miRNA display CGI


Results 1 - 20 of 27 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
18424 3' -56.8 NC_004681.1 + 26446 1.12 0.000691
Target:  5'- cCCUUCGCGCCGCCAGAGUACGGCUACg -3'
miRNA:   3'- -GGAAGCGCGGCGGUCUCAUGCCGAUG- -5'
18424 3' -56.8 NC_004681.1 + 57807 0.66 0.730302
Target:  5'- ---cCGCGCCGCCgagguggcgaaGGAGcGgGGCUGg -3'
miRNA:   3'- ggaaGCGCGGCGG-----------UCUCaUgCCGAUg -5'
18424 3' -56.8 NC_004681.1 + 40564 0.66 0.730302
Target:  5'- aCCga-GCGUCGCC-GAGgcaaACGGCgACa -3'
miRNA:   3'- -GGaagCGCGGCGGuCUCa---UGCCGaUG- -5'
18424 3' -56.8 NC_004681.1 + 6577 0.66 0.709694
Target:  5'- aCCUgCGCGCCGUCAagggcgccauGGGccGCGGCa-- -3'
miRNA:   3'- -GGAaGCGCGGCGGU----------CUCa-UGCCGaug -5'
18424 3' -56.8 NC_004681.1 + 42821 0.67 0.667705
Target:  5'- aCCUUCucugGCGCCGCCAcGGUAaacgucagugUGGCg-- -3'
miRNA:   3'- -GGAAG----CGCGGCGGUcUCAU----------GCCGaug -5'
18424 3' -56.8 NC_004681.1 + 50946 0.67 0.657105
Target:  5'- ---aCGCGCUgGCCA-AGUuCGGCUACa -3'
miRNA:   3'- ggaaGCGCGG-CGGUcUCAuGCCGAUG- -5'
18424 3' -56.8 NC_004681.1 + 17210 0.67 0.645421
Target:  5'- aCUUCGgcaugaacaugaaCGCUGgCGGA-UACGGCUACg -3'
miRNA:   3'- gGAAGC-------------GCGGCgGUCUcAUGCCGAUG- -5'
18424 3' -56.8 NC_004681.1 + 14467 0.68 0.625214
Target:  5'- gCCgcgCGCGCCGCCuccgccGAGcaggGCGcGCUGg -3'
miRNA:   3'- -GGaa-GCGCGGCGGu-----CUCa---UGC-CGAUg -5'
18424 3' -56.8 NC_004681.1 + 7282 0.69 0.561804
Target:  5'- gCCgagUGCGCCGCCuGcg-ACGaGCUGCa -3'
miRNA:   3'- -GGaa-GCGCGGCGGuCucaUGC-CGAUG- -5'
18424 3' -56.8 NC_004681.1 + 59688 0.74 0.292173
Target:  5'- ----aGCGCCGCCacgcccccugcugGGAGUGCGGcCUGCc -3'
miRNA:   3'- ggaagCGCGGCGG-------------UCUCAUGCC-GAUG- -5'
18424 3' -56.8 NC_004681.1 + 51494 0.7 0.46093
Target:  5'- ---cCGCuGCCGCCAGcu--CGGCUACa -3'
miRNA:   3'- ggaaGCG-CGGCGGUCucauGCCGAUG- -5'
18424 3' -56.8 NC_004681.1 + 61747 0.7 0.46093
Target:  5'- cCCUcgCGCGCCaCCAGAccGCGGCcGCc -3'
miRNA:   3'- -GGAa-GCGCGGcGGUCUcaUGCCGaUG- -5'
18424 3' -56.8 NC_004681.1 + 60672 0.7 0.4804
Target:  5'- ---aCGCGCCGCUcGugauGGUGCGGuCUACg -3'
miRNA:   3'- ggaaGCGCGGCGGuC----UCAUGCC-GAUG- -5'
18424 3' -56.8 NC_004681.1 + 50010 0.7 0.507301
Target:  5'- uCCcgCGCGCCGUCuggccgcgcuacaaGGAGcgccuCGGCUACg -3'
miRNA:   3'- -GGaaGCGCGGCGG--------------UCUCau---GCCGAUG- -5'
18424 3' -56.8 NC_004681.1 + 9068 0.69 0.520481
Target:  5'- aCUgUCGCGUCGCUgaAGUAUGGCcGCg -3'
miRNA:   3'- gGA-AGCGCGGCGGucUCAUGCCGaUG- -5'
18424 3' -56.8 NC_004681.1 + 28921 0.66 0.749541
Target:  5'- gCCU--GCGCCuGCCAGucGGUAUaugacgaGGCUGCc -3'
miRNA:   3'- -GGAagCGCGG-CGGUC--UCAUG-------CCGAUG- -5'
18424 3' -56.8 NC_004681.1 + 75520 0.7 0.470614
Target:  5'- ---cUGCGCCGC--GAGUACGGCcGCg -3'
miRNA:   3'- ggaaGCGCGGCGguCUCAUGCCGaUG- -5'
18424 3' -56.8 NC_004681.1 + 3133 0.7 0.51033
Target:  5'- cCCUUgGCGCCGC--GGGUGCGGgcaUUGCc -3'
miRNA:   3'- -GGAAgCGCGGCGguCUCAUGCC---GAUG- -5'
18424 3' -56.8 NC_004681.1 + 17637 0.68 0.602906
Target:  5'- ----gGUGCCGCCAGGGaGCguggccugcauguGGCUGCu -3'
miRNA:   3'- ggaagCGCGGCGGUCUCaUG-------------CCGAUG- -5'
18424 3' -56.8 NC_004681.1 + 42918 0.68 0.615645
Target:  5'- aCCgUgGCGgCGCCAGAGaagguauucggcuucGCGGUUGCa -3'
miRNA:   3'- -GGaAgCGCgGCGGUCUCa--------------UGCCGAUG- -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.