>Osa04LNT0269300.2

ACAAAATACATCATCTGCATATAACTCTCAAGGTTTGCCAAGTCAGATACACCTGGTGGAGGAATAACGAGCAAGAATATTAAAGCGATAATTTTCATTCCTGTTTCTGTCCATAACAGGTTTTTAACCGTCTCCCCGGCACATCTAGCACCGGAACTATACACTTGTGACGGCAATGCACAACCAGTATAGCTCGTACAGTCCTTCCCATGTATACAAGATTCGACACCAACACAACCTGATTCTTCACCCACCCAATGCTGAAATTATCCCAGTTTCCACCATGAGAAATTGACAATACATGCCAGGTGACAGAACAATGATCTAGTCGCTACCACGTAATAAAATTTGGTCTGCATCCAGATCTTCCTAAAACTTCCCAGCTAGAGAGAGCCGATAGAAACTGAGGGTGGCACGGCCATCTTAAAAAGGGAGCCAGCCACCGACCCTTGCCAGCAAGGGCAAGCAGGATGAGAGCTGGCTCACTACGGTGCAGCGCCCAAAAGGCTCTGGCGATTGCCCTGGTTTCCCCATGCTCTCTCCTTCCACAGGAGCTCAACCTGCTCAAAGCTGAGGCCTTTAGTCTCCGGCACGTAGAGAGCCACGAAGATGAAGGCCAGCACCGCTATTCCGGCGATGATCAGGAAGGTCAGGCCGGTCCCAACCAACCCGACGATCGAGAGGAATGTTTGTGCCACAATCAGGTTAGATACCCAGTTGACAGTGGCTGACATGCCACCACACATTCCACGGTATGCCTCGGGGTAGATCTCGGAGTTCACTGCCCATGGAACTGGCCCCATGCCTGGGGAGAAGAAGGCGATGTATAGAGCGAGTCCCGCCACCGCGAACCATCCCAGTGCACCTTGGCAGGCACCATTGAGTGCATTCGAACAGATATCTGATGATGACTGCAGTATGAAGGCCATTGCTAGGATGGCGAGGGAGACCACCACACCAGCCAAGCTTGTAAGGGCCAGGCGACGCCGGCCACAGCGGTCAATCAGGTAGATTCCAACAATGGTCCCAGCGGCATTCATACCAGCGACTATGAGGGAAAGGAGCAATGCCAACTTGTTGGAGGTAAACCCAGCCATCTGGACAATTGTTGGGCTGTAGTACATGACAGTGTTGATGCCAGTAAATTGCTGGAACGCCTGAAGACCAGCTCCAGCAAAAAATGCTAGCCTTAGTTCCTTTGACTTGAAAATGTCCAAATAGCTCCCAGTACCATCAGACTGAAATTCATGCATTGAAGAAGAAGCAAGAAGCTCTACCTCTTCCTCTAGACGGTCAGAGTCATAAATCTTCTCTAGGACAGAAATAGCTTTTGCTTTCTCATCCTTCCAGAAAAGCCAACGGGGAGATTCTGGCAAAAAAAGCATCAGAACAAACTGTAGAATTGCAGGCACAGCAGCAACTCCGAGCATCCAGCGCCATGTTCCAGGAACCTATGACATGTAGCATGCATATCATTGCAAGTTTGCAACTACTCGTACTAATGTATTACCAGCTTACGAATATCTCCACTATAACTCTCAAGAAAGATGGTTGTATATCTTCTTTTATAGGACATCTTATATTGTTTTCTAATAATGCAGGATTTGTTATGCATCAAGATTATGAAACCCCAAGTCAAATTATAAGGAGACGCACAATGATAATTTAATATTGTTGGTCATTGCTTTATAAGGTTCTACTTGACTGAATTATTTGATTCAAATGACACATAATTTTTCATCCTCAGGTAAGTAAAGTGGTACTTCAAGAACAAACAGTGAATAGGCTACTGAAATCACAAAATCATATGATGTGCCAAGGGATAAAATGTGCATTTCAGATAAATACAGGAAGTTCATTTAAGAAAAAAGAAAACAGAATGATGTATATACTGCAGTGAATTTCAGAAACAGAAAGATGGAGCATTAACACTAGAGTGGCTACGCACCAAACAACACCTTGTTGGTGATTCATCCATTGCTGCTGGCAAGGAAGCTGACTCTTGTTCATTGCTAATTAAGTGTTACACAGTTAACTCAGTAAAGCCAAGATTGATGAGGTAGGAGAAGAATTGACCACCAGTAATCATGAGTACATTAGTTGACACCAAACCTCCCCTAATTTCCGAAGGAGCAGCTTCAGCAATGTAAACTGGCGCTGTGACTGATGCTATACCCACACCCAAGCCAACAAGAAGCCTTCCAAGAATCAGAATGTAAGGACCACCAGCAGCACACATAACAAGTGAGCCAAGTGCAAACAGCATGTCAGCCACAAGAGTAGACTTCCTACGGCCGTATGTATCATTGATCCAGCCGCCGCCAGCTGCTCCAATGATGGCTCCTACCAATGCCATGCTAACGATTGTCTCCTGTAAGAAATAATTGTCTCTGACTGCTGGAAAGTCATCCCGAATATACAAAAGGGCTCCAGATATGACACCTGATAGAATAAATTTCTTAGCTAAGAGCACAAATTTATCATACTGTCTTCTCTTCTTTTCTTTTTTTTTTTTGGCAAAAGTATACAGTACAGTAATTCTGTGAAGTTACACACACTCGAAGATTTTGCTAGAAATTAATAAGAATGATGCAAGCATTGATTTCATCCCGCTGCTAAAATTAATATCTATCTTTATGCAGTACTGTAGAGATCATAGCACGAACTCAACAAAATAAGTCCACTATTCATAAATCTCATTTCAGACTTCCACTTCAAACTTTGTTTGTTTGTATCAATGATATCTAACCATAGGCTTCCTGAACATACTGTCAAATATCAAATTGGACCAAACACCATCTGAATGTTTCATCATATGAAAATGAAGTAACCCAACAAGTCCAAAGCAACCAAAAACATGTCGCTTATTACTGCGAGGGGAAATTCATCGAGAACAGCTACACTTGATGAAACGTTCAGGCAAAAGTTGGAAGGTAAATGGCACACATGCAACCATATACCTGTGTCGTAGCCAAAGAGGAACCCGCCGATTCCTGCGGCGCCCGTGAGCGCGAGCACGTAGCGGTTGCTGAAGAAATTCATGTGCTTCTTCCCCCCTACGTCGTCCAGGAGCCCGGAGCTCCCGGGCATGGACAAATCGATCGTCATGCCCTCCGCTCCCACCAAATCTGACCGAACCCCCCCCCCCCCCCCCCAAACTCCTCCCAAAATCCAAACTTCAGCAAACAAGCACCAAAAAACAACGACCCCAAAATCGCTCCACAAAAAAAATCCAATCTTTGCCCAGATGCAAGTAAAGCCTGCTCTACAAAATCCAACCTTTCGGCCGCCCCCGAGGTCACAGGCTCGGGAACCAACCAAACCGGGGAGAAGAACGGAAGACGCGCGCAGAAATTTCTAGGGACAGAGAGAGATTTCAGGAGCCGCGGTCCCGGACCAAGGTAGAAAGGGAGAGATTCCAGGGGACGGGGCGACGAGAGACCAGCATTCGGGGAAGAGGCAGGGGCAGCGGCAGCGAGCCAGCGAGGCGCGGCTTAAATAGGAAAGCTGCGCTCGCACGGCTGGCGGGCTGGGTGGTGGTTGGGCAAATGATCGGAGGAGAGAGCTGGGGGAGAAGAAGGTGAGCTTGCAGGTTTTGAAGGAGAAATTTTGTTGGGTTCAGATGATCAGATCAGCATCGTCGCATCATCGATTGGCGATGAAGCCGATACGCTTCG

Explanation	CPC Score
noncoding	-1.04014

Transcript ID	Chromosome	Locus	Ref	Alt
Osa04LNT0269300.2	4	24567820	A	G
Osa04LNT0269300.2	4	24567967	A	G
Osa04LNT0269300.2	4	24571304	A	C
Osa04LNT0269300.2	4	24570441	A	G
Osa04LNT0269300.2	4	24568389	G	T

Transcript ID	Transposon ID	Chromosome	Strand	Start	End	Counts

Transcript ID	MiRNA ID	Inhibition	Expectation	Score	Binding Start	Binding End
Osa04LNT0269300.2	osa-miR5525	Cleavage	4.5	5.34	1	22
Osa04LNT0269300.2	osa-miR5791	Cleavage	4.0	22.027	1	21
Osa04LNT0269300.2	osa-miR5807	Translation	5.0	9.125	1	24
Osa04LNT0269300.2	osa-miR156c-3p	Translation	5.0	13.662	1	22
Osa04LNT0269300.2	osa-miR156g-3p	Translation	5.0	13.662	1	22
Osa04LNT0269300.2	osa-miR169a	Cleavage	5.0	21.443	1	21
Osa04LNT0269300.2	osa-miR169b	Cleavage	5.0	21.443	1	21
Osa04LNT0269300.2	osa-miR169c	Cleavage	5.0	21.443	1	21
Osa04LNT0269300.2	osa-miR169d	Cleavage	4.5	21.443	1	21
Osa04LNT0269300.2	osa-miR408-3p	Cleavage	5.0	22.789	1	21
Osa04LNT0269300.2	osa-miR1435	Translation	4.5	10.056	1	20
Osa04LNT0269300.2	osa-miR1857-5p	Cleavage	4.0	15.755	1	21
Osa04LNT0269300.2	osa-miR2101-3p	Translation	4.5	14.305	1	22
Osa04LNT0269300.2	osa-miR2102-3p	Cleavage	4.5	21.816	1	22
Osa04LNT0269300.2	osa-miR2920	Cleavage	5.0	14.61	1	23
Osa04LNT0269300.2	osa-miR812k	Translation	4.0	11.41	1	24
Osa04LNT0269300.2	osa-miR812l	Translation	4.0	11.41	1	24
Osa04LNT0269300.2	osa-miR812m	Translation	4.0	11.41	1	24
Osa04LNT0269300.2	osa-miR3979-5p	Cleavage	3.5	19.938	1	20

Transcript ID	Chr	QTL Gene	Character Major	Character Minor	Marker Interval1	Marker Interval2
Osa04LNT0269300.2	4	orl1	Morphological trait	Culm/leaf	S10628	C377
Osa04LNT0269300.2	4	qChla4-1	Morphological trait	Shoot/Seedling	C2807	RM241
Osa04LNT0269300.2	4	qChlab4-1	Morphological trait	Shoot/Seedling	C2807	RM241
Osa04LNT0269300.2	4	qPH1-4-1	Morphological trait	Dwarf	RM241	C2807
Osa04LNT0269300.2	4	qCCFJ-4	Physiological trait	Source activity	RM261	RM3785
Osa04LNT0269300.2	4	nan	Resistance or Tolerance	Other soil stress tolerance	RM5586	RM3916
Osa04LNT0269300.2	4	gpp4	Morphological trait	Seed	RZ569	RZ565
Osa04LNT0269300.2	4	nan	Morphological trait	Culm/leaf	RM3337	RM3785

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

Transcript ID	Chromosome	Locus	Trait	Value	Plus Minus