Summary

Basic Descriptive Statistics
✖ Data Leakage
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Automated quality control for genomic machine learning datasets: scores the biases, duplicates and data leakage a classifier could exploit before you train on it.
Searching test set human_nontata_promoters_test.csv.gz against train set human_nontata_promoters_train.csv.gz
Data Leakage:✖FailHow a flag is decided →
gb-qc v1.0.0 · run 2026-09-15 22:31:04

Basic Descriptive Statistics

Filename human_nontata_promoters_test.csv.gz human_nontata_promoters_train.csv.gz
Number of sequences 9034 27097
Minimum length 251 251
Mean length 251.00 251.00
Maximum length 251 251
✖

Data Leakage

Every test sequence searched against the train set with MMseqs2, and scored on its best hit. Similarity is min(query coverage, target coverage) × percent identity: how much of the shorter sequence the alignment spans, times how much of that matches. The histogram is the distribution of those best hits.

The flag is the percentage of test sequences at or above the threshold: Pass at 0%, Warning below 2%, Fail at 2% or more. A test sequence that near-duplicates a training one is one the model has already seen, so the accuracy it earns there is not evidence. What to do about it →

The panel under the histogram lists those alignments, up to the first 100; every one of them, listed or not, is exported to mmseqs/mmseqs2_search_result.tsv beside this report. Its columns are:

Query (Q)
Identifier of the test sequence: seq_<i>_test, where i is its 0-based position in the input test file.
Target (T)
Identifier of the train sequence: seq_<i>_train, where i is its 0-based position in the input train file.
Q Cov.
Fraction of the query sequence covered by the alignment (0–1).
T Cov.
Fraction of the target sequence covered by the alignment (0–1).
% Identity
Percent identical aligned positions in the aligned region.
% Similarity
Similarity score used for leakage detection, calculated as min(Q Cov., T Cov.) × % Identity.
E-value
MMseqs2 E-value (lower is more "significant").
Alignment
Click “Show” to expand the alignment visualisation for a row.
Filename human_nontata_promoters_test.csv.gz human_nontata_promoters_train.csv.gz
Data Leakage (percentage) 34.08% 17.11%
Data Leakage (count) 3079 4636
Similarity Histogram
7055 high-similarity alignments (first 100 shown)
Query (Q) Target (T) Q Cov. T Cov. % Identity % Similarity E-value Alignment
seq_2402_test seq_7761_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2594_test seq_11419_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1202_test seq_6506_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1202_test seq_4312_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3786_test seq_1537_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3571_test seq_10165_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2302_test seq_7528_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2014_test seq_3746_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3491_test seq_6625_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2976_test seq_8357_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3517_test seq_6897_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3640_test seq_12164_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3896_test seq_10368_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1546_test seq_6179_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1724_test seq_9638_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3902_test seq_6642_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3654_test seq_10288_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3686_test seq_6296_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3750_test seq_5102_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3814_test seq_2833_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1683_test seq_12078_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1907_test seq_8418_train 1.00 1.00 100.0 99.60 5.00e-136
seq_837_test seq_2294_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1093_test seq_8297_train 1.00 1.00 100.0 99.60 5.00e-136
seq_943_test seq_7859_train 1.00 1.00 100.0 99.60 5.00e-136
seq_22_test seq_10396_train 1.00 1.00 100.0 99.60 5.00e-136
seq_54_test seq_1628_train 1.00 1.00 100.0 99.60 5.00e-136
seq_583_test seq_11564_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3112_test seq_1614_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3112_test seq_2286_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3462_test seq_4007_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1908_test seq_4241_train 1.00 1.00 100.0 99.60 5.00e-136
seq_544_test seq_8898_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1821_test seq_1662_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1885_test seq_12346_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3973_test seq_5008_train 1.00 1.00 100.0 99.60 5.00e-136
seq_974_test seq_11938_train 1.00 1.00 100.0 99.60 5.00e-136
seq_827_test seq_5829_train 1.00 1.00 100.0 99.60 5.00e-136
seq_350_test seq_8972_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1904_test seq_11680_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2281_test seq_4487_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2281_test seq_4138_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1468_test seq_932_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1229_test seq_7726_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2864_test seq_8132_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3088_test seq_11158_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2915_test seq_10462_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3171_test seq_5435_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1594_test seq_1532_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1658_test seq_154_train 1.00 1.00 100.0 99.60 5.00e-136
seq_4049_test seq_5197_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2126_test seq_4154_train 1.00 1.00 100.0 99.60 5.00e-136
seq_505_test seq_8879_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2017_test seq_9731_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1837_test seq_10537_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1443_test seq_224_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1507_test seq_2933_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2821_test seq_4753_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1492_test seq_6090_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3284_test seq_10132_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3284_test seq_8953_train 1.00 1.00 100.0 99.60 5.00e-136
seq_327_test seq_2541_train 1.00 1.00 100.0 99.60 5.00e-136
seq_391_test seq_8680_train 1.00 1.00 100.0 99.60 5.00e-136
seq_714_test seq_6950_train 1.00 1.00 100.0 99.60 5.00e-136
seq_662_test seq_4138_train 1.00 1.00 100.0 99.60 5.00e-136
seq_662_test seq_9330_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2968_test seq_5981_train 1.00 1.00 100.0 99.60 5.00e-136
seq_7_test seq_2212_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3819_test seq_1059_train 1.00 1.00 100.0 99.60 5.00e-136
seq_4043_test seq_7256_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3692_test seq_7742_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1549_test seq_8812_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3400_test seq_9454_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3464_test seq_364_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2417_test seq_6899_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3942_test seq_9884_train 1.00 1.00 100.0 99.60 5.00e-136
seq_954_test seq_7153_train 1.00 1.00 100.0 99.60 5.00e-136
seq_954_test seq_5882_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1210_test seq_6818_train 1.00 1.00 100.0 99.60 5.00e-136
seq_10_test seq_1513_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2181_test seq_4496_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3332_test seq_8798_train 1.00 1.00 100.0 99.60 5.00e-136
seq_2150_test seq_2283_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1000_test seq_10527_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3511_test seq_5916_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3543_test seq_9484_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3501_test seq_663_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3629_test seq_6687_train 1.00 1.00 100.0 99.60 5.00e-136
seq_468_test seq_918_train 1.00 1.00 100.0 99.60 5.00e-136
seq_468_test seq_188_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1772_test seq_872_train 1.00 1.00 100.0 99.60 5.00e-136
seq_595_test seq_6235_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1371_test seq_9576_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1433_test seq_3208_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1433_test seq_1547_train 1.00 1.00 100.0 99.60 5.00e-136
seq_1561_test seq_8473_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3470_test seq_2531_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3201_test seq_6401_train 1.00 1.00 100.0 99.60 5.00e-136
seq_3508_test seq_5832_train 1.00 1.00 100.0 99.60 5.00e-136
seq_907_test seq_6999_train 1.00 1.00 100.0 99.60 5.00e-136