BioPerl
view release on metacpan or search on metacpan
Bio/Map/Clone.pm view on Meta::CPAN
sub new {
my ($class,@args) = @_;
my $self= $class->SUPER::new(@args);
my ($name,$markers,$contig,$type,$bands,$gel,$group,
$remark,$fpnumber,$seqtype,$seqstatus,$fpcremark,
$matche,$matcha,$matchp,
$range) = $self->_rearrange([qw(NAME MARKERS CONTIG TYPE
BANDS GEL GROUP REMARK FPNUMBER
SEQUENCETYPE SEQUENCESTATUS
FPCREMARK MATCHE MATCHA MATCHP
RANGE)],@args);
$self->name($name) if defined $name;
$self->markers($markers) if defined $markers;
$self->contigid($contig) if defined $contig;
$self->type($type) if defined $type;
$self->bands($bands) if defined $bands;
$self->gel($gel) if defined $gel;
$self->group($group) if defined $group;
Bio/Tools/Analysis/Protein/Sopma.pm view on Meta::CPAN
sub result {
my ($self,$value, $run_id) = @_;
my @score;
my @fts;
if ($value ) {
if (!exists($self->{'_parsed'} )) {
my $result = IO::String->new($self->{'_result'});
while (my $line = <$result>) {
next unless $line =~ /^[HCET]\s/; # or for sopma/hnn /^[A-Z]\s/
$line =~/^([A-Z])\s+(\d+)\s+(\d+)\s+(\d+)\s+(\d+)/; # or for so
push @score, { struc => $1,
helix => $2,
sheet => $3,
coil => $5,
};
#include turn if 4states are requested
$score[$#score]{'turn'} = $4 if $self->states == 4;
#can optimize by duplicating code here
}
Bio/Tools/EMBOSS/Palindrome.pm view on Meta::CPAN
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _
=cut
# Let the code begin...
package Bio::Tools::EMBOSS::Palindrome;
use vars qw($DEFAULT_SOURCETAG);
use strict;
use Bio::SeqFeature::FeaturePair;
use Bio::SeqFeature::Generic;
use base qw(Bio::Root::IO);
$DEFAULT_SOURCETAG = 'palindrome';
=head2 new
Title : new
Usage : my $obj = Bio::Tools::EMBOSS::Palindrome->new();
Function: Builds a new Bio::Tools::EMBOSS::Palindrome object
Returns : an instance of Bio::Tools::EMBOSS::Palindrome
Args : -file/-fh => a filename or filehandle for
initializing the parser
Bio/Tools/EMBOSS/Palindrome.pm view on Meta::CPAN
Returns : value of source_tag (a scalar)
Args : on set, new value (a scalar or undef, optional)
=cut
sub source_tag{
my $self = shift;
return $self->{'source_tag'} = shift if @_;
return $self->{'source_tag'} || $DEFAULT_SOURCETAG;
}
1;
t/data/1A11.pdb view on Meta::CPAN
HEADER ACETYLCHOLINE RECEPTOR 19-DEC-97 1A11
TITLE NMR STRUCTURE OF MEMBRANE SPANNING SEGMENT 2 OF THE
TITLE 2 ACETYLCHOLINE RECEPTOR IN DPC MICELLES, 10 STRUCTURES
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: ACETYLCHOLINE RECEPTOR M2;
COMPND 3 CHAIN: NULL;
COMPND 4 SYNONYM: ACHR M2;
COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS;
SOURCE 3 ORGANISM_COMMON: RAT;
SOURCE 4 ORGAN: BRAIN;
SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21;
SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PGEX FUSION
KEYWDS ACETYLCHOLINE RECEPTOR, M2, MICELLE
EXPDTA NMR, 10 STRUCTURES
AUTHOR J.J.GESELL,W.SUN,M.MONTAL,S.J.OPELLA
REVDAT 1 08-APR-98 1A11 0
JRNL AUTH S.J.OPELLA,J.GESELL,A.P.VALENTE,F.M.MARASSI,
JRNL AUTH 2 M.OBLATT-MONTAL,W.SUN,A.FERRER-MONTIEL,M.MONTAL
JRNL TITL STRUCTURAL STUDIES OF THE PORE-LINING SEGMENTS OF
JRNL TITL 2 NEUROTRANSMITTER-GATED CHANNELS
JRNL REF CHEMTRACTS: BIOCHEM.MOL. V. 10 153 1997
JRNL REF 2 BIOL.
JRNL REFN ASTM CMBIE5 US ISSN 1045-2680 2176
t/data/1A3I.pdb view on Meta::CPAN
REMARK 200 SOFTWARE USED: LALS
REMARK 200 STARTING MODEL: IDEALIZED SEVEN-FOLD TRIPLE-HELIX
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): NULL
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: PEPTIDE WAS CRYSTALLIZED FROM
REMARK 280 4.0 MG/ML PEPTIDE IN 10% ACETIC ACID, 0.1% SODIUM AZIDE,
REMARK 280 AND 3.0% PEG400.
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 1/2-X,-Y,1/2+Z
REMARK 290 3555 -X,1/2+Y,1/2-Z
t/data/1A3I.pdb view on Meta::CPAN
REMARK 900 RELATED ENTRIES
REMARK 900 THIS ENTRY IS RELATED TO PDB ENTRY 1A3J.
DBREF 1A3I A 1 9 PDB 1A3I 1A3I 1 9
DBREF 1A3I B 31 36 PDB 1A3I 1A3I 31 36
DBREF 1A3I C 61 66 PDB 1A3I 1A3I 61 66
SEQRES 1 A 9 PRO PRO GLY PRO PRO GLY PRO PRO GLY
SEQRES 1 B 6 PRO PRO GLY PRO PRO GLY
SEQRES 1 C 6 PRO PRO GLY PRO PRO GLY
HET ACY 401 4
HET ACY 402 4
HETNAM ACY ACETIC ACID
FORMUL 4 ACY 2(C2 H4 O2)
FORMUL 5 HOH *37(H2 O1)
LINK N PRO C 61 C GLY A 9 1556
LINK N PRO A 1 C GLY B 36 1556
LINK N PRO B 31 C GLY C 66 1556
CRYST1 26.820 26.290 20.180 90.00 90.00 90.00 P 21 21 21 4
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 0.037286 0.000000 0.000000 0.00000
t/data/AE003644_Adh-genomic.gb view on Meta::CPAN
LYDDGELTYSVDDYPETIPQACVDMTKVLEVTSAVEVTGHPNSIAITAPERVTFVKGT
SSEESQWWLNILAAFPKSKGRHKRSATLPGGQVVGSLRPTSNGDLTLSTKLGNRHSSY
HKDTLTSSQSAGNLLSSLDLGPSSTKTAGSPLTTTQSALADDEEDDGVETGEDVDEDE
EDETSVPRKSKTVSMGGQDENNRNAGNEITNRVSQPTTCLLIEDIRRDEKTIKDIANT
ITNLSQQQNKRWSTAVNNALNNQHHFGHHSQYQVTSRDETDFQMSSNSSSTKSQNPAS
ERPKSLPLASNSTPAIVSAIVKKIPTVMEQGDKTKPTARLQLHLKSPKHYQHERGDPD
GGCNLDELCVNYMAKTDELRSVGKANSKSSSGQGKPPVKEESLNAKKGWLMKQDNRTC
EWSKHWFTLSGAALFYYRDPLCEERGVLDGVLDVNSLTSVIPEPAASKQHAFQLTTWD
KQRLVLASLSPSSRNSWLAVLRSAAGLPQLDTPPKQTDIEQDFIKAQLQQPSSSPVTP
GTPAGPHFSSDEEYRTASEGGRRDSLDWGSPLSPSPPVLRSCLRNRSLASLHKRSRSS
PPSSRRSTVDSVASDELPLLVVPEEMQPTESRELKQQCETLRAEASLREARMSELLAT
LQRTEQQLTARLQEQQQQLNSELTQAKQSASDLMHNLGMQLTESQCQIKQLEDRLAQG
IEENEGLYKRLRELQAQDHSGGAALSNLQRHKIKRMDSLSDLTTISDIDPYCLQRDSL
AEEYNELRSRFEKAVNEIRAMKRELKQSQNQYDALELAQAALQQKLERRQHEDGAQLQ
LMAARIQDLTLKYSSSERQVRALKQKLAKSERRRSLSLKGKEQLELKLSELQRETVER
KEGTPPESSSSESSSQSPLNAHLLQRLHSLEHVLLGSKERLEQSLTQLQQIRAGQRTR
RSVSPMNDRKDGLRQLERALAETCVMVSEQMELTCLQDSCHKCCDLRQRVEKLSALQQ
QTETDLQRSEQLLEQRETDLAQALEKCASQEQEQELLLQQRQELSEELGRQQERCRRL
EKRLELLEREHGKQLECLREVYHTEHANAADEQSFRKRYQTEIEQLRTLCEKGLSAME
TSHKRLTMDLEQKHKMEIERLLAEKETALAEETQATLAALDAMRKAHQSEVQREVARF
KQEFLRQVQRGEQMRGDGAKLKEEDLGELRMEILAFSEKYSIKCVENAALEEKLHMAN
t/data/ATF14F8.gbk view on Meta::CPAN
gene 91899..93075
/gene="F14F8_230"
CDS complement(join(91899..92249,92359..93075))
/gene="F14F8_230"
/codon_start=1
/product="CONSTANS-like 1"
/protein_id="CAC01784.1"
/db_xref="GI:9755630"
/translation="MLKVESNWAQACDTCRSAACTVYCRADSAYLCSSCDAQVHAANR
LASRHERVRVCQSCERAPAAFFCKADAASLCTTCDSEIHSANPLARRHQRVPILPISE
YSYSSTATNHSCETTVTDPENRLVLGQEEEDEDEAEAASWLLPNSGKNSGNNNGFSIG
DEFLNLVDYSSSDKQFTDQSNQYQLDCNVPQRSYGEDGVVPLQIEVSKGMYQEQQNFQ
LSINCGSWGALRSSNGSLSHMVNVSSMDLGVVPESTTSDATVSNPRSPKAVTDQPPYP
PAQMLSPRDREARVLRYREKKKMRKFEKTIRYASRKAYAEKRPRIKGRFAKKKDVDEE
ANQAFSTMITFDTGYGIVPSF"
intron complement(92250..92358)
/gene="F14F8_230"
/number=1
exon complement(92359..93075)
/gene="F14F8_230"
/number=2
t/data/bug2942.blastx view on Meta::CPAN
-2 0 4866 4254 9.9 47 5 n/a 10 0.0061 47
44 0.21 40
-3 0 4866 4240 9.9 47 5 n/a 10 0.0061 47
44 0.21 40
Statistics:
Database: UNIPROT_B9GCX0
Title: UNIPROT_B9GCX0
Posted: 3:30:56 PM CET Oct 29, 2009
Created: 3:30:56 PM CET Oct 29, 2009
Format: XDF-1
# of letters in database: 3829
# of sequences in database: 1
# of database sequences satisfying E: 1
No. of states in DFA: 32,067 (6765 KB)
Total size of DFA: 7905 KB (8709 KB)
Time to generate neighborhood: 0.03u 0.01s 0.04t Elapsed: 00:00:00
No. of threads or processors used: 1
Search cpu time: 0.00u 0.01s 0.01t Elapsed: 00:00:00
Total cpu time: 0.03u 0.03s 0.06t Elapsed: 00:00:00
t/data/calm.swiss view on Meta::CPAN
GN Name=CALM1; Synonyms=CAM1, CALM, CAM;
GN and
GN Name=CALM2; Synonyms=CAM2, CAMB;
GN and
GN Name=CALM3; Synonyms=CAM3, CAMC;
OS Homo sapiens (Human).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Mammalia; Eutheria; Primates; Catarrhini; Hominidae; Homo.
OX NCBI_TaxID=9606;
RN [1]
RP SEQUENCE, ACETYLATION SITE ALA-1, AND METHYLATION SITE LYS-115.
RC TISSUE=Brain;
RX MEDLINE=82231946; PubMed=7093203;
RA Sasagawa T., Ericsson L.H., Walsh K.A., Schreiber W.E., Fischer E.H.,
RA Titani K.;
RT "Complete amino acid sequence of human brain calmodulin.";
RL Biochemistry 21:2565-2569(1982).
RN [2]
RP SEQUENCE FROM N.A.
RX MEDLINE=89034207; PubMed=3182832;
RA Fischer R., Koller M., Flura M., Mathews S., Strehler-Page M.A.,
t/data/dcr1_sp.WUBLASTP view on Meta::CPAN
Query: 687 LSAKEIPKIPPFPVFLRQGNMKVRLIVAPKKT--TVTAAQLQEIQLFHNYLFTQV 739
L+ +++P P FP++L + +++ +++ T ++A +L+ + F +F V
Sbjct: 797 LTREKLPDFPAFPIYLDE-DIETKVVPRSLDTGMELSAEELRALTTFTLRIFRDV 850
Score = 45 (20.9 bits), Expect = 4.1e-54, Sum P(3) = 4.1e-54
Identities = 39/168 (23%), Positives = 66/168 (39%)
Links = 1-(6)-2
Query: 1232 QENQEDENTPTNFPKTIDEEIEELSIGARKKQEID-----DNAAKTDVLERENCEVL--- 1283
+E +E E T NF +T+ E+ + G ++D + +T ++ +
Sbjct: 592 REVREAEKTMQNFCETLPED--RILHG--NDHDLDSLLQHEEGRRTFTVKSTGARLTYHS 647
Query: 1284 PVAINEK-SRSFSFEKESKAINGRLIRQRSEEYVSHI----DSDI-GLGVSPCLLLTALT 1337
+AI + + S +EKE+ +++ YV + S I GL SP + +
Sbjct: 648 AIAILARYASSLQYEKETTPQATYVVQSVGNTYVCEVILPEKSPIRGLTGSPAIRKSIAK 707
Query: 1338 TSNAADGMSLERFETIGDSFLKFATTDYLYHTLLD-QHEGKLSFARSK 1384
S A D L R + D F K +YH L KL+ K
Sbjct: 708 QSAAFDTCLLLRRHKLLDDFFKS-----IYHKRLPAMRNAKLAITSKK 750
Score = 44 (20.5 bits), Expect = 1.2e-60, Sum P(6) = 1.2e-60
t/data/dcr1_sp.WUBLASTP view on Meta::CPAN
Query: 987 E 987
E
Sbjct: 1069 E 1069
Score = 39 (18.8 bits), Expect = 6.9e-58, Sum P(4) = 6.9e-58
Identities = 19/76 (25%), Positives = 31/76 (40%)
Links = 1-(8)-3-2
Query: 933 LMDIHPISATLWNVIAALPS--IFYR----VNQLLLTDELRETILVKAFGKEKTKLDDNV 986
L ++ T+ N LP I + ++ LL +E R T VK+ G T
Sbjct: 591 LREVREAEKTMQNFCETLPEDRILHGNDHDLDSLLQHEEGRRTFTVKSTGARLTYHSAIA 650
Query: 987 EWNSLAYATEYEEKQT 1002
A + +YE++ T
Sbjct: 651 ILARYASSLQYEKETT 666
>sp|A1DE13.1|DCL1_NEOFI RecName: Full=Dicer-like protein 1; Includes: RecName:
Full=Endoribonuclease dcl1; Includes: RecName: Full=ATP-dependent
helicase dcl1
Length = 1538
t/data/dcr1_sp.WUBLASTP view on Meta::CPAN
Query: 367 TFNPEFQKERMKLEKA-EH---LSAIIFVDQRYIAYSLLLMMRHIKSWEPKFKFVNPDYV 422
+P+ Q R KL K EH I+F +RY A L + ++ ++ P +
Sbjct: 437 ELSPKVQLLRQKLIKYFEHPTKTKCIVFTQKRYTAKMLFDLFSTLE-----IPYLRPGVL 491
Query: 423 VGASGRNLASSDSQGLHKRQTEVLRRFHRNEINCLIATSVLEEGVDVKQCNLVIKFDRPL 482
+G ++ + ++Q L +F EINCL ATSV EEG+D+ CNLV++FD
Sbjct: 492 IGVRSGDIVGMNVS--FRQQFLALVKFRSGEINCLFATSVAEEGLDIPDCNLVVRFDLYN 549
Query: 483 DMRSYVQSKGRARRAGSRYVITVEE--KDTAAY------CSKLPSDIFTRLVPHNQIIPI 534
+ YVQS+GRAR + S Y +E D AA KL F +P ++I+
Sbjct: 550 TLIQYVQSRGRARHSSSTYASMIERYNADHAARLVEVREAEKLMQS-FCETLPEDRIL-- 606
Query: 535 EENGVTKYCAELLLPINSPIKHAIVLKNPMPNKKTAQMAVALEA--CRQLHLEGELDDN- 591
+G+ +L K +++ K T A+A+ A L E E
Sbjct: 607 --HGIDSEIDSILQ--GEEEKRTFIIR-ATGAKLTYHSALAILARYASSLQYEKETSAQA 661
Query: 592 ---LLPKGRESIAKLLEHIDEEPDEYAPGI-AAKVGSSKRKQLYDKKIARALNESFVEAD 647
+LP+ + +++ ++ P G+ A+K ++K+ +D + L + + D
Sbjct: 662 TYVVLPQNNSFVCEVILP-EKSPVRGLTGVPASKKSAAKQSAAFDTCVL--LRKHKLLDD 718
Query: 648 KECFIYAFELERFREAELTLNPKR 671
t/data/echofilter.wublastn view on Meta::CPAN
+1 0 1936 1936 9.2 89 11 n/a 73 0.042 83
134 2.1 89
-1 0 1936 1936 9.2 89 11 n/a 73 0.042 83
134 2.1 89
Statistics:
Database: NM_003201.fa
Title: NM_003201.fa
Posted: 7:39:50 PM CET Nov 2, 2007
Created: 7:39:50 PM CET Nov 2, 2007
Format: XDF-1
# of letters in database: 1936
# of sequences in database: 1
# of database sequences satisfying E: 1
No. of states in DFA: 257 (257 KB)
Total size of DFA: 344 KB (2092 KB)
Time to generate neighborhood: 0.00u 0.00s 0.00t Elapsed: 00:00:00
No. of threads or processors used: 1
Search cpu time: 0.00u 0.01s 0.01t Elapsed: 00:00:00
Total cpu time: 0.00u 0.01s 0.01t Elapsed: 00:00:00
t/data/factor7.embl view on Meta::CPAN
FT gene 522..585
FT /gene="F7"
FT CDS join(522..585,1654..1719,4294..4454,6383..6407,6478..6591,
FT 8307..8447,9419..9528,10124..10247,11064..11659)
FT /codon_start=1
FT /db_xref="SWISS-PROT:P08709"
FT /note="factor VII"
FT /protein_id="AAA51983.1"
FT /translation="MVSQALRLLCLLLGLQGCLAAGGVAKASGGETRDMPWKPGPHRVF
FT VTQEEAHGVLHRRRRANAFLEELRPGSLERECKEEQCSFEEAREIFKDAERTKLFWISY
FT SDGDQCASSPCQNGGSCKDQLQSYICFCLPAFEGRNCETHKDDQLICVNENGGCEQYCS
FT DHTGTKRSCRCHEGYSLLADGVSCTPTVEYPCGKIPILEKRNASKPQGRIVGGKVCPKG
FT ECPWQVLLLVNGAQLCGGTLINTIWVVSAAHCFDKIKNWRNLIAVLGEHDLSEHDGDEQ
FT SRRVAQVIIPSTYVPGTTNHDIALLRLHQPVVLTDHVVPLCLPERTFSERTLAFVRFSL
FT VSGWGQLLDRGATALELMVLNVPRLMTQDCLQQSRKVGDSPNITEYMFCAGYSDGSKDS
FT CKGDSGGPHATHYRGTWYLTGIVSWGQGCATVGHFGVYTRVSQYIEWLQKLMRSEPRPG
FT VLLRAPFP"
FT intron 586..1653
FT /note="intron A1"
FT exon 1654..1719
FT /note="optional"
t/data/match.output view on Meta::CPAN
F$MATALPHA2_01 | 10420 (-) | 0.887 | 0.899 | tttaACACTa
F$MATALPHA2_01 | 10659 (+) | 0.916 | 0.915 | tAATGTcaac
F$MATALPHA2_01 | 10663 (-) | 0.950 | 0.932 | gtcaACAGGa
F$MATALPHA2_01 | 10700 (+) | 0.972 | 0.942 | cCGTGTttat
F$MATALPHA2_01 | 10756 (+) | 0.972 | 0.930 | cCGTGTgttt
F$MATALPHA2_01 | 10803 (+) | 0.950 | 0.918 | cCTTGTgcat
F$MATALPHA2_01 | 10888 (-) | 1.000 | 0.957 | ctgcACATGc
F$MATALPHA2_01 | 10934 (+) | 0.950 | 0.930 | tCTTGTggac
F$MATALPHA2_01 | 11336 (+) | 0.905 | 0.896 | cGATGTaaat
F$MATALPHA2_01 | 11762 (-) | 0.950 | 0.946 | gttaACAGGa
V$CETS1P54_01 | 609 (-) | 0.974 | 0.964 | aacaTCCTGt
V$CETS1P54_01 | 1458 (+) | 1.000 | 0.968 | gCCGGAcgtt
V$CETS1P54_01 | 4962 (+) | 0.974 | 0.973 | gCAGGAagtc
V$CETS1P54_01 | 7230 (+) | 0.974 | 0.972 | gCAGGAagtt
V$CETS1P54_01 | 9435 (+) | 0.974 | 0.967 | aCAGGAagcc
V$CETS1P54_01 | 9468 (+) | 0.974 | 0.964 | aCAGGAtgtt
V$CETS1P54_01 | 10257 (+) | 0.974 | 0.973 | gCAGGAagtg
V$P53_01 | 1 (-) | 0.785 | 0.632 | gttcatgcatgtaCAAGTac
V$P53_01 | 1626 (+) | 0.879 | 0.634 | caGCATGtccagcctttcct
V$P53_01 | 2971 (+) | 0.785 | 0.694 | gcAGATGcgcaggcatctac
V$P53_01 | 2971 (-) | 0.785 | 0.694 | gcagatgcgcaggCATCTac
V$P53_01 | 7991 (+) | 0.570 | 0.630 | ggACTTCactgtgcctgttg
V$P53_01 | 9385 (-) | 0.785 | 0.645 | tgtcagcccctggAATGTgg
V$VMAF_01 | 72 (+) | 0.874 | 0.700 | tgttGTTGAtgttgatagg
V$VMAF_01 | 78 (+) | 0.874 | 0.756 | tgatGTTGAtagggcctat
V$VMAF_01 | 128 (-) | 0.653 | 0.734 | aactgctcagTCAATccag
V$VMAF_01 | 295 (+) | 0.580 | 0.718 | ttttACAGActgagctatc
t/data/match.output view on Meta::CPAN
V$CP2_01 | 11580 (+) | 0.961 | 0.766 | cttataTCCAG
V$CP2_01 | 11793 (+) | 1.000 | 0.770 | acaaatCCCAG
V$DELTAEF1_01 | 374 (-) | 1.000 | 0.985 | tctAGGTGaga
V$DELTAEF1_01 | 1357 (+) | 1.000 | 0.987 | ggtCACCTgat
V$DELTAEF1_01 | 1392 (-) | 1.000 | 0.982 | ggcAGGTGagg
V$DELTAEF1_01 | 3290 (-) | 1.000 | 0.985 | atgAGGTGaac
V$DELTAEF1_01 | 6596 (-) | 1.000 | 0.985 | ataAGGTGgtg
V$DELTAEF1_01 | 7391 (-) | 1.000 | 0.980 | tccAGGTGgta
V$DELTAEF1_01 | 9613 (-) | 1.000 | 0.985 | ctgAGGTGgga
V$DELTAEF1_01 | 11960 (+) | 1.000 | 0.991 | ctgCACCTgag
V$CETS1P54_02 | 223 (-) | 0.993 | 0.965 | ttttTTCCTtttt
V$CETS1P54_02 | 326 (+) | 0.983 | 0.968 | gtgcTGGAAattc
V$CETS1P54_02 | 608 (-) | 0.971 | 0.972 | aaacATCCTgtcg
V$CETS1P54_02 | 766 (+) | 0.983 | 0.957 | cctcTGGAAgagt
V$CETS1P54_02 | 1558 (+) | 0.983 | 0.969 | cttcTGGAAatct
V$CETS1P54_02 | 1718 (-) | 1.000 | 0.966 | ccttTTCCGggct
V$CETS1P54_02 | 1737 (-) | 0.993 | 0.971 | gaacTTCCTatag
V$CETS1P54_02 | 1948 (+) | 0.983 | 0.960 | aggcTGGAActtt
V$CETS1P54_02 | 2159 (-) | 0.993 | 0.963 | cctcTTCCTttcc
V$CETS1P54_02 | 2203 (-) | 0.993 | 0.964 | tttcTTCCTttct
V$CETS1P54_02 | 2563 (-) | 1.000 | 0.977 | aaatTTCCGtaag
V$CETS1P54_02 | 2987 (-) | 1.000 | 0.979 | ctacTTCCGctcc
V$CETS1P54_02 | 3031 (-) | 1.000 | 0.977 | cgacTTCCGctcc
V$CETS1P54_02 | 3323 (-) | 0.993 | 0.965 | ccttTTCCTgatt
V$CETS1P54_02 | 3835 (-) | 0.983 | 0.971 | aaatTTCCAttct
V$CETS1P54_02 | 3852 (-) | 0.960 | 0.963 | aaatATCCAgtac
V$CETS1P54_02 | 4622 (-) | 0.971 | 0.960 | caatATCCTttgg
V$CETS1P54_02 | 4686 (+) | 0.993 | 0.959 | tggcAGGAAactt
V$CETS1P54_02 | 4960 (+) | 0.993 | 0.974 | cagcAGGAAgtca
V$CETS1P54_02 | 5119 (+) | 0.993 | 0.962 | caaaAGGAAacag
V$CETS1P54_02 | 5471 (-) | 0.993 | 0.980 | ctatTTCCTgatt
V$CETS1P54_02 | 5729 (+) | 0.983 | 0.963 | aaacTGGAAgcca
V$CETS1P54_02 | 6087 (-) | 0.993 | 0.982 | tgagTTCCTgtgt
V$CETS1P54_02 | 6459 (-) | 0.993 | 0.979 | ttatTTCCTgata
V$CETS1P54_02 | 7017 (-) | 0.993 | 0.958 | atgtTTCCTgcat
V$CETS1P54_02 | 7228 (+) | 0.993 | 0.978 | cagcAGGAAgttc
V$CETS1P54_02 | 7245 (+) | 0.993 | 0.965 | tctcAGGAAaaag
V$CETS1P54_02 | 8080 (-) | 0.993 | 0.971 | aaacTTCCTatac
V$CETS1P54_02 | 8157 (-) | 0.983 | 0.957 | tagcTTCCAgagg
V$CETS1P54_02 | 8909 (+) | 0.993 | 0.956 | attcAGGAAtact
V$CETS1P54_02 | 8992 (-) | 0.983 | 0.957 | ttaaTTCCAgcac
V$CETS1P54_02 | 9061 (-) | 0.983 | 0.960 | caagTTCCAggct
V$CETS1P54_02 | 9433 (+) | 0.993 | 0.971 | taacAGGAAgccc
V$CETS1P54_02 | 9466 (+) | 0.971 | 0.972 | gtacAGGATgttc
V$CETS1P54_02 | 9872 (+) | 0.993 | 0.961 | aatgAGGAAatca
V$CETS1P54_02 | 10255 (+) | 0.993 | 0.974 | gtgcAGGAAgtga
V$CETS1P54_02 | 10587 (-) | 0.993 | 0.971 | caatTTCCTatat
V$CETS1P54_02 | 10842 (+) | 0.993 | 0.960 | tcgcAGGAAgaag
V$CETS1P54_02 | 11269 (+) | 0.993 | 0.981 | gaaaAGGAAatta
V$GATA1_01 | 82 (+) | 1.000 | 0.990 | gttGATAGgg
V$GATA1_01 | 91 (-) | 1.000 | 0.990 | gcCTATCttc
V$GATA1_01 | 137 (-) | 0.997 | 0.982 | gtCAATCcag
V$GATA1_01 | 536 (+) | 0.993 | 0.989 | ggtGATGCgc
V$GATA1_01 | 608 (-) | 0.990 | 0.982 | aaACATCctg
V$GATA1_01 | 1113 (+) | 0.987 | 0.982 | gctGATTTgt
V$GATA1_01 | 1177 (+) | 1.000 | 0.995 | ggaGATGGgc
V$GATA1_01 | 1239 (-) | 0.990 | 0.983 | tgACATCagg
V$GATA1_01 | 1362 (+) | 0.993 | 0.988 | cctGATGCtc
V$GATA1_01 | 1668 (+) | 0.990 | 0.985 | ggaGATTCct
t/data/match.output view on Meta::CPAN
V$SMAD4_Q6 | 10637 (+) | 0.990 | 0.859 | ctgaggaAGACAccc
V$SMAD4_Q6 | 11179 (-) | 1.000 | 0.797 | tttTGGCTgccttgt
V$CIZ_01 | 3808 (+) | 1.000 | 0.998 | gAAAAAaca
V$CIZ_01 | 5402 (-) | 1.000 | 0.999 | tatTTTTTc
V$CIZ_01 | 7251 (+) | 1.000 | 0.999 | gAAAAAgtc
P$ZAP1_01 | 5135 (-) | 1.000 | 0.937 | gtgcgGTCAA
P$ZAP1_01 | 6433 (-) | 1.000 | 0.946 | catcgGTCAA
V$E2F1DP1_01 | 2472 (-) | 0.982 | 0.947 | gCGCGAag
V$E2F1DP1_01 | 9122 (-) | 1.000 | 0.931 | cCGGGAaa
V$E2F1DP1RB_01 | 2472 (-) | 1.000 | 0.917 | gCGCGAag
V$CETS168_Q6 | 610 (-) | 0.933 | 0.923 | aCATCCtg
V$CETS168_Q6 | 769 (+) | 1.000 | 0.914 | ctGGAAGa
V$CETS168_Q6 | 925 (-) | 1.000 | 0.851 | aCTTCCac
V$CETS168_Q6 | 1459 (+) | 0.900 | 0.890 | ccGGACGt
V$CETS168_Q6 | 1730 (-) | 0.933 | 0.888 | tCATCCtg
V$CETS168_Q6 | 1739 (-) | 1.000 | 0.862 | aCTTCCta
V$CETS168_Q6 | 1777 (-) | 0.900 | 0.861 | tCCTCCtg
V$CETS168_Q6 | 2147 (-) | 1.000 | 0.827 | tCTTCCtt
V$CETS168_Q6 | 2151 (-) | 1.000 | 0.827 | cCTTCCtt
V$CETS168_Q6 | 2155 (-) | 1.000 | 0.843 | cCTTCCtc
V$CETS168_Q6 | 2161 (-) | 1.000 | 0.827 | tCTTCCtt
V$CETS168_Q6 | 2205 (-) | 1.000 | 0.827 | tCTTCCtt
V$CETS168_Q6 | 2686 (-) | 0.933 | 0.947 | gCATCCtg
V$CETS168_Q6 | 2707 (-) | 1.000 | 0.843 | cCTTCCtc
V$CETS168_Q6 | 2785 (-) | 1.000 | 0.827 | tCTTCCtt
V$CETS168_Q6 | 2989 (-) | 1.000 | 0.872 | aCTTCCgc
V$CETS168_Q6 | 3033 (-) | 1.000 | 0.872 | aCTTCCgc
V$CETS168_Q6 | 3342 (-) | 0.900 | 0.861 | cCCTCCtg
V$CETS168_Q6 | 3518 (+) | 0.900 | 0.822 | gaGGAGGc
V$CETS168_Q6 | 3778 (-) | 1.000 | 0.823 | cCTTCCcc
V$CETS168_Q6 | 4176 (+) | 0.900 | 0.920 | caGGAGGc
V$CETS168_Q6 | 4265 (+) | 0.933 | 0.832 | taGGATGc
V$CETS168_Q6 | 4336 (-) | 0.933 | 0.896 | aCATCCag
V$CETS168_Q6 | 4354 (+) | 0.900 | 0.861 | caGGAGGa
V$CETS168_Q6 | 4592 (-) | 0.900 | 0.861 | tCCTCCtg
V$CETS168_Q6 | 4603 (-) | 0.775 | 0.820 | gCTTGCtg
V$CETS168_Q6 | 4608 (+) | 1.000 | 0.914 | ctGGAAGg
V$CETS168_Q6 | 4689 (+) | 0.775 | 0.820 | caGGAAAc
V$CETS168_Q6 | 4963 (+) | 1.000 | 0.976 | caGGAAGt
V$CETS168_Q6 | 5031 (+) | 0.933 | 0.812 | tgGGATGc
V$CETS168_Q6 | 5267 (-) | 0.933 | 0.888 | tCATCCtg
V$CETS168_Q6 | 5347 (-) | 0.933 | 0.828 | gCATCCcc
V$CETS168_Q6 | 5732 (+) | 1.000 | 0.973 | ctGGAAGc
V$CETS168_Q6 | 6162 (-) | 0.900 | 0.822 | gCCTCCtc
V$CETS168_Q6 | 6276 (+) | 1.000 | 0.885 | aaGGAAGc
V$CETS168_Q6 | 6317 (-) | 1.000 | 0.842 | aCTTCCct
V$CETS168_Q6 | 6479 (+) | 0.933 | 0.888 | caGGATGa
V$CETS168_Q6 | 6799 (-) | 1.000 | 0.843 | tCTTCCtc
V$CETS168_Q6 | 6859 (-) | 0.900 | 0.870 | aCGTCCag
V$CETS168_Q6 | 6878 (+) | 1.000 | 0.885 | taGGAAGc
V$CETS168_Q6 | 6966 (+) | 0.933 | 0.861 | ctGGATGg
V$CETS168_Q6 | 7013 (+) | 0.933 | 0.818 | gcGGATGt
V$CETS168_Q6 | 7019 (-) | 0.775 | 0.820 | gTTTCCtg
V$CETS168_Q6 | 7231 (+) | 1.000 | 0.976 | caGGAAGt
V$CETS168_Q6 | 8035 (-) | 0.775 | 0.820 | gCTTGCtg
V$CETS168_Q6 | 8082 (-) | 1.000 | 0.862 | aCTTCCta
V$CETS168_Q6 | 8135 (-) | 0.775 | 0.820 | gCTTTCtg
V$CETS168_Q6 | 8159 (-) | 1.000 | 0.973 | gCTTCCag
V$CETS168_Q6 | 8170 (+) | 0.775 | 0.820 | caGGTAGc
V$CETS168_Q6 | 8394 (+) | 0.775 | 0.813 | ccTGAAGc
V$CETS168_Q6 | 8448 (-) | 0.933 | 0.832 | gCATCCta
V$CETS168_Q6 | 8679 (+) | 1.000 | 0.827 | taGGAAGg
V$CETS168_Q6 | 8813 (-) | 0.775 | 0.813 | gCTTCTgg
V$CETS168_Q6 | 9308 (+) | 0.900 | 0.861 | caGGAGGg
V$CETS168_Q6 | 9335 (+) | 0.900 | 0.834 | ctGGAGGa
V$CETS168_Q6 | 9436 (+) | 1.000 | 1.000 | caGGAAGc
V$CETS168_Q6 | 9469 (+) | 0.933 | 0.923 | caGGATGt
V$CETS168_Q6 | 9606 (+) | 1.000 | 0.865 | tgGGAAGc
V$CETS168_Q6 | 9854 (+) | 0.775 | 0.820 | caGGCAGc
V$CETS168_Q6 | 10013 (+) | 0.900 | 0.870 | ctGGAGGt
V$CETS168_Q6 | 10075 (+) | 1.000 | 0.914 | ctGGAAGg
V$CETS168_Q6 | 10206 (-) | 1.000 | 0.816 | cCTTCCac
V$CETS168_Q6 | 10258 (+) | 1.000 | 0.976 | caGGAAGt
V$CETS168_Q6 | 10639 (+) | 1.000 | 0.843 | gaGGAAGa
V$CETS168_Q6 | 10668 (+) | 0.900 | 0.861 | caGGAGGa
V$CETS168_Q6 | 10845 (+) | 1.000 | 0.941 | caGGAAGa
V$CETS168_Q6 | 11913 (-) | 0.775 | 0.813 | gCTTCGgg
V$POU1F1_Q6 | 643 (-) | 1.000 | 1.000 | atttATTCAt
V$ELF1_Q6 | 2155 (-) | 1.000 | 0.963 | ccTTCCTcttcc
V$ELF1_Q6 | 2707 (-) | 1.000 | 0.963 | ccTTCCTcttcc
V$ELF1_Q6 | 4959 (+) | 1.000 | 0.958 | gcagcAGGAAgt
V$ELF1_Q6 | 5473 (-) | 1.000 | 0.958 | atTTCCTgattt
V$ELF1_Q6 | 5521 (-) | 1.000 | 0.945 | ctTTCCTcctat
V$ELF1_Q6 | 9432 (+) | 1.000 | 0.949 | ataacAGGAAgc
V$ELF1_Q6 | 9871 (+) | 1.000 | 0.980 | gaatgAGGAAat
V$ELF1_Q6 | 10589 (-) | 1.000 | 0.948 | atTTCCTatatc
V$ELF1_Q6 | 11268 (+) | 1.000 | 0.963 | agaaaAGGAAat
t/data/match.output view on Meta::CPAN
V$PLZF_02 | 10295 (-) | 0.978 | 0.722 | gcttcggacattTTTTAactgtttttata
V$PLZF_02 | 10308 (+) | 0.735 | 0.742 | tttaactgttttTATATttttattttata
V$PLZF_02 | 10321 (+) | 0.756 | 0.742 | atatttttatttTATAGtttttattgttt
V$PLZF_02 | 10382 (+) | 0.978 | 0.793 | ttgcaatccataTAAAAatgaacgaggtg
V$PLZF_02 | 10463 (-) | 1.000 | 0.730 | caatgcatctcaCTTTAgaccagccacat
V$PLZF_02 | 10535 (+) | 1.000 | 0.729 | gccgtgcaactcTAAAGtatgtacagccg
V$PLZF_02 | 11089 (-) | 0.976 | 0.717 | gaattttccactGTTTAaagaacgacttc
V$PLZF_02 | 11092 (+) | 1.000 | 0.733 | ttttccactgttTAAAGaacgacttcaga
V$PLZF_02 | 11382 (+) | 0.979 | 0.785 | ttgaaaacttatTAAATtttgtacgcatt
V$PLZF_02 | 11628 (+) | 0.979 | 0.729 | aggaccctcgttTAAATgtatttctgtac
V$CETS1P54_03 | 606 (-) | 0.917 | 0.919 | ttaaacATCCTgtcgt
V$CETS1P54_03 | 702 (+) | 0.988 | 0.884 | ggcatCGGATctcttt
V$CETS1P54_03 | 1259 (-) | 0.988 | 0.905 | gtcatcATCCGtgtgt
V$CETS1P54_03 | 1455 (+) | 0.926 | 0.923 | tgagcCGGACgtttct
V$CETS1P54_03 | 1716 (-) | 1.000 | 0.916 | tgccttTTCCGggctc
V$CETS1P54_03 | 1726 (-) | 0.917 | 0.880 | gggctcATCCTgaact
V$CETS1P54_03 | 1735 (-) | 0.929 | 0.896 | ctgaacTTCCTataga
V$CETS1P54_03 | 2151 (-) | 0.929 | 0.880 | ccttccTTCCTcttcc
V$CETS1P54_03 | 2561 (-) | 1.000 | 0.924 | tgaaatTTCCGtaagt
V$CETS1P54_03 | 2682 (-) | 0.917 | 0.889 | cgttgcATCCTggtca
V$CETS1P54_03 | 2985 (-) | 1.000 | 0.968 | atctacTTCCGctcct
V$CETS1P54_03 | 3029 (-) | 1.000 | 0.975 | accgacTTCCGctcca
V$CETS1P54_03 | 4685 (+) | 0.929 | 0.882 | gtggcAGGAAacttga
V$CETS1P54_03 | 4959 (+) | 0.929 | 0.928 | gcagcAGGAAgtcagg
V$CETS1P54_03 | 5469 (-) | 0.929 | 0.890 | tactatTTCCTgattt
V$CETS1P54_03 | 5728 (+) | 0.886 | 0.880 | taaacTGGAAgccata
V$CETS1P54_03 | 6272 (+) | 0.929 | 0.882 | gaagaAGGAAgcctct
V$CETS1P54_03 | 6457 (-) | 0.929 | 0.894 | acttatTTCCTgataa
V$CETS1P54_03 | 6874 (+) | 0.929 | 0.883 | cttatAGGAAgcacca
V$CETS1P54_03 | 7009 (+) | 0.988 | 0.950 | gcaggCGGATgtttcc
V$CETS1P54_03 | 7227 (+) | 0.929 | 0.923 | ccagcAGGAAgttcat
V$CETS1P54_03 | 8078 (-) | 0.929 | 0.901 | agaaacTTCCTataca
V$CETS1P54_03 | 8917 (+) | 1.000 | 0.881 | atactCGGAAttcagt
V$CETS1P54_03 | 9432 (+) | 0.929 | 0.912 | ataacAGGAAgcccaa
V$CETS1P54_03 | 9465 (+) | 0.917 | 0.924 | tgtacAGGATgttcta
V$CETS1P54_03 | 10254 (+) | 0.929 | 0.929 | tgtgcAGGAAgtgatt
V$CETS1P54_03 | 10841 (+) | 0.929 | 0.893 | atcgcAGGAAgaagcc
V$CETS1P54_03 | 11427 (-) | 0.988 | 0.880 | ttagctATCCGcatac
V$CBF_01 | 789 (-) | 1.000 | 0.994 | tcttaACCGCtgagcc
V$CBF_01 | 2766 (-) | 0.994 | 0.976 | tagatTCCGCatgtga
V$CBF_01 | 2987 (-) | 0.994 | 0.982 | ctactTCCGCtcctcc
V$CBF_01 | 3031 (-) | 0.994 | 0.982 | cgactTCCGCtccacc
V$CBF_01 | 3113 (+) | 0.981 | 0.979 | ttccatGCGGCtatat
V$CBF_01 | 4436 (-) | 0.978 | 0.975 | aaaaaACCACacaatt
V$CBF_01 | 4567 (+) | 1.000 | 0.993 | acagttGCGGTtagat
V$CBF_01 | 5131 (+) | 1.000 | 0.979 | gatggtGCGGTcaacc
V$CBF_01 | 7007 (+) | 0.994 | 0.983 | aggcagGCGGAtgttt
V$CBF_01 | 7626 (+) | 1.000 | 0.977 | cgcctgGCGGTagaat
t/data/omim_text_test view on Meta::CPAN
*FIELD* TX
DESCRIPTION1
*FIELD* TX
DESCRIPTION2
*FIELD* AV
.0001
ALCOHOL INTOLERANCE, ACUTE
ACETALDEHYDE DEHYDROGENASE 2, ALLELE 2, INCLUDED; ALDH2*2, INCLUDED XXX!
ACETALDEHYDE DEHYDROGENASE 2, ALLELE 2, INCLUDED; ALDH2*2, INCLUDED XXX!
ACETALDEHYDE DEHYDROGENASE 2, ALLELE 2, INCLUDED; ALDH2*2, INCLUDED XXX!
ALDH2, GLU487LYS
AV1-text
.0002
MYASTHENIC SYNDROME, SLOW-CHANNEL CONGENITAL
ACETALDEHYDE DEHYDROGENASE 2, ALLELE 2, INCLUDED; ALDH2*2, INCLUDED XXX!
CHRNA1, VAL156MET
AV2-text
.0003
MYASTHENIC SYNDROME, SLOW-CHANNEL CONGENITAL
CHRNE, ARG147LEU
AV2-text a
AV2-text b
t/data/omim_text_test view on Meta::CPAN
*FIELD* TX
DESCRIPTION1
*FIELD* TX
DESCRIPTION2
*FIELD* AV
.0001
ALCOHOL INTOLERANCE, ACUTE
ACETALDEHYDE DEHYDROGENASE 2, ALLELE 2, INCLUDED; ALDH2*2, INCLUDED XXX!
ACETALDEHYDE DEHYDROGENASE 2, ALLELE 2, INCLUDED; ALDH2*2, INCLUDED XXX!
ACETALDEHYDE DEHYDROGENASE 2, ALLELE 2, INCLUDED; ALDH2*2, INCLUDED XXX!
ALDH2, GLU487LYS
AV1-text
.0002
MYASTHENIC SYNDROME, SLOW-CHANNEL CONGENITAL
ACETALDEHYDE DEHYDROGENASE 2, ALLELE 2, INCLUDED; ALDH2*2, INCLUDED XXX!
CHRNA1, VAL156MET
AV2-text
.0003
MYASTHENIC SYNDROME, SLOW-CHANNEL CONGENITAL
CHRNE, ARG147LEU
AV2-text a
AV2-text b
t/data/phi.out view on Meta::CPAN
>sp|P32767|PDR6_YEAST PLEIOTROPIC DRUG RESISTANCE REGULATORY PROTEIN 6
Length = 1081
Score = 7.4 bits (24), Expect = 6.0
Identities = 25/93 (26%), Positives = 37/93 (38%), Gaps = 17/93 (18%)
Query: 159 HFISQNKLVSLSEQNLVDCDHECMEYEGEEACDEGCNGGLQPNAYNYI-IKNGGIQTESS 217
+F S+N+ +S L E M + E C L P ++I N I +S+
Sbjct: 642 NFTSKNEQEKISNDKL-----EVMVIKTVSTLCETCREELTPYLMHFISFLNTVIMPDSN 696
Query: 218 YPYTAETG--------TQCNFNSANIGPEEQAK 242
pattern 237 ****
+ T QC ++ GPEEQAK
Sbjct: 697 VSHFTRTKLVRSIGYVVQCQVSN---GPEEQAK 726
>sp|O49850|GCSP_FLAAN GLYCINE DEHYDROGENASE [DECARBOXYLATING], MITOCHONDRIAL PRECURSOR
(GLYCINE DECARBOXYLASE) (GLYCINE CLEAVAGE SYSTEM
P-PROTEIN)
t/data/phipsi.out view on Meta::CPAN
>sp|P32767|PDR6_YEAST PLEIOTROPIC DRUG RESISTANCE REGULATORY PROTEIN 6
Length = 1081
Score = 7.4 bits (24), Expect = 6.0
Identities = 25/93 (26%), Positives = 37/93 (38%), Gaps = 17/93 (18%)
Query: 159 HFISQNKLVSLSEQNLVDCDHECMEYEGEEACDEGCNGGLQPNAYNYI-IKNGGIQTESS 217
+F S+N+ +S L E M + E C L P ++I N I +S+
Sbjct: 642 NFTSKNEQEKISNDKL-----EVMVIKTVSTLCETCREELTPYLMHFISFLNTVIMPDSN 696
Query: 218 YPYTAETG--------TQCNFNSANIGPEEQAK 242
pattern 237 ****
+ T QC ++ GPEEQAK
Sbjct: 697 VSHFTRTKLVRSIGYVVQCQVSN---GPEEQAK 726
>sp|O49850|GCSP_FLAAN GLYCINE DEHYDROGENASE [DECARBOXYLATING], MITOCHONDRIAL PRECURSOR
(GLYCINE DECARBOXYLASE) (GLYCINE CLEAVAGE SYSTEM
P-PROTEIN)
t/data/phipsi.out view on Meta::CPAN
Y+ +D ++ D+E F + DWR +GAVTPVKNQG CGSCW+FS
Sbjct: 108 YVG----FVAEDFTGLEHFDNEDFTYKHVTNYPQSIDWRAKGAVTPVKNQGACGSCWAFS 163
Query: 151 TTGNVEGQHFISQNKLVSLSEQNLVDCDHECMEYEGEEACDEGCNGGLQPNAYNYIIKNG 210
T VEG + I L+ LSEQ LVDCD GC GG Q + Y + N
Sbjct: 164 TIATVEGINKIVTGNLLELSEQELVDCDKH----------SYGCKGGYQTTSLQY-VANN 212
Query: 211 GIQTESSYPYTAETGTQCNFNSANIGPEEQAKISNFTMIPKN-ETVMAGYIVSTGPLAIA 269
pattern 237 ****
G+ T YPY A+ +C A P + KI+ + +P N ET G + + PL++
Sbjct: 213 GVHTSKVYPYQAKQ-YKCR---ATDKPGPKVKITGYKRVPSNCETSFLGALANQ-PLSVL 267
Query: 270 ADA--VEWQFYIGGVFDIPCNPNSLDHGILIVGYSAKNTIFRKNMPYWIVKNSWGADWGE 327
+A +Q Y GVFD PC LDH + VGY + KN Y I+KNSWG +WGE
Sbjct: 268 VEAGGKPFQLYKSGVFDGPCG-TKLDHAVTAVGYGTSD---GKN--YIIIKNSWGPNWGE 321
Query: 328 QGYIYLRR----GKNTCGV 342
+GY+ L+R + TCGV
Sbjct: 322 KGYMRLKRQSGNSQGTCGV 340
t/data/psiblastreport.out view on Meta::CPAN
Query: 92 YLNNKEAIFTDDLPVADYLDDE-----FINSIPTAFDWRTRGAVTPVKNQGQCGSCWSFS 146
Y+ +D ++ D+E + + P + DWR +GAVTPVKNQG CGSCW+FS
Sbjct: 108 YVG----FVAEDFTGLEHFDNEDFTYKHVTNYPQSIDWRAKGAVTPVKNQGACGSCWAFS 163
Query: 147 TTGNVEGQHFISQNKLVSLSEQNLVDCDHECMEYEGEEACDEGCNGGLQPNAYNYIIKNG 206
T VEG + I L+ LSEQ LVDCD GC GG Q + Y + N
Sbjct: 164 TIATVEGINKIVTGNLLELSEQELVDCDKH----------SYGCKGGYQTTSLQY-VANN 212
Query: 207 GIQTESSYPYTAETGTQCNFNSANIGAKISNFTMIPKN-ETVMAGYIVSTGPLAIAADA- 264
G+ T YPY A+ + KI+ + +P N ET G + + PL++ +A
Sbjct: 213 GVHTSKVYPYQAKQYKCRATDKPGPKVKITGYKRVPSNCETSFLGALANQ-PLSVLVEAG 271
Query: 265 -VEWQFYIGGVFDIPCNPNSLDHGILIVGYSAKNTIFRKNMPYWIVKNSWGADWGEQGYI 323
+Q Y GVFD PC LDH + VGY + KN Y I+KNSWG +WGE+GY+
Sbjct: 272 GKPFQLYKSGVFDGPCG-TKLDHAVTAVGYGTSD---GKN--YIIIKNSWGPNWGEKGYM 325
Query: 324 YLRR----GKNTCGV 334
L+R + TCGV
Sbjct: 326 RLKRQSGNSQGTCGV 340
t/data/psiblastreport.out view on Meta::CPAN
Query: 88 FKNYYLNNKEAIFTDDLP-VADYLDDEFINSIPTAFDWRTRGAVTPVKNQGQCGSCWSFS 146
FK Y+ FT + + + + P + DWR +GAVTPVKNQG CGSCW+FS
Sbjct: 104 FKKKYVGFVAEDFTGLEHFDNEDFTYKHVTNYPQSIDWRAKGAVTPVKNQGACGSCWAFS 163
Query: 147 TTGNVEGQHFISQNKLVSLSEQNLVDCDHECMEYEGEEACDEGCNGGLQPNAYNYIIKNG 206
T VEG + I L+ LSEQ LVDCD GC GG Q + Y+ N
Sbjct: 164 TIATVEGINKIVTGNLLELSEQELVDCDKH----------SYGCKGGYQTTSLQYVANN- 212
Query: 207 GIQTESSYPYTAETGTQCNFNSANIGAKISNFTMIPKNETVMAGYIVSTGPLAIAADA-- 264
G+ T YPY A+ + KI+ + +P N ++ PL++ +A
Sbjct: 213 GVHTSKVYPYQAKQYKCRATDKPGPKVKITGYKRVPSNCETSFLGALANQPLSVLVEAGG 272
Query: 265 VEWQFYIGGVFDIPCNPNSLDHGILIVGYSAKNTIFRKNMPYWIVKNSWGADWGEQGYIY 324
+Q Y GVFD PC LDH + VGY + Y I+KNSWG +WGE+GY+
Sbjct: 273 KPFQLYKSGVFDGPCG-TKLDHAVTAVGYGTSD-----GKNYIIIKNSWGPNWGEKGYMR 326
Query: 325 LRR----GKNTCGVSNFVSTS 341
L+R + TCGV
Sbjct: 327 LKRQSGNSQGTCGVYKSSYYP 347
t/data/sequencefamily.dat view on Meta::CPAN
DR MIM; 605066; -.
DR MGD; MGI:894689; Ywhae.
DR InterPro; IPR000308; 14-3-3.
DR Pfam; PF00244; 14-3-3; 1.
DR PRINTS; PR00305; 1433ZETA.
DR ProDom; PD000600; 14-3-3; 1.
DR SMART; SM00101; 14_3_3; 1.
DR PROSITE; PS00796; 1433_1; 1.
DR PROSITE; PS00797; 1433_2; 1.
KW Brain; Neurone; Acetylation; Multigene family.
FT MOD_RES 1 1 ACETYLATION.
FT CONFLICT 73 73 K -> T (IN REF. 9).
FT CONFLICT 120 120 F -> S (IN REF. 9).
FT CONFLICT 123 123 K -> Y (IN REF. 9).
FT CONFLICT 129 129 H -> Y (IN REF. 14).
SQ SEQUENCE 255 AA; 29174 MW; 07817CCBD1F75B26 CRC64;
MDDREDLVYQ AKLAEQAERY DEMVESMKKV AGMDVELTVE ERNLLSVAYK NVIGARRASW
RIISSIEQKE ENKGGEDKLK MIREYRQMVE TELKLICCDI LDVLDKHLIP AANTGESKVF
YYKMKGDYHR YLAEFATGND RKEAAENSLV AYKAASDIAM TELPPTHPIR LGLALNFSVF
YYEILNSPDR ACRLAKAAFD DAIAELDTLS EESYKDSTLI MQLLRDNLTL WTSDMQGDGE
EQNKEALQDV EDENQ
t/data/sequencefamily.dat view on Meta::CPAN
DR ProDom; PD000600; 14-3-3; 1.
DR SMART; SM00101; 14_3_3; 1.
DR PROSITE; PS00796; 1433_1; 1.
DR PROSITE; PS00797; 1433_2; 1.
KW Brain; Neurone; Phosphorylation; Acetylation; Multigene family;
KW Alternative initiation.
FT INIT_MET 0 0
FT CHAIN 1 245 14-3-3 PROTEIN BETA/ALPHA, LONG ISOFORM.
FT CHAIN 2 245 14-3-3 PROTEIN BETA/ALPHA, SHORT ISOFORM.
FT INIT_MET 2 2 FOR SHORT ISOFORM.
FT MOD_RES 1 1 ACETYLATION.
FT MOD_RES 2 2 ACETYLATION (IN SHORT ISOFORM).
FT MOD_RES 185 185 PHOSPHORYLATION.
SQ SEQUENCE 245 AA; 27950 MW; AA91C2314D99549F CRC64;
TMDKSELVQK AKLAEQAERY DDMAAAMKAV TEQGHELSNE ERNLLSVAYK NVVGARRSSW
RVISSIEQKT ERNEKKQQMG KEYREKIEAE LQDICNDVLQ LLDKYLIPNA TQPESKVFYL
KMKGDYFRYL SEVASGDNKQ TTVSNSQQAY QEAFEISKKE MQPTHPIRLG LALNFSVFYY
EILNSPEKAC SLAKTAFDEA IAELDTLNEE SYKDSTLIMQ LLRDNLTLWT SENQGDEGDA
GEGEN
//
ID CALM_HUMAN STANDARD; PRT; 148 AA.
AC P02593; P99014; P70667; Q61379; Q61380;
t/data/sequencefamily.dat view on Meta::CPAN
DR MGD; MGI:88251; Calm.
DR MGD; MGI:103250; Calm2.
DR MGD; MGI:103249; Calm3.
DR InterPro; IPR002048; EF-hand.
DR Pfam; PF00036; efhand; 4.
DR SMART; SM00054; EFh; 4.
DR PROSITE; PS00018; EF_HAND; 4.
KW Calcium-binding; Duplication; Methylation; Acetylation;
KW 3D-structure.
FT INIT_MET 0 0
FT MOD_RES 1 1 ACETYLATION.
FT MOD_RES 115 115 METHYLATION (TRI-) (IN CHICKEN).
FT CA_BIND 20 31 EF-HAND 1.
FT CA_BIND 56 67 EF-HAND 2.
FT CA_BIND 93 104 EF-HAND 3.
FT CA_BIND 129 140 EF-HAND 4.
FT BINDING 21 21 UBIQUITIN (MULTI-).
FT CONFLICT 25 25 G -> N (IN REF. 12; AAA66182).
FT HELIX 5 19
FT TURN 21 22
FT STRAND 26 27
t/data/swiss.dat view on Meta::CPAN
DR MIM; 605066; -.
DR MGD; MGI:894689; Ywhae.
DR InterPro; IPR000308; 14-3-3.
DR Pfam; PF00244; 14-3-3; 1.
DR PRINTS; PR00305; 1433ZETA.
DR ProDom; PD000600; 14-3-3; 1.
DR SMART; SM00101; 14_3_3; 1.
DR PROSITE; PS00796; 1433_1; 1.
DR PROSITE; PS00797; 1433_2; 1.
KW Brain; Neurone; Acetylation; Multigene family.
FT MOD_RES 1 1 ACETYLATION.
FT CONFLICT 73 73 K -> T (IN REF. 9).
FT CONFLICT 120 120 F -> S (IN REF. 9).
FT CONFLICT 123 123 K -> Y (IN REF. 9).
FT CONFLICT 129 129 H -> Y (IN REF. 14).
SQ SEQUENCE 255 AA; 29174 MW; 07817CCBD1F75B26 CRC64;
MDDREDLVYQ AKLAEQAERY DEMVESMKKV AGMDVELTVE ERNLLSVAYK NVIGARRASW
RIISSIEQKE ENKGGEDKLK MIREYRQMVE TELKLICCDI LDVLDKHLIP AANTGESKVF
YYKMKGDYHR YLAEFATGND RKEAAENSLV AYKAASDIAM TELPPTHPIR LGLALNFSVF
YYEILNSPDR ACRLAKAAFD DAIAELDTLS EESYKDSTLI MQLLRDNLTL WTSDMQGDGE
EQNKEALQDV EDENQ
t/data/swiss.dat view on Meta::CPAN
DR ProDom; PD000600; 14-3-3; 1.
DR SMART; SM00101; 14_3_3; 1.
DR PROSITE; PS00796; 1433_1; 1.
DR PROSITE; PS00797; 1433_2; 1.
KW Brain; Neurone; Phosphorylation; Acetylation; Multigene family;
KW Alternative initiation.
FT INIT_MET 0 0
FT CHAIN 1 245 14-3-3 PROTEIN BETA/ALPHA, LONG ISOFORM.
FT CHAIN 2 245 14-3-3 PROTEIN BETA/ALPHA, SHORT ISOFORM.
FT INIT_MET 2 2 FOR SHORT ISOFORM.
FT MOD_RES 1 1 ACETYLATION.
FT MOD_RES 2 2 ACETYLATION (IN SHORT ISOFORM).
FT MOD_RES 185 185 PHOSPHORYLATION.
SQ SEQUENCE 245 AA; 27950 MW; AA91C2314D99549F CRC64;
TMDKSELVQK AKLAEQAERY DDMAAAMKAV TEQGHELSNE ERNLLSVAYK NVVGARRSSW
RVISSIEQKT ERNEKKQQMG KEYREKIEAE LQDICNDVLQ LLDKYLIPNA TQPESKVFYL
KMKGDYFRYL SEVASGDNKQ TTVSNSQQAY QEAFEISKKE MQPTHPIRLG LALNFSVFYY
EILNSPEKAC SLAKTAFDEA IAELDTLNEE SYKDSTLIMQ LLRDNLTLWT SENQGDEGDA
GEGEN
//
ID CALM_HUMAN STANDARD; PRT; 148 AA.
AC P02593; P99014; P70667; Q61379; Q61380;
t/data/swiss.dat view on Meta::CPAN
DR MGD; MGI:88251; Calm.
DR MGD; MGI:103250; Calm2.
DR MGD; MGI:103249; Calm3.
DR InterPro; IPR002048; EF-hand.
DR Pfam; PF00036; efhand; 4.
DR SMART; SM00054; EFh; 4.
DR PROSITE; PS00018; EF_HAND; 4.
KW Calcium-binding; Duplication; Methylation; Acetylation;
KW 3D-structure.
FT INIT_MET 0 0
FT MOD_RES 1 1 ACETYLATION.
FT MOD_RES 115 115 METHYLATION (TRI-) (IN CHICKEN).
FT CA_BIND 20 31 EF-HAND 1.
FT CA_BIND 56 67 EF-HAND 2.
FT CA_BIND 93 104 EF-HAND 3.
FT CA_BIND 129 140 EF-HAND 4.
FT BINDING 21 21 UBIQUITIN (MULTI-).
FT CONFLICT 25 25 G -> N (IN REF. 12; AAA66182).
FT HELIX 5 19
FT TURN 21 22
FT STRAND 26 27
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