miRNA: 3'- cuaGCC-----UGGUUAGA-------UCGCCGU--UGCCG- -5'
miRNA: 3'- cuaGCCUGGUuag---AUCGCCGU---UGCCG- -5'
miRNA: 3'- cuAGCCUGGuuAGAUCgCCGUUGCCG- -5'
miRNA: 3'- cUAGCCugGUUAGA--UCGCCGuUGCCG- -5'
miRNA: 3'- -CUAGCCUGGUUAGAUCGCCGUUGCCG- -5'
Results 41 - 45 of 45 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 | |||||||
| 13126 | 3' | -53.1 | NC_003401.1 | + | 119780 | 0.74 | 0.611809 |
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Target: 5'- --aCGGccuccGCCAAUCUggccggaGGCGGCGcaGCGGCa -3' miRNA: 3'- cuaGCC-----UGGUUAGA-------UCGCCGU--UGCCG- -5' |
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| 13126 | 3' | -53.1 | NC_003401.1 | + | 10666 | 0.76 | 0.529902 |
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Target: 5'- --aCGGACCAccaccgUGGCGGCAaccGCGGCa -3' miRNA: 3'- cuaGCCUGGUuag---AUCGCCGU---UGCCG- -5' |
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| 13126 | 3' | -53.1 | NC_003401.1 | + | 80175 | 0.77 | 0.460876 |
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Target: 5'- -cUCGGGCC--UCUGG-GGUAGCGGCa -3' miRNA: 3'- cuAGCCUGGuuAGAUCgCCGUUGCCG- -5' |
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| 13126 | 3' | -53.1 | NC_003401.1 | + | 112858 | 0.82 | 0.248229 |
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Target: 5'- cGUCGGugCAGUCUagGGUGGCcACGGCc -3' miRNA: 3'- cUAGCCugGUUAGA--UCGCCGuUGCCG- -5' |
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| 13126 | 3' | -53.1 | NC_003401.1 | + | 48609 | 1.11 | 0.003575 |
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Target: 5'- gGAUCGGACCAAUCUAGCGGCAACGGCc -3' miRNA: 3'- -CUAGCCUGGUUAGAUCGCCGUUGCCG- -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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