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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 | |||||||
| 31419 | 3' | -52.9 | NC_006635.1 | + | 6605 | 0.66 | 0.639201 |
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Target: 5'- uUCCGGCCGGAg---GGCAGa----- -3' miRNA: 3'- gAGGCCGGCCUuucaCCGUUgaaaga -5' |
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| 31419 | 3' | -52.9 | NC_006635.1 | + | 6198 | 0.66 | 0.627444 |
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Target: 5'- uUCCGGCCGGAg---GGCAGaaaaacagUUUUCc -3' miRNA: 3'- gAGGCCGGCCUuucaCCGUU--------GAAAGa -5' |
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| 31419 | 3' | -52.9 | NC_006635.1 | + | 18764 | 0.71 | 0.367781 |
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Target: 5'- uUCC-GCCGGAAAGUGGCAc------ -3' miRNA: 3'- gAGGcCGGCCUUUCACCGUugaaaga -5' |
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| 31419 | 3' | -52.9 | NC_006635.1 | + | 6135 | 0.71 | 0.358597 |
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Target: 5'- uUCUGcucgacguaGCCGGAAcGUGGCAACUUUg- -3' miRNA: 3'- gAGGC---------CGGCCUUuCACCGUUGAAAga -5' |
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| 31419 | 3' | -52.9 | NC_006635.1 | + | 6668 | 0.71 | 0.349575 |
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Target: 5'- uUCUGcucgacguaGCCGGAAuGUGGCAACUUUg- -3' miRNA: 3'- gAGGC---------CGGCCUUuCACCGUUGAAAga -5' |
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| 31419 | 3' | -52.9 | NC_006635.1 | + | 6239 | 0.96 | 0.00631 |
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Target: 5'- cCUCCGGCCGGAAAGUGGaAACUUUCUg -3' miRNA: 3'- -GAGGCCGGCCUUUCACCgUUGAAAGA- -5' |
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| 31419 | 3' | -52.9 | NC_006635.1 | + | 6564 | 1.09 | 0.000768 |
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Target: 5'- cCUCCGGCCGGAAAGUGGCAACUUUCUg -3' miRNA: 3'- -GAGGCCGGCCUUUCACCGUUGAAAGA- -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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