Input data and parameters 

Input

Analysis date: Wed Jul 14 16:45:48 GMT 2021
BAM file: RAP1_IAA_30M_REP1.markdup.sorted.bam
Counting algorithm: uniquely-mapped-reads
GTF file: genome_gfp.gtf
Number of bases for 5'-3' bias computation: 100
Number of transcripts for 5'-3' bias computation: 1,000
Paired-end sequencing: yes
Protocol: strand-specific-reverse
Sorting performed: yes

Summary 

Reads alignment

Number of mapped reads (left/right): 10,836 / 0
Number of aligned pairs (without duplicates): 5,418
Total number of alignments: 11,248
Number of secondary alignments: 412
Number of non-unique alignments: 598
Aligned to genes: 0
Ambiguous alignments: 0
No feature assigned: 0
Not aligned: 0

Reads genomic origin

Exonic: 0 / NaN%
Intronic: 0 / NaN%
Intergenic: 0 / NaN%
Intronic/intergenic overlapping exon: 0 / NaN%

Transcript coverage profile

5' bias: 0
3' bias: 0
5'-3' bias: 0

Junction analysis

Reads at junctions: 0

Coverage Profile Along Genes (Total) 

Coverage Profile Along Genes (Low) 

Coverage Profile Along Genes (High) 

Coverage Histogram (0-50X)