>Osa04LNT0277600.1

ACACAGAAAGCTTCTGCAGTCCTGCTGGTACTAAATTCTTGCCTGTGCACAAAAGCAAGCATGCCTGTGCACAACATTGGAATTCGTTTACAACAGGCACAGTTTTAATTAACCATGCCAAAACCAAGAGAAAGAAAAAAAATCATAACGTATTAGTAACGTATTTTGTGGTTGAGACTTGAGAGATGAGGGAGAAAGGGGTGACAATCCCAGATCAAGTTAAAAATGTAGACAGTAAACCTATCCAGTGTGGTAAATGTACACTAAAGCATTGATAATGATTCTCAGAAAGAGAACTCCTTAGGTAAATATTTGCCGAATTTGCTGGATAAAAAGCTCTTGTACTTTCCCTTCAATTCCCCCACTCTAATATCTTCAGATTTGCGGTCTGGCAGATTGTTCGATAATAACACCTCTATTAGCCTCACGAACTCCTTGCCATCTATGTACTTTCCAGAGCTCTTGGCATTTATCAGATAAGTAGGTGTATTATCTTCTTTCAGATGAGAAAATAAGGAATTTGCTAGGGCAATGGGGTCAAGAGGGGAGGGGTCCTTGCTGTAAGCTGGGATAAATTTACCATCACAATATCCTGCTAAGAAATGGTAAGCAGCCTGGCCTGGAGAAAGCTTTGATAATGCTGGTAGGGCATCAGTACTATCTGATGATACAATAATAACTTGAGTTGGTCTGGTAAACAAATTTGGTTCCCTAGCCTTTGTGGCGAATAGCACATTAGATCCTTTAGGGGAGACAACTACACCACTGTCAGTGGACACGAGAACGTCCTGAAGTTTTAAGGATTTTATGACATCCACTGGAGCAAACAACAATACAGCAGAACCACCAAAAGACAGGAGCCACCCAGGAAATGGTAGTCCTCCCCTTGCTGATAATACAGGGGCAGTCAAAGCACTAAGAGCACCTTTGAGCATAGCGGAATCAGCAAATGCTTTACCACATAGGATAAGTGACGAGCGTTCTATGTCTGCTGCTGCAAATCCATTGGCGTATTGTGATCCAGAACCAAGAGAATTCCTGACATTAGCACTTATCGAGCTGGCAACATATATAGTCAATGGGCATGTGTCATGGGAAATAGAACGATCTGGTGTTTTCCAAAGGATATTGGAGAGCAACAGAACAGCAGAGGGGTTATCGCTAATAACACGGACCTTTGCATCACACTCCACAGAGGAACCAACAGCACCGTCTTGGACATACAGACTTGAGATCGATGAAAGATGAAAGGTCACCAGTTTAAGAAGCTTTGCGAATTGAGCTCTTGAAACATCAGGAATCCCGCTAATGACATTTCCTCTAACATGAAGTGGAATGCCAGACAGGCACTCTGTGTAAGCAGCACCACCTTTCTGAAGTTCCGATTTCTCCAGGTTATAGAAGACCTTATCTTTTACAACAACACCTCTTCCAGCAATAGCCCAATTAAGACCATATGAAACTTCTTGGTCTTCTCTGTGCAACAAATAGTACATTAAAGTAGTTCAAATATTTTGTTTGTATTGACTGGTGCAATTCGAATGAACCGAACATCTAACTTGGTAGACGAAACACCAAACAATGTAATCAAGTCGTCAGGTCATCATGTAATTGGCTGTGTATATCCCCTTGTGGATATAGAGGCCAGATTCTATCCACCATCTAAAAAAGTCATCATGTGATCTTGCACAGTAGAACATTGTGTTTTGTGTAAAAAATAAAAAATCAGAGTTTACAAGCATATATAGGATGAAAAGTGTATGGTATGGCCACGCTTACCTCGACAGGGCAGTAATCTCTCATTGCTTCGATGGTAAGCGCACTGGAACTGCCGGAGGCTCGCCGCCGACGCGGACGCCGCGCCCGCGGCCACGGCGGCGCGGCGGAGAGGGCCCAGCATGTGGTCCGCGGTCCGGTCCGGCGGCTTCGTTGTCGCCCAGGCGCCGCCTGCTCCTCCCACGAGCTCACGGC

Explanation	CPC Score
noncoding	-1.0918

Transcript ID	Chromosome	Locus	Ref	Alt
Osa04LNT0277600.1	4	29969916	C	T
Osa04LNT0277600.1	4	29969547	A	G
Osa04LNT0277600.1	4	29971168	T	G
Osa04LNT0277600.1	4	29971837	T	C
Osa04LNT0277600.1	4	29972118	A	G
Osa04LNT0277600.1	4	29972176	T	C

Transcript ID	Transposon ID	Chromosome	Strand	Start	End	Counts

Transcript ID	MiRNA ID	Inhibition	Expectation	Score	Binding Start	Binding End
Osa04LNT0277600.1	osa-miR5512b	Translation	3.5	17.584	1	21
Osa04LNT0277600.1	osa-miR168a-3p	Cleavage	4.0	18.458	1	24
Osa04LNT0277600.1	osa-miR171d-5p	Translation	5.0	12.67	1	21
Osa04LNT0277600.1	osa-miR171f-5p	Cleavage	4.5	12.995	1	21
Osa04LNT0277600.1	osa-miR171i-3p	Cleavage	5.0	15.483	1	21
Osa04LNT0277600.1	osa-miR2090	Translation	4.0	10.686	1	22
Osa04LNT0277600.1	osa-miR2864.1	Cleavage	4.0	16.221	1	21
Osa04LNT0277600.1	osa-miR3982-3p	Cleavage	5.0	21.645	1	21
Osa04LNT0277600.1	osa-miR5504	Cleavage	4.0	17.765	1	21
Osa04LNT0277600.1	osa-miR5504	Translation	4.5	17.976	1	21
Osa04LNT0277600.1	osa-miR5512a	Translation	3.5	17.584	1	21

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa04LNT0277600.1	4	Xa2	Resistance or Tolerance	Bacterial blight resistance	RM317	RM349
Osa04LNT0277600.1	4	nan	Morphological trait	Root	RM3288	RM5503
Osa04LNT0277600.1	4	rfw4a	Resistance or Tolerance	Drought tolerance	RM349	RM1136
Osa04LNT0277600.1	4	OsAOX1a	Resistance or Tolerance	Cold tolerance	R2737	R740
Osa04LNT0277600.1	4	gpp4	Morphological trait	Seed	RZ569	RZ565
Osa04LNT0277600.1	4	qPN-4b	Resistance or Tolerance	Drought tolerance	RM317	RM255
Osa04LNT0277600.1	4	pss4.1	Physiological trait	Source activity	RZ740	RZ590
Osa04LNT0277600.1	4	nan	Morphological trait	Panicle/flower	RM303	RM348
Osa04LNT0277600.1	4	nan	Morphological trait	Panicle/flower	RM303	RM255

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

Transcript ID	Chromosome	Locus	Trait	Value	Plus Minus