miRNA display CGI


Results 1 - 20 of 39 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
28017 3' -58.2 NC_005887.1 + 32158 0.66 0.474713
Target:  5'- cGCgACGCa---CUCGACGAaaccguucGCGUCCGg -3'
miRNA:   3'- -UGgUGCGguagGAGCUGCU--------CGCAGGU- -5'
28017 3' -58.2 NC_005887.1 + 1867 0.66 0.484855
Target:  5'- gUCGCGCCAcgCCUCGuaauCGAGCucGUCg- -3'
miRNA:   3'- uGGUGCGGUa-GGAGCu---GCUCG--CAGgu -5'
28017 3' -58.2 NC_005887.1 + 41288 0.66 0.484855
Target:  5'- -gCACGCgGUCCuUCGACu-GCGUCUu -3'
miRNA:   3'- ugGUGCGgUAGG-AGCUGcuCGCAGGu -5'
28017 3' -58.2 NC_005887.1 + 12814 0.66 0.484855
Target:  5'- uGCCAgGCCGUCgCgcgCGACGuGCuGUUCu -3'
miRNA:   3'- -UGGUgCGGUAG-Ga--GCUGCuCG-CAGGu -5'
28017 3' -58.2 NC_005887.1 + 40468 0.66 0.492014
Target:  5'- cUCGgGCUucguuUCCUCGGCGAGCacauagaaccagugGUCCGa -3'
miRNA:   3'- uGGUgCGGu----AGGAGCUGCUCG--------------CAGGU- -5'
28017 3' -58.2 NC_005887.1 + 37457 0.66 0.505439
Target:  5'- cUCGCGCCGgcCCUCGGCGAccauCGUCgCGa -3'
miRNA:   3'- uGGUGCGGUa-GGAGCUGCUc---GCAG-GU- -5'
28017 3' -58.2 NC_005887.1 + 8437 0.66 0.464679
Target:  5'- cGCCGCaGCgAUCCgcgucaacgCGAuCGAGCGcCCGg -3'
miRNA:   3'- -UGGUG-CGgUAGGa--------GCU-GCUCGCaGGU- -5'
28017 3' -58.2 NC_005887.1 + 24612 0.66 0.474713
Target:  5'- aGCCGCGCgG-CCgUGcCGAGCGUCUu -3'
miRNA:   3'- -UGGUGCGgUaGGaGCuGCUCGCAGGu -5'
28017 3' -58.2 NC_005887.1 + 39886 0.66 0.474713
Target:  5'- uCCGCGUCAgcgCCUCGuCGAcgGCG-CCGu -3'
miRNA:   3'- uGGUGCGGUa--GGAGCuGCU--CGCaGGU- -5'
28017 3' -58.2 NC_005887.1 + 24576 0.67 0.425698
Target:  5'- aGCCACGaCCggaaGUCCuUCGAacCGGGCG-CCAu -3'
miRNA:   3'- -UGGUGC-GG----UAGG-AGCU--GCUCGCaGGU- -5'
28017 3' -58.2 NC_005887.1 + 16855 0.67 0.454757
Target:  5'- cGCCGCGCCAUCgUC--CGAGcCG-CCGc -3'
miRNA:   3'- -UGGUGCGGUAGgAGcuGCUC-GCaGGU- -5'
28017 3' -58.2 NC_005887.1 + 19573 0.67 0.442031
Target:  5'- gGCCGCGCCggCgUCGAgccaaCGAGCacguuguagccgucGUCCGa -3'
miRNA:   3'- -UGGUGCGGuaGgAGCU-----GCUCG--------------CAGGU- -5'
28017 3' -58.2 NC_005887.1 + 15261 0.67 0.416261
Target:  5'- aGCCGCaGUg--CUgcgCGGCGAGCGUCCGc -3'
miRNA:   3'- -UGGUG-CGguaGGa--GCUGCUCGCAGGU- -5'
28017 3' -58.2 NC_005887.1 + 31276 0.67 0.425698
Target:  5'- gGCCGCGUCGaucgCCUCGuCGAGCucgaCCGg -3'
miRNA:   3'- -UGGUGCGGUa---GGAGCuGCUCGca--GGU- -5'
28017 3' -58.2 NC_005887.1 + 27657 0.67 0.435263
Target:  5'- gGCC-CGCCcgCCgCGACGAGC--CCGa -3'
miRNA:   3'- -UGGuGCGGuaGGaGCUGCUCGcaGGU- -5'
28017 3' -58.2 NC_005887.1 + 38048 0.67 0.435263
Target:  5'- -gCugGCCggCCUCGGCGAGgaUGUCg- -3'
miRNA:   3'- ugGugCGGuaGGAGCUGCUC--GCAGgu -5'
28017 3' -58.2 NC_005887.1 + 19207 0.68 0.353934
Target:  5'- gGCgGCGCgGUUa-CGACGAGCGUCg- -3'
miRNA:   3'- -UGgUGCGgUAGgaGCUGCUCGCAGgu -5'
28017 3' -58.2 NC_005887.1 + 35062 0.68 0.388731
Target:  5'- gUCGCuGCCGUCgUCGGCGGGCGcgacUUCGa -3'
miRNA:   3'- uGGUG-CGGUAGgAGCUGCUCGC----AGGU- -5'
28017 3' -58.2 NC_005887.1 + 34627 0.68 0.353934
Target:  5'- aGCCAuuCGCCGUUCgcgUCGACGAGgCGcgCCGg -3'
miRNA:   3'- -UGGU--GCGGUAGG---AGCUGCUC-GCa-GGU- -5'
28017 3' -58.2 NC_005887.1 + 27346 0.68 0.379824
Target:  5'- cGCCACGCgCAgcggCgCgcaGACGAGCGUCg- -3'
miRNA:   3'- -UGGUGCG-GUa---G-Gag-CUGCUCGCAGgu -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.