miRNA: 3'- -CGGCAaa------CUCGaaCGCCCAGACGaac -5'
miRNA: 3'- -CGGCaaaCUCGaa-------CGCCCaGACGAac -5'
miRNA: 3'- -CGgCAAaCUCGaACGCCCAGACGaac -5'
miRNA: 3'- -CGGCAAACUCGAACGCCCAGACGAAC- -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 | |||||||
| 19249 | 5' | -52.9 | NC_004684.1 | + | 19117 | 0.66 | 0.858138 |
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Target: 5'- uGUCGUguccuuucGGGUggGCGGGUCUGUc-- -3' miRNA: 3'- -CGGCAaa------CUCGaaCGCCCAGACGaac -5' |
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| 19249 | 5' | -52.9 | NC_004684.1 | + | 19782 | 0.7 | 0.644754 |
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Target: 5'- cGCCGg--GGGCgacaagaugGCGGGcCUGCUg- -3' miRNA: 3'- -CGGCaaaCUCGaa-------CGCCCaGACGAac -5' |
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| 19249 | 5' | -52.9 | NC_004684.1 | + | 8148 | 0.76 | 0.333262 |
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Target: 5'- gGCaGUUgGAGCgUGCGGGUCUGCg-- -3' miRNA: 3'- -CGgCAAaCUCGaACGCCCAGACGaac -5' |
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| 19249 | 5' | -52.9 | NC_004684.1 | + | 59263 | 1.1 | 0.001701 |
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Target: 5'- uGCCGUUUGAGCUUGCGGGUCUGCUUGu -3' miRNA: 3'- -CGGCAAACUCGAACGCCCAGACGAAC- -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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