- "phred33-quals" => \$phred33,
- "phred64-quals" => \$phred64, #solexa1.3-quals" => \$phred64,
- "solexa-quals" => \$solexa,
+ "bowtie-phred33-quals" => \$phred33,
+ "bowtie-phred64-quals" => \$phred64, #solexa1.3-quals" => \$phred64,
+ "bowtie-solexa-quals" => \$solexa,