Sample name: Jurkat_ChRO-seq_1

Log file Pipeline profile Pipeline commands Stats summary file


Looper stats summary

sample_name Jurkat_ChRO-seq_1
sample_desc Jurkat ChRO-seq
treatment none
protocol PRO
organism human
read_type SINGLE
umi_len 6
read1 /project/shefflab/data//sra_fastq/SRR7616133.fastq.gz
srr SRR7616133
Raw_reads 37740511
Fastq_reads 37740511
Trimmed_reads 32783879
Trim_loss_rate 13.13
Reads_with_adapter 34473620.0
Uninformative_adapter_reads 2012355.0
Duplicate_reads 14846147.0
Pct_uninformative_adapter_reads 5.3321
Peak_adapter_insertion_size 20
Degradation_ratio 0.9566
Aligned_reads_human_rDNA 3493243.0
Alignment_rate_human_rDNA 10.66
Mapped_reads 28177350
QC_filtered_reads 6839271
Aligned_reads 21338079
Alignment_rate 65.09
Total_efficiency 56.54
Read_depth 3.87
Mitochondrial_reads 4738
Maximum_read_length 70
Genome_size 3099922541
Frac_exp_unique_at_10M 0.7897
NRF 0.38
PBC1 0.64
PBC2 3.39
Unmapped_reads 1113286
TSS_coding_score 55.1
TSS_non-coding_score 12.6
File_mb 1330.25
Read_type SINGLE
Genome hg38
Pause_index 42.69
Plus_FRiP 0.36
Minus_FRiP 0.34
mRNA_contamination 1.19
Time 0:19:54
Success 06-14-21:34:30

Jurkat_ChRO-seq_1 objects

Links
Figures
Fig.0 Library complexity
Fig.1 Adapter insertion distribution
Fig.2 TSS enrichment
Fig.3 Pause index
Fig.4 cFRiF
Fig.5 FRiF
Fig.6 mRNA contamination