Sample name: H9_treated_PRO-seq_3
Looper stats summary
| sample_name |
H9_treated_PRO-seq_3 |
| sample_desc |
H9 treated PRO-seq |
| treatment |
200 nM romidepsin |
| replicate |
3 |
| toggle |
1 |
| protocol |
PRO |
| organism |
human |
| read_type |
PAIRED |
| cell_type |
H9 |
| purpose |
high pause index; differential analysis |
| umi_status |
true_8 |
| umi_length |
8 |
| data_source |
SRA |
| read1 |
/project/shefflab/data/guertin/fastq/H9_200nM_romidepsin_... |
| read2 |
/project/shefflab/data/guertin/fastq/H9_200nM_romidepsin_... |
| srr |
H9_200nM_romidepsin_rep3 |
| Sample_title |
H9_200nM_romidepsin_rep3 |
| Sample_geo_accession |
GSM4214085 |
| Sample_source_name_ch1 |
H9 cells |
| File_mb |
2905.11 |
| Read_type |
paired |
| Genome |
hg38 |
| Raw_reads |
120377388 |
| Fastq_reads |
120377388 |
| Reads_with_adapter |
46004533.0 |
| Uninformative_adapter_reads |
26667722.0 |
| Duplicate_reads |
4932446.0 |
| Pct_uninformative_adapter_reads |
44.3069 |
| Trimmed_reads |
64640918 |
| Trim_loss_rate |
46.3 |
| Peak_adapter_insertion_size |
20 |
| Degradation_ratio |
0.9116 |
| Aligned_reads_human_rDNA |
6696846.0 |
| Alignment_rate_human_rDNA |
10.36 |
| Mapped_reads |
50176577 |
| QC_filtered_reads |
29080016 |
| Aligned_reads |
21096561.0 |
| Alignment_rate |
32.64 |
| Total_efficiency |
17.53 |
| Read_depth |
3.98 |
| Mitochondrial_reads |
667197 |
| Maximum_read_length |
38 |
| Genome_size |
3099922541 |
| Frac_exp_unique_at_10M |
0.7916 |
| NRF |
1.0 |
| PBC1 |
11412874.5 |
| PBC2 |
11412874.5 |
| Unmapped_reads |
7400125 |
| TSS_coding_score |
60.1 |
| TSS_non-coding_score |
17.8 |
| Pause_index |
74.17 |
| Plus_FRiP |
0.4 |
| Minus_FRiP |
0.38 |
| mRNA_contamination |
1.1 |
| Time |
3:27:30 |
| Success |
02-27-12:54:05 |
