Sample name: K562_PRO-seq_06

Log file Pipeline profile Pipeline commands Stats summary file


Looper stats summary

sample_name K562_PRO-seq_06
sample_desc 6% subsample of K562 PRO-seq
treatment 6% subsample
protocol PRO
organism human
read_type SINGLE
umi_len 0
read1 /project/shefflab/data//guertin/fastq/K562_PRO_6pct.fastq.gz
srr K562_PRO_6pct
Raw_reads 29786346
Fastq_reads 29786346
Reads_with_adapter 25373082.0
Uninformative_adapter_reads 747032.0
Pct_uninformative_adapter_reads 2.508
Trimmed_reads 29039314
Trim_loss_rate 2.51
Peak_adapter_insertion_size 34
Degradation_ratio 0.2311
Aligned_reads_human_rDNA 2680287.0
Alignment_rate_human_rDNA 9.23
Mapped_reads 26034464
QC_filtered_reads 2801424
Aligned_reads 23233040
Alignment_rate 80.01
Total_efficiency 78.0
Read_depth 3.34
Mitochondrial_reads 548203
Maximum_read_length 100
Genome_size 3099922541
NRF 0.87
PBC1 0.94
PBC2 19.95
Unmapped_reads 324563
TSS_coding_score 13.9
TSS_non-coding_score 5.8
File_mb 2220.82
Read_type SINGLE
Genome hg38
Pause_index 10.67
Plus_FRiP 0.36
Minus_FRiP 0.34
mRNA_contamination 1.41
Time 0:27:19
Success 06-14-21:33:32

K562_PRO-seq_06 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