miRNA: 3'- -CCCUGUgCGGC-----------CUuCGUUGGCa-CGGa -5'
miRNA: 3'- cCCUG--------------UGCGGCC-UUCGU-UGGC-----ACGGa -5'
miRNA: 3'- cCCUGUGCGGCcuuCGU-UGGCACGga -5'
miRNA: 3'- cCCUGUGCgGCcuUCGUUGGC----ACGGa -5'
Results 21 - 24 of 24 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 | |||||||
| 22557 | 5' | -57.9 | NC_005091.1 | + | 11481 | 0.66 | 0.603576 |
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Target: 5'- aGGGGCAgGCCGaagcgcagcguGAcGCGGCCGacGCCc -3' miRNA: 3'- -CCCUGUgCGGC-----------CUuCGUUGGCa-CGGa -5' |
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| 22557 | 5' | -57.9 | NC_005091.1 | + | 14492 | 0.66 | 0.611081 |
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Target: 5'- aGGGCugcugaacgucgguGCGCCGGuAAGCGuGCCGcucgaUGCCg -3' miRNA: 3'- cCCUG--------------UGCGGCC-UUCGU-UGGC-----ACGGa -5' |
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| 22557 | 5' | -57.9 | NC_005091.1 | + | 49045 | 0.66 | 0.614301 |
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Target: 5'- cGGGCGCGCUGcu-GCGcACCGUGUg- -3' miRNA: 3'- cCCUGUGCGGCcuuCGU-UGGCACGga -5' |
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| 22557 | 5' | -57.9 | NC_005091.1 | + | 33427 | 0.66 | 0.614301 |
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Target: 5'- cGGACGCGaCGc-AGCAACCGgcauUGCCg -3' miRNA: 3'- cCCUGUGCgGCcuUCGUUGGC----ACGGa -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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