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2 hours ago by

i have 2 rna sample and when did cufflinks with aligned bam files , i have got result
for sample1 in transcript.gtf file -

2       Cufflinks       transcript      29643815        29738975        1       +       .       gene_id "ENSMUSG00000039844"; transcript_id "ENSMUST00000238899"; FPKM "0.0325281086"; frac "0.000455"; conf_lo "0.012566"; conf_hi "0.052490"; cov "1.448822";
2       Cufflinks       exon    29643815        29643914        1       +       .       gene_id "ENSMUSG00000039844"; transcript_id "ENSMUST00000238899"; exon_number "1"; FPKM "0.0325281086"; frac "0.000455"; conf_lo "0.012566"; conf_hi "0.052490"; cov "1.448822";
2       Cufflinks       exon    29679133

for sample2 -

2       Cufflinks       transcript      29643815        29738975        163     +       .       gene_id "ENSMUSG00000039844"; transcript_id "ENSMUST00000238899"; FPKM "1.0183970793"; frac "0.071810"; conf_lo "0.851414"; conf_hi "1.185380"; cov "14.202789";
2       Cufflinks       exon    29643815        29643914        163     +       .       gene_id "ENSMUSG00000039844"; transcript_id "ENSMUST00000238899"; exon_number "1"; FPKM "1.0183970793"; frac "0.071810"; conf_lo "0.851414"; conf_hi "1.185380"; cov "14.202789";

both sample have same exon numbers but rpkm value is diffrenent . what interpretation can we get from this result. what is meaning of this result?



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