miRNA display CGI


Results 1 - 15 of 15 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
18247 3' -57.8 NC_004681.1 + 3353 0.66 0.665166
Target:  5'- cGCCUaCUCCGacaugUCACCGUUcCgCCUGCAg -3'
miRNA:   3'- uUGGA-GAGGU-----GGUGGCAAaG-GGGCGU- -5'
18247 3' -57.8 NC_004681.1 + 11870 0.66 0.665166
Target:  5'- cGAUCUCguagaagCgGCCACCGgggaagUCCUCGCu -3'
miRNA:   3'- -UUGGAGa------GgUGGUGGCaa----AGGGGCGu -5'
18247 3' -57.8 NC_004681.1 + 49325 0.66 0.654507
Target:  5'- cAACCUCaccgUCCGCCACgGcggCgCCGCGg -3'
miRNA:   3'- -UUGGAG----AGGUGGUGgCaaaGgGGCGU- -5'
18247 3' -57.8 NC_004681.1 + 61049 0.66 0.654507
Target:  5'- gAACUUCUCCAagaggcacgccuCCACUGUggUUCCGCu -3'
miRNA:   3'- -UUGGAGAGGU------------GGUGGCAaaGGGGCGu -5'
18247 3' -57.8 NC_004681.1 + 27869 0.66 0.654507
Target:  5'- cACCUUagCGCCGCCGcugCCgCCGCu -3'
miRNA:   3'- uUGGAGagGUGGUGGCaaaGG-GGCGu -5'
18247 3' -57.8 NC_004681.1 + 28159 0.66 0.64383
Target:  5'- gGACUUCUugCCGCCACCGccUCgaCCGCc -3'
miRNA:   3'- -UUGGAGA--GGUGGUGGCaaAGg-GGCGu -5'
18247 3' -57.8 NC_004681.1 + 45981 0.66 0.633142
Target:  5'- uGCCUCUCCACCcgaacuucaaugAUCGgugggcggUCCUCGUg -3'
miRNA:   3'- uUGGAGAGGUGG------------UGGCaa------AGGGGCGu -5'
18247 3' -57.8 NC_004681.1 + 12204 0.66 0.611773
Target:  5'- gGGCUUCcCCGCgCGCCGcaUCCCCGg- -3'
miRNA:   3'- -UUGGAGaGGUG-GUGGCaaAGGGGCgu -5'
18247 3' -57.8 NC_004681.1 + 70449 0.67 0.601109
Target:  5'- uAUCaUCUCCGCCAUgGUggUCCUGCGg -3'
miRNA:   3'- uUGG-AGAGGUGGUGgCAaaGGGGCGU- -5'
18247 3' -57.8 NC_004681.1 + 62435 0.67 0.579864
Target:  5'- -cCCUCUCCGCCGCCcaggaaaCCCGa- -3'
miRNA:   3'- uuGGAGAGGUGGUGGcaaag--GGGCgu -5'
18247 3' -57.8 NC_004681.1 + 32720 0.67 0.569299
Target:  5'- gGACCUCUUCcgcuggcaGCCugUGUgguaCCCCGCc -3'
miRNA:   3'- -UUGGAGAGG--------UGGugGCAaa--GGGGCGu -5'
18247 3' -57.8 NC_004681.1 + 28026 0.67 0.569299
Target:  5'- cAGCCguugCCguGCCGCCGaggCCCCGCGu -3'
miRNA:   3'- -UUGGaga-GG--UGGUGGCaaaGGGGCGU- -5'
18247 3' -57.8 NC_004681.1 + 28238 0.71 0.358844
Target:  5'- cGCCgcucgaUCCGCCGCCGccgUUgCCCGCGg -3'
miRNA:   3'- uUGGag----AGGUGGUGGCa--AAgGGGCGU- -5'
18247 3' -57.8 NC_004681.1 + 8995 0.75 0.20321
Target:  5'- cGCCacCUCgGCCACCGUcagcaacgugaagUUCCCCGCGg -3'
miRNA:   3'- uUGGa-GAGgUGGUGGCA-------------AAGGGGCGU- -5'
18247 3' -57.8 NC_004681.1 + 312 1.06 0.001184
Target:  5'- gAACCUCUCCACCACCGUUUCCCCGCAa -3'
miRNA:   3'- -UUGGAGAGGUGGUGGCAAAGGGGCGU- -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.