miRNA: 3'- -AAAGGCUUGU------------CCCCG-------------AgCGGCCCUGc -5'
miRNA: 3'- -AAAGGCUUGUCC-------CCG--AGCGGCC-CUGC- -5'
miRNA: 3'- -AAAGGCUUGUC-------------CCCGAgCGGCCCUGc -5'
miRNA: 3'- -AAAGGCUUGUCCCCGAGCGGCCCUGC- -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 | |||||||
| 19517 | 3' | -59.7 | NC_004685.1 | + | 1116 | 0.71 | 0.289462 |
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Target: 5'- gUUUCCGAACAccccgacgcaucGGGGCgcccgcaucggacUgGCCGGGGCc -3' miRNA: 3'- -AAAGGCUUGU------------CCCCG-------------AgCGGCCCUGc -5' |
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| 19517 | 3' | -59.7 | NC_004685.1 | + | 53669 | 0.76 | 0.138218 |
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Target: 5'- gUUUCCGAACAGGucuuacaGGCagUCGCCGGaGAUGa -3' miRNA: 3'- -AAAGGCUUGUCC-------CCG--AGCGGCC-CUGC- -5' |
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| 19517 | 3' | -59.7 | NC_004685.1 | + | 50302 | 0.76 | 0.12421 |
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Target: 5'- gUUUCCGAACAGucaguucaucagcGGGCU-GCCGGGGCc -3' miRNA: 3'- -AAAGGCUUGUC-------------CCCGAgCGGCCCUGc -5' |
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| 19517 | 3' | -59.7 | NC_004685.1 | + | 54225 | 1.07 | 0.000719 |
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Target: 5'- gUUUCCGAACAGGGGCUCGCCGGGACGg -3' miRNA: 3'- -AAAGGCUUGUCCCCGAGCGGCCCUGC- -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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