miRNA display CGI


Results 1 - 20 of 34 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
23124 3' -53.1 NC_005178.1 + 25725 0.66 0.73034
Target:  5'- -cGACaGCCUCCAggcgcGCCugAAUgcugCCAGGg -3'
miRNA:   3'- gaCUG-CGGAGGU-----UGGugUUA----GGUCUg -5'
23124 3' -53.1 NC_005178.1 + 7297 0.66 0.73034
Target:  5'- -cGACGCCgcCCGGCUGC--UCCAGcGCa -3'
miRNA:   3'- gaCUGCGGa-GGUUGGUGuuAGGUC-UG- -5'
23124 3' -53.1 NC_005178.1 + 20888 0.66 0.73034
Target:  5'- aUGAcCGCCcugaccaCCGACCGCAAcaccccgcUCCAGgACg -3'
miRNA:   3'- gACU-GCGGa------GGUUGGUGUU--------AGGUC-UG- -5'
23124 3' -53.1 NC_005178.1 + 5151 0.66 0.719182
Target:  5'- -gGACGCC-CgCAACCugGcgCCGGuCu -3'
miRNA:   3'- gaCUGCGGaG-GUUGGugUuaGGUCuG- -5'
23124 3' -53.1 NC_005178.1 + 10141 0.66 0.719182
Target:  5'- --aGCGCCUCCAgcGCCugGAUUucccccucaUAGGCu -3'
miRNA:   3'- gacUGCGGAGGU--UGGugUUAG---------GUCUG- -5'
23124 3' -53.1 NC_005178.1 + 95 0.66 0.719182
Target:  5'- gCUGAacucgGCCUCCAucgcuuCCAUcaGAUCgAGGCa -3'
miRNA:   3'- -GACUg----CGGAGGUu-----GGUG--UUAGgUCUG- -5'
23124 3' -53.1 NC_005178.1 + 27087 0.66 0.696593
Target:  5'- gCUGGa-CCggagCauuGCCGCGAUCCAGGCg -3'
miRNA:   3'- -GACUgcGGa---Ggu-UGGUGUUAGGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 20154 0.66 0.696593
Target:  5'- ---cCGUCUUCAGCUACGccCCGGACg -3'
miRNA:   3'- gacuGCGGAGGUUGGUGUuaGGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 15179 0.67 0.673728
Target:  5'- ----aGCCUCCAGCCGCAcauggCCAacGGCc -3'
miRNA:   3'- gacugCGGAGGUUGGUGUua---GGU--CUG- -5'
23124 3' -53.1 NC_005178.1 + 6327 0.67 0.650689
Target:  5'- gCUGuCGCC-CCAGuCCgggGCGaacGUCCAGGCg -3'
miRNA:   3'- -GACuGCGGaGGUU-GG---UGU---UAGGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 27609 0.67 0.649534
Target:  5'- -cGACGCgCUCCAGCaacaACAGgaugcgcuggcccUCCAGGg -3'
miRNA:   3'- gaCUGCG-GAGGUUGg---UGUU-------------AGGUCUg -5'
23124 3' -53.1 NC_005178.1 + 28229 0.67 0.639136
Target:  5'- -cGGCGCC----GCCGCuAUCCAGGCc -3'
miRNA:   3'- gaCUGCGGagguUGGUGuUAGGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 20264 0.67 0.627575
Target:  5'- uCUGACGCCcccaCCAGCCuuuggccUCCAGGa -3'
miRNA:   3'- -GACUGCGGa---GGUUGGuguu---AGGUCUg -5'
23124 3' -53.1 NC_005178.1 + 12953 0.67 0.627575
Target:  5'- gCUGGCcgGCCUgguGACC-CAGUCCAGGCc -3'
miRNA:   3'- -GACUG--CGGAgg-UUGGuGUUAGGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 2396 0.67 0.619484
Target:  5'- gUGACGuCCUCCAGCCggcuggcguucgucaACGugacgacGUUCGGACc -3'
miRNA:   3'- gACUGC-GGAGGUUGG---------------UGU-------UAGGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 34338 0.67 0.616019
Target:  5'- gCUGACGUUgCCGACCuugcgcaggaacGCAuagaccugGUCCAGGCu -3'
miRNA:   3'- -GACUGCGGaGGUUGG------------UGU--------UAGGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 34443 0.68 0.604478
Target:  5'- cCUGGCGCCgagCCAGCUuaucgugaaauACAucgaCCAGAUc -3'
miRNA:   3'- -GACUGCGGa--GGUUGG-----------UGUua--GGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 9423 0.68 0.604478
Target:  5'- -gGGCGCCgCCAucgguGCCACcgcCCAGGCc -3'
miRNA:   3'- gaCUGCGGaGGU-----UGGUGuuaGGUCUG- -5'
23124 3' -53.1 NC_005178.1 + 34874 0.68 0.603325
Target:  5'- -gGACGCCUCgGgcgaucacugugcGCCGCcuGAUCgAGGCa -3'
miRNA:   3'- gaCUGCGGAGgU-------------UGGUG--UUAGgUCUG- -5'
23124 3' -53.1 NC_005178.1 + 24742 0.68 0.592964
Target:  5'- -aGACGCCgaacauggCGGCCGCGAccUCCAGGg -3'
miRNA:   3'- gaCUGCGGag------GUUGGUGUU--AGGUCUg -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.