miRNA: 3'- -UAUCAaaaGGUCCUCUAa------AGGGCCaa -5'
miRNA: 3'- uaUCAAAAGGUCC---UCUAaagGGCCAa -5'
miRNA: 3'- -UAUCAaaaGGUCCUCUAa------AGGGCCaa -5'
miRNA: 3'- -UAUCAAAAGGUCCUCUAAAGGGCCAA- -5'
miRNA: 3'- -UAUCAAAAGGUCCUCUAAAGGGCCAA- -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 | |||||||
| 8689 | 3' | -48.8 | NC_002229.2 | + | 46233 | 0.67 | 0.996169 |
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Target: 5'- uGUGGUc--CCGGGAGAUcuacaucUCCCGGg- -3' miRNA: 3'- -UAUCAaaaGGUCCUCUAa------AGGGCCaa -5' |
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| 8689 | 3' | -48.8 | NC_002229.2 | + | 112033 | 0.68 | 0.991763 |
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Target: 5'- -cAGUUUUCCGGGuuuGGAUccaCCGGUa -3' miRNA: 3'- uaUCAAAAGGUCC---UCUAaagGGCCAa -5' |
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| 8689 | 3' | -48.8 | NC_002229.2 | + | 46441 | 0.69 | 0.982016 |
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Target: 5'- uGUGGUc--CCGGGAGAUguagaucUCCCGGg- -3' miRNA: 3'- -UAUCAaaaGGUCCUCUAa------AGGGCCaa -5' |
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| 8689 | 3' | -48.8 | NC_002229.2 | + | 172825 | 1.03 | 0.02996 |
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Target: 5'- aAUAGUUUUCCAGGAGAUUUCCCGGUUu -3' miRNA: 3'- -UAUCAAAAGGUCCUCUAAAGGGCCAA- -5' |
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| 8689 | 3' | -48.8 | NC_002229.2 | + | 139789 | 1.03 | 0.02996 |
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Target: 5'- aAUAGUUUUCCAGGAGAUUUCCCGGUUu -3' miRNA: 3'- -UAUCAAAAGGUCCUCUAAAGGGCCAA- -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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