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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 | |||||||
| 20813 | 3' | -52.9 | NC_004689.1 | + | 59950 | 0.66 | 0.89246 |
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Target: 5'- --gUUCGUCGGGaUGGCACG-UCGCCa -3' miRNA: 3'- uaaAGGUAGCUCcGCUGUGCuGGUGG- -5' |
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| 20813 | 3' | -52.9 | NC_004689.1 | + | 53919 | 0.66 | 0.885176 |
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Target: 5'- --cUCgGUCGgcucgggcaccGGGUagaACACGGCCACCa -3' miRNA: 3'- uaaAGgUAGC-----------UCCGc--UGUGCUGGUGG- -5' |
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| 20813 | 3' | -52.9 | NC_004689.1 | + | 29793 | 0.66 | 0.877634 |
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Target: 5'- -gUUCCAcCGuuGGCaccaGgACGACCACCg -3' miRNA: 3'- uaAAGGUaGCu-CCGc---UgUGCUGGUGG- -5' |
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| 20813 | 3' | -52.9 | NC_004689.1 | + | 10235 | 0.66 | 0.869841 |
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Target: 5'- --gUCCGUUGAGGCGcguGCAaaucuCCAUCg -3' miRNA: 3'- uaaAGGUAGCUCCGC---UGUgcu--GGUGG- -5' |
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| 20813 | 3' | -52.9 | NC_004689.1 | + | 41937 | 0.68 | 0.778774 |
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Target: 5'- ---gCCuUCGuGGUcggagcaccgaccGGCACGGCCACCu -3' miRNA: 3'- uaaaGGuAGCuCCG-------------CUGUGCUGGUGG- -5' |
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| 20813 | 3' | -52.9 | NC_004689.1 | + | 12009 | 0.68 | 0.768745 |
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Target: 5'- ---gCCAUCGGcgguggcGGUGACAaGAUCGCCa -3' miRNA: 3'- uaaaGGUAGCU-------CCGCUGUgCUGGUGG- -5' |
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| 20813 | 3' | -52.9 | NC_004689.1 | + | 56523 | 0.72 | 0.565344 |
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Target: 5'- cAUUUCCAgauUCGAGcGCGA--CGGCCAUCg -3' miRNA: 3'- -UAAAGGU---AGCUC-CGCUguGCUGGUGG- -5' |
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| 20813 | 3' | -52.9 | NC_004689.1 | + | 41171 | 1.11 | 0.001784 |
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Target: 5'- aAUUUCCAUCGAGGCGACACGACCACCg -3' miRNA: 3'- -UAAAGGUAGCUCCGCUGUGCUGGUGG- -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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