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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 | |||||||
| 19695 | 3' | -57.8 | NC_004686.1 | + | 44433 | 0.66 | 0.514377 |
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Target: 5'- -cCGGCGCUGCCCGCGu--UCUccacGUUGa -3' miRNA: 3'- uuGCUGCGGCGGGCGUucuAGA----CGAC- -5' |
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| 19695 | 3' | -57.8 | NC_004686.1 | + | 40618 | 0.67 | 0.508121 |
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Target: 5'- uGCGACGCCGCCaCGUucgaccagggcggccGGGAacgCUGCc- -3' miRNA: 3'- uUGCUGCGGCGG-GCG---------------UUCUa--GACGac -5' |
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| 19695 | 3' | -57.8 | NC_004686.1 | + | 13694 | 0.67 | 0.501898 |
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Target: 5'- cGCGGCGCugguccCGCCCGUggGGUCaagaguggguuaGCUGa -3' miRNA: 3'- uUGCUGCG------GCGGGCGuuCUAGa-----------CGAC- -5' |
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| 19695 | 3' | -57.8 | NC_004686.1 | + | 18571 | 0.67 | 0.493653 |
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Target: 5'- uGCuACGCCaauGUCCGCAAGAUCgauaagGCUa -3' miRNA: 3'- uUGcUGCGG---CGGGCGUUCUAGa-----CGAc -5' |
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| 19695 | 3' | -57.8 | NC_004686.1 | + | 24324 | 0.7 | 0.344574 |
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Target: 5'- uGugGA-GCCG-UUGCGGGAUCUGCUGg -3' miRNA: 3'- -UugCUgCGGCgGGCGUUCUAGACGAC- -5' |
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| 19695 | 3' | -57.8 | NC_004686.1 | + | 15239 | 0.7 | 0.305103 |
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Target: 5'- gAugGAC-CgCGCCCGCAAGAUCgaaCUGa -3' miRNA: 3'- -UugCUGcG-GCGGGCGUUCUAGac-GAC- -5' |
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| 19695 | 3' | -57.8 | NC_004686.1 | + | 18698 | 0.74 | 0.191755 |
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Target: 5'- --aGGCGCUGcCCCGCGAGAUCaGCg- -3' miRNA: 3'- uugCUGCGGC-GGGCGUUCUAGaCGac -5' |
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| 19695 | 3' | -57.8 | NC_004686.1 | + | 38832 | 1.06 | 0.00074 |
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Target: 5'- cAACGACGCCGCCCGCAAGAUCUGCUGg -3' miRNA: 3'- -UUGCUGCGGCGGGCGUUCUAGACGAC- -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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