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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
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R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 12820 | 3' | -62.4 | NC_003387.1 | + | 43113 | 0.68 | 0.255443 |
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Target: 5'- cGAGCGCGacgGCGCGGCGccgCGGUggUGGGc -3' miRNA: 3'- -CUCGCGUg--CGCGCUGCa--GCCG--GCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 44020 | 0.67 | 0.281731 |
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Target: 5'- cGAGCG-GCuCGuCGACGUCGGUCGGc- -3' miRNA: 3'- -CUCGCgUGcGC-GCUGCAGCCGGCCua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 44381 | 0.68 | 0.242464 |
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Target: 5'- cAGCgGCACGUcggggucGuCGAgGUCGGCCGGGc -3' miRNA: 3'- cUCG-CGUGCG-------C-GCUgCAGCCGGCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 47794 | 0.67 | 0.281732 |
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Target: 5'- --uCGacaACGCGCGACGcCGcGCCGGGc -3' miRNA: 3'- cucGCg--UGCGCGCUGCaGC-CGGCCUa -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 48195 | 0.66 | 0.35669 |
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Target: 5'- aGGUGCcCGCaccgGCGGCGgCGGCCGaGGUg -3' miRNA: 3'- cUCGCGuGCG----CGCUGCaGCCGGC-CUA- -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 48600 | 0.66 | 0.340637 |
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Target: 5'- uGAaCGCA-GCGCGGUGUCGGCCGa-- -3' miRNA: 3'- -CUcGCGUgCGCGCUGCAGCCGGCcua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 49175 | 0.68 | 0.26182 |
|
Target: 5'- aGGCGguCGCGCaGGCGgCGGCCGu-- -3' miRNA: 3'- cUCGCguGCGCG-CUGCaGCCGGCcua -5' |
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| 12820 | 3' | -62.4 | NC_003387.1 | + | 50438 | 0.66 | 0.35669 |
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Target: 5'- cGGCGUACGCcagcgaggaCGACGUCGaGCCGa-- -3' miRNA: 3'- cUCGCGUGCGc--------GCUGCAGC-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 | + | 52387 | 0.66 | 0.35669 |
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Target: 5'- -cGCGCACGCGgaucuUGGCGUgCGugucGCCGGGc -3' miRNA: 3'- cuCGCGUGCGC-----GCUGCA-GC----CGGCCUa -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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