miRNA: 3'- cAUGCCGCU---------UGUuGAUGCUCaUGuUG- -5'
miRNA: 3'- -CAUg--CCGCUU---------GUUGAugCUCA--UGUUG- -5'
miRNA: 3'- caUGCCGCUuGUUGAugC--UCaUGUUG- -5'
miRNA: 3'- -CAUGCCG---CUUGUuGa--UGCUC----AUGUUG- -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 | |||||||
| 32343 | 3' | -47.3 | NC_007024.1 | + | 30309 | 0.67 | 0.980205 |
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Target: 5'- uUACGGCGGccagcucucACAuCUACGAGcGCcACu -3' miRNA: 3'- cAUGCCGCU---------UGUuGAUGCUCaUGuUG- -5' |
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| 32343 | 3' | -47.3 | NC_007024.1 | + | 5010 | 0.68 | 0.96482 |
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Target: 5'- uGUAaaaGGUGAAggaguugucCGACUugGAGUaaACAACg -3' miRNA: 3'- -CAUg--CCGCUU---------GUUGAugCUCA--UGUUG- -5' |
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| 32343 | 3' | -47.3 | NC_007024.1 | + | 9853 | 0.68 | 0.956787 |
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Target: 5'- -aGCGGCGGcCGGCUugGccGGaGCAGCc -3' miRNA: 3'- caUGCCGCUuGUUGAugC--UCaUGUUG- -5' |
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| 32343 | 3' | -47.3 | NC_007024.1 | + | 52086 | 0.68 | 0.952335 |
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Target: 5'- cGUGCGGUgcgGAACAuCgugGCGAGgcucUACGACa -3' miRNA: 3'- -CAUGCCG---CUUGUuGa--UGCUC----AUGUUG- -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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