miRNA: 3'- gcaACa---GCGCGUGCGUUCAGaaGAGU- -5'
miRNA: 3'- gcaaCAGCGCGuGCGUuCAGaAGAGU- -5'
miRNA: 3'- gCAacAGCGCGUGCGUuCAGAAGaGU- -5'
miRNA: 3'- -GCAACAGCGCGUGCGUUCAGAAGAGU- -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 | |||||||
| 312 | 3' | -51.4 | AC_000010.1 | + | 10373 | 0.66 | 0.79761 |
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Target: 5'- --cUGgaacCGCGUACGCGAGUUccCUCGg -3' miRNA: 3'- gcaACa---GCGCGUGCGUUCAGaaGAGU- -5' |
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| 312 | 3' | -51.4 | AC_000010.1 | + | 15568 | 0.66 | 0.776712 |
|
Target: 5'- ---aGUCGCGC-CGCGcGUCcUUUCAa -3' miRNA: 3'- gcaaCAGCGCGuGCGUuCAGaAGAGU- -5' |
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| 312 | 3' | -51.4 | AC_000010.1 | + | 13689 | 0.68 | 0.69898 |
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Target: 5'- uGUgcUCGUGCGCGUAcGUCUUC-CAg -3' miRNA: 3'- gCAacAGCGCGUGCGUuCAGAAGaGU- -5' |
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| 312 | 3' | -51.4 | AC_000010.1 | + | 8611 | 1.1 | 0.001304 |
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Target: 5'- gCGUUGUCGCGCACGCAAGUCUUCUCAg -3' miRNA: 3'- -GCAACAGCGCGUGCGUUCAGAAGAGU- -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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