>SHH587 (SHH587Q) /CSM/SH/SHH5-D/SHH587Q.Seq.d/
ATTCAACACCAACTCAAACTAGACATCATAGTGTATTATCAAGAAATCCATCATATACAT
CATTGAAAAGTTCAGGTGGATTTTCAAAACCATCACCATCATCATCAACATCGACACCAC
CATCAACATTTGCATCACCATTATCAATTGCTCAAACTTCATCAACCACCACTACCACTA
CTACCACCACCACCACTACATCTTCTTCTTCAACACCACCACCATTAAGAGCAAACAATT
CAACATCATCAACTCCATTAAATTCAAGTACAGGTATTAAACAAAGTGATATTGTAATTG
AAGGTAATTTAACAGAATTAATACCAGGTTTATTATGGAATTCAAATACAGAGAAATGGT
ATGTAGTTTCAGAGGGTATGCTTTATTCATACAAGAATAAATCATTGAAACAATTGGATC
CATTAGAGACTATTCATTTGGAGAAAGCAATCTCTGCACATAAAACCAAAGAAATTTTCA
CAATTCAAGGTTTTAGTTTCCAATTGTCAACACCAAATCGTATCATTCATTTATTAGCAA
AAACCAAAGAAGAACGTGGATCATGGTTATCAGTATTACGTCAAAATCTAAAGAGTXXXX
XXXXXX

STPTQTRHHSVLSRNPSYTSLKSSGGFSKPSPSSSTSTPPSTFASPLSIAQTSSTTTTTT
TTTTTTSSSSTPPPLRANNSTSSTPLNSSTGIKQSDIVIEGNLTELIPGLLWNSNTEKWY
VVSEGMLYSYKNKSLKQLDPLETIHLEKAISAHKTKEIFTIQGFSFQLSTPNRIIHLLAK
TKEERGSWLSVLRQNLK---

Frame A:
iqhqlkldiivyyqeihhihh*kvqvdfqnhhhhhqhrhhhqhlhhhyqllklhqpplpl
lpppplhlllqhhhh*eqtiqhhqlh*iqvqvlnkvil*lkvi*qn*yqvyygiqiqrng
m*fqrvcfihtrinh*nnwih*rlfiwrkqslhikpkkfsqfkvlvsncqhqivsfiy*q
kpkknvdhgyqyyvki*r---


Frame B:
fntnsn*ts*ciikksiiyiiekfrwifktitiiinidttinicitiincsnfinhhyhy
yhhhhyifffntttikskqfniinsikfkyry*tk*ycn*r*fnrintrfimefkyremv
csfrgyalfiqe*iietigsirdysfgesnlct*nqrnfhnsrf*fpivntksyhsfisk
nqrrtwimvisitskske---


Frame C:
STPTQTRHHSVLSRNPSYTSLKSSGGFSKPSPSSSTSTPPSTFASPLSIAQTSSTTTTTT
TTTTTTSSSSTPPPLRANNSTSSTPLNSSTGIKQSDIVIEGNLTELIPGLLWNSNTEKWY
VVSEGMLYSYKNKSLKQLDPLETIHLEKAISAHKTKEIFTIQGFSFQLSTPNRIIHLLAK
TKEERGSWLSVLRQNLK---

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHH587 (SHH587Q) /CSM/SH/SHH5-D/SHH587Q.Seq.d/                        737   0.0
CHP311 (CHP311Q) /CSM/CH/CHP3-A/CHP311Q.Seq.d/                        737   0.0
AHE147 (AHE147Q) /CSM/AH/AHE1-B/AHE147Q.Seq.d/                        737   0.0
SHK802 (SHK802Q) /CSM/SH/SHK8-A/SHK802Q.Seq.d/                        729   0.0
AHQ351 (AHQ351Q) /CSM/AH/AHQ3-C/AHQ351Q.Seq.d/                        644   0.0
SHJ849 (SHJ849Q) /CSM/SH/SHJ8-C/SHJ849Q.Seq.d/                        615   e-175
AHN174 (AHN174Q) /CSM/AH/AHN1-D/AHN174Q.Seq.d/                        555   e-157
AHM572 (AHM572Q) /CSM/AH/AHM5-C/AHM572Q.Seq.d/                        502   e-141
AHF158 (AHF158Q) /CSM/AH/AHF1-C/AHF158Q.Seq.d/                        325   4e-88
SHA181 (SHA181Q) /CSM/SH/SHA1-D/SHA181Q.Seq.d/                        319   3e-86

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

AJ427856|AJ427856.1 Dictyostelium discoideum ORF encoding villidin.   737   0.0    2
AC148477|AC148477.3 Homo sapiens 12 BAC RP13-895J2 (Roswell Park Cancer Institute Human BAC Library) complete sequence.    50   5e-05  2
AC177620|AC177620.1 Strongylocentrotus purpuratus clone R3-1020P15, WORKING DRAFT SEQUENCE, 19 unordered pieces.    58   2e-04  1
AC176618|AC176618.1 Strongylocentrotus purpuratus clone R3-3079N11, WORKING DRAFT SEQUENCE, 19 unordered pieces.    58   2e-04  1
AC111852|AC111852.3 Rattus norvegicus clone CH230-12H7, *** SEQUENCING IN PROGRESS ***, 10 unordered pieces.    46   7e-04  2
AC016765|AC016765.2 Homo sapiens chromosome 11 clone RP11-555F1, WORKING DRAFT SEQUENCE, 20 unordered pieces.    56   0.001  1
AC108448|AC108448.12 Homo sapiens chromosome 11, clone CTD-2544D21, complete sequence.    56   0.001  1
AC136285|AC136285.2 Homo sapiens chromosome 16 clone RP11-899L11, complete sequence.    42   0.003  2
AC174239|AC174239.2 Strongylocentrotus purpuratus clone R3-3038G23, *** SEQUENCING IN PROGRESS ***, 23 unordered pieces.    38   0.003  2
AC184324|AC184324.1 Strongylocentrotus purpuratus clone R3-1035K3, WORKING DRAFT SEQUENCE, 38 unordered pieces.    54   0.004  1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AJ427856_1(AJ427856|pid:none) Dictyostelium discoideum ORF encod...   251   1e-65
(Q8WQ85) RecName: Full=Villidin;                                      251   1e-65
AB005237_11(AB005237|pid:none) Arabidopsis thaliana genomic DNA,...    42   0.010
BX005083_7(BX005083|pid:none) Zebrafish DNA sequence from clone ...    42   0.013
EU974994_1(EU974994|pid:none) Zea mays clone 462458 pleckstrin h...    41   0.028
AC116982_55(AC116982|pid:none) Dictyostelium discoideum chromoso...    40   0.062
AK041359_1(AK041359|pid:none) Mus musculus 3 days neonate thymus...    39   0.081
AC135421_4(AC135421|pid:none) Oryza sativa (japonica cultivar-gr...    39   0.081
AL683884_10(AL683884|pid:none) Mouse DNA sequence from clone RP2...    39   0.081
AK072489_1(AK072489|pid:none) Oryza sativa Japonica Group cDNA c...    39   0.11

 psg: 0.58  gvh: 0.47  alm: 0.46  top: 0.53  tms: 0.00  mit: 0.99  mip: 0.13
 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 

	 76.0 %: mitochondrial
	 12.0 %: cytoplasmic
	  8.0 %: nuclear
	  4.0 %: cytoskeletal

>> prediction for SHH587 is mit

>SHH587F.Seq
ATTCAACACCAACTCAAACTAGACATCATAGTGTATTATCAAGAAATCCATCATATACAT
CATTGAAAAGTTCAGGTGGATTTTCAAAACCATCACCATCATCATCAACATCGACACCAC
CATCAACATTTGCATCACCATTATCAATTGCTCAAACTTCATCAACCACCACTACCACTA
CTACCACCACCACCACTACATCTTCTTCTTCAACACCACCACCATTAAGAGCAAACAATT
CAACATCATCAACTCCATTAAATTCAAGTACAGGTATTAAACAAAGTGATATTGTAATTG
AAGGTAATTTAACAGAATTAATACCAGGTTTATTATGGAATTCAAATACAGAGAAATGGT
ATGTAGTTTCAGAGGGTATGCTTTATTCATACAAGAATAAATCATTGAAACAATTGGATC
CATTAGAGACTATTCATTTGGAGAAAGCAATCTCTGCACATAAAACCAAAGAAATTTTCA
CAATTCAAGGTTTTAGTTTCCAATTGTCAACACCAAATCGTATCATTCATTTATTAGCAA
AAACCAAAGAAGAACGTGGATCATGGTTATCAGTATTACGTCAAAATCTAAAGAGTNNNN
NNNNNN