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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 | |||||||
| 1180 | 3' | -56.4 | NC_001132.2 | + | 38719 | 0.66 | 0.929324 |
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Target: 5'- aCGUGUCGGACUCGGuaaaGCAcacgGGCa -3' miRNA: 3'- -GCACAGCCUGGGCCcaggCGUa---UUGg -5' |
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| 1180 | 3' | -56.4 | NC_001132.2 | + | 128297 | 0.66 | 0.924128 |
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Target: 5'- uGUGUCGGAguccugUCCGGGacgucUCCuaAUGGCg -3' miRNA: 3'- gCACAGCCU------GGGCCC-----AGGcgUAUUGg -5' |
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| 1180 | 3' | -56.4 | NC_001132.2 | + | 161221 | 0.7 | 0.743118 |
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Target: 5'- aCGUcGUCGGAgaCCCGacgaacgaccauggaGGUCCGCGUAgaAUCg -3' miRNA: 3'- -GCA-CAGCCU--GGGC---------------CCAGGCGUAU--UGG- -5' |
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| 1180 | 3' | -56.4 | NC_001132.2 | + | 2649 | 0.73 | 0.61124 |
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Target: 5'- -aUG-CGGACCCGGGUCCGacacgGUAugUu -3' miRNA: 3'- gcACaGCCUGGGCCCAGGCg----UAUugG- -5' |
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| 1180 | 3' | -56.4 | NC_001132.2 | + | 159308 | 1.12 | 0.002345 |
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Target: 5'- cCGUGUCGGACCCGGGUCCGCAUAACCu -3' miRNA: 3'- -GCACAGCCUGGGCCCAGGCGUAUUGG- -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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