MultiQC Report

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

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Report generated on 2017-12-21, 16:04 based on data in:

/group/ag_abi/kneubert/brucella_assembly_fields/multiQC_e1h2/multiQC_3/QUAST_final
/group/ag_abi/kneubert/brucella_assembly_fields/multiQC_e1h2/multiQC_3/qualimap
/group/ag_abi/kneubert/brucella_assembly_fields/multiQC_e1h2/multiQC_3/Prokka_scaffolds

General Statistics

Showing ²⁰⁰/₂₀₀ rows and ¹⁰/₁₇ columns.

Sample Name	Avg. GC	Insert Size	≥ 1X	≥ 5X	≥ 10X	≥ 30X	≥ 50X	Coverage	% Aligned	M Aligned	M Total reads	N50 (Kbp)	Length (Mbp)	Organism	Contigs	Bases	CDS
17-BR00544	58%	492bp	100.0%	100.0%	100.0%	99.8%	99.3%	105.0X	99.7%	1.4	1.4	2178.6bp	3.2bp	Genus species	4.0	3202642	3025
17-BR00544_broken												691.1bp	3.1bp
17-BR00545	58%	535bp	100.0%	100.0%	99.9%	99.5%	95.9%	75.0X	99.6%	1.1	1.1	2178.6bp	3.5bp	Genus species	2.0	3463151	3152
17-BR00545_broken												448.5bp	3.1bp
17-BR00546	58%	484bp	100.0%	100.0%	99.9%	95.7%	37.1%	46.0X	99.4%	0.9	1.0	2342.2bp	3.5bp	Genus species	6.0	3543115	3255
17-BR00546_broken												361.4bp	3.3bp
17-BR00547	58%	450bp	100.0%	100.0%	100.0%	98.0%	57.8%	52.0X	99.5%	1.0	1.1	2207.8bp	3.3bp	Genus species	5.0	3309277	3070
17-BR00547_broken												753.7bp	3.1bp
17-BR00548	58%	514bp	100.0%	99.9%	99.8%	97.8%	64.2%	54.0X	99.7%	0.8	0.8	2134.8bp	3.3bp	Genus species	3.0	3308244	3080
17-BR00548_broken												360.2bp	3.2bp
17-BR00549	58%	507bp	100.0%	100.0%	99.9%	99.5%	98.2%	90.0X	99.6%	1.3	1.3	2181.8bp	3.2bp	Genus species	2.0	3192370	3013
17-BR00549_broken												621.2bp	3.1bp
17-BR00550	57%	390bp	100.0%	100.0%	100.0%	99.8%	99.2%	111.0X	99.7%	1.6	1.6	2341.1bp	3.6bp	Genus species	9.0	3598416	3274
17-BR00550_broken												614.3bp	3.3bp
17-BR00551	58%	431bp	100.0%	100.0%	100.0%	99.7%	99.2%	114.0X	99.7%	1.6	1.6	2130.1bp	3.2bp	Genus species	5.0	3156332	3005
17-BR00551_broken												359.6bp	3.1bp
17-BR00552	58%	474bp	100.0%	99.9%	99.9%	99.6%	97.3%	81.0X	99.5%	1.7	1.7	2137.7bp	3.0bp	Genus species	2.0	2986342	2838
17-BR00552_broken												358.6bp	3.0bp
17-BR00553	58%	448bp	100.0%	100.0%	99.9%	97.8%	53.7%	50.0X	99.4%	1.0	1.0	2266.3bp	3.3bp	Genus species	2.0	3294249	3066
17-BR00553_broken												394.3bp	3.1bp
17-BR00554	57%	423bp	100.0%	100.0%	100.0%	99.8%	99.5%	120.0X	99.7%	1.6	1.6	2740.6bp	3.3bp	Genus species	3.0	3319258	3162
17-BR00554_broken												321.4bp	3.3bp
17-BR00555	58%	524bp	100.0%	99.9%	99.9%	99.3%	97.3%	83.0X	99.6%	1.1	1.1	2133.2bp	3.2bp	Genus species	5.0	3166719	3014
17-BR00555_broken												359.2bp	3.1bp
17-BR00556	58%	404bp	100.0%	100.0%	100.0%	99.7%	96.5%	77.0X	99.5%	1.5	1.6	2357.1bp	3.4bp	Genus species	4.0	3381912	3172
17-BR00556_broken												531.8bp	3.3bp
17-BR00557	58%	420bp	100.0%	100.0%	100.0%	99.8%	99.4%	133.0X	99.7%	1.8	1.8	2183.5bp	3.4bp	Genus species	3.0	3391326	3117
17-BR00557_broken												614.2bp	3.1bp
17-BR00558	57%	518bp	100.0%	100.0%	99.9%	90.8%	25.8%	42.0X	99.7%	0.6	0.6	2182.0bp	3.5bp	Genus species	2.0	3472009	3158
17-BR00558_broken												359.5bp	3.1bp
17-BR00559	57%	448bp	100.0%	100.0%	99.9%	98.9%	75.6%	59.0X	99.6%	0.8	0.8	2233.3bp	3.3bp	Genus species	2.0	3333002	3075
17-BR00559_broken												394.0bp	3.1bp
17-BR00560	57%	393bp	100.0%	100.0%	100.0%	99.9%	99.7%	114.0X	99.7%	1.6	1.6	2181.9bp	3.5bp	Genus species	2.0	3458577	3142
17-BR00560_broken												705.3bp	3.1bp
17-BR00561	57%	522bp	100.0%	100.0%	99.9%	96.5%	48.1%	49.0X	99.6%	0.6	0.6	2265.2bp	3.4bp	Genus species	4.0	3436290	3132
17-BR00561_broken												562.7bp	3.1bp
17-BR00562	57%	462bp	100.0%	100.0%	100.0%	99.8%	99.2%	104.0X	99.7%	1.4	1.4	2184.1bp	3.5bp	Genus species	2.0	3461421	3156
17-BR00562_broken												563.2bp	3.1bp
17-BR00563	57%	457bp	100.0%	100.0%	100.0%	99.8%	99.3%	101.0X	99.6%	1.4	1.4	2132.6bp	3.2bp	Genus species	2.0	3165250	3009
17-BR00563_broken												601.7bp	3.1bp
17-BR00564	57%	422bp	100.0%	100.0%	100.0%	99.9%	99.6%	118.0X	99.7%	1.6	1.6	2371.9bp	3.4bp	Genus species	4.0	3383834	3192
17-BR00564_broken												800.3bp	3.3bp
17-BR00565	57%	424bp	100.0%	100.0%	100.0%	99.9%	99.5%	107.0X	99.7%	1.5	1.5	2514.0bp	3.5bp	Genus species	5.0	3530710	3260
17-BR00565_broken												276.7bp	3.3bp
17-BR00566	57%	403bp	100.0%	100.0%	100.0%	99.9%	99.6%	120.0X	99.7%	1.7	1.7	2379.7bp	3.4bp	Genus species	4.0	3406400	3181
17-BR00566_broken												475.3bp	3.3bp
17-BR00568	57%	409bp	100.0%	100.0%	100.0%	99.9%	99.8%	166.0X	99.7%	2.3	2.3	2129.5bp	2.7bp	Genus species	3.0	2700073	2442
17-BR00568_broken												605.7bp	2.4bp
17-BR00569	57%	415bp	100.0%	100.0%	100.0%	99.8%	99.6%	140.0X	99.7%	1.9	1.9	2132.5bp	2.7bp	Genus species	3.0	2702528	2575
17-BR00569_broken												435.9bp	2.7bp
17-BR00570	58%	526bp	100.0%	100.0%	99.9%	98.6%	73.2%	57.0X	99.6%	0.8	0.8	2131.9bp	2.7bp	Genus species	3.0	2701912	2569
17-BR00570_broken												559.2bp	2.7bp
17-BR00571	58%	450bp	100.0%	100.0%	100.0%	99.7%	98.9%	97.0X	99.6%	1.3	1.3	2376.0bp	3.4bp	Genus species	7.0	3450121	3209
17-BR00571_broken												531.9bp	3.3bp
17-BR00572	58%	449bp	100.0%	100.0%	99.9%	97.6%	49.8%	49.0X	99.4%	1.0	1.0	2436.6bp	3.5bp	Genus species	8.0	3510539	3228
17-BR00572_broken												428.6bp	3.3bp
17-BR00573	57%	471bp	100.0%	100.0%	100.0%	99.7%	97.7%	84.0X	99.6%	1.1	1.1	2137.5bp	3.2bp	Genus species	2.0	3163384	3016
17-BR00573_broken												454.4bp	3.1bp
17-BR00574	58%	512bp	100.0%	100.0%	99.9%	99.4%	89.6%	66.0X	99.6%	0.9	0.9	2135.8bp	3.4bp	Genus species	2.0	3419610	3127
17-BR00574_broken												442.5bp	3.1bp
17-BR00576	58%	466bp	100.0%	99.9%	99.8%	99.5%	98.4%	94.0X	99.7%	1.2	1.2	2189.9bp	3.2bp	Genus species	27.0	3210467	3186
17-BR00576_broken												74.2bp	3.2bp
17-BR00577	58%	440bp	100.0%	100.0%	100.0%	99.8%	99.4%	105.0X	99.7%	1.4	1.4	2341.3bp	3.4bp	Genus species	6.0	3414089	3194
17-BR00577_broken												896.9bp	3.3bp
17-BR00581	57%	381bp	100.0%	100.0%	100.0%	99.7%	96.0%	78.0X	99.7%	1.2	1.2	2136.4bp	3.2bp	Genus species	2.0	3162494	2904
17-BR00581_broken												359.6bp	3.0bp
17-BR00582	57%	449bp	100.0%	100.0%	100.0%	99.7%	98.5%	85.0X	99.6%	1.2	1.2	2132.5bp	3.2bp	Genus species	2.0	3156893	3021
17-BR00582_broken												614.3bp	3.1bp
17-BR00583	57%	416bp	100.0%	100.0%	100.0%	99.8%	98.9%	92.0X	99.7%	1.2	1.2	2071.9bp	3.7bp	Genus species	9.0	3659872	3308
17-BR00583_broken												813.0bp	3.3bp
17-BR00584	57%	474bp	100.0%	100.0%	99.9%	99.5%	93.0%	70.0X	99.7%	0.9	0.9	2181.4bp	3.6bp	Genus species	3.0	3618547	3295
17-BR00584_broken												605.5bp	3.3bp
17-BR00585	57%	455bp	100.0%	100.0%	99.9%	99.6%	96.6%	78.0X	99.6%	1.0	1.0	2139.1bp	3.4bp	Genus species	2.0	3424198	3125
17-BR00585_broken												359.7bp	3.1bp
17-BR00586	57%	441bp	100.0%	100.0%	100.0%	99.8%	99.6%	135.0X	99.7%	1.8	1.8	2338.4bp	3.7bp	Genus species	6.0	3662423	3307
17-BR00586_broken												568.6bp	3.3bp
17-BR00587	57%	427bp	100.0%	100.0%	100.0%	99.7%	98.8%	88.0X	99.7%	1.2	1.2	2133.2bp	3.2bp	Genus species	3.0	3158092	3011
17-BR00587_broken												881.8bp	3.1bp
17-BR00588	57%	400bp	100.0%	100.0%	100.0%	99.8%	99.0%	98.0X	99.7%	1.3	1.3	2178.7bp	2.7bp	Genus species	3.0	2749947	2587
17-BR00588_broken												627.4bp	2.7bp
17-BR00589	57%	356bp	100.0%	100.0%	100.0%	99.9%	99.8%	138.0X	99.8%	2.3	2.3	2139.9bp	3.2bp	Genus species	3.0	3164845	3000
17-BR00589_broken												268.8bp	3.1bp
17-BR00592	58%	418bp	100.0%	100.0%	100.0%	99.8%	99.6%	150.0X	99.7%	2.0	2.0	2133.2bp	3.4bp	Genus species	4.0	3419217	3134
17-BR00592_broken												359.4bp	3.1bp
17-BR00593	58%	401bp	100.0%	100.0%	100.0%	99.8%	99.4%	119.0X	99.7%	1.6	1.6	2127.5bp	3.2bp	Genus species	5.0	3152518	2999
17-BR00593_broken												376.5bp	3.1bp
17-BR00594	58%	416bp	100.0%	100.0%	100.0%	99.8%	99.6%	165.0X	99.8%	2.3	2.3	2135.4bp	3.2bp	Genus species	2.0	3166939	3012
17-BR00594_broken												969.5bp	3.1bp
17-BR00595	58%	423bp	100.0%	100.0%	100.0%	99.8%	99.4%	116.0X	99.7%	1.6	1.6	2181.8bp	3.2bp	Genus species	3.0	3206174	3023
17-BR00595_broken												568.7bp	3.1bp
17-BR00596	57%	494bp	91.3%	90.7%	90.2%	77.1%	18.2%	39.0X	86.1%	0.8	1.0	2238.1bp	4.1bp	Genus species	67.0	4145522	3675
17-BR00596_broken												143.5bp	3.4bp
17-BR00597	57%	322bp	100.0%	100.0%	100.0%	99.9%	98.6%	96.0X	99.0%	2.0	2.1	2466.4bp	3.3bp	Genus species	5.0	3315184	3151
17-BR00597_broken												333.1bp	3.3bp
17-BR00598	57%	406bp	100.0%	100.0%	100.0%	99.6%	94.8%	73.0X	99.3%	1.5	1.6	2129.2bp	3.2bp	Genus species	2.0	3154163	3005
17-BR00598_broken												531.9bp	3.1bp
17-BR00599	57%	393bp	100.0%	100.0%	99.9%	95.6%	42.6%	47.0X	99.3%	1.1	1.1	2136.1bp	3.2bp	Genus species	2.0	3160839	3010
17-BR00599_broken												394.0bp	3.1bp
17-BR00600	57%	429bp	100.0%	100.0%	99.9%	99.5%	90.1%	67.0X	99.4%	1.4	1.4	2239.7bp	3.5bp	Genus species	4.0	3494908	3225
17-BR00600_broken												436.2bp	3.3bp
17-BR00601	57%	358bp	100.0%	100.0%	100.0%	99.8%	96.5%	76.0X	99.4%	1.6	1.6	2133.4bp	3.3bp	Genus species	3.0	3314834	3152
17-BR00601_broken												333.6bp	3.3bp
17-BR00602	57%	333bp	100.0%	100.0%	100.0%	99.8%	99.0%	91.0X	99.4%	2.0	2.0	2132.1bp	3.2bp	Genus species	3.0	3157621	3015
17-BR00602_broken												359.6bp	3.1bp
17-BR00603	57%	383bp	100.0%	100.0%	99.9%	99.6%	92.9%	70.0X	99.3%	1.5	1.5	2127.6bp	3.2bp	Genus species	2.0	3151965	3010
17-BR00603_broken												568.6bp	3.1bp
17-BR00604	57%	393bp	100.0%	100.0%	100.0%	99.7%	93.5%	71.0X	99.3%	1.5	1.5	2403.7bp	3.3bp	Genus species	5.0	3308427	3153
17-BR00604_broken												531.7bp	3.3bp
17-BR00605	57%	407bp	100.0%	100.0%	99.9%	98.1%	61.5%	53.0X	99.3%	1.1	1.1	2129.5bp	3.2bp	Genus species	2.0	3154116	3007
17-BR00605_broken												359.9bp	3.1bp
17-BR00606	57%	364bp	100.0%	100.0%	100.0%	99.6%	93.2%	70.0X	99.3%	1.5	1.5	2128.9bp	3.2bp	Genus species	4.0	3155056	3010
17-BR00606_broken												276.8bp	3.1bp
17-BR00607	57%	413bp	100.0%	100.0%	100.0%	98.8%	67.5%	55.0X	99.3%	1.2	1.2	2131.8bp	3.2bp	Genus species	2.0	3161152	3016
17-BR00607_broken												754.0bp	3.1bp
17-BR00608	57%	447bp	100.0%	100.0%	99.9%	99.2%	81.4%	60.0X	99.4%	1.3	1.3	2128.1bp	3.2bp	Genus species	4.0	3155859	3009
17-BR00608_broken												754.0bp	3.1bp
17-BR00609	57%	382bp	100.0%	100.0%	100.0%	99.1%	76.1%	58.0X	99.3%	1.2	1.2	2135.6bp	3.2bp	Genus species	3.0	3159383	3002
17-BR00609_broken												392.7bp	3.1bp
17-BR00610	57%	393bp	100.0%	100.0%	100.0%	99.5%	84.0%	62.0X	99.3%	1.3	1.3	2129.8bp	3.1bp	Genus species	4.0	3141256	2989
17-BR00610_broken												427.4bp	3.1bp
17-BR00611	57%	332bp	100.0%	100.0%	100.0%	99.8%	99.1%	95.0X	99.3%	2.0	2.0	2737.8bp	3.3bp	Genus species	3.0	3309322	3160
17-BR00611_broken												473.8bp	3.3bp
17-BR00612	57%	373bp	100.0%	100.0%	100.0%	99.7%	93.7%	72.0X	99.3%	1.5	1.5	2134.0bp	3.2bp	Genus species	3.0	3162343	3013
17-BR00612_broken												531.7bp	3.1bp
17-BR00613	57%	384bp	100.0%	100.0%	99.9%	95.3%	39.1%	46.0X	99.4%	1.0	1.0	2128.8bp	3.2bp	Genus species	2.0	3154622	3003
17-BR00613_broken												359.7bp	3.1bp
17-BR00614	57%	301bp	100.0%	100.0%	100.0%	99.9%	99.5%	99.0X	99.1%	2.1	2.1	2129.5bp	3.3bp	Genus species	2.0	3310324	3151
17-BR00614_broken												454.4bp	3.3bp
17-BR00615	57%	461bp	100.0%	100.0%	99.9%	86.9%	14.0%	39.0X	99.3%	0.8	0.9	2374.4bp	3.4bp	Genus species	3.0	3386440	3185
17-BR00615_broken												473.3bp	3.3bp
17-BR00616	57%	331bp	100.0%	100.0%	100.0%	99.8%	98.2%	85.0X	99.3%	1.8	1.8	2131.6bp	3.2bp	Genus species	2.0	3156175	3012
17-BR00616_broken												365.5bp	3.1bp
17-BR00617	57%	370bp	100.0%	100.0%	100.0%	99.8%	98.2%	82.0X	99.3%	1.7	1.7	2142.8bp	3.2bp	Genus species	4.0	3153635	3007
17-BR00617_broken												359.7bp	3.1bp
17-BR00618	57%	343bp	100.0%	100.0%	100.0%	99.8%	98.2%	86.0X	99.3%	1.8	1.8	2370.0bp	3.4bp	Genus species	4.0	3381968	3180
17-BR00618_broken												727.8bp	3.3bp
17-BR00619	57%	359bp	100.0%	100.0%	100.0%	99.8%	97.0%	79.0X	99.3%	1.7	1.7	2132.9bp	3.2bp	Genus species	2.0	3157489	3012
17-BR00619_broken												302.9bp	3.1bp
17-BR00620	57%	305bp	100.0%	100.0%	100.0%	99.9%	99.5%	104.0X	99.2%	2.2	2.2	2134.0bp	3.2bp	Genus species	2.0	3158814	3007
17-BR00620_broken												359.4bp	3.1bp
17-BR00621	57%	472bp	100.0%	100.0%	99.9%	99.5%	98.2%	88.0X	99.6%	1.2	1.2	2284.4bp	3.4bp	Genus species	5.0	3423227	3182
17-BR00621_broken												359.1bp	3.3bp
17-BR00622	58%	394bp	100.0%	100.0%	100.0%	99.8%	99.6%	146.0X	99.8%	2.0	2.0	2733.0bp	3.3bp	Genus species	3.0	3311014	3152
17-BR00622_broken												503.4bp	3.3bp
17-BR00623	57%	418bp	100.0%	100.0%	100.0%	99.8%	99.5%	116.0X	99.7%	1.6	1.6	2373.1bp	3.4bp	Genus species	3.0	3396986	3175
17-BR00623_broken												393.6bp	3.3bp
17-BR00624	57%	394bp	100.0%	100.0%	100.0%	99.8%	99.6%	118.0X	99.7%	1.6	1.6	2181.9bp	3.5bp	Genus species	2.0	3468178	3148
17-BR00624_broken												521.8bp	3.1bp
17-BR00625	57%	406bp	100.0%	100.0%	100.0%	99.8%	99.6%	120.0X	99.8%	1.6	1.6	2186.7bp	3.4bp	Genus species	3.0	3372785	3172
17-BR00625_broken												462.4bp	3.3bp
17-BR00626	58%	400bp	100.0%	100.0%	100.0%	99.9%	99.6%	126.0X	99.7%	1.7	1.7	2133.6bp	3.2bp	Genus species	5.0	3166656	3006
17-BR00626_broken												359.1bp	3.1bp
17-BR00627	58%	485bp	100.0%	100.0%	99.9%	99.4%	94.2%	71.0X	99.7%	1.0	1.0	2338.2bp	3.7bp	Genus species	7.0	3663193	3306
17-BR00627_broken												472.0bp	3.3bp
17-BR00628	57%	386bp	100.0%	100.0%	100.0%	99.9%	99.8%	172.0X	99.7%	2.4	2.4	2373.6bp	3.4bp	Genus species	5.0	3447632	3203
17-BR00628_broken												531.9bp	3.3bp
17-BR00629	57%	380bp	100.0%	100.0%	100.0%	99.9%	99.8%	147.0X	99.8%	2.1	2.1	2187.7bp	3.2bp	Genus species	2.0	3212230	3022
17-BR00629_broken												393.6bp	3.1bp
17-BR00630	57%	439bp	100.0%	100.0%	100.0%	99.6%	93.8%	70.0X	99.7%	0.9	1.0	2177.7bp	3.2bp	Genus species	3.0	3201755	3020
17-BR00630_broken												393.6bp	3.1bp
17-BR00631	57%	394bp	100.0%	100.0%	100.0%	99.9%	99.8%	137.0X	99.8%	1.9	1.9	2456.2bp	3.3bp	Genus species	3.0	3304452	3143
17-BR00631_broken												333.5bp	3.3bp
17-BR00632	57%	388bp	100.0%	100.0%	100.0%	99.8%	99.5%	121.0X	99.7%	1.7	1.7	2440.1bp	3.5bp	Genus species	5.0	3470625	3211
17-BR00632_broken												394.2bp	3.3bp
17-BR00634	57%	538bp	100.0%	100.0%	99.9%	98.7%	69.5%	55.0X	99.6%	0.7	0.7	2127.4bp	3.2bp	Genus species	3.0	3152207	2998
17-BR00634_broken												439.8bp	3.1bp
17-BR00635	57%	381bp	100.0%	100.0%	100.0%	99.9%	99.8%	168.0X	99.8%	2.4	2.4	2128.7bp	2.3bp	Genus species	3.0	2264437	2161
17-BR00635_broken												377.1bp	2.2bp
17-BR00636	58%	390bp	100.0%	100.0%	99.9%	99.7%	99.4%	171.0X	99.8%	2.4	2.4	2138.7bp	3.2bp	Genus species	4.0	3171862	3016
17-BR00636_broken												236.1bp	3.1bp
17-BR00637	57%	419bp	100.0%	100.0%	100.0%	99.9%	99.5%	107.0X	99.7%	1.5	1.5	2486.5bp	3.5bp	Genus species	6.0	3516685	3238
17-BR00637_broken												577.4bp	3.3bp
17-BR00638	57%	336bp	100.0%	100.0%	100.0%	99.7%	91.5%	69.0X	99.2%	1.5	1.6	2133.8bp	3.2bp	Genus species	3.0	3159001	3008
17-BR00638_broken												359.1bp	3.1bp
17-BR00639	57%	434bp	100.0%	100.0%	99.9%	97.2%	47.2%	49.0X	99.3%	1.0	1.1	2263.0bp	3.4bp	Genus species	4.0	3429306	3123
17-BR00639_broken												252.3bp	3.1bp
17-BR00640	57%	401bp	100.0%	100.0%	99.9%	98.7%	66.4%	54.0X	99.3%	1.2	1.2	2134.5bp	3.2bp	Genus species	3.0	3159948	3009
17-BR00640_broken												399.8bp	3.1bp
17-BR00641	57%	359bp	100.0%	100.0%	100.0%	99.7%	97.6%	79.0X	99.3%	1.6	1.7	2709.9bp	3.2bp	Genus species	7.0	3156629	3003
17-BR00641_broken												576.7bp	3.1bp
17-BR00642	57%	298bp	100.0%	100.0%	100.0%	99.2%	72.1%	56.0X	99.0%	1.3	1.4	2133.3bp	3.2bp	Genus species	2.0	3163756	3002
17-BR00642_broken												376.7bp	3.1bp
17-BR00643	57%	394bp	100.0%	100.0%	100.0%	98.5%	64.1%	54.0X	99.3%	1.2	1.2	2390.7bp	3.4bp	Genus species	3.0	3415626	3187
17-BR00643_broken												276.9bp	3.3bp
17-BR00644	57%	346bp	100.0%	100.0%	100.0%	99.8%	95.9%	77.0X	99.3%	1.6	1.6	2130.5bp	3.2bp	Genus species	4.0	3157623	3010
17-BR00644_broken												475.7bp	3.1bp
17-BR00645	58%	426bp	100.0%	100.0%	99.9%	99.6%	98.8%	101.0X	99.7%	1.4	1.4	2408.9bp	3.3bp	Genus species	4.0	3305053	3144
17-BR00645_broken												250.7bp	3.3bp
17-BR00646	57%	407bp	100.0%	100.0%	100.0%	99.9%	99.8%	141.0X	99.7%	2.0	2.0	2289.5bp	3.3bp	Genus species	4.0	3322856	3076
17-BR00646_broken												476.7bp	3.1bp
17-BR00647	57%	457bp	100.0%	100.0%	99.9%	99.6%	97.5%	82.0X	99.7%	1.1	1.1	2498.1bp	3.4bp	Genus species	4.0	3412984	3183
17-BR00647_broken												845.3bp	3.3bp
17-BR00648	57%	381bp	100.0%	100.0%	100.0%	99.9%	99.7%	144.0X	99.7%	2.0	2.0	3099.7bp	3.6bp	Genus species	5.0	3576040	3262
17-BR00648_broken												720.0bp	3.3bp
17-BR00649	58%	386bp	100.0%	100.0%	100.0%	99.8%	99.4%	107.0X	99.7%	1.5	1.5	2373.7bp	3.4bp	Genus species	5.0	3398972	3180
17-BR00649_broken												359.5bp	3.3bp
17-BR00650	57%	399bp	100.0%	100.0%	100.0%	99.8%	99.2%	98.0X	99.7%	1.3	1.3	2128.7bp	2.7bp	Genus species	5.0	2698258	2421
17-BR00650_broken												435.0bp	2.2bp
17-BR00651	58%	332bp	100.0%	100.0%	100.0%	99.9%	99.9%	218.0X	99.9%	3.5	3.5	2131.7bp	3.2bp	Genus species	3.0	3156359	3002
17-BR00651_broken												299.6bp	3.1bp

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

Sort	Group	Column	Description	ID	Scale
\|\|	QualiMap	Avg. GC	Average GC content	`avg_gc`	None
\|\|	QualiMap	Insert Size	Median insert size	`median_insert_size`	None
\|\|	QualiMap	≥ 1X	Fraction of genome with at least 1X coverage	`1_x_pc`	None
\|\|	QualiMap	≥ 5X	Fraction of genome with at least 5X coverage	`5_x_pc`	None
\|\|	QualiMap	≥ 10X	Fraction of genome with at least 10X coverage	`10_x_pc`	None
\|\|	QualiMap	≥ 30X	Fraction of genome with at least 30X coverage	`30_x_pc`	None
\|\|	QualiMap	≥ 50X	Fraction of genome with at least 50X coverage	`50_x_pc`	None
\|\|	QualiMap	Coverage	Median coverage	`median_coverage`	None
\|\|	QualiMap	% Aligned	% mapped reads	`percentage_aligned`	None
\|\|	QualiMap	M Aligned	Number of mapped reads (millions)	`mapped_reads`	read_count
\|\|	QualiMap	M Total reads	Number of reads (millions)	`total_reads`	read_count
\|\|	QUAST	N50 (Kbp)	N50 is the contig length such that using longer or equal length contigs produces half (50%) of the bases of the assembly (kilo base pairs)	`N50`	None
\|\|	QUAST	Length (Mbp)	The total number of bases in the assembly (mega base pairs).	`Total length`	None
\|\|	Prokka	Organism	Organism	`organism`	None
\|\|	Prokka	Contigs	Number of contigs	`contigs`	None
\|\|	Prokka	Bases	Number of bases	`bases`	None
\|\|	Prokka	CDS	Number of CDS	`CDS`	None

QualiMap

QualiMap is a platform-independent application to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.

Coverage histogram

Cumulative coverage genome fraction

Insert size histogram

GC content distribution

QUAST

QUAST is a quality assessment tool for genome assemblies, written by the Center for Algorithmic Biotechnology.

Assembly Statistics

Showing ²⁰⁰/₂₀₀ rows and ¹²/₁₂ columns.

Sample Name	N50 (Kbp)	N75 (Kbp)	Largest contig (Kbp)	Length (Mbp)	Misassemblies	Mismatches/100kbp	Indels/100kbp	Genes	Genes (Partial)	Genome Fraction
17-BR00544	2178.6bp	1023.7bp	2178.6bp	3.2bp	3.0	5.96	1.59	3194	12	94.8%
17-BR00544_broken	691.1bp	435.2bp	896.1bp	3.1bp	3.0	5.96	1.47	3194	12	94.8%
17-BR00545	2178.6bp	1284.5bp	2178.6bp	3.5bp	6.0	13.00	2.10	3192	14	94.8%
17-BR00545_broken	448.5bp	198.1bp	605.2bp	3.1bp	5.0	12.91	2.13	3192	14	94.8%
17-BR00546	2342.2bp	1150.0bp	2342.2bp	3.5bp	7.0	6.89	1.58	3342	10	99.4%
17-BR00546_broken	361.4bp	189.8bp	606.6bp	3.3bp	5.0	7.56	1.49	3341	11	99.4%
17-BR00547	2207.8bp	1032.5bp	2207.8bp	3.3bp	3.0	7.04	1.78	3194	12	94.7%
17-BR00547_broken	753.7bp	189.9bp	856.4bp	3.1bp	1.0	7.04	1.63	3194	12	94.7%
17-BR00548	2134.8bp	1173.3bp	2134.8bp	3.3bp	3.0	12.42	2.52	3196	10	94.8%
17-BR00548_broken	360.2bp	177.6bp	575.0bp	3.2bp	2.0	14.21	2.23	3196	10	94.8%
17-BR00549	2181.8bp	1010.5bp	2181.8bp	3.2bp	3.0	10.62	1.63	3180	12	94.4%
17-BR00549_broken	621.2bp	436.4bp	805.1bp	3.1bp	3.0	10.62	1.50	3181	11	94.4%
17-BR00550	2341.1bp	1206.5bp	2341.1bp	3.6bp	5.0	9.29	1.76	3338	13	99.4%
17-BR00550_broken	614.3bp	222.9bp	1160.1bp	3.3bp	4.0	9.39	1.67	3338	13	99.4%
17-BR00551	2130.1bp	1025.1bp	2130.1bp	3.2bp	0.0	10.20	1.98	3192	13	94.8%
17-BR00551_broken	359.6bp	177.7bp	1312.7bp	3.1bp	0.0	10.20	1.88	3192	13	94.8%
17-BR00552	2137.7bp	848.6bp	2137.7bp	3.0bp	6.0	17.87	2.36	3013	11	89.4%
17-BR00552_broken	358.6bp	275.9bp	646.8bp	3.0bp	5.0	19.39	2.30	3013	10	89.4%
17-BR00553	2266.3bp	1027.9bp	2266.3bp	3.3bp	3.0	12.72	2.17	3193	10	94.7%
17-BR00553_broken	394.3bp	177.7bp	576.6bp	3.1bp	2.0	12.72	2.10	3193	11	94.7%
17-BR00554	2740.6bp	2740.6bp	2740.6bp	3.3bp	1.0	1.30	0.70	3394	9	99.5%
17-BR00554_broken	321.4bp	248.6bp	640.5bp	3.3bp	0.0	1.37	0.64	3393	11	99.6%
17-BR00555	2133.2bp	1033.0bp	2133.2bp	3.2bp	2.0	8.63	2.36	3196	12	94.8%
17-BR00555_broken	359.2bp	173.0bp	647.4bp	3.1bp	2.0	8.66	2.20	3196	12	94.8%
17-BR00556	2357.1bp	1024.5bp	2357.1bp	3.4bp	1.0	11.23	6.65			99.5%
17-BR00556_broken	531.8bp	190.4bp	798.8bp	3.3bp	0.0	11.78	6.59			99.5%
17-BR00557	2183.5bp	1207.1bp	2183.5bp	3.4bp	7.0	7.33	1.63	3197	8	94.7%
17-BR00557_broken	614.2bp	522.2bp	690.8bp	3.1bp	4.0	8.45	1.72	3197	8	94.7%
17-BR00558	2182.0bp	1290.0bp	2182.0bp	3.5bp	6.0	6.89	1.91	3191	13	94.7%
17-BR00558_broken	359.5bp	189.7bp	637.1bp	3.1bp	5.0	7.30	1.85	3190	14	94.7%
17-BR00559	2233.3bp	1099.7bp	2233.3bp	3.3bp	7.0	13.77	2.49	3191	13	94.7%
17-BR00559_broken	394.0bp	166.4bp	651.8bp	3.1bp	5.0	14.22	2.36	3191	13	94.7%
17-BR00560	2181.9bp	1276.6bp	2181.9bp	3.5bp	6.0	5.00	1.47	3194	10	94.7%
17-BR00560_broken	705.3bp	523.1bp	886.2bp	3.1bp	3.0	5.23	1.37	3193	11	94.7%
17-BR00561	2265.2bp	1028.4bp	2265.2bp	3.4bp	3.0	11.12	2.17	3190	15	94.7%
17-BR00561_broken	562.7bp	177.7bp	621.3bp	3.1bp	2.0	12.84	2.17	3189	16	94.7%
17-BR00562	2184.1bp	1277.3bp	2184.1bp	3.5bp	5.0	9.97	1.98	3197	10	94.8%
17-BR00562_broken	563.2bp	253.7bp	706.2bp	3.1bp	3.0	12.01	2.13	3196	11	94.8%
17-BR00563	2132.6bp	1032.6bp	2132.6bp	3.2bp	2.0	10.80	2.07	3197	10	94.8%
17-BR00563_broken	601.7bp	504.0bp	798.8bp	3.1bp	0.0	10.83	2.01	3197	10	94.8%
17-BR00564	2371.9bp	1011.7bp	2371.9bp	3.4bp	3.0	1.46	1.15	3145	5	99.6%
17-BR00564_broken	800.3bp	461.0bp	886.2bp	3.3bp	2.0	1.46	1.09	3144	6	99.6%
17-BR00565	2514.0bp	852.2bp	2514.0bp	3.5bp	3.0	1.00	1.34	3393	9	99.5%
17-BR00565_broken	276.7bp	252.6bp	609.1bp	3.3bp	2.0	1.00	1.06	3393	9	99.5%
17-BR00566	2379.7bp	1012.2bp	2379.7bp	3.4bp	3.0	5.28	5.95			99.5%
17-BR00566_broken	475.3bp	272.7bp	652.9bp	3.3bp	1.0	6.40	6.31			99.5%
17-BR00568	2129.5bp	2129.5bp	2129.5bp	2.7bp	0.0	10.93	2.26	2488	10	73.5%
17-BR00568_broken	605.7bp	252.4bp	731.6bp	2.4bp	1.0	10.89	1.97	2488	9	73.5%
17-BR00569	2132.5bp	2132.5bp	2132.5bp	2.7bp	0.0	11.55	2.27	2742	7	81.1%
17-BR00569_broken	435.9bp	282.5bp	614.4bp	2.7bp	1.0	13.60	2.16	2740	8	81.1%
17-BR00570	2131.9bp	2131.9bp	2131.9bp	2.7bp	2.0	9.65	1.75	2741	10	81.0%
17-BR00570_broken	559.2bp	183.1bp	856.5bp	2.7bp	1.0	9.65	1.71	2741	11	81.0%
17-BR00571	2376.0bp	1024.4bp	2376.0bp	3.4bp	3.0	9.17	6.16			99.5%
17-BR00571_broken	531.9bp	471.3bp	976.3bp	3.3bp	1.0	9.26	6.29			99.5%
17-BR00572	2436.6bp	1024.5bp	2436.6bp	3.5bp	7.0	12.63	7.14			99.4%
17-BR00572_broken	428.6bp	193.8bp	471.2bp	3.3bp	3.0	12.88	7.32			99.4%
17-BR00573	2137.5bp	1025.9bp	2137.5bp	3.2bp	0.0	12.80	2.07	3199	9	94.8%
17-BR00573_broken	454.4bp	391.0bp	835.3bp	3.1bp	1.0	12.84	2.10	3198	10	94.8%
17-BR00574	2135.8bp	1283.8bp	2135.8bp	3.4bp	2.0	10.17	2.23	3193	12	94.7%
17-BR00574_broken	442.5bp	252.0bp	706.1bp	3.1bp	1.0	10.80	2.23	3193	12	94.7%
17-BR00576	2189.9bp	1016.6bp	2189.9bp	3.2bp	1.0	1.40	1.49	3152	51	97.1%
17-BR00576_broken	74.2bp	47.1bp	212.3bp	3.2bp	1.0	1.37	1.15	3149	54	97.1%
17-BR00577	2341.3bp	1023.1bp	2341.3bp	3.4bp	5.0	9.57	1.70	3341	10	99.4%
17-BR00577_broken	896.9bp	555.1bp	1109.0bp	3.3bp	4.0	9.54	1.64	3341	10	99.4%
17-BR00581	2136.4bp	1026.1bp	2136.4bp	3.2bp	4.0	13.28	2.64	3008	13	89.3%
17-BR00581_broken	359.6bp	251.5bp	521.8bp	3.0bp	1.0	13.87	2.44	3003	13	89.2%
17-BR00582	2132.5bp	1024.4bp	2132.5bp	3.2bp	0.0	14.44	2.52	3193	11	94.8%
17-BR00582_broken	614.3bp	359.3bp	976.4bp	3.1bp	0.0	14.44	2.39	3193	11	94.7%
17-BR00583	2071.9bp	1237.8bp	2071.9bp	3.7bp	6.0	7.69	2.19	3337	14	99.4%
17-BR00583_broken	813.0bp	299.4bp	1060.0bp	3.3bp	5.0	7.59	2.04	3336	15	99.4%
17-BR00584	2181.4bp	1431.5bp	2181.4bp	3.6bp	5.0	8.75	2.28	3340	14	99.4%
17-BR00584_broken	605.5bp	166.1bp	705.2bp	3.3bp	2.0	8.72	2.19	3338	15	99.4%
17-BR00585	2139.1bp	1285.1bp	2139.1bp	3.4bp	5.0	11.34	2.04	3191	16	94.8%
17-BR00585_broken	359.7bp	259.0bp	601.0bp	3.1bp	3.0	11.63	1.94	3191	16	94.8%
17-BR00586	2338.4bp	1274.8bp	2338.4bp	3.7bp	5.0	11.75	2.00	3340	13	99.5%
17-BR00586_broken	568.6bp	475.5bp	739.4bp	3.3bp	3.0	11.72	1.97	3340	12	99.4%
17-BR00587	2133.2bp	1024.7bp	2133.2bp	3.2bp	0.0	14.66	2.61	3192	14	94.7%
17-BR00587_broken	881.8bp	554.9bp	1040.4bp	3.1bp	0.0	14.66	2.49	3192	14	94.7%
17-BR00588	2178.7bp	2178.7bp	2178.7bp	2.7bp	3.0	10.02	2.20	2741	9	81.0%
17-BR00588_broken	627.4bp	442.1bp	731.4bp	2.7bp	1.0	11.77	2.24	2741	10	81.0%
17-BR00589	2139.9bp	1024.7bp	2139.9bp	3.2bp	5.0	12.47	2.20	3187	17	94.7%
17-BR00589_broken	268.8bp	163.4bp	475.3bp	3.1bp	1.0	12.41	2.07	3186	18	94.7%
17-BR00592	2133.2bp	1284.3bp	2133.2bp	3.4bp	2.0	11.63	2.13	3190	15	94.8%
17-BR00592_broken	359.4bp	177.7bp	568.4bp	3.1bp	1.0	13.22	2.20	3189	16	94.8%
17-BR00593	2127.5bp	1024.5bp	2127.5bp	3.2bp	0.0	6.31	1.91	3193	12	94.8%
17-BR00593_broken	376.5bp	268.8bp	754.5bp	3.1bp	0.0	9.56	1.85	3190	15	94.8%
17-BR00594	2135.4bp	1031.5bp	2135.4bp	3.2bp	1.0	7.63	1.92	3192	6	94.6%
17-BR00594_broken	969.5bp	189.9bp	1022.4bp	3.1bp	2.0	7.65	1.82	3198	7	94.8%
17-BR00595	2181.8bp	1023.6bp	2181.8bp	3.2bp	3.0	8.32	2.07	3197	6	94.7%
17-BR00595_broken	568.7bp	453.7bp	763.4bp	3.1bp	3.0	8.32	1.91	3196	8	94.7%
17-BR00596	2238.1bp	1304.2bp	2238.1bp	4.1bp	118.0	1505.21	39.76	2997	75	89.2%
17-BR00596_broken	143.5bp	68.9bp	408.4bp	3.4bp	98.0	1518.40	40.51	2998	74	89.2%
17-BR00597	2466.4bp	847.9bp	2466.4bp	3.3bp	2.0	25.44	3.37	3339	16	99.5%
17-BR00597_broken	333.1bp	268.9bp	532.3bp	3.3bp	2.0	27.11	3.43	3337	18	99.4%
17-BR00598	2129.2bp	1025.0bp	2129.2bp	3.2bp	1.0	10.90	2.01	3192	12	94.8%
17-BR00598_broken	531.9bp	189.9bp	873.4bp	3.1bp	0.0	11.12	1.88	3192	12	94.8%
17-BR00599	2136.1bp	1024.7bp	2136.1bp	3.2bp	0.0	14.19	2.55	3195	9	94.7%
17-BR00599_broken	394.0bp	179.7bp	531.5bp	3.1bp	0.0	14.38	2.17	3191	13	94.7%
17-BR00600	2239.7bp	1180.9bp	2239.7bp	3.5bp	4.0	12.27	2.19	3342	13	99.5%
17-BR00600_broken	436.2bp	166.4bp	578.0bp	3.3bp	3.0	14.03	2.16	3340	15	99.5%
17-BR00601	2133.4bp	1181.3bp	2133.4bp	3.3bp	1.0	11.38	2.03	3343	12	99.5%
17-BR00601_broken	333.6bp	276.5bp	763.7bp	3.3bp	3.0	13.02	2.09	3341	13	99.5%
17-BR00602	2132.1bp	1025.3bp	2132.1bp	3.2bp	0.0	5.90	1.82	3195	10	94.8%
17-BR00602_broken	359.6bp	176.9bp	576.3bp	3.1bp	0.0	7.04	1.63	3195	10	94.8%
17-BR00603	2127.6bp	1024.4bp	2127.6bp	3.2bp	0.0	12.62	2.14	3192	13	94.7%
17-BR00603_broken	568.6bp	276.8bp	641.3bp	3.1bp	1.0	12.62	2.01	3192	13	94.7%
17-BR00604	2403.7bp	570.7bp	2403.7bp	3.3bp	1.0	13.27	7.07			99.5%
17-BR00604_broken	531.7bp	299.5bp	752.4bp	3.3bp	1.0	13.30	6.86			99.5%
17-BR00605	2129.5bp	1024.6bp	2129.5bp	3.2bp	1.0	12.49	2.29	3190	16	94.8%
17-BR00605_broken	359.9bp	190.0bp	475.6bp	3.1bp	1.0	13.10	2.13	3190	16	94.8%
17-BR00606	2128.9bp	1025.7bp	2128.9bp	3.2bp	0.0	9.69	2.23	3192	13	94.7%
17-BR00606_broken	276.8bp	172.6bp	403.3bp	3.1bp	0.0	12.43	2.20	3190	15	94.7%
17-BR00607	2131.8bp	1029.3bp	2131.8bp	3.2bp	3.0	13.76	2.26	3198	8	94.8%
17-BR00607_broken	754.0bp	194.0bp	1078.4bp	3.1bp	1.0	13.32	2.13	3198	8	94.8%
17-BR00608	2128.1bp	1027.5bp	2128.1bp	3.2bp	3.0	10.67	2.23	3194	13	94.8%
17-BR00608_broken	754.0bp	190.4bp	1122.8bp	3.1bp	1.0	10.71	2.17	3193	14	94.8%
17-BR00609	2135.6bp	1023.6bp	2135.6bp	3.2bp	0.0	8.35	2.23	3193	12	94.7%
17-BR00609_broken	392.7bp	318.2bp	568.7bp	3.1bp	1.0	8.35	2.10	3193	13	94.7%
17-BR00610	2129.8bp	1011.1bp	2129.8bp	3.1bp	1.0	11.84	2.30	3179	12	94.3%
17-BR00610_broken	427.4bp	252.7bp	869.3bp	3.1bp	1.0	11.97	2.18	3178	13	94.3%
17-BR00611	2737.8bp	2737.8bp	2737.8bp	3.3bp	3.0	2.52	1.40	3141	9	99.5%
17-BR00611_broken	473.8bp	248.4bp	690.0bp	3.3bp	0.0	3.46	1.40	3141	8	99.5%
17-BR00612	2134.0bp	1028.1bp	2134.0bp	3.2bp	1.0	10.61	2.49	3192	13	94.8%
17-BR00612_broken	531.7bp	185.8bp	1053.6bp	3.1bp	3.0	10.77	2.17	3192	12	94.7%
17-BR00613	2128.8bp	1025.8bp	2128.8bp	3.2bp	1.0	6.82	1.98	3193	13	94.8%
17-BR00613_broken	359.7bp	172.2bp	471.6bp	3.1bp	0.0	7.07	2.14	3188	18	94.8%
17-BR00614	2129.5bp	1180.8bp	2129.5bp	3.3bp	0.0	10.72	2.28	3344	10	99.5%
17-BR00614_broken	454.4bp	360.0bp	1239.0bp	3.3bp	1.0	12.48	2.22	3343	11	99.5%
17-BR00615	2374.4bp	1012.0bp	2374.4bp	3.4bp	1.0	2.03	1.06	3386	15	99.5%
17-BR00615_broken	473.3bp	248.4bp	877.8bp	3.3bp	0.0	2.34	0.97	3385	16	99.5%
17-BR00616	2131.6bp	1024.6bp	2131.6bp	3.2bp	0.0	12.05	2.45	3194	10	94.7%
17-BR00616_broken	365.5bp	251.5bp	754.3bp	3.1bp	1.0	14.22	2.26	3191	12	94.7%
17-BR00617	2142.8bp	569.9bp	2142.8bp	3.2bp	5.0	10.87	1.98	3192	12	94.7%
17-BR00617_broken	359.7bp	282.0bp	929.9bp	3.1bp	3.0	13.04	2.33	3191	13	94.7%
17-BR00618	2370.0bp	1011.6bp	2370.0bp	3.4bp	1.0	1.67	0.52	3395	8	99.5%
17-BR00618_broken	727.8bp	460.6bp	963.6bp	3.3bp	0.0	1.67	0.49	3395	8	99.5%
17-BR00619	2132.9bp	1024.5bp	2132.9bp	3.2bp	1.0	8.70	1.98	3195	10	94.8%
17-BR00619_broken	302.9bp	268.8bp	475.5bp	3.1bp	0.0	12.78	2.23	3191	14	94.8%
17-BR00620	2134.0bp	1024.8bp	2134.0bp	3.2bp	1.0	5.00	1.69	3194	11	94.8%
17-BR00620_broken	359.4bp	189.7bp	873.5bp	3.1bp	0.0	5.77	1.59	3193	12	94.8%
17-BR00621	2284.4bp	1024.5bp	2284.4bp	3.4bp	2.0	11.64	7.39			99.3%
17-BR00621_broken	359.1bp	189.6bp	754.0bp	3.3bp	1.0	11.64	7.30			99.3%
17-BR00622	2733.0bp	2733.0bp	2733.0bp	3.3bp	1.0	3.43	1.79	3135	9	99.4%
17-BR00622_broken	503.4bp	189.9bp	639.9bp	3.3bp	0.0	3.59	1.58	3135	9	99.4%
17-BR00623	2373.1bp	1023.7bp	2373.1bp	3.4bp	1.0	7.17	6.93			99.3%
17-BR00623_broken	393.6bp	185.4bp	521.4bp	3.3bp	0.0	7.17	6.75			99.3%
17-BR00624	2181.9bp	1286.3bp	2181.9bp	3.5bp	4.0	13.70	2.20	3194	11	94.8%
17-BR00624_broken	521.8bp	190.0bp	691.0bp	3.1bp	3.0	13.70	2.04	3193	12	94.8%
17-BR00625	2186.7bp	1185.8bp	2186.7bp	3.4bp	3.0	7.93	1.64	3344	9	99.4%
17-BR00625_broken	462.4bp	172.1bp	865.9bp	3.3bp	2.0	8.14	1.55	3343	10	99.4%
17-BR00626	2133.6bp	1032.5bp	2133.6bp	3.2bp	3.0	14.17	2.59	3188	16	94.6%
17-BR00626_broken	359.1bp	189.6bp	461.8bp	3.1bp	2.0	12.93	2.36	3188	16	94.6%
17-BR00627	2338.2bp	1274.1bp	2338.2bp	3.7bp	5.0	13.04	2.55	3333	18	99.3%
17-BR00627_broken	472.0bp	189.6bp	705.8bp	3.3bp	3.0	13.04	2.37	3333	18	99.3%
17-BR00628	2373.6bp	1024.7bp	2373.6bp	3.4bp	3.0	14.24	7.56			99.5%
17-BR00628_broken	531.9bp	475.3bp	869.8bp	3.3bp	1.0	14.27	7.47			99.5%
17-BR00629	2187.7bp	1024.6bp	2187.7bp	3.2bp	4.0	12.67	2.23	3190	13	94.6%
17-BR00629_broken	393.6bp	190.3bp	568.2bp	3.1bp	3.0	12.67	2.07	3190	13	94.6%
17-BR00630	2177.7bp	1023.9bp	2177.7bp	3.2bp	2.0	6.06	1.60	3189	14	94.6%
17-BR00630_broken	393.6bp	155.4bp	471.9bp	3.1bp	2.0	6.35	1.34	3188	15	94.6%
17-BR00631	2456.2bp	848.2bp	2456.2bp	3.3bp	1.0	1.70	1.31	3135	9	99.4%
17-BR00631_broken	333.5bp	248.3bp	531.5bp	3.3bp	0.0	1.70	1.09	3134	8	99.4%
17-BR00632	2440.1bp	1024.5bp	2440.1bp	3.5bp	5.0	14.12	7.47			99.5%
17-BR00632_broken	394.2bp	177.7bp	475.6bp	3.3bp	1.0	14.06	7.29			99.5%
17-BR00634	2127.4bp	1024.6bp	2127.4bp	3.2bp	0.0	14.68	2.36	3188	14	94.6%
17-BR00634_broken	439.8bp	190.3bp	691.9bp	3.1bp	0.0	14.65	2.14	3186	15	94.6%
17-BR00635	2128.7bp	2128.7bp	2128.7bp	2.3bp	0.0	12.13	2.05	2303	11	67.7%
17-BR00635_broken	377.1bp	189.9bp	763.4bp	2.2bp	1.0	12.58	1.92	2302	12	67.7%
17-BR00636	2138.7bp	1032.8bp	2138.7bp	3.2bp	0.0	14.15	2.55	3191	15	94.7%
17-BR00636_broken	236.1bp	142.9bp	454.1bp	3.1bp	0.0	14.57	2.33	3187	19	94.7%
17-BR00637	2486.5bp	1024.0bp	2486.5bp	3.5bp	3.0	4.04	4.61			99.5%
17-BR00637_broken	577.4bp	176.9bp	712.9bp	3.3bp	1.0	4.73	4.95			99.5%
17-BR00638	2133.8bp	1025.0bp	2133.8bp	3.2bp	0.0	6.98	1.82	3195	10	94.8%
17-BR00638_broken	359.1bp	194.1bp	864.0bp	3.1bp	0.0	7.14	1.59	3193	12	94.8%
17-BR00639	2263.0bp	1023.7bp	2263.0bp	3.4bp	2.0	15.84	2.49	3192	13	94.7%
17-BR00639_broken	252.3bp	148.0bp	604.2bp	3.1bp	1.0	15.01	2.26	3191	14	94.7%
17-BR00640	2134.5bp	1025.3bp	2134.5bp	3.2bp	1.0	8.48	2.26	3195	10	94.8%
17-BR00640_broken	399.8bp	172.1bp	753.2bp	3.1bp	0.0	8.48	2.07	3195	10	94.8%
17-BR00641	2709.9bp	2709.9bp	2709.9bp	3.2bp	2.0	11.67	2.10	3188	14	94.7%
17-BR00641_broken	576.7bp	189.9bp	641.4bp	3.1bp	2.0	13.39	2.20	3188	13	94.7%
17-BR00642	2133.3bp	1030.5bp	2133.3bp	3.2bp	1.0	6.95	1.82	3195	9	94.7%
17-BR00642_broken	376.7bp	189.7bp	531.4bp	3.1bp	0.0	7.04	1.63	3193	11	94.7%
17-BR00643	2390.7bp	1024.8bp	2390.7bp	3.4bp	3.0	14.45	2.52	3342	11	99.4%
17-BR00643_broken	276.9bp	177.8bp	581.7bp	3.3bp	2.0	14.67	2.31	3338	14	99.4%
17-BR00644	2130.5bp	1026.7bp	2130.5bp	3.2bp	0.0	13.03	2.58	3195	11	94.8%
17-BR00644_broken	475.7bp	369.3bp	754.8bp	3.1bp	1.0	14.50	2.39	3194	11	94.8%
17-BR00645	2408.9bp	895.8bp	2408.9bp	3.3bp	1.0	2.01	1.25	3386	9	99.4%
17-BR00645_broken	250.7bp	211.3bp	518.6bp	3.3bp	0.0	2.01	1.03	3384	11	99.4%
17-BR00646	2289.5bp	1026.8bp	2289.5bp	3.3bp	4.0	6.69	1.72	3192	15	94.8%
17-BR00646_broken	476.7bp	325.4bp	804.9bp	3.1bp	4.0	6.66	1.62	3192	15	94.8%
17-BR00647	2498.1bp	846.6bp	2498.1bp	3.4bp	5.0	11.32	2.16	3339	12	99.5%
17-BR00647_broken	845.3bp	406.5bp	857.0bp	3.3bp	3.0	11.32	2.12	3339	14	99.5%
17-BR00648	3099.7bp	3099.7bp	3099.7bp	3.6bp	6.0	11.99	6.77			99.5%
17-BR00648_broken	720.0bp	299.5bp	1073.7bp	3.3bp	3.0	11.99	6.74			99.5%
17-BR00649	2373.7bp	1010.5bp	2373.7bp	3.4bp	1.0	11.90	6.95			99.5%
17-BR00649_broken	359.5bp	189.9bp	577.6bp	3.3bp	0.0	12.45	6.92			99.5%
17-BR00650	2128.7bp	2128.7bp	2128.7bp	2.7bp	0.0	11.89	2.07	2284	10	67.1%
17-BR00650_broken	435.0bp	142.4bp	836.8bp	2.2bp	0.0	12.43	1.94	2283	11	67.1%
17-BR00651	2131.7bp	1024.5bp	2131.7bp	3.2bp	4.0	9.98	1.79	3195	9	94.7%
17-BR00651_broken	299.6bp	189.7bp	614.2bp	3.1bp	1.0	10.20	1.72	3194	10	94.7%

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

Sort	Group	Column	Description	ID	Scale
\|\|	QUAST	N50 (Kbp)	N50 is the contig length such that using longer or equal length contigs produces half (50%) of the bases of the assembly (kilo base pairs)	`N50`	None
\|\|	QUAST	N75 (Kbp)	N75 is the contig length such that using longer or equal length contigs produces half (50%) of the bases of the assembly (kilo base pairs)	`N75`	None
\|\|	QUAST	L50 (k)	L50 is the number of contigs larger than N50, i.e. the minimum number of contigs comprising half the total assembly length.	`L50`	None
\|\|	QUAST	L75 (k)	L75 is the number of contigs larger than N75, i.e. the minimum number of contigs comprising three quarters of the total assembly length.	`L75`	None
\|\|	QUAST	Largest contig (Kbp)	The total number of bases in the assembly (mega base pairs).	`Largest contig`	None
\|\|	QUAST	Length (Mbp)	The total number of bases in the assembly (mega base pairs).	`Total length`	None
\|\|	QUAST	Misassemblies	The number of positions in the assembled contigs where the left flanking sequence aligns over 1 kbp away from the right flanking sequence on the reference (relocation) or they overlap on more than 1 kbp (relocation) or flanking sequences align on different strands (inversion) or different chromosomes (translocation).	`# misassemblies`	None
\|\|	QUAST	Mismatches/100kbp	The number of mismatches per 100 kbp	`# mismatches per 100 kbp`	None
\|\|	QUAST	Indels/100kbp	The number of indels per 100 kbp	`# indels per 100 kbp`	None
\|\|	QUAST	Genes	# Genes	`# genes`	gene_count
\|\|	QUAST	Genes (Partial)	# Genes (Partial)	`# genes_partial`	gene_count
\|\|	QUAST	Genome Fraction	The total number of aligned bases in the reference, divided by the genome size.	`Genome fraction (%)`	None

Number of Contigs

This plot shows the number of contigs found for each assembly, broken down by length.

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

Prokka

Prokka is a software tool for the rapid annotation of prokaryotic genomes.

Showing ¹⁰⁰/₁₀₀ rows and ⁵/₅ columns.

Sample Name	Organism	# contigs	# bases	# CDS	# tRNA
17-BR00544	Genus species	4	3202642	3025	52
17-BR00545	Genus species	2	3463151	3152	53
17-BR00546	Genus species	6	3543115	3255	53
17-BR00547	Genus species	5	3309277	3070	53
17-BR00548	Genus species	3	3308244	3080	54
17-BR00549	Genus species	2	3192370	3013	52
17-BR00550	Genus species	9	3598416	3274	53
17-BR00551	Genus species	5	3156332	3005	51
17-BR00552	Genus species	2	2986342	2838	52
17-BR00553	Genus species	2	3294249	3066	52
17-BR00554	Genus species	3	3319258	3162	54
17-BR00555	Genus species	5	3166719	3014	53
17-BR00556	Genus species	4	3381912	3172	53
17-BR00557	Genus species	3	3391326	3117	52
17-BR00558	Genus species	2	3472009	3158	53
17-BR00559	Genus species	2	3333002	3075	52
17-BR00560	Genus species	2	3458577	3142	52
17-BR00561	Genus species	4	3436290	3132	52
17-BR00562	Genus species	2	3461421	3156	52
17-BR00563	Genus species	2	3165250	3009	54
17-BR00564	Genus species	4	3383834	3192	53
17-BR00565	Genus species	5	3530710	3260	53
17-BR00566	Genus species	4	3406400	3181	54
17-BR00568	Genus species	3	2700073	2442	49
17-BR00569	Genus species	3	2702528	2575	51
17-BR00570	Genus species	3	2701912	2569	51
17-BR00571	Genus species	7	3450121	3209	53
17-BR00572	Genus species	8	3510539	3228	55
17-BR00573	Genus species	2	3163384	3016	52
17-BR00574	Genus species	2	3419610	3127	53
17-BR00576	Genus species	27	3210467	3186	51
17-BR00577	Genus species	6	3414089	3194	53
17-BR00581	Genus species	2	3162494	2904	52
17-BR00582	Genus species	2	3156893	3021	52
17-BR00583	Genus species	9	3659872	3308	53
17-BR00584	Genus species	3	3618547	3295	53
17-BR00585	Genus species	2	3424198	3125	53
17-BR00586	Genus species	6	3662423	3307	53
17-BR00587	Genus species	3	3158092	3011	52
17-BR00588	Genus species	3	2749947	2587	51
17-BR00589	Genus species	3	3164845	3000	52
17-BR00592	Genus species	4	3419217	3134	53
17-BR00593	Genus species	5	3152518	2999	52
17-BR00594	Genus species	2	3166939	3012	53
17-BR00595	Genus species	3	3206174	3023	52
17-BR00596	Genus species	67	4145522	3675	55
17-BR00597	Genus species	5	3315184	3151	53
17-BR00598	Genus species	2	3154163	3005	52
17-BR00599	Genus species	2	3160839	3010	52
17-BR00600	Genus species	4	3494908	3225	53
17-BR00601	Genus species	3	3314834	3152	53
17-BR00602	Genus species	3	3157621	3015	52
17-BR00603	Genus species	2	3151965	3010	52
17-BR00604	Genus species	5	3308427	3153	53
17-BR00605	Genus species	2	3154116	3007	52
17-BR00606	Genus species	4	3155056	3010	52
17-BR00607	Genus species	2	3161152	3016	52
17-BR00608	Genus species	4	3155859	3009	52
17-BR00609	Genus species	3	3159383	3002	52
17-BR00610	Genus species	4	3141256	2989	52
17-BR00611	Genus species	3	3309322	3160	53
17-BR00612	Genus species	3	3162343	3013	52
17-BR00613	Genus species	2	3154622	3003	52
17-BR00614	Genus species	2	3310324	3151	53
17-BR00615	Genus species	3	3386440	3185	53
17-BR00616	Genus species	2	3156175	3012	52
17-BR00617	Genus species	4	3153635	3007	52
17-BR00618	Genus species	4	3381968	3180	53
17-BR00619	Genus species	2	3157489	3012	52
17-BR00620	Genus species	2	3158814	3007	52
17-BR00621	Genus species	5	3423227	3182	53
17-BR00622	Genus species	3	3311014	3152	53
17-BR00623	Genus species	3	3396986	3175	53
17-BR00624	Genus species	2	3468178	3148	54
17-BR00625	Genus species	3	3372785	3172	53
17-BR00626	Genus species	5	3166656	3006	54
17-BR00627	Genus species	7	3663193	3306	53
17-BR00628	Genus species	5	3447632	3203	53
17-BR00629	Genus species	2	3212230	3022	52
17-BR00630	Genus species	3	3201755	3020	52
17-BR00631	Genus species	3	3304452	3143	53
17-BR00632	Genus species	5	3470625	3211	53
17-BR00634	Genus species	3	3152207	2998	52
17-BR00635	Genus species	3	2264437	2161	46
17-BR00636	Genus species	4	3171862	3016	53
17-BR00637	Genus species	6	3516685	3238	53
17-BR00638	Genus species	3	3159001	3008	52
17-BR00639	Genus species	4	3429306	3123	52
17-BR00640	Genus species	3	3159948	3009	52
17-BR00641	Genus species	7	3156629	3003	52
17-BR00642	Genus species	2	3163756	3002	52
17-BR00643	Genus species	3	3415626	3187	53
17-BR00644	Genus species	4	3157623	3010	52
17-BR00645	Genus species	4	3305053	3144	53
17-BR00646	Genus species	4	3322856	3076	52
17-BR00647	Genus species	4	3412984	3183	53
17-BR00648	Genus species	5	3576040	3262	53
17-BR00649	Genus species	5	3398972	3180	53
17-BR00650	Genus species	5	2698258	2421	47
17-BR00651	Genus species	3	3156359	3002	52

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Sort	Group	Column	Description	ID	Scale
\|\|	prokka	Organism	Organism name	`organism`	None
\|\|	prokka	# contigs	Number of contigs in assembly	`contigs`	None
\|\|	prokka	# bases	Number of nucleotide bases in assembly	`bases`	None
\|\|	prokka	# CDS	Number of annotated CDS	`CDS`	None
\|\|	prokka	# tRNA	Number of annotated tRNA	`tRNA`	None

v1.0

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About MultiQC

General Statistics

QualiMap

Coverage histogram

Cumulative coverage genome fraction

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GC content distribution

QUAST

Assembly Statistics

Number of Contigs

Prokka

Toggle navigation v1.0

MultiQC Toolbox

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About MultiQC

General Statistics

General Statistics: Columns

QualiMap

Coverage histogram

Cumulative coverage genome fraction

Insert size histogram

GC content distribution

QUAST

Assembly Statistics

Quast Table: Columns

Number of Contigs

Prokka

Table Gtsq: Columns

v1.0

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