miRNA: 3'- cGAAC-GCACGaGCUGUGCCGA-------GGUGG- -5'
miRNA: 3'- -CGAaCGcACGAGCUGU-GCCGaG-GUGG- -5'
miRNA: 3'- cgaaCGCaCGAGCUGUGCCG-----------AGGUGg -5'
miRNA: 3'- -CGaa-----CGCaCGAGCUGUGCCGa-GGUGG- -5'
miRNA: 3'- -CGAACGCACGAGCUGUGCCGAGGUGG- -5'
Results 41 - 45 of 45 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 | |||||||
| 24850 | 3' | -55.8 | NC_005284.1 | + | 41790 | 0.72 | 0.367637 |
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Target: 5'- uCUUGaUGUGCgCGACGCGGUUguugucgCCGCCa -3' miRNA: 3'- cGAAC-GCACGaGCUGUGCCGA-------GGUGG- -5' |
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| 24850 | 3' | -55.8 | NC_005284.1 | + | 47476 | 0.73 | 0.296646 |
|
Target: 5'- gGCUcGCaUGCUCGACGuCGGC-CaCACCg -3' miRNA: 3'- -CGAaCGcACGAGCUGU-GCCGaG-GUGG- -5' |
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| 24850 | 3' | -55.8 | NC_005284.1 | + | 8715 | 0.74 | 0.268385 |
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Target: 5'- ---cGCGcGCUCGACGCGGCgcgcaguucgaUCCGCg -3' miRNA: 3'- cgaaCGCaCGAGCUGUGCCG-----------AGGUGg -5' |
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| 24850 | 3' | -55.8 | NC_005284.1 | + | 6987 | 0.75 | 0.248644 |
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Target: 5'- cGCguacaugGCGcGCUCGACAUGGCgcUCGCCg -3' miRNA: 3'- -CGaa-----CGCaCGAGCUGUGCCGa-GGUGG- -5' |
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| 24850 | 3' | -55.8 | NC_005284.1 | + | 31562 | 1.14 | 0.000405 |
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Target: 5'- uGCUUGCGUGCUCGACACGGCUCCACCg -3' miRNA: 3'- -CGAACGCACGAGCUGUGCCGAGGUGG- -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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