Inversion symmetry of DNA k-mer counts: validity and deviations

BMC Genomics

Table 6 Gene occurrences on the plus (#P) and minus (#M) strands of HG38 display abundance of the former

chr	P	M	Y(P,M)	Z(P,M)	p values	Z(T,A)	Z(G,C)	corr
1	4488	4291	0.022	2.103	0.018	15.00	5.76	v
2	4106	3367	0.099	8.549	0	16.41	13.49	v
3	2938	2516	0.077	5.714	5.65E-09	13.19	12.50	v
4	2542	1792	0.173	11.392	0	5.75	11.04	v
5	2777	2186	0.119	8.389	0	24.44	17.50	v
6	4840	3563	0.152	13.931	0	2.72	8.12	v
7	3024	2402	0.115	8.444	0	16.15	7.57	v
8	2135	2032	0.025	1.596	0.055	−3.53	9.65
9	3032	2180	0.163	11.802	0	5.61	9.99	v
10	2532	2156	0.080	5.492	2.01E-08	17.18	10.82	v
11	2879	4047	−0.169	−14.035	0	8.48	10.51	x
12	3003	2771	0.040	3.053	0.0011	13.75	12.20	x
13	1261	1227	0.014	0.682	0.25	14.83	15.36
14	2092	1906	0.047	2.942	0.0016	32.58	22.24	v
15	4226	3547	0.087	7.702	6.77E-15	6.44	12.23	v
16	2529	1875	0.149	9.855	0	32.17	21.07	v
17	3582	2902	0.105	8.445	0	9.77	20.81	v
18	1182	1490	−0.115	−5.958	1.26E-09	19.03	47.34	x
19	3287	3036	0.040	3.157	0.00079	25.46	20.13	v
20	1258	1193	0.027	1.313	0.09500	33.22	33.70
21	670	779	−0.075	−2.863	0.00212	7.33	10.15	x
22	1429	1793	−0.113	−6.413	7.28E-11	−2.52	19.94	?
X	1927	1572	0.101	6.001	9.87E-10	16.73	22.23	v
Y	491	184	0.455	11.816	0.00E + 00	17.58	0.34
				P < M	p > 0.05	T < A	p > 0.05

Three of the results are insignificant (highlighted p > 0.05, q > 0.044 using FDR corrections). Four chromosomes have opposite preferences, set in italics for P < M and T < A. For all significant results we find 16 chromosomes displaying both P > M, T > A, and G > C. Chr 22 has both P < M and T < A. Last column indicates significant correlations of T-A and G-C with gene counts (positive by v and negative by x)

ISSN: 1471-2164