>Osa09LNT0435100.1

TTTTGAGCTCAACAATCGTTGATGGCAGTCTTACTTCTCTTTTTACAATCAACGTCTGCAAAAACTCAGCTTCTCTATCTCCTTGAGAAGCTCACGGTCAAAGTTACATTCGTAGAGTCTTAAGTACCTTAGGTGAAATAAGTTACAAACATGCCTAAGATCAAGATGGCAACCTTCTGTAAGATAACAATTTTCTAGATCCAGCACACGTAGAACCTGGAAGCTTGAAAGAGATGGTAATAAACTAACACCAGAACTACTGAATATAGAAAGCGACCTCACTTGTGACATCTTCAGGTTGGTCTGAGCTGTGCTGTTCTCTAGCTTGTTATTCTGGAGAGAGAGCCTACGAACCTTGCTTGCTGGAGATGTCTGTTGCAAAATGCCATCCATTACAGTAACAAAGTTCTCTTTAGATGACAAGGATCGGATAAGATCATGAATCATATCATGCACACGACAAGAATGTAGCATACCACTAACATAACCTGATGGTTGGATGAGGCTTCGATTTATAAGCTCATTAAAGTAACTATCTGCTAACTCGAACAAGTTGTCCCCATCCTTTTCTGGATGGATGAAACCTTCAGATATCCACATCCTTATTAATCGAGATCTTTCAATTTCATAATCTTCGGGAAATATACTCAGATAAAGTAAGCAGGTCCTTAGGTGGGAAGGTAAATTGTGATAGCTAAGTGACAGTATCTTTCTCATGTTTTTCATATCATGGTTGTTTCCAAGTCCATAGCCAATTGAATTATACACCTTGTACCACTCTTCTGCCATGTTTCTAGTTCTAGCCAACACAATAGCTATAGTTATGATAGCTAATGGTACATCGCTGCATTTCTTCAATATCTTTCCAGATACTTCAACTAACTCTTGTGGACATTTGTCCTCGGAGCCAAATATTCTCCCGTAGAATAATTTTTTAGAGCTCTTGGGTGGAAGGGTTTTTAGTTTATGAGGACTACCTATTTGTTCCGCAATATCGAAATCACGGGTAGTTGCAATTATTGTGCTCCCATCATTGTTTTCCACCAAAGCACATCTAATTGCACTCCATGATGCTATATCCCATATGTCATCAATTACAATTATGTACCTCTTGTTCTGAATGAAATCTCTGAGCTCATCAATGAGCTGCTTCTCATCCCTGACTAGGTTATGGATGTCCTTGTTCTTTGTCTTGTCGAGCTCAAGCAGCATGTCCTTGAAAACTTTCTTAATATCAGGAGCGCTGGAAACAGAGACAAATGCCGTGCAGTCGAACTGAGGTTTAAGCCTGTTGCACACCGCTCTGGCAAGAGTCGTCTTGCCCAACCCTCCTCCTCCAACGACAGTGCCAACGCGTTCATCAGCTCGTCGCTTGCCTCGTCGATGCCAACCAGCTCCGCCTCGTCTCTGTACAGGCCGTATAGCCGCGGATCGCAGCCGCCGGTGGCGGCGGAGGCGGCACCGTTGTTGAACCGGGCGACAACGGTGTCGGTGACATGGGACCGGGAGTATCATGAGGCGTCGACCTTGTACCTGTCGCGGCGAGCGGTGACCTCCCGGGCGCGTTCCATGATGCCCTTGATCTCGTCGGCGATGTCGTGGCGCATCTTGGCCGCCTTCCCCAAGAAGCCGGCGGCCACCTTGCTCACCATCCCTTTGGAGCCATGGTTGTCGTCGTCGACGCGCACCCGCACCATGAAGGTGTCGAGGACGTCGTCGGCGTCGTAGGAGAGCTCCCTGACGTCGCGCGCCCAGAGCTCGACCTGCTCGTCGAGCTGGTCGGAGGGCACGTCGCCGACCTTGCGGAGGGCGGCCTGCATGCTCTCCAGCTCTCTCCGGAGAGCCTCGACGTTCCTCTTGACGCCCTTCTGCAGCTTGTACTCGTCCATGGCAAGCTCGCCTAGCTTCAGCAGCAGGTTGCCCATAGCCCCCGTCGCGGAATCCATGGCCGCCGAGCAGCCGACACGATCTCGACCTCAACGATTCGGGGTGGGCGTCGATGCGTTGCGCACTCGAATTTCTTCTACAGACGACGCGCCAGCCACAATTTTGTAGCAGCCCGTTCGCAGATCACCGAGACGTGCTCGCCGGAGCGGAGGCCGTCGTTGGGCTTGTCGGCGTCGGATTCGCCGGCATCAAGTTCGTCACTCCGGGATGAATGGAATGGGGGACTTCACTGGAGAGGACTAATAAAGAATGAGAGTTGGTCACCCGGG

Explanation	CPC Score
noncoding (weak)	-0.910919

Transcript ID	Chromosome	Locus	Ref	Alt
Osa09LNT0435100.1	9	11541356	A	T
Osa09LNT0435100.1	9	11541091	A	T
Osa09LNT0435100.1	9	11541175	T	C
Osa09LNT0435100.1	9	11541176	G	A
Osa09LNT0435100.1	9	11541268	T	C
Osa09LNT0435100.1	9	11541276	T	A
Osa09LNT0435100.1	9	11541524	A	G
Osa09LNT0435100.1	9	11542580	G	A
Osa09LNT0435100.1	9	11542640	C	G
Osa09LNT0435100.1	9	11542647	A	G
Osa09LNT0435100.1	9	11554217	T	C
Osa09LNT0435100.1	9	11540893	T	C
Osa09LNT0435100.1	9	11555784	C	T
Osa09LNT0435100.1	9	11556063	T	G
Osa09LNT0435100.1	9	11556150	A	G
Osa09LNT0435100.1	9	11556167	A	G

Transcript ID	Transposon ID	Chromosome	Strand	Start	End	Counts

Transcript ID	MiRNA ID	Inhibition	Expectation	Score	Binding Start	Binding End
Osa09LNT0435100.1	osa-miR5532	Cleavage	4.0	17.628	1	22
Osa09LNT0435100.1	osa-miR5807	Cleavage	4.0	14.894	1	24
Osa09LNT0435100.1	osa-miR408-5p	Cleavage	4.0	15.811	1	21
Osa09LNT0435100.1	osa-miR408-5p	Translation	5.0	20.468	1	21
Osa09LNT0435100.1	osa-miR1854-3p	Cleavage	4.5	17.157	1	22

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa09LNT0435100.1	9	qLG-9	Physiological trait	Germination/dormancy	G103	R1751
Osa09LNT0435100.1	9	nan	Resistance or Tolerance	Drought tolerance	R1164	R79
Osa09LNT0435100.1	9	nan	Morphological trait	Shoot/Seedling	RG553	RZ206
Osa09LNT0435100.1	9	qAC9	Physiological trait	Eating quality	RM4413	RM5122
Osa09LNT0435100.1	9	clr9	Resistance or Tolerance	Cold tolerance	RM285	RM434
Osa09LNT0435100.1	9	qPC9	Physiological trait	Eating quality	RM4413	RM1896

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

Transcript ID	Chromosome	Locus	Trait	Value	Plus Minus