miRNA display CGI


Results 1 - 20 of 22 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
27620 3' -58.8 NC_005882.1 + 12159 0.66 0.395505
Target:  5'- gGCCgAGCUGGgCGagGCGCAg--CCGUu -3'
miRNA:   3'- -UGG-UCGGCCgGCagCGCGUaaaGGUA- -5'
27620 3' -58.8 NC_005882.1 + 2153 0.66 0.367417
Target:  5'- gGCCAGaucaacaCCGGCCGcgugcUCGCGCugcgCCGa -3'
miRNA:   3'- -UGGUC-------GGCCGGC-----AGCGCGuaaaGGUa -5'
27620 3' -58.8 NC_005882.1 + 27148 0.66 0.359524
Target:  5'- gGCCugauGCUGGCCGggCGCGCGgugcUCUg- -3'
miRNA:   3'- -UGGu---CGGCCGGCa-GCGCGUaa--AGGua -5'
27620 3' -58.8 NC_005882.1 + 13719 0.66 0.359524
Target:  5'- uGCgAGCCGGgCaUCGCGCGgccggCCAa -3'
miRNA:   3'- -UGgUCGGCCgGcAGCGCGUaaa--GGUa -5'
27620 3' -58.8 NC_005882.1 + 15712 0.67 0.334077
Target:  5'- uGCCGucgucCUGGCCgGUCGCGCGgacgUCCGg -3'
miRNA:   3'- -UGGUc----GGCCGG-CAGCGCGUaa--AGGUa -5'
27620 3' -58.8 NC_005882.1 + 27634 0.67 0.309975
Target:  5'- uGCCGG-CGGCCGcgCGCGCGgcgaccgCCGa -3'
miRNA:   3'- -UGGUCgGCCGGCa-GCGCGUaaa----GGUa -5'
27620 3' -58.8 NC_005882.1 + 12621 0.67 0.309195
Target:  5'- cGCCAGCCGccagugcGCCGaUCGCcGCAgcgCCGg -3'
miRNA:   3'- -UGGUCGGC-------CGGC-AGCG-CGUaaaGGUa -5'
27620 3' -58.8 NC_005882.1 + 19050 0.68 0.28722
Target:  5'- cCCAcGCCGGCgcguUGUCGCGCGgauggCCGa -3'
miRNA:   3'- uGGU-CGGCCG----GCAGCGCGUaaa--GGUa -5'
27620 3' -58.8 NC_005882.1 + 25169 0.68 0.28722
Target:  5'- uCgGGCCGGCCGUCGUGgcCGgcUCCu- -3'
miRNA:   3'- uGgUCGGCCGGCAGCGC--GUaaAGGua -5'
27620 3' -58.8 NC_005882.1 + 12390 0.68 0.279932
Target:  5'- cGCCGGCCGGCaCG-CGgcCGC-UUUCCGc -3'
miRNA:   3'- -UGGUCGGCCG-GCaGC--GCGuAAAGGUa -5'
27620 3' -58.8 NC_005882.1 + 25465 0.69 0.258953
Target:  5'- ---cGCgGGCCGUUGCGCA--UCCGa -3'
miRNA:   3'- ugguCGgCCGGCAGCGCGUaaAGGUa -5'
27620 3' -58.8 NC_005882.1 + 26839 0.69 0.252251
Target:  5'- cCCAGCCGGCCGcgagcgUCGCGacc-UUCAUg -3'
miRNA:   3'- uGGUCGGCCGGC------AGCGCguaaAGGUA- -5'
27620 3' -58.8 NC_005882.1 + 28265 0.69 0.239276
Target:  5'- uGCC-GCCGGCgGcCGCGCAggcggucUCCAg -3'
miRNA:   3'- -UGGuCGGCCGgCaGCGCGUaa-----AGGUa -5'
27620 3' -58.8 NC_005882.1 + 21342 0.69 0.239276
Target:  5'- cGCCGGCC-GCCGUCGCcgcaucgagcGCGUagCCGUu -3'
miRNA:   3'- -UGGUCGGcCGGCAGCG----------CGUAaaGGUA- -5'
27620 3' -58.8 NC_005882.1 + 10461 0.7 0.220863
Target:  5'- cGCCGGCCGGCuCGUCaGUGCuugcgUCGUg -3'
miRNA:   3'- -UGGUCGGCCG-GCAG-CGCGuaaa-GGUA- -5'
27620 3' -58.8 NC_005882.1 + 6625 0.7 0.215
Target:  5'- cGCCAGCCaugaaGUCGUCGUGCGgcgcgCCGUg -3'
miRNA:   3'- -UGGUCGGc----CGGCAGCGCGUaaa--GGUA- -5'
27620 3' -58.8 NC_005882.1 + 30583 0.71 0.163418
Target:  5'- cACCuuGUCGGCCG-CGCGCAgcaugaUUUCCGa -3'
miRNA:   3'- -UGGu-CGGCCGGCaGCGCGU------AAAGGUa -5'
27620 3' -58.8 NC_005882.1 + 6395 0.71 0.163418
Target:  5'- uGCCguGGCCGGCCG-CGCGCGcugCCu- -3'
miRNA:   3'- -UGG--UCGGCCGGCaGCGCGUaaaGGua -5'
27620 3' -58.8 NC_005882.1 + 25693 0.72 0.146095
Target:  5'- -gCAGCC-GCCGUCGCGUAUgugCCGa -3'
miRNA:   3'- ugGUCGGcCGGCAGCGCGUAaa-GGUa -5'
27620 3' -58.8 NC_005882.1 + 10414 0.72 0.138076
Target:  5'- aGCCGGCCGGCgauucaGUCGCGCAgg-CUu- -3'
miRNA:   3'- -UGGUCGGCCGg-----CAGCGCGUaaaGGua -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.