miRNA: 3'- cCGGCGGCGAGa-UGGGC--GUCCCu--CGU- -5'
miRNA: 3'- -CCGGCGGCGagaUGGGCGU--CCCUCGU- -5'
miRNA: 3'- cCGG-CGGCGaGaUGGGCGU-----CCCUCGU- -5'
miRNA: 3'- -CCGGCGGC-GAGAugGgCGUCCCuCGU- -5'
miRNA: 3'- -CCGGCGGCGAGAUGGGCGUCCCUCGU- -5'
Results 21 - 25 of 25 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 | |||||||
| 20537 | 5' | -62.8 | NC_004688.1 | + | 17042 | 0.71 | 0.25113 |
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Target: 5'- cGCCGCCGUUUggGCCCGacCAGGGcuuGCGu -3' miRNA: 3'- cCGGCGGCGAGa-UGGGC--GUCCCu--CGU- -5' |
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| 20537 | 5' | -62.8 | NC_004688.1 | + | 25568 | 0.72 | 0.239558 |
|
Target: 5'- aGGCCGCCGC---AUUCGCGauGGGGGCGu -3' miRNA: 3'- -CCGGCGGCGagaUGGGCGU--CCCUCGU- -5' |
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| 20537 | 5' | -62.8 | NC_004688.1 | + | 26071 | 0.73 | 0.2075 |
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Target: 5'- cGCCaGCCGCaCcGCCCGCAgcaccGGGGGCAc -3' miRNA: 3'- cCGG-CGGCGaGaUGGGCGU-----CCCUCGU- -5' |
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| 20537 | 5' | -62.8 | NC_004688.1 | + | 79525 | 0.73 | 0.192904 |
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Target: 5'- cGGCCGCCGcCUUUugC-GCGGGGcGCGg -3' miRNA: 3'- -CCGGCGGC-GAGAugGgCGUCCCuCGU- -5' |
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| 20537 | 5' | -62.8 | NC_004688.1 | + | 88731 | 1.09 | 0.00043 |
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Target: 5'- gGGCCGCCGCUCUACCCGCAGGGAGCAg -3' miRNA: 3'- -CCGGCGGCGAGAUGGGCGUCCCUCGU- -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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