miRNA display CGI


Results 1 - 20 of 22 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
18551 3' -52.2 NC_004682.1 + 45936 0.66 0.867818
Target:  5'- aCGugGUGcCGCCcgaguagcgCGGGCUcaccgagcCCUUCACu -3'
miRNA:   3'- aGCugCAU-GCGGa--------GCUUGA--------GGAAGUG- -5'
18551 3' -52.2 NC_004682.1 + 45320 0.66 0.854421
Target:  5'- cUCGAUGUcgcggcggucgcacaGCGCgUUGAugUCCgggCGCu -3'
miRNA:   3'- -AGCUGCA---------------UGCGgAGCUugAGGaa-GUG- -5'
18551 3' -52.2 NC_004682.1 + 35446 0.66 0.850973
Target:  5'- gUCGACaggACGCCUgc--CUCCUUCAUc -3'
miRNA:   3'- -AGCUGca-UGCGGAgcuuGAGGAAGUG- -5'
18551 3' -52.2 NC_004682.1 + 45788 0.66 0.850973
Target:  5'- gUCGGCGUACGCgU--AGC-CCUUCGg -3'
miRNA:   3'- -AGCUGCAUGCGgAgcUUGaGGAAGUg -5'
18551 3' -52.2 NC_004682.1 + 32110 0.67 0.833173
Target:  5'- uUCGuCGaUGCGCUgcuggaGGGCUgCCUUCGCg -3'
miRNA:   3'- -AGCuGC-AUGCGGag----CUUGA-GGAAGUG- -5'
18551 3' -52.2 NC_004682.1 + 28298 0.67 0.833173
Target:  5'- -gGGCGUugGCCUCGGcauggACUgCcaCGCa -3'
miRNA:   3'- agCUGCAugCGGAGCU-----UGAgGaaGUG- -5'
18551 3' -52.2 NC_004682.1 + 17544 0.67 0.813535
Target:  5'- cUCGGCucacuggGUACGgCUCuGGCUCCUaucgUCACg -3'
miRNA:   3'- -AGCUG-------CAUGCgGAGcUUGAGGA----AGUG- -5'
18551 3' -52.2 NC_004682.1 + 25885 0.68 0.784999
Target:  5'- gUCGGCGUugGUCUUGucgguCUCCUg--- -3'
miRNA:   3'- -AGCUGCAugCGGAGCuu---GAGGAagug -5'
18551 3' -52.2 NC_004682.1 + 34235 0.69 0.721869
Target:  5'- gUUGACGUucGCGUCUCGGAUcgCCaUCAUc -3'
miRNA:   3'- -AGCUGCA--UGCGGAGCUUGa-GGaAGUG- -5'
18551 3' -52.2 NC_004682.1 + 15341 0.69 0.699952
Target:  5'- gCGACG-ACGCCgUCGuGCUCCgcaACg -3'
miRNA:   3'- aGCUGCaUGCGG-AGCuUGAGGaagUG- -5'
18551 3' -52.2 NC_004682.1 + 19765 0.7 0.644162
Target:  5'- cCGugGUuggGCGCUcCGAACUCCccCGCg -3'
miRNA:   3'- aGCugCA---UGCGGaGCUUGAGGaaGUG- -5'
18551 3' -52.2 NC_004682.1 + 32763 0.7 0.637421
Target:  5'- uUCGuCGUACGCCUCggcgcuggcgugcugGAucucuucgagaaGCUCCUUgGCg -3'
miRNA:   3'- -AGCuGCAUGCGGAG---------------CU------------UGAGGAAgUG- -5'
18551 3' -52.2 NC_004682.1 + 26183 0.7 0.632925
Target:  5'- gUUGGCGUaguucccggcACGCCUCGAcaUCCUggCACc -3'
miRNA:   3'- -AGCUGCA----------UGCGGAGCUugAGGAa-GUG- -5'
18551 3' -52.2 NC_004682.1 + 24622 0.7 0.621687
Target:  5'- cCGGCGaACGCCaCGGGCUCCggUGCc -3'
miRNA:   3'- aGCUGCaUGCGGaGCUUGAGGaaGUG- -5'
18551 3' -52.2 NC_004682.1 + 31394 0.71 0.603731
Target:  5'- gCGACGUugGCgUCGAuguagugcuugaccaACUCCUcCAg -3'
miRNA:   3'- aGCUGCAugCGgAGCU---------------UGAGGAaGUg -5'
18551 3' -52.2 NC_004682.1 + 36475 0.71 0.588071
Target:  5'- gUCcGCGUACGCCUCG--UUCCggccUCGCa -3'
miRNA:   3'- -AGcUGCAUGCGGAGCuuGAGGa---AGUG- -5'
18551 3' -52.2 NC_004682.1 + 17839 0.72 0.543826
Target:  5'- cUCGACGUGgGCCaugaGAGCgUCCUggagCACg -3'
miRNA:   3'- -AGCUGCAUgCGGag--CUUG-AGGAa---GUG- -5'
18551 3' -52.2 NC_004682.1 + 39686 0.72 0.532925
Target:  5'- cUCGACGUacucccggcugaACGUCUCGAccuucgGCUCCUggccuugguccgUCGCg -3'
miRNA:   3'- -AGCUGCA------------UGCGGAGCU------UGAGGA------------AGUG- -5'
18551 3' -52.2 NC_004682.1 + 16367 0.72 0.522103
Target:  5'- gUCGACuGgcCGUCUCGAACuUCCggCGCg -3'
miRNA:   3'- -AGCUG-CauGCGGAGCUUG-AGGaaGUG- -5'
18551 3' -52.2 NC_004682.1 + 37004 0.73 0.490179
Target:  5'- ----gGUugGCCUCGGccuuccggccucGCUCCUUCGCc -3'
miRNA:   3'- agcugCAugCGGAGCU------------UGAGGAAGUG- -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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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.