MultiQC Report

A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

General Statistics

Showing ¹⁰⁴/₁₀₄ rows and ³/₅ columns.

Sample Name	% Dups	% GC	Length	% Failed	M Seqs
HGTYHAFXY_n01_r4zt14tc2s10	0.0%	26%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s12	0.0%	35%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s13	0.0%	59%	76	36%	0.0
HGTYHAFXY_n01_r4zt14tc2s20	0.0%	39%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s21	0.0%	42%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s26	0.0%	46%	76	36%	0.0
HGTYHAFXY_n01_r4zt14tc2s28	0.0%	39%	76	25%	0.0
HGTYHAFXY_n01_r4zt14tc2s29	0.0%	55%	76	45%	0.0
HGTYHAFXY_n01_r4zt14tc2s32	0.0%	72%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s34	0.0%	34%	76	18%	0.0
HGTYHAFXY_n01_r4zt14tc2s36	0.0%	39%	76	33%	0.0
HGTYHAFXY_n01_r4zt14tc2s37	0.0%	60%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s4	0.0%	38%	76	36%	0.0
HGTYHAFXY_n01_r4zt14tc2s42	0.0%	51%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s44	0.0%	36%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s45	0.0%	53%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s5	0.0%	41%	76	45%	0.0
HGTYHAFXY_n01_r4zt14tc2s52	0.0%	63%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s60	12.5%	48%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s68	0.0%	45%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s76	0.0%	26%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s77	0.0%	55%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s82	0.0%	100%	76	27%	0.0
HGTYHAFXY_n01_r4zt14tc2s84	0.0%	30%	76	25%	0.0
HGTYHAFXY_n01_r4zt14tc2s92	0.0%	19%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s12	0.0%	37%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s13	0.0%	60%	76	36%	0.0
HGTYHAFXY_n01_r4zt2s18	0.0%	57%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s20	0.0%	35%	76	36%	0.0
HGTYHAFXY_n01_r4zt2s21	0.0%	45%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s28	0.0%	37%	76	36%	0.0
HGTYHAFXY_n01_r4zt2s29	0.0%	67%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s34	0.0%	35%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s36	0.0%	28%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s4	0.0%	38%	76	33%	0.0
HGTYHAFXY_n01_r4zt2s42	0.0%	22%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s43	0.0%	36%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s44	0.0%	31%	76	25%	0.0
HGTYHAFXY_n01_r4zt2s45	0.0%	44%	76	45%	0.0
HGTYHAFXY_n01_r4zt2s50	0.0%	57%	76	36%	0.0
HGTYHAFXY_n01_r4zt2s52	0.0%	35%	76	36%	0.0
HGTYHAFXY_n01_r4zt2s53	0.0%	45%	76	36%	0.0
HGTYHAFXY_n01_r4zt2s57	0.0%	46%	76	18%	0.0
HGTYHAFXY_n01_r4zt2s60	0.0%	35%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s68	0.0%	34%	76	36%	0.0
HGTYHAFXY_n01_r4zt2s69	0.0%	47%	76	36%	0.0
HGTYHAFXY_n01_r4zt2s7	0.0%	31%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s74	0.0%	32%	76	18%	0.0
HGTYHAFXY_n01_r4zt2s76	0.0%	34%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s82	0.0%	34%	76	27%	0.0
HGTYHAFXY_n01_r4zt2s84	12.5%	31%	76	27%	0.0
HGTYHAFXY_n01_undetermined	73.7%	53%	76	33%	27.6
HGTYHAFXY_n02_r4zt14tc2s10	0.0%	11%	76	18%	0.0
HGTYHAFXY_n02_r4zt14tc2s12	0.0%	24%	76	27%	0.0
HGTYHAFXY_n02_r4zt14tc2s13	0.0%	59%	76	36%	0.0
HGTYHAFXY_n02_r4zt14tc2s20	0.0%	21%	76	36%	0.0
HGTYHAFXY_n02_r4zt14tc2s21	0.0%	53%	76	27%	0.0
HGTYHAFXY_n02_r4zt14tc2s26	0.0%	25%	76	45%	0.0
HGTYHAFXY_n02_r4zt14tc2s28	0.0%	22%	76	25%	0.0
HGTYHAFXY_n02_r4zt14tc2s29	0.0%	100%	76	36%	0.0
HGTYHAFXY_n02_r4zt14tc2s32	0.0%	90%	76	36%	0.0
HGTYHAFXY_n02_r4zt14tc2s34	0.0%	11%	76	18%	0.0
HGTYHAFXY_n02_r4zt14tc2s36	0.0%	16%	76	25%	0.0
HGTYHAFXY_n02_r4zt14tc2s37	0.0%	58%	76	18%	0.0
HGTYHAFXY_n02_r4zt14tc2s4	0.0%	23%	76	36%	0.0
HGTYHAFXY_n02_r4zt14tc2s42	0.0%	51%	76	36%	0.0
HGTYHAFXY_n02_r4zt14tc2s44	0.0%	22%	76	27%	0.0
HGTYHAFXY_n02_r4zt14tc2s45	0.0%	48%	76	27%	0.0
HGTYHAFXY_n02_r4zt14tc2s5	0.0%	46%	76	45%	0.0
HGTYHAFXY_n02_r4zt14tc2s52	0.0%	55%	76	27%	0.0
HGTYHAFXY_n02_r4zt14tc2s60	0.0%	18%	76	27%	0.0
HGTYHAFXY_n02_r4zt14tc2s68	0.0%	39%	76	27%	0.0
HGTYHAFXY_n02_r4zt14tc2s76	0.0%	10%	76	36%	0.0
HGTYHAFXY_n02_r4zt14tc2s77	0.0%	53%	76	18%	0.0
HGTYHAFXY_n02_r4zt14tc2s82	0.0%	3%	76	18%	0.0
HGTYHAFXY_n02_r4zt14tc2s84	0.0%	9%	76	33%	0.0
HGTYHAFXY_n02_r4zt14tc2s92	0.0%	3%	76	18%	0.0
HGTYHAFXY_n02_r4zt2s12	0.0%	24%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s13	0.0%	59%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s18	0.0%	57%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s20	0.0%	24%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s21	0.0%	36%	76	18%	0.0
HGTYHAFXY_n02_r4zt2s28	0.0%	16%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s29	0.0%	59%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s34	0.0%	2%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s36	0.0%	12%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s4	0.0%	25%	76	25%	0.0
HGTYHAFXY_n02_r4zt2s42	0.0%	6%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s43	0.0%	40%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s44	0.0%	19%	76	33%	0.0
HGTYHAFXY_n02_r4zt2s45	0.0%	44%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s50	0.0%	57%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s52	0.0%	24%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s53	0.0%	41%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s57	0.0%	51%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s60	0.0%	28%	76	45%	0.0
HGTYHAFXY_n02_r4zt2s68	0.0%	21%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s69	0.0%	51%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s7	0.0%	26%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s74	0.0%	23%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s76	0.0%	20%	76	27%	0.0
HGTYHAFXY_n02_r4zt2s82	0.0%	18%	76	36%	0.0
HGTYHAFXY_n02_r4zt2s84	0.0%	9%	76	27%	0.0
HGTYHAFXY_n02_undetermined	72.9%	54%	76	42%	27.6

Uncheck the tick box to hide columns. Click and drag the handle on the left to change order.

Sort	Group	Column	Description	ID	Scale
\|\|	FastQC	% Dups	% Duplicate Reads	`percent_duplicates`	None
\|\|	FastQC	% GC	Average % GC Content	`percent_gc`	None
\|\|	FastQC	Length	Average Sequence Length (bp)	`avg_sequence_length`	None
\|\|	FastQC	% Failed	Percentage of modules failed in FastQC report (includes those not plotted here)	`percent_fails`	None
\|\|	FastQC	M Seqs	Total Sequences (millions)	`total_sequences`	read_count

Demultiplexing Report

Demultiplexing Report
Total Read Count: Total number of PF (Passing Filter) reads in this library.
Portion: The proportion of reads that represent the individual library in the entire Library Pool.

Showing ¹⁹³/₁₉₃ rows and ²/₂ columns.

Sample Name	Total Read Count	Portion (%)
undetermined_library	27,623,676	100.0
r4zt14tc2s1	0.0	0.0
r4zt14tc2s2	0.0	0.0
r4zt14tc2s3	0.0	0.0
r4zt14tc2s4	7.0	0.0
r4zt14tc2s5	2.0	0.0
r4zt14tc2s6	0.0	0.0
r4zt14tc2s7	0.0	0.0
r4zt14tc2s8	0.0	0.0
r4zt14tc2s9	0.0	0.0
r4zt14tc2s10	1.0	0.0
r4zt14tc2s11	0.0	0.0
r4zt14tc2s12	6.0	0.0
r4zt14tc2s13	1.0	0.0
r4zt14tc2s14	0.0	0.0
r4zt14tc2s15	0.0	0.0
r4zt14tc2s16	0.0	0.0
r4zt14tc2s17	0.0	0.0
r4zt14tc2s18	0.0	0.0
r4zt14tc2s19	0.0	0.0
r4zt14tc2s20	3.0	0.0
r4zt14tc2s21	1.0	0.0
r4zt14tc2s22	0.0	0.0
r4zt14tc2s23	0.0	0.0
r4zt14tc2s24	0.0	0.0
r4zt14tc2s25	0.0	0.0
r4zt14tc2s26	3.0	0.0
r4zt14tc2s27	0.0	0.0
r4zt14tc2s28	11.0	0.0
r4zt14tc2s29	1.0	0.0
r4zt14tc2s30	0.0	0.0
r4zt14tc2s31	0.0	0.0
r4zt14tc2s32	1.0	0.0
r4zt14tc2s33	0.0	0.0
r4zt14tc2s34	2.0	0.0
r4zt14tc2s35	0.0	0.0
r4zt14tc2s36	16.0	0.0
r4zt14tc2s37	2.0	0.0
r4zt14tc2s38	0.0	0.0
r4zt14tc2s39	0.0	0.0
r4zt14tc2s40	0.0	0.0
r4zt14tc2s41	0.0	0.0
r4zt14tc2s42	1.0	0.0
r4zt14tc2s43	0.0	0.0
r4zt14tc2s44	3.0	0.0
r4zt14tc2s45	1.0	0.0
r4zt14tc2s46	0.0	0.0
r4zt14tc2s47	0.0	0.0
r4zt14tc2s48	0.0	0.0
r4zt14tc2s49	0.0	0.0
r4zt14tc2s50	0.0	0.0
r4zt14tc2s51	0.0	0.0
r4zt14tc2s52	1.0	0.0
r4zt14tc2s53	0.0	0.0
r4zt14tc2s54	0.0	0.0
r4zt14tc2s55	0.0	0.0
r4zt14tc2s56	0.0	0.0
r4zt14tc2s57	0.0	0.0
r4zt14tc2s58	0.0	0.0
r4zt14tc2s59	0.0	0.0
r4zt14tc2s60	8.0	0.0
r4zt14tc2s61	0.0	0.0
r4zt14tc2s62	0.0	0.0
r4zt14tc2s63	0.0	0.0
r4zt14tc2s64	0.0	0.0
r4zt14tc2s65	0.0	0.0
r4zt14tc2s66	0.0	0.0
r4zt14tc2s67	0.0	0.0
r4zt14tc2s68	3.0	0.0
r4zt14tc2s69	0.0	0.0
r4zt14tc2s70	0.0	0.0
r4zt14tc2s71	0.0	0.0
r4zt14tc2s72	0.0	0.0
r4zt14tc2s73	0.0	0.0
r4zt14tc2s74	0.0	0.0
r4zt14tc2s75	0.0	0.0
r4zt14tc2s76	1.0	0.0
r4zt14tc2s77	1.0	0.0
r4zt14tc2s78	0.0	0.0
r4zt14tc2s79	0.0	0.0
r4zt14tc2s80	0.0	0.0
r4zt14tc2s81	0.0	0.0
r4zt14tc2s82	1.0	0.0
r4zt14tc2s83	0.0	0.0
r4zt14tc2s84	12.0	0.0
r4zt14tc2s85	0.0	0.0
r4zt14tc2s86	0.0	0.0
r4zt14tc2s87	0.0	0.0
r4zt14tc2s88	0.0	0.0
r4zt14tc2s89	0.0	0.0
r4zt14tc2s90	0.0	0.0
r4zt14tc2s91	0.0	0.0
r4zt14tc2s92	1.0	0.0
r4zt14tc2s93	0.0	0.0
r4zt14tc2s94	0.0	0.0
r4zt14tc2s95	0.0	0.0
r4zt14tc2s96	0.0	0.0
r4zt2s1	0.0	0.0
r4zt2s2	0.0	0.0
r4zt2s3	0.0	0.0
r4zt2s4	13.0	0.0
r4zt2s5	0.0	0.0
r4zt2s6	0.0	0.0
r4zt2s7	1.0	0.0
r4zt2s8	0.0	0.0
r4zt2s9	0.0	0.0
r4zt2s10	0.0	0.0
r4zt2s11	0.0	0.0
r4zt2s12	3.0	0.0
r4zt2s13	2.0	0.0
r4zt2s14	0.0	0.0
r4zt2s15	0.0	0.0
r4zt2s16	0.0	0.0
r4zt2s17	0.0	0.0
r4zt2s18	1.0	0.0
r4zt2s19	0.0	0.0
r4zt2s20	2.0	0.0
r4zt2s21	2.0	0.0
r4zt2s22	0.0	0.0
r4zt2s23	0.0	0.0
r4zt2s24	0.0	0.0
r4zt2s25	0.0	0.0
r4zt2s26	0.0	0.0
r4zt2s27	0.0	0.0
r4zt2s28	7.0	0.0
r4zt2s29	1.0	0.0
r4zt2s30	0.0	0.0
r4zt2s31	0.0	0.0
r4zt2s32	0.0	0.0
r4zt2s33	0.0	0.0
r4zt2s34	1.0	0.0
r4zt2s35	0.0	0.0
r4zt2s36	6.0	0.0
r4zt2s37	0.0	0.0
r4zt2s38	0.0	0.0
r4zt2s39	0.0	0.0
r4zt2s40	0.0	0.0
r4zt2s41	0.0	0.0
r4zt2s42	1.0	0.0
r4zt2s43	1.0	0.0
r4zt2s44	11.0	0.0
r4zt2s45	2.0	0.0
r4zt2s46	0.0	0.0
r4zt2s47	0.0	0.0
r4zt2s48	0.0	0.0
r4zt2s49	0.0	0.0
r4zt2s50	1.0	0.0
r4zt2s51	0.0	0.0
r4zt2s52	9.0	0.0
r4zt2s53	4.0	0.0
r4zt2s54	0.0	0.0
r4zt2s55	0.0	0.0
r4zt2s56	0.0	0.0
r4zt2s57	1.0	0.0
r4zt2s58	0.0	0.0
r4zt2s59	0.0	0.0
r4zt2s60	7.0	0.0
r4zt2s61	0.0	0.0
r4zt2s62	0.0	0.0
r4zt2s63	0.0	0.0
r4zt2s64	0.0	0.0
r4zt2s65	0.0	0.0
r4zt2s66	0.0	0.0
r4zt2s67	0.0	0.0
r4zt2s68	8.0	0.0
r4zt2s69	2.0	0.0
r4zt2s70	0.0	0.0
r4zt2s71	0.0	0.0
r4zt2s72	0.0	0.0
r4zt2s73	0.0	0.0
r4zt2s74	1.0	0.0
r4zt2s75	0.0	0.0
r4zt2s76	7.0	0.0
r4zt2s77	0.0	0.0
r4zt2s78	0.0	0.0
r4zt2s79	0.0	0.0
r4zt2s80	0.0	0.0
r4zt2s81	0.0	0.0
r4zt2s82	1.0	0.0
r4zt2s83	0.0	0.0
r4zt2s84	8.0	0.0
r4zt2s85	0.0	0.0
r4zt2s86	0.0	0.0
r4zt2s87	0.0	0.0
r4zt2s88	0.0	0.0
r4zt2s89	0.0	0.0
r4zt2s90	0.0	0.0
r4zt2s91	0.0	0.0
r4zt2s92	0.0	0.0
r4zt2s93	0.0	0.0
r4zt2s94	0.0	0.0
r4zt2s95	0.0	0.0
r4zt2s96	0.0	0.0

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Sort	Visible	Group	Column	Description	ID	Scale
\|\|			Total Read Count	Total Read Count	`Total Read Count`	None
\|\|			Portion (%)	Portion (%)	`Portion (%)`	None

Barcodes of Undetermined Reads

Barcodes of Undetermined Reads
We have determined the barcodes of your undetermined reads (reads containing a barcode that you did not encode in your metadata). Here are the top 20 barcodes belonging to the undetermined reads. The full list is available here.

Showing ²⁰/₂₀ rows and ²/₂ columns.

Sample Name	Count	Frequency (%)
GGGGGGGGAGATCTCG	11823722.0	42.8
GGGGGGGGGGGGGGGG	2636265.0	9.5
GGGGGGGGCGGAGAGA	420325.0	1.5
CGTACTAGAGAGGATA	263690.0	0.9
TCCTGAGCTATGCAGT	239122.0	0.9
ACTCGCTATATGCAGT	223997.0	0.8
GGAGCTACCGGAGAGA	172223.0	0.6
GGAGCTACCTCCTTAC	141998.0	0.5
CGTACTAGTATGCAGT	137055.0	0.5
ATGCGCAGATAGAGAG	133954.0	0.5
TCGACGTCTATGCAGT	120006.0	0.4
CCTAAGACCGGAGAGA	119878.0	0.4
CCTAAGACTATGCAGT	119264.0	0.4
TAGCGCTCTATGCAGT	111562.0	0.4
CGATCAGTCGGAGAGA	108131.0	0.4
ATGCGCAGAGAGGATA	107602.0	0.4
TACGCTGCCTCCTTAC	107099.0	0.4
ACTCGCTAAGAGGATA	106463.0	0.4
ACTCGCTATACTCCTT	98448.0	0.4
CGGAGCCTTATGCAGT	93315.0	0.3

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Sort	Visible	Group	Column	Description	ID	Scale
\|\|			Count	Count	`Count`	None
\|\|			Frequency (%)	Frequency (%)	`Frequency (%)`	None

Sample Name	Total # of Single-End Reads	Total # PF Reads	% Undetermined	% PhiX Aligned
4.0	28,629,426	27,623,869	100.0	43.9

Sort	Column	Description	ID	Scale
\|\|	Total # of Single-End Reads	Total # of Single-End Reads	`Total # of Single-End Reads`	None
\|\|	Total # PF Reads	Total # PF Reads	`Total # PF Reads`	None
\|\|	% Undetermined	% Undetermined	`% Undetermined`	None
\|\|	% PhiX Aligned	% PhiX Aligned	`% PhiX Aligned`	None

FastQC

FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

Sequence Quality Histograms

The mean quality value across each base position in the read. See the FastQC help.

Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

Per Sequence Quality Scores

The number of reads with average quality scores. Shows if a subset of reads has poor quality. See the FastQC help.

Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

Per Base Sequence Content

The proportion of each base position for which each of the four normal DNA bases has been called. See the FastQC help.

Click a heatmap row to see a line plot for that dataset.

rollover for sample name

Position: -

%T: -

%C: -

%A: -

%G: -

Per Sequence GC Content

The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content. See the FastQC help.

Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

Per Base N Content

The percentage of base calls at each position for which an N was called. See the FastQC help.

Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

Sequence Length Distribution

All samples have sequences of a single length (76bp).

Sequence Duplication Levels

The relative level of duplication found for every sequence. See the FastQC help.

Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

Overrepresented sequences

The total amount of overrepresented sequences found in each library. See the FastQC help for further information.

Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).

Adapter Content

The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. See the FastQC help. Only samples with ≥ 0.1% adapter contamination are shown.

v1.0.dev0

MultiQC Toolbox

Highlight Samples

Rename Samples

Show / Hide Samples

Export Plots

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About MultiQC

General Statistics

Demultiplexing Report

Barcodes of Undetermined Reads

Run Statistics

FastQC

Sequence Quality Histograms

Per Sequence Quality Scores

Per Base Sequence Content

rollover for sample name

Per Sequence GC Content

Per Base N Content

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented sequences

Adapter Content

Toggle navigation v1.0.dev0

MultiQC Toolbox

Apply Highlight Samples

Apply Rename Samples

Apply Show / Hide Samples

Export Plots

Choose Plots

Save Settings

Load Settings

About MultiQC

General Statistics

General Statistics: Columns

Demultiplexing Report

Table Bcqo: Columns

Barcodes of Undetermined Reads

Table Nvad: Columns

Run Statistics

Table Pisu: Columns

FastQC

Sequence Quality Histograms

Per Sequence Quality Scores

Per Base Sequence Content

rollover for sample name

Per Sequence GC Content

Per Base N Content

Sequence Length Distribution

Sequence Duplication Levels

Overrepresented sequences

Adapter Content

v1.0.dev0

Highlight Samples

Rename Samples

Show / Hide Samples