>AHB142 (AHB142Q) /CSM/AH/AHB1-B/AHB142Q.Seq.d/
XXXXXXXXXXTATATGTCAAATTACATCAGCATTAAAGACAATTCATTCAGCAGGATTAG
TTTGTCGTGTAATTCATCCAAGTAAGATATTATTAACTGGAAAGAATAGGATTCGAATGA
ATGGTGTTGGTATATTTGATGTGGTGAATTTCGATACTCCACGTATTTTAGCACAGTATC
AACATGAAGATCTATTGTTATTTGGTAGATTAATATTGACATTGGCATGTAGATCCGCTC
AATCAACTACTACTACCAATCTTTCGAAATCAATCGAATATGTATCAAATCAGTATAGTA
AAGAATTGTATAATCTAATTGTATATCTATTAACCAAACCAGTTATAAACCTACCAAATA
TCGATGAAGTGGTGTTGATGATTAGTGGAAGACTTTTGCAAGAGAATAATTATCTTCATA
CCTACACTGATGACCTCGAGACTGAACTCTCTAAAGAATATGAGAATGGTCGTCTCTTTA
GATTGGTTACAAAGTTGGGTTTCATCAATGAACGTCCACTCTATGATATGGATCCACGTT
GGTCTGAAACTGGTGATAGGTATCTAATCAAATTGTTTCGTGACTACATCTTTCATCAAG
TCTACGATGATGGTACTCCTGTGCTCGACTTTTACCATGTTGTTGAAACCCTCAATAAAT
TGGATTGTGGTGTCGATGAAAAAATACTTTTAATGTCTA

---ICQITSALKTIHSAGLVCRVIHPSKILLTGKNRIRMNGVGIFDVVNFDTPRILAQYQ
HEDLLLFGRLILTLACRSAQSTTTTNLSKSIEYVSNQYSKELYNLIVYLLTKPVINLPNI
DEVVLMISGRLLQENNYLHTYTDDLETELSKEYENGRLFRLVTKLGFINERPLYDMDPRW
SETGDRYLIKLFRDYIFHQVYDDGTPVLDFYHVVETLNKLDCGVDEKILLMS

Frame A:
---ICQITSALKTIHSAGLVCRVIHPSKILLTGKNRIRMNGVGIFDVVNFDTPRILAQYQ
HEDLLLFGRLILTLACRSAQSTTTTNLSKSIEYVSNQYSKELYNLIVYLLTKPVINLPNI
DEVVLMISGRLLQENNYLHTYTDDLETELSKEYENGRLFRLVTKLGFINERPLYDMDPRW
SETGDRYLIKLFRDYIFHQVYDDGTPVLDFYHVVETLNKLDCGVDEKILLMS


Frame B:
---yvklhqh*rqfiqqd*fvv*fiqvryy*lerigfe*mvlvylmw*isilhvf*hsin
mkiycylvd*y*hwhvdplnqlllpifrnqsnmyqisivkncii*lyiy*pnql*tyqis
mkwc**lvedfckriiifiptlmtsrlnslknmrmvvsldwlqswvssmnvhsmiwihvg
lklvigi*sncfvttsfikstmmvllcstftmllkpsinwivvsmkkyf*cl


Frame C:
---msnyisikdnsfsrislscnssk*diinwke*dsnewcwyi*cgefrystyfstvst
*rsiviw*inidigm*irsinyyyqsfeinriciksv**riv*sncisinqtsykptkyr
*sgvdd*wktfare*lssylh**prd*tl*ri*ewssl*igykvgfhq*tstl*ygstlv
*nw**vsnqivs*lhlssslr*wyscarllpcc*npq*iglwcr*kntfnv

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHL362 (CHL362Q) /CSM/CH/CHL3-C/CHL362Q.Seq.d/                       1366   0.0
AHB142 (AHB142Q) /CSM/AH/AHB1-B/AHB142Q.Seq.d/                       1366   0.0
SHE679 (SHE679Q) /CSM/SH/SHE6-D/SHE679Q.Seq.d/                       1289   0.0
CHP878 (CHP878Q) /CSM/CH/CHP8-D/CHP878Q.Seq.d/                       1237   0.0
CFH392 (CFH392Q) /CSM/CF/CFH3-D/CFH392Q.Seq.d/                       1223   0.0
VHM623 (VHM623Q) /CSM/VH/VHM6-A/VHM623Q.Seq.d/                       1199   0.0
CHR381 (CHR381Q) /CSM/CH/CHR3-D/CHR381Q.Seq.d/                       1189   0.0
CHO586 (CHO586Q) /CSM/CH/CHO5-D/CHO586Q.Seq.d/                       1114   0.0
VHJ326 (VHJ326Q) /CSM/VH/VHJ3-B/VHJ326Q.Seq.d/                       1053   0.0
AHG777 (AHG777Q) /CSM/AH/AHG7-D/AHG777Q.Seq.d/                        983   0.0

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

AC091646|AC091646.6 Homo sapiens chromosome 18, clone RP11-433A23, complete sequence.    46   0.63   1
AC096865|AC096865.2 Homo sapiens chromosome 18 clone RP11-600G22, complete sequence.    46   0.63   1
AC079259|AC079259.3 Homo sapiens chromosome 18 clone RP11-433A23, WORKING DRAFT SEQUENCE, 28 unordered pieces.    46   0.63   1
AX707901|AX707901.1 Sequence 669 from Patent WO03013536.           34   2.0    6
AX706971|AX706971.1 Sequence 669 from Patent WO03013534.           34   2.0    6
AC025277|AC025277.9 Homo sapiens chromosome 16 clone CTD-3229J4, complete sequence.    34   2.0    6
BH493347|BH493347.1 BOHQC19TR BOHQ Brassica oleracea genomic clone BOHQC19, DNA sequence.    34   4.0    2
AC095072|AC095072.9 Rattus norvegicus clone CH230-7D13, *** SEQUENCING IN PROGRESS ***, 7 unordered pieces.    38   6.9    5
CF293582|CF293582.1 30DGS--02-N04.g1 Rice leaf plasmid cDNA library I (30DGS) Oryza sativa cDNA clone 30DGS--02-N04, mRNA sequence.    32   7.2    3
AC135606|AC135606.11 Medicago truncatula clone mth2-10j1, WORKING DRAFT SEQUENCE, 3 ordered pieces.    38   7.9    5

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BC128180_1(BC128180|pid:none) Homo sapiens PAN3 polyA specific r...   233   3e-60
BC128179_1(BC128179|pid:none) Homo sapiens PAN3 polyA specific r...   233   3e-60
AB109552_1(AB109552|pid:none) Homo sapiens PAN3b mRNA for PABP1-...   233   3e-60
(Q5T516) RecName: Full=PAB-dependent poly(A)-specific ribonuclea...   233   3e-60
(Q640Q5) RecName: Full=PAB-dependent poly(A)-specific ribonuclea...   231   2e-59
BC082547_1(BC082547|pid:none) Mus musculus PAN3 polyA specific r...   231   2e-59
BC086321_1(BC086321|pid:none) Mus musculus PAN3 polyA specific r...   231   2e-59
(Q5BFB1) RecName: Full=PAB-dependent poly(A)-specific ribonuclea...   209   5e-53
(Q2U0M4) RecName: Full=PAB-dependent poly(A)-specific ribonuclea...   209   5e-53
BX649607_69(BX649607|pid:none) Aspergillus fumigatus BAC pilot p...   208   1e-52

 psg: 0.87  gvh: 0.44  alm: 0.40  top: 0.67  tms: 0.00  mit: 0.36  mip: 0.07
 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 

	 36.0 %: mitochondrial
	 32.0 %: nuclear
	 24.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: endoplasmic reticulum

>> prediction for AHB142 is mit

>AHB142Z.Seq
NNNNNNNNNNTATATGTCAAATTACATCAGCATTAAAGACAATTCATTCAGCAGGATTAG
TTTGTCGTGTAATTCATCCAAGTAAGATATTATTAACTGGAAAGAATAGGATTCGAATGA
ATGGTGTTGGTATATTTGATGTGGTGAATTTCGATACTCCACGTATTTTAGCACAGTATC
AACATGAAGATCTATTGTTATTTGGTAGATTAATATTGACATTGGCATGTAGATCCGCTC
AATCAACTACTACTACCAATCTTTCGAAATCAATCGAATATGTATCAAATCAGTATAGTA
AAGAATTGTATAATCTAATTGTATATCTATTAACCAAACCAGTTATAAACCTACCAAATA
TCGATGAAGTGGTGTTGATGATTAGTGGAAGACTTTTGCAAGAGAATAATTATCTTCATA
CCTACACTGATGACCTCGAGACTGAACTCTCTAAAGAATATGAGAATGGTCGTCTCTTTA
GATTGGTTACAAAGTTGGGTTTCATCAATGAACGTCCACTCTATGATATGGATCCACGTT
GGTCTGAAACTGGTGATAGGTATCTAATCAAATTGTTTCGTGACTACATCTTTCATCAAG
TCTACGATGATGGTACTCCTGTGCTCGACTTTTACCATGTTGTTGAAACCCTCAATAAAT
TGGATTGTGGTGTCGATGAAAAAATACTTTTAATGTCTA