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miRNA: 3'- -CGGCACUAGCGUCGUCUUUGUCACGG- -5'
miRNA: 3'- cGGCACUaGCGUCGucUUUgUCACGG- -5'
miRNA: 3'- -CGGCACUAGCGUC-GUCUu--------UGUcACGG- -5'
miRNA: 3'- -CGGCACuaGCGu--CguCU--UugUCACGG- -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#
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P value |
| Predicted miRNA align pattern | |||||||
| 13609 | 5' | -52 | NC_003460.1 | + | 1335 | 1.16 | 0.000023 |
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Target: 5'- aGCCGUGAUCGCAGCAGAAACAGUGCCa -3' miRNA: 3'- -CGGCACUAGCGUCGUCUUUGUCACGG- -5' |
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| 13609 | 5' | -52 | NC_003460.1 | + | 2275 | 0.72 | 0.079535 |
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Target: 5'- cCCGUGA-CGCGGU--GAAgGGUGCCg -3' miRNA: 3'- cGGCACUaGCGUCGucUUUgUCACGG- -5' |
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| 13609 | 5' | -52 | NC_003460.1 | + | 5524 | 0.72 | 0.091416 |
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Target: 5'- uGCCGUGAUCGUGGcCAGGuggcuguccGCGcUGCCc -3' miRNA: 3'- -CGGCACUAGCGUC-GUCUu--------UGUcACGG- -5' |
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| 13609 | 5' | -52 | NC_003460.1 | + | 1503 | 0.68 | 0.180084 |
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Target: 5'- cGCCGUGggUGCucuGguGGucGugGGUGUCg -3' miRNA: 3'- -CGGCACuaGCGu--CguCU--UugUCACGG- -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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