miRNA: 3'- aCCA---UGUGUCGGU---AGUACA--------GGCCGGg -5'
miRNA: 3'- aCCAUGUGUCGGUa--------GUA-CAGgCCGGG- -5'
miRNA: 3'- aCCAUGUGUCGGUAGUaCa-GGCCG--GG- -5'
miRNA: 3'- aCCAUGUGUCGGUAGUaCa-GGCCG--GG- -5'
miRNA: 3'- -ACCAUGUGUCGGUAGUACAGGCCGGG- -5'
Results 41 - 45 of 45 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 | |||||||
| 24470 | 5' | -55.4 | NC_005264.1 | + | 160261 | 0.73 | 0.592568 |
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Target: 5'- gGGUuauGCACGGCCAcccUCAUGUgacgcuugUCGGCCa -3' miRNA: 3'- aCCA---UGUGUCGGU---AGUACA--------GGCCGGg -5' |
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| 24470 | 5' | -55.4 | NC_005264.1 | + | 73058 | 0.73 | 0.592568 |
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Target: 5'- cGGUAUGCGGCCAgagacguggCGUaGUCgGGCUCa -3' miRNA: 3'- aCCAUGUGUCGGUa--------GUA-CAGgCCGGG- -5' |
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| 24470 | 5' | -55.4 | NC_005264.1 | + | 125513 | 0.79 | 0.301132 |
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Target: 5'- gGGUGCGCGGCCAUCGaGggCCGGUagCCg -3' miRNA: 3'- aCCAUGUGUCGGUAGUaCa-GGCCG--GG- -5' |
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| 24470 | 5' | -55.4 | NC_005264.1 | + | 6486 | 0.79 | 0.301132 |
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Target: 5'- gGGUGCGCGGCCAUCGaGggCCGGUagCCg -3' miRNA: 3'- aCCAUGUGUCGGUAGUaCa-GGCCG--GG- -5' |
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| 24470 | 5' | -55.4 | NC_005264.1 | + | 59385 | 1.12 | 0.002018 |
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Target: 5'- cUGGUACACAGCCAUCAUGUCCGGCCCg -3' miRNA: 3'- -ACCAUGUGUCGGUAGUACAGGCCGGG- -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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