miRNA display CGI


Results 1 - 19 of 19 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
27136 5' -56.5 NC_005832.1 + 54038 0.66 0.826051
Target:  5'- aGGCCUCCUUCAGG---ACcCCUUUCUg -3'
miRNA:   3'- -UUGGAGGAGGUCCaacUGcGGAAGGG- -5'
27136 5' -56.5 NC_005832.1 + 41401 0.66 0.823436
Target:  5'- --aCUCCaugUCCAGGggcaugacuaccgagGGCGCC-UCCCu -3'
miRNA:   3'- uugGAGG---AGGUCCaa-------------CUGCGGaAGGG- -5'
27136 5' -56.5 NC_005832.1 + 97328 0.66 0.820804
Target:  5'- aGGCCUgCUCCAGGagccugucgagcuucUUGACGUCcagggagUCCa -3'
miRNA:   3'- -UUGGAgGAGGUCC---------------AACUGCGGa------AGGg -5'
27136 5' -56.5 NC_005832.1 + 105383 0.66 0.81727
Target:  5'- -uCCUUUUCCAGGUgcUGAaUGUCUgCCCu -3'
miRNA:   3'- uuGGAGGAGGUCCA--ACU-GCGGAaGGG- -5'
27136 5' -56.5 NC_005832.1 + 5545 0.66 0.799187
Target:  5'- cACCUCguccaCUCCAGGgUGcCGUCUggaCCCa -3'
miRNA:   3'- uUGGAG-----GAGGUCCaACuGCGGAa--GGG- -5'
27136 5' -56.5 NC_005832.1 + 78994 0.66 0.799187
Target:  5'- gGACCUCCUCguaAGcGacccUGACGCCU-CUCa -3'
miRNA:   3'- -UUGGAGGAGg--UC-Ca---ACUGCGGAaGGG- -5'
27136 5' -56.5 NC_005832.1 + 24295 0.66 0.789902
Target:  5'- uAACCUCCUCguGGUU----CCUUUCCu -3'
miRNA:   3'- -UUGGAGGAGguCCAAcugcGGAAGGG- -5'
27136 5' -56.5 NC_005832.1 + 32631 0.66 0.788965
Target:  5'- cGCCUCgUCCGGGgaGAggcuggaggugucUGCCgaaggccgUCCCa -3'
miRNA:   3'- uUGGAGgAGGUCCaaCU-------------GCGGa-------AGGG- -5'
27136 5' -56.5 NC_005832.1 + 52399 0.66 0.780467
Target:  5'- -cUCUCCUCCAGGgaa--GgUUUCCCa -3'
miRNA:   3'- uuGGAGGAGGUCCaacugCgGAAGGG- -5'
27136 5' -56.5 NC_005832.1 + 101071 0.67 0.731387
Target:  5'- uGACCUUCUCCAGuaUGACGUaauacaggcUCCCc -3'
miRNA:   3'- -UUGGAGGAGGUCcaACUGCGga-------AGGG- -5'
27136 5' -56.5 NC_005832.1 + 89304 0.67 0.721259
Target:  5'- ----gCCUCCAGGcacUUGACGaCCUgCCCu -3'
miRNA:   3'- uuggaGGAGGUCC---AACUGC-GGAaGGG- -5'
27136 5' -56.5 NC_005832.1 + 2406 0.68 0.711051
Target:  5'- -uCCggagaCCUCCAGGUUGugGCauacaCCa -3'
miRNA:   3'- uuGGa----GGAGGUCCAACugCGgaag-GG- -5'
27136 5' -56.5 NC_005832.1 + 43981 0.68 0.711051
Target:  5'- cGCUgUCCUCUuGGUUGAaGCCU-CCCg -3'
miRNA:   3'- uUGG-AGGAGGuCCAACUgCGGAaGGG- -5'
27136 5' -56.5 NC_005832.1 + 87507 0.68 0.669609
Target:  5'- cAGCgUCCUCCAGGcUGGCgGCCauguaCCa -3'
miRNA:   3'- -UUGgAGGAGGUCCaACUG-CGGaag--GG- -5'
27136 5' -56.5 NC_005832.1 + 44249 0.7 0.600372
Target:  5'- gGACCUCCUCCcguccuuugguccacGGGccucUUGGcCGCCUUUCUc -3'
miRNA:   3'- -UUGGAGGAGG---------------UCC----AACU-GCGGAAGGG- -5'
27136 5' -56.5 NC_005832.1 + 44347 0.7 0.575336
Target:  5'- -cCCUCCUCaCGGGgu--UGCCUUCCg -3'
miRNA:   3'- uuGGAGGAG-GUCCaacuGCGGAAGGg -5'
27136 5' -56.5 NC_005832.1 + 7713 0.7 0.564972
Target:  5'- -gUCUCCUCCuuuGGagUGACGCUgUCCUg -3'
miRNA:   3'- uuGGAGGAGGu--CCa-ACUGCGGaAGGG- -5'
27136 5' -56.5 NC_005832.1 + 23306 0.71 0.494154
Target:  5'- cGACCUCCUUCAccUUGAUGCCgUCCa -3'
miRNA:   3'- -UUGGAGGAGGUccAACUGCGGaAGGg -5'
27136 5' -56.5 NC_005832.1 + 104180 1.1 0.001309
Target:  5'- gAACCUCCUCCAGGUUGACGCCUUCCCa -3'
miRNA:   3'- -UUGGAGGAGGUCCAACUGCGGAAGGG- -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.