Sample name: K562_RNA-seq_60

Log file Pipeline profile Pipeline commands Stats summary file


Looper stats summary

sample_name K562_RNA-seq_60
sample_desc 40% K562 PRO-seq + 60% K562 RNA-seq
treatment 70M total reads
protocol PRO
organism human
read_type SINGLE
umi_len 0
read1 /project/shefflab/data//guertin/fastq/K562_60pctRNA.fastq.gz
srr K562_60pctRNA
Raw_reads 70000000
Fastq_reads 70000000
Reads_with_adapter 38768961.0
Uninformative_adapter_reads 700276.0
Pct_uninformative_adapter_reads 1.0004
Trimmed_reads 69299724
Trim_loss_rate 1.0
Peak_adapter_insertion_size 34
Degradation_ratio 0.2309
Aligned_reads_human_rDNA 3492589.0
Alignment_rate_human_rDNA 5.04
Mapped_reads 58587924
QC_filtered_reads 10244576
Aligned_reads 48343348
Alignment_rate 69.76
Total_efficiency 69.06
Read_depth 6.87
Mitochondrial_reads 3031668
Maximum_read_length 100
Genome_size 3099922541
NRF 0.69
PBC1 0.89
PBC2 14.34
Unmapped_reads 7219211
TSS_coding_score 17.4
TSS_non-coding_score 4.2
File_mb 5477.44
Read_type SINGLE
Genome hg38
Pause_index 8.19
Plus_FRiP 0.38
Minus_FRiP 0.38
mRNA_contamination 4.92
Time 0:32:30
Success 06-14-21:44:18

K562_RNA-seq_60 objects

Links
Figures
Fig.0 Adapter insertion distribution
Fig.1 TSS enrichment
Fig.2 Pause index
Fig.3 cFRiF
Fig.4 FRiF
Fig.5 mRNA contamination