miRNA: 3'- -GAGCU-GACG---AACUC--ACCaCGUUCCUa -5'
miRNA: 3'- gAGCU-GACGAA-CUCACCaCGUuCCUA- -5'
miRNA: 3'- -GAGCUGaCGaaCUCACCACGuuCCUa -5'
miRNA: 3'- -GAGCUGACGAACUCACCACGUUCCUA- -5'
Results 1 - 4 of 4 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 | |||||||
| 3637 | 3' | -53.1 | NC_001650.1 | + | 130073 | 0.66 | 0.967432 |
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Target: 5'- cCUCGGcCUGCcggUUGAGcuUGG-GCAGGGGg -3' miRNA: 3'- -GAGCU-GACG---AACUC--ACCaCGUUCCUa -5' |
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| 3637 | 3' | -53.1 | NC_001650.1 | + | 41925 | 0.7 | 0.863716 |
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Target: 5'- uUCGAuCUGCUUcGAGUGGaGCGcGGAUu -3' miRNA: 3'- gAGCU-GACGAA-CUCACCaCGUuCCUA- -5' |
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| 3637 | 3' | -53.1 | NC_001650.1 | + | 18128 | 0.76 | 0.551084 |
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Target: 5'- cCUCGGCgGUggGGGUGGUGUggGGGg -3' miRNA: 3'- -GAGCUGaCGaaCUCACCACGuuCCUa -5' |
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| 3637 | 3' | -53.1 | NC_001650.1 | + | 42175 | 1.06 | 0.008125 |
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Target: 5'- uCUCGACUGCUUGAGUGGUGCAAGGAUg -3' miRNA: 3'- -GAGCUGACGAACUCACCACGUUCCUA- -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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