MinION Mk1B (MN34570) Final report
17 Oct 22, 13:34 — 18 Oct 22, 08:36 · projekt1 · projekt1-small · MN34570
Protocol run ID: 71b11f77-e356-4580-823e-5175b6a2d449
DATA OUTPUT
Estimated bases
69.15 Mb
Data produced
878.76 MB
Reads generated
34.68 k
Estimated N50
3.97 kb
BASECALLING
Reads called
100%
Bases called (min Q score: 8)
29.45 Mb
30.66 Mb
RUN DURATION
Elapsed time
19.08 hours of 24 hours
Run status
Stopped by user
Flow Cell type
FLO-FLG001
Flow Cell ID
AIC415
Kit type
SQK-RBK004
Specified run length
24hrs
Active channel selection
On
Pore scan freq.
1.5hrs
Bias voltage (initial)
-10mV
Bias voltage (final)
-205mV
Reserved pores
Off
Basecalling
Fast model
FAST5 output
vbz_compress
FAST5 reads per file
1000
FASTQ output
compress
FASTQ reads per file
1000
BAM output
Off
Bulk file output
Off
Data location
/var/lib/minknow/data/./projekt1/projekt1-small/20221017_1534_MN34570_AIC415_71b11f77
MinKNOW
22.05.5
Bream
7.1.3
Configuration
5.1.5
Guppy
6.1.5
MinKNOW Core
5.1.0
The read length graph shows the total number of bases vs the read length. The longest 1% of strands are classified as outliers, and excluded to allow focus on the main body of data.
Legend
Basecalled
Estimated
Estimated N50
3.97 kb
% Basecalled
100%
The longest 1% of strands are classified as outliers, and aggregated into groups to show their relative amounts.
| Read length (kb) | Aggregated reads (kb) |
|---|---|
| 12 - 16 | 199.7 |
| 16 - 20 | 70.31 |
| 20 - 24 | 24.48 |
The cumulative output shows the total amount of bases or reads sequenced over time by your device.
Bases
Legend
Estimated
Predicted total number of bases, prior to basecalling
Passed
Bases equal to or above the quality score threshold.
Failed
Bases below the quality score threshold.
Reads
Legend
Total
Total number of reads, including passed, failed and skipped.
Passed
Reads equal to or above the quality score threshold.
Failed
Reads below the quality score threshold.
Skipped
Reads that will not be basecalled. Post run basecalling is possible.
The quality score is calculated as basecalling is performed on your device. Quality score is measured on the logarithmic PHRED scale. Reads that fall below the minimum value of 8 will be classified as failed reads. You can alter the accepted minimum quality score in MinKNOW.
Legend
Mode
The most frequent quality score of reads in the run.
Spread
The spread of quality scores, found by calculating full width half maximum.
Min. quality score
Minimum quality score to be accepted as a passed read.
Quality score low
This can be due to the translocation speed being out of the accepted range, check the translocation speed graph on this report. If the translocation speed is in the accepted range, please see the user guide for more info.
The Pore activity graph shows the performance of your sample as it is being sequenced during a run.
Legend
Sequencing
Pore currently sequencing
Pore
Pore available for sequencing
Recovering
Inactive pore that may recover
Inactive
Pore unavailable for sequencing
Unclassified
Pore not assigned a status
General
Some commonly seen issues are excess pores classified as Recovering, Open Pore, or Free Adapter. To find out what advice is applicable for your run, visit the user guide.
A Pore scan is performed at configurable time intervals to determine the current status of pores within channels on a Flow Cell. For this run a Pore scan is performed every 1.5hrs.
Legend
Active wells
Wells available for sequencing
Inactive wells
Wells unavailable for sequencing
High proportion Unavailable
Possible contaminants in library blocking the pore. Consider using the Flow Cell Wash Kit, and reloading a library.
High proportion Inactive
If localised to one area of the Flow Cell, this could indicate that an air bubble has been introduced during the flushing/loading steps. If inactivity is spread across the Flow Cell this could be caused by improper loading of the library, please refer to the user guide for further support.
The translocation speed is the rate at which DNA/RNA travels through pores as it is being sequenced.
Legend
Median
75% quartile
25% quartile
Accepted range
Low speed
Check that the Flow Cell is within the target temperature range.
The temperature of the Flow Cell over the run time.
Legend
Measured
Target
Out of range
Check that the Flow Cell is correctly seated and firmly pushed down into the device. Ensure ambient temperature is always within the specified range for your device in the user guide.
SYSTEM MESSAGES
System messages are a record of the events that occurred in the time covered by this report.