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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
|
Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 14252 | 3' | -56.4 | NC_003521.1 | + | 193463 | 0.66 | 0.961592 |
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Target: 5'- uCCGGcuuCGUCUCGGGUUuuGUguUGGGg -3' miRNA: 3'- -GGCCu--GUAGAGCCCGAugCGucACCU- -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 7756 | 0.66 | 0.954507 |
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Target: 5'- gCCGGACugcugAUCaUUGuGGCUuCGCuAGUGGGa -3' miRNA: 3'- -GGCCUG-----UAG-AGC-CCGAuGCG-UCACCU- -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 193292 | 0.67 | 0.946587 |
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Target: 5'- aCGGGCGUCggagUCGGcGCggGgGUGGUGGGc -3' miRNA: 3'- gGCCUGUAG----AGCC-CGa-UgCGUCACCU- -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 135752 | 0.67 | 0.946587 |
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Target: 5'- cCCGGACGUUccCGGGaccgaAgGCGGUGGc -3' miRNA: 3'- -GGCCUGUAGa-GCCCga---UgCGUCACCu -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 200325 | 0.66 | 0.953753 |
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Target: 5'- gUCGGACGUguUUCGGGCcggcgggucguCGCGG-GGAc -3' miRNA: 3'- -GGCCUGUA--GAGCCCGau---------GCGUCaCCU- -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 239793 | 0.67 | 0.946587 |
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Target: 5'- gCCGGcCAUCU--GGCUGCGCGGcGuGAu -3' miRNA: 3'- -GGCCuGUAGAgcCCGAUGCGUCaC-CU- -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 123169 | 0.67 | 0.942306 |
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Target: 5'- gCCGGcgcacCGUCUCGcGGCgcaguCGCAGgcGGAa -3' miRNA: 3'- -GGCCu----GUAGAGC-CCGau---GCGUCa-CCU- -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 109449 | 0.67 | 0.937809 |
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Target: 5'- gUGGGCAcggUCUCGGGUauggGCGCGucugGGAa -3' miRNA: 3'- gGCCUGU---AGAGCCCGa---UGCGUca--CCU- -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 131102 | 0.67 | 0.933093 |
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Target: 5'- uCCGGACggCg-GGGCgGCGCGGcugccgGGAa -3' miRNA: 3'- -GGCCUGuaGagCCCGaUGCGUCa-----CCU- -5' |
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| 14252 | 3' | -56.4 | NC_003521.1 | + | 204863 | 0.71 | 0.759732 |
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Target: 5'- cCCGGA--UCUCGGGC-ACGCAGg--- -3' miRNA: 3'- -GGCCUguAGAGCCCGaUGCGUCaccu -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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