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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
30670 | 3' | -48.4 | NC_006549.1 | + | 27228 | 0.66 | 0.998887 |
Target: 5'- cAAACGaGGaCGuguuacAUagGCGUUCCGUGCg -3' miRNA: 3'- -UUUGC-CC-GCuu----UAagUGCAAGGCAUG- -5' |
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30670 | 3' | -48.4 | NC_006549.1 | + | 44600 | 0.66 | 0.998642 |
Target: 5'- uGGACGcGGCcaaugGAAAuUUUACGUguaaUCCGUGCg -3' miRNA: 3'- -UUUGC-CCG-----CUUU-AAGUGCA----AGGCAUG- -5' |
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30670 | 3' | -48.4 | NC_006549.1 | + | 109997 | 0.66 | 0.997977 |
Target: 5'- ---aGGGCGGGAUgcguguauccccaUUgaccuccugagaACGUUCCGUACu -3' miRNA: 3'- uuugCCCGCUUUA-------------AG------------UGCAAGGCAUG- -5' |
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30670 | 3' | -48.4 | NC_006549.1 | + | 91295 | 0.7 | 0.971067 |
Target: 5'- cGACGGGCG----UCGCG-UCCGUGu -3' miRNA: 3'- uUUGCCCGCuuuaAGUGCaAGGCAUg -5' |
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30670 | 3' | -48.4 | NC_006549.1 | + | 131686 | 0.71 | 0.967913 |
Target: 5'- gAGGCGGGCGGAGUgaaagCGCGcUCaccgcccaugCGUACg -3' miRNA: 3'- -UUUGCCCGCUUUAa----GUGCaAG----------GCAUG- -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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