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 core_promoter_detection_all_test.csv.gz against train set core_promoter_detection_all_train.csv.gz
Data Leakage:!WarningHow a flag is decided →
gb-qc v1.0.0 · run 2026-09-15 22:30:51

Basic Descriptive Statistics

Filename core_promoter_detection_all_test.csv.gz core_promoter_detection_all_train.csv.gz
Number of sequences 5920 47356
Minimum length 70 70
Mean length 70.00 70.00
Maximum length 70 70
!

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 core_promoter_detection_all_test.csv.gz core_promoter_detection_all_train.csv.gz
Data Leakage (percentage) 1.45% 0.23%
Data Leakage (count) 86 107
Similarity Histogram
111 high-similarity alignments (first 100 shown)
Query (Q) Target (T) Q Cov. T Cov. % Identity % Similarity E-value Alignment
seq_2669_test seq_790_train 1.00 1.00 100.0 100.00 1.57e-34
seq_60_test seq_46477_train 1.00 1.00 100.0 100.00 1.57e-34
seq_2780_test seq_4049_train 1.00 1.00 100.0 100.00 1.57e-34
seq_3645_test seq_15925_train 1.00 1.00 100.0 100.00 1.57e-34
seq_1585_test seq_14620_train 1.00 1.00 100.0 100.00 1.57e-34
seq_3479_test seq_41408_train 1.00 1.00 100.0 100.00 1.57e-34
seq_980_test seq_22509_train 1.00 1.00 100.0 100.00 1.57e-34
seq_79_test seq_37989_train 1.00 1.00 100.0 100.00 1.57e-34
seq_2158_test seq_44246_train 1.00 1.00 100.0 100.00 1.57e-34
seq_2421_test seq_33967_train 1.00 1.00 100.0 100.00 1.57e-34
seq_371_test seq_44666_train 1.00 1.00 100.0 100.00 1.57e-34
seq_1334_test seq_13203_train 1.00 1.00 100.0 100.00 1.57e-34
seq_351_test seq_39249_train 1.00 1.00 100.0 100.00 1.57e-34
seq_5819_test seq_42994_train 1.00 1.00 100.0 100.00 1.57e-34
seq_1091_test seq_29358_train 1.00 1.00 100.0 100.00 1.57e-34
seq_1752_test seq_14816_train 1.00 1.00 100.0 100.00 1.57e-34
seq_4326_test seq_22160_train 1.00 1.00 100.0 100.00 1.57e-34
seq_992_test seq_31979_train 1.00 1.00 100.0 100.00 1.57e-34
seq_1263_test seq_14352_train 1.00 1.00 100.0 100.00 1.57e-34
seq_910_test seq_32691_train 1.00 1.00 100.0 100.00 1.57e-34
seq_330_test seq_38233_train 1.00 1.00 100.0 100.00 1.57e-34
seq_3978_test seq_15818_train 1.00 1.00 100.0 100.00 1.57e-34
seq_498_test seq_20034_train 1.00 1.00 100.0 100.00 1.57e-34
seq_10_test seq_28568_train 1.00 1.00 100.0 100.00 1.57e-34
seq_821_test seq_18481_train 1.00 1.00 100.0 100.00 1.57e-34
seq_393_test seq_46923_train 1.00 1.00 100.0 100.00 1.57e-34
seq_1626_test seq_38904_train 1.00 1.00 100.0 100.00 1.57e-34
seq_1635_test seq_18541_train 1.00 1.00 100.0 100.00 1.57e-34
seq_1775_test seq_20999_train 1.00 1.00 100.0 100.00 1.57e-34
seq_887_test seq_35616_train 1.00 1.00 100.0 100.00 1.57e-34
seq_2074_test seq_12506_train 1.00 1.00 100.0 100.00 1.57e-34
seq_3407_test seq_39482_train 1.00 1.00 100.0 100.00 1.57e-34
seq_2532_test seq_11659_train 1.00 1.00 100.0 100.00 1.57e-34
seq_175_test seq_24727_train 1.00 1.00 100.0 100.00 1.57e-34
seq_4772_test seq_4049_train 1.00 1.00 100.0 100.00 1.57e-34
seq_71_test seq_8281_train 1.00 1.00 100.0 100.00 1.57e-34
seq_197_test seq_25842_train 1.00 1.00 100.0 100.00 1.57e-34
seq_229_test seq_26365_train 1.00 1.00 100.0 100.00 1.57e-34
seq_4791_test seq_34978_train 1.00 1.00 100.0 100.00 1.57e-34
seq_288_test seq_12894_train 1.00 1.00 100.0 100.00 1.57e-34
seq_328_test seq_33485_train 1.00 1.00 100.0 100.00 1.57e-34
seq_148_test seq_16704_train 1.00 1.00 100.0 100.00 1.57e-34
seq_276_test seq_38363_train 1.00 1.00 100.0 100.00 1.57e-34
seq_5419_test seq_18462_train 0.99 0.99 100.0 98.60 7.71e-34
seq_4512_test seq_46437_train 0.99 0.99 100.0 98.60 7.71e-34
seq_200_test seq_1381_train 0.99 0.99 100.0 98.60 7.71e-34
seq_296_test seq_27519_train 0.99 0.99 100.0 98.60 7.71e-34
seq_4971_test seq_21087_train 0.99 0.99 100.0 98.60 7.71e-34
seq_556_test seq_10626_train 0.99 0.99 100.0 98.60 7.71e-34
seq_526_test seq_47072_train 0.99 0.99 100.0 98.60 7.71e-34
seq_60_test seq_1257_train 1.00 1.00 98.5 98.50 8.30e-33
seq_60_test seq_18511_train 1.00 1.00 98.5 98.50 8.30e-33
seq_371_test seq_5479_train 1.00 1.00 98.5 98.50 8.30e-33
seq_451_test seq_2006_train 1.00 1.00 98.5 98.50 8.30e-33
seq_1849_test seq_2670_train 0.99 0.99 98.5 97.12 4.02e-32
seq_5267_test seq_26334_train 0.97 0.97 100.0 97.10 3.76e-33
seq_199_test seq_12650_train 0.97 0.97 100.0 97.10 3.76e-33
seq_4417_test seq_41386_train 1.00 1.00 97.1 97.10 4.23e-31
seq_3132_test seq_21583_train 1.00 1.00 97.1 97.10 4.23e-31
seq_3132_test seq_36953_train 1.00 1.00 97.1 97.10 4.23e-31
seq_5267_test seq_33679_train 0.99 1.00 97.1 95.74 9.57e-30
seq_371_test seq_31076_train 0.99 0.99 97.1 95.74 2.02e-30
seq_371_test seq_5961_train 0.99 0.99 97.1 95.74 2.02e-30
seq_4417_test seq_41642_train 0.99 0.99 97.1 95.74 2.02e-30
seq_3096_test seq_15347_train 0.96 0.96 100.0 95.70 1.83e-32
seq_254_test seq_3956_train 1.00 1.00 95.7 95.70 2.08e-29
seq_3324_test seq_40020_train 1.00 1.00 95.7 95.70 2.08e-29
seq_1553_test seq_38951_train 0.96 0.96 100.0 95.70 1.83e-32
seq_467_test seq_44647_train 0.96 0.96 100.0 95.70 1.83e-32
seq_405_test seq_3956_train 1.00 1.00 95.7 95.70 2.08e-29
seq_4791_test seq_16739_train 1.00 1.00 95.7 95.70 2.08e-29
seq_3163_test seq_26096_train 0.97 0.97 98.5 95.64 1.93e-31
seq_3685_test seq_16001_train 0.94 0.94 100.0 94.30 8.82e-32
seq_3685_test seq_34662_train 0.94 0.94 100.0 94.30 8.82e-32
seq_4417_test seq_29812_train 0.96 0.96 98.5 94.26 9.25e-31
seq_5556_test seq_47349_train 1.00 1.00 94.2 94.20 9.79e-28
seq_254_test seq_37288_train 1.00 1.00 94.2 94.20 9.79e-28
seq_3324_test seq_34194_train 1.00 1.00 94.2 94.20 9.79e-28
seq_1505_test seq_14288_train 1.00 1.00 94.2 94.20 9.79e-28
seq_371_test seq_14057_train 1.00 1.00 94.2 94.20 9.79e-28
seq_503_test seq_36990_train 1.00 1.00 94.2 94.20 9.79e-28
seq_4901_test seq_45220_train 1.00 1.00 94.2 94.20 9.79e-28
seq_1505_test seq_10881_train 0.97 0.97 97.0 94.19 9.57e-30
seq_1585_test seq_34186_train 0.93 0.93 100.0 92.90 4.23e-31
seq_2347_test seq_28174_train 0.93 0.93 100.0 92.90 4.23e-31
seq_254_test seq_46215_train 1.00 1.00 92.8 92.80 4.41e-26
seq_260_test seq_30441_train 1.00 1.00 92.8 92.80 4.41e-26
seq_409_test seq_41509_train 1.00 1.00 92.8 92.80 4.41e-26
seq_612_test seq_32380_train 1.00 1.00 92.8 92.80 4.41e-26
seq_934_test seq_34250_train 0.97 1.00 94.2 91.47 4.23e-25
seq_934_test seq_21849_train 0.97 1.00 94.2 91.47 4.23e-25
seq_3064_test seq_19411_train 0.93 0.93 98.4 91.41 2.08e-29
seq_140_test seq_45297_train 0.93 0.93 98.4 91.41 2.08e-29
seq_503_test seq_36708_train 0.99 0.99 92.7 91.40 1.99e-25
seq_569_test seq_21851_train 0.99 0.99 92.7 91.40 1.99e-25
seq_5568_test seq_14288_train 1.00 1.00 91.4 91.40 1.89e-24
seq_2922_test seq_4944_train 1.00 1.00 91.4 91.40 1.89e-24
seq_3682_test seq_19396_train 0.91 0.91 100.0 91.40 2.02e-30
seq_404_test seq_11930_train 0.97 0.97 94.1 91.37 2.07e-26
seq_2495_test seq_27601_train 0.99 0.99 91.3 90.02 8.37e-24