miRNA: 3'- aCCCGuCCaGGGCgGCGGUGGG----UGCG- -5'
miRNA: 3'- aCCCGuCCAGg---GCG-GCGGUGGGUGCG- -5'
miRNA: 3'- aCCCGUCCag--GGCGGCGGUGGgUGCg -5'
miRNA: 3'- -AC-CCGUCCaGGGCGGCG-GUGGGuGCG- -5'
miRNA: 3'- -ACCCGUCCAGGGCGGCGGUGGGUGCG- -5'
Results 41 - 45 of 45 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 | |||||||
| 2652 | 5' | -64.7 | NC_001491.2 | + | 27105 | 0.72 | 0.216238 |
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Target: 5'- cGGGC-GG-CCCGgCGCCGCUCcggaGCGCg -3' miRNA: 3'- aCCCGuCCaGGGCgGCGGUGGG----UGCG- -5' |
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| 2652 | 5' | -64.7 | NC_001491.2 | + | 148418 | 0.74 | 0.1835 |
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Target: 5'- gGGGC-GGUCaucaCGCuCGCCGUCCACGCc -3' miRNA: 3'- aCCCGuCCAGg---GCG-GCGGUGGGUGCG- -5' |
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| 2652 | 5' | -64.7 | NC_001491.2 | + | 5365 | 0.75 | 0.144353 |
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Target: 5'- gGGGUAGGaggaCCGCCGCUGCCgGCGg -3' miRNA: 3'- aCCCGUCCag--GGCGGCGGUGGgUGCg -5' |
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| 2652 | 5' | -64.7 | NC_001491.2 | + | 28783 | 0.75 | 0.140888 |
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Target: 5'- aUGcGGCAGGaUCCGUCGCaCGCCC-CGCa -3' miRNA: 3'- -AC-CCGUCCaGGGCGGCG-GUGGGuGCG- -5' |
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| 2652 | 5' | -64.7 | NC_001491.2 | + | 99871 | 1.09 | 0.000482 |
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Target: 5'- cUGGGCAGGUCCCGCCGCCACCCACGCc -3' miRNA: 3'- -ACCCGUCCAGGGCGGCGGUGGGUGCG- -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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