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
18095 3' -53.7 NC_004680.1 + 11753 0.66 0.815067
Target:  5'- cAUCAAAcCGUgGCCGCCcugAGUGGgGUUa -3'
miRNA:   3'- -UGGUUUuGCA-CGGCGG---UCAUCgCAGa -5'
18095 3' -53.7 NC_004680.1 + 11167 0.66 0.805504
Target:  5'- cCCGAuuC-UGCCGCCuccuGgcGCGUCg -3'
miRNA:   3'- uGGUUuuGcACGGCGGu---CauCGCAGa -5'
18095 3' -53.7 NC_004680.1 + 21262 0.66 0.805504
Target:  5'- gGCCGGGGC-UGgUGUCGGUAGCGcCa -3'
miRNA:   3'- -UGGUUUUGcACgGCGGUCAUCGCaGa -5'
18095 3' -53.7 NC_004680.1 + 37071 0.66 0.77574
Target:  5'- cCCGGcuGGCa-GCCGCCAGguUGGCGUCc -3'
miRNA:   3'- uGGUU--UUGcaCGGCGGUC--AUCGCAGa -5'
18095 3' -53.7 NC_004680.1 + 9516 0.67 0.765498
Target:  5'- ---uGAGCGUGCUGCUgcGGUGGCGg-- -3'
miRNA:   3'- ugguUUUGCACGGCGG--UCAUCGCaga -5'
18095 3' -53.7 NC_004680.1 + 58539 0.67 0.712414
Target:  5'- gGCCAgguguaggcGAugGUGUgGCCuuGGUGGCGUg- -3'
miRNA:   3'- -UGGU---------UUugCACGgCGG--UCAUCGCAga -5'
18095 3' -53.7 NC_004680.1 + 45040 0.68 0.701506
Target:  5'- gGCCGAAGCaugaGCCGCCGGUucacGGgGUUUc -3'
miRNA:   3'- -UGGUUUUGca--CGGCGGUCA----UCgCAGA- -5'
18095 3' -53.7 NC_004680.1 + 19516 0.69 0.646156
Target:  5'- cCCGGguGACGgcGCCGCCGGUGGUaacaccacguuGUCUa -3'
miRNA:   3'- uGGUU--UUGCa-CGGCGGUCAUCG-----------CAGA- -5'
18095 3' -53.7 NC_004680.1 + 30289 0.69 0.635002
Target:  5'- gACCGgggcgcgaugGAACGUGCCGUgaCAGggaagAGCGUUg -3'
miRNA:   3'- -UGGU----------UUUGCACGGCG--GUCa----UCGCAGa -5'
18095 3' -53.7 NC_004680.1 + 21203 0.69 0.623846
Target:  5'- gACCAAAACuggccgGUGCCGCCGG-AGCc--- -3'
miRNA:   3'- -UGGUUUUG------CACGGCGGUCaUCGcaga -5'
18095 3' -53.7 NC_004680.1 + 45243 0.69 0.612697
Target:  5'- cGCCGAGACcacgggGCCuGCgauggugugCAGUAGCGUCUg -3'
miRNA:   3'- -UGGUUUUGca----CGG-CG---------GUCAUCGCAGA- -5'
18095 3' -53.7 NC_004680.1 + 56491 0.7 0.590461
Target:  5'- uCCAggggGAACGUaauacgucugcGCCGCUguuGGUGGCGUCg -3'
miRNA:   3'- uGGU----UUUGCA-----------CGGCGG---UCAUCGCAGa -5'
18095 3' -53.7 NC_004680.1 + 36259 0.7 0.590461
Target:  5'- cGCCAAGACG-GCUGCCGcgAGCGa-- -3'
miRNA:   3'- -UGGUUUUGCaCGGCGGUcaUCGCaga -5'
18095 3' -53.7 NC_004680.1 + 3447 0.7 0.53565
Target:  5'- gGCUAAGGCG-GCCgGCgAGUcgugGGCGUCUa -3'
miRNA:   3'- -UGGUUUUGCaCGG-CGgUCA----UCGCAGA- -5'
18095 3' -53.7 NC_004680.1 + 2860 0.72 0.47244
Target:  5'- gACCGGuuCGccGCCGCCGGUGGUGg-- -3'
miRNA:   3'- -UGGUUuuGCa-CGGCGGUCAUCGCaga -5'
18095 3' -53.7 NC_004680.1 + 1298 0.72 0.47244
Target:  5'- uGCCGAGGCGgagucuaUCGCCAGgggugAGCGUCa -3'
miRNA:   3'- -UGGUUUUGCac-----GGCGGUCa----UCGCAGa -5'
18095 3' -53.7 NC_004680.1 + 24560 0.74 0.350227
Target:  5'- cGCCAAa--GUGUuccgcacuuuugUGCCAGUAGCGUCUa -3'
miRNA:   3'- -UGGUUuugCACG------------GCGGUCAUCGCAGA- -5'
18095 3' -53.7 NC_004680.1 + 25330 0.8 0.150711
Target:  5'- cGCCucguAGACGaggGCCGCCAGUucGGCGUCa -3'
miRNA:   3'- -UGGu---UUUGCa--CGGCGGUCA--UCGCAGa -5'
18095 3' -53.7 NC_004680.1 + 18383 1.07 0.002009
Target:  5'- cACCAAAACGUGCCGCCAGUAGCGUCUu -3'
miRNA:   3'- -UGGUUUUGCACGGCGGUCAUCGCAGA- -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.