miRNA: 3'- cUAGCGCCUU--CCccGAGaCGGUCGGU- -5'
miRNA: 3'- -CUAgCGCCU---UCCCCGaGACGgu-CGGU- -5'
miRNA: 3'- cuAGCGCCuuCCCCGagaCGGUCGGu -5'
miRNA: 3'- -CUAGCGCCUUCCCCGAGACGGUCGGU- -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 | |||||||
| 11866 | 5' | -60.4 | NC_003266.2 | + | 21809 | 0.66 | 0.328106 |
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Target: 5'- cGUUGCGGAAcuGGuaCUUgGCCAGCCAc -3' miRNA: 3'- cUAGCGCCUU--CCccGAGaCGGUCGGU- -5' |
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| 11866 | 5' | -60.4 | NC_003266.2 | + | 9223 | 0.67 | 0.275168 |
|
Target: 5'- uGGUgGCGGGggaGGGGGC-CUGCgucGCCGg -3' miRNA: 3'- -CUAgCGCCU---UCCCCGaGACGgu-CGGU- -5' |
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| 11866 | 5' | -60.4 | NC_003266.2 | + | 14136 | 0.68 | 0.235423 |
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Target: 5'- -cUCGCGGu-GGGGCg--GUCAGCUg -3' miRNA: 3'- cuAGCGCCuuCCCCGagaCGGUCGGu -5' |
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| 11866 | 5' | -60.4 | NC_003266.2 | + | 23274 | 1.08 | 0.000184 |
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Target: 5'- cGAUCGCGGAAGGGGCUCUGCCAGCCAc -3' miRNA: 3'- -CUAGCGCCUUCCCCGAGACGGUCGGU- -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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