>Osa06LNT0340400.2

AAATGAATCATGAATGTGAATATATCAATGAAGGAGAAACTATGTACATTTATCTTAATGTACAGATGTATATGTACAAGTGTGCACTTACTATTATGCCCAAGGCCCTTTTTGGCCCAAACGTGAGGTACACATATACCCTATAAAACCCGAGGGGATCTCAAAATTGGTAAAGTTGCCAGGCTGCTTGCATTAGCGAAGGCAACATCAGAACAAAGTGTCAACTTCTCAGGAGAAGTAAGAACGTAGATGTCTTTGAGTGTGAAACCATGGACCACAGGTAAGATAACTCCATGCCCCAGCCGTGAGTTCAAATAGGGCATGCAAACCGTGTTCAAGAAAACACGAATCACTCCCTGAATCAATGACATGTGGAAGTTACCAATTTTGCTCCACTTCAAGGCAAGGGAGAAATTGCCCAATTCAACCTTACCATATACTTTATTGCCTGCTGCCTCTGCGACACCTGAGGCACTTACTACCTACCAAGAAAAAAAATGATTCCAGTAGTTAGAATCGCACTCAGGAATACAGATATATGATCTGGAAGACACAAAAAGAGATGTTGAAGTAGTGCAAGCAGGGTCGGTCAAATCGTCCGCAGGTACATAAACTGGGCCTTGTACACACCGCCCGTCATACTATAGGAGCTGCCCATGTTTGGAGTCATTACCGATCTATAGGGCATATGCGAACACATACTTCACGAGCAATAAATTTATTAAATTCAAAGTGAATTCCCCCAGTCAAGTTCAATCTAGAAGAGTATGGCCTAACTATTCTAGAGGATTGTGTGATAGTATTGCGGAATACTGAGCAGACTTAATTACTTCCAGCCTGATAGATGGCGTTCATTTTCTTATAAGCACCTCTCTATTCAAGATGCATTCAACATGGGCTGCGACTAAAAAGATCGTTTTTTTTTGCACTTCGTTCAAATAAGAGTTGTAGTAATGGCAGAATCTTCTCTCCTTAGCAATGAACATCATCAAAAGCACAACATCATAAATGAAGTTTAGCAGTTGAGGATTCTTACTACAGAGATGCATGCAACTGGAATTGTCTCTTTGTCATGTAAAACATCAATTATCATGTCCGCATATATAGTAGCACCAATCTTTTCAGACGTAATCCTCATCACCGGGGGTGAAGCCATTGAAATGTTTAACAGCATGTCATCATTGGGATAGCTCCAGTACAAGCGAGGAATGATAAATTTCCAACTAGCTGTATTTAGTAGAGATTGATCGGGAATTTTGTCAACTACCCAATGCATTGAACCTGCCTGAAGAAAAAAAAAGTAGCTGACATAAAATCCAAGAAACAAGCAACAACGCAAGTGAAAAGTAAATATTCATGAATTATTGTTTTGACACAAATGTTTTGATTACCTTGAAGTAAACCTCTAATGCAGAATTGAAAACAGCTTCATCAAGTGAAAGCAGAAGCATTTTGGATGCCCCACCACATGATAATGAAAGTTGGGGATGCTTCTGCGAATTGCTAAGCTTAGCAGTTGCAGAAGAGAATAATCCATTGATATCAAACTCAATTGAGGAATTTCCATACTGCGGATCGTTAACAAAAGTCATGTTCAAAGCAGAAATATTGTCCAGATTGACACTCCTAGGAAGGCTTTGAAGCAACGAGTCAAGTTTGGATGTGCCGTCAATAATATTTTCTGGTATTGCCTTCTCAACTGCAGCTCTAATATGGTCCTCGAAAGCATTTATTAACCTTCAAGGAAGGAGGGGAATAAGGCACAGTGATTAATCTAGGAGTATAGACATTTGGCTCTTGACATGCTTCAGAATTAAAAAGAATAACACGGGATCATTTATCTGAATATACATGTGTACCAGCAAATAGTAATATAGTGAATGAAATCTTATCTCTGTCAATCGACCCCAAAGGAAAGACTCAAACAAAACCACCAAAGCACCAAACAGAAGAGACGTTTTATTTGATAATATTAGCTCTGACTTGACAAACATGCCACGACTCCAAAATTCATGTTTAGTAGAAATAATGAAGCAGATGCAAAGGAAAGGTTGCCATCACTGTCAGAATGCACAGATATATGCCAATTTTGTACAGAAGTCTGAACATTGCAATATGTAATTTCCTCGACAAAGGACCCAGTGTAGGAAGAAATCATGGGTTAAAGGAGGCCTCGAATCATCAAAACAAGTATTTCAGATCTTAAACTTCAAAGCAAAGGCTCAGATGGAAAATCGACTTGCCATAATTTAAAAAGTAACATTTATGGATTCTTTAACACAAGAGATACATACCCCTGATAAAACCAAGATGCTCCACCATCCAGGGATATCACTAGGTCCTTGACATTACATCCACATTGCAACACAGAGAGAGACAAACTCCCGTTATAATTCTTAATTTGCATGGTTATACCAACTTCCATTCCAGGATAGAAGCGGTGCCTCTGTCGGAGATCTCGATGGGGAAGAGCCAGGAATCGTAGTAGTAGCTCCATGCCATGCTGAGGTTGGCGCTGACGCCGGAGGCGACGACGACGAGGGCGGTGTCCCCGGGGTGGATGGCGGAGTCGTCGCCGACGTCGAGGTGGAAGAGCGTGATGTTGGTGGCGGCGACGCGGATGGCGCCCAGGAAGGGCACCCGCACGGCCTTCTCCACGCCGGGGAGGCGCAGCGGGGTCAGCGACCGCACCGCCTCCCCGATCAGCACGCCCTTGGCGAAGTCCAGGCCCTTCTCTGCCACCACCGCGGAGGCGTGCGCCTCGCCGGAGGCCGCGCCGGCGGGGGAGAGGAGGGCGAGGAGGAGGAGGGGGAGGAGATGGAGGTTGGCCATGGCGGTGGGTGGAGGAGTGGAGAGGCGGGCGGCCGAAGGAAGGAGAAGGCTGAAGGCTGGCGTGCTACTGGTTGAGTCGAGACGACGGCTGCC

Explanation	CPC Score
noncoding (weak)	-0.459893

Transcript ID	Chromosome	Locus	Ref	Alt
Osa06LNT0340400.2	6	11737367	C	T
Osa06LNT0340400.2	6	11738890	A	C
Osa06LNT0340400.2	6	11739310	G	A
Osa06LNT0340400.2	6	11740926	C	T

Transcript ID	Transposon ID	Chromosome	Strand	Start	End	Counts

Transcript ID	MiRNA ID	Inhibition	Expectation	Score	Binding Start	Binding End
Osa06LNT0340400.2	osa-miR5543	Translation	4.0	16.025	1	21
Osa06LNT0340400.2	osa-miR171e-5p	Cleavage	4.5	21.672	1	21
Osa06LNT0340400.2	osa-miR417	Cleavage	4.0	11.067	1	21
Osa06LNT0340400.2	osa-miR1438	Translation	5.0	8.943	1	22
Osa06LNT0340400.2	osa-miR1847.1	Translation	4.5	11.868	1	21
Osa06LNT0340400.2	osa-miR1865-5p	Cleavage	5.0	18.004	1	24
Osa06LNT0340400.2	osa-miR2928	Cleavage	4.0	16.433	1	20
Osa06LNT0340400.2	osa-miR3979-5p	Translation	4.5	17.438	1	20
Osa06LNT0340400.2	osa-miR5147	Translation	5.0	14.241	1	21
Osa06LNT0340400.2	osa-miR2275d	Translation	5.0	18.519	1	22
Osa06LNT0340400.2	osa-miR1438	Cleavage	5.0	16.6	1	22
Osa06LNT0340400.2	osa-miR1878	Cleavage	5.0	15.999	1	24
Osa06LNT0340400.2	osa-miR3979-5p	Translation	4.0	22.318	1	20

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa06LNT0340400.2	6	qGY6-1	Morphological trait	Seed	RZ667	RG424
Osa06LNT0340400.2	6	qLVBSL6-1	Morphological trait	Panicle/flower	RZ667	RG424
Osa06LNT0340400.2	6	qLVBTL6-1	Morphological trait	Panicle/flower	RZ667	RG424
Osa06LNT0340400.2	6	qSL6-1	Morphological trait	Culm/leaf	RZ667	RG424
Osa06LNT0340400.2	6	qTL6-1	Morphological trait	Culm/leaf	RZ667	RG424
Osa06LNT0340400.2	6	nan	Physiological trait	Eating quality	RM253	RM162
Osa06LNT0340400.2	6	qHD-6-1	Physiological trait	Flowering	RG424	RZ667
Osa06LNT0340400.2	6	qPH2-6-1	Morphological trait	Dwarf	RG424	RZ667
Osa06LNT0340400.2	6	qTN2-6-1	Morphological trait	Culm/leaf	RG424	RZ667
Osa06LNT0340400.2	6	nan	Physiological trait	Flowering	R2171	R2123
Osa06LNT0340400.2	6	amy6-1	Physiological trait	Eating quality	RM3	RM217
Osa06LNT0340400.2	6	asv6-1	Physiological trait	Eating quality	RM3	RM217
Osa06LNT0340400.2	6	tgw6.1	Physiological trait	Source activity	RG264	RM3
Osa06LNT0340400.2	6	qSPN-6	Morphological trait	Panicle/flower	C235	G294
Osa06LNT0340400.2	6	gw-6	Morphological trait	Seed	C235	G294
Osa06LNT0340400.2	6	qSPN-6	Morphological trait	Panicle/flower	C235	G294
Osa06LNT0340400.2	6	Pi-2(t)	Resistance or Tolerance	Blast resistance	nan	nan
Osa06LNT0340400.2	6	qPHw6-2	Resistance or Tolerance	Other soil stress tolerance	RG424	RZ667
Osa06LNT0340400.2	6	qSFWd6	Resistance or Tolerance	Other soil stress tolerance	RG424	RZ667
Osa06LNT0340400.2	6	qLDLJ-6-1,2,3	Physiological trait	Source activity	RM217	RM3
Osa06LNT0340400.2	6	ph6	Morphological trait	Dwarf	RZ667	RG653
Osa06LNT0340400.2	6	qNFGP-6	Physiological trait	Source activity	RM136	RG456
Osa06LNT0340400.2	6	qSF-6	Physiological trait	Source activity	RM136	RG456
Osa06LNT0340400.2	6	gp6	Morphological trait	Panicle/flower	RZ667	RG424
Osa06LNT0340400.2	6	qRS6-1	Morphological trait	Shoot/Seedling	RZ667	RG424

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

Transcript ID	Chromosome	Locus	Trait	Value	Plus Minus