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| ID | Location | Perfect MFE.* | RefSeq Acc. |
strand
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Start Position | R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12820 | 3' | -62.4 | NC_003387.1 | + | 20809 | 0.7 | 0.198498 |
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Target: 5'- uGAGCcaccgcucggaGCAggggauacguCGCGCGACGUCGGCgaCGGGa -3' miRNA: 3'- -CUCG-----------CGU----------GCGCGCUGCAGCCG--GCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 17779 | 0.69 | 0.208925 |
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Target: 5'- cGAGCuuGCGCaGCGGCa-CGGCCGGGa -3' miRNA: 3'- -CUCGcgUGCG-CGCUGcaGCCGGCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 39081 | 0.69 | 0.214314 |
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Target: 5'- cGAGcCGC-CGC-CGACGgUGGCCGGGUu -3' miRNA: 3'- -CUC-GCGuGCGcGCUGCaGCCGGCCUA- -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 8284 | 0.69 | 0.219822 |
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Target: 5'- cAGCGCcuCGUGCG-CGUCGGCgGGc- -3' miRNA: 3'- cUCGCGu-GCGCGCuGCAGCCGgCCua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 22509 | 0.68 | 0.24307 |
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Target: 5'- cGGCgGCGCGCuCGACGUCGGCguacCGGc- -3' miRNA: 3'- cUCG-CGUGCGcGCUGCAGCCG----GCCua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 17518 | 0.68 | 0.249193 |
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Target: 5'- cGGCcaGCAUGCGCaGCGgcUCGGCCGGu- -3' miRNA: 3'- cUCG--CGUGCGCGcUGC--AGCCGGCCua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 20217 | 0.68 | 0.249193 |
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Target: 5'- -cGUGCACGCaGCGGCaGUCGucgcaccacggcGCCGGGg -3' miRNA: 3'- cuCGCGUGCG-CGCUG-CAGC------------CGGCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 52235 | 0.68 | 0.255443 |
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Target: 5'- cGGGCGCGCauCGCGACGagcagcUCGcGCCGGu- -3' miRNA: 3'- -CUCGCGUGc-GCGCUGC------AGC-CGGCCua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 30036 | 0.68 | 0.26182 |
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Target: 5'- aGGCGCACGUGCuACGaaacccgcUCGGCCGu-- -3' miRNA: 3'- cUCGCGUGCGCGcUGC--------AGCCGGCcua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 9729 | 0.66 | 0.364914 |
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Target: 5'- -cGCGUACGgGuCGGCGUCaaGGUCGGc- -3' miRNA: 3'- cuCGCGUGCgC-GCUGCAG--CCGGCCua -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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