miRNA: 3'- -ACGA-CUGG-GUCU-UGGGAC---CUGGGGAU- -5'
miRNA: 3'- -ACGACUGGGUCUUGGGACCUGGGGAU- -5'
miRNA: 3'- acgACUGGG--UCUUGGGACCUGg-----GGau -5'
Results 1 - 3 of 3 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 4245 | 5' | -59.4 | NC_001702.1 | + | 7921 | 0.7 | 0.040521 |
|
Target: 5'- gUGCUcGACCaCAGAuAUCCUGuuuGGCCCCUGu -3' miRNA: 3'- -ACGA-CUGG-GUCU-UGGGAC---CUGGGGAU- -5' |
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| 4245 | 5' | -59.4 | NC_001702.1 | + | 2352 | 1.07 | 2.6e-05 |
|
Target: 5'- gUGCUGACCCAGAACCCUGGACCCCUAa -3' miRNA: 3'- -ACGACUGGGUCUUGGGACCUGGGGAU- -5' |
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| 4245 | 5' | -59.4 | NC_001702.1 | + | 1781 | 0.68 | 0.066742 |
|
Target: 5'- --aUGACCCugAGGACCCUGGGCaagaaaCCa- -3' miRNA: 3'- acgACUGGG--UCUUGGGACCUGg-----GGau -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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