miRNA: 3'- cCGGUCuauGAGCaACCGAAC---CGCGU- -5'
miRNA: 3'- -CCGGUCuAUGag--CAACCG----AACCGCGU- -5'
miRNA: 3'- -CCG-GUcUAugAGCAACCGaaCCgCGU- -5'
miRNA: 3'- -CCGGUCuauGAGCAACCGAAcCGcGU- -5'
miRNA: 3'- -CCGGUCUAUGAGCAACCGAACCGCGU- -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 | |||||||
| 17973 | 5' | -54.3 | NC_004665.1 | + | 19397 | 0.66 | 0.658572 |
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Target: 5'- aGCCAGc--CUUGaUGGCUUGcucGCGCAu -3' miRNA: 3'- cCGGUCuauGAGCaACCGAAC---CGCGU- -5' |
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| 17973 | 5' | -54.3 | NC_004665.1 | + | 22053 | 0.66 | 0.635645 |
|
Target: 5'- aGGUCGG-UGCgaggGUUGGCgcagUUGGCGUAa -3' miRNA: 3'- -CCGGUCuAUGag--CAACCG----AACCGCGU- -5' |
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| 17973 | 5' | -54.3 | NC_004665.1 | + | 22454 | 0.67 | 0.555847 |
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Target: 5'- uGGCgCAcGUugUCGUUGGCa-GGgGCAu -3' miRNA: 3'- -CCG-GUcUAugAGCAACCGaaCCgCGU- -5' |
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| 17973 | 5' | -54.3 | NC_004665.1 | + | 9705 | 0.68 | 0.50062 |
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Target: 5'- aGGCCGGu--CUUGUUGGCUUcGCuCAg -3' miRNA: 3'- -CCGGUCuauGAGCAACCGAAcCGcGU- -5' |
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| 17973 | 5' | -54.3 | NC_004665.1 | + | 6534 | 1.11 | 0.000532 |
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Target: 5'- gGGCCAGAUACUCGUUGGCUUGGCGCAu -3' miRNA: 3'- -CCGGUCUAUGAGCAACCGAACCGCGU- -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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