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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 | |||||||
| 9470 | 3' | -44.1 | NC_002531.1 | + | 25635 | 0.66 | 0.999998 |
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Target: 5'- cCUGCagucuaacCACCGGCAUGGGUGu- -3' miRNA: 3'- cGAUGaaaua---GUGGUUGUAUCCACug -5' |
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| 9470 | 3' | -44.1 | NC_002531.1 | + | 25125 | 0.66 | 0.999996 |
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Target: 5'- aGUUACUg-GUCugCuGCAU-GGUGGCu -3' miRNA: 3'- -CGAUGAaaUAGugGuUGUAuCCACUG- -5' |
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| 9470 | 3' | -44.1 | NC_002531.1 | + | 17632 | 0.67 | 0.999991 |
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Target: 5'- -aUGCUUUAg-ACCAAaa-GGGUGACa -3' miRNA: 3'- cgAUGAAAUagUGGUUguaUCCACUG- -5' |
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| 9470 | 3' | -44.1 | NC_002531.1 | + | 18541 | 0.67 | 0.999987 |
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Target: 5'- -gUACUUuuacaaaaacUAUCGCCAcgugaagaccauGCcaGUGGGUGACg -3' miRNA: 3'- cgAUGAA----------AUAGUGGU------------UG--UAUCCACUG- -5' |
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| 9470 | 3' | -44.1 | NC_002531.1 | + | 96224 | 0.73 | 0.991474 |
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Target: 5'- cCUACUcgccUCACCGACGUAGGccacGACg -3' miRNA: 3'- cGAUGAaau-AGUGGUUGUAUCCa---CUG- -5' |
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| 9470 | 3' | -44.1 | NC_002531.1 | + | 12346 | 0.83 | 0.729397 |
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Target: 5'- aGCUACU--AUCugCAGCAUGGGcUGGCu -3' miRNA: 3'- -CGAUGAaaUAGugGUUGUAUCC-ACUG- -5' |
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| 9470 | 3' | -44.1 | NC_002531.1 | + | 17442 | 1.16 | 0.014471 |
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Target: 5'- cGCUACUUUAUCACCAACAUAGGUGACa -3' miRNA: 3'- -CGAUGAAAUAGUGGUUGUAUCCACUG- -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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