miRNA: 3'- ucCCg--CCGcC-GCUCGGCCAGCGGgUG- -5'
miRNA: 3'- -UCCCGcCGCCGCUCGgCCAGCg--GGUG- -5'
miRNA: 3'- ucCCGCCGCCGCUCG-GCCa-----GCGGGUg -5'
miRNA: 3'- -UCCCGCCGC-CGCUCgGCCAgCGGg--UG- -5'
miRNA: 3'- -UCCCGCCGCCGCUCGGCCAGCGGGUG- -5'
Results 21 - 25 of 25 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 | |||||||
| 31911 | 5' | -67 | NC_006938.1 | + | 55260 | 0.71 | 0.106273 |
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Target: 5'- -uGGacaGGCaGaCGAGCCGGUCGCCgACc -3' miRNA: 3'- ucCCg--CCGcC-GCUCGGCCAGCGGgUG- -5' |
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| 31911 | 5' | -67 | NC_006938.1 | + | 59157 | 0.72 | 0.079649 |
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Target: 5'- cAGGGCaGCGGUGAGCaGGUCGaugUCGCg -3' miRNA: 3'- -UCCCGcCGCCGCUCGgCCAGCg--GGUG- -5' |
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| 31911 | 5' | -67 | NC_006938.1 | + | 51936 | 0.74 | 0.062732 |
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Target: 5'- -aGGCGGCGGUGGGCuCGGcggugcCGCCCGa -3' miRNA: 3'- ucCCGCCGCCGCUCG-GCCa-----GCGGGUg -5' |
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| 31911 | 5' | -67 | NC_006938.1 | + | 37916 | 0.75 | 0.053441 |
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Target: 5'- cAGGGCGGCGaGCGGG-CGGUgGCCaggGCg -3' miRNA: 3'- -UCCCGCCGC-CGCUCgGCCAgCGGg--UG- -5' |
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| 31911 | 5' | -67 | NC_006938.1 | + | 63357 | 1.08 | 0.000109 |
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Target: 5'- aAGGGCGGCGGCGAGCCGGUCGCCCACg -3' miRNA: 3'- -UCCCGCCGCCGCUCGGCCAGCGGGUG- -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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