miRNA: 3'- -UguGGAuGCUCACCUUGaaGGCGUUc -5'
miRNA: 3'- uGUGGA--UGCUCACCUUga---AGGCGUUc -5'
miRNA: 3'- -UGUGGAUGcUCACCUUg--AAGGC-GUUc -5'
miRNA: 3'- -UGUGGAUGCUCAc---CUUGaaGGCgUuc -5'
miRNA: 3'- -UGUGGAUGCUCACCUUGAAGGCGUUC- -5'
Results 1 - 5 of 5 are showing below:
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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 | |||||||
| 11895 | 3' | -51.3 | NC_003266.2 | + | 5614 | 0.67 | 0.77336 |
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Target: 5'- cGguCCU-CGAGUGGGACg-CCGCGGu -3' miRNA: 3'- -UguGGAuGCUCACCUUGaaGGCGUUc -5' |
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| 11895 | 3' | -51.3 | NC_003266.2 | + | 29572 | 0.67 | 0.76258 |
|
Target: 5'- uCACCUuaAUGGGUGGAAagauaUCUGCAAu -3' miRNA: 3'- uGUGGA--UGCUCACCUUga---AGGCGUUc -5' |
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| 11895 | 3' | -51.3 | NC_003266.2 | + | 18620 | 0.67 | 0.740581 |
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Target: 5'- aACACCUGCcAGUGGAAggaUUCUGaCAGc -3' miRNA: 3'- -UGUGGAUGcUCACCUUg--AAGGC-GUUc -5' |
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| 11895 | 3' | -51.3 | NC_003266.2 | + | 19675 | 0.68 | 0.695207 |
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Target: 5'- aACACCUACGAGUacauGAACggCCGgGu- -3' miRNA: 3'- -UGUGGAUGCUCAc---CUUGaaGGCgUuc -5' |
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| 11895 | 3' | -51.3 | NC_003266.2 | + | 19915 | 1.1 | 0.001314 |
|
Target: 5'- uACACCUACGAGUGGAACUUCCGCAAGg -3' miRNA: 3'- -UGUGGAUGCUCACCUUGAAGGCGUUC- -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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