miRNA display CGI


Results 1 - 20 of 64 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
23789 3' -56.8 NC_005261.1 + 14171 0.66 0.880809
Target:  5'- cGGcgCgCGUCUcgGGGCGCG-GGUCAGg -3'
miRNA:   3'- -CCa-G-GCAGAcgUCCGCGUaCCAGUCg -5'
23789 3' -56.8 NC_005261.1 + 90875 0.71 0.613357
Target:  5'- --gCCGUCUGCgcgcuGGGCgacgGCAUGGcgCGGCa -3'
miRNA:   3'- ccaGGCAGACG-----UCCG----CGUACCa-GUCG- -5'
23789 3' -56.8 NC_005261.1 + 137052 0.71 0.613357
Target:  5'- cGGaCCGUCgGCAGGCGCGgaGGcgCGGg -3'
miRNA:   3'- -CCaGGCAGaCGUCCGCGUa-CCa-GUCg -5'
23789 3' -56.8 NC_005261.1 + 13274 0.7 0.633792
Target:  5'- aGGUCCacgCUGUuguuggcgGGGCGCA-GGUguGCg -3'
miRNA:   3'- -CCAGGca-GACG--------UCCGCGUaCCAguCG- -5'
23789 3' -56.8 NC_005261.1 + 40760 0.7 0.633792
Target:  5'- uGUCgGUCUGCAGuGC-CAUGGagacCAGCc -3'
miRNA:   3'- cCAGgCAGACGUC-CGcGUACCa---GUCG- -5'
23789 3' -56.8 NC_005261.1 + 99213 0.7 0.633792
Target:  5'- aGGUCCGaggacaccgCgGCAGGCGC---GUCGGCg -3'
miRNA:   3'- -CCAGGCa--------GaCGUCCGCGuacCAGUCG- -5'
23789 3' -56.8 NC_005261.1 + 62122 0.7 0.633792
Target:  5'- --gCCGUcCUGCAGGC-CcUGcGUCAGCa -3'
miRNA:   3'- ccaGGCA-GACGUCCGcGuAC-CAGUCG- -5'
23789 3' -56.8 NC_005261.1 + 77659 0.7 0.644011
Target:  5'- cGG-CCGgcgcCUGCAGGCGCAgGGcgCGGa -3'
miRNA:   3'- -CCaGGCa---GACGUCCGCGUaCCa-GUCg -5'
23789 3' -56.8 NC_005261.1 + 64899 0.7 0.674579
Target:  5'- gGGUCCa---GCA-GCGCGUGGUuCAGCg -3'
miRNA:   3'- -CCAGGcagaCGUcCGCGUACCA-GUCG- -5'
23789 3' -56.8 NC_005261.1 + 120316 0.71 0.603157
Target:  5'- aGG-CUGUCUGCgAGGCGCGcUGcGUCcccgAGCg -3'
miRNA:   3'- -CCaGGCAGACG-UCCGCGU-AC-CAG----UCG- -5'
23789 3' -56.8 NC_005261.1 + 121366 0.72 0.562641
Target:  5'- aGGUUCGcguaCUGCAGGCGCcccgcGG-CGGCg -3'
miRNA:   3'- -CCAGGCa---GACGUCCGCGua---CCaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 15493 0.72 0.552617
Target:  5'- --gCCGcucgCUGCGGGCgggGCGUGuGUCGGCg -3'
miRNA:   3'- ccaGGCa---GACGUCCG---CGUAC-CAGUCG- -5'
23789 3' -56.8 NC_005261.1 + 63722 0.8 0.190997
Target:  5'- aGGUCCGUgaGCGGcguGCGCAUGGccgCGGCg -3'
miRNA:   3'- -CCAGGCAgaCGUC---CGCGUACCa--GUCG- -5'
23789 3' -56.8 NC_005261.1 + 85550 0.76 0.316052
Target:  5'- cGGcUCCGUCUGCGGcGcCGCGaGGUuCGGCg -3'
miRNA:   3'- -CC-AGGCAGACGUC-C-GCGUaCCA-GUCG- -5'
23789 3' -56.8 NC_005261.1 + 60072 0.75 0.394403
Target:  5'- cGGcCgGUCcGCGGGCuGCGUGGgCAGCa -3'
miRNA:   3'- -CCaGgCAGaCGUCCG-CGUACCaGUCG- -5'
23789 3' -56.8 NC_005261.1 + 13084 0.73 0.465478
Target:  5'- cGGcCCGUCgGCGGGCGgCG-GGcUCGGCu -3'
miRNA:   3'- -CCaGGCAGaCGUCCGC-GUaCC-AGUCG- -5'
23789 3' -56.8 NC_005261.1 + 118917 0.73 0.484271
Target:  5'- gGGUCCGgcgCcGCGGGCGCGgcgccgcgcggcUGGccgCGGCg -3'
miRNA:   3'- -CCAGGCa--GaCGUCCGCGU------------ACCa--GUCG- -5'
23789 3' -56.8 NC_005261.1 + 110518 0.72 0.513119
Target:  5'- cGGccgUCGUCUGCgGGGCGCA-GGagGGCg -3'
miRNA:   3'- -CCa--GGCAGACG-UCCGCGUaCCagUCG- -5'
23789 3' -56.8 NC_005261.1 + 93928 0.72 0.530762
Target:  5'- cGGgcuugcgCCGUCcGCGGGCGCcgccuccgggcGGUCGGCc -3'
miRNA:   3'- -CCa------GGCAGaCGUCCGCGua---------CCAGUCG- -5'
23789 3' -56.8 NC_005261.1 + 117440 0.72 0.532737
Target:  5'- gGGuUCCGgcggCUGCugcagaAGGUGCGgcaGGUCGGCg -3'
miRNA:   3'- -CC-AGGCa---GACG------UCCGCGUa--CCAGUCG- -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.