>CHS476 (CHS476Q) /CSM/CH/CHS4-D/CHS476Q.Seq.d/
XXXXXXXXXXTTTGATGACGTAATGTTCTNATATGGTTCAATTTGTATGGAACCCTTAGG
TCAAATGGATGTATTCAAAAATGGAAAACTAGAAAATGGTGACCCAACTCAATCAGTTGC
CAATGTTAATTTCGATTCAGTTGCAATGAAATATAAAGGTAAAGCAACCATTGAATATCA
AATTGAAAATGTCAATAGATTACAATTAAACTTTATGAATGGTAGTATTGGTATAGATGA
ATATGATGGTATGATTTTCAATATGTTTTATTACCCAGACAATGCATACATTTATCAAGG
TCAAGAAGATCTAGAAGCATCACAACACACATACCAAAGACCATTAGATTGTAAAATTTG
TTTATTAAATGAAGNTGGTACTGGTGAATTCCCATGTTTATCACTCTCTGAATATGTTGG
TGGAATCTTCCCAAGTAATAAATGGATTCAATTAAGTATACCATGGAATGATTTAGCCGT
TGATTTCTATGGTGCTCATGTTGGTGGTGTTATAATTAAAACTGATTTAGGTGGTATTCA
TCAAGGTACACTTTATATTAGTCAAATTTCAGCTGCAAAATATAAACCACCTCATGTTGA
TGATGATTCTTCAAATTCTTTCAAATTATTACCAACAACAACAAATTTAATTTCAATTTT
ATTAATTTCATTTTATTTTNTTATTCATTTTTTAAATTAAAATAAAAATAT

---DDVMFXYGSICMEPLGQMDVFKNGKLENGDPTQSVANVNFDSVAMKYKGKATIEYQI
ENVNRLQLNFMNGSIGIDEYDGMIFNMFYYPDNAYIYQGQEDLEASQHTYQRPLDCKICL
LNEXGTGEFPCLSLSEYVGGIFPSNKWIQLSIPWNDLAVDFYGAHVGGVIIKTDLGGIHQ
GTLYISQISAAKYKPPHVDDDSSNSFKLLPTTTNLISILLISFYFXIHFLN*nkn

Frame A:
---lmt*csxmvqfvwnp*vkwmyskmen*kmvtqlnqlpmlisiqlq*nikvkqplnik
lkmsidyn*tl*mvvlv*mnmmv*fsicfitqtmhtfikvkki*khhnthtkdh*ivkfv
y*mkxvlvnshvyhslnmlvessqvingfn*vyhgmi*plismvlmlvvl*lkli*vvfi
kvhfilvkfqlqninhlmlmmilqilsnyyqqqqi*fqfy*fhfixlfif*ikiki


Frame B:
---**rnvliwfnlygtlrsngciqkwktrkw*pnsiscqc*frfscnei*r*snh*isn
*kcq*itiklyew*ywyr*i*wydfqyvllprqcihlsrsrrsrsitthipktirl*nlf
ik*xwyw*ipmfitl*icwwnlpk**mdsikytme*fsr*flwcscwwcyn*n*frwyss
rytly*snfscki*ttsc***ffkffqiitnnnkfnfnfinfilfxysffklk*ky


Frame C:
---DDVMFXYGSICMEPLGQMDVFKNGKLENGDPTQSVANVNFDSVAMKYKGKATIEYQI
ENVNRLQLNFMNGSIGIDEYDGMIFNMFYYPDNAYIYQGQEDLEASQHTYQRPLDCKICL
LNEXGTGEFPCLSLSEYVGGIFPSNKWIQLSIPWNDLAVDFYGAHVGGVIIKTDLGGIHQ
GTLYISQISAAKYKPPHVDDDSSNSFKLLPTTTNLISILLISFYFXIHFLN*nkn

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHS476 (CHS476Q) /CSM/CH/CHS4-D/CHS476Q.Seq.d/                       1243   0.0
CHM640 (CHM640Q) /CSM/CH/CHM6-B/CHM640Q.Seq.d/                       1221   0.0
CHO283 (CHO283Q) /CSM/CH/CHO2-D/CHO283Q.Seq.d/                       1199   0.0
CHR711 (CHR711Q) /CSM/CH/CHR7-A/CHR711Q.Seq.d/                       1134   0.0
CHF494 (CHF494Q) /CSM/CH/CHF4-D/CHF494Q.Seq.d/                       1108   0.0
CHF885 (CHF885Q) /CSM/CH/CHF8-D/CHF885Q.Seq.d/                        963   0.0
CHN188 (CHN188Q) /CSM/CH/CHN1-D/CHN188Q.Seq.d/                        462   e-129
CHQ394 (CHQ394Q) /CSM/CH/CHQ3-D/CHQ394Q.Seq.d/                         44   0.003
CHQ303 (CHQ303Q) /CSM/CH/CHQ3-A/CHQ303Q.Seq.d/                         44   0.003
CHN695 (CHN695Q) /CSM/CH/CHN6-D/CHN695Q.Seq.d/                         44   0.003

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

AC105806|AC105806.4 Rattus norvegicus clone CH230-70H7, *** SEQUENCING IN PROGRESS ***.    42   0.11   4
BV347128|BV347128.1 S230P6435RG8.T0 Rottweiler Canis familiaris STS genomic, sequence tagged site.    32   0.14   3
AP007416|AP007416.1 Lotus corniculatus var. japonicus genomic DNA, chromosome 1, clone:LjT04O21, TM0534.    36   0.15   2
AC129881|AC129881.20 Papio anubis clone rp41-136c24, complete sequence.    48   0.25   1
AE017195|AE017195.1 Bacillus cereus ATCC 10987 plasmid pBc10987, complete sequence.    36   0.31   8
AC006279|AC006279.8 Plasmodium falciparum chromosome 12 clone 3D7, *** SEQUENCING IN PROGRESS ***, 5 unordered pieces.    36   0.73   8
AC116920|AC116920.3 Dictyostelium discoideum chromosome 2 map 4415041-4520361 strain AX4, complete sequence.    36   0.95   5
CO510911|CO510911.1 tai56h06.x1 Hydra EST UCI 5 ALP Hydra magnipapillata cDNA 3' similar to TR:Q9R0A8 Q9R0A8 HYPOTHETICAL 31.5 KD PROTEIN. ;, mRNA sequence.    46   1.00   1
CA763502|RPOD_ORYSA DNA-DIRECTED RNA POLYMERASE B, mRNA sequence.    46   1.00   1
AC063940|AC063940.8 Homo sapiens chromosome 8 clone RP11-320N22, WORKING DRAFT SEQUENCE, 50 unordered pieces.    46   1.00   1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q8T6B9) RecName: Full=Poly(U)-binding-splicing factor half pint...    34   4.9
AF479079_1(AF479079|pid:none) Drosophila melanogaster half pint ...    34   4.9
AE014296_277(AE014296|pid:none) Drosophila melanogaster chromoso...    34   4.9
CR857074_1(CR857074|pid:none) Pongo abelii mRNA; cDNA DKFZp468L0...    33   6.4
BC071467_1(BC071467|pid:none) Danio rerio poly-U binding splicin...    33   6.4
AE004439_1717(AE004439|pid:none) Pasteurella multocida subsp. mu...    33   6.4
(Q9UHX1) RecName: Full=Poly(U)-binding-splicing factor PUF60; Al...    33   6.4
BC011265_1(BC011265|pid:none) Homo sapiens poly-U binding splici...    33   6.4
BC009734_1(BC009734|pid:none) Homo sapiens poly-U binding splici...    33   6.4
AF165892_1(AF165892|pid:none) Rattus norvegicus RNA-binding prot...    33   6.4

 psg: 0.75  gvh: 0.32  alm: 0.31  top: 0.60  tms: 0.07  mit: 0.13  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: 1.00  tyr: 0.00  leu: 0.05  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: 1.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 20.0 %: cytoplasmic
	 16.0 %: nuclear
	 16.0 %: vesicles of secretory system
	 12.0 %: endoplasmic reticulum
	  8.0 %: Golgi
	  8.0 %: mitochondrial
	  8.0 %: plasma membrane
	  4.0 %: extracellular, including cell wall
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar

>> prediction for CHS476 is cyt

>CHS476Z.Seq
NNNNNNNNNNTTTGATGACGTAATGTTCTNATATGGTTCAATTTGTATGGAACCCTTAGG
TCAAATGGATGTATTCAAAAATGGAAAACTAGAAAATGGTGACCCAACTCAATCAGTTGC
CAATGTTAATTTCGATTCAGTTGCAATGAAATATAAAGGTAAAGCAACCATTGAATATCA
AATTGAAAATGTCAATAGATTACAATTAAACTTTATGAATGGTAGTATTGGTATAGATGA
ATATGATGGTATGATTTTCAATATGTTTTATTACCCAGACAATGCATACATTTATCAAGG
TCAAGAAGATCTAGAAGCATCACAACACACATACCAAAGACCATTAGATTGTAAAATTTG
TTTATTAAATGAAGNTGGTACTGGTGAATTCCCATGTTTATCACTCTCTGAATATGTTGG
TGGAATCTTCCCAAGTAATAAATGGATTCAATTAAGTATACCATGGAATGATTTAGCCGT
TGATTTCTATGGTGCTCATGTTGGTGGTGTTATAATTAAAACTGATTTAGGTGGTATTCA
TCAAGGTACACTTTATATTAGTCAAATTTCAGCTGCAAAATATAAACCACCTCATGTTGA
TGATGATTCTTCAAATTCTTTCAAATTATTACCAACAACAACAAATTTAATTTCAATTTT
ATTAATTTCATTTTATTTTNTTATTCATTTTTTAAATTAAAATAAAAATAT