miRNA: 3'- gUGG--UGGUGAGGg--------CGGGUUCAGGUUg -5'
miRNA: 3'- -GUGGUgGUGaGGGCG-GGUUCa-GGUUG- -5'
miRNA: 3'- gUGGUGGUGAgGGcGGGUUCAGG--UUG- -5'
miRNA: 3'- gUGGu-GGUGAGGGCGGGUUCAGGuUG- -5'
miRNA: 3'- -GUGGUGGUGAGGGCGGGUUCAGGUUG- -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 | |||||||
| 11859 | 5' | -57.4 | NC_003266.2 | + | 5654 | 0.7 | 0.264401 |
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Target: 5'- aACCcgACCACUCUgagacgaagGCCCGGGUCCAAg -3' miRNA: 3'- gUGG--UGGUGAGGg--------CGGGUUCAGGUUg -5' |
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| 11859 | 5' | -57.4 | NC_003266.2 | + | 15686 | 0.7 | 0.257559 |
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Target: 5'- gCGCCGgUACgCCCGCgCCAAGagCCGGCg -3' miRNA: 3'- -GUGGUgGUGaGGGCG-GGUUCa-GGUUG- -5' |
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| 11859 | 5' | -57.4 | NC_003266.2 | + | 8498 | 0.71 | 0.219514 |
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Target: 5'- uGCCACCACUgCC-UCCGGGUCCcgAGCc -3' miRNA: 3'- gUGGUGGUGAgGGcGGGUUCAGG--UUG- -5' |
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| 11859 | 5' | -57.4 | NC_003266.2 | + | 19891 | 0.79 | 0.057093 |
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Target: 5'- aGCCucCUGCUCCUGCCCGGGUCCuACa -3' miRNA: 3'- gUGGu-GGUGAGGGCGGGUUCAGGuUG- -5' |
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| 11859 | 5' | -57.4 | NC_003266.2 | + | 13712 | 1.1 | 0.000286 |
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Target: 5'- cCACCACCACUCCCGCCCAAGUCCAACa -3' miRNA: 3'- -GUGGUGGUGAGGGCGGGUUCAGGUUG- -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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