miRNA: 3'- aCGACGcAAGCG---UC-----UGGUAGCUGCCG- -5'
miRNA: 3'- aCGACGCaa-GCGu-CUG-GUAGC-UGCCG- -5'
miRNA: 3'- aCGaCGCaag----CGUCUGGU---AGCUGCCG- -5'
miRNA: 3'- aCGACGCa--AGCGUCUGGU--AGCUGCcG- -5'
miRNA: 3'- -ACGACGCAAGCGUCUGGUAGCUGCCG- -5'
Results 61 - 65 of 65 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 | |||||||
| 26651 | 3' | -55.3 | NC_005808.1 | + | 14825 | 0.74 | 0.2393 |
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Target: 5'- cGCUGCcUUCGCccaGGucgauGCCGUUGGCGGCc -3' miRNA: 3'- aCGACGcAAGCG---UC-----UGGUAGCUGCCG- -5' |
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| 26651 | 3' | -55.3 | NC_005808.1 | + | 20762 | 0.74 | 0.226914 |
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Target: 5'- cGCUGCGccgCGCucGACuCAUCGcGCGGCu -3' miRNA: 3'- aCGACGCaa-GCGu-CUG-GUAGC-UGCCG- -5' |
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| 26651 | 3' | -55.3 | NC_005808.1 | + | 9264 | 0.76 | 0.172905 |
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Target: 5'- cGCcGCGccgccgaGCAGGCCAacgUCGACGGCg -3' miRNA: 3'- aCGaCGCaag----CGUCUGGU---AGCUGCCG- -5' |
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| 26651 | 3' | -55.3 | NC_005808.1 | + | 34132 | 0.81 | 0.075534 |
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Target: 5'- gGCUGCGgcaUCGCAGGCCAccUCGACGcCg -3' miRNA: 3'- aCGACGCa--AGCGUCUGGU--AGCUGCcG- -5' |
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| 26651 | 3' | -55.3 | NC_005808.1 | + | 7382 | 1.12 | 0.000418 |
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Target: 5'- cUGCUGCGUUCGCAGACCAUCGACGGCg -3' miRNA: 3'- -ACGACGCAAGCGUCUGGUAGCUGCCG- -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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