>AFH216 (AFH216Q) /CSM/AF/AFH2-A/AFH216Q.Seq.d/
XXXXXXXXXXTGCTGTTGGNACCNAACGTTATGATTNTCAANCTGGTGGTGAACGTGAAA
TTCAAANAANTATGTTGGAACTCTTGAATCAATTGGATGGNTTCGATGCTANAACCGATG
TAAAAGTTATCATGGNTACAAATCGNATTGAAACNTTAGATCCTGCTNTCATTCGGCCAG
GTCGNATCGATCGNAAAATTGAATTCCCNCTTCCNGATATTAAGACCNANAGAAAGATCT
TTGAAATTCANACNGCTAAAATGAATCNCNCTGAAGATGTTAACCCTGAANAGTTTGNTA
TGNCTAAANATGATTTANCC

---AVGTXRYDXQXGGEREIQXXMLELLNQLDGFDAXTDVKVIMXTNRIETLDPAXIRPG
RIDRKIEFPLPDIKTXRKIFEIXTAKMNXXEDVNPEXFXMXKXDLX

Frame A:
---AVGTXRYDXQXGGEREIQXXMLELLNQLDGFDAXTDVKVIMXTNRIETLDPAXIRPG
RIDRKIEFPLPDIKTXRKIFEIXTAKMNXXEDVNPEXFXMXKXDLX


Frame B:
---llxpnvmixxlvvnvkfkxxcwns*inwmxsmlxpm*klswxqixlkx*illsfgqv
xsixklnsxfxilrpxerslkfxxlk*ixlkmltlxslxxlxmix


Frame C:
---cwxxtl*xsxww*t*nsxxyvgtlesigwxrcxnrcksyhgyksx*nxrscxhsars
xrsxn*ipxsxy*dxxkdl*nsxx*nesx*rc*p*xvxyx*x*fx

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFH216 (AFH216Q) /CSM/AF/AFH2-A/AFH216Q.Seq.d/                        454   e-127
SLB640 (SLB640Q) /CSM/SL/SLB6-B/SLB640Q.Seq.d/                        438   e-122
SFH857 (SFH857Q) /CSM/SF/SFH8-C/SFH857Q.Seq.d/                        438   e-122
AFN319 (AFN319Q) /CSM/AF/AFN3-A/AFN319Q.Seq.d/                        438   e-122
AFE732 (AFE732Q) /CSM/AF/AFE7-B/AFE732Q.Seq.d/                        438   e-122
AFA160 (AFA160Q) /CSM/AF/AFA1-C/AFA160Q.Seq.d/                        387   e-107
AFD164 (AFD164Q) /CSM/AF/AFD1-C/AFD164Q.Seq.d/                        383   e-105
SFE651 (SFE651Q) /CSM/SF/SFE6-C/SFE651Q.Seq.d/                        377   e-104
VFB722 (VFB722Q) /CSM/VF/VFB7-A/VFB722Q.Seq.d/                        371   e-102
AFB603 (AFB603Q) /CSM/AF/AFB6-A/AFB603Q.Seq.d/                        357   7e-98

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

BI741860|BI741860.1 kt81h06.y1 Strongyloides ratti L1 pAMP1 v3 Chiapelli McCarterPROBABLE 26S PROTEASE REGULATORY SUBUNIT 4. [1] ;, mRNA sequence.    70   2e-12  2
BF046998|BF046998.1 EST1095 Manduca sexta male antennae Uni-ZAP XR library Manduca sexta cDNA clone pMsmaI6E10 5' similar to 26S protease regulatory subunit 4 of D. melanogaster, mRNA sequence.    46   2e-09  3
BM357203|BM357203.2 13II-H3 Triphysaria versicolor root-tip, early DMBQ-induced transcript cDNA library Triphysaria versicolor cDNA, mRNA sequence.    50   3e-07  2
CB404685|CB404685.1 OSTR026H8_1 AD-wrmcDNA Caenorhabditis elegans cDNA, mRNA sequence.    52   4e-07  2
BJ132123|BJ132123.1 Caenorhabditis elegans cDNA clone:yk1062d09 : 3' end, single read.    52   5e-07  2
CB176636|CB176636.1 PopSC00059 Poplar SC cDNA library Populus alba x Populus glandulosa cDNA clone PopSC00059, mRNA sequence.    46   1e-06  2
BM260251|BM260251.1 baa17f06.x1 Cassava EYC library1 Manihot esculenta cDNA 3' similar to SW:PRS4_ORYSA P46466 26S PROTEASE REGULATORY SUBUNIT 4 HOMOLOG ;, mRNA sequence.    48   2e-06  2
AF016440|AF016440.2 Caenorhabditis elegans cosmid F29G9, complete sequence.    52   1e-05  3
AC105954|AC105954.5 Mus musculus chromosome 12 clone RP24-159L15 map 12, *** SEQUENCING IN PROGRESS ***, 10 unordered pieces.    44   2e-05  2
AC102737|AC102737.3 Mus musculus clone RP24-274F15, WORKING DRAFT SEQUENCE, 9 unordered pieces.    44   2e-05  2

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AY087584_1(AY087584|pid:none) Arabidopsis thaliana clone 36815 m...   145   3e-34
AC006081_7(AC006081|pid:none) Arabidopsis thaliana chromosome 2 ...   145   3e-34
AF123391_1(AF123391|pid:none) Arabidopsis thaliana 26S proteasom...   145   3e-34
AB161192_1(AB161192|pid:none) Arabidopsis thaliana HLR mRNA for ...   145   3e-34
EU959285_1(EU959285|pid:none) Zea mays clone 214269 26S protease...   145   5e-34
AB037154_1(AB037154|pid:none) Oryza sativa Japonica Group OsRPT2...   144   7e-34
FB781850_1(FB781850|pid:none) Sequence 1123 from Patent WO200803...   144   7e-34
D17789_1(D17789|pid:none) Oryza sativa Japonica Group mRNA for h...   144   7e-34
BT062241_1(BT062241|pid:none) Zea mays full-length cDNA clone ZM...   144   7e-34
(P46466) RecName: Full=26S protease regulatory subunit 4 homolog...   144   7e-34

 psg: 0.44  gvh: 0.48  alm: 0.55  top: 0.53  tms: 0.00  mit: 0.14  mip: 0.02
 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 

	 52.0 %: cytoplasmic
	 36.0 %: nuclear
	  8.0 %: mitochondrial
	  4.0 %: extracellular, including cell wall

>> prediction for AFH216 is cyt

>AFH216Z.Seq
----------TGCTGTTGGNACCNAACGTTATGATTNTCAANCTGGTGGTGAACGTGAAA
TTCAAANAANTATGTTGGAACTCTTGAATCAATTGGATGGNTTCGATGCTANAACCGATG
TAAAAGTTATCATGGNTACAAATCGNATTGAAACNTTAGATCCTGCTNTCATTCGGCCAG
GTCGNATCGATCGNAAAATTGAATTCCCNCTTCCNGATATTAAGACCNANAGAAAGATCT
TTGAAATTCANACNGCTAAAATGAATCNCNCTGAAGATGTTAACCCTGAANAGTTTGNTA
TGNCTAAANATGATTTANCC