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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 | |||||||
| 29213 | 3' | -52.4 | NC_006150.1 | + | 102831 | 0.66 | 0.992901 |
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Target: 5'- aACGCau-GUCgGG--ACAGGUGCGg- -3' miRNA: 3'- -UGCGguuCAGgCUuuUGUCCACGCaa -5' |
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| 29213 | 3' | -52.4 | NC_006150.1 | + | 58865 | 0.66 | 0.990691 |
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Target: 5'- gGCGCacCAAGUCCGu---UAGGUGUGc- -3' miRNA: 3'- -UGCG--GUUCAGGCuuuuGUCCACGCaa -5' |
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| 29213 | 3' | -52.4 | NC_006150.1 | + | 34144 | 0.66 | 0.990691 |
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Target: 5'- -aGCCAGGUUCuGGAGguGGUGCa-- -3' miRNA: 3'- ugCGGUUCAGGcUUUUguCCACGcaa -5' |
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| 29213 | 3' | -52.4 | NC_006150.1 | + | 220882 | 0.66 | 0.987972 |
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Target: 5'- gGCGCCAgugAGUUgGAgGAGCAGGcagGCGg- -3' miRNA: 3'- -UGCGGU---UCAGgCU-UUUGUCCa--CGCaa -5' |
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| 29213 | 3' | -52.4 | NC_006150.1 | + | 2186 | 0.67 | 0.984495 |
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Target: 5'- cCGCCAGG-CCGAacgagcaGAACgAGGUGCu-- -3' miRNA: 3'- uGCGGUUCaGGCU-------UUUG-UCCACGcaa -5' |
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| 29213 | 3' | -52.4 | NC_006150.1 | + | 162297 | 0.67 | 0.978499 |
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Target: 5'- gGCGCCAAaucaaaauGUCCGAccuGGCAcGGUGCc-- -3' miRNA: 3'- -UGCGGUU--------CAGGCUu--UUGU-CCACGcaa -5' |
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| 29213 | 3' | -52.4 | NC_006150.1 | + | 10058 | 0.74 | 0.741745 |
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Target: 5'- cGCGCCAaaucAGUCCuaaAAAACuGGUGCGUg -3' miRNA: 3'- -UGCGGU----UCAGGc--UUUUGuCCACGCAa -5' |
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| 29213 | 3' | -52.4 | NC_006150.1 | + | 125494 | 1.05 | 0.01523 |
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Target: 5'- aACGCCAAGUCCGAAAACAGGUGCGUUu -3' miRNA: 3'- -UGCGGUUCAGGCUUUUGUCCACGCAA- -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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