>Osa01LNT0019600.3

CCTCAGATCCGTGTGCTCGGCTCCTTCCTCCCCTCTTTTCTCCCCGCTTTTCCCATCCAATCCCGGCGGCGGCGGTGGCTCGGTGACGAGAGGAGTAGCAGTGGTAGTGGTGGCTCAATGACGAGGAGGGGCGGCGAGAGCTCGGCGACAGGGAAGGGCGGCGAGAGCTCGGTTCCTCCCTCCCCTCTTCTCCTCTCCAATCCCGGCGGCGGCTCGGCGACAAGTAAGGACGGCGGGAGCTCGGCTCCTTCCGGCAACTGATGGGAGAAGACGCCCCTTGTGGAGAGCTGCTGCCGGTGCTGCCGTCGTCGTCAGCGCCGCCGTCGCAACCAAGGGGACACGGCTTCCTTGCTGGAGAGCTGCTGCCGGTGTTGCCGTCGTCGTCCTCCCCCGCCGATTACGAGTGCTACGTCCACTACACCGAGTGTAAGCGACCTCGCCCTCACCAGGATGCTTCGTTTCTAGGGTTAGGTTTGGGGTGCTTCAGATTGAGGAAATCTGGGGCTTAAATGGTCAATTAGGTTTAGGGGTTATGAAATATATGTAAATATACGTGCGGTAGTAGTACTGATGGAATAACAAAAAAGATTAGGGCATTTTGTTCGCCACAGCAGCATGGTTGGTACCATTAGGAACTAGAAACTGAAGAATACAAATCCAATTGATCTGTTATAATGATGCATGAAAGATGTTTTTCTTTCTTTTCTTCTATTGGGGTGGGTTCATTTCAGAAATACCCAATTTGTTAGGTTGACCACATGTCCCCATTTTGATCTGCGACGTCACAGACAATTCTCTTGTAATGTATATGTGCATTGTTTGTCAGAAACCTGTCGAATGGGAGGCACCATCATAATTATATGATCCAGCATTATGAAGTAACCATCAACTGATCTAAGCTGGGAGGTAATTTCTAAACCTCACCTCTGATGTTTGATGAATTTCATTTTCTTGTAAATACTTTTTTTGACCAGATTTCCTGCCATATATATTTACATATATGATCGTGTAGATACTAGCTAGATCTTTCCTCTTAGAGCATGGACAATATAATGGTTCAGGCGACTATTGTCTACATAATCTAGACGACGCACACAATAGAATATTTTAAGCAGATTTTTCATAAGTGCCAACCACTGCCTATGTTAGAAAAATCTTCTCAAGCATATAAGCATATAGTCTGATGGTCATTTCATAAAAATCTCTTGATATGATTTTATAAGTGAACATGATCAAATTAATTTGAATGTACAAGCTGATATGAAATTAAAAGAAGTAGAAGTTTATGACATGCTATTAAGAAAATTTAGGTGAACTAAATCCTTATTATGCCTTTTTTGTTTTCTTCTGACACAATTGTAAGTTTGTTTAGAGTACTGTAAGCTGTGGCACCGGGGATGGCCAACCTCATTGGCTACTGCTGCGACAGCGACGAGCGGCTTCTCATCGCCGAGTTCATGCCCAACGACACCCTCGCCAAGCACCTCTTCCACTGAGTTTCCTCCCTCCCTCCAGTCCCCTGCAATTTAACTCCGGGTCTCTATATTCCCCTCCCATTTGATGATCCTACCAACGATTGGATCCTTTTGGTCATAATGGATGTTGCTGTGCTTCGTGTGCTACCTCTTCAGTTCTGTAGTTACGCAGCCAATGGTGCAGCGAGCTTGGATTTTTATGATGAAATGGCTAGCTTCGGTAGCTGATTTAGAATTTTGCAGCGGCAAAATAAAAAGTGATAGCTGAAGGAAAATCTTGGATTCATGGTAGTATTCATGCACATCAACTGGCATTAGACAATCTCACATTTTGCCTGCTTAATTTACACACAATCAAAGCTTAATTCTATGTTAACATCAGGATTTTGTTGTGCCTAAGTAACACCTCTTTTGCTATGGATAGATGAATCGGAAGCAGCAAGGAAGCATATGTCCTTTGTCGTTTGATTGGCCTCAACACTCAGGTCAACCTCAATAAGGTCAATGTGTGAACGACTATTTGGCATTTGGCTGGATTTGGTGGTCAGTGACTTGTACTAGTGATGTATTGACCTGGTCAGTGAACCTGTGATGTAATTGAACATGTTTTGGATGGTGATTTGTGGATGTAATTAACTGACTTGTCATGTAACTTACTTGAGGATAACATGTGATCTTTTTTTTTTCTGAATTTGTGATAGCCTGTTTTGTGAATTTGTATTAAATATGAGCTGAATGTTGT

Explanation	CPC Score
noncoding (weak)	-0.35102

Transcript ID	Chromosome	Locus	Ref	Alt
Osa01LNT0019600.3	1	16232212	G	A
Osa01LNT0019600.3	1	16232556	G	T
Osa01LNT0019600.3	1	16232820	A	T
Osa01LNT0019600.3	1	16234397	C	T

Transcript ID	Transposon ID	Chromosome	Strand	Start	End	Counts

Transcript ID	MiRNA ID	Inhibition	Expectation	Score	Binding Start	Binding End
Osa01LNT0019600.3	osa-miR319a-5p	Translation	5.0	15.683	1	21
Osa01LNT0019600.3	osa-miR319a-5p	Translation	4.5	17.699	1	21
Osa01LNT0019600.3	osa-miR1425-5p	Cleavage	4.0	14.84	1	21
Osa01LNT0019600.3	osa-miR1425-3p	Translation	4.5	14.791	1	21
Osa01LNT0019600.3	osa-miR1442	Translation	4.0	16.204	1	20
Osa01LNT0019600.3	osa-miR1850.2	Cleavage	4.0	9.216	1	21
Osa01LNT0019600.3	osa-miR1850.3	Cleavage	5.0	11.66	1	22
Osa01LNT0019600.3	osa-miR1852	Cleavage	4.0	8.974	1	21
Osa01LNT0019600.3	osa-miR1858a	Translation	4.5	14.093	1	21
Osa01LNT0019600.3	osa-miR1858b	Translation	4.5	14.093	1	21

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa01LNT0019600.3	1	nan	Resistance or Tolerance	Salinity tolerance	RM1	R886
Osa01LNT0019600.3	1	nan	Resistance or Tolerance	Salinity tolerance	RM1	R886
Osa01LNT0019600.3	1	nan	Resistance or Tolerance	Salinity tolerance	RM1	RM5
Osa01LNT0019600.3	1	qNVB-1-1	Morphological trait	Culm/leaf	R2159	C178
Osa01LNT0019600.3	1	nan	Physiological trait	Source activity	RG532	RM472
Osa01LNT0019600.3	1	brt1d	Resistance or Tolerance	Drought tolerance	C742	C904
Osa01LNT0019600.3	1	rfw1b	Resistance or Tolerance	Drought tolerance	C813	C955
Osa01LNT0019600.3	1	nan	Morphological trait	Root	RM23	RM306

Transcript ID	Pre-miRNA	Identity(%)	Alignment Length	Pre-miRNA start	Pre-miRNA end	E-value	Bitscore

Transcript ID	Chromosome	Locus	Trait	Value	Plus Minus