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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position |
R_P_ratio #
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P value |
| Predicted miRNA align pattern | |||||||
| 12785 | 3' | -58.5 | NC_003387.1 | + | 20505 | 0.71 | 0.271931 |
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Target: 5'- --cGCGCUCGCGCAGCGcGGCGu---- -3' miRNA: 3'- ccaUGCGGGCGUGUCGC-CCGCucaac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 46713 | 0.71 | 0.278766 |
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Target: 5'- uGG-ACGCCaaGCA-GGCGGGCGAGUg- -3' miRNA: 3'- -CCaUGCGGg-CGUgUCGCCCGCUCAac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 32831 | 0.71 | 0.278766 |
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Target: 5'- --cGCaGCCCGCACcGCgGGGCGGGgcGg -3' miRNA: 3'- ccaUG-CGGGCGUGuCG-CCCGCUCaaC- -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 20197 | 0.72 | 0.245935 |
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Target: 5'- -cUGCGCCuCGCACGGCcGGGCGuGc-- -3' miRNA: 3'- ccAUGCGG-GCGUGUCG-CCCGCuCaac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 1274 | 0.72 | 0.251598 |
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Target: 5'- cGGUGCGgCUGCGCGGCGuucgaccGGCGcAGUUc -3' miRNA: 3'- -CCAUGCgGGCGUGUCGC-------CCGC-UCAAc -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 5523 | 0.73 | 0.194965 |
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Target: 5'- cGGcuCGCCCGCG-AGCGGGCGaAGUUc -3' miRNA: 3'- -CCauGCGGGCGUgUCGCCCGC-UCAAc -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 7963 | 0.73 | 0.200138 |
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Target: 5'- cGGgcCGCUU-CACGGCGGGCGGGUg- -3' miRNA: 3'- -CCauGCGGGcGUGUCGCCCGCUCAac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 28077 | 0.73 | 0.205429 |
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Target: 5'- --gGCGaCCuCGCGCAGCaGGGCGAGg-- -3' miRNA: 3'- ccaUGC-GG-GCGUGUCG-CCCGCUCaac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 49576 | 0.74 | 0.175432 |
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Target: 5'- aGGUGCGCCCGCu--GcCGGGCG-GUg- -3' miRNA: 3'- -CCAUGCGGGCGuguC-GCCCGCuCAac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 47469 | 1.1 | 0.000436 |
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Target: 5'- aGGUACGCCCGCACAGCGGGCGAGUUGu -3' miRNA: 3'- -CCAUGCGGGCGUGUCGCCCGCUCAAC- -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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