Abstract / Summary
Version 3 (September 20, 2026) -- Major corrections This version corrects significant errors identified after publication of v2: (1) Three genomic files replaced after correctness verification: the files previously used for CCHF IbAr10200 (864KB, unidentified origin), BDBV 2007 reference (18,940 nt, sequence mismatch with FJ217162), and Marburg Angola 2005 (154KB baculovirus file) did not match their declared NCBI accessions. All three have been replaced with direct NCBI downloads. VZV (NC_001348) and PRV (NC_006151) were confirmed correct. All data in this version are calculated on verified files. (2) Multi-temporal BDBV table corrected: FJ217162 (GQ-like=14, NCBI laboratory genome) is no longer used as a statistical reference for Pathoplexus epidemiological corpora (GQ-like=35-37). The two datasets reflect different origins (laboratory vs field isolates) and are not directly comparable. (3) Additional validations: MICRA recalculated at 1000 permutations; NP-SEE GQ-like positive control added (c-MYC: 474, telomere: 195); M32 removed (not applicable to genomes <50KB); GQ renamed GQ-like to distinguish from canonical QGRS definition; CI95 for BDBV 2026 corrected to bootstrap percentile. Users who downloaded v1 or v2 are strongly encouraged to use this version. Attached: verified FASTA files for all 5 main pathogens + QC CSV files for all BDBV and Zaire 2025 corpora. v3.1 update: "PAN-FILOVIRAL CONSERVED REGION" renamed "PAN-FILOVIRAL CANDIDATE REGION"; structural target language revised per independent review; exploratory thresholds declared as pre-defined. v.2 NP-SEE v6.1 — Structural Genomic Analysis of Filoviruses and Emerging PathogensTechnical Report — Version 4 — September 2026 This technical report presents computational structural genomic analysis using NP-SEE v6.1 (Non-Parametric Structural Entropy Engine) on a corpus of filoviral genomes and emerging pathogens: Ebola Bundibugyo 2007 (n=11, reference FJ217162), 2012 (n=23), 2026 (n=48), Marburg Angola 2005 (DQ447653, 19,114 nt), Marburg 2025 Tanzania (n=2), historical Marburg strains (n=5), Ebola Zaire 2025 (n=8), CCHF IbAr10200, VZV, and PRV. Version 4 updates: MICRA recalculated at 1000 permutations for all 5 pathogens; QGRS Mapper cross-validation (local implementation) and G4Hunter applied to BDBV and Marburg; positive controls performed on c-MYC NHE III1 and human telomere; Hamming distance analysis on the BDBV 2007 corpus explaining SD=0; complete GC%/N%/GQ table for all 8 Zaire 2025 genomes; M32 MIVAP moved to appendix; all genomic files re-verified. Main results: (1) all genomes show statistically non-random structure (Lambda p<0.05, 1000 permutations C++); (2) MICRA ROBUST for CCHF (p=0.002), BDBV (p=0.008), VZV (p=0.007), PRV (p=0.002); NOISE for Marburg Angola 2005 (p=0.082); (3) GQ density conserved across BDBV strains 2007–2026; (4) QGRS Mapper finds 0 canonical GQs on low-GC filoviral genomes (~40%) — biologically expected and confirmed by positive controls (12 GQs on c-MYC, 21 on telomere); (5) negative scrambled control passed (ratio 7x); (6) highest convergence score in the filoviral corpus: Marburg Angola 2005, score=658, offset 234 nt (NP CDS, verified). NP-SEE is proprietary software. This document is a technical report, not a reproducible scientific preprint. All genomic sequences are publicly available from NCBI GenBank and Pathoplexus. v.1 We report the results of a structural genomic analysis of 53 viral sequences conducted using NP-SEE v6.1, a non-parametric analysis framework that operates directly on raw genomic sequences without reference databases, known signatures, or free parameters. The corpus comprises 48 complete genomes of Ebola Bundibugyo virus (BDBV) from the ongoing 2026 epidemic in the Democratic Republic of Congo (DRC/Uganda), the reference BDBV 2007 strain, Marburg Angola 2005, CCHF IbAr10200, VZV, and PRV. Principal findings: (1) all 53 genomes show statistically non-random genomic structure (Lambda p<0.001, 1,000 bootstrap permutations); (2) the BDBV 2026 strain displays a mean G-quadruplex density 5.4-fold higher than the 2007 strain; (3) the internal structure is conserved between strains 2007 and 2026 (p=0.065, non-significant), suggesting that therapeutic targets identified on the historical strain apply to the current epidemic; (4) a pan-filoviral structural convergence zone in the first 500 nt of the genome (score >= 458) is identified in all filoviruses analysed. Keywords: Ebola Bundibugyo, Marburg, CCHF, genomic structural analysis, G-quadruplex, evolutionary constraints, antiviral targets, NP-SEE, non-parametric bootstrap, PHEIC 2026.