Sample name: K562_PRO-seq_30

Log file Pipeline profile Pipeline commands Stats summary file


Looper stats summary

sample_name K562_PRO-seq_30
sample_desc 30% subsample of K562 PRO-seq
treatment 30% subsample
protocol PRO
organism human
read_type SINGLE
umi_len 0
read1 /project/shefflab/data//guertin/fastq/K562_PRO_30pct.fastq.gz
srr K562_PRO_30pct
File_mb 10969.75
Read_type SINGLE
Genome hg38
Raw_reads 148988721
Fastq_reads 148988721
Reads_with_adapter 126928151.0
Uninformative_adapter_reads 3729909.0
Pct_uninformative_adapter_reads 2.5035
Trimmed_reads 145258812
Trim_loss_rate 2.5
Peak_adapter_insertion_size 34
Degradation_ratio 0.2312
Aligned_reads_human_rDNA 13404967.0
Alignment_rate_human_rDNA 9.23
Mapped_reads 130234299
QC_filtered_reads 14019843
Aligned_reads 116214456
Alignment_rate 80.01
Total_efficiency 78.0
Read_depth 10.45
Mitochondrial_reads 2744825
Maximum_read_length 100
Genome_size 3099922541
NRF 0.6
PBC1 0.79
PBC2 6.54
Unmapped_reads 1619546
TSS_coding_score 13.9
TSS_non-coding_score 5.8
Pause_index 10.73
Plus_FRiP 0.36
Minus_FRiP 0.34
mRNA_contamination 1.38
Time 4:32:19
Success 06-15-11:43:19

K562_PRO-seq_30 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