mast-output-example.html

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<!---#### $Id: mast-output-example.html 1339 2006-09-21 19:46:28Z tbailey $#### $Log$## Revision 1.2  2005/08/24 05:28:16  nadya## update links#### Revision 1.1.1.1  2005/07/31 20:15:30  nadya## Importing from meme-3.0.14, and adding configure/make####---><HTML><HEAD><TITLE>MAST</TITLE></HEAD><BODY BGCOLOR=#D5F0FF><A NAME=top_buttons><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#00FFFF><A HREF=#motifs><B>Dataset and Motifs</B></A>  <TD BGCOLOR=#DDFFDD><A HREF=#sec_i><B>High-scoring Sequences</B></A>  <TD BGCOLOR=#FFDDFF><A HREF=#sec_ii><B>Motif Diagrams</B></A>  <TD BGCOLOR=#00FF00><A HREF=#sec_iii><B>Annotated Sequences</B></A>  <TD BGCOLOR=#DDDDFF><A HREF=#debug><B>Debugging Information</B></A></TABLE><BR CLEAR=LEFT><CENTER><H3><HR>MAST - Motif Alignment and Search Tool <HR></H3></CENTER></A><P>	MAST version 3.0 (Release date: 2000/11/27 13:23:40)<P>	For further information on how to interpret these results or to get	a copy of the MAST software please access <A HREF=http://meme.nbcr.net>http://meme.nbcr.net</A>.<CENTER><H3><HR>REFERENCE <HR></H3></CENTER></A><P>	If you use this program in your research, please cite:<P>	Timothy L. Bailey and Michael Gribskov,	"Combining evidence using p-values: application to sequence homology	searches", Bioinformatics, 14(48-54), 1998.<CENTER><H3><A NAME=motifs><HR></A><A HREF=#motifs_doc></A> DATABASE AND MOTIFS<HR></H3></CENTER><PRE>	DATABASE adh.s (peptide)	Last updated on Mon Nov 27 05:23:45 2000	Database contains 33 sequences, 9996 residues	MOTIFS meme.adh.zoops.sunsparcsolaris.html (peptide)	MOTIF WIDTH BEST POSSIBLE MATCH	----- ----- -------------------	  1    22   YCASKFAVRMLTRSMAMEYAPH	  2    25   QGKVVLITGCSSGIGKATAKHLHKE	  3    13   YGPVDVLVNNAGI	PAIRWISE MOTIF CORRELATIONS:	MOTIF     1     2	----- ----- -----	   2   0.32	   3   0.21  0.31	No overly similar pairs (correlation > 0.60) found.	Random model letter frequencies (from non-redundant database):	A 0.073 C 0.018 D 0.052 E 0.062 F 0.040 G 0.069 H 0.022 I 0.056 K 0.058 	L 0.092 M 0.023 N 0.046 P 0.051 Q 0.041 R 0.052 S 0.074 T 0.059 V 0.064 	W 0.013 Y 0.033 </PRE><CENTER><H3><A NAME=sec_i><HR></A><A HREF=#sec_i_doc></A> SECTION I: HIGH-SCORING SEQUENCES<HR></H3></CENTER><UL><LI> Each of the following 33 sequences has E-value less than 10.<LI> The E-value of a sequence is the expected number of sequencesin a random database of the same size that would match the motifs aswell as the sequence does and is equal to the combined p-value of thesequence times the number of sequences in the database.<LI> The combined p-value of a sequence measures the strength of thematch of the sequence to all the motifs and is calculated by<UL><LI> finding the score of the single best match of each motifto the sequence (best matches may overlap),<LI> calculating the sequence p-value of each score,<LI> forming the product of the p-values,<LI> taking the p-value of the product.</UL><LI> The sequence p-value of a score is defined as theprobability of a random sequence of the same length containingsome match with as good or better a score.<LI> The score for the match of a position in a sequence to a motifis computed by by summing the appropriate entry from each column ofthe position-dependent scoring matrix that represents the motif.<LI> Sequences shorter than one or more of the motifs are skipped.<LI> The table is sorted by increasing E-value.</UL><TABLE BORDER NOWRAP><TR><TH>Links<TH ALIGN=LEFT>Sequence Name<TH ALIGN=LEFT>Description<TH>E-value<TH>Length <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d1>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a1>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s1></A>YRTP_BACSU <TD>HYPOTHETICAL 25.3 KD PROTEIN IN RTP...  <TD ALIGN=RIGHT>8.9e-38 <TD ALIGN=RIGHT>238 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d2>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a2>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s2></A>BUDC_KLETE <TD>ACETOIN(DIACETYL) REDUCTASE (EC 1.1...  <TD ALIGN=RIGHT>6.8e-35 <TD ALIGN=RIGHT>241 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d3>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a3>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s3></A>HDE_CANTR <TD>HYDRATASE-DEHYDROGENASE-EPIMERASE (...  <TD ALIGN=RIGHT>2.6e-31 <TD ALIGN=RIGHT>906 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d4>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a4>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s4></A>3BHD_COMTE <TD>3-BETA-HYDROXYSTEROID DEHYDROGENASE...  <TD ALIGN=RIGHT>8.1e-31 <TD ALIGN=RIGHT>253 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d5>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a5>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s5></A>FVT1_HUMAN <TD>no comment  <TD ALIGN=RIGHT>3.3e-30 <TD ALIGN=RIGHT>332 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d6>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a6>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s6></A>YINL_LISMO <TD>HYPOTHETICAL 26.8 KD PROTEIN IN INL...  <TD ALIGN=RIGHT>6.5e-30 <TD ALIGN=RIGHT>248 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d7>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a7>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s7></A>AP27_MOUSE <TD>ADIPOCYTE P27 PROTEIN (AP27)  <TD ALIGN=RIGHT>6.8e-30 <TD ALIGN=RIGHT>244 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d8>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a8>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s8></A>NODG_RHIME <TD>NODULATION PROTEIN G (HOST-SPECIFIC...  <TD ALIGN=RIGHT>1.2e-29 <TD ALIGN=RIGHT>245 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d9>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a9>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s9></A>DHGB_BACME <TD>GLUCOSE 1-DEHYDROGENASE B (EC 1.1.1...  <TD ALIGN=RIGHT>1.6e-29 <TD ALIGN=RIGHT>262 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d10>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a10>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s10></A>BA72_EUBSP <TD>7-ALPHA-HYDROXYSTEROID DEHYDROGENAS...  <TD ALIGN=RIGHT>5.4e-29 <TD ALIGN=RIGHT>249 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d11>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a11>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s11></A>HDHA_ECOLI <TD>7-ALPHA-HYDROXYSTEROID DEHYDROGENAS...  <TD ALIGN=RIGHT>8.9e-29 <TD ALIGN=RIGHT>255 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d12>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a12>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s12></A>DHES_HUMAN <TD>ESTRADIOL 17 BETA-DEHYDROGENASE (EC...  <TD ALIGN=RIGHT>4.2e-28 <TD ALIGN=RIGHT>327 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d13>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a13>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s13></A>DHCA_HUMAN <TD>no comment  <TD ALIGN=RIGHT>5.8e-28 <TD ALIGN=RIGHT>276 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d14>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a14>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s14></A>BPHB_PSEPS <TD>BIPHENYL-CIS-DIOL DEHYDROGENASE (EC...  <TD ALIGN=RIGHT>1e-27 <TD ALIGN=RIGHT>275 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d15>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a15>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s15></A>2BHD_STREX <TD>20-BETA-HYDROXYSTEROID DEHYDROGENAS...  <TD ALIGN=RIGHT>2.2e-27 <TD ALIGN=RIGHT>255 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d16>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a16>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s16></A>DHII_HUMAN <TD>CORTICOSTEROID 11-BETA-DEHYDROGENAS...  <TD ALIGN=RIGHT>4.1e-27 <TD ALIGN=RIGHT>292 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d17>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a17>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s17></A>FIXR_BRAJA <TD>FIXR PROTEIN  <TD ALIGN=RIGHT>9.8e-27 <TD ALIGN=RIGHT>278 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d18>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a18>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s18></A>HMTR_LEIMA <TD>no comment  <TD ALIGN=RIGHT>1.8e-26 <TD ALIGN=RIGHT>287 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d19>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a19>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s19></A>ENTA_ECOLI <TD>2,3-DIHYDRO-2,3-DIHYDROXYBENZOATE D...  <TD ALIGN=RIGHT>7.4e-26 <TD ALIGN=RIGHT>248 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d20>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a20>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s20></A>BDH_HUMAN <TD>D-BETA-HYDROXYBUTYRATE DEHYDROGENAS...  <TD ALIGN=RIGHT>1.4e-25 <TD ALIGN=RIGHT>343 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d21>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a21>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s21></A>DHB2_HUMAN <TD>no comment  <TD ALIGN=RIGHT>4.7e-25 <TD ALIGN=RIGHT>387 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d22>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a22>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s22></A>RIDH_KLEAE <TD>RIBITOL 2-DEHYDROGENASE (EC 1.1.1.5...  <TD ALIGN=RIGHT>4.9e-25 <TD ALIGN=RIGHT>249 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d23>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a23>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s23></A>DHMA_FLAS1 <TD>N-ACYLMANNOSAMINE 1-DEHYDROGENASE (...  <TD ALIGN=RIGHT>1.3e-24 <TD ALIGN=RIGHT>270 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d24>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a24>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s24></A>GUTD_ECOLI <TD>SORBITOL-6-PHOSPHATE 2-DEHYDROGENAS...  <TD ALIGN=RIGHT>3e-24 <TD ALIGN=RIGHT>259 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d25>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a25>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s25></A>DHB3_HUMAN <TD>no comment  <TD ALIGN=RIGHT>3.8e-24 <TD ALIGN=RIGHT>310 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d26>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a26>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s26></A>MAS1_AGRRA <TD>no comment  <TD ALIGN=RIGHT>5.1e-19 <TD ALIGN=RIGHT>476 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d27>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a27>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s27></A>ADH_DROME <TD>ALCOHOL DEHYDROGENASE (EC 1.1.1.1)  <TD ALIGN=RIGHT>7e-19 <TD ALIGN=RIGHT>255 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d28>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a28>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s28></A>RFBB_NEIGO <TD>no comment  <TD ALIGN=RIGHT>1.8e-16 <TD ALIGN=RIGHT>346 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d29>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a29>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s29></A>CSGA_MYXXA <TD>no comment  <TD ALIGN=RIGHT>2.7e-16 <TD ALIGN=RIGHT>166 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d30>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a30>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s30></A>PCR_PEA <TD>no comment  <TD ALIGN=RIGHT>7.9e-16 <TD ALIGN=RIGHT>399 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d31>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a31>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE> <TD><A NAME=s31></A>LIGD_PSEPA <TD>C ALPHA-DEHYDROGENASE (EC -.-.-.-)  <TD ALIGN=RIGHT>8.2e-16 <TD ALIGN=RIGHT>305 <TR><TD><TABLE ALIGN=LEFT CELLSPACING=0><TR>  <TD BGCOLOR=#DDFFDD><A HREF=#d32>D</A>  <TD BGCOLOR=#FFDDDD><A HREF=#a32>A</A>  <TD BGCOLOR=#FFFFFF><A HREF=#bh>?</A></TABLE>
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