>FC-AM11 (FC-AM11Q) /CSM/FC/FC-AM/FC-AM11Q.Seq.d/
XXXXXXXXXXCGTTGCTGCCAAATTATCAGTCATCCCAGTTCGTCGTGGTTATTGGGGTA
ACAAACNCGGTGCTCCACACANTGTCCCAACCAAAGTCACTGGTAAATGCGGTTCCGTCG
CTGTACGTCTCGTTCCAGCCCCAAGAGGTACTGGTATCGTTGCTGCTCGTGTTCCAAAGA
AATTACTCCAATATGCTGGTGTTGATGATGTTTACACATCTTCACGTGGTAAGACCAGAA
CCATGGGTAACTTTGTCATGGCCACTTTCTTCGCCATCACCAAGACCTTTGCTTACTTAA
CCCCAGATCTTTGGAGAGAAGTCAAATTAATCAAGACTCCATACCAAGAACACTCTGCCA
AATTATCCGAAAAACAACAATAAATCAACTTTAATTAATTTTTTACTGTTTTAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

---VAAKLSVIPVRRGYWGNKXGAPHXVPTKVTGKCGSVAVRLVPAPRGTGIVAARVPKK
LLQYAGVDDVYTSSRGKTRTMGNFVMATFFAITKTFAYLTPDLWREVKLIKTPYQEHSAK
LSEKQQ*infn*fftvlkkkkkkkkkkkkkkk

Frame A:
---VAAKLSVIPVRRGYWGNKXGAPHXVPTKVTGKCGSVAVRLVPAPRGTGIVAARVPKK
LLQYAGVDDVYTSSRGKTRTMGNFVMATFFAITKTFAYLTPDLWREVKLIKTPYQEHSAK
LSEKQQ*infn*fftvlkkkkkkkkkkkkkkk


Frame B:
---llpnyqssqfvvvigvtnxvlhtxsqpkslvnavpslyvsfqpqevlvslllvfqrn
ysnmlvlmmfthlhvvrpepwvtlswplsspsprpllt*pqifgeksn*srlhtkntlpn
ypknnnkstlinfllf*kkkkkkkkkkkkkkk


Frame C:
---ccqiishpssswllg*qtrcstxcpnqshw*mrfrrctsrsspkrywyrccscskei
tpicwc**clhiftw*dqnhg*lchghflrhhqdlcllnprslersqinqdsiprtlcqi
irkttinql*lifycfkkkkkkkkkkkkkkk

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

FC-AO01 (FC-AO01Q) /CSM/FC/FC-AO/FC-AO01Q.Seq.d/                      785   0.0
FC-AM11 (FC-AM11Q) /CSM/FC/FC-AM/FC-AM11Q.Seq.d/                      785   0.0
SLK563 (SLK563Q) /CSM/SL/SLK5-C/SLK563Q.Seq.d/                        777   0.0
SLI722 (SLI722Q) /CSM/SL/SLI7-A/SLI722Q.Seq.d/                        777   0.0
SLE490 (SLE490Q) /CSM/SL/SLE4-D/SLE490Q.Seq.d/                        777   0.0
SLC152 (SLC152Q) /CSM/SL/SLC1-C/SLC152Q.Seq.d/                        777   0.0
FC-BA12 (FC-BA12Q) /CSM/FC/FC-BA/FC-BA12Q.Seq.d/                      777   0.0
FC-AC19 (FC-AC19Q) /CSM/FC/FC-AC/FC-AC19Q.Seq.d/                      777   0.0
FC-AA13 (FC-AA13Q) /CSM/FC/FC-AA/FC-AA13Q.Seq.d/                      777   0.0
VHC440 (VHC440Q) /CSM/VH/VHC4-B/VHC440Q.Seq.d/                        765   0.0

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

X56297|X56297.1 D.discoideum LLRep3 mRNA.                        728  0.0  1
AX537010|AX537010.1 Sequence 611 from Patent WO02064766.          44  5e-09  4
AX489195|AX489195.1 Sequence 6495 from Patent WO02053728.         44  5e-09  4
BI142487|BI142487.1 kt77b08.y1 Strongyloides ratti L2 SL1 TOPO v2 Strongyloides ratti cDNA 5' similar to SW:RS2_CAEEL P51403 PROBABLE 40S RIBOSOMAL PROTEIN S2. [1] ;, mRNA sequence.    52  6e-08  3
BQ475096|BQ475096.1 carabus4f11.g Carabus granulatus cDNA Carabus granulatus cDNA clone carabus4f11 3', mRNA sequence.    50  7e-07  2
BG301514|BG301514.1 kt02a11.y1 Strongyloides ratti L1 SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RS2_CAEEL P51403 PROBABLE 40S RIBOSOMAL PROTEIN S2. [1] ;, mRNA sequence.    52  2e-06  3
BG301515|BG301515.1 kt02a12.y1 Strongyloides ratti L1 SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RS2_CAEEL P51403 PROBABLE 40S RIBOSOMAL PROTEIN S2. [1] ;, mRNA sequence.    52  2e-06  3
BI487345|BI487345.1 gc64b03.y1 Moss EST library PPN Physcomitrella patens cDNA clone PEP_SOURCE_ID:PPN210306 5' similar to TR:Q9SCM3 Q9SCM3 40S RIBOSOMAL PROTEIN S2 HOMOLOG. ;, mRNA sequence.    46  4e-06  2
BJ159612|BJ159612.1 Physcomitrella patens subsp. patens cDNA clone:pph16j16, 5' end, single read.    46  4e-06  2
BJ173525|BJ173525.1 Physcomitrella patens subsp. patens cDNA clone:pph35n24, 3' end, single read.    46  4e-06  2

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P27685) RecName: Full=40S ribosomal protein S2; AltName: Full=R...   245   3e-64
AY088743_1(AY088743|pid:none) Arabidopsis thaliana clone 93867 m...   185   5e-46
AB008017_1(AB008017|pid:none) Arabidopsis thaliana RF12 mRNA, pa...   185   5e-46
(Q93VB8) RecName: Full=40S ribosomal protein S2-2;  &AB076984_1(...   185   5e-46
(Q8L8Y0) RecName: Full=40S ribosomal protein S2-1;  &AB008016_1(...   185   5e-46
AM502250_82(AM502250|pid:none) Leishmania infantum chromosome 32.     185   5e-46
AY961548_1(AY961548|pid:none) Lysiphlebus testaceipes ribosomal ...   184   8e-46
AY085726_1(AY085726|pid:none) Arabidopsis thaliana clone 17415 m...   184   8e-46
AM494969_52(AM494969|pid:none) Leishmania braziliensis chromosom...   184   1e-45
CT005269_46(CT005269|pid:none) Leishmania major strain Friedlin,...   184   1e-45

 psg: 0.52  gvh: 0.45  alm: 0.39  top: 0.53  tms: 0.00  mit: 0.37  mip: 0.10
 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 %: cytoplasmic
	 32.0 %: mitochondrial
	 16.0 %: nuclear
	  4.0 %: plasma membrane
	  4.0 %: peroxisomal

>> prediction for FC-AM11 is cyt

>FC-AM11Z.Seq
----------CGTTGCTGCCAAATTATCAGTCATCCCAGTTCGTCGTGGTTATTGGGGTA
ACAAACNCGGTGCTCCACACANTGTCCCAACCAAAGTCACTGGTAAATGCGGTTCCGTCG
CTGTACGTCTCGTTCCAGCCCCAAGAGGTACTGGTATCGTTGCTGCTCGTGTTCCAAAGA
AATTACTCCAATATGCTGGTGTTGATGATGTTTACACATCTTCACGTGGTAAGACCAGAA
CCATGGGTAACTTTGTCATGGCCACTTTCTTCGCCATCACCAAGACCTTTGCTTACTTAA
CCCCAGATCTTTGGAGAGAAGTCAAATTAATCAAGACTCCATACCAAGAACACTCTGCCA
AATTATCCGAAAAACAACAATAAATCAACTTTAATTAATTTTTTACTGTTTTAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA