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 H2AFZ_test.csv.gz against train set H2AFZ_train.csv.gz
Data Leakage:!WarningHow a flag is decided →
gb-qc v1.0.0 · run 2026-09-15 22:31:13

Basic Descriptive Statistics

Filename H2AFZ_test.csv.gz H2AFZ_train.csv.gz
Number of sequences 3000 30000
Minimum length 1000 1000
Mean length 1000.00 1000.00
Maximum length 1000 1000
!

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 H2AFZ_test.csv.gz H2AFZ_train.csv.gz
Data Leakage (percentage) 1.00% 0.14%
Data Leakage (count) 30 41
Similarity Histogram
67 high-similarity alignments
Query (Q) Target (T) Q Cov. T Cov. % Identity % Similarity E-value Alignment
seq_1222_test seq_6776_train 0.99 0.99 97.0 95.74 0.00e+00
seq_251_test seq_6776_train 0.99 0.99 97.0 95.74 0.00e+00
seq_2455_test seq_26105_train 0.98 0.98 97.2 95.64 0.00e+00
seq_2294_test seq_22806_train 0.99 0.99 96.8 95.54 0.00e+00
seq_2481_test seq_8522_train 0.99 0.99 96.4 95.44 0.00e+00
seq_2294_test seq_25850_train 0.99 0.99 96.5 95.25 0.00e+00
seq_2294_test seq_23566_train 0.99 0.99 96.3 95.24 0.00e+00
seq_874_test seq_28710_train 0.99 0.98 96.4 94.95 0.00e+00
seq_2115_test seq_24343_train 1.00 1.00 95.0 94.91 0.00e+00
seq_2927_test seq_24548_train 1.00 1.00 95.1 94.81 0.00e+00
seq_320_test seq_27884_train 0.99 0.99 95.9 94.65 0.00e+00
seq_707_test seq_18000_train 0.97 0.97 97.6 94.57 0.00e+00
seq_874_test seq_14051_train 0.97 0.97 97.3 94.38 0.00e+00
seq_2657_test seq_26105_train 0.98 0.98 96.5 94.18 0.00e+00
seq_368_test seq_22806_train 0.98 0.98 96.1 94.18 0.00e+00
seq_2267_test seq_6868_train 0.98 0.98 96.2 94.08 0.00e+00
seq_2073_test seq_9870_train 0.99 1.00 94.4 93.83 0.00e+00
seq_1202_test seq_25718_train 0.98 0.98 95.4 93.78 0.00e+00
seq_2592_test seq_6776_train 0.96 0.96 97.2 93.70 0.00e+00
seq_320_test seq_14051_train 0.97 0.97 96.3 93.70 0.00e+00
seq_1254_test seq_23064_train 0.98 0.98 95.1 93.67 0.00e+00
seq_368_test seq_25850_train 0.98 0.98 95.6 93.59 0.00e+00
seq_1405_test seq_25718_train 0.96 0.97 97.0 93.51 0.00e+00
seq_1222_test seq_21866_train 0.96 0.96 97.8 93.50 0.00e+00
seq_251_test seq_21866_train 0.96 0.96 97.8 93.50 0.00e+00
seq_2484_test seq_8726_train 0.97 0.97 95.7 93.31 0.00e+00
seq_2641_test seq_14856_train 0.97 0.97 96.5 93.22 0.00e+00
seq_2267_test seq_6466_train 0.97 0.97 95.9 93.12 0.00e+00
seq_874_test seq_27884_train 0.96 0.96 97.4 93.11 0.00e+00
seq_2115_test seq_25718_train 0.96 0.97 96.4 92.93 0.00e+00
seq_564_test seq_22138_train 0.95 0.95 97.4 92.92 0.00e+00
seq_564_test seq_11195_train 1.00 0.98 94.0 92.50 0.00e+00
seq_2484_test seq_18255_train 0.96 0.96 96.2 92.45 0.00e+00
seq_2267_test seq_29029_train 0.96 0.96 96.5 92.45 0.00e+00
seq_2592_test seq_27840_train 0.95 0.95 97.2 92.34 0.00e+00
seq_1805_test seq_26105_train 0.95 0.95 97.3 92.34 0.00e+00
seq_1254_test seq_22863_train 0.99 0.99 93.4 92.28 0.00e+00
seq_2641_test seq_25007_train 0.97 0.97 94.9 92.24 0.00e+00
seq_2073_test seq_24658_train 0.98 0.99 93.7 92.20 0.00e+00
seq_2115_test seq_27884_train 0.95 0.95 96.7 92.06 0.00e+00
seq_1131_test seq_29374_train 0.97 0.97 95.2 91.96 0.00e+00
seq_399_test seq_29374_train 0.97 0.97 95.2 91.96 0.00e+00
seq_1254_test seq_7403_train 0.96 0.97 95.3 91.87 0.00e+00
seq_2355_test seq_4298_train 0.99 0.99 92.8 91.69 0.00e+00
seq_368_test seq_23566_train 0.96 0.96 95.6 91.68 0.00e+00
seq_2641_test seq_16309_train 0.94 0.94 97.2 91.56 0.00e+00
seq_197_test seq_25718_train 0.95 0.96 96.0 91.49 0.00e+00
seq_2927_test seq_23897_train 0.96 0.97 94.7 91.39 0.00e+00
seq_1254_test seq_16612_train 0.97 0.98 93.8 91.36 0.00e+00
seq_2294_test seq_6466_train 0.95 0.95 96.1 91.29 0.00e+00
seq_2076_test seq_14856_train 0.96 0.96 94.8 91.29 0.00e+00
seq_320_test seq_24343_train 0.96 0.96 94.7 91.29 0.00e+00
seq_2115_test seq_14051_train 0.94 0.94 97.3 91.27 0.00e+00
seq_2592_test seq_21866_train 0.93 0.93 97.6 91.06 0.00e+00
seq_1611_test seq_21161_train 0.93 0.93 98.0 91.04 0.00e+00
seq_2481_test seq_7790_train 0.94 0.94 96.7 90.99 0.00e+00
seq_2484_test seq_22806_train 0.94 0.94 96.0 90.62 0.00e+00
seq_564_test seq_155_train 0.94 0.94 96.1 90.62 0.00e+00
seq_388_test seq_8522_train 0.94 0.94 96.6 90.61 0.00e+00
seq_707_test seq_26105_train 0.93 0.93 97.4 90.58 0.00e+00
seq_564_test seq_8932_train 0.94 0.94 96.1 90.53 0.00e+00
seq_1131_test seq_6965_train 0.95 0.95 95.0 90.34 0.00e+00
seq_399_test seq_6965_train 0.95 0.95 95.0 90.34 0.00e+00
seq_2264_test seq_11527_train 0.93 0.93 97.3 90.29 0.00e+00
seq_1222_test seq_27840_train 0.93 0.93 97.4 90.29 0.00e+00
seq_251_test seq_27840_train 0.93 0.93 97.4 90.29 0.00e+00
seq_2355_test seq_93_train 0.97 0.97 92.9 90.02 0.00e+00