miRNA: 3'- -UCGUCCGC--------AGUACUAC-----UGa------GUUCCGU- -5'
miRNA: 3'- -UCGUC-------CGCAGuACUACUGagUUCCGu -5'
miRNA: 3'- -UCGUC-CGCaGUACU----------ACUGAGUu--CCGU- -5'
miRNA: 3'- -UCGUCCGCAGUACUACUGAGUUCCGU- -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 | |||||||
| 27286 | 3' | -53.3 | NC_005856.1 | + | 8435 | 0.67 | 0.844094 |
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Target: 5'- cAGCAGGUGgcggaaauUCAUGAUGgugguGCgguccggCAAGGCGc -3' miRNA: 3'- -UCGUCCGC--------AGUACUAC-----UGa------GUUCCGU- -5' |
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| 27286 | 3' | -53.3 | NC_005856.1 | + | 58408 | 0.68 | 0.825572 |
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Target: 5'- aGGCAGuuuuccaGCGUC-UGGUGGCagGAGGCc -3' miRNA: 3'- -UCGUC-------CGCAGuACUACUGagUUCCGu -5' |
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| 27286 | 3' | -53.3 | NC_005856.1 | + | 11814 | 0.7 | 0.717409 |
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Target: 5'- cAGCAGcGCGgCAUGAucaaaaucacUGACUCAuacGGCGu -3' miRNA: 3'- -UCGUC-CGCaGUACU----------ACUGAGUu--CCGU- -5' |
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| 27286 | 3' | -53.3 | NC_005856.1 | + | 8473 | 1.09 | 0.002716 |
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Target: 5'- aAGCAGGCGUCAUGAUGACUCAAGGCAc -3' miRNA: 3'- -UCGUCCGCAGUACUACUGAGUUCCGU- -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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