Results 1 - 20 of 29 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 | |||||||
16365 | 5' | -58.5 | NC_004084.1 | + | 18832 | 0.66 | 0.607534 |
Target: 5'- aGGAGGACgGuG-GCGCGgcuuUCGUCGAc -3' miRNA: 3'- gCCUUCUGgCuCuCGCGC----GGCAGCUc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 29399 | 0.66 | 0.606476 |
Target: 5'- uCGGgcGGCCacuccuGGGGCGUcgcgguuGCCGUCGAc -3' miRNA: 3'- -GCCuuCUGGc-----UCUCGCG-------CGGCAGCUc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 52660 | 0.66 | 0.596961 |
Target: 5'- gCGGcGAGACgGAGAu--CGUCGUCGAGg -3' miRNA: 3'- -GCC-UUCUGgCUCUcgcGCGGCAGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 29540 | 0.66 | 0.596961 |
Target: 5'- cCGGu-GACgCGccGGAGCGUaagcagGCCGUUGAGg -3' miRNA: 3'- -GCCuuCUG-GC--UCUCGCG------CGGCAGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 7051 | 0.66 | 0.575904 |
Target: 5'- aGGGAGGCCagcaGAGgaacAGCGUGuacCCGUCGAc -3' miRNA: 3'- gCCUUCUGG----CUC----UCGCGC---GGCAGCUc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 3345 | 0.66 | 0.575904 |
Target: 5'- aCGGggGA---GGAGCGCGCCGg---- -3' miRNA: 3'- -GCCuuCUggcUCUCGCGCGGCagcuc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 31037 | 0.66 | 0.573807 |
Target: 5'- gCGGAAG-CUGcGAGCGaaucccgcgccaGCCGUCGGu -3' miRNA: 3'- -GCCUUCuGGCuCUCGCg-----------CGGCAGCUc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 51315 | 0.67 | 0.55398 |
Target: 5'- aCGGc-GACCGAggcgaucGAGUGCGCcCG-CGAGa -3' miRNA: 3'- -GCCuuCUGGCU-------CUCGCGCG-GCaGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 16139 | 0.67 | 0.534362 |
Target: 5'- aCGGguGACCGcGGuGGuCGCGCUGcUCGAGc -3' miRNA: 3'- -GCCuuCUGGC-UC-UC-GCGCGGC-AGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 32097 | 0.67 | 0.534362 |
Target: 5'- aCGGAuGGACgagcuCGAGcAGCuCGUCGUCGAGc -3' miRNA: 3'- -GCCU-UCUG-----GCUC-UCGcGCGGCAGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 30042 | 0.67 | 0.524134 |
Target: 5'- uCGcGggGGCCGcucGCGUcguugugccaGCCGUCGAGg -3' miRNA: 3'- -GC-CuuCUGGCucuCGCG----------CGGCAGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 6780 | 0.67 | 0.523116 |
Target: 5'- gCGGAAcGCCGAagacgucGGGgaucagcuccCGCGCCGUCGAc -3' miRNA: 3'- -GCCUUcUGGCU-------CUC----------GCGCGGCAGCUc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 33206 | 0.67 | 0.521081 |
Target: 5'- uGGGAG-CCGAagacagaggcggccGAGCGgGCCGUCc-- -3' miRNA: 3'- gCCUUCuGGCU--------------CUCGCgCGGCAGcuc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 27514 | 0.67 | 0.513983 |
Target: 5'- -cGAGGACCuccuccgggGAGAuCGCGCCGuugUCGAGa -3' miRNA: 3'- gcCUUCUGG---------CUCUcGCGCGGC---AGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 16719 | 0.67 | 0.503912 |
Target: 5'- -cGAAGACCGGGA-CGCGCuCGcCGGu -3' miRNA: 3'- gcCUUCUGGCUCUcGCGCG-GCaGCUc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 20404 | 0.68 | 0.474239 |
Target: 5'- uGGGAGA-CGAGAGUcCGCgCGUCGuGa -3' miRNA: 3'- gCCUUCUgGCUCUCGcGCG-GCAGCuC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 22205 | 0.68 | 0.474239 |
Target: 5'- uCGaGGAGACCgGAGAGguucccCGCcucGCCGUCGAa -3' miRNA: 3'- -GC-CUUCUGG-CUCUC------GCG---CGGCAGCUc -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 49059 | 0.68 | 0.474239 |
Target: 5'- uCGGAAGAUCGuGAccgucgacGUGCGaCgGUCGGGa -3' miRNA: 3'- -GCCUUCUGGCuCU--------CGCGC-GgCAGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 51157 | 0.68 | 0.47132 |
Target: 5'- aGGAGGcgaucgagacggucGCCGAGcaCGCGCCGaucgUCGAGg -3' miRNA: 3'- gCCUUC--------------UGGCUCucGCGCGGC----AGCUC- -5' |
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16365 | 5' | -58.5 | NC_004084.1 | + | 28912 | 0.7 | 0.382363 |
Target: 5'- gCGGGuguGcCCGAGAGCGaCGUCGgccUCGGGa -3' miRNA: 3'- -GCCUu--CuGGCUCUCGC-GCGGC---AGCUC- -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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