miRNA: 3'- cCAGagaCCGGAACCAGgaUUGCCAG- -5'
miRNA: 3'- cCAgAGaCCGGaACCAGGa----UUGCCAG- -5'
miRNA: 3'- cCAGag------ACCGGAa---CCAGG---AUUGCCAG- -5'
miRNA: 3'- cCAGaGACCGGa--ACCAGGaUUGCCAG- -5'
miRNA: 3'- -CCAGAGACCGGAACCAGGAUUGCCAG- -5'
Results 1 - 5 of 5 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 | |||||||
| 17994 | 3' | -54.4 | NC_004665.1 | + | 21446 | 0.66 | 0.634203 |
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Target: 5'- cGUC---GGUCUUGGUCg-AGCGGUCa -3' miRNA: 3'- cCAGagaCCGGAACCAGgaUUGCCAG- -5' |
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| 17994 | 3' | -54.4 | NC_004665.1 | + | 29648 | 0.66 | 0.634203 |
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Target: 5'- cGUgUC-GGCUcUGGUCCagcacAGCGGUCg -3' miRNA: 3'- cCAgAGaCCGGaACCAGGa----UUGCCAG- -5' |
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| 17994 | 3' | -54.4 | NC_004665.1 | + | 26376 | 0.67 | 0.611445 |
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Target: 5'- cGUCcccuuggaUGGCCUuuugGGUCUccuUGGCGGUCg -3' miRNA: 3'- cCAGag------ACCGGAa---CCAGG---AUUGCCAG- -5' |
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| 17994 | 3' | -54.4 | NC_004665.1 | + | 14085 | 0.69 | 0.468583 |
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Target: 5'- cGUCgUUGGCUgcgUGGUUUgGACGGUCg -3' miRNA: 3'- cCAGaGACCGGa--ACCAGGaUUGCCAG- -5' |
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| 17994 | 3' | -54.4 | NC_004665.1 | + | 456 | 1.12 | 0.000453 |
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Target: 5'- cGGUCUCUGGCCUUGGUCCUAACGGUCu -3' miRNA: 3'- -CCAGAGACCGGAACCAGGAUUGCCAG- -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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