miRNA: 3'- aaCCACGA-CGaCGGUCGCGUC-GGAAc -5'
miRNA: 3'- aaCC--ACGACGACG-GUCG-CGUCG-GAac -5'
miRNA: 3'- aACCaCGACGa-CGGuCGCGUCGG--AAC- -5'
miRNA: 3'- -AACCACGACGACGGUCGCGUCGGAAC- -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 | |||||||
| 21138 | 3' | -59.4 | NC_004775.1 | + | 9203 | 0.68 | 0.254021 |
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Target: 5'- -cGGUGCUgGC-GCUGGCGUAGaCCUUc -3' miRNA: 3'- aaCCACGA-CGaCGGUCGCGUC-GGAAc -5' |
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| 21138 | 3' | -59.4 | NC_004775.1 | + | 3200 | 0.68 | 0.247344 |
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Target: 5'- -cGGccUGCUGCUGCaCGGCgGCGGCgCUc- -3' miRNA: 3'- aaCC--ACGACGACG-GUCG-CGUCG-GAac -5' |
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| 21138 | 3' | -59.4 | NC_004775.1 | + | 34879 | 0.7 | 0.178122 |
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Target: 5'- aUGG-GCUGCgaGCCuGUGCGGCCccUUGa -3' miRNA: 3'- aACCaCGACGa-CGGuCGCGUCGG--AAC- -5' |
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| 21138 | 3' | -59.4 | NC_004775.1 | + | 38752 | 1.05 | 0.000299 |
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Target: 5'- uUUGGUGCUGCUGCCAGCGCAGCCUUGu -3' miRNA: 3'- -AACCACGACGACGGUCGCGUCGGAAC- -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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