miRNA: 3'- aGGaCGGUU------------CCGAUAGGuCGcACGCU- -5'
miRNA: 3'- aGGAC-GGU---UCCGA---UAGGUCGCACGcu -5'
miRNA: 3'- aGG-ACG-GUUCCGauaGGUCG----CACGCU- -5'
miRNA: 3'- aGGACGGUUcCGAUAGGUCGca--CGCU- -5'
miRNA: 3'- -AGGACGGUUCCGAUAGGUCGCACGCU- -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 | |||||||
| 11327 | 3' | -56.5 | NC_003084.1 | + | 54830 | 0.66 | 0.812156 |
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Target: 5'- aCCgGCCGGauacacgaagacGGCUAUCC-GCcUGCGAa -3' miRNA: 3'- aGGaCGGUU------------CCGAUAGGuCGcACGCU- -5' |
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| 11327 | 3' | -56.5 | NC_003084.1 | + | 111 | 0.66 | 0.784423 |
|
Target: 5'- aUUUGaCCAacgGGGCUguuGUUCAGCGUGCa- -3' miRNA: 3'- aGGAC-GGU---UCCGA---UAGGUCGCACGcu -5' |
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| 11327 | 3' | -56.5 | NC_003084.1 | + | 96323 | 0.67 | 0.765194 |
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Target: 5'- aCCgUGCaCAAGGCcgaCCGGCagauGUGCGAg -3' miRNA: 3'- aGG-ACG-GUUCCGauaGGUCG----CACGCU- -5' |
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| 11327 | 3' | -56.5 | NC_003084.1 | + | 40333 | 0.69 | 0.610487 |
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Target: 5'- aCCUGUCGGaGCUGUCCAGCuccaGUGAu -3' miRNA: 3'- aGGACGGUUcCGAUAGGUCGca--CGCU- -5' |
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| 11327 | 3' | -56.5 | NC_003084.1 | + | 40719 | 1.09 | 0.001412 |
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Target: 5'- gUCCUGCCAAGGCUAUCCAGCGUGCGAa -3' miRNA: 3'- -AGGACGGUUCCGAUAGGUCGCACGCU- -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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