miRNA: 3'- -GgUGGACGuGUcCCGCUaACGGGAGG- -5'
miRNA: 3'- gGUGgaCGUGUcCCGCUaaCGGGAGG- -5'
miRNA: 3'- gguGGACGUGUCCCGcu--AACGGG--------AGG- -5'
miRNA: 3'- -GGUGGACGUGUCCCGCUAACGGGAGG- -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 | |||||||
| 3411 | 5' | -57.4 | NC_001576.1 | + | 4561 | 0.66 | 0.157013 |
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Target: 5'- gCgAUCUGC-CAaGGUGG-UGCCCUCUa -3' miRNA: 3'- -GgUGGACGuGUcCCGCUaACGGGAGG- -5' |
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| 3411 | 5' | -57.4 | NC_001576.1 | + | 197 | 0.68 | 0.103858 |
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Target: 5'- aUACa-GCACA-GGCGAagGUCCUCCa -3' miRNA: 3'- gGUGgaCGUGUcCCGCUaaCGGGAGG- -5' |
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| 3411 | 5' | -57.4 | NC_001576.1 | + | 6352 | 0.68 | 0.100559 |
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Target: 5'- --uCCUGCACGGGGUucccUUGCCCcaaugcucUCCc -3' miRNA: 3'- gguGGACGUGUCCCGcu--AACGGG--------AGG- -5' |
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| 3411 | 5' | -57.4 | NC_001576.1 | + | 6347 | 1.12 | 1.8e-05 |
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Target: 5'- cCCACCUGCACAGGGCGAUUGCCCUCCc -3' miRNA: 3'- -GGUGGACGUGUCCCGCUAACGGGAGG- -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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