miRNA: 3'- cucuaACUCGaGGUGCa------CGG-CCCGCU- -5'
miRNA: 3'- cUCUAA---CUCGAGGUGCA--------------CGGcCCGCu -5'
miRNA: 3'- cUCUAACUCGAG-GUGCACGGC-------CCGCu -5'
miRNA: 3'- -CUCUAACUCGAGGUGCACGGCCCGCU- -5'
Results 1 - 4 of 4 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 | |||||||
| 182 | 5' | -57.3 | AC_000007.1 | + | 4603 | 0.67 | 0.404865 |
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Target: 5'- ----aUGGGC-CCACGggcggcgGCCuGGGCGAa -3' miRNA: 3'- cucuaACUCGaGGUGCa------CGG-CCCGCU- -5' |
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| 182 | 5' | -57.3 | AC_000007.1 | + | 25275 | 0.67 | 0.402036 |
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Target: 5'- cAGGUUgcaGAGCUCCACGUuggaaauuuugcagGCCuGGCGc -3' miRNA: 3'- cUCUAA---CUCGAGGUGCA--------------CGGcCCGCu -5' |
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| 182 | 5' | -57.3 | AC_000007.1 | + | 24577 | 0.74 | 0.133359 |
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Target: 5'- cGGGUUGGGCUCgCAUGUGCCGuuuucuuGGCGu -3' miRNA: 3'- cUCUAACUCGAG-GUGCACGGC-------CCGCu -5' |
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| 182 | 5' | -57.3 | AC_000007.1 | + | 9046 | 1.09 | 0.000336 |
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Target: 5'- cGAGAUUGAGCUCCACGUGCCGGGCGAa -3' miRNA: 3'- -CUCUAACUCGAGGUGCACGGCCCGCU- -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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