miRNA: 3'- cUGGC---AGC-UUAugGGCCAUGACGaau -5'
miRNA: 3'- -CUGGCAGCUUAUGGGCcauGaCGAAU- -5'
miRNA: 3'- -CUGGCAGCuuAUG------GGCCA------UGACGaau -5'
miRNA: 3'- -CUGGCAGCUUAUGGGCCAUGACGAAU- -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 | |||||||
| 21125 | 5' | -52 | NC_004775.1 | + | 19351 | 0.67 | 0.713973 |
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Target: 5'- uGCCGuagUCGuGGUugCUGGUACUGCg-- -3' miRNA: 3'- cUGGC---AGC-UUAugGGCCAUGACGaau -5' |
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| 21125 | 5' | -52 | NC_004775.1 | + | 14282 | 0.67 | 0.713973 |
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Target: 5'- uGAUCGUCGAAUGCUCGcuuCaGCUUAu -3' miRNA: 3'- -CUGGCAGCUUAUGGGCcauGaCGAAU- -5' |
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| 21125 | 5' | -52 | NC_004775.1 | + | 7211 | 0.68 | 0.656635 |
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Target: 5'- uGACCGUUGggUACaaaacgCCGGUcaucacGCUGCc-- -3' miRNA: 3'- -CUGGCAGCuuAUG------GGCCA------UGACGaau -5' |
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| 21125 | 5' | -52 | NC_004775.1 | + | 15408 | 1.07 | 0.00182 |
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Target: 5'- uGACCGUCGAAUACCCGGUACUGCUUAg -3' miRNA: 3'- -CUGGCAGCUUAUGGGCCAUGACGAAU- -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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