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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 | |||||||
| 28736 | 5' | -44.2 | NC_006146.1 | + | 64456 | 0.67 | 0.999979 |
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Target: 5'- cUUGGGUGGC----GCUGUCCUGc--- -3' miRNA: 3'- -AAUCCAUCGuauaCGAUAGGAUuaua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 18365 | 0.67 | 0.999989 |
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Target: 5'- --uGGUGGCA--UGCUcacccugGUCCUGGUGg -3' miRNA: 3'- aauCCAUCGUauACGA-------UAGGAUUAUa -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 7935 | 0.67 | 0.99999 |
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Target: 5'- aUUAGGaUAGUAUAUGCUAcCCg----- -3' miRNA: 3'- -AAUCC-AUCGUAUACGAUaGGauuaua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 162864 | 0.67 | 0.99999 |
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Target: 5'- uUGGaUAGCAUAUaCUAUCUUAAUAUu -3' miRNA: 3'- aAUCcAUCGUAUAcGAUAGGAUUAUA- -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 67459 | 0.66 | 0.999992 |
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Target: 5'- gUAGGUGcGCAUGUGCUccgcgaagccccgGUCCa----- -3' miRNA: 3'- aAUCCAU-CGUAUACGA-------------UAGGauuaua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 63244 | 0.66 | 0.999997 |
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Target: 5'- -cGGGgGGCAUGUGaacGUCCUGAg-- -3' miRNA: 3'- aaUCCaUCGUAUACga-UAGGAUUaua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 49279 | 0.66 | 0.999998 |
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Target: 5'- -gAGGUGGUcUAUGCUcUCCUcgaaggaggaGAUGUa -3' miRNA: 3'- aaUCCAUCGuAUACGAuAGGA----------UUAUA- -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 88271 | 0.66 | 0.999999 |
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Target: 5'- -aAGGaugGGUAUGUGCUggCCUggGAUAUg -3' miRNA: 3'- aaUCCa--UCGUAUACGAuaGGA--UUAUA- -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 112177 | 0.66 | 0.999999 |
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Target: 5'- --uGGUGGCAUuggugGUGCUGguggCCUGGg-- -3' miRNA: 3'- aauCCAUCGUA-----UACGAUa---GGAUUaua -5' |
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| 28736 | 5' | -44.2 | NC_006146.1 | + | 162214 | 0.66 | 0.999999 |
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Target: 5'- -cAGGUGGCucagauugGUGCgAUCCUGGa-- -3' miRNA: 3'- aaUCCAUCGua------UACGaUAGGAUUaua -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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