miRNA: 3'- -UCCG------UGaaCGGGGGUCAGCAGGagcu -5'
miRNA: 3'- uCCGUGA--ACG-GGGGUCaGCagGAGCU- -5'
miRNA: 3'- -UCCGUGA--ACGGGG-GUCaGCA-GGaGCU- -5'
miRNA: 3'- -UCCGUGaACGGGggUCAGCAGga--GCu -5'
miRNA: 3'- -UC-CGUGAACGGg--GGUCAGCAGgAGcu -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 | |||||||
| 25678 | 5' | -59 | NC_005337.1 | + | 95841 | 0.68 | 0.654257 |
|
Target: 5'- cGGGCgugaugACgcGCCCCUGGUCGUCCa--- -3' miRNA: 3'- -UCCG------UGaaCGGGGGUCAGCAGGagcu -5' |
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| 25678 | 5' | -59 | NC_005337.1 | + | 97176 | 0.66 | 0.743567 |
|
Target: 5'- cGGCGCUgcUGCgCUCCGG-CGagCUCGAc -3' miRNA: 3'- uCCGUGA--ACG-GGGGUCaGCagGAGCU- -5' |
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| 25678 | 5' | -59 | NC_005337.1 | + | 102982 | 0.68 | 0.644135 |
|
Target: 5'- cGGGUACUucUGCCCCuCGGaCGUgCC-CGAg -3' miRNA: 3'- -UCCGUGA--ACGGGG-GUCaGCA-GGaGCU- -5' |
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| 25678 | 5' | -59 | NC_005337.1 | + | 104663 | 0.68 | 0.613742 |
|
Target: 5'- aGGGCGCgUGCCCaaGGUCGUCauggCGu -3' miRNA: 3'- -UCCGUGaACGGGggUCAGCAGga--GCu -5' |
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| 25678 | 5' | -59 | NC_005337.1 | + | 106522 | 0.66 | 0.753131 |
|
Target: 5'- uAGcGUGCUUGCUuaaCCAGUCGUCgUCu- -3' miRNA: 3'- -UC-CGUGAACGGg--GGUCAGCAGgAGcu -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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