miRNA display CGI


Results 1 - 20 of 20 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
28544 3' -52.6 NC_005946.1 + 61204 0.66 0.953227
Target:  5'- aGCAgugcCUGGGCAGGcugaGgGCCAACGg- -3'
miRNA:   3'- -UGUau--GACUCGUCCa---UgCGGUUGCgg -5'
28544 3' -52.6 NC_005946.1 + 19520 0.66 0.948906
Target:  5'- ---cGCUGguauAGCAGaGUgcuGCGCCAaucACGCCc -3'
miRNA:   3'- uguaUGAC----UCGUC-CA---UGCGGU---UGCGG- -5'
28544 3' -52.6 NC_005946.1 + 2670 0.66 0.94846
Target:  5'- cACGUACUcGGCcGGccccugcUACGCCGggggcugcaGCGCCu -3'
miRNA:   3'- -UGUAUGAcUCGuCC-------AUGCGGU---------UGCGG- -5'
28544 3' -52.6 NC_005946.1 + 20848 0.66 0.944329
Target:  5'- gGCAaagGCUGcGGCAG--ACGCCGugGCa -3'
miRNA:   3'- -UGUa--UGAC-UCGUCcaUGCGGUugCGg -5'
28544 3' -52.6 NC_005946.1 + 45897 0.66 0.934391
Target:  5'- cCGUACacgaGAGaCAGGUACaGCgCGACgGCCa -3'
miRNA:   3'- uGUAUGa---CUC-GUCCAUG-CG-GUUG-CGG- -5'
28544 3' -52.6 NC_005946.1 + 97097 0.67 0.929026
Target:  5'- uGC-UGCUGAGCAGG-GCGUUGcUGCUg -3'
miRNA:   3'- -UGuAUGACUCGUCCaUGCGGUuGCGG- -5'
28544 3' -52.6 NC_005946.1 + 97055 0.67 0.929026
Target:  5'- uGC-UGCUGAGCAGG-GCGUUGcUGCUg -3'
miRNA:   3'- -UGuAUGACUCGUCCaUGCGGUuGCGG- -5'
28544 3' -52.6 NC_005946.1 + 97013 0.67 0.929026
Target:  5'- uGC-UGCUGAGCAGG-GCGUUGcUGCUg -3'
miRNA:   3'- -UGuAUGACUCGUCCaUGCGGUuGCGG- -5'
28544 3' -52.6 NC_005946.1 + 97139 0.67 0.917504
Target:  5'- gGC-UGCUGAGCAGG-GCGUUGcUGCUg -3'
miRNA:   3'- -UGuAUGACUCGUCCaUGCGGUuGCGG- -5'
28544 3' -52.6 NC_005946.1 + 84116 0.68 0.900951
Target:  5'- -gGUGgUGGGgugguucugccacguCAGGUGCGUCAAgGCCu -3'
miRNA:   3'- ugUAUgACUC---------------GUCCAUGCGGUUgCGG- -5'
28544 3' -52.6 NC_005946.1 + 74773 0.68 0.898249
Target:  5'- gGCGUACUGaAGCAGGU-UGUaAGCGgCg -3'
miRNA:   3'- -UGUAUGAC-UCGUCCAuGCGgUUGCgG- -5'
28544 3' -52.6 NC_005946.1 + 37007 0.68 0.884128
Target:  5'- --uUGCUGAGUcgaAGGUuaccuUGCCAGCGUg -3'
miRNA:   3'- uguAUGACUCG---UCCAu----GCGGUUGCGg -5'
28544 3' -52.6 NC_005946.1 + 68190 0.69 0.852968
Target:  5'- -gAUGggGAGCAGGUccACuGCCAcgACGCCc -3'
miRNA:   3'- ugUAUgaCUCGUCCA--UG-CGGU--UGCGG- -5'
28544 3' -52.6 NC_005946.1 + 69166 0.69 0.852142
Target:  5'- uACAUGCUGuuGGCAGacaccuuGUAaGCCAGCuGCCu -3'
miRNA:   3'- -UGUAUGAC--UCGUC-------CAUgCGGUUG-CGG- -5'
28544 3' -52.6 NC_005946.1 + 54916 0.69 0.836032
Target:  5'- -gAUGCUGAGCAGGaGCcuguagagcaGCCuACaGCCa -3'
miRNA:   3'- ugUAUGACUCGUCCaUG----------CGGuUG-CGG- -5'
28544 3' -52.6 NC_005946.1 + 29838 0.69 0.835163
Target:  5'- gACucugGCUGAuuGUAGGUAaccaccuCGCUGACGCCu -3'
miRNA:   3'- -UGua--UGACU--CGUCCAU-------GCGGUUGCGG- -5'
28544 3' -52.6 NC_005946.1 + 71412 0.69 0.827252
Target:  5'- uGCAaGCUGGGCAagaccuacgACGCCAcCGCCu -3'
miRNA:   3'- -UGUaUGACUCGUcca------UGCGGUuGCGG- -5'
28544 3' -52.6 NC_005946.1 + 79002 0.72 0.698841
Target:  5'- gGCGgccACgGAgGCGGcGUACGCCAGgGCCg -3'
miRNA:   3'- -UGUa--UGaCU-CGUC-CAUGCGGUUgCGG- -5'
28544 3' -52.6 NC_005946.1 + 48314 0.72 0.687168
Target:  5'- -gGUACUuggccuuguugggGAGCAGGUugGCCcuGAgGCCc -3'
miRNA:   3'- ugUAUGA-------------CUCGUCCAugCGG--UUgCGG- -5'
28544 3' -52.6 NC_005946.1 + 2866 0.74 0.559676
Target:  5'- cGCcgGCUGGGCcacuAGGcccgACGCCGuguGCGCCa -3'
miRNA:   3'- -UGuaUGACUCG----UCCa---UGCGGU---UGCGG- -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.