miRNA display CGI


Results 1 - 20 of 54 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
31871 3' -55.6 NC_006938.1 + 46954 0.66 0.778111
Target:  5'- -gGAGCUCgUCC-CGA-GCGG-CGGUg -3'
miRNA:   3'- agCUCGAGaAGGaGCUgCGCCuGUCG- -5'
31871 3' -55.6 NC_006938.1 + 24653 0.66 0.778111
Target:  5'- gCGAGCgcgCauggCCUCuggcaGCGCGcGGCGGCg -3'
miRNA:   3'- aGCUCGa--Gaa--GGAGc----UGCGC-CUGUCG- -5'
31871 3' -55.6 NC_006938.1 + 52298 0.66 0.768234
Target:  5'- aCGgcGGCUCgaUCCucaUCGGCGgccaGGGCGGCa -3'
miRNA:   3'- aGC--UCGAGa-AGG---AGCUGCg---CCUGUCG- -5'
31871 3' -55.6 NC_006938.1 + 7478 0.66 0.768234
Target:  5'- cCGAGCUUcuugaacgUCUUCGG-GUGGAcCAGCu -3'
miRNA:   3'- aGCUCGAGa-------AGGAGCUgCGCCU-GUCG- -5'
31871 3' -55.6 NC_006938.1 + 15082 0.66 0.768234
Target:  5'- cUGAGgUUgucaaUCCUCGugGCcGGCAGUu -3'
miRNA:   3'- aGCUCgAGa----AGGAGCugCGcCUGUCG- -5'
31871 3' -55.6 NC_006938.1 + 44613 0.66 0.768234
Target:  5'- aUGAGCU--UCCUUGuCGCaggcGACGGCa -3'
miRNA:   3'- aGCUCGAgaAGGAGCuGCGc---CUGUCG- -5'
31871 3' -55.6 NC_006938.1 + 5679 0.66 0.766241
Target:  5'- cUUGAGCUUggCCUCGAgaGCGGcgaccuccuucuCGGCc -3'
miRNA:   3'- -AGCUCGAGaaGGAGCUg-CGCCu-----------GUCG- -5'
31871 3' -55.6 NC_006938.1 + 51459 0.66 0.758221
Target:  5'- -aGGGCUUcgacaUCCUCGuCGCGGcCGGa -3'
miRNA:   3'- agCUCGAGa----AGGAGCuGCGCCuGUCg -5'
31871 3' -55.6 NC_006938.1 + 28687 0.66 0.758221
Target:  5'- -gGGGCUCgUUCCUCGAguucaaCcCGGACAcucGCg -3'
miRNA:   3'- agCUCGAG-AAGGAGCU------GcGCCUGU---CG- -5'
31871 3' -55.6 NC_006938.1 + 18864 0.66 0.757213
Target:  5'- cUUGGGCcCUUCuugagCUCGAUgaucuugGUGGGCAGCu -3'
miRNA:   3'- -AGCUCGaGAAG-----GAGCUG-------CGCCUGUCG- -5'
31871 3' -55.6 NC_006938.1 + 6818 0.66 0.748085
Target:  5'- -aGAGCUCgUCCcgaGGgGUGaGACGGCa -3'
miRNA:   3'- agCUCGAGaAGGag-CUgCGC-CUGUCG- -5'
31871 3' -55.6 NC_006938.1 + 8416 0.66 0.737835
Target:  5'- gUUGAGCaggCccUCCUCGugGUcauuGGACAGg -3'
miRNA:   3'- -AGCUCGa--Ga-AGGAGCugCG----CCUGUCg -5'
31871 3' -55.6 NC_006938.1 + 23174 0.66 0.727484
Target:  5'- cCGAGCUCUaUCCgCGugGCccGGuAguGCu -3'
miRNA:   3'- aGCUCGAGA-AGGaGCugCG--CC-UguCG- -5'
31871 3' -55.6 NC_006938.1 + 35513 0.66 0.727484
Target:  5'- uUCGAGa---UCCUCGACGCcacggagagGGACAucGCu -3'
miRNA:   3'- -AGCUCgagaAGGAGCUGCG---------CCUGU--CG- -5'
31871 3' -55.6 NC_006938.1 + 9499 0.66 0.727484
Target:  5'- cCGGGCUCggcccagUCC-C-ACGUGGACcGCa -3'
miRNA:   3'- aGCUCGAGa------AGGaGcUGCGCCUGuCG- -5'
31871 3' -55.6 NC_006938.1 + 42286 0.67 0.71704
Target:  5'- aUGAGUgggg-CUCGACGCGGACcgaaccagGGCa -3'
miRNA:   3'- aGCUCGagaagGAGCUGCGCCUG--------UCG- -5'
31871 3' -55.6 NC_006938.1 + 58989 0.67 0.706515
Target:  5'- cCGAGCUCcagcgcgcugccUcaaUCCUCGugGCcgacGACGGUg -3'
miRNA:   3'- aGCUCGAG------------A---AGGAGCugCGc---CUGUCG- -5'
31871 3' -55.6 NC_006938.1 + 2370 0.67 0.685267
Target:  5'- cCGaAGCUCUUCaugUCGugGUGGcCGcGCg -3'
miRNA:   3'- aGC-UCGAGAAGg--AGCugCGCCuGU-CG- -5'
31871 3' -55.6 NC_006938.1 + 62536 0.68 0.653053
Target:  5'- -aGAGCaUCUUCaacaagcgCGACGCGucGGCGGCc -3'
miRNA:   3'- agCUCG-AGAAGga------GCUGCGC--CUGUCG- -5'
31871 3' -55.6 NC_006938.1 + 12175 0.68 0.641185
Target:  5'- uUCGGGUUCUcgUCggcggUGACGCGGAucacugcCAGCu -3'
miRNA:   3'- -AGCUCGAGAa-GGa----GCUGCGCCU-------GUCG- -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.