Results 1 - 20 of 39 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 | |||||||
22909 | 5' | -55.3 | NC_005137.2 | + | 18575 | 1.09 | 0.003449 |
Target: 5'- uCCAACGGCCGACUCCAACGCCGUACUu -3' miRNA: 3'- -GGUUGCCGGCUGAGGUUGCGGCAUGA- -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 27411 | 0.75 | 0.479689 |
Target: 5'- gUAGCGGCCG-CUgCAGCGCUGUAa- -3' miRNA: 3'- gGUUGCCGGCuGAgGUUGCGGCAUga -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 86670 | 0.73 | 0.598662 |
Target: 5'- cCCAACaGCCGACUUgAACGCaCGUcGCc -3' miRNA: 3'- -GGUUGcCGGCUGAGgUUGCG-GCA-UGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 57874 | 0.72 | 0.649899 |
Target: 5'- uCCuuuguACGGgaCGACUacgaCGACGCCGUACa -3' miRNA: 3'- -GGu----UGCCg-GCUGAg---GUUGCGGCAUGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 62548 | 0.71 | 0.707804 |
Target: 5'- gCAACGGUCGACgaaCCAcugccucaugggcuGCGCCG-ACUc -3' miRNA: 3'- gGUUGCCGGCUGa--GGU--------------UGCGGCaUGA- -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 95450 | 0.7 | 0.720778 |
Target: 5'- gCCGGCGGUgCGugUCUugacaAGCGCCGUGu- -3' miRNA: 3'- -GGUUGCCG-GCugAGG-----UUGCGGCAUga -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 46519 | 0.69 | 0.769293 |
Target: 5'- cCUcgUGGCCaGCUCCAACGCCaGUuauuuGCUg -3' miRNA: 3'- -GGuuGCCGGcUGAGGUUGCGG-CA-----UGA- -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 74723 | 0.69 | 0.787904 |
Target: 5'- uCCAGCGGCacuuCGcAgUCCAugGCCGUuuuguGCg -3' miRNA: 3'- -GGUUGCCG----GC-UgAGGUugCGGCA-----UGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 66819 | 0.68 | 0.823369 |
Target: 5'- gCCAAuguCGGCUgugauguacguGugUCCGGCGCCGUuaaACg -3' miRNA: 3'- -GGUU---GCCGG-----------CugAGGUUGCGGCA---UGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 20465 | 0.68 | 0.823369 |
Target: 5'- aCAuCGGCgGGCaccUCCAACGCC-UGCa -3' miRNA: 3'- gGUuGCCGgCUG---AGGUUGCGGcAUGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 49039 | 0.68 | 0.823369 |
Target: 5'- cCUAGCGaCCGGCaCCGACagguaGCCGUGCg -3' miRNA: 3'- -GGUUGCcGGCUGaGGUUG-----CGGCAUGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 103774 | 0.68 | 0.823369 |
Target: 5'- cCCAGCGGCCuuCUUugUAAUGCUGUugUu -3' miRNA: 3'- -GGUUGCCGGcuGAG--GUUGCGGCAugA- -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 59304 | 0.68 | 0.82677 |
Target: 5'- uCC-ACGGCCGACUCgguauuuuuacuuauUAGgGCCGgACUg -3' miRNA: 3'- -GGuUGCCGGCUGAG---------------GUUgCGGCaUGA- -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 103607 | 0.68 | 0.831819 |
Target: 5'- gCAGCGGCCGcuACUUUuggccgGACGgCGUGCg -3' miRNA: 3'- gGUUGCCGGC--UGAGG------UUGCgGCAUGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 7969 | 0.68 | 0.831819 |
Target: 5'- aCCGGCGGcCCGugUUCAugGaaaCCGUGu- -3' miRNA: 3'- -GGUUGCC-GGCugAGGUugC---GGCAUga -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 74498 | 0.68 | 0.840086 |
Target: 5'- --uGCGGCCaACg-UAACGCCGUACa -3' miRNA: 3'- gguUGCCGGcUGagGUUGCGGCAUGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 85083 | 0.68 | 0.848164 |
Target: 5'- cCCAAauCGGgCGAUuugCCAguaaacACGCCGUGCa -3' miRNA: 3'- -GGUU--GCCgGCUGa--GGU------UGCGGCAUGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 2436 | 0.68 | 0.856045 |
Target: 5'- gCggUGGCCGACgugCCcGCGCCcgACg -3' miRNA: 3'- gGuuGCCGGCUGa--GGuUGCGGcaUGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 75581 | 0.68 | 0.856045 |
Target: 5'- --cAUGGCgGACgcgggCGGCGCCGUGCg -3' miRNA: 3'- gguUGCCGgCUGag---GUUGCGGCAUGa -5' |
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22909 | 5' | -55.3 | NC_005137.2 | + | 84208 | 0.68 | 0.856045 |
Target: 5'- -aAACGGCCGugUugugguaaaugUCAGCGCCGcaUACc -3' miRNA: 3'- ggUUGCCGGCugA-----------GGUUGCGGC--AUGa -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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