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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 | |||||||
| 30818 | 3' | -55.6 | NC_006552.1 | + | 31240 | 0.66 | 0.770109 |
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Target: 5'- cCCAGGUgacgaugaugucgCCgccguugggGGUGAUCGGCaggccgguaGCCGUGu -3' miRNA: 3'- -GGUCCA-------------GGa--------CCACUAGCUG---------CGGCAUg -5' |
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| 30818 | 3' | -55.6 | NC_006552.1 | + | 56980 | 0.66 | 0.751111 |
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Target: 5'- aCAGGgCgUGGUGAUCGAgaaccgcgaCGCUcugGUGCu -3' miRNA: 3'- gGUCCaGgACCACUAGCU---------GCGG---CAUG- -5' |
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| 30818 | 3' | -55.6 | NC_006552.1 | + | 13535 | 0.66 | 0.74094 |
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Target: 5'- --cGGUCUUGGUGAUCGcCaCCGg-- -3' miRNA: 3'- gguCCAGGACCACUAGCuGcGGCaug -5' |
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| 30818 | 3' | -55.6 | NC_006552.1 | + | 61470 | 0.66 | 0.738893 |
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Target: 5'- gCCGGGaaaccgaucuacCCUGGccGGUCGACuaCGUGCg -3' miRNA: 3'- -GGUCCa-----------GGACCa-CUAGCUGcgGCAUG- -5' |
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| 30818 | 3' | -55.6 | NC_006552.1 | + | 54563 | 0.68 | 0.635211 |
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Target: 5'- -aAGG-CCUGGUGAUCGugGacaCCGccacgGCg -3' miRNA: 3'- ggUCCaGGACCACUAGCugC---GGCa----UG- -5' |
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| 30818 | 3' | -55.6 | NC_006552.1 | + | 42706 | 0.69 | 0.581614 |
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Target: 5'- aUAGG-CCUGGgcgGAUCGAacUGCgGUGCc -3' miRNA: 3'- gGUCCaGGACCa--CUAGCU--GCGgCAUG- -5' |
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| 30818 | 3' | -55.6 | NC_006552.1 | + | 53503 | 0.7 | 0.526931 |
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Target: 5'- aCCGGGgaggaCCUGGUGGaggcucaccgcgCGAUGCCGgACg -3' miRNA: 3'- -GGUCCa----GGACCACUa-----------GCUGCGGCaUG- -5' |
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| 30818 | 3' | -55.6 | NC_006552.1 | + | 3571 | 0.7 | 0.508434 |
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Target: 5'- gCCAGGUgCUGGccGAgccgcCGGCGCCG-GCa -3' miRNA: 3'- -GGUCCAgGACCa-CUa----GCUGCGGCaUG- -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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