miRNA: 3'- uCGUCGG------UGUCGUUGUCGGUGuuuuc -5'
miRNA: 3'- uCGuCGGUGUCGUUGUCGgug---UUUUC- -5'
miRNA: 3'- -UCGUCGgUGUCGU--UGUCGGUGu---UUUC- -5'
miRNA: 3'- -UCGUCGg---UGUCGUUGUCGGUGUUuuc -5'
miRNA: 3'- -UCGUCGGUGUCGUUGUCGGUGUUUUC- -5'
Results 21 - 25 of 25 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 | |||||||
| 329 | 3' | -51.7 | AC_000010.1 | + | 16066 | 0.78 | 0.154867 |
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Target: 5'- cGCAGCCacugcaGCAGCAGCGGCCAUu---- -3' miRNA: 3'- uCGUCGG------UGUCGUUGUCGGUGuuuuc -5' |
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| 329 | 3' | -51.7 | AC_000010.1 | + | 18433 | 0.79 | 0.145895 |
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Target: 5'- cGCuGCCGCAGCAACAGCagaggaGAAAGg -3' miRNA: 3'- uCGuCGGUGUCGUUGUCGgug---UUUUC- -5' |
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| 329 | 3' | -51.7 | AC_000010.1 | + | 13993 | 0.81 | 0.107788 |
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Target: 5'- cGGCGGCgGCGGCGauGCAGCCACcacuGGAGg -3' miRNA: 3'- -UCGUCGgUGUCGU--UGUCGGUGu---UUUC- -5' |
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| 329 | 3' | -51.7 | AC_000010.1 | + | 3742 | 0.81 | 0.101379 |
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Target: 5'- cGGCAGCagaaGCGGCAGCAGCUGCAGc-- -3' miRNA: 3'- -UCGUCGg---UGUCGUUGUCGGUGUUuuc -5' |
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| 329 | 3' | -51.7 | AC_000010.1 | + | 10934 | 1.1 | 0.000801 |
|
Target: 5'- cAGCAGCCACAGCAACAGCCACAAAAGg -3' miRNA: 3'- -UCGUCGGUGUCGUUGUCGGUGUUUUC- -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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