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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 | |||||||
| 20883 | 5' | -56.5 | NC_004689.1 | + | 41649 | 0.66 | 0.74408 |
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Target: 5'- -cGCGCgGGUCCGAAUcccacaucuGGaucaGACGGUcGCg -3' miRNA: 3'- caCGCG-CUAGGCUUG---------CCg---CUGCCA-UG- -5' |
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| 20883 | 5' | -56.5 | NC_004689.1 | + | 9070 | 0.66 | 0.733901 |
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Target: 5'- cGUGCGUGGgugaaUCGAugGGUc-CGGUACu -3' miRNA: 3'- -CACGCGCUa----GGCUugCCGcuGCCAUG- -5' |
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| 20883 | 5' | -56.5 | NC_004689.1 | + | 19541 | 0.66 | 0.723626 |
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Target: 5'- cUGCGCGGUUCGAccaacgAUGGUGuucacguCGGUGa -3' miRNA: 3'- cACGCGCUAGGCU------UGCCGCu------GCCAUg -5' |
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| 20883 | 5' | -56.5 | NC_004689.1 | + | 12486 | 0.67 | 0.689168 |
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Target: 5'- cGUGUGCGuugcgUCGAACGuGUuguucgcgaagggaGGCGGUGCa -3' miRNA: 3'- -CACGCGCua---GGCUUGC-CG--------------CUGCCAUG- -5' |
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| 20883 | 5' | -56.5 | NC_004689.1 | + | 33653 | 0.67 | 0.66054 |
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Target: 5'- -aGCGUGGcgUCGGguuCGGUGACGGUGg -3' miRNA: 3'- caCGCGCUa-GGCUu--GCCGCUGCCAUg -5' |
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| 20883 | 5' | -56.5 | NC_004689.1 | + | 1846 | 0.68 | 0.596535 |
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Target: 5'- -cGCGCuGAUCCGAugcuGCGGCcuCGGcUGCc -3' miRNA: 3'- caCGCG-CUAGGCU----UGCCGcuGCC-AUG- -5' |
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| 20883 | 5' | -56.5 | NC_004689.1 | + | 12024 | 0.7 | 0.481905 |
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Target: 5'- -aGCGUugaGGUCCGugccaucGGCGGUGGCGGUGa -3' miRNA: 3'- caCGCG---CUAGGC-------UUGCCGCUGCCAUg -5' |
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| 20883 | 5' | -56.5 | NC_004689.1 | + | 7451 | 0.74 | 0.286962 |
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Target: 5'- -cGUGgGAUgaCCGAagACGGCGACGGUGg -3' miRNA: 3'- caCGCgCUA--GGCU--UGCCGCUGCCAUg -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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