miRNA display CGI


Results 1 - 18 of 18 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
28438 3' -55.6 NC_005946.1 + 62092 0.66 0.878169
Target:  5'- aGACCUcaccagaaaggggUCCUgaaGGAGGCCUGg--GGCc -3'
miRNA:   3'- gCUGGAa------------AGGG---CCUCCGGACaugUCG- -5'
28438 3' -55.6 NC_005946.1 + 72705 0.66 0.866207
Target:  5'- gGACgUgga-CGGGGuCCUGUGCGGCg -3'
miRNA:   3'- gCUGgAaaggGCCUCcGGACAUGUCG- -5'
28438 3' -55.6 NC_005946.1 + 66277 0.66 0.858442
Target:  5'- gGACCcUUCCCuGGuGGUggCUGUGCacgAGCc -3'
miRNA:   3'- gCUGGaAAGGG-CCuCCG--GACAUG---UCG- -5'
28438 3' -55.6 NC_005946.1 + 40288 0.67 0.807621
Target:  5'- gGACggg-CUCGGAcGGCCUG-ACGGCc -3'
miRNA:   3'- gCUGgaaaGGGCCU-CCGGACaUGUCG- -5'
28438 3' -55.6 NC_005946.1 + 20914 0.67 0.798519
Target:  5'- aGGCaaggCCCaGGAGGCCcUGU-CGGCc -3'
miRNA:   3'- gCUGgaaaGGG-CCUCCGG-ACAuGUCG- -5'
28438 3' -55.6 NC_005946.1 + 56411 0.68 0.779853
Target:  5'- -aGCCUUUggUCCGGAGGCaccaggccguCUGUgACGGCc -3'
miRNA:   3'- gcUGGAAA--GGGCCUCCG----------GACA-UGUCG- -5'
28438 3' -55.6 NC_005946.1 + 3550 0.68 0.770308
Target:  5'- aCGACguCUUUCCCaagaGGGGCCUGgccauggACAGg -3'
miRNA:   3'- -GCUG--GAAAGGGc---CUCCGGACa------UGUCg -5'
28438 3' -55.6 NC_005946.1 + 2283 0.69 0.710675
Target:  5'- gGACCccg-CCGGGGGCUgGUGCAGa -3'
miRNA:   3'- gCUGGaaagGGCCUCCGGaCAUGUCg -5'
28438 3' -55.6 NC_005946.1 + 28858 0.69 0.690134
Target:  5'- aCGuCCagUCCCGGaAGGCCgUGUA-GGCg -3'
miRNA:   3'- -GCuGGaaAGGGCC-UCCGG-ACAUgUCG- -5'
28438 3' -55.6 NC_005946.1 + 15623 0.69 0.690134
Target:  5'- aGACa--UCaCCGGAGGCCUGaGCugaggAGCg -3'
miRNA:   3'- gCUGgaaAG-GGCCUCCGGACaUG-----UCG- -5'
28438 3' -55.6 NC_005946.1 + 79512 0.69 0.679784
Target:  5'- gGGCgUUguagugCCUGGAgGGCCUG-ACGGCc -3'
miRNA:   3'- gCUGgAAa-----GGGCCU-CCGGACaUGUCG- -5'
28438 3' -55.6 NC_005946.1 + 50217 0.7 0.658969
Target:  5'- uGGgCUUUCCCucGGAGGCCcUGUAUAu- -3'
miRNA:   3'- gCUgGAAAGGG--CCUCCGG-ACAUGUcg -5'
28438 3' -55.6 NC_005946.1 + 80558 0.7 0.658969
Target:  5'- cCGGCCa-UCCCGG-GGCacuUGUgGCAGCa -3'
miRNA:   3'- -GCUGGaaAGGGCCuCCGg--ACA-UGUCG- -5'
28438 3' -55.6 NC_005946.1 + 9706 0.71 0.565168
Target:  5'- aCGGCCauccugUUgUCGGGGGUgaGUGCGGCg -3'
miRNA:   3'- -GCUGGa-----AAgGGCCUCCGgaCAUGUCG- -5'
28438 3' -55.6 NC_005946.1 + 8703 0.73 0.475176
Target:  5'- gGGCCUccaCUCGGAgGGCCUGUGCAc- -3'
miRNA:   3'- gCUGGAaa-GGGCCU-CCGGACAUGUcg -5'
28438 3' -55.6 NC_005946.1 + 48050 0.74 0.446757
Target:  5'- gGGCUuuggauUUUCUgGGAGGCCUGgguggGCGGCc -3'
miRNA:   3'- gCUGG------AAAGGgCCUCCGGACa----UGUCG- -5'
28438 3' -55.6 NC_005946.1 + 12024 0.75 0.401588
Target:  5'- uGACCUgaCCagcaaGGAGGCCUGcagGCGGUu -3'
miRNA:   3'- gCUGGAaaGGg----CCUCCGGACa--UGUCG- -5'
28438 3' -55.6 NC_005946.1 + 89204 1.11 0.001687
Target:  5'- uCGACCUUUCCCGGAGGCCUGUACAGCc -3'
miRNA:   3'- -GCUGGAAAGGGCCUCCGGACAUGUCG- -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.