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-rw-r--r--patch-GlobalDefinitions.cpp568logstatsplainblame
-rw-r--r--patch-GlobalDefinitions.h2617logstatsplainblame
-rw-r--r--patch-HashTable.cpp784logstatsplainblame
-rw-r--r--patch-HashTableGeneric.cpp1594logstatsplainblame
-rw-r--r--patch-HashTablePacked.cpp1126logstatsplainblame
-rw-r--r--patch-HashTablePacked.h664logstatsplainblame
-rw-r--r--patch-HashTableTranslated.cpp2655logstatsplainblame
-rw-r--r--patch-MatchAligner.cpp2670logstatsplainblame
-rw-r--r--patch-MatchAligner.h1172logstatsplainblame
-rw-r--r--patch-MatchStore.h2102logstatsplainblame
-rw-r--r--patch-MatchStoreGapped.h807logstatsplainblame
-rw-r--r--patch-MatchStoreUngapped.h436logstatsplainblame
-rw-r--r--patch-QueryManager.cpp1756logstatsplainblame
-rw-r--r--patch-QueryManager.h749logstatsplainblame
-rw-r--r--patch-README409logstatsplainblame
-rw-r--r--patch-SSAHAMain.cpp1998logstatsplainblame
-rw-r--r--patch-SSAHAMain.h794logstatsplainblame
-rw-r--r--patch-SequenceEncoder.cpp2480logstatsplainblame
-rw-r--r--patch-SequenceReader.cpp717logstatsplainblame
-rw-r--r--patch-SequenceReader.h426logstatsplainblame
-rw-r--r--patch-SequenceReaderFasta.cpp1374logstatsplainblame
-rw-r--r--patch-SequenceReaderFasta.h446logstatsplainblame
-rw-r--r--patch-SequenceReaderFilter.h797logstatsplainblame
-rw-r--r--patch-SequenceReaderLocal.cpp1066logstatsplainblame
-rw-r--r--patch-SequenceReaderMulti.cpp1156logstatsplainblame
-rw-r--r--patch-SequenceReaderMulti.h569logstatsplainblame
-rw-r--r--patch-SequenceReaderString.h1027logstatsplainblame
-rw-r--r--patch-makefile629logstatsplainblame
-rw-r--r--patch-testHashTableNoOverlap.cpp5381logstatsplainblame
-rw-r--r--patch-testQueryManager.cpp725logstatsplainblame
-rw-r--r--patch-testSequenceReaderFasta.cpp6364logstatsplainblame
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