miRNA display CGI


Results 21 - 40 of 56 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
28005 3' -53.6 NC_005887.1 + 15380 0.71 0.384508
Target:  5'- --aGCAGGUCGAcGCCGcgcugaUCGcGCGCGg -3'
miRNA:   3'- uugCGUCCAGCUuCGGU------AGUuCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 16220 0.72 0.36613
Target:  5'- cACGCAGGUcaCGAucgauacgccGGCCggCGAGCGCa -3'
miRNA:   3'- uUGCGUCCA--GCU----------UCGGuaGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 17398 0.67 0.619244
Target:  5'- cGCGCuGGUCGAucaCGUCGgcGGCAUGg -3'
miRNA:   3'- uUGCGuCCAGCUucgGUAGU--UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 17540 0.68 0.573469
Target:  5'- uGCGCAGGacaUCGAgaAGCCGcugUCGgccAGCACa -3'
miRNA:   3'- uUGCGUCC---AGCU--UCGGU---AGU---UCGUGc -5'
28005 3' -53.6 NC_005887.1 + 17778 0.68 0.561003
Target:  5'- uGCGCAGGUgUGAAGCUgacggcgAUCAugGGCGCc -3'
miRNA:   3'- uUGCGUCCA-GCUUCGG-------UAGU--UCGUGc -5'
28005 3' -53.6 NC_005887.1 + 17804 0.68 0.584858
Target:  5'- -uCGCAGGggcugaUCGccGAGUCGcUCGAGCACGg -3'
miRNA:   3'- uuGCGUCC------AGC--UUCGGU-AGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 19206 0.66 0.676643
Target:  5'- cACGgGGGUCGAGGaUCGUCAcGC-CGu -3'
miRNA:   3'- uUGCgUCCAGCUUC-GGUAGUuCGuGC- -5'
28005 3' -53.6 NC_005887.1 + 19576 0.72 0.357171
Target:  5'- cGCGcCGGcGUCG-AGCCAaCGAGCACGu -3'
miRNA:   3'- uUGC-GUC-CAGCuUCGGUaGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 20267 0.67 0.642246
Target:  5'- uGCGCuGGUUGAucaacucuGCgUAUCAGGUACGg -3'
miRNA:   3'- uUGCGuCCAGCUu-------CG-GUAGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 23951 0.66 0.721801
Target:  5'- cGGCGCcgcGG-CGuAGGCCAUCGGGUucGCGa -3'
miRNA:   3'- -UUGCGu--CCaGC-UUCGGUAGUUCG--UGC- -5'
28005 3' -53.6 NC_005887.1 + 24436 0.72 0.36613
Target:  5'- cACGCAGGUCGcGAGCaggacacgcagCAUCAGGC-CGu -3'
miRNA:   3'- uUGCGUCCAGC-UUCG-----------GUAGUUCGuGC- -5'
28005 3' -53.6 NC_005887.1 + 25892 0.66 0.699365
Target:  5'- cGCGC-GGUCGAGcgcauGCCcgCGcGCACGc -3'
miRNA:   3'- uUGCGuCCAGCUU-----CGGuaGUuCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 26321 0.66 0.710625
Target:  5'- -cUGCAGGUUcAGGCCGUgGccGGCGCu -3'
miRNA:   3'- uuGCGUCCAGcUUCGGUAgU--UCGUGc -5'
28005 3' -53.6 NC_005887.1 + 26446 0.82 0.073839
Target:  5'- gAACGCAGGUCGGccAGCUgcgcGUCGAGCGCa -3'
miRNA:   3'- -UUGCGUCCAGCU--UCGG----UAGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 26502 0.66 0.665207
Target:  5'- cGCGCGGGcguuucccUCGAucgcGCCGcgCAAGCGCu -3'
miRNA:   3'- uUGCGUCC--------AGCUu---CGGUa-GUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 27148 0.69 0.539654
Target:  5'- cACGC-GGcCGAacGGCCA-CGGGCGCGg -3'
miRNA:   3'- uUGCGuCCaGCU--UCGGUaGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 30241 0.71 0.397731
Target:  5'- -uCGaCAGGUCGGAcacguacaggcgcuuGCCGUCcGGCGCGa -3'
miRNA:   3'- uuGC-GUCCAGCUU---------------CGGUAGuUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 30865 0.66 0.699365
Target:  5'- uGCGCuGGUCcuGAuGCCA--GAGCGCGa -3'
miRNA:   3'- uUGCGuCCAG--CUuCGGUagUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 31887 0.66 0.665207
Target:  5'- gGugGUGGGcgUCGGccAGCCGgUCAGGCAUGc -3'
miRNA:   3'- -UugCGUCC--AGCU--UCGGU-AGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 32171 0.66 0.665207
Target:  5'- -cUGCAGGUCGGcgcucagcgaugAGCCAgugCcAGUGCGg -3'
miRNA:   3'- uuGCGUCCAGCU------------UCGGUa--GuUCGUGC- -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.