miRNA: 3'- uaGGUA-AAGGCG-UAUUUUGUCGCcuu -5'
miRNA: 3'- uaGGUa--AAgGCGUAUU--UUGUCGCCUU- -5'
miRNA: 3'- uaGGUaaa---GGCGUAUuu--UGUCGCCUU- -5'
miRNA: 3'- uaGGUaaa---GGCGUAU------UUUGUCGCCUu -5'
miRNA: 3'- -UAGGUAAAGGCGUAUUUUGUCGCCUU- -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 | |||||||
| 13547 | 5' | -47.8 | NC_003444.1 | + | 31973 | 0.66 | 0.927566 |
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Target: 5'- -gCCGUgUUCCGCaAUGAGGCAGUGa-- -3' miRNA: 3'- uaGGUA-AAGGCG-UAUUUUGUCGCcuu -5' |
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| 13547 | 5' | -47.8 | NC_003444.1 | + | 19800 | 0.67 | 0.8834 |
|
Target: 5'- -aCCAaagUUgCGUGUAAauGACAGCGGAAc -3' miRNA: 3'- uaGGUa--AAgGCGUAUU--UUGUCGCCUU- -5' |
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| 13547 | 5' | -47.8 | NC_003444.1 | + | 29747 | 0.68 | 0.856926 |
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Target: 5'- -gCCAaaugugCCGCGUAuuacACGGCGGAAg -3' miRNA: 3'- uaGGUaaa---GGCGUAUuu--UGUCGCCUU- -5' |
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| 13547 | 5' | -47.8 | NC_003444.1 | + | 52 | 0.7 | 0.716444 |
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Target: 5'- -aCCAggagugCCGCAUAuggcugGAACGGCGGGg -3' miRNA: 3'- uaGGUaaa---GGCGUAU------UUUGUCGCCUu -5' |
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| 13547 | 5' | -47.8 | NC_003444.1 | + | 7606 | 1.04 | 0.005851 |
|
Target: 5'- uAUCCAUUUCCGCAUAAAACAGCGGAAc -3' miRNA: 3'- -UAGGUAAAGGCGUAUUUUGUCGCCUU- -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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