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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 | |||||||
| 30511 | 5' | -54.5 | NC_006548.1 | + | 20242 | 0.66 | 0.640543 |
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Target: 5'- uGCUUGCCCgGAaccGGGUugcCUGGUGAg -3' miRNA: 3'- gCGAGCGGGgUUc--UUCAu--GACCACUg -5' |
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| 30511 | 5' | -54.5 | NC_006548.1 | + | 12933 | 0.67 | 0.599479 |
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Target: 5'- gGCUCGCgCUGAGcgcGGUGCugugcggcgcagccgUGGUGACc -3' miRNA: 3'- gCGAGCGgGGUUCu--UCAUG---------------ACCACUG- -5' |
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| 30511 | 5' | -54.5 | NC_006548.1 | + | 18782 | 0.67 | 0.565534 |
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Target: 5'- gCGUUCGCUgcacagcgUCGGGAagcgggaaagauugcGGUGCUGGUGAa -3' miRNA: 3'- -GCGAGCGG--------GGUUCU---------------UCAUGACCACUg -5' |
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| 30511 | 5' | -54.5 | NC_006548.1 | + | 25846 | 0.71 | 0.374663 |
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Target: 5'- gGCUCGCCCgugcucacgugagCGGGAGGgccuugGCUGGgcUGGCa -3' miRNA: 3'- gCGAGCGGG-------------GUUCUUCa-----UGACC--ACUG- -5' |
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| 30511 | 5' | -54.5 | NC_006548.1 | + | 14171 | 1.1 | 0.000559 |
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Target: 5'- uCGCUCGCCCCAAGAAGUACUGGUGACg -3' miRNA: 3'- -GCGAGCGGGGUUCUUCAUGACCACUG- -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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