miRNA: 3'- aGUCUUUGacuC-GCUGCCGa------CCAUAG- -5'
miRNA: 3'- aGUCuu-UGACUCGCUGc-CGACCA----------UAG- -5'
miRNA: 3'- agUCuuUGa---CUCGCU--GCCGa--CCAUAG- -5'
miRNA: 3'- aGUCUUUGacu--CGCUG-CCGACCAUag -5'
miRNA: 3'- -AGUCUUUGACUCGCUGCCGACCAUAG- -5'
Results 1 - 5 of 5 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# |
P value
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| Predicted miRNA align pattern | |||||||
| 2380 | 5' | -51.4 | NC_001416.1 | + | 35854 | 0.66 | 0.856933 |
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Target: 5'- gCAGAGGCaauGcCGAUGGCgauagugGGUAUCa -3' miRNA: 3'- aGUCUUUGacuC-GCUGCCGa------CCAUAG- -5' |
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| 2380 | 5' | -51.4 | NC_001416.1 | + | 11152 | 0.67 | 0.810472 |
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Target: 5'- cCAGugcGCUGAGUGACucGCUGGUcugguuaaacGUCa -3' miRNA: 3'- aGUCuu-UGACUCGCUGc-CGACCA----------UAG- -5' |
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| 2380 | 5' | -51.4 | NC_001416.1 | + | 17579 | 0.67 | 0.800524 |
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Target: 5'- -uGGggGCagcaGGGCGAucCGGCgucGGUAUCg -3' miRNA: 3'- agUCuuUGa---CUCGCU--GCCGa--CCAUAG- -5' |
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| 2380 | 5' | -51.4 | NC_001416.1 | + | 24155 | 0.72 | 0.53308 |
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Target: 5'- gCAGGAACgugcuGCGGCuGGCUGGUGa- -3' miRNA: 3'- aGUCUUUGacu--CGCUG-CCGACCAUag -5' |
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| 2380 | 5' | -51.4 | NC_001416.1 | + | 14913 | 1.12 | 0.001298 |
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Target: 5'- gUCAGAAACUGAGCGACGGCUGGUAUCa -3' miRNA: 3'- -AGUCUUUGACUCGCUGCCGACCAUAG- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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