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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 | |||||||
| 21893 | 3' | -57.5 | NC_004902.1 | + | 20055 | 0.66 | 0.523773 |
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Target: 5'- uUCCUGCGcacccgugGCAcuuGGUACguaGGCCAGUa -3' miRNA: 3'- cGGGACGU--------UGU---CCAUGag-CCGGUCGa -5' |
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| 21893 | 3' | -57.5 | NC_004902.1 | + | 16276 | 0.66 | 0.492104 |
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Target: 5'- uGCCaagcaUGCAGCAGagauggcacGUuaccauCUCGGCCAGUc -3' miRNA: 3'- -CGGg----ACGUUGUC---------CAu-----GAGCCGGUCGa -5' |
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| 21893 | 3' | -57.5 | NC_004902.1 | + | 34330 | 0.66 | 0.481742 |
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Target: 5'- gGCCCUGCAcCGGGcACUUGGUgGa-- -3' miRNA: 3'- -CGGGACGUuGUCCaUGAGCCGgUcga -5' |
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| 21893 | 3' | -57.5 | NC_004902.1 | + | 11275 | 0.66 | 0.471489 |
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Target: 5'- cGCCUgucGCGGCAa--GCUgGGCCAGCa -3' miRNA: 3'- -CGGGa--CGUUGUccaUGAgCCGGUCGa -5' |
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| 21893 | 3' | -57.5 | NC_004902.1 | + | 40733 | 0.68 | 0.412458 |
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Target: 5'- gGCCCUGCAACAcuGGcACa-GGCUgaGGCUc -3' miRNA: 3'- -CGGGACGUUGU--CCaUGagCCGG--UCGA- -5' |
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| 21893 | 3' | -57.5 | NC_004902.1 | + | 36598 | 0.75 | 0.133631 |
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Target: 5'- uGCCCuUGCAACAGGUACggguucugCggcguaugcccaugGGCCGGCa -3' miRNA: 3'- -CGGG-ACGUUGUCCAUGa-------G--------------CCGGUCGa -5' |
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| 21893 | 3' | -57.5 | NC_004902.1 | + | 33396 | 1.1 | 0.000351 |
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Target: 5'- uGCCCUGCAACAGGUACUCGGCCAGCUg -3' miRNA: 3'- -CGGGACGUUGUCCAUGAGCCGGUCGA- -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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