miRNA: 3'- cCGGACAgGGUCGUaCCA--C-GGAGGGU- -5'
miRNA: 3'- -CCGGa----------CAGGGUCGUAC-CACGGag--------GGU- -5'
miRNA: 3'- -CCGGAC--AGGGUCGuaCCa--CGGAGGGu -5'
miRNA: 3'- -CCGGACAGGGUCGUACCACGGAGGGU- -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 | |||||||
| 6179 | 5' | -60.4 | NC_001837.1 | + | 3370 | 0.66 | 0.092675 |
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Target: 5'- uGCUUGU-CCAGCA-GGUucGaCCUCCCAc -3' miRNA: 3'- cCGGACAgGGUCGUaCCA--C-GGAGGGU- -5' |
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| 6179 | 5' | -60.4 | NC_001837.1 | + | 572 | 0.68 | 0.069536 |
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Target: 5'- gGGCCauccuuuuuccGUCCCGGCAUGcGUGCCggguaggagaCCAu -3' miRNA: 3'- -CCGGa----------CAGGGUCGUAC-CACGGag--------GGU- -5' |
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| 6179 | 5' | -60.4 | NC_001837.1 | + | 748 | 0.68 | 0.069536 |
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Target: 5'- cGGCCUGgcUCCCAGCccGGagaGCUUCUUg -3' miRNA: 3'- -CCGGAC--AGGGUCGuaCCa--CGGAGGGu -5' |
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| 6179 | 5' | -60.4 | NC_001837.1 | + | 5926 | 1.1 | 0.000016 |
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Target: 5'- aGGCCUGUCCCAGCAUGGUGCCUCCCAc -3' miRNA: 3'- -CCGGACAGGGUCGUACCACGGAGGGU- -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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