosome 14 section 8 of 13 of the complete sequence.    34   4e-04  12
AC005507|AC005507.8 Plasmodium falciparum chromosome 12 clone 3D7, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    34   0.004  10
AX344551|AX344551.1 Sequence 2 from Patent WO0200932.              40   0.005  11
AC004710|AC004710.3 Plasmodium falciparum chromosome 12, WORKING DRAFT SEQUENCE, 2 unordered pieces.    34   0.005  11
AZ930073|AZ930073.1 479.dil58d12.s1 Saccharomyces kluyveri Saccharomyces kluyveri genomic clone 479.dil58d12.s1, DNA sequence.    40   0.007  2
AC116982|AC116982.2 Dictyostelium discoideum chromosome 2 map 3622643-3879522 strain AX4, complete sequence.    38   0.008  14

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC116551_24(AC116551|pid:none) Dictyostelium discoideum chromoso...    53   2e-05
AE017180_1660(AE017180|pid:none) Geobacter sulfurreducens PCA, c...    40   0.12
Z69360_4(Z69360|pid:none) Caenorhabditis elegans Cosmid F25H8, c...    39   0.47
T21369(T21369)hypothetical protein F25H8.5a - Caenorhabditis ele...    39   0.47
AJ628940_1(AJ628940|pid:none) Pisum sativum mRNA for late embryo...    39   0.47
Z69360_3(Z69360|pid:none) Caenorhabditis elegans Cosmid F25H8, c...    39   0.47
AM421808_498(AM421808|pid:none) Neisseria meningitidis serogroup...    38   0.80
AC146855_28(AC146855|pid:none) Medicago truncatula clone mth2-16...    37   1.0
EU780020_1(EU780020|pid:none) Fucus serratus isolate Fse_00017 h...    36   3.0
CP000138_362(CP000138|pid:none) Rhizobium etli CFN 42 plasmid p4...    35   4.0

 psg: 0.73  gvh: 0.40  alm: 0.46  top: 0.53  tms: 0.00  mit: 0.34  mip: 0.00
 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 

	 48.0 %: nuclear
	 32.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: extracellular, including cell wall
	  4.0 %: peroxisomal

>> prediction for CFI231 is nuc

>CFI231F.Seq
AAATAATTATTTTTTTTATCTTCATTATATACAATTTAATTTATTAATTTTTTAATGGCA
AAACTAAAAATAATTATTTATATTGTAATAATTTTTTGTAGTAGTATCCAATTTTCTTTT
GGATACGAAAAGGCGATTGCTTCATTTTATCCACCTCCAGGTGATTTGCATCCCACTACT
CATAATTTTTGGGCATGTAATAGTGTCATTAACCAAAACGGTGGATTCGGTCCACTTGAA
TGCAATAATGCCGGTATCTATGCAATTTTCTCGACCGCCAATGAGATCATCGACGGTAAT
GAATACATGCTTCCACTATTTTATATTGGAAGATCCACTATAGATGTTCGAGATAGAATT
GCTGATCACAGTAGACGAAACCATGTTGATAATGATTTCATTGTGTGTTATATGCGTTTC
CCAGCATTGGATGATTATGGTTACAGTAACAAAGTAACACCCGTTGAACAAGCTCTCCTT
CACCAATTCAAAACTCAATTCAACTCATGGGATAACCCTCGGTTTTGATCCACAGTATGA
TACTGCTTATCCAGATGAAAATGGTTTGGGATGGGATATCCTTGCATCTTTTTATAATAT
GGATATCAATGCTCCATCTTTTAATATTGAAAAAGAGCCAGGCTTTGTATGNNNNNNNNN
N

>CFI231Z.Seq
NNNNNNNNNNCTCTATACGTAGCAGAGCTACTCGTTATGCTAATCAAGGGTTACAATTCC
ATGAGNAAATGGTGCACAAAGAGCTGGCAACGGCGCACGTAATTATGCTAATGAAGGTTA
CAATTCCGTGAGAGATGGTGCACAAAGAGCTGGCAACGGCGCACGTAATTATGCTCAACA
AGGTTATCAAGCATGGAGAGAAGGTGTCAATGAGATTGGTGATGATATCGCCAATACTGC
ACATGATGTAGGTGATGGTTTCGCCAATACTGCACGTGAAGTAGGTGATGGAATTAGAAT
CACTGCAGAGGAGGGATATGAACTCATTAAAGATGGAGCTGAAGAAACTTGGGTGAAGAA
ATATTAAAGGTTATCCTTAATTAAAATTAAAAAAGCACAACAAAGAATGGCTGAACAAGA
AGAAAGAAGAAGGTTGATGCAAGAAGAAAGTGAAAGAAGACGATTGCAAAGAAACAGAGA
AAGACAAGAGCCAATTAGAACTTATACAACTGCACAAGAAGCTCAACGATATATACCCAA
ACCTGGTAACTTTGCACGTAAAAGAGG

>CFI231P.Seq
AAATAATTATTTTTTTTATCTTCATTATATACAATTTAATTTATTAATTTTTTAATGGCA
AAACTAAAAATAATTATTTATATTGTAATAATTTTTTGTAGTAGTATCCAATTTTCTTTT
GGATACGAAAAGGCGATTGCTTCATTTTATCCACCTCCAGGTGATTTGCATCCCACTACT
CATAATTTTTGGGCATGTAATAGTGTCATTAACCAAAACGGTGGATTCGGTCCACTTGAA
TGCAATAATGCCGGTATCTATGCAATTTTCTCGACCGCCAATGAGATCATCGACGGTAAT
GAATACATGCTTCCACTATTTTATATTGGAAGATCCACTATAGATGTTCGAGATAGAATT
GCTGATCACAGTAGACGAAACCATGTTGATAATGATTTCATTGTGTGTTATATGCGTTTC
CCAGCATTGGATGATTATGGTTACAGTAACAAAGTAACACCCGTTGAACAAGCTCTCCTT
CACCAATTCAAAACTCAATTCAACTCATGGGATAACCCTCGGTTTTGATCCACAGTATGA
TACTGCTTATCCAGATGAAAATGGTTTGGGATGGGATATCCTTGCATCTTTTTATAATAT
GGATATCAATGCTCCATCTTTTAATATTGAAAAAGAGCCAGGCTTTGTATG---------
-CTCTATACGTAGCAGAGCTACTCGTTATGCTAATCAAGGGTTACAATTCCATGAGNAAA
TGGTGCACAAAGAGCTGGCAACGGCGCACGTAATTATGCTAATGAAGGTTACAATTCCGT
GAGAGATGGTGCACAAAGAGCTGGCAACGGCGCACGTAATTATGCTCAACAAGGTTATCA
AGCATGGAGAGAAGGTGTCAATGAGATTGGTGATGATATCGCCAATACTGCACATGATGT
AGGTGATGGTTTCGCCAATACTGCACGTGAAGTAGGTGATGGAATTAGAATCACTGCAGA
GGAGGGATATGAACTCATTAAAGATGGAGCTGAAGAAACTTGGGTGAAGAAATATTAAAG
GTTATCCTTAATTAAAATTAAAAAAGCACAACAAAGAATGGCTGAACAAGAAGAAAGAAG
AAGGTTGATGCAAGAAGAAAGTGAAAGAAGACGATTGCAAAGAAACAGAGAAAGACAAGA
GCCAATTAGAACTTATACAACTGCACAAGAAGCTCAACGATATATACCCAAACCTGGTAA
CTTTGCACGTAAAAGAGG