miRNA: 3'- ugaCUACUGUcua-CCACGCCGGCa--CU- -5'
miRNA: 3'- ugaCUACUG--------UCUACCA-CGCCGG---CACU- -5'
miRNA: 3'- ugaCUACU-GUCU----ACCACgCCggCACU- -5'
miRNA: 3'- -UGACUACUGUCUACcACGCCGGCACU- -5'
Results 1 - 4 of 4 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 | |||||||
| 31650 | 3' | -54.9 | NC_006879.1 | + | 20272 | 0.67 | 0.534109 |
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Target: 5'- --cGAUGACGccgcGGUGCGGCUGgugGAu -3' miRNA: 3'- ugaCUACUGUcua-CCACGCCGGCa--CU- -5' |
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| 31650 | 3' | -54.9 | NC_006879.1 | + | 9839 | 0.67 | 0.523042 |
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Target: 5'- --aGGUGAUgccggccgAGGUGGUcGCGGCCcugGUGAa -3' miRNA: 3'- ugaCUACUG--------UCUACCA-CGCCGG---CACU- -5' |
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| 31650 | 3' | -54.9 | NC_006879.1 | + | 20783 | 0.68 | 0.448437 |
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Target: 5'- --cGGUGAgCAGAuccaUGGUGgGGuuGUGAu -3' miRNA: 3'- ugaCUACU-GUCU----ACCACgCCggCACU- -5' |
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| 31650 | 3' | -54.9 | NC_006879.1 | + | 25934 | 0.96 | 0.005001 |
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Target: 5'- gACUGAUGACAGAUG-UGCGGCCGUGAg -3' miRNA: 3'- -UGACUACUGUCUACcACGCCGGCACU- -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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