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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 | |||||||
| 23095 | 3' | -57 | NC_005178.1 | + | 37494 | 0.67 | 0.424461 |
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Target: 5'- aGCgCgaaugCAUCGAGCagcucggccgauuccUGCGGGAGG-GCAu -3' miRNA: 3'- cCG-Ga----GUAGCUCG---------------ACGCCCUCCuUGU- -5' |
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| 23095 | 3' | -57 | NC_005178.1 | + | 31056 | 0.67 | 0.461159 |
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Target: 5'- uGGCCaggCGUCGccgccgcuggguuuuGCUGCccuGGAGGAACGc -3' miRNA: 3'- -CCGGa--GUAGCu--------------CGACGc--CCUCCUUGU- -5' |
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| 23095 | 3' | -57 | NC_005178.1 | + | 24389 | 0.67 | 0.470338 |
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Target: 5'- uGCCUgGgCGuGCUGCGGGAaccgcucacGGAugAa -3' miRNA: 3'- cCGGAgUaGCuCGACGCCCU---------CCUugU- -5' |
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| 23095 | 3' | -57 | NC_005178.1 | + | 21240 | 0.68 | 0.38046 |
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Target: 5'- cGGCCgcaUCAUCGgcgucgaaccggacGGCgUGUGGGuGGAAUAa -3' miRNA: 3'- -CCGG---AGUAGC--------------UCG-ACGCCCuCCUUGU- -5' |
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| 23095 | 3' | -57 | NC_005178.1 | + | 18312 | 0.68 | 0.408194 |
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Target: 5'- uGGCCaaucgCAUCGAGCUggagcugguggaccGCGaGGuccAGGAGCGc -3' miRNA: 3'- -CCGGa----GUAGCUCGA--------------CGC-CC---UCCUUGU- -5' |
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| 23095 | 3' | -57 | NC_005178.1 | + | 14007 | 0.66 | 0.512195 |
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Target: 5'- aGCCUg--CGGGCUGCGGGccagcGGAGu- -3' miRNA: 3'- cCGGAguaGCUCGACGCCCu----CCUUgu -5' |
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| 23095 | 3' | -57 | NC_005178.1 | + | 8704 | 1.1 | 0.000344 |
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Target: 5'- uGGCCUCAUCGAGCUGCGGGAGGAACAc -3' miRNA: 3'- -CCGGAGUAGCUCGACGCCCUCCUUGU- -5' |
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| 23095 | 3' | -57 | NC_005178.1 | + | 8063 | 0.68 | 0.392323 |
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Target: 5'- cGGCCg---C-AGCccaGCGGGAGGAGCGu -3' miRNA: 3'- -CCGGaguaGcUCGa--CGCCCUCCUUGU- -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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