miRNA: 3'- caAGgACGGCUG-GUGGCU-------UCG--GGACC- -5'
miRNA: 3'- -CAAGGACGGCUGGUGGCUUCGGGACC- -5'
miRNA: 3'- caaGGACGGCu----GGUGGCU----UCGGGaCC- -5'
miRNA: 3'- -CAAGGACGGCUG-GugGCU---UCGGGacc -5'
miRNA: 3'- -CAAGGACggCUGGUgGC-----UUCG-GGACC- -5'
Results 21 - 25 of 25 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 7176 | 3' | -57.9 | NC_001900.1 | + | 35094 | 0.67 | 0.499518 |
|
Target: 5'- -gUCgUGCCGACgUACCGGacugguuGGCgaCCUGGa -3' miRNA: 3'- caAGgACGGCUG-GUGGCU-------UCG--GGACC- -5' |
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| 7176 | 3' | -57.9 | NC_001900.1 | + | 37103 | 1.11 | 0.000368 |
|
Target: 5'- aGUUCCUGCCGACCACCGAAGCCCUGGg -3' miRNA: 3'- -CAAGGACGGCUGGUGGCUUCGGGACC- -5' |
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| 7176 | 3' | -57.9 | NC_001900.1 | + | 43527 | 0.68 | 0.421858 |
|
Target: 5'- --cCCUGCCGugagcCCACCGGgagaAGUCCcGGu -3' miRNA: 3'- caaGGACGGCu----GGUGGCU----UCGGGaCC- -5' |
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| 7176 | 3' | -57.9 | NC_001900.1 | + | 46703 | 0.68 | 0.412551 |
|
Target: 5'- aGUUCUUGCCGACgCuuCGAgccGGCCCa-- -3' miRNA: 3'- -CAAGGACGGCUG-GugGCU---UCGGGacc -5' |
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| 7176 | 3' | -57.9 | NC_001900.1 | + | 48147 | 0.69 | 0.376622 |
|
Target: 5'- aGUUCCUGgaGGCCAgCGcggaaAAGCgCCUGGu -3' miRNA: 3'- -CAAGGACggCUGGUgGC-----UUCG-GGACC- -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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