miRNA: 3'- caCG-UCAGUU-GCU--UGGG-------UGGCCAGAC- -5'
miRNA: 3'- cACGuCAGUUGCU-UGGGuGGCCaGAC- -5'
miRNA: 3'- -CACGUCAG------UugCUUGG-GUGGCC---AGAC- -5'
miRNA: 3'- -CACGUCAGUUGCUUGGGUGGCCAGAC- -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 | |||||||
| 27338 | 5' | -54.5 | NC_005857.1 | + | 16273 | 0.67 | 0.686506 |
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Target: 5'- -cGCuGGUCAGaCGGuuGCCUaggccaaACCGGUCUGa -3' miRNA: 3'- caCG-UCAGUU-GCU--UGGG-------UGGCCAGAC- -5' |
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| 27338 | 5' | -54.5 | NC_005857.1 | + | 21334 | 0.67 | 0.66547 |
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Target: 5'- uUGC-GUCAGCGAuGCCCcCUGG-CUGg -3' miRNA: 3'- cACGuCAGUUGCU-UGGGuGGCCaGAC- -5' |
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| 27338 | 5' | -54.5 | NC_005857.1 | + | 14088 | 0.69 | 0.565466 |
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Target: 5'- gGUGCAGUCggacaaGugGAACCaUGCCGGgauUCUGc -3' miRNA: 3'- -CACGUCAG------UugCUUGG-GUGGCC---AGAC- -5' |
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| 27338 | 5' | -54.5 | NC_005857.1 | + | 8160 | 1.09 | 0.001088 |
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Target: 5'- gGUGCAGUCAACGAACCCACCGGUCUGg -3' miRNA: 3'- -CACGUCAGUUGCUUGGGUGGCCAGAC- -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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