You are an expert in bioinformatics, sequencing technologies, genomics data analysis, and adjacent fields.

You are given findings from a MultiQC report, generated by a bioinformatics workflow.
MultiQC supports various bioinformatics tools that output QC metrics, and aggregates those metrics
into a single report. It outputs a "General Statistics" table with key metrics for each sample across
all tools. That table is followed by more detailed sections from specific tools, that can include tables,
as well as plots of different types (bar plot, line plot, scatter plot, heatmap, etc.)

You are given data from such a report. Your task is to analyse the data, and
give 1-2 bullet points of a very short and concise overall summary for the results.
Don't waste words: mention only the important QC issues. If there are no issues, just say so.
Just print one or two bullet points, nothing else.
Please do not add any extra headers to the response.

Use markdown to format your reponse for readability. Use directives with pre-defined classes
.text-green, .text-red, and .text-yellow to highlight severity, e.g. :span[39.2%]{.text-red}.
Highlight any mentioned sample names or sample named prefixes or suffixes with a sample directive,
and make sure to use the same color classes for severity, e.g. :sample[A1001.2003]{.text-yellow}
or :sample[A1001]{.text-yellow}. Do not put multiple sample names inside one directive.

You must use only multiples of 4 spaces to indent nested lists.



Two examples of short summaries:

- :span[11/13 samples]{.text-green} show consistent metrics within expected ranges.
- :sample[A1001.2003]{.text-red} and :sample[A1001.2004]{.text-red} exhibit extremely high percentage of :span[duplicates]{.text-red} (:span[65.54%]{.text-red} and :span[83.14%]{.text-red}, respectively).

- All samples show good quality metrics with :span[75.7-77.0%]{.text-green} CpG methylation and :span[76.3-86.0%]{.text-green} alignment rates
- :sample[2wk]{.text-yellow} samples show slightly higher duplication (:span[11-15%]{.text-yellow}) compared to :sample[1wk]{.text-green} samples (:span[6-9%]{.text-green})'



----------------------

Tools used in the report:

1. featureCounts
Description: <p>Counts mapped reads for genomic features such as genes, exons, promoter, gene bodies, genomic bins and chromosomal locations.</p>
Links: http://subread.sourceforge.net/


----------------------

2. STAR
Description: <p>Universal RNA-seq aligner.</p>
Links: https://github.com/alexdobin/STAR


----------------------

3. Cutadapt
Description: <p>Finds and removes adapter sequences, primers, poly-A tails, and other types of unwanted sequences.</p>
Links: https://cutadapt.readthedocs.io/


----------------------

4. FastQC: trimmed
Description: <p>Quality control tool for high throughput sequencing data.</p>
Links: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/


----------------------

5. FastQC: raw
Description: <p>Quality control tool for high throughput sequencing data.</p>
Links: http://www.bioinformatics.babraham.ac.uk/projects/fastqc/


----------------------

    MultiQC General Statistics (overview of key QC metrics for each sample, across all tools)
    Plot type: violin plot

Number of samples: 24

Metrics:
Assigned - Assigned reads (millions)
Assigned - % Assigned reads
Total reads - Number of input reads
Aligned - Mapped reads
Aligned - % Mapped reads
Uniq aligned - Uniquely mapped reads
Uniq aligned - % Uniquely mapped reads
Multimapped - Multiple mapped reads
Trimmed bases - % total base pairs trimmed (weighted average for grouped samples)
Dups - % duplicate reads (weighted average for grouped samples)
GC - Average % GC content (weighted average for grouped samples)
Avg len - Average read length (weighted average for grouped samples)
Median len - Median read length (weighted average for grouped samples)
Failed - Percentage of modules failed in FastQC report (includes those not plotted here)
Seqs - Total sequences (millions) (summed for grouped samples)

|Sample Name|Assigned|Assigned|Total reads|Aligned|Aligned|Uniq aligned|Uniq aligned|Multimapped|Trimmed bases|Dups|GC|Avg len|Median len|Failed|Seqs|
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|SRR3192396|71.90|67.55|104.41|101.49|97.21|97.83|93.70|3.66|3.24|75.87|50.5|98|100|41|208.83|
|SRR3192396 R1|||||||||2.53|72.81|50.0|98|100|36|104.41|
|SRR3192396 R2|||||||||3.96|78.93|51.0|97|100|45|104.41|
|SRR3192397|62.97|66.63|91.97|90.22|98.10|87.10|94.70|3.12|2.80|74.69|48.5|98|100|36|183.94|
|SRR3192397 R1|||||||||2.11|72.17|48.0|99|100|36|91.97|
|SRR3192397 R2|||||||||3.49|77.21|49.0|98|100|36|91.97|
|SRR3192398|36.51|50.87|66.57|63.85|95.92|58.68|88.15|5.17|4.95|57.64|47.0|97|100|32|133.13|
|SRR3192398 R1|||||||||4.91|59.96|47.0|97|100|36|66.57|
|SRR3192398 R2|||||||||4.99|55.31|47.0|97|100|27|66.57|
|SRR3192399|42.34|52.32|74.33|71.60|96.32|65.56|88.20|6.04|4.95|59.26|47.0|97|100|36|148.67|
|SRR3192399 R1|||||||||4.89|61.16|47.0|97|100|45|74.33|
|SRR3192399 R2|||||||||5.01|57.35|47.0|97|100|27|74.33|
|SRR3192400|63.44|70.32|94.93|78.89|83.10|73.37|77.29|5.52|6.21|75.05|45.0|94|99|27|189.85|
|SRR3192400 R1|||||||||5.27|76.03|45.0|95|100|27|94.93|
|SRR3192400 R2|||||||||7.15|74.07|45.0|94|98|27|94.93|
|SRR3192401|63.80|71.21|95.24|78.30|82.22|72.79|76.43|5.51|6.21|75.87|45.0|94|98|27|190.47|
|SRR3192401 R1|||||||||6.15|75.44|45.0|94|98|27|95.24|
|SRR3192401 R2|||||||||6.26|76.30|45.0|94|98|27|95.24|
|SRR3192657|67.12|73.15|93.14|87.67|94.12|84.96|91.21|2.71|2.53|81.40|50.5|98|100|27|186.29|
|SRR3192657 R1|||||||||1.97|80.66|50.0|99|100|27|93.14|
|SRR3192657 R2|||||||||3.08|82.15|51.0|98|100|27|93.14|
|SRR3192658|66.90|71.17|97.07|89.82|92.53|87.11|89.74|2.71|2.78|81.44|52.0|98|100|27|194.14|
|SRR3192658 R1|||||||||2.19|80.55|52.0|99|100|27|97.07|
|SRR3192658 R2|||||||||3.37|82.34|52.0|98|100|27|97.07|

    