miRNA: 3'- -GUCGuauACUGa-CaaGgGUGGCCGCG- -5'
miRNA: 3'- -GUCGUauacUGACAAGGGUgGCCGCG- -5'
miRNA: 3'- -GUCGua---UACU--GACaagGGUGGCCGCG- -5'
miRNA: 3'- -GUCG-UAUACugACAa--GGGUGGCCgCG- -5'
miRNA: 3'- -GUCGUAUACUGACAAGGGUGGCCGCG- -5'
Results 1 - 5 of 5 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 | |||||||
| 11844 | 5' | -53.7 | NC_003266.2 | + | 15748 | 0.67 | 0.622464 |
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Target: 5'- cCGGCucuUGGCgcGggCgUACCGGCGCg -3' miRNA: 3'- -GUCGuauACUGa-CaaGgGUGGCCGCG- -5' |
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| 11844 | 5' | -53.7 | NC_003266.2 | + | 11366 | 0.67 | 0.61096 |
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Target: 5'- aCGGCGca--GCUGUUCCUGgUGGUGCa -3' miRNA: 3'- -GUCGUauacUGACAAGGGUgGCCGCG- -5' |
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| 11844 | 5' | -53.7 | NC_003266.2 | + | 26333 | 0.67 | 0.599477 |
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Target: 5'- cCAGCcccagAUGGgcCUGg--CCGCCGGCGCc -3' miRNA: 3'- -GUCGua---UACU--GACaagGGUGGCCGCG- -5' |
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| 11844 | 5' | -53.7 | NC_003266.2 | + | 18314 | 0.67 | 0.588023 |
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Target: 5'- cCGGCgAUGUGcaUGUacgCCCACUGGgGCa -3' miRNA: 3'- -GUCG-UAUACugACAa--GGGUGGCCgCG- -5' |
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| 11844 | 5' | -53.7 | NC_003266.2 | + | 3006 | 1.13 | 0.000441 |
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Target: 5'- cCAGCAUAUGACUGUUCCCACCGGCGCa -3' miRNA: 3'- -GUCGUAUACUGACAAGGGUGGCCGCG- -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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