>SHA665 (SHA665Q) /CSM/SH/SHA6-C/SHA665Q.Seq.d/
XXXXXXXXXXCAATGGGTGCTCAACATTGGGAGAGTGGTTTAGATCCATCAAGTTTACAA
AAACAAAATGAAATTAATCCACCAATTTCCGTTCGTTCCAATGTCGTTTTCTTTGAACCA
TACTTGGCCGGTGAACCAGGCAGACACAAGGCATGTTGGAATCTCCTCGAACCAATGCAT
AGAAACTACTACCAACCAATCCAATTCAAATTACCATCATTCCCAGACACTTCATTACCA
ATCACACAAATCGATGATAAAACCGGTATCTTTGATTCTCAACGTTTCCTCGCATTCAAT
AATCCACAAGCCATGAGTAAATATGAATCCTATCGTATCTACATTCATCCTTCACTCGGT
TACAGTGGTAATGCAAAGAGATTCAAACAACAACCAGATGTCAATGAGAAAGCTTTGATT
TTGGATGGCAATGTCTACGATGGACATTTAAATCCAATTTACAACTGTAAAATCTGTACC
GAATATTATCAAACCAAATCTTACTTTTCCGCTAATCCACATGCAAAAGGTAAAGTTCTT
TTGGTCAAAAATAACATATTAACTCGTGTCAAAGATGGTGGTTTCACTCTCTCCTTAAAG
CCAATGTGTTGCAGTGGTCATAACTCTCATATCCCACTCTACTTTCACTTNACCCTTACA
AATCCACTCACAAATG

---MGAQHWESGLDPSSLQKQNEINPPISVRSNVVFFEPYLAGEPGRHKACWNLLEPMHR
NYYQPIQFKLPSFPDTSLPITQIDDKTGIFDSQRFLAFNNPQAMSKYESYRIYIHPSLGY
SGNAKRFKQQPDVNEKALILDGNVYDGHLNPIYNCKICTEYYQTKSYFSANPHAKGKVLL
VKNNILTRVKDGGFTLSLKPMCCSGHNSHIPLYFHXTLTNPLTN

Frame A:
---ngcstlgewfrsikftktk*n*stnfrsfqcrfl*tilgr*trqtqgmlesprtna*
kllptnpiqitiiprhfitnhtnr**nryl*fstfpriq*stshe*i*ilsylhssftrl
qw*ckeiqtttrcq*esfdfgwqclrwtfksnlql*nlyrilsnqillfr*stckr*ssf
gqk*hinscqrwwfhsllkanvlqws*lsyptllslxpyksthk


Frame B:
---MGAQHWESGLDPSSLQKQNEINPPISVRSNVVFFEPYLAGEPGRHKACWNLLEPMHR
NYYQPIQFKLPSFPDTSLPITQIDDKTGIFDSQRFLAFNNPQAMSKYESYRIYIHPSLGY
SGNAKRFKQQPDVNEKALILDGNVYDGHLNPIYNCKICTEYYQTKSYFSANPHAKGKVLL
VKNNILTRVKDGGFTLSLKPMCCSGHNSHIPLYFHXTLTNPLTN


Frame C:
---wvlnigrvv*ihqvyknkmklihqfpfvpmsfslnhtwpvnqadtrhvgissnqcie
tttnqsnsnyhhsqtlhyqshksmikpvslilnvsshsiihkp*vnmnpivstfilhsvt
vvmqrdsnnnqmsmrkl*fwmamstmdi*iqfttvksvpniikpnltfplihmqkvkffw
skity*lvskmvvslsp*sqcvavvitlishstftxplqihsqm

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFA838 (VFA838Q) /CSM/VF/VFA8-B/VFA838Q.Seq.d/                       1314   0.0
SHA665 (SHA665Q) /CSM/SH/SHA6-C/SHA665Q.Seq.d/                       1314   0.0
CHD534 (CHD534Q) /CSM/CH/CHD5-B/CHD534Q.Seq.d/                       1306   0.0
VHJ792 (VHJ792Q) /CSM/VH/VHJ7-D/VHJ792Q.Seq.d/                       1292   0.0
AFO507 (AFO507Q) /CSM/AF/AFO5-A/AFO507Q.Seq.d/                       1261   0.0
CHR159 (CHR159Q) /CSM/CH/CHR1-C/CHR159Q.Seq.d/                       1213   0.0
SHJ550 (SHJ550Q) /CSM/SH/SHJ5-C/SHJ550Q.Seq.d/                       1183   0.0
CFJ232 (CFJ232Q) /CSM/CF/CFJ2-B/CFJ232Q.Seq.d/                       1172   0.0
SHL560 (SHL560Q) /CSM/SH/SHL5-C/SHL560Q.Seq.d/                       1170   0.0
CHM688 (CHM688Q) /CSM/CH/CHM6-D/CHM688Q.Seq.d/                       1170   0.0

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

BZ622217|BZ622217.1 ig77a07.g1 WGS-ZmaysF (DH5a methyl filtered) Zea mays genomic cloneig77a07 5', genomic survey sequence.    46   0.93   1
BX150909|BX150909.1 Danio rerio genomic clone DKEY-118B23, genomic survey sequence.    46   0.93   1
AL132975|AL132975.1 Arabidopsis thaliana DNA chromosome 3, BAC clone T22E16.    46   0.93   1
CR456684|CR456684.9 Zebrafish DNA sequence from clone DKEY-46I8 in linkage group 12.    46   0.93   1
AP005892|AP005892.3 Oryza sativa (japonica cultivar-group) genomic DNA, chromosome 9, BAC clone:OSJNBa0011D16.    32   1.8    2
BQ078260|BQ078260.1 fy78d05.x1 Sugano SJD adult male Danio rerio cDNA clone 5777312 3', mRNA sequence.    44   3.7    1
AC135875|AC135875.1 Rattus norvegicus clone CH230-158I12, *** SEQUENCING IN PROGRESS ***, 75 unordered pieces.    44   3.7    1
AC122616|AC122616.4 Rattus norvegicus clone CH230-62P3, WORKING DRAFT SEQUENCE, 3 unordered pieces.    44   3.7    1
BZ357781|BZ357781.1 SALK_131235.56.00.x Arabidopsis thaliana TDNA insertion lines Arabidopsis thaliana genomic clone SALK_131235.56.00.x, DNA sequence.    44   3.7    1
DU031162|DU031162.1 12414 Tomato HindIII BAC Library Lycopersicon esculentum genomic clone LE_HBa0054K16 3, genomic survey sequence.    44   3.7    1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BA000040_1129(BA000040|pid:none) Bradyrhizobium japonicum USDA 1...    35   2.6
AF438165_8(AF438165|pid:none) Camelpox virus M-96 from Kazakhsta...    34   3.4
AY698061_1(AY698061|pid:none) Schistosoma mansoni nuclear recept...    34   3.4
EU546237_1(EU546237|pid:none) Simarouba berteroana voucher WT 14...    34   4.4
CP001130_1319(CP001130|pid:none) Hydrogenobaculum sp. Y04AAS1, c...    34   4.4
EU042882_1(EU042882|pid:none) Samadera indica voucher JTH 138 tr...    34   4.4
AM746676_4872(AM746676|pid:none) Sorangium cellulosum 'So ce 56'...    34   4.4
AL031745_89(AL031745|pid:none) Plasmodium falciparum DNA from MA...    33   5.7
EU042885_1(EU042885|pid:none) Simaba glabra voucher Ratter et al...    33   7.5
CU633865_269(CU633865|pid:none) Podospora anserina genomic DNA c...    33   9.8

 psg: 0.75  gvh: 0.33  alm: 0.51  top: 0.53  tms: 0.00  mit: 0.14  mip: 0.00
 nuc: 0.00  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 

	 44.0 %: nuclear
	 28.0 %: cytoplasmic
	 12.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for SHA665 is nuc

>SHA665Z.Seq
NNNNNNNNNNCAATGGGTGCTCAACATTGGGAGAGTGGTTTAGATCCATCAAGTTTACAA
AAACAAAATGAAATTAATCCACCAATTTCCGTTCGTTCCAATGTCGTTTTCTTTGAACCA
TACTTGGCCGGTGAACCAGGCAGACACAAGGCATGTTGGAATCTCCTCGAACCAATGCAT
AGAAACTACTACCAACCAATCCAATTCAAATTACCATCATTCCCAGACACTTCATTACCA
ATCACACAAATCGATGATAAAACCGGTATCTTTGATTCTCAACGTTTCCTCGCATTCAAT
AATCCACAAGCCATGAGTAAATATGAATCCTATCGTATCTACATTCATCCTTCACTCGGT
TACAGTGGTAATGCAAAGAGATTCAAACAACAACCAGATGTCAATGAGAAAGCTTTGATT
TTGGATGGCAATGTCTACGATGGACATTTAAATCCAATTTACAACTGTAAAATCTGTACC
GAATATTATCAAACCAAATCTTACTTTTCCGCTAATCCACATGCAAAAGGTAAAGTTCTT
TTGGTCAAAAATAACATATTAACTCGTGTCAAAGATGGTGGTTTCACTCTCTCCTTAAAG
CCAATGTGTTGCAGTGGTCATAACTCTCATATCCCACTCTACTTTCACTTNACCCTTACA
AATCCACTCACAAATG