miRNA: 3'- gcCugCGCCuUGC-CGGGCUGAaUGGC- -5'
miRNA: 3'- gCCUGCGCCUUgCc----GGGCUGaaUGGC- -5'
miRNA: 3'- -GC-CU-GCGCCU-----UGCCGGGCUGAAugGC- -5'
miRNA: 3'- gccUGCGCCU-UGCCG---GGCUGAAUGGc -5'
miRNA: 3'- -GCCUGCGCCUUGCCGGGCuGAAUGGC- -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 | |||||||
| 29232 | 3' | -58 | NC_006150.1 | + | 149815 | 0.71 | 0.690406 |
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Target: 5'- -aGugGCGGuGCGaGCCUGGCUgGCCGc -3' miRNA: 3'- gcCugCGCCuUGC-CGGGCUGAaUGGC- -5' |
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| 29232 | 3' | -58 | NC_006150.1 | + | 53362 | 0.71 | 0.690406 |
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Target: 5'- aGGACGCGGAGgGacuucCCCGACg-ACCGc -3' miRNA: 3'- gCCUGCGCCUUgCc----GGGCUGaaUGGC- -5' |
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| 29232 | 3' | -58 | NC_006150.1 | + | 118269 | 0.73 | 0.565081 |
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Target: 5'- cCGcGAcCGCGGGcucgaGCGGCUCGACUUugUGg -3' miRNA: 3'- -GC-CU-GCGCCU-----UGCCGGGCUGAAugGC- -5' |
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| 29232 | 3' | -58 | NC_006150.1 | + | 168663 | 0.73 | 0.565081 |
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Target: 5'- --cACGCGGGuGCGGCggaCCGACUUGCCa -3' miRNA: 3'- gccUGCGCCU-UGCCG---GGCUGAAUGGc -5' |
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| 29232 | 3' | -58 | NC_006150.1 | + | 148619 | 1 | 0.015093 |
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Target: 5'- gCGGACGCGGAACGGCCCG-CUUACCGu -3' miRNA: 3'- -GCCUGCGCCUUGCCGGGCuGAAUGGC- -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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