Table 3.

MiRNA-like molecules identified using structural search and ab initio prediction

Candidate number	Ext	Chr	Start Position	End Position	Pred	Length	SnoReport score	HMMiR likelihood ratio	Fold-change (N0/N+)
356	Both	chr4	102,540,761	102,541,036	miRNA	276	0	0.69	13.58
1731	Both	chr4	112,606,383	112,606,658	miRNA	276	0	0.7	56.18
1731	5'	chr4	112,606,478	112,606,658	miRNA	181	0	0.7	56.18
6039	Both	chr3	155,125,921	155,126,196	snoRNA C/D	276	0.99 (−)	0	48.87
6039	3'	chr3	155,125,921	155,126,101	snoRNA C/D	181	0.99 (−)	0	48.87
8442	Both	chr21	19,709,655	19,709,930	snoRNA C/D	276	0.99 (−)	0	9.21
12,375	5'	chr19	35,649,281	35,649,461	miRNA	181	0	0.7	12.57
15,215	3'	chr17	51,543,077	51,543,257	miRNA	181	0	0.67	12.94
16,666	Both	chr3	608,518	608,793	snoRNA C/D	276	0.96 (+)	0	−16.14
16,666	3'	chr3	608,518	608,698	snoRNA C/D	181	0.96 (+)	0	−16.14
19,713	Both	chr3	7,941,925	7,942,200	miRNA	276	0	0.69	−21.66
19,713	5'	chr3	7,942,020	7,942,200	miRNA	181	0	0.69	−21.66

Candidate number indicates the number of the read in our dataset. Extension (Ext) indicates which of the three genomic extractions the classification refers to the location of the 120 nucleotide extension performed on the original read (3’- 25 nt upstream, 120 nt downstream, 5’ – 120 nt usptream, 25 nt downstream, Both – 120 nt upstream, 120 nt downstream). Prediction (Pred) indicates the annotation attibuted to the candidate. Positive Fold Change: higher expression in non-metastasized OSCC; negative Fold Change: higher expression in metastasized OSCC