miRNA display CGI


Results 1 - 20 of 52 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
16083 3' -60.8 NC_004065.1 + 44774 0.66 0.81355
Target:  5'- cCAGGgUCgucCGAGGCCUG-GGCcGCAc -3'
miRNA:   3'- -GUCCaAGaa-GCUCCGGGCgCCGcCGU- -5'
16083 3' -60.8 NC_004065.1 + 163469 0.66 0.81355
Target:  5'- uGGGUagcUCGAGcUCCGuCGGCGGCGc -3'
miRNA:   3'- gUCCAagaAGCUCcGGGC-GCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 29951 0.66 0.812725
Target:  5'- gAGGagacUUUUCGGGGaCCggugcugGCGGCGGCGg -3'
miRNA:   3'- gUCCa---AGAAGCUCCgGG-------CGCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 68505 0.66 0.808581
Target:  5'- uCAGGUgaggcggcggacgcaUCUcccgGAGGCCgaggagGCGGCGGCGg -3'
miRNA:   3'- -GUCCA---------------AGAag--CUCCGGg-----CGCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 229669 0.66 0.80524
Target:  5'- gCAGGUgggCgUCGGGGCgCGCGuccgcuCGGCGa -3'
miRNA:   3'- -GUCCAa--GaAGCUCCGgGCGCc-----GCCGU- -5'
16083 3' -60.8 NC_004065.1 + 203820 0.66 0.79679
Target:  5'- gGGGUUCUcggacaggcguUCGAGGUCgaaagggaCGCGcCGGCAc -3'
miRNA:   3'- gUCCAAGA-----------AGCUCCGG--------GCGCcGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 83204 0.66 0.79679
Target:  5'- aAGGgaaaUUCG-GGCCCG-GGCaGGCAc -3'
miRNA:   3'- gUCCaag-AAGCuCCGGGCgCCG-CCGU- -5'
16083 3' -60.8 NC_004065.1 + 127212 0.66 0.788207
Target:  5'- -uGGUUCgggagCGGcGGCCgcgaggaucgggCGCGGUGGCGg -3'
miRNA:   3'- guCCAAGaa---GCU-CCGG------------GCGCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 129997 0.66 0.788207
Target:  5'- gCGGGggCggcggaCGAGGCgaugcuguaCgGCGGCGGCGg -3'
miRNA:   3'- -GUCCaaGaa----GCUCCG---------GgCGCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 24042 0.66 0.788207
Target:  5'- gAGGUcgUCggUGAGGauggugaGCGGCGGCAg -3'
miRNA:   3'- gUCCA--AGaaGCUCCggg----CGCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 30169 0.66 0.779499
Target:  5'- -cGGcacCgaCGAGuGCCUGCGGCGGUg -3'
miRNA:   3'- guCCaa-GaaGCUC-CGGGCGCCGCCGu -5'
16083 3' -60.8 NC_004065.1 + 59551 0.66 0.779499
Target:  5'- aAGaGcUCgcCGAgcGGUCUGCGGCGGCAg -3'
miRNA:   3'- gUC-CaAGaaGCU--CCGGGCGCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 28712 0.66 0.779499
Target:  5'- gCAGGgcggagaucCUgucCGAGGaggagaCCGCGGUGGCGg -3'
miRNA:   3'- -GUCCaa-------GAa--GCUCCg-----GGCGCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 78042 0.66 0.779499
Target:  5'- cCGGGUccCUgauGAGGCCgGCGG-GGCGc -3'
miRNA:   3'- -GUCCAa-GAag-CUCCGGgCGCCgCCGU- -5'
16083 3' -60.8 NC_004065.1 + 116128 0.66 0.779498
Target:  5'- gAGGUagCUggUCGGcGuCCUGCGGCGGCu -3'
miRNA:   3'- gUCCAa-GA--AGCUcC-GGGCGCCGCCGu -5'
16083 3' -60.8 NC_004065.1 + 73962 0.66 0.779498
Target:  5'- aCAGGcgUCggcgaggUCGAGGUcgUCGCGGUccaGGCAg -3'
miRNA:   3'- -GUCCa-AGa------AGCUCCG--GGCGCCG---CCGU- -5'
16083 3' -60.8 NC_004065.1 + 35540 0.66 0.778621
Target:  5'- -cGGUcuUCUUCaagagagGAGGCgugaGCGGCGGCGc -3'
miRNA:   3'- guCCA--AGAAG-------CUCCGgg--CGCCGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 20832 0.66 0.770672
Target:  5'- gAGGgUCgUCGAggaaagcgccGGUCCGCGaGCGGUAg -3'
miRNA:   3'- gUCCaAGaAGCU----------CCGGGCGC-CGCCGU- -5'
16083 3' -60.8 NC_004065.1 + 173297 0.66 0.770672
Target:  5'- gAGGUUCUucuUCGAGGUgU-CGGuCGGCGa -3'
miRNA:   3'- gUCCAAGA---AGCUCCGgGcGCC-GCCGU- -5'
16083 3' -60.8 NC_004065.1 + 131225 0.66 0.770672
Target:  5'- gCAGaagUCgaugUCGGGGUcucggucgucuCCGUGGCGGCGg -3'
miRNA:   3'- -GUCca-AGa---AGCUCCG-----------GGCGCCGCCGU- -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.