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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 | |||||||
| 13317 | 3' | -49.2 | NC_003409.1 | + | 51068 | 0.66 | 0.998796 |
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Target: 5'- -cGCUCUCCGG-CGUauGCAG-GAGa -3' miRNA: 3'- guUGAGAGGCCuGCAcuUGUUaCUCc -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 115124 | 0.66 | 0.998796 |
|
Target: 5'- aGGCUCuccUCCGGGugcucCGgGAGCAggGAGGc -3' miRNA: 3'- gUUGAG---AGGCCU-----GCaCUUGUuaCUCC- -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 122274 | 0.67 | 0.99515 |
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Target: 5'- aCAGCUCcCCGucuACGUGGagaACAGUGAGc -3' miRNA: 3'- -GUUGAGaGGCc--UGCACU---UGUUACUCc -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 127228 | 0.68 | 0.990033 |
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Target: 5'- aCAGgUCUCCGGAaagaUGUGAccuugGCGAUGAc- -3' miRNA: 3'- -GUUgAGAGGCCU----GCACU-----UGUUACUcc -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 40609 | 0.69 | 0.987073 |
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Target: 5'- -uACgagUUCCGGACGUGAAggcuagucUAGUaGAGGg -3' miRNA: 3'- guUGa--GAGGCCUGCACUU--------GUUA-CUCC- -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 32705 | 0.69 | 0.980764 |
|
Target: 5'- aCAGC-CUCUGGAUGcacuUGAACGAuaagguggggcucuUGAGGg -3' miRNA: 3'- -GUUGaGAGGCCUGC----ACUUGUU--------------ACUCC- -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 126943 | 0.69 | 0.983477 |
|
Target: 5'- uGGCagC-CCGGAUGUGAACAcUGuGGg -3' miRNA: 3'- gUUGa-GaGGCCUGCACUUGUuACuCC- -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 82881 | 0.7 | 0.976732 |
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Target: 5'- -cAC-CUCCgGGACGUGgGAUggUGGGGc -3' miRNA: 3'- guUGaGAGG-CCUGCAC-UUGuuACUCC- -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 51706 | 0.7 | 0.976732 |
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Target: 5'- ---aUCUCUGGugGUG-GCuAUGGGGg -3' miRNA: 3'- guugAGAGGCCugCACuUGuUACUCC- -5' |
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| 13317 | 3' | -49.2 | NC_003409.1 | + | 67897 | 1.11 | 0.010594 |
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Target: 5'- cCAACUCUCCGGACGUGAACAAUGAGGc -3' miRNA: 3'- -GUUGAGAGGCCUGCACUUGUUACUCC- -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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