Analyzing demux output from: merged
Loading Demultiplex_Stats.csv from: merged/Reports/Demultiplex_Stats.csv
Loaded 392 rows from Demultiplex_Stats.csv
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1. % UNDETERMINED PER LANE
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Undetermined Summary per Lane:
%_Undetermined Undetermined_Reads Total_Reads
Lane
1 4.66 201657180 4327821958
2 4.76 204854255 4304734692
3 4.83 209169038 4332980005
4 5.02 214139561 4267817260
5 5.28 224463395 4250454746
6 5.31 224448301 4229151809
7 5.32 227677607 4276187445
8 5.55 234654678 4228210849
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2. SAMPLES WITH <1000000 READS (NON-NTC)
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No samples found with <1000000 reads
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3. NTC SAMPLES WITH >2000000 READS
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Found 2 NTC samples with >2000000 reads:
SampleID Index # Reads
0 NTC_0001_0001_23KKJ7LT4_1 AGGCAATCGC-ATGAGTCTGT 6189071
1 NTC_0001_0001_23KKJ7LT4_2 GCATCCTACT-GACATCGCGA 5082195
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4. TOP UNKNOWN BARCODES (>0.05% OF LANE READS)
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Loading Top_Unknown_Barcodes.csv from: merged/Reports/Top_Unknown_Barcodes.csv
Lane 1 - Found 14 barcodes with >0.05% of lane reads:
index index2 # Reads Percentage_of_Lane Percentage_of_Total
7001 CCAGTGCACT GGGGGGGGGG 17071524 0.3945 0.0499
7002 TTGGATTGTC GGGGGGGGGG 9450316 0.2184 0.0276
7003 AATTGGCACA GGGGGGGGGG 6591205 0.1523 0.0193
7004 TGCAACACTA GGGGGGGGGG 6052821 0.1399 0.0177
7005 TCGCATGACA GGGGGGGGGG 4657991 0.1076 0.0136
7006 GAAGCAAGCG GGGGGGGGGG 4287288 0.0991 0.0125
7007 ACAATAGCAC GGGGGGGGGG 3821687 0.0883 0.0112
7008 CCACCTGCTT GGGGGGGGGG 3593237 0.0830 0.0105
7009 GTACGCATCG GGGGGGGGGG 3517495 0.0813 0.0103
7010 CGTACTTAGA GGGGGGGGGG 3034993 0.0701 0.0089
7011 GATCTGTATG GGGGGGGGGG 2345695 0.0542 0.0069
7012 TTACGGACGC GGGGGGGGGG 2312243 0.0534 0.0068
7013 ACTTCCGTTC GGGGGGGGGG 2254874 0.0521 0.0066
7014 CATCAGGCGT GGGGGGGGGG 2216465 0.0512 0.0065
Lane 2 - Found 15 barcodes with >0.05% of lane reads:
index index2 # Reads Percentage_of_Lane Percentage_of_Total
1000 CCAGTGCACT GGGGGGGGGG 15691485 0.3645 0.0459
1001 TTGGATTGTC GGGGGGGGGG 8798536 0.2044 0.0257
1002 AATTGGCACA GGGGGGGGGG 6256110 0.1453 0.0183
1003 TGCAACACTA GGGGGGGGGG 5828771 0.1354 0.0170
1004 TCGCATGACA GGGGGGGGGG 4772549 0.1109 0.0139
1005 GAAGCAAGCG GGGGGGGGGG 3884918 0.0902 0.0114
1006 ACAATAGCAC GGGGGGGGGG 3704982 0.0861 0.0108
1007 CCACCTGCTT GGGGGGGGGG 3698399 0.0859 0.0108
1008 GTACGCATCG GGGGGGGGGG 3399116 0.0790 0.0099
1009 CGTACTTAGA GGGGGGGGGG 2858804 0.0664 0.0084
1010 GATCTGTATG GGGGGGGGGG 2495807 0.0580 0.0073
1011 TTACGGACGC GGGGGGGGGG 2429654 0.0564 0.0071
1012 ACTTCCGTTC GGGGGGGGGG 2324597 0.0540 0.0068
1013 AGTACAACTG GGGGGGGGGG 2252124 0.0523 0.0066
1014 CTACAAGTTC GGGGGGGGGG 2158134 0.0501 0.0063
Lane 3 - Found 15 barcodes with >0.05% of lane reads:
index index2 # Reads Percentage_of_Lane Percentage_of_Total
6001 CCAGTGCACT GGGGGGGGGG 15180901 0.3504 0.0444
6002 TTGGATTGTC GGGGGGGGGG 8574303 0.1979 0.0251
6003 AATTGGCACA GGGGGGGGGG 6180787 0.1426 0.0181
6004 TGCAACACTA GGGGGGGGGG 5881459 0.1357 0.0172
6005 TCGCATGACA GGGGGGGGGG 4950297 0.1142 0.0145
6006 GAAGCAAGCG GGGGGGGGGG 3987420 0.0920 0.0117
6007 CCACCTGCTT GGGGGGGGGG 3890082 0.0898 0.0114
6008 ACAATAGCAC GGGGGGGGGG 3790102 0.0875 0.0111
6009 GTACGCATCG GGGGGGGGGG 3531683 0.0815 0.0103
6010 CGTACTTAGA GGGGGGGGGG 3094222 0.0714 0.0090
6011 GATCTGTATG GGGGGGGGGG 2591359 0.0598 0.0076
6012 TTACGGACGC GGGGGGGGGG 2511405 0.0580 0.0073
6013 ACTTCCGTTC GGGGGGGGGG 2445214 0.0564 0.0071
6014 AGTACAACTG GGGGGGGGGG 2394711 0.0553 0.0070
6015 CTACAAGTTC GGGGGGGGGG 2273212 0.0525 0.0066
Lane 4 - Found 18 barcodes with >0.05% of lane reads:
index index2 # Reads Percentage_of_Lane Percentage_of_Total
3000 CCAGTGCACT GGGGGGGGGG 14615746 0.3425 0.0427
3001 TTGGATTGTC GGGGGGGGGG 8311691 0.1948 0.0243
3002 AATTGGCACA GGGGGGGGGG 6220867 0.1458 0.0182
3003 TGCAACACTA GGGGGGGGGG 6095722 0.1428 0.0178
3004 TCGCATGACA GGGGGGGGGG 5016570 0.1175 0.0147
3005 GAAGCAAGCG GGGGGGGGGG 4337469 0.1016 0.0127
3006 CCACCTGCTT GGGGGGGGGG 4094555 0.0959 0.0120
3007 ACAATAGCAC GGGGGGGGGG 3829519 0.0897 0.0112
3008 GTACGCATCG GGGGGGGGGG 3712787 0.0870 0.0109
3009 CGTACTTAGA GGGGGGGGGG 3433570 0.0805 0.0100
3010 GATCTGTATG GGGGGGGGGG 2995399 0.0702 0.0088
3011 ACTTCCGTTC GGGGGGGGGG 2723886 0.0638 0.0080
3012 TTACGGACGC GGGGGGGGGG 2714440 0.0636 0.0079
3013 AGTACAACTG GGGGGGGGGG 2664015 0.0624 0.0078
3014 CTACAAGTTC GGGGGGGGGG 2471397 0.0579 0.0072
3015 ATAGGCAGTG GGGGGGGGGG 2264720 0.0531 0.0066
3016 TCAATCTAGC GGGGGGGGGG 2260632 0.0530 0.0066
3017 GATGCTAGAA GGGGGGGGGG 2210396 0.0518 0.0065
Lane 5 - Found 19 barcodes with >0.05% of lane reads:
index index2 # Reads Percentage_of_Lane Percentage_of_Total
2000 CTCACCAGTT GGGGGGGGGG 9482600 0.2231 0.0277
2001 AATAGACTGC GGGGGGGGGG 8739035 0.2056 0.0255
2002 TAGAAGATCG GGGGGGGGGG 7612531 0.1791 0.0222
2003 AGTCCAGCGT GGGGGGGGGG 7336649 0.1726 0.0214
2004 AGGACGGACA GGGGGGGGGG 7140315 0.1680 0.0209
2005 CGGCATATAC GGGGGGGGGG 4696827 0.1105 0.0137
2006 CAACGTTGAC GGGGGGGGGG 4332297 0.1019 0.0127
2007 CATCACCTAA GGGGGGGGGG 3703435 0.0871 0.0108
2008 CCTGGAATTA GGGGGGGGGG 3293110 0.0775 0.0096
2009 ACGGTCGCAT CGTCATCGAA 3259393 0.0767 0.0095
2010 CCTATGTGTA GGGGGGGGGG 3118628 0.0734 0.0091
2011 GCGCGGTTAA GGGGGGGGGG 2969540 0.0699 0.0087
2012 GCGAAGTAGG CAGGCCATGT 2885608 0.0679 0.0084
2013 GCGACTCGTA GGGGGGGGGG 2876524 0.0677 0.0084
2014 GCGCGGTTAA GTACTCTCTA 2851901 0.0671 0.0083
2015 GCGATGGAAG GGGGGGGGGG 2763468 0.0650 0.0081
2016 ACGGTCGCAT AAGCTATAGC 2747653 0.0646 0.0080
2017 CACGAGTGTC GGGGGGGGGG 2679571 0.0630 0.0078
2018 ACAGAGGCGT GGGGGGGGGG 2389090 0.0562 0.0070
Lane 6 - Found 19 barcodes with >0.05% of lane reads:
index index2 # Reads Percentage_of_Lane Percentage_of_Total
5000 CTCACCAGTT GGGGGGGGGG 9976890 0.2359 0.0292
5001 AATAGACTGC GGGGGGGGGG 8859001 0.2095 0.0259
5002 TAGAAGATCG GGGGGGGGGG 8279894 0.1958 0.0242
5003 AGTCCAGCGT GGGGGGGGGG 7888127 0.1865 0.0231
5004 AGGACGGACA GGGGGGGGGG 7882113 0.1864 0.0230
5005 CGGCATATAC GGGGGGGGGG 4700725 0.1112 0.0137
5006 CAACGTTGAC GGGGGGGGGG 4295625 0.1016 0.0126
5007 CATCACCTAA GGGGGGGGGG 3757044 0.0888 0.0110
5008 CCTGGAATTA GGGGGGGGGG 3345085 0.0791 0.0098
5009 ACGGTCGCAT CGTCATCGAA 3322547 0.0786 0.0097
5010 CCTATGTGTA GGGGGGGGGG 2908761 0.0688 0.0085
5011 GCGACTCGTA GGGGGGGGGG 2862085 0.0677 0.0084
5012 GCGCGGTTAA GTACTCTCTA 2842978 0.0672 0.0083
5013 GCGCGGTTAA GGGGGGGGGG 2832696 0.0670 0.0083
5014 GCGAAGTAGG CAGGCCATGT 2827767 0.0669 0.0083
5015 ACGGTCGCAT AAGCTATAGC 2787528 0.0659 0.0081
5016 GCGATGGAAG GGGGGGGGGG 2677435 0.0633 0.0078
5017 CACGAGTGTC GGGGGGGGGG 2521842 0.0596 0.0074
5018 ACAGAGGCGT GGGGGGGGGG 2308460 0.0546 0.0067
Lane 7 - Found 19 barcodes with >0.05% of lane reads:
index index2 # Reads Percentage_of_Lane Percentage_of_Total
4000 CTCACCAGTT GGGGGGGGGG 10273297 0.2402 0.0300
4001 AATAGACTGC GGGGGGGGGG 9223699 0.2157 0.0270
4002 TAGAAGATCG GGGGGGGGGG 8675847 0.2029 0.0254
4003 AGTCCAGCGT GGGGGGGGGG 8261550 0.1932 0.0241
4004 AGGACGGACA GGGGGGGGGG 8058779 0.1885 0.0236
4005 CGGCATATAC GGGGGGGGGG 4766496 0.1115 0.0139
4006 CAACGTTGAC GGGGGGGGGG 4356298 0.1019 0.0127
4007 CATCACCTAA GGGGGGGGGG 3820382 0.0893 0.0112
4008 CCTGGAATTA GGGGGGGGGG 3541234 0.0828 0.0103
4009 ACGGTCGCAT CGTCATCGAA 3349088 0.0783 0.0098
4010 GCGACTCGTA GGGGGGGGGG 2970326 0.0695 0.0087
4011 GCGCGGTTAA GGGGGGGGGG 2955530 0.0691 0.0086
4012 CCTATGTGTA GGGGGGGGGG 2933578 0.0686 0.0086
4013 GCGCGGTTAA GTACTCTCTA 2868979 0.0671 0.0084
4014 GCGAAGTAGG CAGGCCATGT 2868818 0.0671 0.0084
4015 GCGATGGAAG GGGGGGGGGG 2862104 0.0669 0.0084
4016 ACGGTCGCAT AAGCTATAGC 2806545 0.0656 0.0082
4017 CACGAGTGTC GGGGGGGGGG 2614985 0.0612 0.0076
4018 ACAGAGGCGT GGGGGGGGGG 2326372 0.0544 0.0068
Lane 8 - Found 19 barcodes with >0.05% of lane reads:
index index2 # Reads Percentage_of_Lane Percentage_of_Total
0 CTCACCAGTT GGGGGGGGGG 10762895 0.2545 0.0315
1 AATAGACTGC GGGGGGGGGG 10077705 0.2383 0.0295
2 TAGAAGATCG GGGGGGGGGG 9043631 0.2139 0.0264
3 AGTCCAGCGT GGGGGGGGGG 8606056 0.2035 0.0252
4 AGGACGGACA GGGGGGGGGG 8248868 0.1951 0.0241
5 CGGCATATAC GGGGGGGGGG 4920299 0.1164 0.0144
6 CAACGTTGAC GGGGGGGGGG 4651706 0.1100 0.0136
7 CATCACCTAA GGGGGGGGGG 4109300 0.0972 0.0120
8 CCTGGAATTA GGGGGGGGGG 3652859 0.0864 0.0107
9 ACGGTCGCAT CGTCATCGAA 3290300 0.0778 0.0096
10 CCTATGTGTA GGGGGGGGGG 3157234 0.0747 0.0092
11 GCGACTCGTA GGGGGGGGGG 3068052 0.0726 0.0090
12 GCGCGGTTAA GGGGGGGGGG 3047624 0.0721 0.0089
13 GCGATGGAAG GGGGGGGGGG 2975291 0.0704 0.0087
14 GCGCGGTTAA GTACTCTCTA 2835885 0.0671 0.0083
15 GCGAAGTAGG CAGGCCATGT 2832434 0.0670 0.0083
16 ACGGTCGCAT AAGCTATAGC 2752574 0.0651 0.0080
17 CACGAGTGTC GGGGGGGGGG 2728874 0.0645 0.0080
18 ACAGAGGCGT GGGGGGGGGG 2403712 0.0568 0.0070
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5. BARCODES WITH HIGH MISMATCH RATES
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No barcodes found with >20.0% mismatch rate
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FINAL STATUS CHECK
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Overall % Undetermined: 5.09%
Status: 🔴 FAIL
Reason(s):
Overall undetermined 5.09% >= 5.0%
NTC sample NTC_0001_0001_23KKJ7LT4_1 has 6,189,071 reads > 2,000,000
NTC sample NTC_0001_0001_23KKJ7LT4_2 has 5,082,195 reads > 2,000,000
Thresholds: <5.0% = PASS, 5.0-10.0% = WARNING, >10.0% = FAIL
NTC gate: >2,000,000 reads = FAIL
=== Creating reports in . ===
QC summary saved to: ./qc_report.csv
Detailed QC report saved to: ./qc_report_detailed.txt
Fail file created: ./samplesheet_status.fail
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QC SUMMARY
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Metric Value
Total_Reads 34217358764
Total_Samples_Analyzed 97
Number_of_Lanes 8
Global_Percent_Undetermined 5.09%
Lanes_Exceeding_Fail_Threshold None
Samples_with_Low_Reads 0
NTC_Samples_with_High_Reads 2
Significant_Unknown_Barcodes 138
High_Mismatch_Barcodes 0
Final_Status FAIL
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QC Analysis completed successfully!
Flowcell Status: FAIL
Reports generated:
- ./qc_report.csv
- ./qc_report_detailed.txt
- ./samplesheet_status.fail
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