miRNA: 3'- -GCgCUACC-GCUgGUCCugAGCC-AGCc -5'
miRNA: 3'- -GCGCUA-CCGCUGGUC-C-UGAGC-CaGCc -5'
miRNA: 3'- -GC-GCUACCGCUGgUCCUGAGc--CAGCc -5'
miRNA: 3'- -GCGCUaCCGCU-GGUCCUGa------GCCaGCC- -5'
miRNA: 3'- -GCGCUaCC-GCUGGUCCUGAGCCAGCC- -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
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| Predicted miRNA align pattern | |||||||
| 16298 | 5' | -58.3 | NC_004084.1 | + | 37866 | 0.7 | 0.38706 |
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Target: 5'- aCGgGAUGGcCGGgCGGGugUCGGaUCGc -3' miRNA: 3'- -GCgCUACC-GCUgGUCCugAGCC-AGCc -5' |
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| 16298 | 5' | -58.3 | NC_004084.1 | + | 5443 | 0.71 | 0.36182 |
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Target: 5'- uCGCGAUcGGCGACCAGcGcACUCGcGaCGa -3' miRNA: 3'- -GCGCUA-CCGCUGGUC-C-UGAGC-CaGCc -5' |
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| 16298 | 5' | -58.3 | NC_004084.1 | + | 19724 | 0.72 | 0.314863 |
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Target: 5'- aCGaCGGUGGUGGCgAGGACUCcucGUCGc -3' miRNA: 3'- -GC-GCUACCGCUGgUCCUGAGc--CAGCc -5' |
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| 16298 | 5' | -58.3 | NC_004084.1 | + | 10459 | 0.73 | 0.253318 |
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Target: 5'- cCGCGA-GGCGAuCCAGGACggccugaCGGaCGGc -3' miRNA: 3'- -GCGCUaCCGCU-GGUCCUGa------GCCaGCC- -5' |
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| 16298 | 5' | -58.3 | NC_004084.1 | + | 35438 | 0.94 | 0.008546 |
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Target: 5'- uCGCGA-GGuCGACCAGGACUCGGUCGGc -3' miRNA: 3'- -GCGCUaCC-GCUGGUCCUGAGCCAGCC- -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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