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Example program for extracting the peptide or protein summary.
/* ############################################################################## # file: resfile_summary.java # # 'msparser' toolkit # # Test harness / example code # ############################################################################## # COPYRIGHT NOTICE # # Copyright 1998-2016 Matrix Science Limited All Rights Reserved. # # # ############################################################################## # $Source: parser/examples/test_java/resfile_summary.java $ # # $Author: villek@matrixscience.com $ # # $Date: 2018-07-30 16:23:53 +0100 $ # # $Revision: 1b450440f9c97e1e41d0fc6016a27d68951d4532 | MSPARSER_REL_2_8_1-0-gea32989045 $ # # $NoKeywords:: $ # ############################################################################## */ // Note - uses java.util.regex - some lines will need to be commented out // before this will work on JDK versions older than 1.4. There are marked // in the code import java.util.Date; import matrix_science.msparser.*; import java.util.regex.*; // comment out if using version of JDK prior to 1.4 import java.io.File; public class resfile_summary { static { try { System.loadLibrary("msparserj"); } catch (UnsatisfiedLinkError e) { System.err.println("Native code library failed to load. " + "Is msparserj.dll on the path?\n" + e); System.exit(0); } } public static void main(String argv[]) { int returnValue = -1; // ----- Object creation ----- if (argv.length < 1) { System.out.println("Must specify results filename as parameter"); System.exit(returnValue); } ms_mascotresfile file = new ms_mascotresfile(argv[0]); if (checkErrors(file)) { /* * The parameters passed to ms_peptidesummary or ms_proteinsummary determine * the type of grouping and the number of proteins and peptides displayed. * Default parameters can be returned using ms_mascotresfile::get_ms_mascotresults_params(). * The return values from this function depend on the type of search, * and also on values in the mascot.dat configuration file if that is available. */ ms_datfile datfile = new ms_datfile("../config/mascot.dat"); //You may need to change this path //if the mascot.dat isn't available, use defaults ms_mascotoptions mascotOptions = new ms_mascotoptions(); if (datfile.isValid()) { mascotOptions = datfile.getMascotOptions(); } boolean[] usePeptideSummary = {false}; long[] flags = {0}; double[] minProbability = {0}; int[] maxHitsToReport = {0}; double[] ignoreIonsScoreBelow = {0}; long[] minPepLenInPepSummary = {0}; long[] flags2 = {0}; String scriptName = file.get_ms_mascotresults_params( mascotOptions, flags, minProbability, maxHitsToReport, ignoreIonsScoreBelow, minPepLenInPepSummary, usePeptideSummary, flags2 ); boolean bResult; if (usePeptideSummary[0]) { /* * For peptide summary * * Flags defined for hierarchical clustering algorithm: * flags: ms_mascotresults::MSRES_CLUSTER_PROTEINS * | ms_mascotresults::MSRES_SHOW_SUBSETS * | ms_mascotresults::MSRES_MUDPIT_PROTEIN_SCORE; * flags2: ms_peptidesummary::MSPEPSUM_USE_HOMOLOGY_THRESH; * * Flags defined for original simple parsimony algorithm: * flags: ms_mascotresults::MSRES_GROUP_PROTEINS | ms_mascotresults::MSRES_SHOW_SUBSETS; */ System.out.println("-------------------------------------------------------------"); System.out.println("--- Peptide summary report ---"); System.out.println("-------------------------------------------------------------"); bResult = showResults(file, usePeptideSummary[0], (int)flags[0], minProbability[0], maxHitsToReport[0], "", // Unigene file name ignoreIonsScoreBelow[0], (int)minPepLenInPepSummary[0], (int)flags2[0] ); } else { // Show results from full protein summary, remove grouping flags[0] &= ~ms_mascotresults.MSRES_GROUP_PROTEINS; flags[0] &= ~ms_mascotresults.MSRES_SHOW_SUBSETS; System.out.println("-------------------------------------------------------------"); System.out.println("--- Full Protein summary report ---"); System.out.println("-------------------------------------------------------------"); bResult = showResults(file, usePeptideSummary[0], (int)flags[0], minProbability[0], maxHitsToReport[0], "", // Unigene file name ignoreIonsScoreBelow[0], (int)minPepLenInPepSummary[0], (int)flags2[0] ); if(bResult && checkErrors(file)) { System.out.println(); // Show results from concise protein summary, add grouping flags[0] |= ms_mascotresults.MSRES_GROUP_PROTEINS; flags[0] |= ms_mascotresults.MSRES_SHOW_SUBSETS; System.out.println("-------------------------------------------------------------"); System.out.println("--- Concise Protein summary report ---"); System.out.println("-------------------------------------------------------------"); bResult = showResults(file, usePeptideSummary[0], (int)flags[0], minProbability[0], maxHitsToReport[0], "", // Unigene file name ignoreIonsScoreBelow[0], (int)minPepLenInPepSummary[0], (int)flags2[0] ); } } if (bResult && checkErrors(file)) { returnValue = 0; } } System.exit(returnValue); } private static boolean showResults(ms_mascotresfile file, boolean pepSum, int flags, double minProteinProb, int maxHits, String unigeneFile, double minIonsScore, int minPepLenInPepSummary, int flags2){ ms_mascotresults results=null; int family; int hit; ms_protein prot; String accession; String description; double mass; int dbIdx; int num_peps; int i; int query; int p; int u; ms_peptide pep; if(pepSum) { results = new ms_peptidesummary(file, flags, minProteinProb, maxHits, unigeneFile, minIonsScore, minPepLenInPepSummary, null, flags2); } else { results = new ms_proteinsummary(file, flags, minProteinProb, maxHits, null, null); } //Stop there is any fatal error occurred if (!checkErrors(file)) { return false; } if (results.isNA()) System.out.println("Nucleic acid database\n"); else System.out.println("Amino acid database "); // get hit one family = 1; hit = 1; prot = results.getHit(hit); while(hit <= results.getNumberOfHits()) { accession = prot.getAccession(); description = results.getProteinDescription(accession); mass = results.getProteinMass(accession); dbIdx = prot.getDB(); String protein_hit = "Protein Hit " + hit; if((flags & ms_mascotresults.MSRES_CLUSTER_PROTEINS) == ms_mascotresults.MSRES_CLUSTER_PROTEINS) { protein_hit += "." + family; } System.out.println(protein_hit+"\n==================="); System.out.println("Accession : "+accession); System.out.println("Description : "+description); System.out.println("Score : "+roundWholeNumber(prot.getScore())); System.out.println("Mass : "+mass); System.out.println("Frame : "+prot.getFrame()); System.out.println("Coverage : "+prot.getCoverage()); System.out.println("RMS error : "+prot.getRMSDeltas(results)); System.out.println("Peptides : "+prot.getNumDisplayPeptides()); // Each protein has a number of peptides that matched - list them num_peps = prot.getNumPeptides(); for(i=1; i <= num_peps; i++) { query = prot.getPeptideQuery(i); p = prot.getPeptideP(i); if((p != -1) && (query != -1) && (prot.getPeptideDuplicate(i) != ms_protein.DUPE_DuplicateSameQuery)) { pep = results.getPeptide(query,p); if(pep != null) { displayPeptideInfo(false,pep,results,prot.getPeptideDuplicate(i) == ms_protein.DUPE_Duplicate, prot.getPeptideIsBold(i), prot.getPeptideShowCheckbox(i)); } } } // Now display list of all proteins that contain a subset or a same set of the matching peptides if((flags & ms_mascotresults.MSRES_GROUP_PROTEINS) == ms_mascotresults.MSRES_GROUP_PROTEINS || (flags & ms_mascotresults.MSRES_CLUSTER_PROTEINS) == ms_mascotresults.MSRES_CLUSTER_PROTEINS) { System.out.println("Proteins matching the same set of peptides:"); i = 1; while((prot = results.getNextSimilarProteinOf(accession, dbIdx, i)) != null) { String similar_accession = prot.getAccession(); int similar_dbIdx = prot.getDB(); if((flags & ms_mascotresults.MSRES_CLUSTER_PROTEINS) == ms_mascotresults.MSRES_CLUSTER_PROTEINS && similar_dbIdx > 1) { System.out.print(similar_dbIdx + "::"); } System.out.print(similar_accession + " - Total score: " + roundWholeNumber(prot.getScore())); System.out.println(" - Peptides matched: " + prot.getNumDisplayPeptides()); i++; } if((flags & ms_mascotresults.MSRES_SHOW_SUBSETS) == ms_mascotresults.MSRES_SHOW_SUBSETS) { System.out.println("Proteins matching a subset of these peptides:"); i = 1; while((prot = results.getNextSubsetProteinOf(accession, dbIdx, i)) != null) { String subset_accession = prot.getAccession(); int subset_dbIdx = prot.getDB(); if((flags & ms_mascotresults.MSRES_CLUSTER_PROTEINS) == ms_mascotresults.MSRES_CLUSTER_PROTEINS && subset_dbIdx > 1) { System.out.print(subset_dbIdx + "::"); } System.out.print(subset_accession + " - Total score: " + roundWholeNumber(prot.getScore())); System.out.println(" - Peptides matched: " + prot.getNumDisplayPeptides()); if((flags & ms_mascotresults.MSRES_CLUSTER_PROTEINS) == ms_mascotresults.MSRES_CLUSTER_PROTEINS) { int j = 1; if(results.getNextSimilarProteinOf(subset_accession, subset_dbIdx, j) != null) { System.out.println(" Proteins matching the same set of peptides for this subset:"); } ms_protein similar_subset_prot; while((similar_subset_prot = results.getNextSimilarProteinOf(subset_accession, subset_dbIdx, j)) != null) { String similar_subset_accession = similar_subset_prot.getAccession(); int similar_subset_dbIdx = similar_subset_prot.getDB(); System.out.print(" "); if(similar_subset_dbIdx > 1) { System.out.print(similar_subset_dbIdx + "::"); } System.out.print(similar_subset_accession + " - Total score: " + roundWholeNumber(similar_subset_prot.getScore())); System.out.println(" - Peptides matched: " + similar_subset_prot.getNumDisplayPeptides()); j++; } } i++; } } } if((flags & ms_mascotresults.MSRES_CLUSTER_PROTEINS) == ms_mascotresults.MSRES_CLUSTER_PROTEINS) { prot = results.getNextFamilyProtein(hit, family++); if(prot == null) { hit++; prot = results.getHit(hit); family = 1; } } else { hit++; prot = results.getHit(hit); } System.out.println("\n"); } results.createUnassignedList(ms_mascotresults.SCORE); if(results.getNumberOfUnassigned() > 0) { System.out.println("Unassigned list"); System.out.println("---------------"); for(u=1; u <= results.getNumberOfUnassigned(); u++) { pep = results.getUnassigned(u); displayPeptideInfo(false, pep, results, false, true, true); } } if(pepSum) displayYellowPopupInfo(results,97); return true; } private static void displayYellowPopupInfo (ms_mascotresults results, int queryNo) { int p; ms_peptide pep; String seq; String tmp; String hit; String protein; String morethan=""; System.out.println("Score Delta Hit Protein Peptide"); for(p=1; p <= 10; p++) { pep = results.getPeptide(queryNo,p); if(pep != null) { seq = pep.getPeptideStr(); if(!(seq.equals(""))) { tmp = results.getProteinsWithThisPepMatch(queryNo,p,true); hit = " "; protein = " "; // comment from here if(!(tmp.equals(""))) { // uses Java 1.4 regex String regex = "(\\d):([^ ]*)[ ]*(.*)"; Pattern pat = Pattern.compile(regex); Matcher m = pat.matcher(tmp); if(m.matches()) { int groupCount = m.groupCount(); if (groupCount >= 1) hit = m.group(1); if (groupCount >= 2) protein = m.group(2); if (groupCount >= 3) morethan = m.group(3); } if(!(morethan.equals(""))) { hit = hit+"+"; } } // to here out if using versions of java prior to 1.4 System.out.print(pep.getIonsScore()+ " "+ pep.getDelta()+ " "); System.out.println(hit+ " "+ protein+ " "+ pep.getPeptideStr()); } } } p=1; System.out.println("Accessions that matched query "+ queryNo+ " rank " + p+ ":- "+results.getProteinsWithThisPepMatch(queryNo,p, false)); } private static void displayPeptideInfo(boolean showFullDetails, ms_peptide p, ms_mascotresults r, boolean isDuplicate, boolean isBold, boolean showCheckBox) { int q; q=p.getQuery(); if(showFullDetails) { System.out.println("Peptide hit"); if(p.getAnyMatch()) { System.out.println(" Query : "+q); System.out.println(" Rank : "+p.getRank()); System.out.println(" Matched : "+p.getAnyMatch()); System.out.println(" missedCleave: "+p.getMissedCleavages()); System.out.println(" mrCalc : "+p.getMrCalc()); System.out.println(" delta : "+p.getDelta()); System.out.println(" observed : "+p.getObserved()); System.out.println(" charge : "+p.getCharge()); System.out.println(" mrExp : "+p.getMrExperimental()); System.out.println(" ionsMatched : "+p.getNumIonsMatched()); System.out.println(" peptideStr : "+p.getPeptideStr()); System.out.println(" peaksUsed1 : "+p.getPeaksUsedFromIons1()); System.out.println(" varModsStr : "+p.getVarModsStr()); System.out.println(" readable mod: "+r.getReadableVarMods(q, p.getRank(),2)); System.out.println(" ionsScore : "+p.getIonsScore()); System.out.println(" seriesUsedS : "+p.getSeriesUsedStr()); System.out.println(" peaksUsed2 : "+p.getPeaksUsedFromIons2()); System.out.println(" peaksUsed3 : "+p.getPeaksUsedFromIons3()); System.out.print(" idth, hth, p: " +r.getPeptideIdentityThreshold(q,20)); System.out.print(", " +r.getHomologyThreshold(q,20)); System.out.println(", " +r.getProbOfPepBeingRandomMatch(p.getIonsScore(),q)); System.out.println(); } else { System.out.println(" No match"); } } else { if(showCheckBox) System.out.print("CB "); else System.out.print("-- "); if(isBold) System.out.print("BOLD "); else System.out.print("dim "); // java has no printf : String query = ""+q; String observed = ""+p.getObserved(); System.out.print(padout(query,4," ")); if(observed.indexOf(".")>-1) { String one = observed.substring(0,observed.indexOf(".")); String two = observed.substring(observed.indexOf(".")+1,observed.length()); two = padend(two,6,"0"); observed = one+"."+two; } System.out.print(padout(observed,11," ")); System.out.print(padout(""+p.getRank(),4," ")); System.out.print("("+padout(""+p.getPrettyRank(),4," ")+")"); System.out.print(padout(p.getPeptideStr(),20," ")); double score = p.getIonsScore(); String scoreString = ""+score; if(scoreString.indexOf(".")>-1) { String one = scoreString.substring(0,scoreString.indexOf(".")); String two = scoreString.substring(scoreString.indexOf(".")+1, scoreString.length()); if(isDuplicate) { System.out.print("("+padout(one,3,"")+"."+padend(two,2,"0")+")"); } else { System.out.print(" "+padout(one,3,"")+"."+padend(two,2,"0")+" "); } } else { System.out.println(scoreString); } // perl seems to take 1st letter of the readable mod, pad with 2 spaces // and ignore (set to 0) any letters, so this does the same (quick & nasty) if(r.getReadableVarMods(q,p.getRank(),2).equals("")) System.out.println(" 0"); else { String let = r.getReadableVarMods(q,p.getRank(),2).substring(0,1); try { int intLet = Integer.parseInt(let); System.out.println(" "+let); } catch (NumberFormatException notNumber) { System.out.println(" 0"); } } } } private static String padout(String toPrint, int length,String padding) { String returnValue=""; if(toPrint.length() < length) { for(int queryLoop = 1; queryLoop <= length - toPrint.length(); queryLoop++) { returnValue += padding; } returnValue += toPrint; } else returnValue = toPrint; return returnValue; } private static String padend(String toPrint, int length,String padding) { String returnValue=toPrint; if(toPrint.length() < length) { for(int queryLoop = 1; queryLoop <= length - toPrint.length(); queryLoop++) { returnValue += padding; } } return returnValue; } private static String roundWholeNumber (double toRound) { String myInt = ""+toRound; myInt += "\n"; if(myInt.indexOf(".0\n")>-1) { return myInt.substring(0,myInt.indexOf(".0\n")); } return ""+toRound; } private static boolean checkErrors(ms_mascotresfile file) { if((file.getLastError())>0) { for(int loopErrors=1; loopErrors <= file.getNumberOfErrors(); loopErrors++) { System.out.print("Error number: "+file.getErrorNumber(loopErrors)); System.out.print(" : "+file.getErrorString(loopErrors)); System.out.println(""); } } //Call isValid before clearAllErrors, otherwise this method always returns true boolean bIsValid = file.isValid(); file.clearAllErrors(); return bIsValid; } } /* will give the output: C:>java -classpath .;../java/msparser.jar resfile_summary F981123.dat ------------------------------------------------------------- --- Peptide summary report --- ------------------------------------------------------------- Amino acid database Protein Hit 1 =================== Accession : Q9XZJ2 Description : HEAT SHOCK PROTEIN 70.- Crassostrea gigas (Pacific oyster). Score : 286.47705382849546 Mass : 79480.13 Frame : 0 Coverage : 57 RMS error : 274.58772054111273 Peptides : 4 CB BOLD 1 671.900000 1( 1) DAGTISGLNVLR 95.12 0 CB BOLD 2 808.300000 1( 1) TTPSYVAFTDTER 74.55 0 CB BOLD 3 973.900000 1( 1) NQVAMNPNNTIFDAK 89.84 0 -- BOLD 41084.900000 3( 3) IINEPTAAAIAYGLDKK 30.07 0 Proteins matching the same set of peptides: Q94805 Total score: 283.3741076569909 Peptides matched: 4 Proteins matching a subset of these peptides: AAF09496 Total score: 211.92705382849545 Peptides matched: 3 Q9I9Q5 Total score: 199.74 Peptides matched: 3 Q24789 Total score: 199.74 Peptides matched: 3 BAB72169 Total score: 199.74 Peptides matched: 3 Q9W6Y1 Total score: 196.63705382849543 Peptides matched: 3 AAB93665 Total score: 196.63705382849543 Peptides matched: 3 Q95V47 Total score: 194.45999999999998 Peptides matched: 3 Q91993 Total score: 193.5341076569909 Peptides matched: 3 T45476 Total score: 191.35705382849545 Peptides matched: 3 O01948 Total score: 169.67000000000002 Peptides matched: 2 O97150 Total score: 166.56705382849543 Peptides matched: 2 Q9NJ92 Total score: 125.19 Peptides matched: 2 Q9NJ93 Total score: 125.19 Peptides matched: 2 Q9PUF9 Total score: 125.19 Peptides matched: 2 S21175 Total score: 125.19 Peptides matched: 2 B44261 Total score: 125.19 Peptides matched: 2 T45473 Total score: 125.19 Peptides matched: 2 AAA64872 Total score: 125.19 Peptides matched: 2 P81159 Total score: 125.19 Peptides matched: 2 JC4610 Total score: 122.08705382849546 Peptides matched: 2 O73788 Total score: 122.08705382849544 Peptides matched: 2 1ATR Total score: 104.62 Peptides matched: 2 1ATS Total score: 104.62 Peptides matched: 2 1BA0 Total score: 104.62 Peptides matched: 2 1BA1 Total score: 104.62 Peptides matched: 2 1BUPA Total score: 104.62 Peptides matched: 2 1HSC Total score: 104.62 Peptides matched: 2 1KAX Total score: 104.62 Peptides matched: 2 1KAY Total score: 104.62 Peptides matched: 2 1KAZ Total score: 104.62 Peptides matched: 2 1NGC Total score: 104.62 Peptides matched: 2 1NGD Total score: 104.62 Peptides matched: 2 1NGE Total score: 104.62 Peptides matched: 2 1NGF Total score: 104.62 Peptides matched: 2 1NGG Total score: 104.62 Peptides matched: 2 1NGH Total score: 104.62 Peptides matched: 2 1NGI Total score: 104.62 Peptides matched: 2 2BUPA Total score: 104.62 Peptides matched: 2 HHKW7A Total score: 104.62 Peptides matched: 2 HHUM7B Total score: 104.62 Peptides matched: 2 Q9GPK0 Total score: 104.62 Peptides matched: 2 Q9GRE8 Total score: 104.62 Peptides matched: 2 Q9H3R6 Total score: 104.62 Peptides matched: 2 Q9M4E6 Total score: 104.62 Peptides matched: 2 Q9M6R1 Total score: 104.62 Peptides matched: 2 Q9NCC8 Total score: 104.62 Peptides matched: 2 Q9NGK9 Total score: 104.62 Peptides matched: 2 Q9NJB7 Total score: 104.62 Peptides matched: 2 Q9SAU8 Total score: 104.62 Peptides matched: 2 Q9TW75 Total score: 104.62 Peptides matched: 2 Q9U545 Total score: 104.62 Peptides matched: 2 Q9UAE9 Total score: 104.62 Peptides matched: 2 Q95LN9 Total score: 104.62 Peptides matched: 2 PQ0138 Total score: 104.62 Peptides matched: 2 JC2215 Total score: 104.62 Peptides matched: 2 JC4786 Total score: 104.62 Peptides matched: 2 JC5642 Total score: 104.62 Peptides matched: 2 S07197 Total score: 104.62 Peptides matched: 2 S11456 Total score: 104.62 Peptides matched: 2 T21394 Total score: 104.62 Peptides matched: 2 A25646 Total score: 104.62 Peptides matched: 2 S27004 Total score: 104.62 Peptides matched: 2 Q27031 Total score: 104.62 Peptides matched: 2 A27077 Total score: 104.62 Peptides matched: 2 AAA30130 Total score: 104.62 Peptides matched: 2 AAA30569 Total score: 104.62 Peptides matched: 2 S31716 Total score: 104.62 Peptides matched: 2 AAA33009 Total score: 104.62 Peptides matched: 2 A35922 Total score: 104.62 Peptides matched: 2 S36753 Total score: 104.62 Peptides matched: 2 S37165 Total score: 104.62 Peptides matched: 2 Q43532 Total score: 104.62 Peptides matched: 2 A44985 Total score: 104.62 Peptides matched: 2 T45478 Total score: 104.62 Peptides matched: 2 T45479 Total score: 104.62 Peptides matched: 2 A45635 Total score: 104.62 Peptides matched: 2 A45935 Total score: 104.62 Peptides matched: 2 A48439 Total score: 104.62 Peptides matched: 2 O61003 Total score: 104.62 Peptides matched: 2 O61004 Total score: 104.62 Peptides matched: 2 O73885 Total score: 104.62 Peptides matched: 2 O76274 Total score: 104.62 Peptides matched: 2 P79984 Total score: 104.62 Peptides matched: 2 CAA81523 Total score: 104.62 Peptides matched: 2 Q93146 Total score: 104.62 Peptides matched: 2 Q93147 Total score: 104.62 Peptides matched: 2 Q94614 Total score: 104.62 Peptides matched: 2 O96541 Total score: 104.62 Peptides matched: 2 O96911 Total score: 104.62 Peptides matched: 2 Q9TUG3 Total score: 101.51705382849545 Peptides matched: 2 Q9TX61 Total score: 101.51705382849545 Peptides matched: 2 HS74_YEAST Total score: 101.51705382849545 Peptides matched: 2 Q99KD7 Total score: 101.51705382849545 Peptides matched: 2 S08211 Total score: 101.51705382849545 Peptides matched: 2 S10859 Total score: 101.51705382849545 Peptides matched: 2 AAD11466 Total score: 101.51705382849545 Peptides matched: 2 CAA33735 Total score: 101.51705382849545 Peptides matched: 2 B36590 Total score: 101.51705382849545 Peptides matched: 2 AAA37859 Total score: 101.51705382849545 Peptides matched: 2 A55719 Total score: 101.51705382849545 Peptides matched: 2 B86295 Total score: 101.51705382849545 Peptides matched: 2 AAA49563 Total score: 95.12 Peptides matched: 1 1HJOA Total score: 74.55 Peptides matched: 1 1NGA Total score: 74.55 Peptides matched: 1 1QQMA Total score: 74.55 Peptides matched: 1 1QQNA Total score: 74.55 Peptides matched: 1 1QQOA Total score: 74.55 Peptides matched: 1 Q9I8F9 Total score: 74.55 Peptides matched: 1 Q9IAC1 Total score: 74.55 Peptides matched: 1 Q9LU13 Total score: 74.55 Peptides matched: 1 Q9N1U2 Total score: 74.55 Peptides matched: 1 Q9NFT1 Total score: 74.55 Peptides matched: 1 Q9QWJ5 Total score: 74.55 Peptides matched: 1 HS71_SCHPO Total score: 74.55 Peptides matched: 1 JH0095 Total score: 74.55 Peptides matched: 1 JU0164 Total score: 74.55 Peptides matched: 1 PC1156 Total score: 74.55 Peptides matched: 1 AAA03451 Total score: 74.55 Peptides matched: 1 AAB03704 Total score: 74.55 Peptides matched: 1 S09036 Total score: 74.55 Peptides matched: 1 AAA17441 Total score: 74.55 Peptides matched: 1 O18474 Total score: 74.55 Peptides matched: 1 T19211 Total score: 74.55 Peptides matched: 1 AAD21815 Total score: 74.55 Peptides matched: 1 AAD21816 Total score: 74.55 Peptides matched: 1 T22169 Total score: 74.55 Peptides matched: 1 S25585 Total score: 74.55 Peptides matched: 1 A25773 Total score: 74.55 Peptides matched: 1 Q26357 Total score: 74.55 Peptides matched: 1 Q26936 Total score: 74.55 Peptides matched: 1 Q26937 Total score: 74.55 Peptides matched: 1 A29160 Total score: 74.55 Peptides matched: 1 S31766 Total score: 74.55 Peptides matched: 1 AAL34314 Total score: 74.55 Peptides matched: 1 S37394 Total score: 74.55 Peptides matched: 1 I37564 Total score: 74.55 Peptides matched: 1 T41121 Total score: 74.55 Peptides matched: 1 T43724 Total score: 74.55 Peptides matched: 1 T45468 Total score: 74.55 Peptides matched: 1 A45871 Total score: 74.55 Peptides matched: 1 A48872 Total score: 74.55 Peptides matched: 1 A49242 Total score: 74.55 Peptides matched: 1 I51129 Total score: 74.55 Peptides matched: 1 CAA52328 Total score: 74.55 Peptides matched: 1 S53357 Total score: 74.55 Peptides matched: 1 I54542 Total score: 74.55 Peptides matched: 1 AAA57233 Total score: 74.55 Peptides matched: 1 Q63256 Total score: 74.55 Peptides matched: 1 Q63718 Total score: 74.55 Peptides matched: 1 S67431 Total score: 74.55 Peptides matched: 1 BAB72167 Total score: 74.55 Peptides matched: 1 BAB72168 Total score: 74.55 Peptides matched: 1 BAB72233 Total score: 74.55 Peptides matched: 1 O73922 Total score: 74.55 Peptides matched: 1 AAA78276 Total score: 74.55 Peptides matched: 1 BAB78505 Total score: 74.55 Peptides matched: 1 Q98896 Total score: 74.55 Peptides matched: 1 Q98899 Total score: 74.55 Peptides matched: 1 Q98900 Total score: 74.55 Peptides matched: 1 Q98901 Total score: 74.55 Peptides matched: 1 E980236 Total score: 74.55 Peptides matched: 1 Q9UVM0 Total score: 71.44705382849544 Peptides matched: 1 JQ1515 Total score: 71.44705382849544 Peptides matched: 1 PC7036 Total score: 71.44705382849544 Peptides matched: 1 HHBYA1 Total score: 30.07 Peptides matched: 1 HS7E_SPIOL Total score: 30.07 Peptides matched: 1 Q9ATB8 Total score: 30.07 Peptides matched: 1 Q9DC27 Total score: 30.07 Peptides matched: 1 Q9FSY7 Total score: 30.07 Peptides matched: 1 Q9GPM5 Total score: 30.07 Peptides matched: 1 Q9GTX3 Total score: 30.07 Peptides matched: 1 Q9LHA8 Total score: 30.07 Peptides matched: 1 Q9M4E7 Total score: 30.07 Peptides matched: 1 Q9M4E8 Total score: 30.07 Peptides matched: 1 Q9NAX9 Total score: 30.07 Peptides matched: 1 Q9NCC9 Total score: 30.07 Peptides matched: 1 Q9NCD0 Total score: 30.07 Peptides matched: 1 Q9NCD1 Total score: 30.07 Peptides matched: 1 Q9NCD2 Total score: 30.07 Peptides matched: 1 Q9NCD3 Total score: 30.07 Peptides matched: 1 Q9NCD4 Total score: 30.07 Peptides matched: 1 Q9NCD5 Total score: 30.07 Peptides matched: 1 Q9NCD6 Total score: 30.07 Peptides matched: 1 Q9NCD7 Total score: 30.07 Peptides matched: 1 Q9NCD8 Total score: 30.07 Peptides matched: 1 Q9NCD9 Total score: 30.07 Peptides matched: 1 Q9NCE0 Total score: 30.07 Peptides matched: 1 Q9NHB4 Total score: 30.07 Peptides matched: 1 Q9P8E0 Total score: 30.07 Peptides matched: 1 Q9U540 Total score: 30.07 Peptides matched: 1 Q9ZS55 Total score: 30.07 Peptides matched: 1 HS71_CANAL Total score: 30.07 Peptides matched: 1 HS71_PICAN Total score: 30.07 Peptides matched: 1 HS71_YEAST Total score: 30.07 Peptides matched: 1 HS72_PICAN Total score: 30.07 Peptides matched: 1 HS72_YEAST Total score: 30.07 Peptides matched: 1 Q96IS6 Total score: 30.07 Peptides matched: 1 Q96W30 Total score: 30.07 Peptides matched: 1 Q943K7 Total score: 30.07 Peptides matched: 1 Q961X6 Total score: 30.07 Peptides matched: 1 JQ0966 Total score: 30.07 Peptides matched: 1 CAA02784 Total score: 30.07 Peptides matched: 1 S03250 Total score: 30.07 Peptides matched: 1 T03581 Total score: 30.07 Peptides matched: 1 T04078 Total score: 30.07 Peptides matched: 1 T04080 Total score: 30.07 Peptides matched: 1 Q05829 Total score: 30.07 Peptides matched: 1 T06358 Total score: 30.07 Peptides matched: 1 AAB06397 Total score: 30.07 Peptides matched: 1 T06598 Total score: 30.07 Peptides matched: 1 JC7132 Total score: 30.07 Peptides matched: 1 BAB08435 Total score: 30.07 Peptides matched: 1 BAA13948 Total score: 30.07 Peptides matched: 1 S14949 Total score: 30.07 Peptides matched: 1 S14950 Total score: 30.07 Peptides matched: 1 T15513 Total score: 30.07 Peptides matched: 1 Q17310 Total score: 30.07 Peptides matched: 1 S18181 Total score: 30.07 Peptides matched: 1 S20139 Total score: 30.07 Peptides matched: 1 S21879 Total score: 30.07 Peptides matched: 1 S21880 Total score: 30.07 Peptides matched: 1 Q23712 Total score: 30.07 Peptides matched: 1 S24782 Total score: 30.07 Peptides matched: 1 Q24895 Total score: 30.07 Peptides matched: 1 Q24928 Total score: 30.07 Peptides matched: 1 Q24952 Total score: 30.07 Peptides matched: 1 A25089 Total score: 30.07 Peptides matched: 1 Q27078 Total score: 30.07 Peptides matched: 1 Q27121 Total score: 30.07 Peptides matched: 1 Q27146 Total score: 30.07 Peptides matched: 1 Q27147 Total score: 30.07 Peptides matched: 1 CAA27330 Total score: 30.07 Peptides matched: 1 AAA28075 Total score: 30.07 Peptides matched: 1 CAA28976 Total score: 30.07 Peptides matched: 1 CAA31393 Total score: 30.07 Peptides matched: 1 CAA31663 Total score: 30.07 Peptides matched: 1 A32475 Total score: 30.07 Peptides matched: 1 T34037 Total score: 30.07 Peptides matched: 1 AAA34139 Total score: 30.07 Peptides matched: 1 Q40924 Total score: 30.07 Peptides matched: 1 S41372 Total score: 30.07 Peptides matched: 1 S42488 Total score: 30.07 Peptides matched: 1 A42582 Total score: 30.07 Peptides matched: 1 S44168 Total score: 30.07 Peptides matched: 1 D44261 Total score: 30.07 Peptides matched: 1 O45038 Total score: 30.07 Peptides matched: 1 T45298 Total score: 30.07 Peptides matched: 1 T45474 Total score: 30.07 Peptides matched: 1 T45475 Total score: 30.07 Peptides matched: 1 T45477 Total score: 30.07 Peptides matched: 1 T45517 Total score: 30.07 Peptides matched: 1 T45522 Total score: 30.07 Peptides matched: 1 S46302 Total score: 30.07 Peptides matched: 1 T46574 Total score: 30.07 Peptides matched: 1 T46650 Total score: 30.07 Peptides matched: 1 T48270 Total score: 30.07 Peptides matched: 1 T48271 Total score: 30.07 Peptides matched: 1 A48469 Total score: 30.07 Peptides matched: 1 O48563 Total score: 30.07 Peptides matched: 1 S49303 Total score: 30.07 Peptides matched: 1 S51682 Total score: 30.07 Peptides matched: 1 S51712 Total score: 30.07 Peptides matched: 1 AAB53051 Total score: 30.07 Peptides matched: 1 S53126 Total score: 30.07 Peptides matched: 1 CAA54419 Total score: 30.07 Peptides matched: 1 O62564 Total score: 30.07 Peptides matched: 1 AAB63968 Total score: 30.07 Peptides matched: 1 AAA65099 Total score: 30.07 Peptides matched: 1 O65171 Total score: 30.07 Peptides matched: 1 S71171 Total score: 30.07 Peptides matched: 1 O76306 Total score: 30.07 Peptides matched: 1 CAC84456 Total score: 30.07 Peptides matched: 1 AAF88019 Total score: 30.07 Peptides matched: 1 D90093 Total score: 30.07 Peptides matched: 1 P90655 Total score: 30.07 Peptides matched: 1 Q91624 Total score: 30.07 Peptides matched: 1 P91738 Total score: 30.07 Peptides matched: 1 AAA92743 Total score: 30.07 Peptides matched: 1 O93935 Total score: 30.07 Peptides matched: 1 O94104 Total score: 30.07 Peptides matched: 1 O94106 Total score: 30.07 Peptides matched: 1 Q94439 Total score: 30.07 Peptides matched: 1 H96605 Total score: 30.07 Peptides matched: 1 P97966 Total score: 30.07 Peptides matched: 1 AAA99920 Total score: 30.07 Peptides matched: 1 Q9NCC5 Total score: 26.967053828495448 Peptides matched: 1 Q9NCC6 Total score: 26.967053828495448 Peptides matched: 1 Q9NCC7 Total score: 26.967053828495448 Peptides matched: 1 AAC05418 Total score: 26.967053828495448 Peptides matched: 1 AAB08760 Total score: 26.967053828495448 Peptides matched: 1 AAF23276 Total score: 26.967053828495448 Peptides matched: 1 Q91688 Total score: 26.967053828495448 Peptides matched: 1 P93937 Total score: 26.967053828495448 Peptides matched: 1 Protein Hit 2 =================== Accession : S14992 Description : dnaK-type molecular chaperone hsp70 - soybean Score : 166.04 Mass : 78349.66 Frame : 0 Coverage : 45 RMS error : 316.0424369822863 Peptides : 3 -- dim 2 808.300000 1( 1) TTPSYVAFTDTER 74.55 0 -- dim 3 973.900000 2( 2) NQVAMNPQNTVFDAK 61.42 0 -- dim 41084.900000 3( 3) IINEPTAAAIAYGLDKK 30.07 0 Proteins matching the same set of peptides: S53498 Total score: 166.04 Peptides matched: 3 Proteins matching a subset of these peptides: Q9R2A1 Total score: 135.97 Peptides matched: 2 HHXL70 Total score: 135.97 Peptides matched: 2 Q96QC9 Total score: 135.97 Peptides matched: 2 S21365 Total score: 135.97 Peptides matched: 2 S41415 Total score: 135.97 Peptides matched: 2 B45871 Total score: 135.97 Peptides matched: 2 I49761 Total score: 135.97 Peptides matched: 2 AAA74906 Total score: 135.97 Peptides matched: 2 O75634 Total score: 135.97 Peptides matched: 2 O88686 Total score: 135.97 Peptides matched: 2 Q17228 Total score: 61.42 Peptides matched: 1 Q17289 Total score: 61.42 Peptides matched: 1 Q27379 Total score: 61.42 Peptides matched: 1 AAA27868 Total score: 61.42 Peptides matched: 1 A34041 Total score: 58.317053828495446 Peptides matched: 1 Protein Hit 3 =================== Accession : A36333 Description : dnaK-type molecular chaperone Hsc70-4 - fruit fly (Drosophila melanogaster) Score : 147.45 Mass : 77814.51 Frame : 0 Coverage : 45 RMS error : 464.59967503590167 Peptides : 3 -- dim 2 808.300000 1( 1) TTPSYVAFTDTER 74.55 0 -- dim 3 973.900000 3( 3) NQVAMNPTQTIFDAK 42.83 0 -- dim 41084.900000 3( 3) IINEPTAAAIAYGLDKK 30.07 0 Proteins matching the same set of peptides: AAF55150 Total score: 147.45 Peptides matched: 3 Proteins matching a subset of these peptides: Protein Hit 4 =================== Accession : A03309 Description : dnaK-type molecular chaperone Dsim/Hsc70-1 - fruit fly (Drosophila simulans) (fragments) Score : 147.03 Mass : 25558.88 Frame : 0 Coverage : 28 RMS error : 365.7556240028131 Peptides : 2 -- dim 2 808.300000 3( 3) TTPSYVAFTESER 57.19 0 -- dim 3 973.900000 1( 1) NQVAMNPNNTIFDAK 89.84 0 Proteins matching the same set of peptides: AAA28632 Total score: 147.03 Peptides matched: 2 JN0668 Total score: 143.92705382849545 Peptides matched: 2 Proteins matching a subset of these peptides: Q9BIS1 Total score: 57.19 Peptides matched: 1 Q9BIS3 Total score: 57.19 Peptides matched: 1 B03309 Total score: 57.19 Peptides matched: 1 Protein Hit 5 =================== Accession : Q95PU3 Description : HEAT SHOCK PROTEIN (HSP70).- Euplotes crassus. Score : 113.66 Mass : 80429.66 Frame : 0 Coverage : 30 RMS error : 407.38524706491955 Peptides : 2 -- dim 2 808.300000 1( 1) TTPSYVAFTDTER 74.55 0 CB dim 41084.900000 1( 1) IIIEPTAAAIAYGLDKK 39.11 0 Proteins matching the same set of peptides: Proteins matching a subset of these peptides: Protein Hit 6 =================== Accession : 1NGB Description : Heat-shock cognate 70kd protein (44kd atpase n-terminal Fragment) (EC 3.6.1.3) mutant with glu 175 replace d by Gln (e175q) - bovine Score : 109.89 Mass : 45220.22 Frame : 0 Coverage : 30 RMS error : 411.19901615189326 Peptides : 2 -- dim 2 808.300000 1( 1) TTPSYVAFTDTER 74.55 0 -- dim 41084.900000 2( 2) IINQPTAAAIAYGLDKK 35.34 0 Proteins matching the same set of peptides: Proteins matching a subset of these peptides: Protein Hit 7 =================== Accession : O61226 Description : Score : 90.71000000000001 Mass : 0.0 Frame : 0 Coverage : 30 RMS error : 804.0968914838121 Peptides : 2 -- dim 2 808.300000 2( 2) TTPSYVAFTNTER 60.64 0 -- dim 41084.900000 3( 3) IINEPTAAAIAYGLDKK 30.07 0 Proteins matching the same set of peptides: Proteins matching a subset of these peptides: Protein Hit 8 =================== Accession : P87036 Description : Score : 81.27000000000001 Mass : 0.0 Frame : 0 Coverage : 29 RMS error : 570.361400922183 Peptides : 2 -- dim 1 671.900000 3( 3) DAGTIAGLEVLR 51.20 0 -- dim 41084.900000 3( 3) IINEPTAAAIAYGLDKK 30.07 0 Proteins matching the same set of peptides: Proteins matching a subset of these peptides: AG2111 Total score: 51.2 Peptides matched: 1 S06158 Total score: 51.2 Peptides matched: 1 A25398 Total score: 51.2 Peptides matched: 1 AAA30204 Total score: 51.2 Peptides matched: 1 CAB59514 Total score: 51.2 Peptides matched: 1 S74372 Total score: 51.2 Peptides matched: 1 O76958 Total score: 51.2 Peptides matched: 1 Q9GYW3 Total score: 48.09705382849545 Peptides matched: 1 Q9HG01 Total score: 48.09705382849545 Peptides matched: 1 S11448 Total score: 48.09705382849545 Peptides matched: 1 CAA36551 Total score: 48.09705382849545 Peptides matched: 1 A45515 Total score: 48.09705382849545 Peptides matched: 1 S52727 Total score: 48.09705382849545 Peptides matched: 1 Q94594 Total score: 48.09705382849545 Peptides matched: 1 Score Delta Hit Protein Peptide Accessions that matched query 97 rank 1:- */
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