miRNA: 3'- cacAGGCCACGGUGGCcGGa--C-GGCGu -5'
miRNA: 3'- -CACaGGCCaCGGUGGC--CGGA-----CGGCGu -5'
miRNA: 3'- cACaGGCCACgGUGGCCGgacGGCGU- -5'
miRNA: 3'- caCAGGCCaCGGUGGCcG-GACGGCGu -5'
miRNA: 3'- -CACaGGCCACGGUGGC--CGGa---CGG-CGU- -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 | |||||||
| 23381 | 5' | -63.6 | NC_005259.1 | + | 13092 | 0.7 | 0.185656 |
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Target: 5'- --aUCCGGUGCCACCGaCCccgGcCCGCu -3' miRNA: 3'- cacAGGCCACGGUGGCcGGa--C-GGCGu -5' |
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| 23381 | 5' | -63.6 | NC_005259.1 | + | 61949 | 0.7 | 0.185656 |
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Target: 5'- gGUG-CCGGgGCCACCGcaGCCUcacgcGCCGCu -3' miRNA: 3'- -CACaGGCCaCGGUGGC--CGGA-----CGGCGu -5' |
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| 23381 | 5' | -63.6 | NC_005259.1 | + | 51358 | 0.7 | 0.176459 |
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Target: 5'- aUGcCCGGUGgCACCGGCacaCCGCGc -3' miRNA: 3'- cACaGGCCACgGUGGCCGgacGGCGU- -5' |
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| 23381 | 5' | -63.6 | NC_005259.1 | + | 35632 | 0.71 | 0.167669 |
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Target: 5'- -aGUUCGG-GCCGCCGcCgCUGCCGCu -3' miRNA: 3'- caCAGGCCaCGGUGGCcG-GACGGCGu -5' |
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| 23381 | 5' | -63.6 | NC_005259.1 | + | 38942 | 0.71 | 0.15126 |
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Target: 5'- uGUGcCCGGUGCCGCUGccGCCgagaGCCuGCAc -3' miRNA: 3'- -CACaGGCCACGGUGGC--CGGa---CGG-CGU- -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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