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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 | |||||||
| 30500 | 5' | -48.3 | NC_006548.1 | + | 37729 | 0.66 | 0.944865 |
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Target: 5'- cGGCGACCGGc--GUC-UACUCGCu- -3' miRNA: 3'- cCUGUUGGCUuuaCAGcAUGAGCGua -5' |
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| 30500 | 5' | -48.3 | NC_006548.1 | + | 20900 | 0.66 | 0.933935 |
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Target: 5'- cGGCGGCCGAGGUGcugCGcaGCUUGCu- -3' miRNA: 3'- cCUGUUGGCUUUACa--GCa-UGAGCGua -5' |
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| 30500 | 5' | -48.3 | NC_006548.1 | + | 17245 | 0.66 | 0.933935 |
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Target: 5'- cGGGCcgGGCCGAg--GUUGaacgACUCGCAg -3' miRNA: 3'- -CCUG--UUGGCUuuaCAGCa---UGAGCGUa -5' |
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| 30500 | 5' | -48.3 | NC_006548.1 | + | 25001 | 0.67 | 0.927991 |
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Target: 5'- cGugAGCUGGAAguUGcCGUACUCGUc- -3' miRNA: 3'- cCugUUGGCUUU--ACaGCAUGAGCGua -5' |
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| 30500 | 5' | -48.3 | NC_006548.1 | + | 25260 | 0.67 | 0.921726 |
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Target: 5'- aGGaACGGCUGAA---UCGUgGCUCGCAg -3' miRNA: 3'- -CC-UGUUGGCUUuacAGCA-UGAGCGUa -5' |
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| 30500 | 5' | -48.3 | NC_006548.1 | + | 17152 | 0.67 | 0.921726 |
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Target: 5'- aGACGGCCGggGgugcccUGg-GUACUCGCc- -3' miRNA: 3'- cCUGUUGGCuuU------ACagCAUGAGCGua -5' |
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| 30500 | 5' | -48.3 | NC_006548.1 | + | 29333 | 0.67 | 0.915141 |
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Target: 5'- cGGcCAGCCGGGuauUGUCGagcUGCUgGCGg -3' miRNA: 3'- -CCuGUUGGCUUu--ACAGC---AUGAgCGUa -5' |
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| 30500 | 5' | -48.3 | NC_006548.1 | + | 6134 | 1.08 | 0.004042 |
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Target: 5'- gGGACAACCGAAAUGUCGUACUCGCAUc -3' miRNA: 3'- -CCUGUUGGCUUUACAGCAUGAGCGUA- -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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