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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 | |||||||
| 11353 | 3' | -54.8 | NC_003084.1 | + | 60460 | 0.66 | 0.857354 |
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Target: 5'- -aCguGGGCCUUGUUGCGGUCacggGCGUc -3' miRNA: 3'- aaGguUUCGGAGCGAUGCCAGg---UGUA- -5' |
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| 11353 | 3' | -54.8 | NC_003084.1 | + | 31832 | 0.66 | 0.857354 |
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Target: 5'- cUCCAAuucguGGcCCUCGCacuCGGgaUCCACAUa -3' miRNA: 3'- aAGGUU-----UC-GGAGCGau-GCC--AGGUGUA- -5' |
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| 11353 | 3' | -54.8 | NC_003084.1 | + | 42872 | 0.66 | 0.846563 |
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Target: 5'- gUCCGcGGGCCUUagcccggcugaaaaGCUGCGGUacCCGCGUu -3' miRNA: 3'- aAGGU-UUCGGAG--------------CGAUGCCA--GGUGUA- -5' |
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| 11353 | 3' | -54.8 | NC_003084.1 | + | 78283 | 0.67 | 0.775794 |
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Target: 5'- aUCCAGAGCC-CGCagugaGGUgCACAUu -3' miRNA: 3'- aAGGUUUCGGaGCGaug--CCAgGUGUA- -5' |
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| 11353 | 3' | -54.8 | NC_003084.1 | + | 6930 | 0.68 | 0.765882 |
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Target: 5'- -gCCGAGGCCcgCGCUgACGGUgCGCc- -3' miRNA: 3'- aaGGUUUCGGa-GCGA-UGCCAgGUGua -5' |
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| 11353 | 3' | -54.8 | NC_003084.1 | + | 58131 | 0.69 | 0.682726 |
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Target: 5'- gUgCAGAGCgugUUUGCUGCGGUUCACGg -3' miRNA: 3'- aAgGUUUCG---GAGCGAUGCCAGGUGUa -5' |
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| 11353 | 3' | -54.8 | NC_003084.1 | + | 99242 | 0.74 | 0.396231 |
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Target: 5'- aUCCAuAGCUagggCGCUuCGGUCCACAa -3' miRNA: 3'- aAGGUuUCGGa---GCGAuGCCAGGUGUa -5' |
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| 11353 | 3' | -54.8 | NC_003084.1 | + | 97775 | 1.03 | 0.005011 |
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Target: 5'- uUUCCAAAGCCUCGCUACGGUCCACAUc -3' miRNA: 3'- -AAGGUUUCGGAGCGAUGCCAGGUGUA- -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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