Results 1 - 20 of 24 are showing below:
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ID | Location | Perfect MFE.* | RefSeq Acc. | strand | Start Position | R_P_ratio# | P value |
Predicted miRNA align pattern | |||||||
28104 | 3' | -56 | NC_005887.1 | + | 40730 | 0.66 | 0.652657 |
Target: 5'- cUUCGAGGuCGcCGCccGCGUCGAGGc -3' miRNA: 3'- cGAGCUCCuGCcGUGcuCGCAGCUUC- -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 13196 | 0.66 | 0.597539 |
Target: 5'- --aCGAGGccCGGCACGcucgaGGUGUCGAc- -3' miRNA: 3'- cgaGCUCCu-GCCGUGC-----UCGCAGCUuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 5338 | 0.66 | 0.652657 |
Target: 5'- uGCUCGGGcGACugcguuucaGGUGCGAGCGacaugUCGGu- -3' miRNA: 3'- -CGAGCUC-CUG---------CCGUGCUCGC-----AGCUuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 10734 | 0.66 | 0.657063 |
Target: 5'- uGUUCGAuggcgacauggaaucGGACuGGCGCG-GCGgguaCGAGGg -3' miRNA: 3'- -CGAGCU---------------CCUG-CCGUGCuCGCa---GCUUC- -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 4900 | 0.66 | 0.597539 |
Target: 5'- cGC-CGAGGGcCGGCGCGAGgUGuUCGu-- -3' miRNA: 3'- -CGaGCUCCU-GCCGUGCUC-GC-AGCuuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 24745 | 0.67 | 0.543143 |
Target: 5'- cGgUCGAGGaugccggccGCGGCugGAcaaUGUCGAAGc -3' miRNA: 3'- -CgAGCUCC---------UGCCGugCUc--GCAGCUUC- -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 19181 | 0.67 | 0.564745 |
Target: 5'- --cCGuGaGCGGCGCGGGCGUgGAGa -3' miRNA: 3'- cgaGCuCcUGCCGUGCUCGCAgCUUc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 40430 | 0.67 | 0.553913 |
Target: 5'- cGCgcgCGAcGGCGGCACGGccGCGcUCGAc- -3' miRNA: 3'- -CGa--GCUcCUGCCGUGCU--CGC-AGCUuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 14523 | 0.68 | 0.490472 |
Target: 5'- cGCUUGcAGGcGCGGCcgucgGCGGcGCGUCGAu- -3' miRNA: 3'- -CGAGC-UCC-UGCCG-----UGCU-CGCAGCUuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 35473 | 0.68 | 0.521819 |
Target: 5'- aCUCGuGGGCGaaggccguGCGCGGGCGcaUCGAGc -3' miRNA: 3'- cGAGCuCCUGC--------CGUGCUCGC--AGCUUc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 13382 | 0.68 | 0.532443 |
Target: 5'- cGCUCGcgcugaAGGcCGGCGCGgcGGaCGUCGgcGg -3' miRNA: 3'- -CGAGC------UCCuGCCGUGC--UC-GCAGCuuC- -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 5822 | 0.69 | 0.450105 |
Target: 5'- -aUCGAGu-CGGCGCGGGuCG-CGAAGg -3' miRNA: 3'- cgAGCUCcuGCCGUGCUC-GCaGCUUC- -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 2518 | 0.69 | 0.460029 |
Target: 5'- cCUCGucGACGGCGcCGuAGCGcgCGAGGu -3' miRNA: 3'- cGAGCucCUGCCGU-GC-UCGCa-GCUUC- -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 27512 | 0.69 | 0.4403 |
Target: 5'- cGCUCGAacguguGGGcCGGCAUGGGCcUCGGc- -3' miRNA: 3'- -CGAGCU------CCU-GCCGUGCUCGcAGCUuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 14092 | 0.69 | 0.430618 |
Target: 5'- gGCUgCGccGGCGGCGCGccGGCGguugCGGAGg -3' miRNA: 3'- -CGA-GCucCUGCCGUGC--UCGCa---GCUUC- -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 41924 | 0.7 | 0.402339 |
Target: 5'- cGCUCGA--ACGGCACGAGCaUCa--- -3' miRNA: 3'- -CGAGCUccUGCCGUGCUCGcAGcuuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 21684 | 0.7 | 0.421062 |
Target: 5'- -gUCGGGGgcagcugcaaACGGUGCGAGCGUCu--- -3' miRNA: 3'- cgAGCUCC----------UGCCGUGCUCGCAGcuuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 494 | 0.7 | 0.392269 |
Target: 5'- gGUUCGAgcgcagcaacagcGGGCGGCGCGGcGCGUCu--- -3' miRNA: 3'- -CGAGCU-------------CCUGCCGUGCU-CGCAGcuuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 24035 | 0.7 | 0.421062 |
Target: 5'- cGCUCGAGcaGugGGC-CGAGguCGUCGGu- -3' miRNA: 3'- -CGAGCUC--CugCCGuGCUC--GCAGCUuc -5' |
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28104 | 3' | -56 | NC_005887.1 | + | 35637 | 0.71 | 0.332961 |
Target: 5'- cGCUCGGGcugaGCGGUGCGAGC-UCGAc- -3' miRNA: 3'- -CGAGCUCc---UGCCGUGCUCGcAGCUuc -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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