miRNA: 3'- -UGGU--ACUUACGC-CG-----UCAGUuuUUUCU- -5'
miRNA: 3'- -UGGuACU----UACGCCGUCAGuuuUUUCU- -5'
miRNA: 3'- -UGGUACUua--CGCCGUCAGUuuuuucu -5'
miRNA: 3'- -UGGUACUUaCGCCG-UCAGUuUUUUcu -5'
miRNA: 3'- -UGGUACUUACGCCGUCAGUUUUUUCU- -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 | |||||||
| 11291 | 5' | -45.7 | NC_003083.1 | + | 55492 | 0.68 | 0.998495 |
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Target: 5'- cGCCGauUGAAUGCGcGCuuuccAGUCGuuAAAGGc -3' miRNA: 3'- -UGGU--ACUUACGC-CG-----UCAGUuuUUUCU- -5' |
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| 11291 | 5' | -45.7 | NC_003083.1 | + | 51394 | 0.68 | 0.998495 |
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Target: 5'- uGCUcUGGacuuGUGCGGCGGUCcu-GGGGAa -3' miRNA: 3'- -UGGuACU----UACGCCGUCAGuuuUUUCU- -5' |
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| 11291 | 5' | -45.7 | NC_003083.1 | + | 115465 | 0.7 | 0.994692 |
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Target: 5'- cACCGUGAccacGUGGCAGUCAu------ -3' miRNA: 3'- -UGGUACUua--CGCCGUCAGUuuuuucu -5' |
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| 11291 | 5' | -45.7 | NC_003083.1 | + | 51637 | 0.72 | 0.978715 |
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Target: 5'- uGCCGUGGAcGCGGCuGGUCGcGAAAa- -3' miRNA: 3'- -UGGUACUUaCGCCG-UCAGUuUUUUcu -5' |
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| 11291 | 5' | -45.7 | NC_003083.1 | + | 89982 | 1.1 | 0.017939 |
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Target: 5'- cACCAUGAAUGCGGCAGUCAAAAAAGAc -3' miRNA: 3'- -UGGUACUUACGCCGUCAGUUUUUUCU- -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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