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 + 28921 0.66 0.749541
Target:  5'- gCCU--GCGCCuGCCAGucGGUAUaugacgaGGCUGCc -3'
miRNA:   3'- -GGAagCGCGG-CGGUC--UCAUG-------CCGAUG- -5'
18424 3' -56.8 NC_004681.1 + 6787 0.66 0.730302
Target:  5'- uCCUUC-CGCUcgGCC--AGUGCGaGCUGCa -3'
miRNA:   3'- -GGAAGcGCGG--CGGucUCAUGC-CGAUG- -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 + 1181 0.66 0.709694
Target:  5'- gCCUugaggcgcUCGCGCUGCCAGGGcuccaucgGGCcgUACa -3'
miRNA:   3'- -GGA--------AGCGCGGCGGUCUCaug-----CCG--AUG- -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 + 25286 0.66 0.699278
Target:  5'- gCCa--GCGCCGCCAGGGgccugACcggGGCcACu -3'
miRNA:   3'- -GGaagCGCGGCGGUCUCa----UG---CCGaUG- -5'
18424 3' -56.8 NC_004681.1 + 33677 0.67 0.685648
Target:  5'- uCCUUgCGCuucGCCGCgGGAGUgaagcgcucgaagaGCGGCg-- -3'
miRNA:   3'- -GGAA-GCG---CGGCGgUCUCA--------------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 + 66547 0.67 0.657105
Target:  5'- gCUUCugcaCGCCGCgGGAGUcGCGGUacggUGCg -3'
miRNA:   3'- gGAAGc---GCGGCGgUCUCA-UGCCG----AUG- -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 + 56412 0.68 0.625214
Target:  5'- gCCUUgGCGCCGUgGGuGUGCuugaccGGCaGCu -3'
miRNA:   3'- -GGAAgCGCGGCGgUCuCAUG------CCGaUG- -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 + 42918 0.68 0.615645
Target:  5'- aCCgUgGCGgCGCCAGAGaagguauucggcuucGCGGUUGCa -3'
miRNA:   3'- -GGaAgCGCgGCGGUCUCa--------------UGCCGAUG- -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 + 7282 0.69 0.561804
Target:  5'- gCCgagUGCGCCGCCuGcg-ACGaGCUGCa -3'
miRNA:   3'- -GGaa-GCGCGGCGGuCucaUGC-CGAUG- -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 + 3133 0.7 0.51033
Target:  5'- cCCUUgGCGCCGC--GGGUGCGGgcaUUGCc -3'
miRNA:   3'- -GGAAgCGCGGCGguCUCAUGCC---GAUG- -5'
18424 3' -56.8 NC_004681.1 + 50010 0.7 0.507301
Target:  5'- uCCcgCGCGCCGUCuggccgcgcuacaaGGAGcgccuCGGCUACg -3'
miRNA:   3'- -GGaaGCGCGGCGG--------------UCUCau---GCCGAUG- -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.