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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 | |||||||
| 12785 | 3' | -58.5 | NC_003387.1 | + | 28902 | 0.67 | 0.5023 |
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Target: 5'- cGGcgcgGCGCCCucacguaucugcuGCGCGGCG-GCGAGg-- -3' miRNA: 3'- -CCa---UGCGGG-------------CGUGUCGCcCGCUCaac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 44622 | 0.67 | 0.503317 |
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Target: 5'- -cUGgGCUCGC-CcuCGGGCGGGUUGg -3' miRNA: 3'- ccAUgCGGGCGuGucGCCCGCUCAAC- -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 21471 | 0.67 | 0.503317 |
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Target: 5'- uGGcGCaGCCCGCGcCGGuCGGGcCGGGcUGg -3' miRNA: 3'- -CCaUG-CGGGCGU-GUC-GCCC-GCUCaAC- -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 31265 | 0.66 | 0.523848 |
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Target: 5'- gGGcUGCGCCaGCGgGGcCGGGUuAGUUGa -3' miRNA: 3'- -CC-AUGCGGgCGUgUC-GCCCGcUCAAC- -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 3644 | 0.66 | 0.534234 |
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Target: 5'- cGUACGCCUGCGCGccGCGagccugcccGGUGAGc-- -3' miRNA: 3'- cCAUGCGGGCGUGU--CGC---------CCGCUCaac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 3143 | 0.66 | 0.544692 |
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Target: 5'- aGGccacCGCCCG-GCAGCGGGCGc---- -3' miRNA: 3'- -CCau--GCGGGCgUGUCGCCCGCucaac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 10697 | 0.66 | 0.544692 |
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Target: 5'- cGGUGgcCGCCgGUAUcaAGcCGGGCGAGc-- -3' miRNA: 3'- -CCAU--GCGGgCGUG--UC-GCCCGCUCaac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 17725 | 0.66 | 0.544692 |
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Target: 5'- cGGUGCGCCCcgGCcCGGCcGGGCcgccaGGGg-- -3' miRNA: 3'- -CCAUGCGGG--CGuGUCG-CCCG-----CUCaac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 39448 | 0.66 | 0.544692 |
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Target: 5'- cGGUaucGCGaaCCUGUACgAGCGGGCGcGGUg- -3' miRNA: 3'- -CCA---UGC--GGGCGUG-UCGCCCGC-UCAac -5' |
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| 12785 | 3' | -58.5 | NC_003387.1 | + | 504 | 0.66 | 0.555215 |
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Target: 5'- --cGCGCCCGCGUGGCGaccGCG-GUUGa -3' miRNA: 3'- ccaUGCGGGCGUGUCGCc--CGCuCAAC- -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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