miRNA: 3'- -CCCGCCGCUAa---Ga--GCUUCUaaGCUCG- -5'
miRNA: 3'- cCCGCCGCuaaGAGCUuCU-AAGCUCG- -5'
miRNA: 3'- -CCCGcCGCU--AAGAGCU----UCUAAGCUCG- -5'
miRNA: 3'- -CCCGCCGCUAAGAGCUUCUAAGCUCG- -5'
Results 21 - 24 of 24 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 | |||||||
| 26594 | 5' | -51.2 | NC_005357.1 | + | 35998 | 0.74 | 0.447725 |
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Target: 5'- cGGGCGGUGGUgucgCgagCGAGGA--CGAGUu -3' miRNA: 3'- -CCCGCCGCUAa---Ga--GCUUCUaaGCUCG- -5' |
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| 26594 | 5' | -51.2 | NC_005357.1 | + | 8914 | 0.78 | 0.273539 |
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Target: 5'- cGGCGGCGcg-CUCGAuGGcUUCGGGCg -3' miRNA: 3'- cCCGCCGCuaaGAGCUuCU-AAGCUCG- -5' |
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| 26594 | 5' | -51.2 | NC_005357.1 | + | 9929 | 0.81 | 0.187094 |
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Target: 5'- cGGGC-GCGGagUUCUCGGccuuGGAUUCGGGCg -3' miRNA: 3'- -CCCGcCGCU--AAGAGCU----UCUAAGCUCG- -5' |
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| 26594 | 5' | -51.2 | NC_005357.1 | + | 34046 | 1.16 | 0.00081 |
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Target: 5'- uGGGCGGCGAUUCUCGAAGAUUCGAGCg -3' miRNA: 3'- -CCCGCCGCUAAGAGCUUCUAAGCUCG- -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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